# HG changeset patch
# User devteam
# Date 1434054916 14400
# Node ID e3fe061597acc50993ad4322acc7640a07934c99

planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/hisat commit 5a7365750648c26206f05ac7956936c243c2b980

diff -r 000000000000 -r e3fe061597ac hisat.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/hisat.xml	Thu Jun 11 16:35:16 2015 -0400
@@ -0,0 +1,354 @@
+<tool id="hisat" name="HISAT" version="1.0.1">
+    <description>spliced aligner</description>
+    <macros>
+        <import>hisat_macros.xml</import>
+    </macros>
+    <requirements>
+        <requirement type="package" version="0.1.6">hisat</requirement>
+        <requirement type="package" version="1.2">samtools</requirement>
+    </requirements>
+    <stdio>
+        <exit_code range="1:" />
+    </stdio>
+    <version_command>hisat --version</version_command>
+    <command><![CDATA[
+        #if str($spliced_options.spliced_options_selector) == "advanced" and str($spliced_options.known_splice_gff) != 'None':
+            ln -s "${spliced_options.known_splice_gff}" splice_sites.gff &&
+            extract_splice_sites.py splice_sites.gff > splice_sites.txt &&
+        #end if
+        #if $reference_genome.reference_genome_source == "history":
+            ln -s "$reference_genome.history_item" genome.fa &&
+            hisat-build genome.fa genome && 
+            #set index_path = 'genome'
+        #else:
+            #set index_path = $reference_genome.index.fields.path
+        #end if
+        hisat -p \${GALAXY_SLOTS:-1} -x "${index_path}"
+        #if str($input_format.paired.paired_selector) == 'paired':
+            -1 "${reads_f}" -2 "${reads_r}"
+        #else if str($input_format.paired.paired_selector) == 'paired_collection':
+            -1 "${input_format.paired.reads.forward}" -2 "${input_format.paired.reads.reverse}"
+        #else if str($input_format.paired.paired_selector) == 'paired_list':
+            #set forward_reads = []
+            #set reverse_reads = []
+            #for read in $input_format.paired.reads:
+                $forward_reads.append($read.forward)
+                $reverse_reads.append($read.reverse)
+            #end for
+            -1 "${','.join([str($read) for read in $forward_reads])}"
+            -2 "${','.join([str($read) for read in $reverse_reads])}"
+        #else:
+            -U "${reads}"
+        #end if
+        #if $input_format.input_format_selector == 'fasta':
+            -f
+        #end if
+        #if str($input_options.input_options_selector) == "advanced":
+            -s ${input_options.skip} -u ${input_options.stop_after} -5 ${input_options.trim_five} -3 ${input_options.trim_three}
+        #end if
+        #if str($scoring_options.scoring_options_selector) == "advanced":
+            --ma ${scoring_options.match_bonus} --mp ${scoring_options.max_mismatch},${scoring_options.min_mismatch}
+            --np ${scoring_options.ambiguous_penalty} --rdg ${scoring_options.read_open_penalty},${scoring_options.read_extend_penalty}
+            --rfg ${scoring_options.ref_open_penalty},${scoring_options.ref_extend_penalty}
+        #end if
+        #if str($alignment_options.alignment_options_selector) == "advanced":
+            --n-ceil ${alignment_options.function_type},${alignment_options.constant_term},${alignment_options.coefficient_term}
+            ${alignment_options.skip_forward} ${alignment_options.skip_reverse}
+        #end if
+        #if str($spliced_options.spliced_options_selector) == "advanced":
+            --pen-cansplice ${spliced_options.canonical_penalty} --pen-noncansplice ${spliced_options.noncanonical_penalty}
+            --pen-intronlen ${spliced_options.function_type},${spliced_options.constant_term},${spliced_options.coefficient_term}
+            #if str($spliced_options.known_splice_gff) != 'None':
+                --known-splicesite-infile splice_sites.txt
+            #end if
+        #end if
+        | samtools view -bS - | samtools sort - -o hsbam > "${output_alignments}"
+    ]]></command>
+    <inputs>
+        <conditional name="input_format">
+            <param name="input_format_selector" label="Input data format" type="select">
+                <option value="fastq" selected="selected">FASTQ</option>
+                <option value="fasta">FASTA</option>
+            </param>
+            <when value="fasta">
+                <conditional name="paired">
+                    <expand macro="single_paired_selector" />
+                    <when value="paired_collection">
+                        <param format="fasta" name="reads" type="data_collection" collection_type="paired" label="Paired reads" />
+                    </when>
+                    <when value="paired_list">
+                        <param format="fasta" name="reads" type="data_collection" collection_type="list:paired" label="Paired reads" />
+                    </when>
+                    <when value="paired">
+                        <param label="Forward reads" type="data" name="reads_f" multiple="true" format="fasta" />
+                        <param label="Reverse reads" type="data" name="reads_r" multiple="true" format="fasta" />
+                    </when>
+                    <when value="single">
+                        <param label="Reads" type="data" name="reads" multiple="true" format="fasta" />
+                    </when>
+                </conditional>
+            </when>
+            <when value="fastq">
+                <conditional name="paired">
+                    <expand macro="single_paired_selector" />
+                    <when value="paired_collection">
+                        <param format="fastq,fastqsanger,fastqsolexa" name="reads" type="data_collection" collection_type="paired" label="Paired reads" />
+                    </when>
+                    <when value="paired_list">
+                        <param format="fastq,fastqsanger,fastqsolexa" name="reads" type="data_collection" collection_type="list:paired" label="Paired reads" />
+                    </when>
+                    <when value="paired">
+                        <param label="Forward reads" type="data" name="reads_f" multiple="true" format="fastq,fastqsanger,fastqsolexa" />
+                        <param label="Reverse reads" type="data" name="reads_r" multiple="true" format="fastq,fastqsanger,fastqsolexa" />
+                    </when>
+                    <when value="single">
+                        <param label="Reads" type="data" name="reads" multiple="true" format="fastq,fastqsanger,fastqsolexa" />
+                    </when>
+                </conditional>
+            </when>
+        </conditional>
+        <conditional name="reference_genome">
+            <param name="reference_genome_source" type="select" label="Source for the reference genome to align against" help="Built-in references were created using default options">
+                <option value="indexed" selected="True">Use a built-in genome</option>
+                <option value="history">Use a genome from history</option>
+            </param>
+            <when value="indexed">
+                <param name="index" type="select" label="Select a reference genome" help="If your genome of interest is not listed, contact the Galaxy team">
+                    <options from_data_table="hisat_indexes">
+                        <filter type="sort_by" column="2"/>
+                        <validator type="no_options" message="No genomes are available for the selected input dataset"/>
+                    </options>
+                </param>
+            </when>
+            <when value="history">
+                <param name="history_item" type="data" format="fasta" metadata_name="dbkey" label="Select the reference genome" />
+            </when>
+        </conditional>
+        <conditional name="alignment_options">
+            <param label="Alignment options" name="alignment_options_selector" type="select">
+                <option value="defaults">Use default values</option>
+                <option value="advanced">Specify alignment parameters</option>
+            </param>
+            <when value="defaults" />
+            <when value="advanced">
+                <expand macro="function">
+                    <label>Sets a function governing the maximum number of ambiguous characters</label>
+                </expand>
+                <param name="ignore_quals" label="Ignore quality values" type="boolean" truevalue="--ignore-quals" falsevalue="" help="(--ignore-quals) When calculating a mismatch penalty, always consider the quality value at the mismatched position to be the highest possible, regardless of the actual value. I.e. input is treated as though all quality values are high. This is also the default behavior when the input doesn't specify quality values." />
+                <param name="skip_forward" label="Skip forward strand of reference" type="boolean" truevalue="--nofw" falsevalue="" help="(--nofw) If --nofw is specified, hisat will not attempt to align unpaired reads to the forward (Watson) reference strand. In paired-end mode, --nofw and --norc pertain to the fragments; i.e. specifying --nofw causes hisat to explore only those paired-end configurations corresponding to fragments from the reverse-complement (Crick) strand." />
+                <param name="skip_reverse" label="Skip reference strand of reference" type="boolean" truevalue="--norc" falsevalue="" help="(--norc) If --norc is specified, hisat will not attempt to align unpaired reads against the reverse-complement (Crick) reference strand. In paired-end mode, --nofw and --norc pertain to the fragments; i.e. specifying --nofw causes hisat to explore only those paired-end configurations corresponding to fragments from the reverse-complement (Crick) strand." />
+            </when>
+        </conditional>
+        <conditional name="input_options">
+            <param label="Input options" name="input_options_selector" type="select">
+                <option value="defaults">Use default values</option>
+                <option value="advanced">Specify input parameters</option>
+            </param>
+            <when value="defaults" />
+            <when value="advanced">
+                <param name="skip" label="Skip the first N reads or pairs in the input" help="-s" type="integer" value="0" default="0" />
+                <param name="stop_after" label="Stop after aligning N reads" help="(-u) Align the first N reads or read pairs from the input (after the first N reads or pairs have been skipped), then stop." type="integer" value="0" default="0" />
+                <param name="trim_five" label="Trim 5' end" help="(-5) Trim N bases from 5' (left) end of each read before alignment" type="integer" value="0" default="0" />
+                <param name="trim_three" label="Trim 3' end" help="(-3) Trim N bases from 3' (right) end of each read before alignment" type="integer" value="0" default="0" />
+            </when>
+        </conditional>
+        <conditional name="scoring_options">
+            <param label="Scoring options" name="scoring_options_selector" type="select">
+                <option value="defaults">Use default values</option>
+                <option value="advanced">Specify scoring parameters</option>
+            </param>
+            <when value="defaults" />
+            <when value="advanced">
+                <param name="match_bonus" label="Set match bonus" help="(--ma) In local mode N is added to the alignment score for each position where a read character aligns to a reference character and the characters match. Not used in end-to-end mode" type="integer" value="2" default="2" />
+                <param name="max_mismatch" label="Maximum mismatch penalty" help="(--mp) Sets the maximum mismatch penalty. A number less than or equal to MX and greater than or equal to MN is subtracted from the alignment score for each position where a read character aligns to a reference character, the characters do not match, and neither is an N. If --ignore-quals is specified, the number subtracted quals MX. Otherwise, the number subtracted is MN + floor( (MX-MN)(MIN(Q, 40.0)/40.0) ) where Q is the Phred quality value." type="integer" value="6" default="6" />
+                <param name="min_mismatch" label="Minimum mismatch penalty" help="(--mp) Sets the minimum mismatch penalty. A number less than or equal to MX and greater than or equal to MN is subtracted from the alignment score for each position where a read character aligns to a reference character, the characters do not match, and neither is an N. If --ignore-quals is specified, the number subtracted quals MX. Otherwise, the number subtracted is MN + floor( (MX-MN)(MIN(Q, 40.0)/40.0) ) where Q is the Phred quality value." type="integer" value="2" default="2" />
+                <param name="ambiguous_penalty" label="Ambiguous read penalty" help="(--np) Sets penalty for positions where the read, reference, or both, contain an ambiguous character such as N" type="integer" value="1" default="1" />
+                <param name="read_open_penalty" label="Read gap open penalty." type="integer" help="(--rdg) A read gap of length N gets a penalty of [open_penalty] + N * [extend_penalty]" value="5" default="5" />
+                <param name="read_extend_penalty" label="Read gap extend penalty." type="integer" help="(--rdg) A read gap of length N gets a penalty of [open_penalty] + N * [extend_penalty]" value="3" default="3" />
+                <param name="ref_open_penalty" label="Reference gap open penalty." help="(--rfg) A reference gap of length N gets a penalty of [open_penalty] + N * [extend_penalty]" type="integer" value="5" default="5" />
+                <param name="ref_extend_penalty" label="Reference gap extend penalty." help="(--rfg) A reference gap of length N gets a penalty of [open_penalty] + N * [extend_penalty]" type="integer" value="3" default="3" />
+            </when>
+        </conditional>
+        <conditional name="spliced_options">
+            <param label="Spliced alignment parameters" name="spliced_options_selector" type="select">
+                <option value="defaults">Use default values</option>
+                <option value="advanced">Specify spliced alignment parameters</option>
+            </param>
+            <when value="defaults" />
+            <when value="advanced">
+                <param name="canonical_penalty" label="Penalty for canonical splice sites" type="integer" value="0" />
+                <param name="noncanonical_penalty" label="Penalty for non-canonical splice sites" type="integer" value="3" />
+                <expand macro="function">
+                    <label>Sets the penalty for long introns so that alignments with shorter introns are preferred to those with longer ones.</label>
+                </expand>
+                <param name="min_intron" label="Minimum intron length" type="integer" value="20" />
+                <param name="max_intron" label="Maximum intron length" type="integer" value="500000" />
+                <param name="known_splice_gff" label="GTF/GFF file with known splice sites" type="data" format="gff" optional="True" />
+            </when>
+        </conditional>
+    </inputs>
+    <tests>
+        <test>
+            <param name="input_format_selector" value="fastq" />
+            <param name="paired_selector" value="paired" />
+            <param name="reference_genome_source" value="history" />
+            <param name="history_item" value="phiX.fa" ftype="fasta" />
+            <param name="reads_f" ftype="fastqsanger" value="hisat_input_1_forward.fastq" /> 
+            <param name="reads_r" ftype="fastqsanger" value="hisat_input_1_reverse.fastq" /> 
+            <output name="output_alignments" ftype="bam" file="hisat_output_1.bam" />
+        </test>
+        <test>
+            <param name="input_format_selector" value="fastq" />
+            <param name="paired_selector" value="paired" />
+            <param name="reference_genome_source" value="history" />
+            <param name="history_item" value="phiX.fa" ftype="fasta" />
+            <param name="input_options_selector" value="advanced" />
+            <param name="trim_three" value="15" />
+            <param name="trim_five" value="15" />
+            <param name="reads_f" ftype="fastqsanger" value="hisat_input_2_forward.fastq" /> 
+            <param name="reads_r" ftype="fastqsanger" value="hisat_input_2_reverse.fastq" /> 
+            <output name="output_alignments" ftype="bam" file="hisat_output_2.bam" />
+        </test>
+    </tests>
+    <outputs>
+        <data name="output_alignments" format="bam" />
+    </outputs>
+    <help><![CDATA[
+Introduction
+============
+
+What is HISAT?
+--------------
+
+`HISAT <http://ccb.jhu.edu/software/hisat>`__ is a fast and sensitive
+spliced alignment program. As part of HISAT, we have developed a new
+indexing scheme based on the Burrows-Wheeler transform
+(`BWT <http://en.wikipedia.org/wiki/Burrows-Wheeler_transform>`__) and
+the `FM index <http://en.wikipedia.org/wiki/FM-index>`__, called
+hierarchical indexing, that employs two types of indexes: (1) one global
+FM index representing the whole genome, and (2) many separate local FM
+indexes for small regions collectively covering the genome. Our
+hierarchical index for the human genome (about 3 billion bp) includes
+~48,000 local FM indexes, each representing a genomic region of
+~64,000bp. As the basis for non-gapped alignment, the FM index is
+extremely fast with a low memory footprint, as demonstrated by
+`Bowtie <http://bowtie-bio.sf.net>`__. In addition, HISAT provides
+several alignment strategies specifically designed for mapping different
+types of RNA-seq reads. All these together, HISAT enables extremely fast
+and sensitive alignment of reads, in particular those spanning two exons
+or more. As a result, HISAT is much faster >50 times than
+`TopHat2 <http://ccb.jhu.edu/software/tophat>`__ with better alignment
+quality. Although it uses a large number of indexes, the memory
+requirement of HISAT is still modest, approximately 4.3 GB for human.
+HISAT uses the `Bowtie2 <http://bowtie-bio.sf.net/bowtie2>`__
+implementation to handle most of the operations on the FM index. In
+addition to spliced alignment, HISAT handles reads involving indels and
+supports a paired-end alignment mode. Multiple processors can be used
+simultaneously to achieve greater alignment speed. HISAT outputs
+alignments in `SAM <http://samtools.sourceforge.net/SAM1.pdf>`__ format,
+enabling interoperation with a large number of other tools (e.g.
+`SAMtools <http://samtools.sourceforge.net>`__,
+`GATK <http://www.broadinstitute.org/gsa/wiki/index.php/The_Genome_Analysis_Toolkit>`__)
+that use SAM. HISAT is distributed under the `GPLv3
+license <http://www.gnu.org/licenses/gpl-3.0.html>`__, and it runs on
+the command line under Linux, Mac OS X and Windows.
+
+Running HISAT
+=============
+
+Reporting
+---------
+
+The reporting mode governs how many alignments HISAT looks for, and how
+to report them.
+
+In general, when we say that a read has an alignment, we mean that it
+has a `valid
+alignment <#valid-alignments-meet-or-exceed-the-minimum-score-threshold>`__.
+When we say that a read has multiple alignments, we mean that it has
+multiple alignments that are valid and distinct from one another.
+
+Distinct alignments map a read to different places
+~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+
+Two alignments for the same individual read are "distinct" if they map
+the same read to different places. Specifically, we say that two
+alignments are distinct if there are no alignment positions where a
+particular read offset is aligned opposite a particular reference offset
+in both alignments with the same orientation. E.g. if the first
+alignment is in the forward orientation and aligns the read character at
+read offset 10 to the reference character at chromosome 3, offset
+3,445,245, and the second alignment is also in the forward orientation
+and also aligns the read character at read offset 10 to the reference
+character at chromosome 3, offset 3,445,245, they are not distinct
+alignments.
+
+Two alignments for the same pair are distinct if either the mate 1s in
+the two paired-end alignments are distinct or the mate 2s in the two
+alignments are distinct or both.
+
+Default mode: search for one or more alignments, report each
+~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+
+HISAT searches for up to N distinct, primary alignments for each read,
+where N equals the integer specified with the ``-k`` parameter. Primary
+alignments mean alignments whose alignment score is equal or higher than
+any other alignments. It is possible that multiple distinct alignments
+whave the same score. That is, if ``-k 2`` is specified, HISAT will
+search for at most 2 distinct alignments. The alignment score for a
+paired-end alignment equals the sum of the alignment scores of the
+individual mates. Each reported read or pair alignment beyond the first
+has the SAM 'secondary' bit (which equals 256) set in its FLAGS field.
+See the `SAM specification <http://samtools.sourceforge.net/SAM1.pdf>`__
+for details.
+
+HISAT does not "find" alignments in any specific order, so for reads
+that have more than N distinct, valid alignments, HISAT does not
+gaurantee that the N alignments reported are the best possible in terms
+of alignment score. Still, this mode can be effective and fast in
+situations where the user cares more about whether a read aligns (or
+aligns a certain number of times) than where exactly it originated.
+
+Alignment summmary
+------------------
+
+When HISAT finishes running, it prints messages summarizing what
+happened. These messages are printed to the "standard error" ("stderr")
+filehandle. For datasets consisting of unpaired reads, the summary might
+look like this:
+
+::
+
+    20000 reads; of these:
+      20000 (100.00%) were unpaired; of these:
+        1247 (6.24%) aligned 0 times
+        18739 (93.69%) aligned exactly 1 time
+        14 (0.07%) aligned >1 times
+    93.77% overall alignment rate
+
+For datasets consisting of pairs, the summary might look like this:
+
+::
+
+    10000 reads; of these:
+      10000 (100.00%) were paired; of these:
+        650 (6.50%) aligned concordantly 0 times
+        8823 (88.23%) aligned concordantly exactly 1 time
+        527 (5.27%) aligned concordantly >1 times
+        ----
+        650 pairs aligned concordantly 0 times; of these:
+          34 (5.23%) aligned discordantly 1 time
+        ----
+        616 pairs aligned 0 times concordantly or discordantly; of these:
+          1232 mates make up the pairs; of these:
+            660 (53.57%) aligned 0 times
+            571 (46.35%) aligned exactly 1 time
+            1 (0.08%) aligned >1 times
+    96.70% overall alignment rate
+
+The indentation indicates how subtotals relate to totals.
+        ]]></help>
+    <citations>
+        <citation type="doi">10.1038/nmeth.3317</citation>
+    </citations>
+</tool>
\ No newline at end of file
diff -r 000000000000 -r e3fe061597ac hisat_macros.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/hisat_macros.xml	Thu Jun 11 16:35:16 2015 -0400
@@ -0,0 +1,22 @@
+<?xml version="1.0"?>
+<macros>
+    <xml name="function">
+        <param type="select" label="Function type" name="function_type" display="radio">
+            <yield />
+            <option value="C">Constant</option>
+            <option value="L">Linear [f(x) = y + z * x]</option>
+            <option value="S">Square root [f(x) = y + z * x²]</option>
+            <option value="G">Natural logarithm [f(x) = y + z * log(x)]</option>
+        </param>
+        <param type="integer" label="Constant term (y)" name="constant_term" value="0" />
+        <param type="integer" label="Coefficient (z)" name="coefficient_term" value="0" />
+    </xml>
+    <xml name="single_paired_selector">
+        <param label="Single end or paired reads?" name="paired_selector" type="select">
+            <option value="paired_collection">Single collection of paired reads</option>
+            <option value="paired_list">List of paired reads</option>
+            <option value="paired">Reads are paired</option>
+            <option value="single">Reads are unpaired</option>
+        </param>
+    </xml>
+</macros>
\ No newline at end of file
diff -r 000000000000 -r e3fe061597ac test-data/hisat_input_1_forward.fastq
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/hisat_input_1_forward.fastq	Thu Jun 11 16:35:16 2015 -0400
@@ -0,0 +1,40 @@
+@phiX174_1980_2501_0:1:0_3:0:0_0/1
+TTAGGTGTGTGTAAAACAGGTGCCGAAGAAGCTGGATTAACAGAATTGAGAACCAGCTTATCAGAAAAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1542_1965_0:0:0_0:0:0_1/1
+CTCGCCAAATGACGACTTCTACCACATCTATTGACATTATGGGTCTGCAAGCTGCTTATGCTAATTTGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2950_3377_0:0:0_2:0:0_2/1
+CTCAAATCCGGCGTCAACCATACCAGCATAGGAAGCATCAGCACCAGCACGCTCCCAAGCATTAATCTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2259_2739_1:0:0_1:0:0_3/1
+CTCGCGATTCAATCATGACTTCGTGATAAAAGATTGAGTGTGAGGTTATAACGCCGAAGCGGTAAAAAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1141_1609_1:0:0_1:0:0_4/1
+TGGCGCTCTCCGTCTTTCTCCATTTCGTCGTGGCCTTGCTATTGACTCTACTGTAGACATTTTTACTTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_185_708_0:0:0_1:0:0_5/1
+CCTTTCGCCATCAACTAACGATTCTGTCAAAAACTGACGCGTTGGATGAGGAGAAGTGGCTTAATATGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1363_1914_3:0:0_0:0:0_6/1
+GCGTTAAGGTACTGAATCTCTTTAGTCGCAGTAGGCGGAAAACGAACAAGCGCAAGAGTAAACATAGTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3199_3732_0:0:0_1:0:0_7/1
+CTGGCACTTCTGCCGTTTCTGATAAGTTGCTTGATTTGGTTGGACTTGGTGGCAAGTCTGCCGCTGATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_36_572_1:0:0_0:0:0_8/1
+ACCATAAACGCAAGCCTCAACGCAGCGACGAGCACGAGAGCGGTCAGTAGCAATCCAAACTTTGTTACTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2128_2577_0:0:0_4:0:0_9/1
+TTCTGGTGATTTGCAAGAACGCGTACTTATTCGCCACCATGATTATGACCAGTGTTTCCAGTCCGTTCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
diff -r 000000000000 -r e3fe061597ac test-data/hisat_input_1_reverse.fastq
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/hisat_input_1_reverse.fastq	Thu Jun 11 16:35:16 2015 -0400
@@ -0,0 +1,40 @@
+@phiX174_1980_2501_0:1:0_3:0:0_0/2
+GTGAAATTTCTAGGAAGGATGTTTTCCGTTCTGGTGATTCGTCTAAGAAGTTTAAGATTGCTGAGGGTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1542_1965_0:0:0_0:0:0_1/2
+CCATACAAAACAGGGTCGCCAGCAATATCGGTATAAGTCAAAGCACCTTTAGCGTTAAGGTACTGAATCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2950_3377_0:0:0_2:0:0_2/2
+GCGGTATTGCTTCTGCTCTTGCTGGTGGCGCCATGTCTAAATTGTTTGGAGGCGGTCAAAAAGCCGCCTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2259_2739_1:0:0_1:0:0_3/2
+GCGACCATTCAAAGGATAAACATCATAGGCAGTCGGGAGGGTAGTCGGAACCGACGAAGACTCAAAGCGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1141_1609_1:0:0_1:0:0_4/2
+CAAATTAGCATAAGCAGCTTGCAGACCCATAATGTCAATAGATGTGGTAGAAGTCGTCATTTGGCTAGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_185_708_0:0:0_1:0:0_5/2
+TGTTTTCCGTAAATTCAGCGCCTTCCATGATGCGACAGGCCGTTTGAATGTTGACGGGATGAACATAATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1363_1914_3:0:0_0:0:0_6/2
+TAAGCATTTGTTTCAGGGTTATTTGAATATCTATAACAACTATTTTCAAGCGCCGAGGATGCGTGACCGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3199_3732_0:0:0_1:0:0_7/2
+TCTGCGTTTGCTGATGAACTAAGTCAACCTCAGCACTAACCTTGCGAGTCATTTCATTGATTTGGTCATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_36_572_1:0:0_0:0:0_8/2
+TTTCGGATATTTCTGATGAGTCGAAAAATTATCTTGATAAAGCAGTAATTACTACTGCTTGTTTACGAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2128_2577_0:0:0_4:0:0_9/2
+CTGAATGGAATTAAGAAAACCACCAATACCAGCATTAACCTTCAAACTATCAAAATATAACGTTGACGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
diff -r 000000000000 -r e3fe061597ac test-data/hisat_input_2_forward.fastq
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/hisat_input_2_forward.fastq	Thu Jun 11 16:35:16 2015 -0400
@@ -0,0 +1,2000 @@
+@phiX174_4023_4544_0:0:0_0:0:0_0/1
+TTTGACTTTGAGCGTATCGAGGCTCTTAAACCTGCTATTGAGGCTTGTGGCATTTCTACTCTTTCTCAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_927_1458_2:0:0_2:0:0_1/1
+TTAAGCTCATTAGGGTTAGCCTCGGTACGGTCAGGCATCCACGGCTCATTAAAATAGTTGTTATAGATAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2195_2674_0:0:0_4:0:0_2/1
+AGCGAACCAAACAGGCAAAAACTTTAGGGTCGGCATCAAAAGCAATATCAGCACCCACAGAACCAACCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4438_4887_3:0:0_0:0:0_3/1
+ATTACCCCAACCAGAAAGGTATTAAGGATGAGTGTTCAAGATTGCTGGAGGCCACCACTATGAAATCGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4418_4896_1:0:0_1:0:0_4/1
+GGATATTCGCGATGAGTATAATTACCCCAAAAAGAAAGGTATTAAGGATGAGAGTTCAAGATTGCTGGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1459_1934_0:0:0_1:0:0_5/1
+TCAAGATGATGCTCGTTATGGTTTCCGTTGCTGCCATCTCAAAAACATTTGGACTGCTCCGCTTCCTCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2580_3121_1:0:0_1:0:0_6/1
+GGATACATCTGTCAACGCCGCTAATCAGGTTGTTACTGTTGGTGCTGATATTGCTTTTGATGCCGACCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_268_822_1:0:0_2:0:0_7/1
+TTTGACGCACGTTTTCTTCTGCGTCAGTCAGAACGTCAGTGTTTCCTGGGCGTACACGCAAGGTAAACGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4373_4951_0:0:0_2:0:0_8/1
+GGTTACGCAGTTTTGCCGCAAGCTGGCTGCTGAACGCCCTCTTAAGGATATTCGCGATGAGTATAATTAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4817_5237_1:0:0_1:0:0_9/1
+GTTGAACGGCGTCGCGTCGTAACCCAGCTTGGTAAGTTGGATTAATCACTCCGTGGACAGATTTGTCATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_498_1078_5:0:0_0:0:0_a/1
+CTGAGGAGTAACAAAGTTTGGATTGCTACTGACCGCTCACGTGCTCGTGGCAGCGTTGAGTCTTGCGTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4746_5200_3:0:0_0:0:0_b/1
+TGGATTAAGCACTCCGTGGACAGATTTGTCATTGTGAGCATTTTCATCCCGAAGTTGCGGCTCATTCTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4746_5155_3:0:0_0:0:0_c/1
+ATCCCGAAGTTGCGGCTCATTCTGATTCTGAACAGCTTCTTGGGAAGTAGCGACAGCTTGGTTTTTAGTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2025_2501_0:0:0_0:1:0_d/1
+AGAAGTTTAAGATTGCTGAGGGTCAGTGGTATCGTTATGCGCCTTCGTATGTTTCTCCTGCTTATCACCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2574_3097_1:0:0_2:0:0_e/1
+ATGGCAGATTTAATACCAGCATCCCCCATGCCTACAGTATTGTTCTCGGTAGCAAGCACATCACCTTGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1432_1904_0:0:0_0:0:0_f/1
+TACCGAGGCTAACCCTAATGAGCTTAATCAAGATGATGCTCGTTATGGTTTCCGTTGCTGCCATCTCAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_79_485_2:0:0_2:0:0_10/1
+ATCTTCGTTTAAATCCAAAACGGCAGAAGCCTGAATGAGCTTAATAGAGGCCACAGCGGTCTGGAAACGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_696_1131_1:0:0_0:0:0_11/1
+ATCTCGAAGGAGTCGCCAGCGATAACCGGAGTAGTTGAAATGGTAATAAGACGACCAATCTGACCAGCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1085_1572_3:0:0_1:0:0_12/1
+ATTACCATTTCACCTACTCCGGTTATCGCTGGCGCCTCCTTCGATATGGACGCCGTTGGCGCTCTCCGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2384_2869_1:0:0_2:0:0_13/1
+GGAGTTTAATCATTTTTCAGACTTTTATTTCTCGCCATAATTCAAACTTTTTTTCTGATAAGCTGGTTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_794_1377_1:1:0_1:0:0_14/1
+TGAAACAACTGCTTAGGGATTTTATTGGTATCAGGGTTAATCGTGCCAAGAAAAGCGGCATGGTCAATAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1015_1593_1:0:0_2:0:0_15/1
+AACTGGCTCCGAGCGTATGCCGCATGACCTTTCCCATCTTGGCTTCCTTGCTGGTCAGATTGGTCGTCTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_182_623_0:0:0_1:0:0_16/1
+AATAAACTCAACAGGAGCAGGAAAGCGAGGGTATCCCACAAAGTCCAGGGTACCATAAACGCAAGCCTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_996_1455_1:0:0_1:0:0_17/1
+AGCTCATTAGGGTTAGCCTCGGTACGGTCAGGCATCCACGGCGCTTTAAAAAAGTTGTTATAGATATTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_277_813_0:0:0_1:0:0_18/1
+CGTTTTCTTCTGCGTCAGTAAGAACGTCAGTGTATCCTGCGCGTACACGCAAGGTAAACGCGAACAATTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1822_2393_2:0:0_0:0:0_19/1
+ATTAAACTCCTAAGCAGAAAACCTACCGCGCTTCGCTTGGTCAACCCCTCAGCGGCAAAAATTAAAATTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1839_2382_1:0:0_1:0:0_1a/1
+AAGCAGAAACCCTACCGCGCTTCGCTTGGTCAACCCCTCAGCGGCAAAAATTAAAATTTTTACCGCTTCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1140_1596_3:0:0_3:0:0_1b/1
+GCAGGTTGCAGACCCATAATGTCAATAGATGTGGTAGAAGTCGTCATTTGGCGAGAAAGCTCAGACTGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1449_1972_1:0:0_1:0:0_1c/1
+CAAGTTGCCATACAAAACAGGGTCGCCAGCAATATCGGTATAAGTCAAAGCACCTTTAGCGTTAAGGTAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_99_645_0:0:0_2:0:0_1d/1
+CATAATAAGCAATGACGGCAGCAATACACTCCACAGGAGCAGGAAAGCGAGGGTATCCCACAAAGTCCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_17_543_2:0:0_2:0:0_1e/1
+GAGCACGAGCGCGGACAGTAGCAATCCAAACTTTGTTACTCGTCAGAAAATCGAAATCATCTTCGGTTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4185_4721_0:1:0_1:0:0_1f/1
+AATGGTGATATGTATGTTGACGGCCATAAGGCTGCTTCTGACGTTCGTGATTAGTTTGTATCTGTTACTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3543_4018_1:0:0_2:0:0_20/1
+GAGTCTACTGCTCGCGTTGCGTCTATTATGGAAAACACCAAACTTTCCAAGCAACAGCAGGTTTCCGAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1664_2152_4:0:0_2:0:0_21/1
+TCATTTGGAGGTAAAACCTCTTAAGACGCTGACAACCGTCCTTAACTTGTCATGCGCACTCATCTCTGGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3435_3911_1:0:0_0:0:0_22/1
+CAACATGAGACTCAAAAAGAGATTGCTGGCATTCAGTCGGCGACTTCACGCCAGAATACGAAAGACCAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2738_3250_0:0:0_3:0:0_23/1
+CCACCAAGTCCAACCAAATCACGCAACTTATCAGACACTGCAGAAGTGCCAGCCTGCAACGTACCTTCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_772_1314_2:0:0_2:0:0_24/1
+GCGCAGGAAACACTGACGTTCTTACTGACGCAGCAGAAAACGTGCGTCAAAAATTACGTGCAGAAGGAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4676_5213_0:0:0_1:0:0_25/1
+TGCTGCCGAGGGTCGCAAGGCTAATGATTCACACGCCGACTGCTATCAGTATTTTTGTGTGCCTGAGTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3271_3795_1:0:0_2:0:0_26/1
+GAAAGGATACTCGTTATTATCTTGCTGCTGCATTTCCTGAGCTTAATGCTTGGGAGCGTGCTGGTGCTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3137_3611_0:0:0_1:0:0_27/1
+CTCGGAAACCTGCTGTTGCTTGGAAAGATTGGTGTTTTCCATAATAGACGCCACGCGAGCAGTAGACTCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3971_4458_1:0:0_0:0:0_28/1
+TACCTTTCTTTTTGGGGTAATTATACTCATCGCGAATATCCTTAAGAGGGCGTTCAGCAGCCAGCTTGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2307_2855_1:0:0_1:0:0_29/1
+TCACGCCGAAGCGGTAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACCAAGCGAAGCGCGGTAGGTTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_568_1192_1:0:0_0:0:0_2a/1
+AGTAGAGTCAATAGCAAGGCCACGACGCAATGGAGAAAGACGGAGAGCGCCAACGGCGTCCATCTCGAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3607_4112_0:0:0_2:0:0_2b/1
+ATGGAAGCCAAGCATTGGGGATTGAGAAAGAGTAGAAATGCCACAAGCGTCAATAGCAGGTATAAGAGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2296_2767_1:0:0_0:0:0_2c/1
+CCTTGACGGTATAATAACCACCATCATGGCGACCATTCAAAGGATAAACATCATAGGCAGTCGGGAGGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1636_2263_0:0:0_1:0:0_2d/1
+CATGCAGCGTTACCGTGATGTTATTTCTTCATTTGGAGGTAAAACCTCTTATGACGCTGACAACCGTCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3319_3790_0:0:0_2:0:0_2e/1
+ACGACAATAGAAATATCCTTTGCAGTAGCGCCAATAAGAGAAGAGCCATACCGCTGATTCTGCGTTTGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1043_1520_4:0:0_1:0:0_2f/1
+GCGGAGCAGTCCAAATGTTTTTGAGATGGCAGCAACGGAAACCATAACGAGCATCATCTTGATTAATCTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4595_5067_1:0:0_1:0:0_30/1
+GGCTGACGACCGATTAGAGGCGTTTTCTGATAATCCCAATGCTTTGCGTGACTATTTTCGTGATATTGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_787_1273_0:1:0_3:0:0_31/1
+ATTAAGACCATCCTTCATGAACTTAATCCACAGTTCACCATAAACGTGACGATGAGGTACATAAAAAGTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2530_2954_5:0:0_2:0:0_32/1
+AGTATGACGGTTAATGCTGGTAATGGAGGTTTTCTTCATATCATTCAGATGGATACATCTGTCAACTCCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4131_4623_2:0:0_2:0:0_33/1
+CATAAAACGCGTCTAATCGGTCGTGAGCCAACGTGAGAGTGTCAAAAACGATAAACCAACCATCAGCATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1097_1538_1:0:0_1:0:0_34/1
+GCTCAGTCTCAGGAGGAAGCGGAGCAGTCCAAATGTTTTTGAGATGGCAGCAACGGAAACCATAACTAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1220_1777_2:0:0_0:0:0_35/1
+GATCGTCACGTTTATGGTGAACAGTGGATTAAGTTCATGAAGGATGGTGTTAATGCCACTCCTCTCGCGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1116_1546_1:0:0_3:0:0_36/1
+GGGAGAAAGCTCAGTCTCATTAGGAAGCGGAGCAGTCCAAATGTTTTTGAGATGGCAGCAACGGAAACCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1266_1732_2:0:0_1:0:0_37/1
+GTGTAAATGCCACTCCTCTCCCGCCTGTTAACACTACTGGTTATATTGACCATGCCGCTTTTCTTGGCAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2757_3237_1:0:0_1:0:0_38/1
+TACCTTCAAGGACTGTGTGACTATTGACGTCCTTCCCCGTACGCCGGGCAATAATGTTTATGTTGGTTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3501_3920_1:0:0_0:0:0_39/1
+CAGGTATATGCACAAAATGAGATGCTTGCTTATCAACAGAAGTAGTCTACTGCTCGCGTTGCGTCTATTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_30_492_1:0:0_2:0:0_3a/1
+CGAAATCAACTTCGGTTAAATCCACAACGGCAGAAGCCTGAATGAGCTTAATAGAGGCCAAAGCGGTCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2753_3287_0:0:0_1:0:0_3b/1
+ATTATACCGTCAAGGACTGTGTGACTATTGACGTCCTTCCCCGTACGCCGGGCAATAATGTTTATGTTGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3381_3868_2:0:0_1:0:0_3c/1
+CAGAAATTTTTCCAAGTATCGGCAACAGCTTTATCAATACCATGAAAAATATCAACCACACCAGAAGCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3151_3605_1:0:0_2:0:0_3d/1
+GTGCTATGGCTAAAGCTGGTAAAGGACTTCTTGAAGGTACGTTGCAGGCTGTCACTTCTGCCGTTTCTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1639_2047_1:0:0_1:0:0_3e/1
+GCAGCGTTACCGTGATGTTATTTCTTCATTTGGAGGTAAAACCTCTTATGACGCTGACAACCGTCGTTTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_925_1373_0:0:0_1:0:0_3f/1
+ACAAATGCTTAGGGATTTTATTGGTATGAGGGTTAATCGTGCCAAGAAAAGCGGCATGGTCAATATAACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3106_3747_2:0:0_0:0:0_40/1
+AGCCATACCGCTGATTCTGCGTTTGCTGATGAACTAAGTCAACCTCAGCACTAACCTTGCGAGTCATTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2717_3213_1:0:0_0:0:0_41/1
+ATGTTTATCCTTTGAATGGTCGCCATGATGGTGGTTATTATACGGTCAAGGACTGTGTGACTATTGACGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4734_5225_0:0:0_2:0:0_42/1
+GTGCCTGAGTATGGTACAGCTAATGGCCGTCTTCATTTCCATGCGGTGCATTTTATGCGGACACTTCCTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_435_938_2:0:0_2:0:0_43/1
+AAAGACGAGCGCCTTTACGCTTGCCATTAGTACCTCGCAACGGCTGCGGACTACCAGGGCGAGCGCCAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2230_2750_1:0:0_1:0:0_44/1
+CCAGCATCATGGCGACCATTCAAAGGATAAACATCATAGGCAGTCGGGAGGGTAGTCGGAACCGAAGAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2857_3359_2:0:0_4:0:0_45/1
+CATACCAGGAGAGGACGCATCAGCACCAGCACGCTCCCAAGCATTAAGCTCAGGAAATGCATGAGCAAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3261_3790_1:0:0_1:0:0_46/1
+ACGACATTAGAAATATCCTTTGCAGTAGCGCCAATATGAGAAGAGCCATACCGCTGATACTGCGTTTGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3627_4066_1:0:0_2:0:0_47/1
+GCGTCAATAGCAGGTTTAAGATCCTCGATACGCTCAAAGTCAAAATAATCAGCGTGACATTCAGAAGGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2501_2976_3:0:0_1:0:0_48/1
+CACCAGCAAGAGCAGAAGCAATACCGCCCGCAATAGCACCAAACATAAATCACCTCACTTAAGTGGCTGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1065_1576_3:0:0_0:0:0_49/1
+GTCAATAGATGTGGTAGAAGTCGTCATTTGGCGAGAAAGCTCAGTCTCAGGAGGAAGCGGAGCAGTCCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1080_1550_0:0:0_0:0:0_4a/1
+GTCTTATTACCATTTCAACTACTCCGGTTATCGCTGGCGACTCCTTCGAGATGGACGCCGTTGGCGCTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1822_2280_3:0:0_0:0:0_4b/1
+GCGTTTCTTTGTTCCTGAGCATGGCACTATGATTACTCTTGCGCTTGTTCGTTATCCGCGTACTGCGACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1170_1634_1:0:0_0:0:0_4c/1
+AGTAATCACGTTCTTGGTCAGTATGCAAATTAGCATAAGCAGCTTGCAGACCCATAATGTCAATAGATGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2237_2837_2:0:0_2:0:0_4d/1
+GTTTATCGCAATCTGCCGACCACTCGCGATTCAATCATGACTTCGTTATAAAAGATTGAGAGTGAGGTTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2745_3240_3:0:0_1:0:0_4e/1
+CAACCAAATCAAGCAACTTATCAGAAACTGCAGAAGTGCCAGCCTGCAACGTACCTTCAAGAAGTCCTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1141_1597_0:0:0_2:0:0_4f/1
+TGGCGCTCTCCGTCTTTCTCCATTGCGTCGTGGCCTTGCTATTGACTCTACTGTAGACATTTTTACTTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4456_4963_0:0:0_1:0:0_50/1
+TTAGCATCAACAGGGCACAACCAACCAGAACGTGAAAAAGCGTCCTGCGTGTAGCGAACTGCGATGGGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3482_4043_0:0:0_0:0:0_51/1
+CTCGATACGCTCAAAGTCAAAATAATCAGCGTGACATTCAGAAGGGTAATAAGAACGAACCATAAAAAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2303_2790_1:0:0_0:0:0_52/1
+AAGGACGTCAATAGTCACACAGTCCTTGACGGTATAATAACCACCATCATGGCGACCATTCAAAGGATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1662_2049_1:0:0_1:0:0_53/1
+CTTCATTTGGAGTTAAAACCTCTTATGACGCTGACAACCGTCCTTTACTTGTCATGCGCTCTAATCTCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4311_4753_2:0:0_2:0:0_54/1
+AATAACACTATAGACCACCGCCCCTAAGGGGACGAAAAATGGATTTTAGAGAACGAGAAGACGGTTACGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1415_2014_1:0:0_2:0:0_55/1
+ACCAGAACGGAAAACATCCTTCATAGAAATTTGACGCGGCGGCAAGTTTCCATACAAAACAGGGTCGCCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4647_5144_1:0:0_2:0:0_56/1
+TATTTTCGTGATATTGGTCGTATGTTTCTTGCTGCCGAGGGTCGCAAGGCTAATGATTCACACGCCGACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2230_2730_1:0:0_1:0:0_57/1
+CAAAGGATAAACATCATAGGCAGTCGGGAGGGTAGTGGGAACCGAAGAAGACTCAAAGCGAACCAAACAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3424_3922_2:0:0_2:0:0_58/1
+TTGCCGAGATGCAAAATGCGACTCAAAAAGAGATTGCTGGCATTCAGTCTGCGACTTCACGCCAGAATAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1838_2329_0:0:0_1:0:0_59/1
+AAATTTTTACCGCTTCGGCGTTATAACCTCACACTCAATCTTTTATCACGAAGTCATGATTGAATCGGGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1728_2221_1:0:0_1:0:0_5a/1
+TCTGGGCATCTGGCTATGATGTTGATGGAACAGACCAAACGTCGTTAGGCCAGTTTTCTGGTCGTGTTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4544_5065_0:0:0_0:0:0_5b/1
+CCTAGACCTTTAGCAGCAAGGTCCATATCTGACTTTTTGTTAACGTATTTAGCCACATAGAAACCAACAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1104_1583_0:0:0_0:0:0_5c/1
+CCATAATGTCAATAGATGTGGTAGAAGTCGTCATTTGGCGAGAAAGCTCAGTCTCAGGAGGAAGCGGAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3724_4250_1:0:0_1:1:0_5d/1
+AAACGCAGAATCAGCGGTATGGCTCTTCTCATATTGGCGCTACAGCAAAGGATATTTCTAATGTCGTCAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3060_3631_2:0:0_3:0:0_5e/1
+GTAAGCATTTGTCGGATCATCTCGGAAACCTGCTGTTGCTTGGAAAGATTGGTGTTTTCCATAATAGACG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4390_4869_3:0:0_3:0:0_5f/1
+GCAAGCTGGCTGCTGACCGGGCTCTTAAGGATATTCGCGATGAGTATAATTACCCCAAAAAGAAAGGTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1103_1655_2:0:0_1:0:0_60/1
+CCGGTTATCGCTGTCGACTCCTTCGAGATGGACGCCGTTGGCGCTCTCCGTCTTTCTCGATTGCGTCGTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4367_4818_0:0:0_2:0:0_61/1
+GAAGACGGTTACGCAGTTTTGCCGCAAGCTGGCTGCTGAACGCCCTCTTAAGGATATTCGCGATGAGTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3356_3831_1:0:0_0:0:0_62/1
+TACCATGAAAAATATCAACCACACCAGAAGCAGCATCAGTGACGACATTAGAAATATCCTTTGCAGTAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4839_5348_0:0:0_1:0:1_63/1
+CATAAATTGAGCAGCTTTGTCGTCACAGGTTGCGCCGCCAAAACGTCGGCTACAGTAACTTTTCCCAGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_460_981_0:0:0_3:0:0_64/1
+CTGCCGTTTTGGATTTAACCGAAGATGATTTCGATTTTCTGACGAGTAACAAAGTTTGGATTGCTACTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2474_3007_1:0:0_0:0:0_65/1
+TGACCGCCTCCAAACAATTTAGACATGGCGCCACCAGCAAGAGCAGAAGCAATACCGCCAGCAATAGCAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1318_1862_0:0:0_1:0:0_66/1
+TGCCGCTTTTCTTGGCACGATTAACCCTGATACCAATAAAATCCCTAAGCATTTGTTTCAGGGTTATTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4777_5207_1:0:0_0:0:0_67/1
+CGGTGCATTTTATGCGGACACTTCCTACAGGAAGCGTTGACCCTAATTTTGGTCGTCGGGTACGCAATCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3446_3931_3:0:0_0:0:0_68/1
+GTCAATCCTGACGGTTATTTCCTAGACAAATTAGAGCCAATACCATCAGCTTTACCGTCTTTCCAGAAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1556_2009_1:0:0_1:0:0_69/1
+ACTTCTACCACATCTATTGACATTATGGGTCTGCAAGCTGCTTATGCTAATTTGCCTACTGACCAAGAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4643_5097_0:0:0_1:0:0_6a/1
+TGGTTTTTAGTGAGTAGTTCCATTCTTTAGCTCCTAGACCTTTAGCAGCAAGGTCCATATCTGACTTTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3838_4331_1:0:0_0:0:0_6b/1
+GCGGTGGTCTATAGTGTTATTAATATCAAGTTGGGGGAGCACATTGTAGCATTGTGCCAATTCATCCATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2461_2906_2:0:0_2:0:0_6c/1
+AGCCAAATAATCTCTTTAATAACCTGATTCAGCGAAACCAATCCGCGGCATTTCGTAGCGGTAAAGTTAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2096_2616_0:0:0_0:0:0_6d/1
+CTTGAAGGCTTCCCATTCATTCAGGAACCGCCTTCTGGTGATTTGCAAGAACGCGTACTTATTCGCCACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1033_1590_0:0:0_2:0:0_6e/1
+GCCGCATGACCTTTCCCATCTTGGCTTCCTTGCTGGTCAGATTGGTCGTCTTATTACCATTTCAACTACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3855_4385_1:0:0_0:0:0_6f/1
+TGGAACAATTTCTGGAAAGACGGTAAAGCTGATGGTATTGGCTCTAATTTGTCTAGGACATAACCGTCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4631_5084_1:0:0_3:0:0_70/1
+CAATGCTTTGCGTGACTATTTTCGTGATATTGGTCGTATGGTTCTTGCAGCCGAGGGTCGCAAGGCTAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1557_2041_1:0:0_2:0:0_71/1
+CTTCTACCACATCTATTGACATTATGGGTCTGCAAGCTTCTTATGCTAATTTGCATACTGACCAAGAACG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_332_792_3:0:0_3:0:0_72/1
+GAACGTCAGTGTTTCCTGCGCGTACACGCAAGGTACACGCGAACAATTCAGCGTCTTTAACGGGACGCTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4411_4951_2:0:0_2:0:0_73/1
+CTCTTAAGGATATTCGCGATGAGTATAATTAGCCCAAAAAGAAAGGTATTAAGGATGAGTGTTCAATATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1971_2492_1:0:0_4:0:0_74/1
+TGCCGCCGCGTGAAATTTCTATGAAGGATGTTTTCCGTTCAGGTGATTCGTCTAAGAAGTTTAAGATTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_544_971_1:0:0_2:0:0_75/1
+GTCGCTGCGTTGAGGCTTGCGTTTATGGTAGGCTGGACTTTGTGGGATACCCTCGCTTTCCTGCTCCTGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2065_2660_3:0:0_1:0:0_76/1
+GCAAAAAATTTAGGGTCGGCATCAAAAGCAATATCAGCACCAACAGAAACACCCTGATTAGCGGCGTTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4843_5331_1:0:0_1:0:0_77/1
+TTGTCGTCACAGGTTGCGCCGCCAAAACGTCGGCAACAGTAACTTTTCCCAGCCTCAATCTCATCTCTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2685_3146_1:0:0_0:0:0_78/1
+TTCGGTTCCGACTACCCTCCCGACTTCCTATGATGTTTATCCTTTGAATGGTCGCCATGATGGTGGTTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_21_568_3:0:0_0:0:0_79/1
+TAAACGCAAGCCTCAACGCAGCGACGAGCACGAGAGCGGTCAGTAGCAATCCAAACTTTGTTACTCGTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3074_3602_0:0:0_1:0:0_7a/1
+TGATGCTGGTATTAAATCTGCCATTCAAGGCTCTAATGTTCCTAACCCTGATGAGGCCGCCCCTAGTTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1293_1770_0:0:0_3:0:0_7b/1
+TTAACACTACTGGTTATATTGACCATGCCGCTTTTCTTGGCACGATTAACCCTGATACCAATAAAATCCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2090_2638_0:0:0_0:0:0_7c/1
+CACCTTCTTGAAGGCTTCCCATTCATTCAGGAACCGCCTTCTGGTGATTTGCAAGAACGCGTACTTATTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4261_4732_0:0:0_2:0:0_7d/1
+CAAAAATACTGATAGCAGTCGGCGTGTGAATCATTAGCCTTGCGACCCTCTGCCGCAAGAACCATACGAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2873_3466_0:0:0_0:0:0_7e/1
+CGCTGAATCAGGTTATTAAAGAGATTATTTGTCTCCAGCCACTTAAGTGAGGTGATTTATGTTTGGTGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1064_1508_0:0:0_4:0:0_7f/1
+AACTGTATTTGAGATGGCAGCAACGGAAACCATAACGAGCATCATCTTGCTTAAGGTCATTAGGGTTAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2891_3381_1:0:0_1:0:0_80/1
+AAGAGATTATTTGTCTCCAGCCACTTCAGTGAGGTGATTTATGTTTGGTGCTATTGCTGGCGGTATTGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4488_4971_0:0:0_2:0:0_81/1
+GCTCACCTTTAGCATCAACAGGCCACAACCAACCAGAACGTGAAAAAGCGACCTGCGTGTAGCGAACAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2743_3227_0:0:0_0:0:0_82/1
+GATGGTGGTTATTATACCGTCAAGGACTGTGTGACTATTGACGTCCTTCCCCGTACGCCGGGCAATAATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3967_4438_0:0:0_1:0:0_83/1
+TTATACTCATCGCGAATATCCTTAAGAGGGCGTTCAGCAGCCAGCTTGCTGCAAAACTGCGTAACCGTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1870_2375_0:0:0_2:0:0_84/1
+TCGTTTTCCGCCTACTGCGACTAAAGAGATTCAGTACCTTAACGCTAAAGGTGCTTTGACTTATACCGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1341_1859_1:0:0_2:0:0_85/1
+GAGTAAACATAGTGCCATGCTCAGGAACAAAGAAACGCGGCACAGAATGTTTATCGGTCTGTAGAACACG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_468_969_2:0:0_3:0:0_86/1
+TTGTATTTAACCGAAGATGATTTCGATTTTCTGACGAGTAACAAAGTTTGGATTGCTACTGCCCGCTCTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_619_1102_0:0:0_0:0:0_87/1
+TTATTGCTGCCGTCATTGCTTATTATGTTCATCCCGTCAACATTCAAACGGCCTGTCTCATCATGGAAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4468_5007_1:0:0_3:0:0_88/1
+AGAAACCAACAGCCATATAACTGGAAGCTTTAAGGGGCTCACCTTTAGCAACAACAGGCCACAACCAACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_354_848_1:0:0_3:0:0_89/1
+TTACATCACTCCTTCTGCACTTAATTTTTGACGGACGTTTTCTTCTGCGTCATTAAGAACGTCAGTGTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1973_2503_1:0:0_1:1:0_8a/1
+CTTTAGGTGTCTGTAAAACAGGTGCCGAAGAAGCTGGATTTACAGAAGTGAGAACCAGCTTATCAGAAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1674_2081_2:0:0_1:0:0_8b/1
+GTAAAACCTCTTATGACGCTGACAACCTACCTTTACTTGTCATGCGCTCTAATCTCTGGGCATCTGGCTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_684_1239_1:0:0_0:0:0_8c/1
+GAAGGCGCTGAATTTACGGAAAACATTATTAATGGCGTCGAGCGTCCGGTTAAAGGCGCTGAATTGTTCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4240_4711_1:0:0_1:0:0_8d/1
+GCGTGTGAATCATTAGCCTTGCGACCCTCGGCAGCAATAACCATACGACCAATATCACGAAAATAGTCAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2991_3536_3:0:0_1:0:0_8e/1
+TTGATAAGCAAGCATCTCATTTTTTGCATATACCTGGTCTTTCGTATTCTGGCGTGAAGTCGCCGACTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3052_3562_0:0:0_1:0:0_8f/1
+GCAACGGGAGCAGTAGACTCCTTCTGTTGATAAGCAAGCATCTCATTTTGTGCATATACCTGGTCTTTCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3846_4285_4:0:0_2:1:0_90/1
+GCCGATACTTGGAAGAAATTCTGGAAAGACGGTAAAGCTGATGGTATTTTCTCTAATTTGTCTAGGAAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2675_3179_1:0:0_0:0:0_91/1
+AAGTCCTTTACCAGCTTTAGCCATAGCACCAGAAACAAAACTAGGGGCGGCCTCATCAGGGTTAGGAACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2468_2921_1:0:0_1:0:0_92/1
+CACTTAAGTGGCTGGAGACAAATAATCTCTTTAATAACCTGATTCAGCGAAACCAAACCGCGGCATTTAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_462_964_1:0:0_1:0:0_93/1
+TTACAATTGTTGACCACCTACATACCAAAGACGAGCGCCTTTACGCTTGCCTTTAGTACCTCGCAACGGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2392_2881_1:0:0_1:0:0_94/1
+ATCATGTTTCAGACTTTTATTTCTCGCCATAATTCAAACTTTTTTACTGATAAGCTGGTTCTCACTTCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1015_1473_0:0:0_0:0:0_95/1
+CGAGCATCATCTTGATTAAGCTCATTAGGGTTAGCCTCGGTACGGTCAGGCATCCACGGCGCTTTAAAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4874_5385_0:0:0_0:0:0_96/1
+GCAGGTTGGATACGCCAATCATTTTTATCGAAGCGCGCATAAATTTGAGCAGATTTGTCGTCACAGGTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3405_3927_1:0:0_1:0:0_97/1
+CTGGACAATCAGAAATAGATTGCCGAGATGCAAAATGAGACTCAAAAAGAGATTGCTGGCATTCAGTCGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2441_2902_2:1:0_1:0:0_98/1
+ATAAGCTGGTTCTCACTTCTGTAACTCCAGCTTCTTCTGCACCTGTTTTACAGACACCTAAAGCTACAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_750_1259_1:0:0_1:0:0_99/1
+TTCGCGTTTACCTTGCGTGTACGCGCAGGACACACTGACGTTCTTACTGACGCAGAAGAAAACGTGCGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2633_3161_2:0:0_3:0:0_9a/1
+AGCCCTAGCACCAGAAACAAAACTAGGGGCGGCCTCATCAGGGTTAGTAACATTAGAGCCTTGCATGGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3304_3817_0:0:0_1:0:0_9b/1
+TTCCTGAGCTTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTCCTCTGCTGGTATGGTTGACGCCGGATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3934_4328_1:0:0_1:0:0_9c/1
+GTGGTCTATAGTGTTATTAATATCAAGTTGGGGGAGCACATTGTCGCATTGTGCCAATTCATCCATTAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_858_1332_1:0:0_4:0:0_9d/1
+GTAAAAAACGTTCTGGCGCTCGCCCTGGTCGTCCGCAGCCGTTGCGAGGTACTCAAGGCAAGCGTAAAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2833_3368_1:0:0_1:0:0_9e/1
+TGGTCTAACTTTACCGCTACTAAATGCCGCGGATTGGTTTCGCTGAATCAGGTAATTAAAGAGATTATTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1923_2395_1:0:0_0:0:0_9f/1
+TGATTAAACTCCTAAGCAGAAAACCTACCGCGCTTCGCTTGGTCAACCCCTCAGCGGCAAAAATTAAAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1651_2127_2:0:0_1:0:0_a0/1
+GGCGGTTCCTGAATGAATGGGAAGCCATCAAGAAGGTGATAAGCAGGAGAAACATACGAAGGCGCATAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3373_3856_1:0:0_1:0:0_a1/1
+ATGAGAATCAAAAAGAGCTTACTAAAATGCAACTGGACAATCAGAAAGAGATTGCCGAGATGCAAAATGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_263_758_1:0:0_1:0:0_a2/1
+TCGTCAAGGAGTGGTTTAGATATGAGTCACATTTTGTTCATGGTAGAGATTCTCTTGTTGACATTTTAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3981_4496_2:0:0_1:0:0_a3/1
+ATGGTTCGTTCTTATTACCCTTCTGAATGTCACGCTGATTAATTTGACTTTGAGCGTATCGAGGCACTTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_728_1231_3:0:0_0:0:0_a4/1
+AACGTGACGATGAGGGACATAAAAAGTAAAAATGTCTACAGTAGAGTCAATAGCAAGGCCACGACGCAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3523_4034_2:0:0_2:0:0_a5/1
+TGCTTGCTAATCCACAGAAGGAGTCTACTGCTCGCGTTGCGTCTATTATGGAAAACACCAATCTTTCCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4079_4503_2:0:0_3:0:0_a6/1
+TACTCTTTCACAATCCCCAATGCTTGGCTTCCATAAGCAGAAGGATAACCGCATCAAGCTCTTGGAAGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_562_1069_2:0:0_1:0:0_a7/1
+GCGTTTATGGTACGCTGGACTTTGTGGGATACCCTCGCATTCCTGCTCCTGTTGAGTTTATAGCTGCCGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2942_3462_0:0:0_1:0:0_a8/1
+CAGCAATCTCTTTTTGAGTCTCATTTTGCATCACGGCAATCTCTTTCTGATTGTCCAGTTGCATTTTAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2320_2820_1:0:0_3:0:0_a9/1
+AAGATAAACATTATTGCCCGGGGTACGGGGAAGGACGTCAATAGTCAGACAGTCCTTGACGGTATAATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2745_3285_1:0:0_2:0:0_aa/1
+TGGTGGTTATTATACCGTCAAGGACTGTGTGACTATTGACGTCCTTCCCCGTACGCCGGGCAAAAATGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4824_5276_2:0:0_1:0:0_ab/1
+TTTGGTCGTCGGGTACGCAATCGCCGCCAGTTAAAAAGCTTGCAAAATACGTGGCCTTATGTTTACAGTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3329_3814_0:0:0_1:0:0_ac/1
+ACCACACCCGAAGCAGCATCAGTGACGACATTAGAAATATCCTTTGCAGTAGCGCCAATATGAGAAGAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4200_4650_0:1:0_0:0:0_ad/1
+GTTGACGGCCATAAGGCTGCTTCTGACGTTCGTGATTAGTTTGTATCTGTTACTGAGAAGTTAATGGATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4138_4609_4:0:0_0:0:0_ae/1
+TCATGTAAGCGATTCTGTCTTTTCGTATGCAGGGCTTTGAGTTCGATAATGGTGATATGTATGTTGACGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3169_3682_3:0:0_0:0:0_af/1
+GTAAAGGACTTCTTGAAGGTACGTATCCGGCTGGCACTTCTGCCGTTTCTGATAAGTTGCTTGATTTGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_328_784_1:0:0_2:0:0_b0/1
+TTAAAAGAGCGTGGATTACTATCTGAGTCGGATGCTGTTCAACCACTAATAGGTAAGAAATCATGAGTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4769_5219_1:0:0_1:0:0_b1/1
+GTAACCCAGCTTGGTAAGTTGGATTAAGCACTCCGTGGACAGATTTGTCCTTGTGAGCATTTTCATCCCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1570_2095_2:0:0_3:0:0_b2/1
+AAGGTGATAAGCAGGAGAAAGATACGAAGGCGCATAACGATACCACTGACCCTCAGCAAACATAAACTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_261_824_0:0:0_1:1:0_b3/1
+ATTTTGACGCACGTTTTCTTCTGCGTCAGTAAGAACGTCAGTGTTTCCTGCGCGTCCACGCAAGGTAAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4563_4949_3:0:0_0:0:0_b4/1
+CCACAACCAACCAGAACGTGAAAAAGCGTCCTGCGTGTAGCGAACTGCGATGGGCATACTGTAACCATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1980_2534_2:0:0_2:0:0_b5/1
+GTGAAATTTCAATGAAGGATGTTTTCCGTTCTGGTGATTCGTCTAAGAAGTTTAAGATTGGTGAGGGTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3168_3623_1:0:0_3:0:0_b6/1
+GGTAAAGGACTTCTTGAAGGTACGTTGCAGGCTGGCACTTCTGCCGTTTCTGATCAGTTGCTTGATTTGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2339_2763_1:0:0_1:0:0_b7/1
+GACGGTATAATAACCACCATCATGGCGACCAATCAAAGGATAAACATCATAGGCAGTCGGGAGGGTAGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3863_4342_5:0:0_2:0:0_b8/1
+TCCCCTTCGGGGCTGTGGTCTATAGTGTTATTAATATCAAGTTGGGGGAGCACATTGTAGGATTGTGCCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1551_2176_2:0:0_0:0:0_b9/1
+TGACGACTTCTACCACATCTATTGACATTATGGGTGAGCAAGCTGCTTATGCTAATTTGCATACTGACCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1215_1673_2:0:0_0:0:0_ba/1
+CTCCAAATGAAGAAATAACATCACGGTAACGCTGCATGAAGTAATCACGTTCTTGGTCAGTATGCAAATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_228_718_0:0:0_0:0:0_bb/1
+GGATGAGGAGAAGTGGCTTAATATGCTTGGCACGTTCGTCAAGGACTGGTTTAGATATGAGTCACATTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2551_3037_0:0:0_1:0:0_bc/1
+TCACCTTGAATGCCACCGGAGGCGGCTTTTTGACCGGCTCCAAACAATTTAGACATGGCGCCACCAGCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1040_1532_2:0:0_0:0:0_bd/1
+TCTCAGGAGGAAGCGGAGCAGTCCAAATGTTTTTGAGATGGCAGCAACGGAAACCATAACGAGCATCATC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1632_2185_1:0:0_2:0:0_be/1
+ACTTCATGCAGCGTTACCGTGATGTTATTTCTTCATTTGGAGGTAAAACCTCTTATGACGGTGACAACCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3105_3690_1:0:0_0:0:0_bf/1
+TCTAATTTTCCTAACCCTGATGAGGCCGCCCCTAGTTTTGTTTCTGGTGCTATGGCTAAAGCTGGTAAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_482_958_1:0:0_1:0:0_c0/1
+AGATGATTTCGATTTTCTGACGAGTAACAAAGTTTGGATTGCTACTGACCGCTGTCGTGCTCGTCGCTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4295_4694_3:0:0_0:0:0_c1/1
+CCCCCAACTTGATATTAATCACACTATAGACCACCGCCCCGAAGGGGACGCAAAATGGTTTTTAGAGAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3158_3581_1:0:0_2:0:0_c2/1
+GGTGATTTCCATAATAGACGCAAGGCGAGCAGTAGACTCCTTCTGTTGATAAGCAAGCATCTCATTTTGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3443_3980_1:0:0_1:0:0_c3/1
+AAAAAAGGCTCCAAGATTTGGAGGCATGAAAACATACAATTGGGAGGGTGTCAATCCTGACGGTTATTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3949_4379_2:0:0_2:0:0_c4/1
+CGTAACCGTCATCTCGTTCTCTAAAAACCATTATTCGTCCCCTTCGGGGCGGTGGTCTATAGTGTTATTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3648_4160_0:0:0_2:0:0_c5/1
+AAAAGACATAATCTCTTCCCAGAGCTTGATGCGGTTATCCATCTGCTTATGGAAGCCAAGCATTGGGGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1602_2103_0:0:0_0:0:0_c6/1
+CTAATTTGCATACTGACCAAGAACGTGATTACTTCATGCAGCGTTACCGTGATGTTATTTCTTCATTTGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3882_4411_4:0:0_3:0:0_c7/1
+GCTGATGGTAATGGCTGAAATTTGTCTAGGAAATAACCGTCAGGATTGACACCCTCCCAATTGTATGATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2868_3414_2:0:0_1:0:0_c8/1
+GGTTTCGCAGAATCAGGTTATTAAAGAGATTAATTGTCTCCAGCCACTTAAGTGAGGTGATTTATGTTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1114_1605_0:0:0_1:0:0_c9/1
+TTAGCATAAGCAGCTTGCAGACCCATAATGTCAATAGATGTGGTAGAAGTCGTCATTTGGCGATAAAGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2919_3389_1:0:0_0:0:0_ca/1
+GTGATGTGATTTATGTTTGGTGCTATTGCTGGCGGTATTGCTTCTGCTCTTGCTGGTGGCGCCATGTCTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2064_2531_2:0:0_2:0:0_cb/1
+CGCCTACGTATGTTTCTCCTGCTTATCACCTTCTTGAAGGCTTCCCATTCATTCAGGAACCGCCTACTGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4000_4497_3:0:0_0:0:0_cc/1
+TAGTGGAGGCCTCCAGCAATCTTGAACACTCATCCTTAATACCTTTCTTTTTGGGGTAATTATACTCATC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4743_5249_3:0:0_1:0:0_cd/1
+CTTCAATATCTGGTTGAACGGCGTCGCGTCGAAACCCAGCTTGGTAAGTTGGATTAAGCACTCCGTGGAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1935_2414_2:0:0_3:0:0_ce/1
+GCGATAATGCTGGCGACCCTGTTTTGTATGGCAACTTGCCGCCGCGTGAAATTTCTATGAAGGATGTTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_408_1018_1:0:0_1:0:0_cf/1
+AGTTTGAATATTAGACATAATTTATCCTCAAGTAAGGGGCCGAAGGCCCTGCAATTAAAATTGTTGACCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2229_2741_1:0:0_0:0:0_d0/1
+TGGCGACCATTCAAAGGATAAACATCATAGGCAGTCGGGAGGGTAGTCGGAACCGAAGAAGACTCAAAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1826_2374_2:0:0_0:0:0_d1/1
+TTCTTTTTTCCTGAGCATGGCACTATGTTTACTCTTGCGCTTGTTCGTTTACCGCCTACTGCGACTAAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3451_3890_2:0:0_1:0:0_d2/1
+ACCATCATCTTTACCGTCTTTCCAGAAATTGTTCCAAGTATCGGCAACAGCTTTATCAATACCATGAAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4699_5194_0:0:0_2:0:0_d3/1
+AAGCACTCCGTGGACAGATTTGTCATTTTGAGCATTTTCATCCCGCAGTTGCGGCTCATTCTGATTCTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1091_1593_1:0:0_1:0:0_d4/1
+ATTTCAACTACTCCGGTTATCGCTGGCGACTCCTTCGCGATGGACGCCGTTGGCGCTCTCCGTCTTTCTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_150_647_3:0:0_0:0:0_d5/1
+ATCCTTGCGCAGCTCGAGAAGCACATACTTTGCGACCTTTCGCCATCAAGTAACGATTCTGTCAAAAACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1864_2257_2:0:0_1:0:0_d6/1
+GGTCGGGAGATTGCGATAAACGGTCACATTAAATTTAACCTGACTATTCCACTGCAACAACTGAACGGAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4644_5182_0:0:0_1:0:0_d7/1
+GACTATTTTCGTGATATTGGTCGTATGGTTCTTGCTGCCGAGGGTCGCAAGGCTAATGATTCACACGCCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4693_5191_0:0:0_3:0:0_d8/1
+AGGCTAATGATTCACACGCCGACTGCTATCAGTATTTTTGTGTGCCTGAGTATGGTACAGCTAATGGCCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3586_4112_2:0:0_0:0:0_d9/1
+TTTCCAAGCAACAGCAGGTTTCCGAGATTATGCGCCAAATGCATACTCAAGCTCAAACGGCTTGTCAGTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2392_2930_1:0:0_0:0:0_da/1
+AAATCACCTCACTTAAGTGGCTGGAGACAAATAATCTCTTTAATAACCTGATTCAGCGAAACCAATCCGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2478_3008_4:0:0_1:0:0_db/1
+GGCACCTTTTTTACAGACAGCAACAGCTACATCGTCAACGTTATATTTTGATAGTTTGACGGTTAATGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1544_2075_0:0:0_1:0:0_dc/1
+CGCCAAATGACGACTTCTACCACATCTATTGACATTATGGGTCTGCAAGCTGCTTATGCTAATTTGCATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3280_3806_0:0:0_0:0:0_dd/1
+CTCGTGATTATCTTGCTGCTGCATTTCCTGAGCTTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTCCTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1144_1599_0:0:0_1:0:0_de/1
+TAAGCAGCTTGCAGACCCATAATGACAATAGATGTGGTAGAAGTCGTCATTTGGCGAGAAAGCTCAGTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1403_1962_1:0:0_1:0:0_df/1
+TACAAAACAGGGTCGCCAGCAATCTCGGTATAAGTCAAAGCACCTTTAGCGTTAAGGTACTGAATCTCTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_611_1095_1:0:0_2:0:0_e0/1
+GAAATGGTACTAAGACGACCAATCTGACCAGCAATGAAGCCAAGATGGGAAAGGTCATGCGGCATACGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2647_3113_2:0:0_0:0:0_e1/1
+CCTAAAAATTTTGCCTGTTTGGTTCGCTTTGAGTCTTCTTCGGTTCCGACTACCCTCCCGACTGCCTATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4243_4709_0:0:0_2:0:0_e2/1
+GTGTGAATCATTAGCCTTGCGACCCTCGGCAGCAAGAACCATACGAGCAATATCAGGAAAATAGTCACGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_886_1364_1:0:0_4:0:0_e3/1
+TAGGGATTTTATTGGTATCAGTGTAAATGGTGCCAAGAAAAGCGGCATGGTCAATATAACGAGTAGTGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2736_3284_0:0:0_2:0:0_e4/1
+TCGCCATGATGGTGGTTATTATACCGTCAAGGACTGTGTGACTATTGACGTCCTTCCCCGTACGCCGGGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3296_3778_0:0:0_3:0:0_e5/1
+TGCTGCATTTCCTGAGCTTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTCCTCTGCTGGTATGGTTGAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4409_4865_1:0:0_2:0:0_e6/1
+CAAGCTATTTAACTGGCGTCGATTGCTTACCCGACGACCAAAATTAGGGTCAACGCTACCTGTAGGAAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3061_3557_2:0:0_0:0:0_e7/1
+CTGTAGGCATGGGTGATGCTTGTATTAAATCTGCCATTCAAGGCTCTAATGTTCCTACCCCTGATGAGGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_172_742_2:0:0_1:0:0_e8/1
+GCGGCTTTAACCGGACGCTCGACGCCATTAATAATGTTTTGCGTAAATTCAGCGCCTTCCATGATGAGAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1836_2213_0:0:0_2:0:0_e9/1
+CTGAGCATGGCACTATGTTTACTCTTGCGCTTGTTCGTTTTCCGCCTACTGCGACTAAAGAGATTCAGTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_628_1078_2:0:0_0:0:0_ea/1
+ACCAATCTGACCAGCAAGGAAGCCAAGATGGGAAAGGTCATGCGGCATACGCTCGGCGCCAGTTTGAATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1523_2053_2:0:0_1:0:0_eb/1
+CCACTGACCCTCAGCAATCTTAAACTTCTTAGACGAATCACCAGAACGGAAAACATCCTTCATAGACATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3051_3557_0:0:0_1:0:0_ec/1
+GATAACAATACTGTAGGCATGGGTGATGCTGGTATTAAATCTGCCATTCAAGGCTCTAATGTTCCTAACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3442_3894_1:0:0_2:0:0_ed/1
+AGACTCAAAAAGAGATTGCTGGCATTCAGTCGGCGACTTCACTCCAGAATACGAAAGACCAGGTATATGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_554_1043_0:0:0_1:0:0_ee/1
+TGAGGCTTGCGTTTATGGTACGCTGGACTTTGTGGGATACCCTCGCTTTCCTGCTCCTGTTGAGTTTATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_525_1086_4:0:0_2:0:0_ef/1
+ATAAGACGACCAATCTGACCAGCAAGGAAGCCAAGAAGGGAAAGGTCATGCGGCATACGCTCGGCGCCCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_252_783_1:0:0_2:0:0_f0/1
+TGTTTCCTGCGCGTACACGCAAGGTAAACGCGAAGAATTCAGCGGCTTTAACCGGACGCTCGACGCGATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1844_2328_3:0:0_4:0:0_f1/1
+ACTTTTTACCGCTTCGGCGTTATAACCTCACACTCAATCTTTTATCCCTAAGTCATGATTGAAACGCGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4728_5242_2:0:0_2:0:0_f2/1
+TTTTGAGTGCCTGAGTATGGTACAGCTAATGGCCGTCTTGATTTCCATGCGGTGCATTTTATGCGGACAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1380_1844_4:0:0_1:0:0_f3/1
+GTTATTTTAATATCTATAACAACTAAATAAAAGCGCCGTGGATGCCTGACCGTACCGAGGCTAACCCTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1836_2418_2:0:0_0:0:0_f4/1
+CTGAGCATGGCCCTATGTTTACTCTTGCGCTTGTTCGTTTTCCGGCTACTGCGACTAAAGAGATTCAGTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3965_4512_3:0:0_3:0:0_f5/1
+CTCTACGCGATTTCATATTGGAGGCCTCCAGCAATCTTGAACACTCATCCTTAATACCTTACTTATTGGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2521_3106_0:0:0_2:0:0_f6/1
+GAGCCTTGAATGGCAGATTTAATACCCGCATCACCCATGCCTAGAGTATTGTTATCGGTAGCAAGCACAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3548_4026_4:0:0_2:0:0_f7/1
+TACTGCTCGCGATGCGTCTATTATGGAAAACACCCCTCTTTCCAAGCAACAGGAGGTTTCCGAGATTATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3334_3882_0:0:0_4:0:0_f8/1
+GTGCTGATGCTTCCTCTGCTGGTATGGTTGACGCCGGATTTGAGAATCAAAAAGAGCTTACTAAAATGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_532_1102_2:0:0_2:0:0_f9/1
+AGTAGTTGAAATGGTAATAAGAGGACCAATCTGACCAGCAAGGAAGCCAAGATGTGAAAGGTCATGCGGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4094_4577_0:0:0_1:0:0_fa/1
+CCCAATGCTTGGCTTCCATAAGCAGATGGATAACCGCATCAAGCTCTTGGAAGAGATTCTGTCTTTTCGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2618_3113_5:0:0_0:0:0_fb/1
+ATGGTGCTGATATTGCTTTTGATGCCGACCCTAAATTTTTAGCCTGTATGGTTCTCTTTGAGTCTTCATC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_163_597_2:0:0_2:0:0_fc/1
+GAGGGTAACCCACAAAGTCCAGCGTACCATAAACGCAAGCCTCAAGGCAGCGACGAGCACGAGAGCGGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4445_4909_0:0:0_1:0:0_fd/1
+CAAAAAGAAAGGTATTAAGGATGAGTGTTCAAGATTGCTGGAGGCCTCCACTATGAAATCGCGTAGAGGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1822_2356_4:0:0_1:0:0_fe/1
+GCGTTTGTTTGATCCTGAGCATGGCACTATGTTTACTCTTGCGCTTTTTCGTTTTCCGCCTACTGCGACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3709_4230_4:0:0_2:0:0_ff/1
+ACTTAGTTCATCAGCAAACGCAGAATGATCGGTATTGCTCTTCTCATATTGGCGCTACTGCAAAGGATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1714_2209_0:0:0_3:0:0_100/1
+CCACTGCAACAACTGACGGGACTGGAAACACTGGTCATAATCATGGTGGCGAAAAAGTACGCGTTCTTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3867_4376_3:0:0_2:0:0_101/1
+AACCGTCTTCTCGTTGTCTAAAAACCATTTTTCGTCCGCTTCGGGGCGGTGGTCTATAGTGTTATTAATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2460_3043_1:0:0_2:0:0_102/1
+TGTTACTCCAGCTTCTTCGGCACCTGTTTTACAGACACGTAAAGCTACATCGTCAACGTTATATTTTGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3713_4206_2:0:0_2:0:0_103/1
+AGTTCATCAGCAAACGCAGAATCAGCGGTATGGCTCTTCACATATTGGCGCTACTGCAAAGGATATTTGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2721_3306_2:0:0_0:0:0_104/1
+GAAATGCAGCAGCAAGATAATCACGAGTATCCTTTCCTTTATCAGCGGCAGACTTGCCACCAAGTCCAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1018_1498_3:0:0_1:0:0_105/1
+GAGATGGCAGCAACTGAAACCATAACGAGCATCATCTTGATTAAGCTCATTAGGGTTAGCCTCGGTACGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1284_1710_2:0:0_0:0:0_106/1
+AGTAAAGGACGGTTGTCAGCGTCATAAGAGGTTTTACCTCCAAATGAAGAAATAACATCACGGTAACGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1033_1548_2:0:0_0:0:0_107/1
+TGGCGAGAAAGCTCAGTCTCAGGAGGAAGCGGAGCAGTCCAAATGTTTTTGAGATGGCAGCAACGGAAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4831_5285_3:0:0_1:0:0_108/1
+GTCGGGTACGCAATCTCCGCCAGTTAAATAGCTTGCAAAATACGTGGCCTTATGGATACAGTAAGCCCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2657_3087_1:0:0_3:0:0_109/1
+TAATACCAGCATCACCCATTCCTCCAGTATTGTTATCGGTAGCAAGCACAACACCTTGAATGCCACCGGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1558_2049_1:0:0_2:0:0_10a/1
+TTCTACCACATCTATTGACATTATGGGTCTGCAAGCTGCTTATGCTAATTTGGATACTGACCAAGAACGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4270_4826_3:0:0_1:0:0_10b/1
+AATTGGCACAATGCAACAATGTTCTCCCCCAACTTGATATTAATAACACTATATACCACCGCCCCGAAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_245_746_4:0:0_0:0:0_10c/1
+TTCAGCGGCTTTAACCGGACGCTCGACGCCATTAATAATGTTTTCCGTAAATTCAGCGCCTTCCATGATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1484_2067_3:0:0_4:0:0_10d/1
+CGTTGCTTCCATCACAAAAACATTAGGACTGCTCCGCTTCCTCCTGAGACTGAGCTTTCTCGCCAAATGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4404_4883_0:0:0_2:0:0_10e/1
+ATAAGGCCACGTATTTTGCAAGCTATTTAACTGGCGGCGAATGCGTACCGGACGACCAAAATTAGGGTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4167_4648_0:1:0_1:0:0_10f/1
+TAGTCACGCAAAGCATTGGGATTATCATAAAACGCCTCTAATCGGACGTCAGCCAACGTGAGAGTGTCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3950_4508_1:0:0_2:0:0_110/1
+ACGCGATTTCATAGTGGAGGCCTCCAGCAATCTTGAACACTCAACCTTAATACCTTTCTTTTTGGGGTAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3867_4438_3:0:0_2:0:0_111/1
+TTATACTCATCTCGAATATCCTTAAGAGGGCGTTCAGCAGCCAGCTTGCGGCAAAACTGCGTAAGCGTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2104_2648_3:0:0_0:0:0_112/1
+GGGTCGGCATCAAAAGCAATATCAGCACCAACAGAAACAACCTGATTAGCGGCGTTGACAGATGTATCCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2926_3403_1:0:0_2:0:0_113/1
+TTCATTTTAGTAAGCTCTTTTAGATTCTCAAATCCGGCGTCAACCATACCAGCAGAGGAAGCATCAGCAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4629_5079_0:0:0_1:0:0_114/1
+CCCAATGCTTTGCGTGACTATTTTCGTGATATTGGTCGTATGGTTCTTGCTGCCGAGGGTCGCAAGGCTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3495_4038_0:0:0_0:0:0_115/1
+TACGCTCAAAGTCAAAATAATCAGCGTGACATTCAGAAGGGTAATAAGAACGAACCATAAAAAAGCCTCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2240_2752_2:0:0_1:0:0_116/1
+TATCGCAATCTGCCGACCACTCGCGAATCAATCATGACTTCGTGATACAAGATTGAGTGTGAGGTTATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2863_3382_3:0:0_1:0:0_117/1
+GGATTTGTTTCGCTGAATCATGTTATTAAAGAGATTATTTGTCTCCAGCCACTTAAGTGAGGTTATTTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2084_2609_0:0:0_1:0:0_118/1
+GCTTATCACCTTCTTGAAGGCTTCCCATTCATTCAGGAACCGCCTTCTGGTGATTTGCAAGAACGCGTAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_777_1121_2:0:0_2:0:0_119/1
+GTAAACAGTGACGTTCTTACTGACGCAGAAGAAAACGTGCGTCAAAAATTACGTGCAGAAGGAGTGATGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2457_2911_2:0:0_0:0:0_11a/1
+TTCTGTTACTCCAGCTACTTCGGCACCTGTTATACAGACACCTAAAGCTACATCGTCAACGTTATATTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4441_4959_1:0:0_2:0:0_11b/1
+ACCCCAAAAAGAAAGGTATTAAGGATGAGTGTTCAAGATTGCTGGAGGCCTCCACAATGAAATCGCGTAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3215_3777_2:0:0_2:0:0_11c/1
+AACTGATAAGTTGCTTGATTTGGTTGGACTTGGTGGCAAGTCTGCCGCTGATAAAGGAAAGGATACTCGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2274_2778_2:0:0_1:0:0_11d/1
+ATTCACACAGTCCTTGACGGTATAATAACCACCATCATGGCGACCATTCAAAGGATAAACATCATAGGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2330_2871_4:0:0_1:0:0_11e/1
+AACCAATCCTCGGCATTTAGTAGCGGTAAAGTTAGACCAAACCATGAAACCAACATAAACATTATTGCCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1710_2259_0:0:0_0:0:0_11f/1
+TTGTCATGCGCTCTAATCTCTGGGCATCTGGCTATGATGTTGATGGAACTGACCAAACGTCGTTAGGCCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3034_3491_3:0:0_0:0:0_120/1
+ATTCTGGCGTGAAGTCGCCGACTGAATGCCAGCAATCTCTTTTTGAGTCTCATTTTGCATCTCGGCAATC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4164_4559_1:0:0_2:0:0_121/1
+ATGCAGGGCGTTGAGTTCGATAATGGTGATATGTCTGTTGACGGCCATAAGGCTGCTTCTGACGTTCGTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4777_5231_1:0:0_5:0:0_122/1
+CTGCGTCGGTTCGAAACCCAGCTTGGTAAGTTGGATAAAGCACTCCGTGGACAGATTTGTCATTGTGAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_947_1501_1:0:0_4:0:0_123/1
+TTTGAGATGGCAGCAACGGAAAGCATAACGAGCAACATCTTGATTAAGCTCATTAGGTTTAGCCTCGGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2267_2753_1:0:0_0:0:0_124/1
+ACAATCATGACTTCGTGATAAAAGATTGAGTGTGAGGTTATAACGCCGAAGCGGTAAAAATTTTAATTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4206_4670_0:0:0_1:0:0_125/1
+GGCCATAAGGCTGCTTCTGACGTTCGTGATGAGTTTGTATCTGTTACTGAGAAGTTAATGGATGAATTGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4609_5049_0:0:0_2:0:0_126/1
+TAGAGGCGTTTTATGATAATCCCAATGCTTTGCGTGACTATTTTCGTGATATTGGTCGTATGGTTCTTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1650_2185_1:0:0_0:0:0_127/1
+GAAACACTGGTCATAATCATGGTGGCGAATAAGTACGCGTTCTTGCAAATCACCAGAAGGCGGTTCCTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2369_2816_0:0:0_3:0:0_128/1
+TAGGTTTTCTGCTTAGGAGTTTAATCATGTTTCAGACTTTTATTTCTCGCCATAATTCAAACTTTTTTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2788_3330_0:0:0_2:0:0_129/1
+CACGCTCCCAAGCATTAAGCACAGGAAATGGAGCAGCAAGATAATCACGAGTATCCTTTCCTTTATCAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4545_5151_0:0:0_1:0:0_12a/1
+CGACAGGCTCATGCTGATGGTTGGTTTATCGTTTTTGACACTCTCACGTTGGCTGACGACCGATTAGAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4844_5303_1:0:0_1:0:0_12b/1
+GTCGGCTACCGTAACTTTTCCCAGCCTCAATCTCATCTCTCTTTTTGCGTTCTGCTTCAATATCTGGTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2222_2679_1:0:0_1:0:0_12c/1
+AAATTTAATGTGACCGTTTAACGCAATCTGCCGACCACTCGCGATTCAATCATGACTTCGTGATAAAAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2444_2928_2:0:0_2:0:0_12d/1
+ATCACCTCACTTAAGTGGCTGGAGACAAATAATCTCTTTACTAACCTGATACAGCGAAACCAATCCGCGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4092_4573_1:0:0_0:0:0_12e/1
+ATAAACCAACCATCAGCATGAGCCTGTCGCATTGCATTCATCAAACGCTGAATAGTAAAGCCTCTACGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_834_1362_4:0:0_1:0:0_12f/1
+GGGATTTTATTGGTATCAGGGTTAATCGTGCCAATAAAAGCGGCATGGTCAATATAACCAGTAGTGTTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2780_3264_1:0:0_0:0:0_130/1
+CAGCGGCAGACTTGCCACCAAGTCCAACCAAATCAAGCAACTTATCAGAAACGGCAGAAGTGCCAGCCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_843_1287_5:0:0_2:0:0_131/1
+GGGAGAGGAGTGGCATTAACACGCTCCTTCATGAACTTAATCCACTGTTCACCATAAACGTGACGATGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_646_1200_1:0:0_0:0:0_132/1
+ATGTCTACAGTAGAGTCAATAGCAAGGCCACGACGCAATGGAGAAAGACGGAGAGCGCCAACGGCGTCCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3270_3825_2:0:0_0:0:0_133/1
+GAAAAATATCAACCACACCAGAAGCAGCATCAGTGACGACATTAGAAATATCCTTTGCAGTAGCGCCAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1467_1933_2:0:0_3:0:0_134/1
+ATGCTCGTTATGGTTTCCGTTGCTGCGATCTCAAAAACATTTGGCCTGCTCCGCTTCCTCCTGAGACTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4607_5096_3:0:0_0:0:0_135/1
+ATTAGAGGCTTTTTATGATAATCCCAATGCTTTGCGTGACTATTTTCTTGATATTGGTGGTATGGTTCTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_728_1261_2:0:0_1:0:0_136/1
+CTTCATGACCTTAATCCACTGTTCACCATAAACGTGACGATGAGGGACATAAAAAGTAAAAATGTCTACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4410_4853_0:0:0_0:0:0_137/1
+CTGGCGGCGATTGCGTACCCGACGACCAAAATTAGGGTCAACGCTACCTGTAGGAAGTGTCCGCATAAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4352_4929_0:0:0_3:0:0_138/1
+AAAAAGCGTCCTGCGTGTAGCGAACTGCGATGGGCATACTGTAACCATAAGGCCACGTAATTTGCAATCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1956_2434_1:0:0_1:0:0_139/1
+AAAAGATTGAATTATGGCGAGAAATAAAAGTCTGAAACATGATTAAACTCCTAAGCAGAAAACCTACCGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3149_3669_0:0:0_1:0:0_13a/1
+TGGTGCTATGGCTAAAGCTGGTAAAGGACTTCTTGAAGGTACGTTGCAGGCTGGCACTTCTGCCGTTTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4171_4684_8:1:0_0:0:0_13b/1
+GCGATGCGTTCGCTAATGGTGATCTGAAAGTTGACGGCCATAAGGCTGCTTCTTACGTTCGTGATTCGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2475_3030_2:0:0_4:0:0_13c/1
+TTCGGCACCTGTTTTAGAGACACCTAAAGCTACATCGTCCACGTTATATTTTGATAGTTTGACGGTTAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2950_3525_2:0:0_2:0:0_13d/1
+GCATCTCATTTTGTGCATATACCTGGTCTATCGTATTCTGGCGAGAAGTCGCCGACTGAATGCCAGCAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4023_4465_2:0:0_4:0:0_13e/1
+TTTGACTTTGAGGGTATCGAGTCTCTTAAACCTGCTATTGAGGCTTGTGGCATTTCTACTCTTTCTCAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3513_4054_2:0:0_0:0:0_13f/1
+CAAAATGAGATGCTTGCTTATCAACAGCAGGAGTCTACTGCTCGCGTTTCGTCTATTATGGAAAACACCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3003_3447_4:0:0_0:0:0_140/1
+GAGTCTCATTTTGCATCTCGGCAATCTCTTTCTGATTGTCCAGTTGCATTTTAGTAAGCTCTTTTTGATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2630_3159_1:0:0_2:0:0_141/1
+TTGCTTTTGATGCCGACCCTAAATTTTTTGCCTGTTTGGTTCGCTTTGAGTCTTCTTCGGTACCGACTAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_991_1469_1:0:0_0:0:0_142/1
+AGGATAAATTATGTCTAATATTCAAACTGGCGCCGAGCGTATGGCGCATGACCTTTCCCATCTTGGCTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3107_3521_2:0:0_1:0:0_143/1
+CTCATTTTGTGCATATACCTGGTCTTTCGTATTCTGGCGTGCAGTCGCCGACTGAATGCCAGCAATCTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_510_1017_1:0:0_1:0:0_144/1
+GTTTGAATATTAGACATAATTTATCCTCAAGTAAGGGGCCGAAGCCCCTGCAATTAAAATTGATGACCAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2494_2909_4:0:0_1:0:0_145/1
+TGGAGACAAATAAACTCTTTAATAACCTGATTCAGCGAAACCAATCCGCGGCATTTAGTAGCGGTAAAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2323_2835_0:0:0_1:0:0_146/1
+AAAATTTTAATTTTTGCCGCTGAGGGGTTGACCAAGCGAAGCGCGGTAGGTTTTCTGCTTAGGAGTTTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1369_1897_0:0:0_2:0:0_147/1
+CTCTTTAGTGGCAGTAGGCGGAAAACGAACAATCGCAAGAGTAAACATAGTGCCATGCTCAGGAACAAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_373_836_1:0:0_2:0:0_148/1
+CTAATAGGTAAGAAATCATGCGTCAAGTTACTGAACAATCCGTACGTTTCCAGACCGCTTTGGCCTCTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2718_3231_1:0:0_1:0:0_149/1
+TGTTTATCCTTTGAATGGTCGCCATGATGGTGGTTATTATACCGTCAAGGACTGTGTGACTCTTGACGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1807_2308_0:0:0_4:0:0_14a/1
+TATAACCTCACAGTCAATCTTTTATCACGAAGTCATGATAGAATCGCGAGTGGTCTGCAGATTTCGATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3672_4168_0:0:0_2:0:0_14b/1
+TGCATACGAAAAGACAGAATGTCTTCCACGAGCTTGATGCGGTTATCCATCTGCTTATGGAAGCCAAGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_213_698_1:0:0_0:0:0_14c/1
+AAAAACTGACGCGTTGGATGAGGAGAAGTGGCTTAATATGCTTGGCACGTTCTTCAAGGACTGGTTTAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2409_2834_3:1:0_0:0:0_14d/1
+TATTTCTCGCCATAATTCAACCTTTTTTTCTGATAAGCTGGAACTCACTTCTGTAACTCCAGCTTCTTCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_815_1375_1:0:0_0:0:0_14e/1
+GCGTCAAAAATTACGTGCAGAAGGAGTGATGTCATGTCTAAAGGTAAAAAACGTTCTGGCGCTCGCCCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1904_2377_0:0:0_1:0:0_14f/1
+GAAAACGTACCGCGCTTCGCTTGGTCAACCCCTCAGCGGCAAAAATTAAAATTTTTACCGCTTCGGCGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2653_3132_3:0:0_4:0:0_150/1
+TTTTTTTCCTGTTTGGTTCGCTTTGAGTCATCTTCGGTTCCGACTACCCTCCCGACAGCCTATGATGTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2538_3069_0:0:0_0:0:0_151/1
+TGCCTACAGTATTGTTATCGGTAGCAAGCACATCACCTTGAATGCCACCGGAGGCGGCTTTTTGACCGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4204_4693_0:1:0_4:0:0_152/1
+TTGCGACCGTCGGCAGCAAGAACCATACGACCAATATGACGAACATAGTCACGCAAAGCATTTGGATTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3483_3892_1:0:0_2:0:0_153/1
+CGCCAGAATACGAAAGACCAGGTATATGCACAACATGAGATGCTTGCTTATCAACAGAAGGAGTCTACTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1269_1748_0:0:0_4:0:0_154/1
+TTAATGCCACTCCTCTCCCGACTGTTAACACTACTGGTTATATTGACCATGCCGCTTTTCTTGGCACGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_658_1184_3:0:0_0:0:0_155/1
+CAATAGCAAGGCCACGACGCAATGGAGAAAGACGGAGAGCGCCAACGGCGTCCATCTCGAAGGAGTCGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3380_3876_1:0:0_2:0:0_156/1
+TCAAAAAGAGCTTACTAAAATGGAACTGGACAATCAGAAAGAGATTGCCGAGATGCAAAATGAGACTCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4780_5302_3:0:0_0:0:0_157/1
+TGCATTTTATGCGGACACTTCCTACAGGTATCGTTGACCCTAATTTTGGTCGTCGGGTACGGAATGGCCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3179_3727_0:0:0_2:0:0_158/1
+GTTTGCTGATGAACTACGTCAACCTCAGCACTAACCTTGCGAGTGATTTCTTTGATTTGGTCATTGGTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1619_2138_3:0:0_0:0:0_159/1
+CAAGAACTTGATTACTTCATGCAGCGTTACCGTGATGTTATTACTTCATTTGGAGGTAACACCTCTTATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3249_3794_2:0:0_1:0:0_15a/1
+GGCCAGTCTGCCGCTGATAAAGGAAAGGATACTCGTGATTATCTTGCTGCTGCATTTGCTGAGCTTAATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1838_2396_2:0:0_1:0:0_15b/1
+ATGATTAAACTCCTAAGCAGAAAACCTACCTCGCTTCGCTTGGTCAACCCCTCAGCGGCAAAAATTAAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1353_1755_0:0:0_2:0:0_15c/1
+ATAAAATCCCTAAGCATTTGTTTCAGGGTTATTTGAATATCTATAACAACTATTTTAAAGCGCCGTGGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3326_3882_2:0:0_1:0:0_15d/1
+CATTACCGTCTTTCCAGAAATTGTTCCAAGTATCGGCAACAGCTTTATCAATACCATGAAAAATATCAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_650_1215_2:0:0_0:0:0_15e/1
+ACATAAAAAGTAAAAATGTCTACAGTAGAGTCAATAGCAAGGCCACGACGCAATGGAGAAAGACGGAGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1532_2061_0:0:0_2:0:0_15f/1
+ACTGAGCTTTCTCGCCAAATGACGACTTCTACCACATCTATTGACATTATGGGTCTGCAAGCTGCTTATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1320_1798_1:0:0_1:0:0_160/1
+TTGCACACGACCAGAAAACTGGCCTAACGACGTTTGGTCAGTTCCATCAACATCATAGCCAGATGCCCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1896_2319_0:0:0_3:0:0_161/1
+CGCTTCGGCGTTATCACCTCCCACTCACTCTTTTATCACGAAGTCATGATTGAATCGCGAGTGGTCGGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2219_2691_0:0:0_0:0:0_162/1
+GTTAAATTTAATGTGACCGTTTATCGCAATCTGCCGACCACTCGCGATTCAATCATGACTTCGTGATAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2251_2847_1:0:0_1:0:0_163/1
+GGTAAAGTTAGACCAAACCATGAAACCCACATAAACATTATTGCCCGGCGTACGGGGAAGGACGTCAATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_845_1299_1:0:0_2:0:0_164/1
+GTAATGTCTAAAGGTAAAAAACGTTCTGGCTCTCGCCCTGGTCGTCCGCAGCCGTTGCGAGGTACTAAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_799_1282_0:0:0_0:0:0_165/1
+ACGCAGAAGAAAACGTGCGTCAAAAATTACGTGCAGAAGGAGTGATGTAATGTCTAAAGGTAAAAAACGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1799_2324_1:0:0_1:0:0_166/1
+TTTACCGCTTCGGCGTTATAACCTCACACTCAATCTTTTATCACGAAGTCATGATAGAATCGCGAGTGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4783_5286_3:0:0_0:0:0_167/1
+ATTTTATGCGGACCCTTCCTACAGGTAGGGTTGACCCTCATTTTGGTCGTCGGGTACGCAATCGCCGCCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1171_1747_1:0:0_1:0:0_168/1
+ATCATAGGCAGATGCCCAGAGATTAGAGCGCATGACAAGTAAAGGACGGTTGTCAGCGTCATAAGAGGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1378_1811_1:0:0_1:0:0_169/1
+GTTTATAGGTCTGTTGAACACGACCAGAAAACTGGCCTAACGACGTTTGGTCAGTTCCATCAACATCATC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3494_3903_2:0:0_2:0:0_16a/1
+AATTAGAGCCAATACCATCAGCTATACCGTCTTTCCAGAAATTGTTCCAAGTATCGGCAACAGGTTTATC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3051_3546_1:0:0_2:0:0_16b/1
+GATAACAATACTGTAGTCATGGGTGATGCTGGTATTAAATCTGCCATTCAAGGCTCTAATGTTCCTAACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4761_5246_1:0:0_2:0:0_16c/1
+CGTCTTCATTTCCATGCGGTGCATTTTATGCGGACACATCCTACAGGTAGCGTTGACCCTAATTTTGGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1408_1884_1:0:0_1:0:0_16d/1
+TAAAGCGCCGTGGATGCCTGACCGTACCGAGTCTAACCCTAATGAGCTTAATCAAGATGATGCTCGTTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2046_2510_1:0:0_2:1:0_16e/1
+GTCCGTGGTATCGTTATGCGCCTTCGTATGTTTCTCCTGCTTATCACCTTCTTGAAGGCTTCCCATTCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3101_3478_2:0:0_1:0:0_16f/1
+AGGCTCTAATGTTCCTAACCCATATGAGGCCGCCCCTAGTTTTGTTTCTGGTGCTATGGCTAAAGCTGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_46_522_6:0:0_1:0:0_170/1
+ATCTGCAGAGTCGAAAAATTATCTTGATAAAGGAGGAATTACTACTGCTAGATTACGAATTAAATCGAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1559_2008_1:0:0_2:0:0_171/1
+TCTACCACATCTATTGACATTATGGGTCTGCAAGCTGCTTCTGCTAATTTGCATACTGACCAAGAACGTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2664_3190_1:0:0_3:0:0_172/1
+GTACCTACAAGAAGTCCATTACCAGCTTTAGCCATAGCACCAGAAACAAAACTAGGGGCTGCCTCATCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2281_2810_1:0:0_0:0:0_173/1
+GTGATAAAAGATTGAGTGTGAGGTTAAAACGCCGAAGCGGTAAAAATTTTAATTTTTGCCGCTGAGGGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2317_2686_1:0:0_2:0:0_174/1
+GCGGTAAAAATTTTAATTTTTGCCGCTGAGGGGTTTACCAAGCGAAGCGCGGTAGGTTTTCTGCTTAGGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1208_1696_2:0:0_2:0:0_175/1
+TTTTATGTCCCTCAACGTCACGTTTATGGTGACCAGTGGATTAAGTTCATGAAGGATGGTGTTAATGCCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2632_3141_3:0:0_4:0:0_176/1
+AACTAGGGGGGGGCTGATCAGGGTTAGGAACATAAGAGCCTTGAATGGCAGATTTAATACCAGCATCACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4736_5291_1:0:0_1:0:0_177/1
+AACTTTTCCCAGCCTCAATCTCATCTCTCTATTTGCGTTCTGCTTCAATATCTGGTTGAACGGCGTCGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3350_3791_2:0:0_3:0:0_178/1
+TGCTGGTATGGATGACGCCGGATTTGAGAATCAAAAAGAGCTTACTAAAATGCCACTGGACAATCAGAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3234_3580_2:0:0_1:0:0_179/1
+GTGTTTTCCATAATAGACGCAACGCGAGCAGTAGCCTCCTTCTGTTGATAAGCAAGCATCTCATTTTGTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4141_4674_2:0:0_1:0:0_17a/1
+TGGAAGAGATTCTGTCTTTTCGTATGCAGGGCGTTGAGTTCGATACTGGTGATAAGTATGTTGACGGCCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_430_934_2:0:0_0:0:0_17b/1
+CTTTGGCCTCTATTAAGCTCATTCAGGCATCTGCGGTTTTGGATTTAACCGAAGATGATTTCGATTTTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2455_3023_2:0:0_0:0:0_17c/1
+ACCGGAGGCGGCTTTTTGACCGCCTCCAAACAATTTAGACATGGCGCCACCAGCAAGAGCAGAAGCAATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1518_1973_2:0:0_3:0:0_17d/1
+GCAAGATGCCATACAAAACAGGGTCGCCAGCAATATCGGTATAAGTCAAAGCACCATTAGCTTTAAGGTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4695_5207_1:0:0_0:0:0_17e/1
+GCTAATGATTCACACGCCGACTGCTATCAGTATTTTTGTGTTCCTGAGTATGGTACAGCTAATGGCCGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_617_1006_0:0:0_0:0:0_17f/1
+GTTTATTGCTGCCGTCATTGCTTATTATGTTCATCCCGTCAACATTCAAACGGCCTGTCTCATCATGGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4479_4950_1:0:0_1:0:0_180/1
+TTGCTGGAGGCCTCCACTATGAAATCGCGTAGAGGCTTTACTATTCAGCGTTTGATGAATGCAATGCGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3490_3952_0:0:0_3:0:0_181/1
+ATACGAAAGACCAGGTATATGCACAAAATGAGATGCTTGCTTATCAACAGAAGGAGTCTACTGCTCGCGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_319_728_0:0:0_3:0:0_182/1
+ACGCTCGACGCCATTAATAATGTTTTCCGTCAATTGCGCGCCTTCCATGATGAGACAGGCCGTTTGAATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1858_2282_1:0:0_1:0:0_183/1
+TCTTGCGCTAGTTCGTTTTCCGCCTACTGCGACTAAAGAGATTCAGTACCTTAACGCTAAAGGTGCTTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2004_2506_0:0:0_1:0:0_184/1
+TAGCTTTAGGTGTCTGTAAAACAGGTGCCGAAGAAGCTGGAGTAACAGCAGTGAGAACCAGCTTATCAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_602_1105_1:0:0_3:0:0_185/1
+TCCTGCTCCTGTTGAGTTTATAGCTGCCGTCATTGCTTATTATGTTCATCCCGTCAACATTCAAACGGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2952_3480_3:0:0_3:0:0_186/1
+AAGACGCCGACTTAATGCCAGCAATCTCTTTTTGAGTCTCATTTTGGATCTCGGCAATCTCTTTCTGATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2301_2843_0:0:0_1:0:0_187/1
+AAGTTAGACCAAACCCTGAAACCAACATAAACATTATTGCCCGGCGTACGGGGAAGGACGTCAATAGTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_22_543_0:0:0_1:0:0_188/1
+GCAGAAGTTAACACTTTCGGATATTTCTGATGAGTCGAAAAATTATCTTGATAAAGCAGGAATTACTACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_298_810_0:0:0_0:0:0_189/1
+TTTCTTCTGCGTCAGTAAGAACGTCAGTGTTTCCTGCGCGTACACGCAAGGTAAACGCGAACAATTCAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3859_4357_1:0:0_2:0:0_18a/1
+AAAAACCATTTTTCGTCCCCTTCGGGGCGGTGGTGTATAGTGTTATTAATATCAAGTTGGGGGAGCACAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2386_2882_0:0:0_1:0:0_18b/1
+TTATTCAGCGAAACCAATCCGCGGCATTTAGTAGCGGTAAAGTTAGACCAAACCATGAAACCAACATAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_686_1222_2:0:0_4:0:0_18c/1
+AGGCGCTGAATTTACGGAAAACATTATTAATGGCGTCGAGCGTGCGGTTAAAGCGGCTGAATTGTTCGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_237_775_3:0:0_1:0:0_18d/1
+GAAGTGGCTTAATATGCTTGGCACGTTCGTCAAGGACTGGTTTAGATATGCGTCACATTTTGAACATGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2683_3176_2:0:0_0:0:0_18e/1
+TCTTCGTTTCCGACTACCCTCCCGACTGCCTATGATGTTTAACCTTTGAATGGTCGCCATGATGGTGGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2587_2995_0:0:0_1:0:0_18f/1
+TCTGTCAACGCCGCTAATCAGGTTGTTTCTGTTGGTGCTGATATTGCTTTTGATGCCGACCCTAAATTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3811_4363_0:0:0_2:0:0_190/1
+TTCTCTAAAAACCATTTTTCGTCCCCATCGGGGCGGTGGACTATAGTGTTATTAATATCAAGTTGGGGGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_122_530_3:0:0_2:0:0_191/1
+GTCAGTAGCAATCCAAACTTTGTTACTCTTCAGAAAATCGAAATCATGTTCGGTTAAATCCAAAACGGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_236_669_1:0:0_0:0:0_192/1
+AGAAGTGGCTTAATATGCTTGGCACGTTCGTCAAGGACTGGTTTAGATCTGAGTCACATTTTGTTCATGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3470_4004_2:0:0_0:0:0_193/1
+GTGGGCGACTTCACGCCAGAATACGAAAGCCCAGGTATATGCACAAAATGAGATGCTTGCTTATCAACAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_571_1096_2:0:0_1:0:0_194/1
+TGAAATGGTAATAAGACGACCAATGTGACCAGCAAGGAAGCCAAGATGGGAAAGGTCATGCGGCATACGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_776_1244_1:0:0_2:0:0_195/1
+AGGAAACAGTGACGTTCTTACTGACGCAGAAGAAAACGTGCGTCAAAAATTACGTGCAGAAGGAGTGATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2455_2920_0:1:0_2:0:0_196/1
+ACTTCTGTAACTCCAGCTTCTTCGGCACCTGTTTTACAGACACCTAAAGCTACATCGTCAACGTTATATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1718_2250_0:0:0_2:0:0_197/1
+AGATTGCGATAAACGGTCACATTACATTTAACCTGACTATTCCACTGCAACACCTGAACGGACTGGAAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3190_3751_0:0:0_2:0:0_198/1
+CGTTGCAGGCTGGCACTTCTGCCGTTTCTGATAAGTTGCTTGATTTGGTTGGACTTGGTGGCAAGTCTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3331_3851_0:0:0_3:0:0_199/1
+CTGGTGCTGATGCTTCCTCTGCTGGTATGGTTGACGCCGGATTTGAGAATCAAAAAGAGCTTACTAAAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4766_5215_1:0:0_1:0:0_19a/1
+CCCAGCTTGGTAAGTTGGATTAAGCACTCCGTGGAGAGATTTGTCATTGTGAGCATTTTCATCCCGAAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2701_3198_1:0:0_3:0:0_19b/1
+CTGCCGACTGCCTATGATGTTTATCCTTTGAATGGTCGCCATGATGGTGGTTATTATACCGTCAAGGACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_627_1092_1:0:0_0:0:0_19c/1
+GCCGTCATTGCTTATTATGTTCATCCCGTCAACATTCAAACGGCCTGTCTCATCATGGCAGGCGCTGAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1013_1383_2:0:0_1:0:0_19d/1
+CAAACTGGCGCCGAGCGTATGCCGCATGACCTTTCCCATCTTGGGTTCCTTGCTGGTCAGATTGTTCGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1081_1579_1:0:0_0:0:0_19e/1
+TCTTATTACCATTTCAACTACTCCGGTTATCGCTGGCGACTCCTTCGAGATGGACGCGGTTGGCGCTCTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1460_2036_1:0:0_2:0:0_19f/1
+CAAGATGATGCTCGTTATGGTTTCCGTTGCTGCCATCTCAAAAACATATGGACTGCTCCGCTTCCTCCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3843_4322_3:0:0_2:0:0_1a0/1
+TATCGTGTTATTAATATCAAGTTGGGGGAGCACATTGTAGCATTGTGCCAATTCATCCATTACCTTCTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1481_2050_0:0:0_1:0:0_1a1/1
+CTGACCCTCAGCAATCTTAAACTTCTTAGACGAATCACCAGAACGGAAAACATCCTTCATAGAAATTACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1446_1947_4:0:0_2:0:0_1a2/1
+CTAAAGAGCTTAATCAAGATGATGCTCGTTCTGGTTTCCGTTGCTGCCCTGTCAAAAACATTTGGACTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1345_1917_1:0:0_5:0:0_1a3/1
+TTAGGGTTAAGGTACTTAATCTCTTTAGTCGCAGTAGGGGGAAAACGAACAAGCTCAAGAGTAAAGATAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1089_1572_0:0:0_4:0:0_1a4/1
+ATAGATGTGGTAGAAGTCGTGAATTGGCGAGAAAGCTCAGTCTGAGGAGGAAGCGGAGGAGTCCAAATGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1921_2362_1:0:0_3:0:0_1a5/1
+TTCGCTTGTACAACCCCTCAGCGGCAAAAATTAAAATTTTTACCGCTTCTGCGTTATAACCTCACACTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_659_1076_3:0:0_0:0:0_1a6/1
+CAATCTGACCAGCAAGGAAGCCAAGATGGGAAAGGTCATGCGGCATACGCTCGGCGCCAGTTTGAATATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2511_2948_1:0:0_0:0:0_1a7/1
+GTCAACGTTATATTTTGAAAGTTTGACGGTTAATGCTGGTAATGGTGGTTTTCTTCATTGCATTCAGATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2128_2637_1:0:0_3:0:0_1a8/1
+TTCTGGTGATTTGCAAGAACGCGTACTTAATCGCCACCATGATTATGACCAGTGTTTCCAGTCCGTTCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2085_2595_0:0:0_0:0:0_1a9/1
+CTTATCACCTTCTTGAAGGCTTCCCATTCATTCAGGAACCGCCTTCTGGTGATTTGCAAGAACGCGTACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3202_3682_0:0:0_3:0:0_1aa/1
+ATTACTTTGATTAGGTCATTGGTAAAATACTGACCAGCCGTTTGAGCTTGAGTAAGCATTTGGCGCAAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1146_1578_1:0:0_2:0:0_1ab/1
+CTCTCCTTCTTTCTCCATTGCGTCGTGGCCTTGCTATTGACTCTACTGTAGACATTTTTACTTTTTATGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3461_3903_0:0:0_1:0:0_1ac/1
+TGGCATTCAGTCGGCGACTTCACGCCAGAATACGAAAGACCAGGTATATGCACAAAATGAGATGCTTGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2879_3393_1:0:0_1:0:0_1ad/1
+ATCAGGTTATTAACGAGATTATTTGTCTCCAGCCACTTAAGTGAGGTGATTTATGTTTGGTGCTATTGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3563_4092_2:0:0_1:0:0_1ae/1
+ATAGAGAAAGAGTAGAAATGCCACAAGCCTCAATAGCAGGTTTAAGAGCCTCGATACGCTCAAAGTCAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4631_5121_1:0:0_1:0:0_1af/1
+GCTTCTTGGGAAGTAGCGACAGCTTGGTTTTTAGTGAGTTGTTCCATTCTATAGCTCCTAGACCTTTAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4545_5053_0:0:0_2:0:0_1b0/1
+TCAGCAAGGTCCATATCAGACTTTTTGTTAACGTATTTAGCCACATAGAAACCAACAGCCATATAACTGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2102_2673_2:0:0_1:0:0_1b1/1
+GGCTTCCCATTCAATCAGGAACCGCCTACTGGTGATTTGCAAGAACGCGTACTTATTCGCCACCATGATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4424_4979_2:0:0_1:0:0_1b2/1
+TCGCGATGAGTATAATTACCCCAAAAAGAAAGGTATTAAGGATGAGTTTTCAAGATTGGTGGAGGCCTCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4411_4876_2:0:0_0:0:0_1b3/1
+CTCTTACGGATATTCGCGATGAGTATAATTACCCCAAAAAGAAAGGTATTAAGGATGAGAGTTCAAGATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_906_1382_1:0:0_1:0:0_1b4/1
+AACCCTGAAACAAATGCTTAGGGAATTTATTGGTATCAGGGTTAATCGTGCCAAGAAAAGCGGCATGGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3494_4032_1:0:0_0:0:0_1b5/1
+CAAAGTCAAAATAATCAGCGTGACATTCAGAAGGGTAATAAGAACGAACCATAAAAAAGCCTCCAAGATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3517_3986_3:0:0_2:0:0_1b6/1
+AACCATAAAAAAGCCTCCAAGATTTGGAGGCATGAAAACATACAAATGGGAGGGTGTCAAACCTGACGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_636_1180_0:0:0_3:0:0_1b7/1
+AGCAAGGCCACGACGCACTGGAGAAAGACGGAGAGCGCGAACGGCGTCCATCTCGAAGTAGTCGCCAGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1802_2252_1:0:0_1:0:0_1b8/1
+GCAGATTGCGATAAACGGACACATTAAATTTAACCTGACTATTCCACTGCAACAACTGAACGGACTGGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4015_4468_2:0:0_2:0:0_1b9/1
+CTGATTATTTTGCCTTTGAGCGTATCGAGGCTCTTACACCTGCTATTGAGGCTTGTGGCATTTCTACTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3002_3515_1:0:0_1:0:0_1ba/1
+CGGTCAAAAAGCCGCCTCCGGTGGCATTCAAGGTGATGTGCTTGCTACCGATAACCATACTGTAGGCATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3831_4383_2:0:0_1:0:0_1bb/1
+AGTGCGTAACCGTCTTCTCGTTCTCTAAAAACCATTTTTCGTCCCCTTCGGGGCGGTGGTCTATAGTGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2366_2810_0:0:0_0:0:0_1bc/1
+TTATTGCCCGGCGTACGGGGAAGGACGTCAATAGTCACACAGTCCTTGACGGTATAATAACCACCATCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3593_4041_2:0:0_1:0:0_1bd/1
+CGATACGCACAAAGTCAAAATAATCAGCGTGACATTCAGAAGGGTAATAAGAACGAACCATAAAAAAGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_284_594_3:0:0_3:0:0_1be/1
+GGTATCCCCCAAAGTCCAGCGTAGCATCAACGCAAGCCTCAACGCAGCGACGAGCACGAGAGCGGTCAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_694_1158_1:0:0_2:0:0_1bf/1
+AATTTACGGAACACATTATTAATGGCGTCGAGCGTCCGGTTAAAGCCGCTGAATTGTTCGCGTTTACCTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3656_4122_2:0:0_0:0:0_1c0/1
+CCATCTGCTTATGGAAGCCAAGCATTGGGGATTGAGAAAGAGTAGAAATGCCACAAGCCTCAATAGCAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1839_2262_1:0:0_1:0:0_1c1/1
+CGAGTGGTCGGCAGATTGCGATAACCGGTCACATTAAATTTAACCTGACTATTCCACTGCAACAACTGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4733_5272_1:0:0_1:0:0_1c2/1
+CTCATCTCTCTTTTTGCGTTCTGCTTCAATATCTGGTTGAACGGCGTCGCGTGGTAACCCAGCTTGGTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3991_4443_1:0:0_3:0:0_1c3/1
+CTTATTACCCTTCTGAATGTCACGCTGATTATTATGACTTTGAGCGTATCGAGGCTCTTAAACCTGCTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4068_4551_0:0:0_0:0:0_1c4/1
+CCTGTCGCATTGCATTCATCAAACGCTGAATAGTAAAGCCTCTACGCGATTTCATAGTGGAGGCCTCCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3236_3794_1:0:0_2:0:0_1c5/1
+GGTTGGACTTGGTGGCAAGTCTGCCGCTGAAAAAGGAAAGGATACTCGTGATTATCTTGCTGCTGCATTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2950_3435_3:0:0_2:0:0_1c6/1
+GCGGTATTGCTTCTGCTCTTGCTTGTGGCGCCATGTCTAAATTGTTAGGAGGCGGTCACAAAGCCGCCTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4444_4991_0:0:0_2:0:0_1c7/1
+CCAAAAAGAAAGGTATTAAGGATGAGTGTTCAAGATTGCTGGAGGCCTCCACTATGAAATCGCGTAGAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_177_628_1:0:0_0:0:0_1c8/1
+CTTTGCGACCTTTCGCCATCAACTAACGATTCTGTCAAAACCTGACGCGTTGGATGAGGAGAAGTGGCTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_982_1480_1:0:0_2:0:0_1c9/1
+CCTTACTAGAGGATAAATTATGTCTAATATTCAAACTGGCGCCGAGCGTATGCCGCATGACCTTTCCCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2020_2542_0:0:0_1:0:0_1ca/1
+GTCTAAGAAGTTTAAGATTGCTGAGGGTCAGTGGTATCGTTATGCGCCTTCGTATGTTTCTCCTGCTTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4604_5048_0:0:0_0:0:0_1cb/1
+CCGATTAGAGGCGTTTTATGATAATCCCAATGCTTTGCGTGACTATTTTCGTGATATTGGTCGTATGGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2334_2823_1:0:0_1:0:0_1cc/1
+ACCAACATAAAGATTATTGCCCGGCGTACGGGGAAGGACGTCAATAGTCACACAGTCCTTGACGGTATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_385_918_1:0:0_2:0:0_1cd/1
+AAATCATGAGTCAAGTTACTGAACAATCCGTACGTTTCCAGACCGCTTTGGCCTCTATTACGCTCATTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3121_3630_2:0:0_0:0:0_1ce/1
+CTGAAGAGGCCGCCCCTAGTTTTGTTTCAGGTGCTATGGCTAAAGCTGGTAAAGGACTTCTTGAAGGTAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_812_1266_2:1:0_3:0:0_1cf/1
+CCATCCTTCATGAACTTAATCGACTTTTCACCATAAACGTGACGATGAGGGACATAACAAGTAAAAATGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_272_635_1:0:0_1:0:0_1d0/1
+AATGACGGCAGCAATCAACTCAACAGGAGCAGGAAAGCGAGGGTATCCCACAAAGTCCAGCGTACCATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4737_5203_2:0:0_4:0:0_1d1/1
+CCTGAGAATGGTACAGCTAATGGCCGTCTTCATTTCCATGCGGTGCATTTTATGCGGACACTTGCTACAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4029_4475_1:0:0_1:0:0_1d2/1
+TTTGAGCGTATCGAGGCTCTTAAACCTGCTATTGCGGCTTGTGGCATTTCTACTCTTTCTCAATCCCCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4090_4621_1:0:0_3:0:0_1d3/1
+AATCCCCAATGCTTGGCTTCCATAAGCAGATGGATAACCGCATCAAGCTCTTGGAAGAGAATCTGTCTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4630_5196_3:0:0_2:0:0_1d4/1
+TTAAGCACTCCGTGGACAGATTTGTCATTGTGAGCATATTCATCCCGAAGTTGCGGCTCCTTCTGATTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3008_3541_1:0:0_0:0:0_1d5/1
+TTCTGTTGATAAGCAAGCATCTCATTTTGTGCATATACCTGGTCTTTCGTATTCTGGCGTGAAGTCGCCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1334_1804_0:0:0_2:0:0_1d6/1
+ACGATTAACCCTGATACCAATAAAATCCCTAAGCATTTGTTTCAGGGTTATTTGAATATCTATAACAACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4247_4753_1:0:0_0:0:0_1d7/1
+GCTGTACCATACTCAGGCACACAAAAATACTGATAGCAGTCGGCGTGTGAATCATTAGCCTTGCGACCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4624_5113_2:0:0_2:0:0_1d8/1
+CTAATCCCAATGCTTTGCGTGACTATTTTCGTGATATTGGTCGTATGGTTCTTGCTGCCGAGTGTCGCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1604_2110_1:0:0_1:0:0_1d9/1
+TGGGAAGCCTTCAAGAAGGTGATAAGCAGGAGAAACATACGAAGGCGCATAACTATACCACTGACCCTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3189_3705_0:0:0_0:0:0_1da/1
+ACGTTGCAGGCTGGCACTTCTGCCGTTTCTGATAAGTTGCTTGATTTGGTTGGACTTGGTGGCAAGTCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2571_3036_0:0:0_1:0:0_1db/1
+CATTCAGATGGATACATCTGTCAACGCCGCTAATCAGGTTGTTTCTGTTGGTGCTGATATTGCTTTTGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2454_2885_1:1:0_0:0:0_1dc/1
+ACCTGATTCAGCGAAACCAATCCGCGGCATTTAGTAGCGGTAAAGTTAGACCAAACCATGAAACCAACAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2639_3200_1:0:0_1:0:0_1dd/1
+AGCCTGCAACGTACCTTCAAGAAGTCCTTTACCAGCTTTAGCCATAGCACCAGAAACAAAACTAGGTGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3024_3566_2:0:0_1:0:0_1de/1
+GGCAATCAAGGTGATGTGCTTGCTACCGATAACAATACTGTAGGCAAGGGTGATGCTGGTATTAAATCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3247_3815_1:0:0_2:0:0_1df/1
+AACCACACCAGAAGCAGCATCAGTGACGACATTAGAAATATCCTTTGCAGAAGCGCCAATAAGAGAAGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3223_3567_2:0:0_3:0:0_1e0/1
+AGTTGCTTGATTTGGTTGGACTTGGTGGCAAGTCTGCCGCAGATAAAGTAAAGGATACTCGTGATTATCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1692_2163_3:0:0_1:0:0_1e1/1
+CTGACAACCGTCCTTTACTTTTCATGCGCTCTAATCTCTGGGCATCTGGCTATGATGTTTATTGAACTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2788_3310_1:0:0_5:0:0_1e2/1
+TCATGAAATGCCTCAGCAAGATAATCACGAGTATCCTTTCCTTTATGAGCGGCAGACATGCCACCAAGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3894_4392_0:0:0_0:0:0_1e3/1
+TGCGGCAAAACTGCGTAACCGTCTTCTCGTTCTCTAAAAACCATTTTTCGTCCCCTTCGGGGCGGTGGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4515_5044_3:0:0_0:0:0_1e4/1
+TCCATATCTGACTTTTTGTTAACGTATTTAGCCACATAGAAACCAACAGCCATATAACTGGTAGCTTTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4404_4767_2:0:0_4:0:0_1e5/1
+GAATACGGCCATTAGCTGTACCATACTCAGGGACACAAAAATACTGATCGCAGTCTGCGTGTGAATCATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_225_637_0:0:0_1:0:0_1e6/1
+GCAATGACGGCAGCAATAAACTCAACAGGAGCAGGAAAGCGAGGGTATCCCAGAAAGTCCAGCGTACCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_543_956_2:0:0_3:0:0_1e7/1
+CGTCGCTGCGTTGAGGCTTTCGATTATGGTACGCTGGACTTTGTGGGATACCCTCGCTTTCCTGCTCCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1929_2438_3:0:0_0:0:0_1e8/1
+CTTATACCTATATTGCTGGCGACCCTGTTTTGTATGGCAACTTGCCGCCGCGTTAAAATTCTATGAAGGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_492_987_1:0:0_1:0:0_1e9/1
+GATTTTCTGACGAGTAACAAAGTTTGGATTGCTACTGACGGCTCTCGTGCTCGTCGCTGCGTTGAGGCTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3808_4333_2:0:0_1:0:0_1ea/1
+GGGCGGTGGTCTATAGTGTTATTAATATCACGTTGGGGGAGCACATTGTAGCATTGTGCCAATTCATCCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2304_2701_0:0:0_1:0:0_1eb/1
+TTATAACGCCGAAGCGGTAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACCAAGCGAAGCGCGGTAGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2008_2481_4:0:0_1:0:0_1ec/1
+TTCTGGTGATTCGTCTAAGAAGTTTCAGATTGCTGAGGGTCAGAGGTATCGTTATGCGCCTTGGTATGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3419_3973_2:0:0_0:0:0_1ed/1
+AGAGATTGCCGAGATTCAAAATGAGAGTCAAAAAGAGATTGCTGGCATTCAGTCGGCGACTTCACGCCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_383_987_3:0:0_1:0:0_1ee/1
+GTAAGGGGCCGAAGCCCCTGCAATTAAAATTGTTGACCACCTACAAACCAAAGACGAGCGCCTTTACGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1054_1487_0:0:0_2:0:0_1ef/1
+AACGGAAACGATAACGAGCATCATCTTGATTAAGCTCATTAGGGTTAGCCTCGGTACGTTCAGGCATCCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4040_4592_2:0:0_0:0:0_1f0/1
+CGAGGCTCTTAAACCTGCTATTGAGGCTTGTGGCAATTCTACTCTTTCTCACTCCCCAATGCTTGGCTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2907_3500_0:0:0_0:0:0_1f1/1
+GTCTTTCGTATTCTGGCGTGAAGTCGCCGACTGAATGCCAGCAATCTCTTTTTGAGTCTCATTTTGCATC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2716_3207_1:0:0_1:0:0_1f2/1
+AAGTGCCAGCCTGCAACGTACCTTCAAGAAGTCCTTTACCAGCTTTAGCCATAGCACCAGAAACAAAACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3328_3788_1:0:0_1:0:0_1f3/1
+GTGCTGGTGCTGATGCTTCCTCTGCTGGTATGGTTGACGCCGGATTTGAGAATCAAAAAGAGCTTACTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
diff -r 000000000000 -r e3fe061597ac test-data/hisat_input_2_reverse.fastq
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/hisat_input_2_reverse.fastq	Thu Jun 11 16:35:16 2015 -0400
@@ -0,0 +1,2000 @@
+@phiX174_4023_4544_0:0:0_0:0:0_0/2
+CATTGCATTCATCAAACGCTGAATAGTAAAGCCTCTACGCGATTTCATAGTGGAGGCCTCCAGCAATCTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_927_1458_2:0:0_2:0:0_1/2
+GCGCTCGTCTTTGGTATGTATGTGGTCCACAATTTTAATTGCAGGGGCTTCGGCCCCTTACTTGAGGATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2195_2674_0:0:0_4:0:0_2/2
+CAGTTGTTGCAGTGGAATAGTCAGGTTAAATTTAATGTGACCGTTTATCGCAATCTGCCGACCACTCGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4438_4887_3:0:0_0:0:0_3/2
+AACCATAAGGCCACGTATTTTGCAAGCTATTTAACTGGCGGCGATTGCGTACCCGACGACCAAAATTAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4418_4896_1:0:0_1:0:0_4/2
+GCATACTGTAACCATCAGGCCACGTATTTTGCAAGCTATTTAACTGGCGGCGATTGCGTACCCGACGACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1459_1934_0:0:0_1:0:0_5/2
+TATAAGTCAAAGCACCTTTAGCGTTAAGGTACTGAATCTCTTTATTCGCAGTAGGCGGAAAACGAACAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2580_3121_1:0:0_1:0:0_6/2
+GGGTTAGGAACATTAGAGCCTTGAATGGCAGATTTAATCCCAGCATCACCCATGCCTACAGTATTGTTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_268_822_1:0:0_2:0:0_7/2
+AAGGACTGGTTTAGATATGAGTCACATTTAGTTCATGGTAGAGATTCTCTTGTTGACATTTTAAAAGAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4373_4951_0:0:0_2:0:0_8/2
+GGCCACAACCAACCAGAACGTGAAAAAGCGTCCTGCGTGTATCTAACTGCGATGGGCATACTGTAACCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4817_5237_1:0:0_1:0:0_9/2
+CCCTAATTTTGGTCGTCGGGTACGCAATCGCCGCCAGTTAAATAGCATGCAAAATACGTGGCCTTATGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_498_1078_5:0:0_0:0:0_a/2
+ACCAATCTGACCAGCAAGGAAGCCAAGATGGGAAAGGTCATGCGGCATACGCTCGGCGCCAGTTTGAATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4746_5200_3:0:0_0:0:0_b/2
+TGTACAGCTAATGGCCGTCTTCATTTCCATGCGGTGCATTTTATGCGGACAGTTCCTACAGGTAGCGTAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4746_5155_3:0:0_0:0:0_c/2
+GGTACCGCTAATGGCCGTCTTCATTTCCATGGTGTGCATTTTATGCGGACACTTCCTACAGGTAGCGTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2025_2501_0:0:0_0:1:0_d/2
+TTAGGTGTCTGTAAAACAGGTGCCGAAGAAGCTGGAGTTACAGAAGTGAGAACCAGCTTATCAGAAAAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2574_3097_1:0:0_2:0:0_e/2
+TCAGATGGATACATCAGTCAACGCCGCTAATCAGGTTGTTTCTGTTGGTGCTGATATTGCTTTTGATGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1432_1904_0:0:0_0:0:0_f/2
+ACTGAATCTCTTTAGTCGCAGTAGGCGGAAAACGAACAAGCGCAAGAGTAAACATAGTGCCATGCTCAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_79_485_2:0:0_2:0:0_10/2
+AGGAATTACTACTGCTTGTTTACGAATTAAATCGAAGTGGACTGCAGGCGGACAATGAGAAAATTCGACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_696_1131_1:0:0_0:0:0_11/2
+TTTACGGAAAACATTATTAATGGCGTCGAGCGTCCGGTTAAAGCCGCTGACTTGTTCGCGTTTACCTTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1085_1572_3:0:0_1:0:0_12/2
+ATAGATGTGGTAGAAGTGGTCATTTGGCGAGAAAGCTCAGTCTCAGGAGGAAGCGGAGCAGTCCAAATGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2384_2869_1:0:0_2:0:0_13/2
+CCAATGCGCGGCATTTAGTAGCGGTCAAGTTAGACCAAACCATGAAACCAACATAAACATTATTGCCCGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_794_1377_1:1:0_1:0:0_14/2
+TACTGACGCAGAAGAAAACGTGCGTCAAACTTTACGTGCAGAAGGAGTGATGTAATGTCTAAAGGTAAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1015_1593_1:0:0_2:0:0_15/2
+GCTTGCCGACCCATAATGTCAATAGATGTGGTAGAAGTCGTCATTTGGCGAGAAAGCTCCGTCTCAGGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_182_623_0:0:0_1:0:0_16/2
+CGACCTTTCGCCATCAACTAACGATTCTGTCAAAAACTGACGCGTTGGATGAGGAGAAGTGGCTTAATAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_996_1455_1:0:0_1:0:0_17/2
+AAATTATGTCTAAAATTCAAACTGGCGCCGAGCGTATGCCGCATGACCTTTCCCATCTTGGCTTCCTTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_277_813_0:0:0_1:0:0_18/2
+TTTAGATATGAGTCACATTTTGTTCATGGTAGAGATTCTCTTGTTGACATTTTAAAAGAGCGTGGATTAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1822_2393_2:0:0_0:0:0_19/2
+GCGTTTCTTTGTTCCTGAGCAAGGCACTATGTTAACTCTTGCGCTTGTTCGTTTTCCGCCTACTGCGACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1839_2382_1:0:0_1:0:0_1a/2
+AGCATGGCACTATGTTTACTCTTGCGCTTGTTCGTTTTCCGCCTACTGCGACTAAAGAGATTCAGAACCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1140_1596_3:0:0_3:0:0_1b/2
+ATGGCGGTCTCCGTCTTTCTCCATTGCGTCGTGGCCTTGCTATTGACACTACTGTAGACATTTTTACTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1449_1972_1:0:0_1:0:0_1c/2
+ATGAGCTTAATCAAGATGATGCTCGTTATGGTTTCCGTTGCTGCCATCTCAAAAACATTTGGAGTGCTCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_99_645_0:0:0_2:0:0_1d/2
+TACGAATTAAATCGAAGTGGACTGCTGGCGGAAAATGAGAAAATTCGACCTATCCTTGCGCAGCTCGAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_17_543_2:0:0_2:0:0_1e/2
+ATGACGCAGAAGTTAACACTTTCGGATATTTCTGATGAGTCGAAAACTTATCTTGAAAAAGCAGGAATTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4185_4721_0:1:0_1:0:0_1f/2
+ATAGCAGTCGGCGTGTGAATCATTAGCCTTGCGACCCTCGGCAGCAAGAAGCATACGACCAATATCACGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3543_4018_1:0:0_2:0:0_20/2
+TCAGCGTGACATTCAGAAGGGTAATAAGAACGAACCATAACAAAGCCTCGAAGATTTGGAGGCATGAAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1664_2152_4:0:0_2:0:0_21/2
+TACGCGTTCTTGGAAATCACGAGAAGGCGGTTCCTGAATGAATGGGAAGCCTTCAAGAAGGTGATAAGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3435_3911_1:0:0_0:0:0_22/2
+CCTAGACAAATTAGAGCCAATACCATCAGCTTTACCGTCTTTCCAGAAATTGTTCCAAGTATCGGCAACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2738_3250_0:0:0_3:0:0_23/2
+GCCATGATGGTGGTTATTATACCGTCAAGGACTGTGTGACTATTGACGTCCTTCCCCGTACGCCGGGCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_772_1314_2:0:0_2:0:0_24/2
+TCAATATAACCAGTAGTGTTAACAGTCGGGAGCGGAGAGGCATTAACACCATCCTTCATGAACTTAATCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4676_5213_0:0:0_1:0:0_25/2
+CAGCTTGGTAAGTTGGATTAAGCAGTCCGTGGACAGATTTGTCATTGTGAGCATTTTCATCCCGAAGTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3271_3795_1:0:0_2:0:0_26/2
+CAGTGACGACATTAGAAATATCCTTTGCAGTAGCGCCAATATGAGAAGAGCCATACCGGAGATTCTGCGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3137_3611_0:0:0_1:0:0_27/2
+TAGTTTTGTTTCTGGTGCTATGGCTAAAGCTGGTAAAGGACTTCTTGAAGGTACGTTGCAGGCTGGCACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3971_4458_1:0:0_0:0:0_28/2
+AGGCTTTTTTATGGTTCGTTCTTATAACCCTTCTGAATGTCACGCTGATTATTTTGACTTTGAGCGTATC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2307_2855_1:0:0_1:0:0_29/2
+TTAGTATCGGTAAAGTTAGACCAAACCATGAAACCAACATAAACATTATTGCCCGGCGTACGGGGAAGGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_568_1192_1:0:0_0:0:0_2a/2
+ATGGTACGCTGGACTTTGTGGGATACCCTCGCTTTCGTGCTCCTGTTGAGTTTATTGCTGCCGTCATTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3607_4112_0:0:0_2:0:0_2b/2
+CCGAGATTATGCGCCAAATGCTTACTCAAGCTCAAACGGCTGGTCAGTATTTTACCAATGACCAAATCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2296_2767_1:0:0_0:0:0_2c/2
+GTGTGAGGTTCTAACGCCGAAGCGGTAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACCAAGCGAAGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1636_2263_0:0:0_1:0:0_2d/2
+GGGAGTGGTCGGCAGATTGCGATAAACGGTCACATTAAATTTAACCTGACTATTCCACTGCAACAACTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3319_3790_0:0:0_2:0:0_2e/2
+CTTGGGAGCGTGCTGGTGCTGATGCTTCCTCTGCTGGTATGGTTGACGCCGGATTTGAGAATCAAAAAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1043_1520_4:0:0_1:0:0_2f/2
+CTTTCCCATCTTGGCTTCCTTGCTGTACAGCTTGGTCGTCTTATTACCATTTCAACTACACCGGTTATCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4595_5067_1:0:0_1:0:0_30/2
+CTCCTAGACCTTTAGCAGCAAGGTCCATATCTGACTTTTTGTTAACGTATTTAGCCACATCGAAACCAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_787_1273_0:1:0_3:0:0_31/2
+ACGTTCTTACTGACGCAGAAGAAAACGTGCGTCAAAATTTACGTGCAGAAGGAGTGATGTAATGTCTAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2530_2954_5:0:0_2:0:0_32/2
+ACCGCCAGCAATAGCACCAAACATAAATCACCTCACTTAAGTGGCTTGAGACAAATAATGTCTTTAATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4131_4623_2:0:0_2:0:0_33/2
+ATCAAGCTCTTGGAAGAGATTGTGTCTTTTCGTATGCAGGGCGTTGAGTTCGATAATGGTGATATGTATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1097_1538_1:0:0_1:0:0_34/2
+ACTACTCCGGTTATCGCTGGCGACTCCTTCGAGATGGACGCCGTTGGCGCTCTCCGTCTTTCTCCCTTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1220_1777_2:0:0_0:0:0_35/2
+GCCTAACGACGTTTGGTCAGTTCCATCAACATCATAGCCAGATGCCCAGAGATTAGAGCGCATGACAAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1116_1546_1:0:0_3:0:0_36/2
+GCTACTCCTTCGAGATGGACGCCGTTGGCGCTCTCCGTCTTTCTCCATTGCGTCGTGGCCTTGCTATTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1266_1732_2:0:0_1:0:0_37/2
+CCAGAGATTAGCGCGCATGACAAGTAAAGGACGGTTGTCAGCGTCATAAGAGGTTTTACCTCCAAATGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2757_3237_1:0:0_1:0:0_38/2
+CCAAATCAAGCAACTTATCAGAAACGGCAGAAGTGCCAGCCTGCAACGTAGCTTCAAGAAGTCCTTTACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3501_3920_1:0:0_0:0:0_39/2
+CGGTTATTTCCTAGACAAATTAGAGCCAATACCATCAGCTTTACCGTCTTTCCAGAAATTGTTCCAAGTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_30_492_1:0:0_2:0:0_3a/2
+TAACACTTTCGGAAATTTCTGATGAGTCGAAAAATTATCTTGATAAAGCAGGAATTACTACTGCTTGTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2753_3287_0:0:0_1:0:0_3b/2
+ATCACGAGTATCCTTTCCTTTATCAGCGGCAGACTTTCCACCAAGTCCAACCAAATCAAGCAACTTATCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3381_3868_2:0:0_1:0:0_3c/2
+CAAAAAGAGCTTACTAAAATGCAACTGGACAATGAGAAAGAGATTGCCGAGATGCAAAATGAGACTCACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3151_3605_1:0:0_2:0:0_3d/2
+AACCTGCTGTAGCTTGGAAAGATTGGTGTTTTCCCTAATAGACGCAACGCGAGCAGTAGACTCCTTCTGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1639_2047_1:0:0_1:0:0_3e/2
+ACCCTCAGCAATCTTAAACTTCTTAGACGAATCACCAGAACGGCAAACATCCTTCATAGAAATTTCACGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_925_1373_0:0:0_1:0:0_3f/2
+AGGCGCTCGTCTTTGGTATGTAGGTGGTCAACAATTTTAATTGCAGGGGCTTCGGCCCCTTACTTGAGGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3106_3747_2:0:0_0:0:0_40/2
+CTACTGTTCCTAACCCTGATGAGGCCGCCCCTAGTTTTGTTTCTGGTGCTATGGCAAAAGCTGGTAAAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2717_3213_1:0:0_0:0:0_41/2
+CGGCAGAAGTGCCAGCCTGCAACGTACCTTCAAGAAGTCCTTTACCAGCTTTAGCCATAGCACCAGAAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4734_5225_0:0:0_2:0:0_42/2
+CGCGTCGTAACCCAGCTTGGTCAGTTGGATTAAGCACTCCGTGGACAGATTAGTCATTGTGAGCATTTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_435_938_2:0:0_2:0:0_43/2
+GCCTCTATTAAGCTCATTCAGGCTTCTGGCGTTTTGGATTTAACCGAAGATGATTTCGCTTTTCTGACGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2230_2750_1:0:0_1:0:0_44/2
+TGTGACCGTTTATCGCAATCTGCCGACCACTCGCGATTCAATCATGACTTCGTGATAAAAGCTTGAGTGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2857_3359_2:0:0_4:0:0_45/2
+TGCCGCGGATTGTTTTCGCTGAATCAGGTTATTAAAGAGATTATATGTCTCCAGCCACTTAAGTGAGGTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3261_3790_1:0:0_1:0:0_46/2
+GCTGAAAAAGGAAAGGATACTCGTGATTATCTTGCTGCTGCATTTCCTGAGCTTAATGCTTGGGAGCGTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3627_4066_1:0:0_2:0:0_47/2
+CTTACTCAAGCTCAAACGGCTGGTCAGTATTTTACCAAAGACCAAATCAAAGAAATGACTCGCAAGGTTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2501_2976_3:0:0_1:0:0_48/2
+AAGCTACATCGTCAACGTTCTATTTTGATAGTTTGCCGGTTAATGCTGGTAATGGTGGTTTTCATCATTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1065_1576_3:0:0_0:0:0_49/2
+CTGGTCAGATTGGTGGACTTATTACCATTTCAACTACTCCGGTTATCGCTGTCGACTCCTTCGAGATGGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1080_1550_0:0:0_0:0:0_4a/2
+TTTGGCGAGAAAGCTCAGTCTCAGGAGGAAGCGGAGCAGTCCAAATGTTTTTGAGATGGCAGCAACGGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1822_2280_3:0:0_0:0:0_4b/2
+GAAGTCATGATTGAATCGCGAGTGGTCGGCAGATTGCGATAAACGGTCACATTAAATTTAACCTGACTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1170_1634_1:0:0_0:0:0_4c/2
+GTGGCCTTGCTATTGACTCTACTGTAGACATTTTTACTTTTTATGTCCCTCATCGTCACGTTAATGGTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2237_2837_2:0:0_2:0:0_4d/2
+GACCAAACCATGAAACCACCATAAACATTATTGCGCGGCGTACGGGGAAGGACGTCAATAGTCACACAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2745_3240_3:0:0_1:0:0_4e/2
+TGGTGGTTAATAAACCGTCAAGGACTGTGTGACTATTGACGTCCTTCCCCGTACGCCTGGCAATAATGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1141_1597_0:0:0_2:0:0_4f/2
+AGCAGCTTGCAGACCCATAATGTCAATAGATGTGGTAGAAGTCGTCATTTGGCGCGAAAGCACAGTCTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4456_4963_0:0:0_1:0:0_50/2
+GTATTAAGGATGAGTGTTCAAGATTGCTGGAGGCCTCCACTATGAAATCGCGTAGAGGCTTTACTATTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3482_4043_0:0:0_0:0:0_51/2
+ACGCCAGAATACGAAAGACCAGGTATATGCACAAAATGAGATGCTTGCTTATCAACAGAAGGAGTCTACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2303_2790_1:0:0_0:0:0_52/2
+GTTATAACGCCGAAGCGGTAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACCAATCGAAGCGCGGTAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1662_2049_1:0:0_1:0:0_53/2
+TGACCCTCAGCAATCTTAAACTTCTTAGACGAATCACCAGAACGGAAAACATCCTTCAAAGAAATTTCAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4311_4753_2:0:0_2:0:0_54/2
+GCTGTACCATAGTCAGGCACACAAAAATACTTATAGCAGTCGGCGTGTGAATCATTAGCCTTGCGACCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1415_2014_1:0:0_2:0:0_55/2
+CCGTGGATGCCTGACCGTACCGAGGCTAACCCTAATGAGCTTAATCAAGATGATGGTCGTTATGGTTTCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4647_5144_1:0:0_2:0:0_56/2
+GCGGCTCATTCTGATTCTGAACCGCTTCTTGGGAAGAAGCGACAGCTTGGTTTTTAGTGAGTTGTTCCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2230_2730_1:0:0_1:0:0_57/2
+TGTGACCGTTTATCGCAATCTGCCGACCACTCGCGATTCCATCATGACTTCGTGATAAAAGATTGAGTGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3424_3922_2:0:0_2:0:0_58/2
+GACGGTTATTTCCTAGACAAATTAGAGCCAATACCATCAGCTTTACCTTCTTTCCAGCAATTGTTCCAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1838_2329_0:0:0_1:0:0_59/2
+GAGCATGGCACTATGTTTACTCTTGCGCTTGTTCGTTTTCCGCCTACTGCGACTAAAGAGATTCAGTACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1728_2221_1:0:0_1:0:0_5a/2
+AACCTGACTATTCCACTGCAACAAGTGAACGGACTGGAAACACTGGTCATAATCATGGTGGCGAATAAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4544_5065_0:0:0_0:0:0_5b/2
+GCGACAGGCTCATGCTGATGGTTGGTTTATCGTTTTTGACACTCTCACGTTGGCTGACGACCGATTAGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1104_1583_0:0:0_0:0:0_5c/2
+CGGTTATCGCTGGCGACTCCTTCGAGATGGACGCCGTTGGCGCTCTCCGTCTTTCTCCATTGCGTCGTGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3724_4250_1:0:0_1:1:0_5d/2
+AACAGATACAAACTAATCACGAACGTCAGAAGCAGCCTTATGGCCGTCAACATACCTATCACCATTATCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3060_3631_2:0:0_3:0:0_5e/2
+ACTGAAGGCATGGGTGATGCTGGTATTAAATCTGCCATTCAAGGCTCTAATGTTCGTAACCCTGATGAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4390_4869_3:0:0_3:0:0_5f/2
+TTTGCAAGGTATTTAACTGGCGGCGATTGCGTACCGGACGAGCAAAATTAGGGTCAACGCTACCTGTAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1103_1655_2:0:0_1:0:0_60/2
+CATCACGGTAAGGCTGCATGAAGTAATCACGTTCTTGGTCAGTATGCAAATTAGCATAAGCAGCTTGCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4367_4818_0:0:0_2:0:0_61/2
+GGTCAAGGCTACCTGTAGGAAGAGTCCGCATAAAATGCACCGCATGGAAATGAAGACGGCCATTAGCTGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3356_3831_1:0:0_0:0:0_62/2
+TATGGTTGACGCCGGATTTGAGAATCAAAAAGATCTTACTAAAATGCAACTGGACAATCAGAAAGAGATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4839_5348_0:0:0_1:0:1_63/2
+CGCAATCGCCGCCAGTTAAATAGCTTGCAAAATACGTGGCCTTATGGTTACAGTATGCCCATCGCAGTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_460_981_0:0:0_3:0:0_64/2
+GGCCGACGCCCCTGCAATTAAAATTGTTGACCACCTACATACCAAAGACGAGCGCCTATACGCTTGCGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2474_3007_1:0:0_0:0:0_65/2
+CTTCGGCACCTGTTTTACAGACACCTAAAGCTACATCGTCAACGTTATATTTTTATAGTTTGACGGTTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1318_1862_0:0:0_1:0:0_66/2
+CAAGAGTAAACATAGTGCCATGCTCAGGAACAAAGAAACGCGGCCCAGAATGTTTATAGGTCTGTTGAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4777_5207_1:0:0_0:0:0_67/2
+GGTAAGTTGGATTAAGCACTCCGTGGACAGATTTGTCATTGTGAGCATTTTCATCCCGAAGTTGCGGCTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3446_3931_3:0:0_0:0:0_68/2
+TCAAAAAGAGATTGCTGGCATTCAGTCGGCGACTTCACGCCCTAATACGAAAGACGAGGTATATGCACAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1556_2009_1:0:0_1:0:0_69/2
+AACGGAAAACATCCTTCATAGAAATTTCACGCGGCGGCAAGTAGCCATACAAAACAGGGTCGCCAGCAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4643_5097_0:0:0_1:0:0_6a/2
+TGACTATTTTCGTGATATTGGTCGTATGGTTCTTGCTGCCGAGGGTCGCAAGGCTAATGATTCACACGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3838_4331_1:0:0_0:0:0_6b/2
+AAGCTGTTGCCGATACTTGGAACAATTTCTGGAAAGACGGTAAAGCTGATGGTCTTGGCTCTAATTTGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2461_2906_2:0:0_2:0:0_6c/2
+GTTACTCCCGCTTCTTGGGCACCTGTTTTACAGACACCTAAAGCTACATCGTCAACGTTATATTTTGATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2096_2616_0:0:0_0:0:0_6d/2
+AGAAACAACCTGATTAGCGGCGTTGACAGATGTATCCATCTGAATGCAATGAAGAAAACCACCATTACCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1033_1590_0:0:0_2:0:0_6e/2
+TGCAGACCCATAATGTCAATAGATGTGGTAGAAGTCGTCATTTGGCGAGCAAGCTCAGTCTCAGTAGGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3855_4385_1:0:0_0:0:0_6f/2
+AAACTGCGTAACCGTCTTCTCGTTCTCTAAAAACCATTTTTCGTCCCCTTCGGGGCGGTGGTCTATAGTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4631_5084_1:0:0_3:0:0_70/2
+GTTGTTCCATTCTTTAGCTCCTAGACCTTTAGCAGCCAGGTCCATATCTGACTTATTGTAAACGTATTTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1557_2041_1:0:0_2:0:0_71/2
+AGCCATCTTAAACTTCTAAGACGAATCACCAGAACGGAAAACATCCTTCATAGAAATTTCACGCGGCGGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_332_792_3:0:0_3:0:0_72/2
+AAGATCGTGGATTACTATCTGAGTCCGATGCTGTTCAACCACTCATAGGTAAGAAATCATGAGACAAGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4411_4951_2:0:0_2:0:0_73/2
+GGCGACAACCAACCAGAACGTGAAAAAGGGTCCTGCGTGTAGCGAACTGCGATGGGCATACTGTAACCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1971_2492_1:0:0_4:0:0_74/2
+TGTAAAACAGGAGCCTAAGAAGCAGGCGTAACAGAAGTGAGAACCAGCTTATCAGAAAAAAAGTTTGAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_544_971_1:0:0_2:0:0_75/2
+CCTGCAATTAAAATTGTTGACCACCTACATACCAAAGACGAGCTCGTTTACGCTTGCCTTTAGTACCTCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2065_2660_3:0:0_1:0:0_76/2
+GCCTTCGTATGTTTCACCTGCTTATCACCTTCTTGAAGGCTTGCCATTCATTCAGGAACCGCCTTCAGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4843_5331_1:0:0_1:0:0_77/2
+ATCGCCGGCAGTTAAATAGCTTGCAAAATACGTGGCCTTATGGTTACAGTATGCCCATCGCAGTTCGCTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2685_3146_1:0:0_0:0:0_78/2
+AACAAAACTAGGGGCGGCCTCATCAGGGTTAGGAACATTAGAGCCTTGAATGGCAGATTTAATACCAGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_21_568_3:0:0_0:0:0_79/2
+CGCAGAAGTTAACACTTTCGGATATTTGTGATGAGTCGAAAAATTATCTTGATAAAGGAGGCATTACTAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3074_3602_0:0:0_1:0:0_7a/2
+CTGCTGTTGCTTGGAAAGATTGGTGTTTTCCATAATAGACGCAACGGGAGCAGTAGACTCCTTCTGTTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1293_1770_0:0:0_3:0:0_7b/2
+GACGATTGGTCAGTTCCATCAACATCATAGCCAGATGCCCAGAGATTAGAGCGCATGACACGTCAAGGAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2090_2638_0:0:0_0:0:0_7c/2
+CAAAAGCAATATCAGCACCAACAGAAACAACCTGATTAGCGGCGTTGACAGATGTATCCATCTGAATGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4261_4732_0:0:0_2:0:0_7d/2
+TAATGGATGAATTGGCACAATGCTACAATGTGCTCCCCCAACTTGATATTAATAACACTATAGACCACCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2873_3466_0:0:0_0:0:0_7e/2
+ATGCCAGCAATCTCTTTTTGAGTCTCATTTTGCATCTCGGCAATCTCTTTCTGATTGTCCAGTTGCATTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1064_1508_0:0:0_4:0:0_7f/2
+GCTGGTCAGATTGGTCGTCTTATTACCATTTCAACTACTCCGGTTATCGCTGGCGACTCCTTCGAGATGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2891_3381_1:0:0_1:0:0_80/2
+GATTCTCAAATCCGGCGTCAACCATACCAGCAGAGGAAGCATCAGCACCAGCACGCTCCCAAGCATTCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4488_4971_0:0:0_2:0:0_81/2
+GCCTCCACTATGAAATCGCGTAGAGGCTTTACTATTCAGCGTTTGATGAATGCAATGCGACAGGCTCATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2743_3227_0:0:0_0:0:0_82/2
+CAACTTATCAGAAACGGCAGAAGTGCCAGCCTGCAACGTACCTTCAAGAAGTCCTTTACCAGCTTTAGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3967_4438_0:0:0_1:0:0_83/2
+TTGGAGGCTTTTTTATGGTTCGTTCTTATTACCCTTCTGAATGTCACGCTGATTATTTTGACTTTGAGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1870_2375_0:0:0_2:0:0_84/2
+AAACCTACCGCGCTTCGCTTGGACAACCCCTCAGCGGCAAAAATTAAAATATTTACCGCTTCGGCGTTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1341_1859_1:0:0_2:0:0_85/2
+ACCCTGATACCAATAAAATCCCTAAGCATTTGTTTCAGGGTTATTTGAATATCTCTAACAACTATTTTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_468_969_2:0:0_3:0:0_86/2
+TGCAATTAAAATTGTTGACCACCTACATACCAAAGACGAGCGCCTTTACGCTTGCCTTTATTAGCTGGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_619_1102_0:0:0_0:0:0_87/2
+AGTAGTTGAAATGGTAATAAGACGACCAATCTGACCAGCAAGGAAGCCAAGATGGGAAAGGTCATGCGGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4468_5007_1:0:0_3:0:0_88/2
+AGTGTTCAAGCTTGCTGGAGGCCTCCACTATGAAATCGCGTAGAGGCTTTACTATTCAGCGTTTGATGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_354_848_1:0:0_3:0:0_89/2
+GTCCGCTGCTGTTCAACCACTAATAGGTAAGAAATCATGAGTCAAGTTACTGAACAATCCGTACGTTTCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1973_2503_1:0:0_1:1:0_8a/2
+CCGCCGCGTGAAATTTCTATGAAGGATGTTTTCCGTTCTGGTGATTCGTCTAAGAAGTTTAAGCTTGCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1674_2081_2:0:0_1:0:0_8b/2
+GAGAAACATACGAAGGCGCATAACGATACCACTGACCCTCAGCAATCTTAAACTTGTTAGACGAATCACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_684_1239_1:0:0_0:0:0_8c/2
+TCACCATAAACGTGACGATGAGGGACATAAAAAGTAAAAATGTCTACAGTAGAGTCAATAGCAAGGCCAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4240_4711_1:0:0_1:0:0_8d/2
+TTGTATCTGTTACTGAGAAGTTAATGGATGAATTGGCCCAATGCTACAATGTGCTCCCCCAACTTGATAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2991_3536_3:0:0_1:0:0_8e/2
+TTGTTTGGAGGCGGTCAAACAGCCGCCTCCGGTGGCATTCAATGTGCTGTGCTTGCTACCGATAACAATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3052_3562_0:0:0_1:0:0_8f/2
+ATAACAATACTGTAGGCATGGGTGATGCTGGTATTAAATCTGCCATTCAAGGCTCTAATGTTCCTAACCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3846_4285_4:0:0_2:1:0_90/2
+TAGCATTTTGCCCATTCATCCATTAACTTCTCAGTAACAGATACAAACTAATCACGAACGTCAGAAGCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2675_3179_1:0:0_0:0:0_91/2
+TTGAGTCTTCTTCGGTTCCGACTACCCTCCCGAGTGCCTATGATGTTTATCCTTTGAATGGTCGCCATGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2468_2921_1:0:0_1:0:0_92/2
+CAGCTTCTTCGGCACCTGTTTTACAGACACCTAAAGCTACATCGTCCACGTTATATTTTGATAGTTTGAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_462_964_1:0:0_1:0:0_93/2
+GCCGTTTTGGATTTACCCGAAGATGATTTCGATTTTCTGACGAGTAACAAAGTTTGGATTGCTACTGACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2392_2881_1:0:0_1:0:0_94/2
+GATTCAGCGAAACCAATCCGCGGCATTTAGAAGCGGTAAAGTTAGACCAAACCATGAAACCAACATAAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1015_1473_0:0:0_0:0:0_95/2
+AACTGGCGCCGAGCGTATGCCGCATGACCTTTCCCATCTTGGCTTCCTTGCTGGTCAGATTGGTCGTCTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4874_5385_0:0:0_0:0:0_96/2
+GTGGCCTTATGGTTACAGTATGCCCATCGCAGTTCGCTACACGCAGGACGCTTTTTCACGTTCTGGTTGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3405_3927_1:0:0_1:0:0_97/2
+ATCCTGACGGTTATTTCCTAGACAAATTAGAGCCAATACCATCAGCTTTACCGTCTTTCCAGAAATTGTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2441_2902_2:1:0_1:0:0_98/2
+AAATAATCTCTTTAATAACCTGATTCAGCGAAACCAATCCGCGGCATTTAGTAGCGGAAAAGTTAGACCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_750_1259_1:0:0_1:0:0_99/2
+TCATGAACTTAATCCACTGTTCACCATAAACGTGACGATGAGGGACATAAAAAGTAAAACTGTCTACAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2633_3161_2:0:0_3:0:0_9a/2
+CTTTTGATGCGGACCCTAAATTTTTTGCCTGTTTGGTTCGCTTTGAGTCTTCTTCGGTTCCGACAACCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3304_3817_0:0:0_1:0:0_9b/2
+TCAACCACACCAGAAGCAGCATCAGTGACGACATTAGAAATATCCTTTGCAGTAGCGCCAATATGAGAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3934_4328_1:0:0_1:0:0_9c/2
+CCTCCCAATTGTATGTTTTCATGCCTCCAAATCTTGGAGGGTTTTTTATGGTTCGTTCTTATTACCCTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_858_1332_1:0:0_4:0:0_9d/2
+CCAAGAAAAGCGGCATGGTCAATATAACCCGTCGTGTTAACAGACGGGAGAGGAGTGGCAATAACACCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2833_3368_1:0:0_1:0:0_9e/2
+GGCGTCAACCATACCAGCAGAGGAAGCATCATCACCAGCACGCTCCCAAGCATTAAGCTCAGGAAATGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1923_2395_1:0:0_0:0:0_9f/2
+CTTTGACTTATACCGATATTGCTGGCGACCCTGTTTTGTATGGCCACTTGCCGCCGCGTGAAATTTCTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1651_2127_2:0:0_1:0:0_a0/2
+TGATGATATTTCTTCATTTGGAGGTCAAACCTCTTATGACGCTGACAACCGTCCTTTACTTGTCATGCGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3373_3856_1:0:0_1:0:0_a1/2
+CAAGTATCGGCAACAGCTTAATCAATACCATGAAAAATATCAACCACACCAGAAGCAGCATCAGTGACGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_263_758_1:0:0_1:0:0_a2/2
+AAACGCGAACAATTCCGCGGCTTTAACCGGACGCTCGACGCCATTAATAATGTTTTCCGTAAATTCAGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3981_4496_2:0:0_1:0:0_a3/2
+AGTGGAGGCCTCCAGCAATCTTGAACACTCATCCTTAATACCATTCTTTTTGGGGTAATTATACTCATCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_728_1231_3:0:0_0:0:0_a4/2
+TCCGGTTAAAGCCGCAGCATTGTTCGCGTTTACCTTGCGAGTACGCGCAGGAAACACTGACGTTCTTACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3523_4034_2:0:0_2:0:0_a5/2
+CTCAAAGTCAAAATAATCAGCGTTACATTCAGAAGGGTCATAAGAACGAACCATAAAAAAGCCTCCAAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4079_4503_2:0:0_3:0:0_a6/2
+ATTTCATAGTGGAGGCCTCCAGCAATCATGAACCCTCATCCTTAATACCTTTCTTTTTGGGGAAATTATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_562_1069_2:0:0_1:0:0_a7/2
+ACCCGCAAGGAAGCCAAGATGGGAAAGGTCATGCGGCATACGCTCGGCGCCAGTTTGAATATTAGACATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2942_3462_0:0:0_1:0:0_a8/2
+TATTGCTGGCGGTATTGCTTCTGCTCTTGCTGGTGGCGCCATGTCTAAATTGTTTGGAGGCGGTCAAAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2320_2820_1:0:0_3:0:0_a9/2
+GTAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACCAAGCGAAGCGCGGTAGGTTTTCTGCTAAGGAGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2745_3285_1:0:0_2:0:0_aa/2
+CACGAGTATCCTTTCCTTTATCAGCGGCAGACTTGCCAGCAAGTCCAACCAAATCAAGCAAGTTATCAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4824_5276_2:0:0_1:0:0_ab/2
+CAATCTCATCTCTCTTTTTGCGTTCTGCTTCAATATCTGGTTGAACGGCGTCGCGTCTTAACCCAGCTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3329_3814_0:0:0_1:0:0_ac/2
+TGCTGGTGCTGATGCTTCCTCTGCTGGTATGGTTGACGCCGGATTTGAGAATCAAAAAGAGCTTACTAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4200_4650_0:1:0_0:0:0_ad/2
+AATAGTCACGCAAAGCATTGGGATTATCATAAAACGCCTCTAATCGGTCGTCAGCCAACGTGAGAGTGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4138_4609_4:0:0_0:0:0_ae/2
+AATCGGTCGTCAGCCAACGTGAGAGTGTCAAAAACGATAAACCAACCATCAGCATGAGCCTGTCGCATTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3169_3682_3:0:0_0:0:0_af/2
+ATTTCTTTGATTTGGTCATTGGTAAAATACTGACCAGCCGTTTGAGCTTGAGTAAGCATTTGGCGCATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_328_784_1:0:0_2:0:0_b0/2
+GTGTTTCCAGCGCGTACACGCAAGGTAAACGCGAACAATTCAGCGGCATTAACCGGACGCTCGACGCCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4769_5219_1:0:0_1:0:0_b1/2
+TTTCGATGCGGTGCATTTTATGCGGACACTTCCTACAGGTAGCGTTGACCCTAATTTTGGTCGTCGGGTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1570_2095_2:0:0_3:0:0_b2/2
+TATTGACATTATGGGAGTGCAAGCTGCTTATGCTAATTTGCATACTGACCAAGAACGTGATTACTTCATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_261_824_0:0:0_1:1:0_b3/2
+GTTCGTCAAGGACTGGTTTAGATATGAGTCACATTTTGTTCATGGTAGAGATTCTCTTGTTGACATTTTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4563_4949_3:0:0_0:0:0_b4/2
+GGTTGGTTTATCGTTTTTGCGACTCTCACGTTGGCTGACGCCCGATTAGAGGCGTTTTATGATAATCCCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1980_2534_2:0:0_2:0:0_b5/2
+AAACTATCAAAATATACCGTTGACGATGTAGCTTTAGGAGTCTGTAAAACAGGTGCCGAAGAAGCTGGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3168_3623_1:0:0_3:0:0_b6/2
+TTGGCGCATAAACTCGGAAACCTGCTGTTGCTTGGAAATATTTGTGTTTTCCATAATAGACGCAACGCGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2339_2763_1:0:0_1:0:0_b7/2
+CCGCTGAGGGGTTGACCAAGCGAAGCGCGGTAGGTTTTCTGCTTAGGAGTTTAATCCTGTTTCAGACTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3863_4342_5:0:0_2:0:0_b8/2
+ATTCTTGAAAGACGGTAAAGCTGATGTTATTGGCTCTAATTTGTCTAGGAACTAACCGTCAGGCTTGACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1551_2176_2:0:0_0:0:0_b9/2
+GTCATAATCATGGTGGCGAATAAGTACGCGTTCTTGCAAATCACCAGAAGGCGGTTCCTGAATGAATGGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1215_1673_2:0:0_0:0:0_ba/2
+TCGCTCATCGTCACGTTTATGGTGAACAGTGGATTAAGTTCATGAAGGATGGTGTTAATGCCACTCGTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_228_718_0:0:0_0:0:0_bb/2
+CCATTAATAATGTTTTCCGTAAATTCAGCGCCTTCCATGATGAGACAGGCCGTTTGAATGTTGACGGGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2551_3037_0:0:0_1:0:0_bc/2
+AATGGTGGTTTTCTTCATTGCATTCAGATGGATACATCTGTCAACGCCGCTAATCAGGTTGTTTCTGTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1040_1532_2:0:0_0:0:0_bd/2
+GACCTTTCCGATCTTGGCTTCCTTGCTGGTCAGATTGGTCGTCTTATTACCATTTCAACTACTCGGGTTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1632_2185_1:0:0_2:0:0_be/2
+GAAACACTGGTCATAAACATGGTGGCGAATAAGTACGCGTTCTTGGAAATCACCAGAAGGCGGTTCCTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3105_3690_1:0:0_0:0:0_bf/2
+TGCGAGTCATTTCTTTGATTTGGTCATTGGTAAAATACTGACCAGCCGTTTGAGCTTGAGTAAGCATTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_482_958_1:0:0_1:0:0_c0/2
+TTGTTGACCACCTACATACCAAAGACGAGCGCCTTTACGCTTGCCTTTAGTACCTCGCACCGGCTGCGGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4295_4694_3:0:0_0:0:0_c1/2
+CTTGCGACCCTCGGCAGCAAGAACCATACGACCAATATCACGAAAATAGTCACGCAAAGCATTGGGATTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3158_3581_1:0:0_2:0:0_c2/2
+GGCTAAAGCTGGTAAAGGACTTCTTGAAGGTACGTTGCAGGCTGGCACTACTGCCGTTTCTGATAAGTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3443_3980_1:0:0_1:0:0_c3/2
+GACTCAAAAAGAGATTGCTGGGATTCAGTCGGCGACTTCACGCCAGAATACGAAAGACCAGGTATATGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3949_4379_2:0:0_2:0:0_c4/2
+TTTACATGCCTCCAAATCTTGGAGGCTTTTTTATGGTTCGTTCTTATTACCCTTCAGAATGTCACGCTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3648_4160_0:0:0_2:0:0_c5/2
+GGTCAGTATTTTACCAATGACCAAATCAAAGAAATGACTCGCAAGGTTAGTGCTGAGGTTGACTTAGTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1602_2103_0:0:0_0:0:0_c6/2
+CCTTCAAGAAGGTGATAAGCAGGAGAAACATACGAAGGCGCATAACGATACCACTGACCCTCAGCAATCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3882_4411_4:0:0_3:0:0_c7/2
+GGGCGTTCAGCAGCCAGCTTGCGGCAAAACTGCGTAACCGTCTTCTCGTTGTCTACAAACCATTTTACGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2868_3414_2:0:0_1:0:0_c8/2
+GATTGTCCAGTTGCATTTTAGTAAGCTCTTTTTTATTCTCAAATCCGGCGTCAACCATACCAGCAGAGGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1114_1605_0:0:0_1:0:0_c9/2
+TGGCGACTCCTTCGAGATGGACGCCGTTGGCGCTCTCCGTCTTTCTCCATTGCGTCGTGGCCTTGCTATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2919_3389_1:0:0_0:0:0_ca/2
+CTCTTTTTGATTCTCAAATCCGGCGTCAACCATACCAGCAGAGGAAGCATCAGCACCAGCACGCTCCCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2064_2531_2:0:0_2:0:0_cb/2
+CTATCAAAAAATAACGTTGACGATGTAGCTTTAGGTGTCTGTAAAACAGGTGCCGAAGAAGCTTGAGTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4000_4497_3:0:0_0:0:0_cc/2
+CTTCAGAATGTCACGCTGATTATTTTGCCTTTGAGCGTATCGAGGCTCTTAAACCTGCTATTGAGGCTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4743_5249_3:0:0_1:0:0_cd/2
+TATGGTAGAGCTAATGGCCGTCTTCATTTCCATGCGGTGCATTATATGCGGACAGTTCCTACAGGTAGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1935_2414_2:0:0_3:0:0_ce/2
+GAAATAAAAGTCTGACACATGATTAAACTCCTAAGCAGAAAACCTAGCGCGCTTCGCTTGGTGAACCCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_408_1018_1:0:0_1:0:0_cf/2
+CCATCCGTACGTTTCCAGACCGCTTTGGCCTCTATTAAGCTCATTCAGGCTTCTGCCGTTTTGGATTTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2229_2741_1:0:0_0:0:0_d0/2
+ATGTGACCGTTTATCGCAATCTGCCGACCACTCGCGCTTCAATCATGACTTCGTGATAAAAGATTGAGTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1826_2374_2:0:0_0:0:0_d1/2
+AACCTACCGCGCTTCGCTTGGTCAACCCCTCAGCGGCAAAAATTAAAATTTTTACCGCTTCGGCGTTATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3451_3890_2:0:0_1:0:0_d2/2
+AAGAGATAGCTGGCATTCAGTCGGCGACTTCACGCCAGAATACGAAAGACCATGTATATGCACAAAATGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4699_5194_0:0:0_2:0:0_d3/2
+ATGATTCACACGCCGACTGCTATCAGTATTTTTGTGTGCCTGAGTATGGTACAGCTAATGGCCGTCTTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1091_1593_1:0:0_1:0:0_d4/2
+GCTTGCAGACCCATAATGTCAATAGATGTGGTCGAAGTCGTCATTTGGCGAGAAAGCTCAGTCTCAGGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_150_647_3:0:0_0:0:0_d5/2
+AACATAATAAGCAATGACGGCAGCAATAAACTCAACAGGAGCAGGAAAGCGAGGGTATCCCACAAAGTCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1864_2257_2:0:0_1:0:0_d6/2
+GCATGTTCGTTTTCCGCCTACTGCGACAAAAGAGATTCAGTACCTTAACGCTAAAGGTGCTTTGACTTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4644_5182_0:0:0_1:0:0_d7/2
+GACAGATTTGTCATTGTGAGCATTTTCATCCCGAAGTTGCGGCTCATTCTGATACTGAACAGCTTCTTGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4693_5191_0:0:0_3:0:0_d8/2
+CACTCCGTGGAGAGATTTGTCATTGTGAGCATTTTCATGCCGAAGTTGCGGCTCATTCTGAATCTGAACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3586_4112_2:0:0_0:0:0_d9/2
+ATGGAAGCCAAGCATTGGGGATTGAGAAAGAGTAGAAATGCCACAAGCCTCAATAGCAGGTTTAAGAGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2392_2930_1:0:0_0:0:0_da/2
+ATCATGTTTCAGACTTTTATTTCTCGCCATAATTCAAACTTTTTTTCTGCTAAGCTGGTTCTCACTTCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2478_3008_4:0:0_1:0:0_db/2
+TTGACCGCCTCCAAACAATTTAGACATGGCGCCACCAGCCAGAGCAGAAGCAATACCGCCAGCAATAGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1544_2075_0:0:0_1:0:0_dc/2
+CATACGAAGGCTCATAACGATACCACTGACCCTCAGCAATCTTAAACTTCTTAGACGAATCACCAGAACG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3280_3806_0:0:0_0:0:0_dd/2
+AGAAGCAGCATCAGTGACGACATTAGAAATATCCTTTGCAGTAGCGCCAATATGAGAAGAGCCATACCGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1144_1599_0:0:0_1:0:0_de/2
+CGCTCTCCGTCTTTCTCCATTGCGTCGTGGCCTTGCTATTGACTCTACTGTAGACATTTTTACTTTTTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1403_1962_1:0:0_1:0:0_df/2
+TATTTTAAAGCGCCGTGGATGCCTGACCGTACCGAGGCAAACCCTAATGAGCTTAATCAAGATGATGCTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_611_1095_1:0:0_2:0:0_e0/2
+TGTTGAGTTTATTGCTGCCGTCATTGCTTATTATGTTCATCCCGTCAACATTCAAAGGGCCTGTCTCATC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2647_3113_2:0:0_0:0:0_e1/2
+AACATTAGAGCCTTGAATGGCAGATTTAATACCAGCATCACCCATGCCTACAGTATTGTTATCGGTAGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4243_4709_0:0:0_2:0:0_e2/2
+TATCTGTTACTGAGAAGTTAATGGATGAATTGGCACAATGCTACAATGTGCTCCCCCAACTTGATATTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_886_1364_1:0:0_4:0:0_e3/2
+TCGTCCGCAGCCGTTGCGAGGTACTAAAGGCAAGCGTAAAGGCGCTCGTCTTAGGTATGTAGGTGGTCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2736_3284_0:0:0_2:0:0_e4/2
+ACGAGTATCCTTTCCTTTATCAGCGGCAGACTAGCGACCAAGTCCAACCAAATCAAGCAACTTATCAGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3296_3778_0:0:0_3:0:0_e5/2
+ATATCCTTTGGAGTAGCTCCAATATGAGAAGCGCCATACCGCTGATTCTGCGTTTGCTGATGAACTAAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4409_4865_1:0:0_2:0:0_e6/2
+CCCTCTTAAGGATATTCGCGATGAGTATACTTACCCCAAAAAGAAAGGTATTAAGGATGAGTGTTCAAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3061_3557_2:0:0_0:0:0_e7/2
+GCGAGCAGTAGACTCCTTCTGTTGATAAGCAAGCATCTCATTTTGTGCATATACCTGGTCTTTCGTATTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_172_742_2:0:0_1:0:0_e8/2
+TCTTACTTTGCGACCTTTCGCCATCAACTCCCGATTCTGTCAAAAACTGACGCGTTGGATGAGGAGAAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1836_2213_0:0:0_2:0:0_e9/2
+AATTCCACTGCAACAACTGAACGGACTGGAAACACTGGTCATAATCATGGTGGCGAATAAGTACGGGTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_628_1078_2:0:0_0:0:0_ea/2
+CCGTCATTGCTTATTATGTTGATCCCGTCAACATTCAAACGGCCTGTCTCATCAAGGAAGGCGCTGAATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1523_2053_2:0:0_1:0:0_eb/2
+CGTCCTGAGACTGAGCTTTCTCGCCAAATGACGACTTCTACCACATCTATTGACATTATGGGTCTGCCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3051_3557_0:0:0_1:0:0_ec/2
+GCGAGCAGTAGACTCCTTCTGTAGATAAGCAAGCATCTCATTTTGTGCATATACCTGGTCTTTCGTATTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3442_3894_1:0:0_2:0:0_ed/2
+CAATACCATCCGCTTTACCGTCTTTCCAGAAATTTTTCCAAGTATCGGCAACAGCTTTATCAATACCATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_554_1043_0:0:0_1:0:0_ee/2
+GGTCAAGCGGCATACGCTCGGCGCCAGTTTGAATATTAGACATAATTTATCCTCAAGTAAGGGGCCGAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_525_1086_4:0:0_2:0:0_ef/2
+ACTGACCGGTCTCGTGCTCGTCGCTGCGAAGAGGCTTGCGTTTAAGGTACGCTGGACTTTGTGGGATACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_252_783_1:0:0_2:0:0_f0/2
+GCTTGGCACGTTCGTGAAGGACTGGTTTAGATATGAGTCACATTTTGTTCATGGTAGAGATTCTCTTGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1844_2328_3:0:0_4:0:0_f1/2
+GGCACTAAGTTTACTCTTGCGCTTGTTCGTTTTGCGCCTACTGCGACTAAAGAGATTCAGTACCTAAACG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4728_5242_2:0:0_2:0:0_f2/2
+ATCTGGTTGAACGGCGTCGCGTCGTAACCCATGTTGGTAAGTTGGATTAAGCACTCCGTGGACAGATTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1380_1844_4:0:0_1:0:0_f3/2
+CATGCTCAGGAACAAAGAAACGCGGCACAGAATGTTTATAGGTCTGTTGAACACGACCAGAAAACTTGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1836_2418_2:0:0_0:0:0_f4/2
+GCGAGAAATAAAAGTCTGAAACATGATTAAACTCCTAAGCAGAAAACCTACCGCGCTTCGCTTGGTCAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3965_4512_3:0:0_3:0:0_f5/2
+TCTTGGAGGCTTTTTTATGGTTCGTTCTTATTCCCCTTCTGAAAGTCCCGCTGATTATTTTGACTTTGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2521_3106_0:0:0_2:0:0_f6/2
+TATTTTGATAGTTTGACGGTTAATGCTGGTAATGGTGGTTTTCTTCATTGCATTCAGATGGATACATCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3548_4026_4:0:0_2:0:0_f7/2
+CAAAATAATCAGCGTGACATTCAGAAGGTTAATAAGAACGAACCATAAAAAAGCCTCGAAGATTTGGAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3334_3882_0:0:0_4:0:0_f8/2
+CTATACCGTCTTTCCAGAAATTGTTCCCAGTATCGGCCACAGCTTTATCAATCCCATGAAAAATATCAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_532_1102_2:0:0_2:0:0_f9/2
+GGTCTCGTGCTCGTCGCTGCGTTGAGGCTTGCGTTTATGGTACGCTTGACTTTGTGGGATACCCTCGCTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4094_4577_0:0:0_1:0:0_fa/2
+AACGATAAACCAACCATCAGCATGAGCCTGTCGCATTGCATTCAACAAACGCTGAATAGTAAAGCCTCTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2618_3113_5:0:0_0:0:0_fb/2
+AACATTAGAGCCTTGAATGGCAGATTTAATACCAGCATCACCCATGCCTACAGTATTGTTATCGGTAGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_163_597_2:0:0_2:0:0_fc/2
+TCGAGAAGCTCTTACTTTGCGAGCTTTCGCCATCCACTAACGATTCTGTCAAAAACTGACGCGTTGGATG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4445_4909_0:0:0_1:0:0_fd/2
+CGAACTGCGATGGGCCTACTGTAACCATAAGGCCACGTATTTTGCAAGCTATTTAACTGGCGGCGATTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1822_2356_4:0:0_1:0:0_fe/2
+TGGTCAACCCCTCAGCGGCAAAAATTAAAATTTTTACCGCTTCGGCGTTATAACGTCACACTCAATCTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3709_4230_4:0:0_2:0:0_ff/2
+GAACGACAGAAGCAGCCTTATGGCCGTCAACATACATATCACCATAATCGAACTCAACGCCCTGCATACG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1714_2209_0:0:0_3:0:0_100/2
+CATGCGCTCTAATCTCTGGGCATCTGGCTATGATGTTGATGGAACTGACCAAACGTCGTTAGGCCAGTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3867_4376_3:0:0_2:0:0_101/2
+TGGAAAGACGGTAAAGCTGATGTTAATGGCTCTAATTTGTCTAGGAAATAACCGTCCGGATTGACACCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2460_3043_1:0:0_2:0:0_102/2
+AGCACATCACCTTGAATGCCACCGGAGGCGGCTTTTTGACCGCCTCCAAACAATTAAGACATGGCGCCCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3713_4206_2:0:0_2:0:0_103/2
+CGTCAACATACATCTCACCATTATCGAACTCAACGCCCTGCATACGAAAAGACAGAATCTCTTGCAAGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2721_3306_2:0:0_0:0:0_104/2
+TTATCCTTTGAATGTTCGCCATGATGGTGGTTATTATACCGTCAAGGACTGTTTGACTATTGACGTCCTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1018_1498_3:0:0_1:0:0_105/2
+TGGCGCCGAGCGTATGCCGCATGACCTTTCGCATCTTGGCTTCGTTGCTGGTCAGATTGGTCGTCTTATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1284_1710_2:0:0_0:0:0_106/2
+TCCCGACTGTTAAGACTACTGGTTATATTGACCATGCCGCTATTCTTGGCACGATTAACCCTGATACCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1033_1548_2:0:0_0:0:0_107/2
+GCCGCATGACCTTTCCCAACTTGGCTTCCTTGCTGGTCAGATTGGTCGTCTTAATACCATTTCAACTACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4831_5285_3:0:0_1:0:0_108/2
+TCCCAGCCTCAATCTCATCTCTCTTTTTGCGTTCTGCTTCAATATCTGGTAGAACGGCGTCGCGTCGTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2657_3087_1:0:0_3:0:0_109/2
+TTGCCTGTTTGGTTCGCTTTGAGTCTTCTTCGGTACCGACTACCCTCCCGACTGCCTATGATGTTTATCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1558_2049_1:0:0_2:0:0_10a/2
+TGACCCTCAGCAATCATAAACTTCTTAGACGAAACACCAGAACGGAAAACATCCTTCATAGAAATTTCAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4270_4826_3:0:0_1:0:0_10b/2
+AAAATTATGGTCAACGCTACCTGTAGGAAGTGTCCGCATAAAATGCACCGCATGGAAATGAAGACGGCCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_245_746_4:0:0_0:0:0_10c/2
+TTAATATGCTAGGCACGATCGTCAAGGACTGGATTAGATATGAGTCACAATTTGTTCATGGTAGAGATTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1484_2067_3:0:0_4:0:0_10d/2
+GTCGCATAACGATACCACTTACCCTCAGCAATCTTAAACTTCTTATACGAAACACCAGAACGGAAAACAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4404_4883_0:0:0_2:0:0_10e/2
+GAACGCCCTCTTAAGGATATTCGCGATGAGTATAATTACCCCAAAAAGAAAGGTATTAAGGATGAGTGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4167_4648_0:1:0_1:0:0_10f/2
+CAGGGCGTTGAGTTCGATAATGGTGATATGTATGTTGACGGCCATAAGGCTGCTTCTGACGTTCGTGATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3950_4508_1:0:0_2:0:0_110/2
+TTTCATGCCTCCAAATCTTGGAGTCTTTTTTATGGTTCGTTCTTATTACCCTTCTGAATGTCACGCTGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3867_4438_3:0:0_2:0:0_111/2
+TGGAAAGACGGTAAAGCTGATGGTATTGGGTGTAATTTGTCTAGGAAATAACCGACAGGATTGACACCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2104_2648_3:0:0_0:0:0_112/2
+CTTCCCATTCATTCAGGCACCGCCTTCTGGTGATTTGCACGAACGCGTACTTATTCGCCACCATGCTTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2926_3403_1:0:0_2:0:0_113/2
+GATTTATGTTTGGTGCTATTGCTGGCGGAATTGCTTCTGCTCTTGCTGGTGGCGCCATGTCTAAATTGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4629_5079_0:0:0_1:0:0_114/2
+TCCATTCTTTAGGTCCTAGACCTTTAGCAGCAAGGTCCATATCTGACTTTTTGTTAACGTATTTAGCCAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3495_4038_0:0:0_0:0:0_115/2
+AAAGACCAGGTATATGCACAAAATGAGATGCTTGCTTATCAACAGAAGGAGTCTACTGCTCGCGTTGCGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2240_2752_2:0:0_1:0:0_116/2
+AACCACCATCATGGCGACCATTCAAAGGATAAACATCATAGGCAGTCGGGAGGGTATTCGGAACCGAAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2863_3382_3:0:0_1:0:0_117/2
+TGATTCTCAAATCCGGCGTCCACCATACCAGCAGAGGAAGCATCAGCACCAGCACGCTCCCAAGCATTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2084_2609_0:0:0_1:0:0_118/2
+ACCTGATTAGCGGCGTTGCCAGATGTATCCATCTGAATGCAATGAAGAAAACCACCATTACCAGCATTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_777_1121_2:0:0_2:0:0_119/2
+AGTCGCCAGCGATAACCGGAGTAGTTGAAATGGTAAAAAGACGACCACTCTGACCAGCAAGGAAGCCAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2457_2911_2:0:0_0:0:0_11a/2
+GCTGGAGACAAATAATCTCTTTAATAACCTGATTCAGCGAAACCAATCCGCGGCATTTAGTAGCGGTAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4441_4959_1:0:0_2:0:0_11b/2
+GATCAACAGGCCACAAGCAACCAGAACGTGAAAAAGCGTCCTGCGTGTAGCGAACTGCGATGGGCATACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3215_3777_2:0:0_2:0:0_11c/2
+TATCCTTTGCAGTAGCGCCAATATGCGCAGAGCCATACCGCTGATTCTGCGTTTGCTGATGAACTAAGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2274_2778_2:0:0_1:0:0_11d/2
+TGACTTCGTGATAAAAGATTGAGTGTGAGGTTATAACGCCGAAGCGTTAAAAATTTTAATTTTTGCCTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2330_2871_4:0:0_1:0:0_11e/2
+TCATTTTTGGCGCTGAGTGGTTGACCAAGCGAAGCGCGGTAGGTTTTCTGCTTAGGAGTTTACTCATGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1710_2259_0:0:0_0:0:0_11f/2
+GTGGTCGGCAGATTGCGATAAACGGTCACATTAAATTTAACCTGACTATTCCACTGCAACAACTGAACGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3034_3491_3:0:0_0:0:0_120/2
+GTGATGTGCTTGCTACCGATAACAATACTGTAGTCATGGGTGATTCTGGTATTAAATCTGCCCTTCAAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4164_4559_1:0:0_2:0:0_121/2
+AGCATGAGCCTGTCGCATTGCATTCATCAAACGCTGAATAGTAAAGCCTCTACGGGATTTGATAGTGGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4777_5231_1:0:0_5:0:0_122/2
+CGGTGCATTTTATGCGGACACTACCTACAGGTAGCGTTGACCCTAATTTTGGTCGTCGGGTACGCAATCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_947_1501_1:0:0_4:0:0_123/2
+GGTGGTCAACAATTTTACTTGCAGGGGCTTCGGCCCCTTACTTGAGGATAAATTATGTCTAATATTCAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2267_2753_1:0:0_0:0:0_124/2
+TAACCACCATCATGGCGACCATTCAAAGGATAAACATCATAGGCAGTCGGGAGGGTAGTCGGAACCGAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4206_4670_0:0:0_1:0:0_125/2
+CATACGACCAATATCACGAAAATAGTCACGCAAAGCATTGGGATTATCATACAACGCCTCTAATCGGTCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4609_5049_0:0:0_2:0:0_126/2
+CAAGGTCCATATCTGAGTTTTTGTTAACGTATTAAGCCACATAGAAACCAACAGCCATATAACTGGTAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1650_2185_1:0:0_0:0:0_127/2
+GTGATGTTATTTCTTCATTTGGAGGTAAAACCACTTATGACGCTGACAACCGTCCTTTACTTGTCATGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2369_2816_0:0:0_3:0:0_128/2
+TACACATTATTGCCCGGCGTACTGGGAAGGACGTCAAAAGTCACACAGTCCTTGACGGTATAATAACCAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2788_3330_0:0:0_2:0:0_129/2
+CTTCCCCGTACGCCGGGCAATAATGTTTATGTTGGTTTCATGGTTTGGTCTAACTTTACCGCTACTAAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4545_5151_0:0:0_1:0:0_12a/2
+CGAAGTTGCGGCTCATTCTGATTCTGAACAGCTTCTTGGGAAGTAGCGACAGCATGGTTTTTAGTGAGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4844_5303_1:0:0_1:0:0_12b/2
+TCGGCGCCAGTTAAATAGCTTGCAAAATACGTGGCCTTATGGTTACAGTATGCCCATCGCAGTTCGCTAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2222_2679_1:0:0_1:0:0_12c/2
+CTCAAAGCGAACCAAACAGGCAAAAAATTTAGGGTCGGCATCACAAGCAATATCAGCACCAACAGAAACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2444_2928_2:0:0_2:0:0_12d/2
+AGCTGGTTCTCACTTCTGTTACTCCATCTTCTTCGGCACCTGTTTTACAGACACCTAAAGCTAGATCGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4092_4573_1:0:0_0:0:0_12e/2
+TCCCGAATGCTTGGCTTCCATAAGCAGATGGATAACCGCATCAAGCTCTTGGAAGAGATTCTGTCTTTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_834_1362_4:0:0_1:0:0_12f/2
+GAAGGCGTGATGTAATGACTAAAGGTAAAAAACGTTCTGGCGCTCGCCCTGGTCGACCGCAGCCGATGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2780_3264_1:0:0_0:0:0_130/2
+TTGACTTCCTTCCCCGTACGCCGGGCAATAATGTTTATGTTGGTTTCATGGTTTGGTCTAACTTTACCGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_843_1287_5:0:0_2:0:0_131/2
+ATGTAATGTCTAAAGGTAAACAACGTTCTGGGGCTCGCCCTGGACGTCCGCAGCCGTTGCGAGGACCTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_646_1200_1:0:0_0:0:0_132/2
+TTCATCCCGTCAACATTCAAACGGCCTGTCTCATCATGGAAGGCGGTGAATTTACGGAAAACATTATTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3270_3825_2:0:0_0:0:0_133/2
+GGAAAGGATACTCGTGATTATCTTGCTGCTGCATTTGCTGAGCTTAATGCTTGGGAGCGTGCTGGTGGTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1467_1933_2:0:0_3:0:0_134/2
+ATACGTCACAGCACCTTTAGCGTTAAGGTACTGAATCTCTTTAGTCGCAGTAGGCGGAAAACGAACAATC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4607_5096_3:0:0_0:0:0_135/2
+GGTTTTTAGTGAGTTGTTCCATTCTTTAGCTCCTAGACCTTTAGCAGCAAGGTCCATATCTGACTTTTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_728_1261_2:0:0_1:0:0_136/2
+TCCGGTTAAAGCCGCTGAATTTTTCGCGTTTACCTTGCGTGTACGCGCAGGAAACACTGACGATCTTACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4410_4853_0:0:0_0:0:0_137/2
+CCTCTTAAGGATATTCGCGATGAGTATAATTACCCCAAAAAGAAAGGTATTAAGGATGAGTGTTCAAGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4352_4929_0:0:0_3:0:0_138/2
+GTTTTTAGAGAACGAGAAGACGGTTACGCAGTTTTGCCGCAAGCTGGCTGCTGAACGCCCTCTTAAGGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1956_2434_1:0:0_1:0:0_139/2
+TTTTGTATGGCAACTTGCCGCCGCGTGAAATTTCTATGAATGATGTTTTCCGTTCTGGTGATTCGTCTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3149_3669_0:0:0_1:0:0_13a/2
+GGTCATTGGTAAAATACTGACCAGCCGATTGAGCTTGAGTAAGCATTTGGCGCATAATCTCGGAAACCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4171_4684_8:1:0_0:0:0_13b/2
+TCGGCAGCAAGAACCATACGACCAATATCACGAAAATAGTCACGCAAAGCATTGGGATTATCATAAAACG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2475_3030_2:0:0_4:0:0_13c/2
+GAATGCCAGCGGAGGCTGCTTTTTGACCTCCTCCCAACAATTTAGACATGGCGCCACCAGCAAGAGCAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2950_3525_2:0:0_2:0:0_13d/2
+GCGGTATTGCTTCTGGTCTTGCTGGTGGCGCGATGTCTAAATTGTTTGGAGGCGGTCAAAAAGCCGCCTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4023_4465_2:0:0_4:0:0_13e/2
+TCCTTAATACCTTTCTTTTTGGGGTAATTATAGTCATGGCGAATATCCTTAATAGGGCGTTCAGCAGGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3513_4054_2:0:0_0:0:0_13f/2
+GGTTTAAGAGCCTCGATACGCTCAAAGTCAAAATAATCAGCGTGACATTCAGAAGGGTAATAAGAACGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3003_3447_4:0:0_0:0:0_140/2
+GGTCAAAAATCCGCCTCCGGTGGCATTCAAGGTGCTGTGCTTGCTACCGATAACAAAACTGTATGCATGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2630_3159_1:0:0_2:0:0_141/2
+CCATAGCACCAGAAACAAAACTAGGGGCGGGCTCATCAGGGTTAGGAACATTATAGCCTTGAATGGCAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_991_1469_1:0:0_0:0:0_142/2
+CATCATCTTGATTAAGCTCATTAGGGTTAGCCTCGGTACGGTCAGGCATCCACGGCGCTTTAAAATAGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3107_3521_2:0:0_1:0:0_143/2
+TAATTTTCCTACCCCTGATGAGGCCGCCCCTAGTTTTGTTTCTGGTGCTATGGCTAAAGCTGGTAAAGGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_510_1017_1:0:0_1:0:0_144/2
+AAAGTTTGGATTGCTACTGACCGCTCTCGTGCTCGTCGCTGCGTTGAGGCTTGCGTTTATGGAACGCTGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2494_2909_4:0:0_1:0:0_145/2
+ACACCTAAAGCTACATCGTCAACGTAATCTTTTGAAAGTTTGACGGTTAATGCTGTTAATGGTGGTTTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2323_2835_0:0:0_1:0:0_146/2
+CCAAACCATGAAACCAACATAAACATAATTGCCCGGCGTACGGGGAAGGACGTCAATAGTCACACAGTCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1369_1897_0:0:0_2:0:0_147/2
+TTTGTTTCAGGGTTATTTGAATATCTATAACAACTATTTTAAAGCGCCGTGGATGCCTGACCGTACCGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_373_836_1:0:0_2:0:0_148/2
+TTCTTCACTTAATTTTTGACGCACGTTTTCTTCTGCGTCAGTAAGAACGTCAGTGTTTCCTGCGCGTACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2718_3231_1:0:0_1:0:0_149/2
+CAAGCAACTTATCAGAAACGGCAGAAGTGCCAGCCTGCCACGTACCTTCAAGAAGTCCTTTACCAGCTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1807_2308_0:0:0_4:0:0_14a/2
+TAAACATTCTGTGCCGCGTTTCTTTGTTCCTGAGCATGGCACTATGTTTACTCTTGCGCTTGTTCGTTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3672_4168_0:0:0_2:0:0_14b/2
+ATCAAAGAAATGACTCGCAAGGTTAGTGCTGAGGTTGACTTAGTTCATCAGCAAACGCAGAATCAGCGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_213_698_1:0:0_0:0:0_14c/2
+AAATTCAGCGCCTTCCATGATGAGACAGGCCGTTTGAATGTTGACGGGATGAACATAATAAGCAATGACG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2409_2834_3:1:0_0:0:0_14d/2
+CAAACCATGAAACCAACATAAACATTATTGCCCGGCGTACGGGGAAGGACGTCAATAGTCACACAGTCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_815_1375_1:0:0_0:0:0_14e/2
+AAACAAATGCTTAGGGATTTTATTGGTATCAGGGTTAATCGTGCCAAGAAAAGCGGCATGGTCAATATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1904_2377_0:0:0_1:0:0_14f/2
+TACCTTAACGCTAAAGGTGCTTTGACTTATACCGATATTGCTGGCGACCCTGTTTTGTATGGCAACTTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2653_3132_3:0:0_4:0:0_150/2
+CGGCCTCATCAGGGTTAGGAACAATAGAGCCTTGAATGGCAGATTTAATAGCAGGCTCACCCATGCCTAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2538_3069_0:0:0_0:0:0_151/2
+GGTTAATGCTGGTAATGGTGGTTTTCTTCATTGCATTCAGATGGATACATCTGTCAACGCCGCTAATCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4204_4693_0:1:0_4:0:0_152/2
+ACGGCCATAAGGCTGCTTCTGACGTTCGTGATTAGTTTGTATCTGTTACTGAGAAGTTAATGGATGAATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3483_3892_1:0:0_2:0:0_153/2
+ATACCATGAGCTTTACCGTCTTTCCAGAAATTGTTCCAAGTATCGGCAACAGCTTTATCAATCCCATGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1269_1748_0:0:0_4:0:0_154/2
+CATCCTAGCCCGAAGCCCAGAGATTAGAGCGCATGACAAGAAAAGGACGGTTGTCAGCGTCATAAGAGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_658_1184_3:0:0_0:0:0_155/2
+ACATTCAAACGGCCTGTCTCATCATGGAAGGCGCTGAATTTACGGAAAACATTATTAATGGGTTCTAGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3380_3876_1:0:0_2:0:0_156/2
+CGTCTTTCCAGAACTTGTTCCAAGTATCGGCCACAGCTTTATCAATACCATGAAAAATATCAACCACACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4780_5302_3:0:0_0:0:0_157/2
+TCGGCTACAGTAACTTTTCCCAGCCTCAATCTCATCTCTCTTTTTGCGTTCTGCTTCAATATCTGGTTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3179_3727_0:0:0_2:0:0_158/2
+TCTTGAAGGTACGTTGCAGGCTGGCACTTCTGCCGTTTCTGATAAGTTGCTTGATTTGGTTGGACTTGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1619_2138_3:0:0_0:0:0_159/2
+AATCACCAGAAGGCGGTTCCTGAATGAATGGGAAGCCTTCAAGAAGGTGATAAGCAGGAGAAACATACGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3249_3794_2:0:0_1:0:0_15a/2
+AGTGACGACATTAGAAATATCCTTTGCAGTAGCGCCAATATGAGAAGATCCATACCGCTGATTCTGCGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1838_2396_2:0:0_1:0:0_15b/2
+GAGCATGGCACTATTTTTACTCTTGCGCTTGTTCGTTATCCGCCTACTGCGACTAAAGAGATTCAGTACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1353_1755_0:0:0_2:0:0_15c/2
+CCCTCAACATCATAGCCAGATGCCCAGCGATTAGAGCGCATGACAAGTAAAGGACGGTTGTCAGCGTCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3326_3882_2:0:0_1:0:0_15d/2
+GCGTGCTGGTGCTGATGCATCCTCTGCTGGTATGGTTGACGCCGGATTTGAGAATCAAAAAGAGCTTCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_650_1215_2:0:0_0:0:0_15e/2
+TCCCGTCAACATTCAAACGGCCTGTCTCATCATGGAAGGCGCTGAATTTCCGTAAAACATTATTAATGGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1532_2061_0:0:0_2:0:0_15f/2
+TAACGATACCACTGAGCCTCAGCAATCTTAAACTTCTTCGACGAATCACCAGAACGGAAAACATCCTTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1320_1798_1:0:0_1:0:0_160/2
+CGGCTTTTCTTGGCACGATTAACCCTGATACCAATAAAATCCCTAAGCATTTGTTTCAGGGTTATTTGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1896_2319_0:0:0_3:0:0_161/2
+AGATTCAGTACCTTAACGCTAAAGGTGCTTTGACTTATACCGATATTGCTGGCGACCCTGTTTTGTATGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2219_2691_0:0:0_0:0:0_162/2
+AACCGAAGAAGACTCAAAGCGAACCAAACAGGCAAAAAATTTAGGGTCGGCATCAAAAGCAATATCAGCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2251_2847_1:0:0_1:0:0_163/2
+GCCGACCACTCGCGATTCAATCATGACTTCGTGATAAAAGATTGAGTGTGAGGTTAAAACGCCGAAGCGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_845_1299_1:0:0_2:0:0_164/2
+GTGTTAACAGTCGGGATAGGAGTGGCATTAACAGCATCCTTCATGAACTTAATCCACTGTTCACCATAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_799_1282_0:0:0_0:0:0_165/2
+AGGAGTGGCATTAACACCATCCTTCATGAACTTAATCCACTGTTCACCATAAACGTGACGATGAGGGACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1799_2324_1:0:0_1:0:0_166/2
+CAGACCTATAAACATTCTGTGCCGCGTTTCTTTTTTCCTGAGCATGGCACTATGTTTACTCTTGCGCTTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4783_5286_3:0:0_0:0:0_167/2
+TTCCCAGCCTCAATCTCATCTCTCTTTTTGCGTTCTGCTTCAATATCTGGTTGAACGGCGTCGCGTCGTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1171_1747_1:0:0_1:0:0_168/2
+TGGCCTTGCTATTGACTCTACTGTAGACATTTTTACTTTTTATGTGCCTCATCGTCACGTTTATGGTGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1378_1811_1:0:0_1:0:0_169/2
+GGGTTATTTGAATATCTATAACAAGTATTTTAAAGCGCCGTGGATGCCTGACCGTACCGAGGCTAACCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3494_3903_2:0:0_2:0:0_16a/2
+GAAAGACCAGGTATATGCACAAAATGATATGCTAGCTTATCAACAGAAGGAGTCTACTGCTCGCGTTGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3051_3546_1:0:0_2:0:0_16b/2
+ACTCCTTCTTTTGATAAGCAAGCATCTCATTTTGTGCATATACCTTGTCTTTCGTATTCTGGCGTGAAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4761_5246_1:0:0_2:0:0_16c/2
+CAATATCTGGTTGAACGGCGTCGCGTCGTAACCCAGCTTGGTAAGATGGAATAAGCACTCCGTGGACAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1408_1884_1:0:0_1:0:0_16d/2
+GTAGGCGGAAAACGAACAAGCGCAAGAGTAAACATAGTGCCATGCTCAGGAACAAAGAAAGGCGGCACAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2046_2510_1:0:0_2:1:0_16e/2
+GATGTAGCTTTAGGTGTCTGTAAAACAGGTGCCGAAGAAGCTGGAGTTACAGACGTGAGAACGAGCTTAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3101_3478_2:0:0_1:0:0_16f/2
+GTCGCCGACTGAATGCCAGCAATCTCTTTTTGAGTCTCATTTTGCATCTCGGCAAACTCTTTCTGATTGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_46_522_6:0:0_1:0:0_170/2
+CAATCCAAACTTTGTTACTCGTCAGAAACTCGAAATCATCTTCGGTTAAATCCAAAACGGCAGAAGCCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1559_2008_1:0:0_2:0:0_171/2
+ACGGAAAACATCCTTCATAGAAATTTCACGCGGCGGCAAGATGCCATACACAACAGGGTCGCCAGCAATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2664_3190_1:0:0_3:0:0_172/2
+TTTGGTTCGCTTTGAGTCTTCTTCGGTTCCGACTACCCTCCCGACAGCCTATGATGTTTATCCTTTGAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2281_2810_1:0:0_0:0:0_173/2
+TTATTGCCCGGCGTACGGGGAAGGACGTCAATAGTCACACAGTCCTTGACGGTATAATAACCACCATCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2317_2686_1:0:0_2:0:0_174/2
+AAGACGACTCAAAGCGAACCAAACAGGCAAAAAATTTAGGGTCGGCATCAAAAGCACTATCAGCACCAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1208_1696_2:0:0_2:0:0_175/2
+GTCAGCGTCATAAGAGGTTTAACCTCCAAATGAAGAAATCACATCACGGTAACGCTGCATGAAGTAATCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2632_3141_3:0:0_4:0:0_176/2
+GCTTTTGATGCCGACCCTAAAATTTTTGCCTGTTAGGTTCGCTTTTAGTCTTCTTCGGTTCCGACTACCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4736_5291_1:0:0_1:0:0_177/2
+GCCTGAGTATGGTACAGCTAATGGCCGTCTTCATTTCCATGCGGTGCATTTTATGCGGACACATCCTACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3350_3791_2:0:0_3:0:0_178/2
+GACGACATTCGAAATATCCTTTGCAGTAGCGCGAATAAGAGAAGAGCCATACCGCTGATTCTGCGTTTGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3234_3580_2:0:0_1:0:0_179/2
+TTGGTTGGACTTGGTGGCAAGTCTTCCGCTGATAAAGGAAAGGATACTCGTGATTATCTTGCTGGTGCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4141_4674_2:0:0_1:0:0_17a/2
+GAACCATACGACCAATATCACGAAAATAGTCACGCAAAGCATTGGGATTATCATAAAACGCCTCAAATCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_430_934_2:0:0_0:0:0_17b/2
+ACGAGCGCCTTTACGCTTGCCTTTAGTACCTCGCAACGGCTGCGGACGACCAGGGCGAGCGCCAGAACGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2455_3023_2:0:0_0:0:0_17c/2
+ACTTCTGTTACTCCAGCTTCTTCGGCACCTGTTTTACATACACCTAAAGCTACATCGTGAACGTTATATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1518_1973_2:0:0_3:0:0_17d/2
+CGCTTCCTCCTGAGACTGAGCTTTCTCTCCAAATGACGACTTCTACCACATGTATTGACATTATGGGTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4695_5207_1:0:0_0:0:0_17e/2
+GGTAAGTTGGATTAAGCACTCCGTGGACAGATTTGTCATTGTGAGCATTTTCATCCCGAAGTTGCGGCTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_617_1006_0:0:0_0:0:0_17f/2
+AGACATAATTTATCCTCAAGTAAGGGGCCGAAGCCCCTGCAATTAAAATTGTTGACCACCTACATACCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4479_4950_1:0:0_1:0:0_180/2
+GCCACAACCAACCAGACCGTGAAAAAGCGTCCTGCGTGTAGCGAACTGCGATGGGCATACTGTAACCATA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3490_3952_0:0:0_3:0:0_181/2
+AAAACATACAATTGGGAGGGTGTCAATCCTTACTGTAATTTCCTAGACAAATTAGAGCCAATACCATCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_319_728_0:0:0_3:0:0_182/2
+GTTGACATTTTAAAAGAGCGTGGATTACTATCTGAGTCCGATGCTGTTCAACCACTAATAGGTAAGAAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1858_2282_1:0:0_1:0:0_183/2
+ACGAAGTCATGATTGAATCGCGAGTGGTCGGCAGATTGCGATAAACGGTCACATTCAATTTAACCTGACT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2004_2506_0:0:0_1:0:0_184/2
+TCCGTTCTGGTGATTCGTCTAAGAAGTTTAAGATTGCTGAGGGTCAGTGGTATCGTTATGCGCCTTCGTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_602_1105_1:0:0_3:0:0_185/2
+CGGAGTAGTTGAAATGTTAATAAGACGACCAATCTGAGCAGCAAGGAAGCCAAGATGGGAAAGGACATGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2952_3480_3:0:0_3:0:0_186/2
+GGTATTGCTTCTGCTCTTTCTGGTGTCGCCATGTCTAAATTGTTTGGAGGCGGTCAAAAAGCCGCGTCCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2301_2843_0:0:0_1:0:0_187/2
+AGGTTATAACGCCGAAGCGGTAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACCAAGCGAAGCGCGGTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_22_543_0:0:0_1:0:0_188/2
+GAGCACGAGAGCGGTCAGTAGCAATCCAAACTTTGTTACTCGTCAGAAAATCGAAATGATCTTCGGTTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_298_810_0:0:0_0:0:0_189/2
+GTTCATGGTAGAGATTCTCTTGTTGACATTTTAAAAGAGCGTGGATTACTATCTGAGTCCGATGCTGTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3859_4357_1:0:0_2:0:0_18a/2
+ACAATTACTGGAAAGACGGTAAAGCTGATGGTATTGGCTCTAATTTGTCTAGGAAATAACCGTCAGGATT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2386_2882_0:0:0_1:0:0_18b/2
+AGTTTAATCATGTTTCAGACTTTTATTTCTCGCCATAATTCAAACTTTTTTTCTGATAAGCTGGTTCTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_686_1222_2:0:0_4:0:0_18c/2
+AAGAGGGACCTAAAAAGTAAAAATGTCTACAGTAGAGTCAATAGGAAGGCCACGACGCAATGGAGAACGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_237_775_3:0:0_1:0:0_18d/2
+GCGCGTACACGCAAGGTAAACGCGAACAATTCAGCGGCTTTAACCGGACGCTCGCCGCCATTAATAATGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2683_3176_2:0:0_0:0:0_18e/2
+TCCTTTACCAGCTTTAGCCATAGCACCAGAAACAAAACTAGGGGCGGCCTCATCAGGGTTAGGAACATTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2587_2995_0:0:0_1:0:0_18f/2
+AACAATTTAGACATGGCGCCACCAGCAAGAGCAGACGCAATACCGCCAGCAATAGCACCAAACATAAATC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3811_4363_0:0:0_2:0:0_190/2
+TGGTTGATATTTTTCATGGTATTGATAAAGCTGTTGCCGATACTTGGAACAATTTCTGGAAAGACGGTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_122_530_3:0:0_2:0:0_191/2
+GCTGGCGGAAAATGAGAAAATTCGACCTATCCTTGCGCAGCTCGCGAAGCTCTAACTTTGCGACCTTACG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_236_669_1:0:0_0:0:0_192/2
+CCGTTTGAATGTTGACGGGATGAACATAATAAGCAATGACGGCAGCAATAAACTCAACAGGAGCAGGAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3470_4004_2:0:0_0:0:0_193/2
+AGAAGGGTAATAAGAACGAACCATAAAAAAGCCTCCAAGATTTGGAGGCATGAAAACATACAATTGGGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_571_1096_2:0:0_1:0:0_194/2
+GTACGCTGGACTTTTTGGGATACCCTCGCTTTCCTGCTCCTGTTGAGTTTATTGCTGCCTTCATTGCTTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_776_1244_1:0:0_2:0:0_195/2
+CCTGTTCCCCATAAACGTGACGATGAGGGACATAAAAAGTAAAAATGTCTACAGTAGAGTCAATAGCAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2455_2920_0:1:0_2:0:0_196/2
+ACTTAAGTGGCTGGAGACACATAATCTCTTTAATAACCAGATTCAGCGAAACCAATCCGCGGCATTTAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1718_2250_0:0:0_2:0:0_197/2
+CGCTCTAATCTCTGGGCATCTGGCTATGATGTTGATGGAACTGACCAAACGTCGTTAGGCCAGTTTTCTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3190_3751_0:0:0_2:0:0_198/2
+GAAGAGCCATACCGCTGATTGTGCGTTTGCTTATGAACTAAGTCAACCTCAGCACTAACCTTGCGAGTCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3331_3851_0:0:0_3:0:0_199/2
+ATCGGCAACAGCTTTATCAATACGATGAAAAATATCAACCACACCAGAAGGAGCATCAGTGACGACATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4766_5215_1:0:0_1:0:0_19a/2
+TCATTTCCATGCGGTGCATTTTATGCGGCCACTTCCTACAGGTAGCGTTGACCCTAATTTTGGTCGTCGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2701_3198_1:0:0_3:0:0_19b/2
+CCTGCAACGTACCTTCAAGAAGTCCTTTACCAGCTTTAGCCAAAGCACCAGAACCAAAACTAGGGGCGGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_627_1092_1:0:0_0:0:0_19c/2
+ATGGTAATAAGACGACCAATCTGACCAGCAAGGAAGCCAAGATGGGAAAGGTCATGCGGCATACGCTCGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1013_1383_2:0:0_1:0:0_19d/2
+TAACCCTGAAACAAAAGCTTAGGGATTTTATTGGTATCAGGGTTAATCGTGCCAAGAAAAGCGGCATGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1081_1579_1:0:0_0:0:0_19e/2
+AATGTCAATAGATGTGGTAGAAGTCGTCATTTGGCGAGAAAGCTCAGTCTCAGGAGGAAGCGGAGCAGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1460_2036_1:0:0_2:0:0_19f/2
+TCTTAAACTTCTTAGACTAATCACCAGAACGGAAAACATCCTTCATAGAAATTTCACGGGGCGGCAAGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3843_4322_3:0:0_2:0:0_1a0/2
+GTTGCCGATACTTGTAACAATTTCTGGAAAGACGGAAAAGCTGATGGTATTGGCTCTAATTTTTCTAGGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1481_2050_0:0:0_1:0:0_1a1/2
+TTCCGTTGCTGCCATCTCAAAAACATTTGGACTGCTCCGCTTCCTCCTGAGACTGAGCTTTCTCGCCAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1446_1947_4:0:0_2:0:0_1a2/2
+CCAGCAATATCGGTATAAGTCAAAGCACCTTTAGCGTTAAGGTACTGAATCTCTTTAGTCGGCGTAGGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1345_1917_1:0:0_5:0:0_1a3/2
+TGATACCAATAAAATCCCTAAGCATTTGTTTCAGGGTTATTTGAATATCTATAACAACAATTTTAAAGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1089_1572_0:0:0_4:0:0_1a4/2
+CCATTTCAACTACTCCGGTTATCGCTGGCGACTCCTTCGAGATGGACGCCGTTGGCGCTCTCCGTCTTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1921_2362_1:0:0_3:0:0_1a5/2
+TGCTTTGACTTATACCGATATTGCTGGCGACCCTGTTTTGTATGGCACCTTGCCGCCGCGTGAAATTTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_659_1076_3:0:0_0:0:0_1a6/2
+CATTCAAACGGCCTGTCTCATGAATGAAGGCGCTGAATTTACGGAAAACATTATTAATGGCGTCGAGCGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2511_2948_1:0:0_0:0:0_1a7/2
+AGCAATAGCACCAAACATAAATCACCTCACTTAAGTGGCTGGAGACAAATAATCTCTTTAATAACCTGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2128_2637_1:0:0_3:0:0_1a8/2
+AAAAGCAATATCAGCACCAACAGCAAGAACCTGATTAGCGGCGTTGACAGATGTATCCATCTTAATGCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2085_2595_0:0:0_0:0:0_1a9/2
+GTTGACAGATGTATCCATCTGAATGCAATGAAGAAAACCACCATTACCAGCATTAACCGTCAAACTATCA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3202_3682_0:0:0_3:0:0_1aa/2
+GCACTTCTGCCGTTTCTGATAAGTTGCTTGATTTGGTTGGACTTGGTGGCAAGTCTGCCGCTGATAAAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1146_1578_1:0:0_2:0:0_1ab/2
+ATGTCAATAGATGAGTTAGAAGTCGTCATTTGGCGAGAAAGCTCAGTCTCAGGAGGAAGCGGAGCAGTCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3461_3903_0:0:0_1:0:0_1ac/2
+AATTAGAGCCAATACCATCAGCTTTACCGTCTTTCCAGAAATTGTTCCAAGTATCGGCAACAGCTTTAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2879_3393_1:0:0_1:0:0_1ad/2
+TAAGCTCTTTTTGATTCTCAAATCCGGCGTCAACCATACCAGCAGAGGAAGCATCAGCACCAGCACGGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3563_4092_2:0:0_1:0:0_1ae/2
+GTCTATTATGGAAAACACCAATCTTTCCAAGCAACATCAGGTTTCCGAGATTATGCGCCAAATGCTTAGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4631_5121_1:0:0_1:0:0_1af/2
+CAATGCTTTGCGTGACTATTTTCGTGATAATGGTCGTATGGTTCTTGCTGCCGAGGGTCGCAAGGCTAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4545_5053_0:0:0_2:0:0_1b0/2
+CGACAGGCTCATGCTGATGGTTGGTTTATCGTTTTTGACACTCTCACGTTGGCTGACGACCGATTAGAGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2102_2673_2:0:0_1:0:0_1b1/2
+GCGAACCAAACAGGCAAAAAATTTAGGGTGGGCATCAAAAGCAATATCAGCACCAACAGAAACAACCTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4424_4979_2:0:0_1:0:0_1b2/2
+TTTAAGCGGCTCACCTTTAGCCTCAACAGGCCACAACCAACCAGAACGTGAAAAAGCGTCCTGCGTGTAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4411_4876_2:0:0_0:0:0_1b3/2
+CACGTATTTTGCAAGCTATTTAACTGGCGGCGATTGCGTACCCGACGACCAAAATTAGGGTCAACGCTAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_906_1382_1:0:0_1:0:0_1b4/2
+GTACTAAAGGCAAGCGTAAAGGCGCTCGTCTTTGGTATGTAGGTGGTCAACAATATTAATTGCAGGGGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3494_4032_1:0:0_0:0:0_1b5/2
+GAAAGACGAGGTATATGCACAAAATGAGATGCTTGCTTATCAACAGAAGGAGTCTACTGCTCGCGTTGCG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3517_3986_3:0:0_2:0:0_1b6/2
+ATGAGATGCTTGCTTATCAACAGAAGGAGTCTACTGCTCGCGTTGCTTCTAATATGGAAAACACCACTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_636_1180_0:0:0_3:0:0_1b7/2
+GCTTATTATGTTCATCCCGTCAACATTCAAACGGCCTGTCTCATCATGGAAGGCGCTGAATTTACGGAAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1802_2252_1:0:0_1:0:0_1b8/2
+ACCTATAAACATTCTGTGCCGCGTTTCTTTGTTCCTGAGCATGGCACTATTTTTACTCTTGCGCTTGTTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4015_4468_2:0:0_2:0:0_1b9/2
+TCATCCTTAATACCTTTCTTTTTGGGGTAATTATACTCATCGCGAAAATCCTTAAGAGGGCGTTCAGCAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3002_3515_1:0:0_1:0:0_1ba/2
+TTGTGCATAAACCTGGTCTTTCGTATTCTGGCGTGAAGTCGCCGACTGAATGCCAGCAATCTCTTTTTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3831_4383_2:0:0_1:0:0_1bb/2
+ATTGATACAGCTGTTGCCGATACTTGGACCAATTTCTGGAAAGACGGTAAAGCTGATGGTATTGGCTCTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2366_2810_0:0:0_0:0:0_1bc/2
+CGGTAGGTTTTCTGCTTAGGAGTTTAATCATGTTTCAGACTTTTATTTCTCGCCATAATTCAAACTTTTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3593_4041_2:0:0_1:0:0_1bd/2
+GCAACAGCAGGTTTCCGAGATTATGCGCCCAATGCTTACTCAAGCTCAAACGGCTGGTCAGTAATTTACC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_284_594_3:0:0_3:0:0_1be/2
+ATGAGTCCCATTTTGTTCATGGTAGAGATTCTCTTGTTGACATAATAAAAGAGCGTGGATTACTATCTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_694_1158_1:0:0_2:0:0_1bf/2
+GAAAGACGTAGAGCGCCAACGGCGTCCATCTCGAAGGAGTCGGCAGCGATAACCGGAGTAGTTGAAATGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3656_4122_2:0:0_0:0:0_1c0/2
+TTTTACCAATGACCAAATCAAAGACATGACTCGCAAGGTTAGTGCTGAGGTTGACTTAGTTCATCATCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1839_2262_1:0:0_1:0:0_1c1/2
+AGCATTGCACTATGTTTACTCTTGCGCTTGTTCGTTTTCCGCCTACTGCGACTAAAGAGATTCAGTACCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4733_5272_1:0:0_1:0:0_1c2/2
+TGTGCCTGAGTATGGTACAGCAAATGGCCGTCTTCATTTCCATGCGGTGCATTTTATGCGGACACTTCCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3991_4443_1:0:0_3:0:0_1c3/2
+GGTAATTATACTCATCGCGAATATCCTTAAGAGGGGGTTCAGCAGGCAGCTTGCGTCAAAACTGCGTAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4068_4551_0:0:0_0:0:0_1c4/2
+TGTGGCATTTCTACTCTTTCTCAATCCCCAATGCTTGGCTTCCATAAGCAGATGGATAACCGCATCAAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3236_3794_1:0:0_2:0:0_1c5/2
+AGTGACGACATTAGAAATCTCCTTTGCAGTAGCGCCAATATGAGAAGAGCCATACGGCTGATTCTGCGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2950_3435_3:0:0_2:0:0_1c6/2
+GCATCTCGGCAAACTCTTTCTGATTGTCCAGTTGCATTTTAGTAAGCTCTTTTTGATACTCAAATCCGGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4444_4991_0:0:0_2:0:0_1c7/2
+ATAACTGGTAGCTTTAAGCGGCTCACCTTTAGCATCAACAGGCCACAACCAACCAGAACGAGAAAAAGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_177_628_1:0:0_0:0:0_1c8/2
+GCAGCAATAAACTCAACAGGAGCAGGAAAGCGAGGGTATCCCACAAAGTCCAGCGTACCATAAACGCAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_982_1480_1:0:0_2:0:0_1c9/2
+ACCATAACGAGCATCATCTTGATTCAGCTCATTAGGGTTAGCCTCGGTACGGTCAGGCCTCCACGGCGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2020_2542_0:0:0_1:0:0_1ca/2
+TAACCGTCAAACTATCAAAATAAAACGTTGACGATGTAGCTTTAGGTGTCTGTAAAACAGGTGCCGAAGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4604_5048_0:0:0_0:0:0_1cb/2
+AAGGTCCATATCTGACTTTTTGTTAACGTATTTAGCCACATAGAAACCAACAGCCATATAACTGGTAGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2334_2823_1:0:0_1:0:0_1cc/2
+TTTTGCCGCTGAGGGGTTGACCAAGCGAAGCGCGGTAGGTTTTCTGCTTAGGAGTTTAATCATGTATCAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_385_918_1:0:0_2:0:0_1cd/2
+TTGCCTTTAGTACCTCGCAACGGCTGCGGACGACCAGGGCGAGCGCCAGAACTTTATTTACCTTTAGACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3121_3630_2:0:0_0:0:0_1ce/2
+TAAGCATTTGGCGCATAATCTCGGAAACCTGCTGTTGCTTGGAAAGATTGGTGTTTTCCATAATAGACGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_812_1266_2:1:0_3:0:0_1cf/2
+CGTGCGTCAAAATTTACGTGCAGAAGGAGTGATGAAATGTCTAAAGGTAAAAAACGTTCTGTCGCTCGCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_272_635_1:0:0_1:0:0_1d0/2
+ACTGGTTTAGATATGAGTCACATTTTGTTCATGGTAGAGCTTCTCTTGTTGACATTTTAAAAGAGCGTGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4737_5203_2:0:0_4:0:0_1d1/2
+AGTTGGATTAAGCACTCCGTGGACAGATTTTTCATTTTGAGCATAATCATCCCGAAGTTGCGGCTCATTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4029_4475_1:0:0_1:0:0_1d2/2
+TGAACACTCATCCATAATACCTTTCTTTTTGGGGTAATTATACTCATCGCGAATATCCTTAAGAGGGCGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4090_4621_1:0:0_3:0:0_1d3/2
+TAAAACGCCTCTAATCGGTCGTCAGCCAAGGTGAGAGTGTCAAAAACGATAAACGAACCATCAGGATGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4630_5196_3:0:0_2:0:0_1d4/2
+CCAATGCTTTGCGTGACTCTATTCGTGATATTGGTCGAATGGTTCTTGCTGCCGAGGGTCGCAAGGCTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3008_3541_1:0:0_0:0:0_1d5/2
+AAACGCCGCCTCCGGTGGCATTCAAGGTGATGTGCTTGCTACCGATAACAATACTGTAGGCATGGGTGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1334_1804_0:0:0_2:0:0_1d6/2
+GGTCTTTTGAACACGACCAGAAAACTGGCCTAACGACGTTTGGTCAGTTCCATCACCATCATAGCCAGAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4247_4753_1:0:0_0:0:0_1d7/2
+TGTTACTGAGAAGTTAATGGATGAATTGGCACAATGCTACAAAGTGCTCCCCCAACTTGATATTAATAAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4624_5113_2:0:0_2:0:0_1d8/2
+GGAAGTAGCGACAGCTTTGTTTTTAGTGAGTTGTTCCATTCTTTAGCTCCTAGACCTTTAGCAGCCAGGT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1604_2110_1:0:0_1:0:0_1d9/2
+AATTTGCATACTGACCAAGAACGTTATTACTTCATGCAGCGTTACCGTGATGTTATTTCTTCATTTGGAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3189_3705_0:0:0_0:0:0_1da/2
+CCTCAGCACTAACCTTGCGAGTCATTTCTTTGATTTGGTCATTGGTAAAATACTGACCAGCCGTTTGAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2571_3036_0:0:0_1:0:0_1db/2
+CACCTTGAATGCCACCGGAGGCGGCTTTTTGACCGCCTCCAAAGAATTTAGACATGGCGCCACCAGCAAG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2454_2885_1:1:0_0:0:0_1dc/2
+CACTTCTGTAACTCCAGCTTCTTCGGCACCTGTTTTACAGACACCTAAAGCTACATCGTCAACGTTATAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2639_3200_1:0:0_1:0:0_1dd/2
+ATGCCGACCCTAAATTTTTTGCCTGTTTGGTTCGGTTTGAGTCTTCTTCGGTTCCGACTACCCTCCCGAC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3024_3566_2:0:0_1:0:0_1de/2
+AGACGCAACGCGAGCAGTAGACTCCTTCTGTTGATAAGCAAGCATCTCATTTTTTGCATATACCTGGTCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3247_3815_1:0:0_2:0:0_1df/2
+GTGGCAAGTGTGCCGCTGATAAAGGAAAGGATACTCGTGATTATCTTGCTGCTGCATTTCCTGAGCTTAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3223_3567_2:0:0_3:0:0_1e0/2
+TAGACGCAACGCGAGCAGTCGACTCCTTCTGTTGAAAAGCAAGCATCTCATTATGTGCATATACCTGGTC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1692_2163_3:0:0_1:0:0_1e1/2
+TGGCGAATAAGTACGCGTTCTTGCAAATCACCAGAAGGCGGTTCCTGAATGAATGGGACGCCTTCAAGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2788_3310_1:0:0_5:0:0_1e2/2
+CTTCCCCGTACGCCGGGCAATAATGTTTATGTTGGTTTCATGGTTTGGTCTAACATTACCGCTACTAAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3894_4392_0:0:0_0:0:0_1e3/2
+GGCTCTAATTTGTCTAGGAAATAACCGTCAGGATTGACACCCTCCCAATTGTATGTTTTCATGCCTCCAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4515_5044_3:0:0_0:0:0_1e4/2
+TTTACTATTCAGCGATTGATTCATGCAATGCGACAGGCTCATGCTGATGGTTGGTTTATCGTTTTTGACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4404_4767_2:0:0_4:0:0_1e5/2
+GAACGCCCTCTTAAGGATATTCGCGATGAGTATAATTACCCCAACCAGAAAGGTATTAAGGATGAGTGTT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_225_637_0:0:0_1:0:0_1e6/2
+GTTGGATGAGGAGAAGTGGCTTAATATGCTTGGCACGTTCGTCAAGGACTGGTTTAGATATGAGTCACAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_543_956_2:0:0_3:0:0_1e7/2
+GTTGACCACCTACATACCAAAGACGAGCGCCTTTAGGCTTGCCTTAAGTACGTCGCAACGGCTGCGGACG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1929_2438_3:0:0_0:0:0_1e8/2
+GAAAAAAAGTTTGAATTATGGCGAGAAATAAAAGTCTGAAACATGATTAAACTCCTAAGCAGAAAACCTA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_492_987_1:0:0_1:0:0_1e9/2
+GTAAGGGGCCGAAGCCCCTGCAATTAAAATTGTTGACCACCTACCTACCAAAGACGAGCGCCTTTACGCT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3808_4333_2:0:0_1:0:0_1ea/2
+GTGTGGTTGATATTTTTGATGGTATTGATAAAGCTGTTGCCGATACTTGGAACAATTTCTGGAAATACGG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2304_2701_0:0:0_1:0:0_1eb/2
+GGGTAGTCGGAACCGAAGAAGACTCAAAGCGAACCAAACAGGCAAAAAATTTAGGGTCGGCATGAAAAGC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2008_2481_4:0:0_1:0:0_1ec/2
+TGCCGAAGAAGCTGGAGTAACAGAAGTGAGAACCAGCTTATCAGAAAAAAAGATTGAATTATGGCGAGAA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3419_3973_2:0:0_0:0:0_1ed/2
+CCTCCAAGATTTGGAGGCATGAAAACATACAATTGGGAGGGTGTCAATCCTGACGGTTATTTCCTAGACA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_383_987_3:0:0_1:0:0_1ee/2
+AGAAATGATGAGTCAAGTTACTGAACAATCCGTACGTATCCAGACCGCTTTGGCCTCTATTAAGCTCAAT
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_1054_1487_0:0:0_2:0:0_1ef/2
+TGGCTTCCTTGCTGGTCAGATTGGTCGTCTTATTACCATTTCAACTACTCCGGTTATCGCTGGCGACTCC
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_4040_4592_2:0:0_0:0:0_1f0/2
+CGTGAGAGTGTCAAAAACGATAAACCAACCATCAGCATGAGCCTGTCGCATTGCATTCATCAAACGCTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2907_3500_0:0:0_0:0:0_1f1/2
+CCAGCCACTTAAGTGAGGTGATTTATGTTTGGTGCTATTGCTGGCGGTATTGCTTCTGCTCTTGCTGGTG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_2716_3207_1:0:0_1:0:0_1f2/2
+GATGTTTATCCTTTGAATGGTCGCCATGATGGTGGTTATTATACCGTCAAGGACTGTGTGACAATTGACG
++
+2222222222222222222222222222222222222222222222222222222222222222222222
+@phiX174_3328_3788_1:0:0_1:0:0_1f3/2
+GACATTAGAAATATGCTTTGCAGTAGCGCCAATATGAGAAGAGCCATACCGCTGATTCTGCGTTTGCTGA
++
+2222222222222222222222222222222222222222222222222222222222222222222222
diff -r 000000000000 -r e3fe061597ac test-data/hisat_output_1.bam
Binary file test-data/hisat_output_1.bam has changed
diff -r 000000000000 -r e3fe061597ac test-data/hisat_output_2.bam
Binary file test-data/hisat_output_2.bam has changed
diff -r 000000000000 -r e3fe061597ac test-data/phiX.fa
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/phiX.fa	Thu Jun 11 16:35:16 2015 -0400
@@ -0,0 +1,79 @@
+>phiX174
+GAGTTTTATCGCTTCCATGACGCAGAAGTTAACACTTTCGGATATTTCTGATGAGTCGAAAAATTATCTT
+GATAAAGCAGGAATTACTACTGCTTGTTTACGAATTAAATCGAAGTGGACTGCTGGCGGAAAATGAGAAA
+ATTCGACCTATCCTTGCGCAGCTCGAGAAGCTCTTACTTTGCGACCTTTCGCCATCAACTAACGATTCTG
+TCAAAAACTGACGCGTTGGATGAGGAGAAGTGGCTTAATATGCTTGGCACGTTCGTCAAGGACTGGTTTA
+GATATGAGTCACATTTTGTTCATGGTAGAGATTCTCTTGTTGACATTTTAAAAGAGCGTGGATTACTATC
+TGAGTCCGATGCTGTTCAACCACTAATAGGTAAGAAATCATGAGTCAAGTTACTGAACAATCCGTACGTT
+TCCAGACCGCTTTGGCCTCTATTAAGCTCATTCAGGCTTCTGCCGTTTTGGATTTAACCGAAGATGATTT
+CGATTTTCTGACGAGTAACAAAGTTTGGATTGCTACTGACCGCTCTCGTGCTCGTCGCTGCGTTGAGGCT
+TGCGTTTATGGTACGCTGGACTTTGTGGGATACCCTCGCTTTCCTGCTCCTGTTGAGTTTATTGCTGCCG
+TCATTGCTTATTATGTTCATCCCGTCAACATTCAAACGGCCTGTCTCATCATGGAAGGCGCTGAATTTAC
+GGAAAACATTATTAATGGCGTCGAGCGTCCGGTTAAAGCCGCTGAATTGTTCGCGTTTACCTTGCGTGTA
+CGCGCAGGAAACACTGACGTTCTTACTGACGCAGAAGAAAACGTGCGTCAAAAATTACGTGCAGAAGGAG
+TGATGTAATGTCTAAAGGTAAAAAACGTTCTGGCGCTCGCCCTGGTCGTCCGCAGCCGTTGCGAGGTACT
+AAAGGCAAGCGTAAAGGCGCTCGTCTTTGGTATGTAGGTGGTCAACAATTTTAATTGCAGGGGCTTCGGC
+CCCTTACTTGAGGATAAATTATGTCTAATATTCAAACTGGCGCCGAGCGTATGCCGCATGACCTTTCCCA
+TCTTGGCTTCCTTGCTGGTCAGATTGGTCGTCTTATTACCATTTCAACTACTCCGGTTATCGCTGGCGAC
+TCCTTCGAGATGGACGCCGTTGGCGCTCTCCGTCTTTCTCCATTGCGTCGTGGCCTTGCTATTGACTCTA
+CTGTAGACATTTTTACTTTTTATGTCCCTCATCGTCACGTTTATGGTGAACAGTGGATTAAGTTCATGAA
+GGATGGTGTTAATGCCACTCCTCTCCCGACTGTTAACACTACTGGTTATATTGACCATGCCGCTTTTCTT
+GGCACGATTAACCCTGATACCAATAAAATCCCTAAGCATTTGTTTCAGGGTTATTTGAATATCTATAACA
+ACTATTTTAAAGCGCCGTGGATGCCTGACCGTACCGAGGCTAACCCTAATGAGCTTAATCAAGATGATGC
+TCGTTATGGTTTCCGTTGCTGCCATCTCAAAAACATTTGGACTGCTCCGCTTCCTCCTGAGACTGAGCTT
+TCTCGCCAAATGACGACTTCTACCACATCTATTGACATTATGGGTCTGCAAGCTGCTTATGCTAATTTGC
+ATACTGACCAAGAACGTGATTACTTCATGCAGCGTTACCGTGATGTTATTTCTTCATTTGGAGGTAAAAC
+CTCTTATGACGCTGACAACCGTCCTTTACTTGTCATGCGCTCTAATCTCTGGGCATCTGGCTATGATGTT
+GATGGAACTGACCAAACGTCGTTAGGCCAGTTTTCTGGTCGTGTTCAACAGACCTATAAACATTCTGTGC
+CGCGTTTCTTTGTTCCTGAGCATGGCACTATGTTTACTCTTGCGCTTGTTCGTTTTCCGCCTACTGCGAC
+TAAAGAGATTCAGTACCTTAACGCTAAAGGTGCTTTGACTTATACCGATATTGCTGGCGACCCTGTTTTG
+TATGGCAACTTGCCGCCGCGTGAAATTTCTATGAAGGATGTTTTCCGTTCTGGTGATTCGTCTAAGAAGT
+TTAAGATTGCTGAGGGTCAGTGGTATCGTTATGCGCCTTCGTATGTTTCTCCTGCTTATCACCTTCTTGA
+AGGCTTCCCATTCATTCAGGAACCGCCTTCTGGTGATTTGCAAGAACGCGTACTTATTCGCCACCATGAT
+TATGACCAGTGTTTCCAGTCCGTTCAGTTGTTGCAGTGGAATAGTCAGGTTAAATTTAATGTGACCGTTT
+ATCGCAATCTGCCGACCACTCGCGATTCAATCATGACTTCGTGATAAAAGATTGAGTGTGAGGTTATAAC
+GCCGAAGCGGTAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACCAAGCGAAGCGCGGTAGGTTTTCTGC
+TTAGGAGTTTAATCATGTTTCAGACTTTTATTTCTCGCCATAATTCAAACTTTTTTTCTGATAAGCTGGT
+TCTCACTTCTGTTACTCCAGCTTCTTCGGCACCTGTTTTACAGACACCTAAAGCTACATCGTCAACGTTA
+TATTTTGATAGTTTGACGGTTAATGCTGGTAATGGTGGTTTTCTTCATTGCATTCAGATGGATACATCTG
+TCAACGCCGCTAATCAGGTTGTTTCTGTTGGTGCTGATATTGCTTTTGATGCCGACCCTAAATTTTTTGC
+CTGTTTGGTTCGCTTTGAGTCTTCTTCGGTTCCGACTACCCTCCCGACTGCCTATGATGTTTATCCTTTG
+AATGGTCGCCATGATGGTGGTTATTATACCGTCAAGGACTGTGTGACTATTGACGTCCTTCCCCGTACGC
+CGGGCAATAATGTTTATGTTGGTTTCATGGTTTGGTCTAACTTTACCGCTACTAAATGCCGCGGATTGGT
+TTCGCTGAATCAGGTTATTAAAGAGATTATTTGTCTCCAGCCACTTAAGTGAGGTGATTTATGTTTGGTG
+CTATTGCTGGCGGTATTGCTTCTGCTCTTGCTGGTGGCGCCATGTCTAAATTGTTTGGAGGCGGTCAAAA
+AGCCGCCTCCGGTGGCATTCAAGGTGATGTGCTTGCTACCGATAACAATACTGTAGGCATGGGTGATGCT
+GGTATTAAATCTGCCATTCAAGGCTCTAATGTTCCTAACCCTGATGAGGCCGCCCCTAGTTTTGTTTCTG
+GTGCTATGGCTAAAGCTGGTAAAGGACTTCTTGAAGGTACGTTGCAGGCTGGCACTTCTGCCGTTTCTGA
+TAAGTTGCTTGATTTGGTTGGACTTGGTGGCAAGTCTGCCGCTGATAAAGGAAAGGATACTCGTGATTAT
+CTTGCTGCTGCATTTCCTGAGCTTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTCCTCTGCTGGTATGG
+TTGACGCCGGATTTGAGAATCAAAAAGAGCTTACTAAAATGCAACTGGACAATCAGAAAGAGATTGCCGA
+GATGCAAAATGAGACTCAAAAAGAGATTGCTGGCATTCAGTCGGCGACTTCACGCCAGAATACGAAAGAC
+CAGGTATATGCACAAAATGAGATGCTTGCTTATCAACAGAAGGAGTCTACTGCTCGCGTTGCGTCTATTA
+TGGAAAACACCAATCTTTCCAAGCAACAGCAGGTTTCCGAGATTATGCGCCAAATGCTTACTCAAGCTCA
+AACGGCTGGTCAGTATTTTACCAATGACCAAATCAAAGAAATGACTCGCAAGGTTAGTGCTGAGGTTGAC
+TTAGTTCATCAGCAAACGCAGAATCAGCGGTATGGCTCTTCTCATATTGGCGCTACTGCAAAGGATATTT
+CTAATGTCGTCACTGATGCTGCTTCTGGTGTGGTTGATATTTTTCATGGTATTGATAAAGCTGTTGCCGA
+TACTTGGAACAATTTCTGGAAAGACGGTAAAGCTGATGGTATTGGCTCTAATTTGTCTAGGAAATAACCG
+TCAGGATTGACACCCTCCCAATTGTATGTTTTCATGCCTCCAAATCTTGGAGGCTTTTTTATGGTTCGTT
+CTTATTACCCTTCTGAATGTCACGCTGATTATTTTGACTTTGAGCGTATCGAGGCTCTTAAACCTGCTAT
+TGAGGCTTGTGGCATTTCTACTCTTTCTCAATCCCCAATGCTTGGCTTCCATAAGCAGATGGATAACCGC
+ATCAAGCTCTTGGAAGAGATTCTGTCTTTTCGTATGCAGGGCGTTGAGTTCGATAATGGTGATATGTATG
+TTGACGGCCATAAGGCTGCTTCTGACGTTCGTGATGAGTTTGTATCTGTTACTGAGAAGTTAATGGATGA
+ATTGGCACAATGCTACAATGTGCTCCCCCAACTTGATATTAATAACACTATAGACCACCGCCCCGAAGGG
+GACGAAAAATGGTTTTTAGAGAACGAGAAGACGGTTACGCAGTTTTGCCGCAAGCTGGCTGCTGAACGCC
+CTCTTAAGGATATTCGCGATGAGTATAATTACCCCAAAAAGAAAGGTATTAAGGATGAGTGTTCAAGATT
+GCTGGAGGCCTCCACTATGAAATCGCGTAGAGGCTTTACTATTCAGCGTTTGATGAATGCAATGCGACAG
+GCTCATGCTGATGGTTGGTTTATCGTTTTTGACACTCTCACGTTGGCTGACGACCGATTAGAGGCGTTTT
+ATGATAATCCCAATGCTTTGCGTGACTATTTTCGTGATATTGGTCGTATGGTTCTTGCTGCCGAGGGTCG
+CAAGGCTAATGATTCACACGCCGACTGCTATCAGTATTTTTGTGTGCCTGAGTATGGTACAGCTAATGGC
+CGTCTTCATTTCCATGCGGTGCATTTTATGCGGACACTTCCTACAGGTAGCGTTGACCCTAATTTTGGTC
+GTCGGGTACGCAATCGCCGCCAGTTAAATAGCTTGCAAAATACGTGGCCTTATGGTTACAGTATGCCCAT
+CGCAGTTCGCTACACGCAGGACGCTTTTTCACGTTCTGGTTGGTTGTGGCCTGTTGATGCTAAAGGTGAG
+CCGCTTAAAGCTACCAGTTATATGGCTGTTGGTTTCTATGTGGCTAAATACGTTAACAAAAAGTCAGATA
+TGGACCTTGCTGCTAAAGGTCTAGGAGCTAAAGAATGGAACAACTCACTAAAAACCAAGCTGTCGCTACT
+TCCCAAGAAGCTGTTCAGAATCAGAATGAGCCGCAACTTCGGGATGAAAATGCTCACAATGACAAATCTG
+TCCACGGAGTGCTTAATCCAACTTACCAAGCTGGGTTACGACGCGACGCCGTTCAACCAGATATTGAAGC
+AGAACGCAAAAAGAGAGATGAGATTGAGGCTGGGAAAAGTTACTGTAGCCGACGTTTTGGCGGCGCAACC
+TGTGACGACAAATCTGCTCAAATTTATGCGCGCTTCGATAAAAATGATTGGCGTATCCAACCTGCA
+
diff -r 000000000000 -r e3fe061597ac tool-data/hisat_indexes.loc.sample
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool-data/hisat_indexes.loc.sample	Thu Jun 11 16:35:16 2015 -0400
@@ -0,0 +1,37 @@
+# hisat_indexes.loc.sample
+# This is a *.loc.sample file distributed with Galaxy that enables tools
+# to use a directory of indexed data files. This one is for HISAT.
+# See the wiki: http://wiki.galaxyproject.org/Admin/NGS%20Local%20Setup
+# First create these data files and save them in your own data directory structure.
+# Then, create a hisat_indexes.loc file to use those indexes with tools.
+# Copy this file, save it with the same name (minus the .sample), 
+# follow the format examples, and store the result in this directory.
+# The file should include an one line entry for each index set.
+# The path points to the "basename" for the set, not a specific file.
+# It has four text columns seperated by TABS.
+#
+# <unique_build_id>	<dbkey>	<display_name>	<file_base_path>
+#
+# So, for example, if you had hg18 indexes stored in:
+#
+#    /depot/data2/galaxy/hg19/hisat/
+#
+# containing hg19 genome and hg19.*.bt2 files, such as:
+#    -rw-rw-r-- 1 james   james   914M Feb 10 18:56 hg19canon.fa
+#    -rw-rw-r-- 1 james   james   914M Feb 10 18:56 hg19canon.1.bt2
+#    -rw-rw-r-- 1 james   james   683M Feb 10 18:56 hg19canon.2.bt2
+#    -rw-rw-r-- 1 james   james   3.3K Feb 10 16:54 hg19canon.3.bt2
+#    -rw-rw-r-- 1 james   james   683M Feb 10 16:54 hg19canon.4.bt2
+#    -rw-rw-r-- 1 james   james   914M Feb 10 20:45 hg19canon.rev.1.bt2
+#    -rw-rw-r-- 1 james   james   683M Feb 10 20:45 hg19canon.rev.2.bt2
+#
+# then the hisat_indexes.loc entry could look like this:
+#
+#hg19	hg19	Human (hg19)	/depot/data2/galaxy/hg19/hisat/hg19canon
+#
+#More examples:
+#
+#mm10	mm10	Mouse (mm10)	/depot/data2/galaxy/mm10/hisat/mm10
+#dm3	dm3		D. melanogaster (dm3)	/depot/data2/galaxy/mm10/hisat/dm3
+#
+#
diff -r 000000000000 -r e3fe061597ac tool_data_table_conf.xml.sample
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_data_table_conf.xml.sample	Thu Jun 11 16:35:16 2015 -0400
@@ -0,0 +1,8 @@
+<!-- Use the file tool_data_table_conf.xml.oldlocstyle if you don't want to update your loc files as changed in revision 4550:535d276c92bc-->
+<tables>
+    <!-- Locations of indexes in the Bowtie2 mapper format -->
+    <table name="hisat_indexes" comment_char="#">
+        <columns>value, dbkey, name, path</columns>
+        <file path="tool-data/hisat_indexes.loc" />
+    </table>
+</tables>
diff -r 000000000000 -r e3fe061597ac tool_dependencies.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Thu Jun 11 16:35:16 2015 -0400
@@ -0,0 +1,9 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="hisat" version="0.1.6">
+        <repository changeset_revision="e1f428b67305" name="package_hisat_0_1_6" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="samtools" version="1.2">
+        <repository changeset_revision="6eea04363026" name="package_samtools_1_2" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
+    </package>
+</tool_dependency>