Mercurial > repos > iuc > telescope_assign
changeset 0:66ff74923224 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/telescope commit 2ad29725263c29d7612d2e150801c212eb9a2463"
| author | iuc |
|---|---|
| date | Tue, 03 Sep 2019 18:12:09 -0400 |
| parents | |
| children | 2d8c943f3e8d |
| files | telescope_assign.xml test-data/telescope-in1.bam test-data/telescope-in1.gtf test-data/telescope-out1.bam test-data/telescope-out1.tabular |
| diffstat | 5 files changed, 769 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/telescope_assign.xml Tue Sep 03 18:12:09 2019 -0400 @@ -0,0 +1,173 @@ +<?xml version="1.0"?> +<tool id="telescope_assign" name="Reassign reads" version="@VERSION@"> + <description>with TELESCOPE using a statistical model</description> + <macros> + <token name="@VERSION@">1.0.3</token> + </macros> + <requirements> + <requirement type="package" version="@VERSION@">telescope</requirement> + <requirement type="package" version="1.9">samtools</requirement> + </requirements> + <command detect_errors="exit_code"><![CDATA[ + mkdir tempdir && + mkdir outdir && + telescope assign '$input_alignment' '$input_gtf' + --tempdir tempdir + --outdir outdir + --ncpu \${GALAXY_SLOTS:-1} + $updated_sam + #if str($advanced.advanced_options) == 'select': + --reassign_mode $advanced.reassign_mode + --conf_prob $advanced.conf_prob + --overlap_mode $advanced.overlap_mode + --overlap_threshold $advanced.overlap_threshold + --annotation_class $advanced.annotation_class + --pi_prior $advanced.pi_prior + --theta_prior $advanced.theta_prior + --em_epsilon $advanced.em_epsilon + --max_iter $advanced.max_iter + $advanced.use_likelihood + #end if + #if $updated_sam + && + if [ -f outdir/telescope-updated.bam ] ; then + samtools sort outdir/telescope-updated.bam > '$updated_alignment' ; + else + echo 'Updated alignment file not found.' ; + exit 1 ; + fi + #end if + ]]></command> + <inputs> + <param name="input_alignment" type="data" format="sam,bam" label="Input SAM or BAM file" /> + <param name="input_gtf" type="data" format="gtf" label="Input annotation" /> + <param argument="--updated_sam" type="boolean" truevalue="--updated_sam" falsevalue="" label="Also output an updated BAM file with reassigned reads" /> + <conditional name="advanced"> + <param name="advanced_options" type="select" label="Advanced options"> + <option value="defaults">Use defaults</option> + <option value="select">Select values</option> + </param> + <when value="defaults" /> + <when value="select"> + <param argument="--reassign_mode" type="select" label="Reassignment mode" + help="After EM is complete, each fragment is reassigned according to the expected value of its membership weights. The reassignment method is the method for resolving the "best" reassignment for fragments that have multiple possible reassignments. Available modes are: "exclude" - fragments with multiple best assignments are excluded from the final counts; "choose" - the best assignment is randomly chosen from among the set of best assignments; "average" - the fragment is divided evenly among the best assignments; "conf" - only assignments that exceed a certain threshold (see --conf_prob) are accepted; "unique" - only uniquely aligned reads are included. NOTE: Results using all assignment modes are included in the Telescope report by default. This argument determines what mode will be used for the "final counts" column. (default: exclude)"> + <option value="exclude">Exclude</option> + <option value="choose">Choose</option> + <option value="average">Average</option> + <option value="conf">Conf</option> + <option value="unique">Unique</option> + </param> + <param argument="--conf_prob" type="float" value="0.9" min="0" max="1" label="Minimum probability for high confidence assignment" /> + <param argument="--overlap_mode" type="select" label="Overlap mode" help="The method used to determine whether a fragment overlaps feature"> + <option value="threshold">Threshold</option> + <option value="intersection-strict">Strict intersection</option> + <option value="union">Union</option> + </param> + <param argument="--overlap_threshold" type="float" value="0.2" min="0" max="1" label="Fraction of fragment that must be contained within a feature to be assigned to that locus" help="Ignored unless overlap mode is 'threshold'" /> + <param argument="--annotation_class" type="select" label="Annotation class" help="Both htseq and intervaltree appear to yield identical results. Performance differences are TBD."> + <option value="intervaltree">Interval tree</option> + <option value="htseq">HTSeq</option> + </param> + <param argument="--pi_prior" type="integer" value="0" label="Prior on π" help="Equivalent to adding n unique reads." /> + <param argument="--theta_prior" type="integer" value="0" label="Prior on θ" help="Equivalent to adding n non-unique reads." /> + <param argument="--em_epsilon" type="float" value="0.0000001" label="EM Algorithm υ cutoff" help="Default: 1e-7" /> + <param argument="--max_iter" type="integer" value="100" label="EM Algorithm maximum iterations" help="Default: 100" /> + <param argument="--use_likelihood" type="boolean" truevalue="--use_likelihood" falsevalue="" label="Use difference in log-likelihood as convergence criteria" /> + </when> + </conditional> + </inputs> + <outputs> + <data name="output" format="tabular" from_work_dir="outdir/telescope-telescope_report.tsv" /> + <data name="updated_alignment" format="bam"> + <filter>updated_sam</filter> + </data> + </outputs> + <tests> + <test> + <param name="input_alignment" value="telescope-in1.bam" /> + <param name="input_gtf" value="telescope-in1.gtf" /> + <param name="updated_sam" value="true" /> + <output name="output" file="telescope-out1.tabular" /> + <output name="updated_alignment" file="telescope-out1.bam" /> + </test> + </tests> + <help><![CDATA[ +Output +------ + +Telescope has two main output files: the telescope report and an updated +SAM file (optional). The report file is most important for downstream +differential expression analysis since it contains the fragment count +estimates. The updated SAM file is useful for downstream locus-specific +analyses. + +Telescope report +~~~~~~~~~~~~~~~~ + +The first line in the telescope report is a comment (starting with a +“#”) that contains information about the run such as the number of +fragments processed, number of mapped fragments, number of uniquely and +ambiguously mapped fragments, and number of fragments mapping to the +annotation. The total number of mapped fragments may be useful for +normalization. + +The rest of the report is a table with calculated expression values for +individual transposable element locations. The columns of the table are: + +- ``transcript`` - Transcript ID, by default from "locus" field. See + --attribute argument to use a different attribute. +- ``transcript_length`` - Approximate length of transcript. This is + calculated from the annotation, not the data, and is equal to the + spanning length of the annotation minus any non-model regions. +- ``final_count`` - Total number of fragments assigned to transcript + after fitting the Telescope model. This is the column to use for + downstream analysis that models data as negative binomial, i.e. + DESeq2. +- ``final_conf`` - Final confident fragments. The number of fragments + assigned to transcript whose posterior probability exceeds a cutoff, + 0.9 by default. Set this using the --conf_prob argument. +- ``final_prop`` - Final proportion of fragments represented by + transcript. This is the final estimate of the π parameter. +- ``init_aligned`` - Initial number of fragments aligned to transcript. + A given fragment will contribute +1 to each transcript that it is + aligned to, thus the sum of this will be greater than the number of + fragments if there are multimapped reads. +- ``unique_count`` - Unique count. Number of fragments aligning + uniquely to this transcript. +- ``init_best`` - Initial number of fragments aligned to transcript + that have the "best" alignment score for that fragment. Fragments + that have the same best alignment score to multiple transcripts will + contribute +1 to each transcript. +- ``init_best_random`` - Initial number of fragments aligned to + transcript that have the "best" alignment score for that fragment. + Fragments that have the same best alignment score to multiple + transcripts will be randomly assigned to one transcript. + +Updated BAM file +~~~~~~~~~~~~~~~~ + +The updated BAM file contains those fragments that has at least 1 +initial alignment to a transposable element. The final assignment and +probabilities are encoded in the SAM tags: + +- ``ZF:Z`` Assigned Feature - The name of the feature that alignment is + assigned to. +- ``ZT:Z`` Telescope tag - A value of ``PRI`` indicates that this + alignment is the best hit for the feature and is used in the + likelihood calculations. Otherwise the value will be ``SEC``, meaning + that another alignment to the same feature has a higher score. +- ``ZB:Z`` Best Feature = The name(s) of the highest scoring feature(s) + for the fragment. +- ``YC:Z`` Specifies color for alignment as R,G,B. UCSC sanctioned tag, + see documentation `here.`_ +- ``XP:Z`` Alignment probability - estimated posterior probability for + this alignment. + +.. _here.: http://genome.ucsc.edu/goldenpath/help/hgBamTrackHelp.html + + ]]> + </help> + <citations> + <citation type="doi">10.1101/398172</citation> + </citations> +</tool> \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/telescope-in1.gtf Tue Sep 03 18:12:09 2019 -0400 @@ -0,0 +1,548 @@ +### HML2_1p36.21a ### +chr1 rmsk gene 12780115 12785935 . - . gene_id "HML2_1p36.21a"; transcript_id "HML2_1p36.21a"; locus "HML2_1p36.21a"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0001"; model_cov "4813"; model_pct "63.9"; +chr1 rmsk exon 12780115 12784947 27645 - . gene_id "HML2_1p36.21a"; transcript_id "HML2_1p36.21a"; locus "HML2_1p36.21a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0001"; repClass "LTR"; repEnd "4816"; repFamily "ERVK"; repLeft "3"; repStart "-2720"; +chr1 rmsk exon 12784950 12785935 7601 - . gene_id "HML2_1p36.21a"; transcript_id "HML2_1p36.21a"; locus "HML2_1p36.21a"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0001"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_1p36.21b ### +chr1 rmsk gene 13012447 13021988 . - . gene_id "HML2_1p36.21b"; transcript_id "HML2_1p36.21b"; locus "HML2_1p36.21b"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0002"; model_cov "7448"; model_pct "98.8"; +chr1 rmsk exon 13012447 13013444 8041 - . gene_id "HML2_1p36.21b"; transcript_id "HML2_1p36.21b"; locus "HML2_1p36.21b"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0002"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr1 rmsk exon 13013534 13020171 21384 - . gene_id "HML2_1p36.21b"; transcript_id "HML2_1p36.21b"; locus "HML2_1p36.21b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0002"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "743"; repStart "-89"; +chr1 rmsk exon 13020264 13020996 4529 - . gene_id "HML2_1p36.21b"; transcript_id "HML2_1p36.21b"; locus "HML2_1p36.21b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0002"; repClass "LTR"; repEnd "746"; repFamily "ERVK"; repLeft "2"; repStart "-6790"; +chr1 rmsk exon 13020998 13021988 7851 - . gene_id "HML2_1p36.21b"; transcript_id "HML2_1p36.21b"; locus "HML2_1p36.21b"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0002"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_1p36.21c ### +chr1 rmsk gene 13206972 13216513 . + . gene_id "HML2_1p36.21c"; transcript_id "HML2_1p36.21c"; locus "HML2_1p36.21c"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0003"; model_cov "7448"; model_pct "98.8"; +chr1 rmsk exon 13206972 13207962 7851 + . gene_id "HML2_1p36.21c"; transcript_id "HML2_1p36.21c"; locus "HML2_1p36.21c"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0003"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr1 rmsk exon 13207964 13208696 4529 + . gene_id "HML2_1p36.21c"; transcript_id "HML2_1p36.21c"; locus "HML2_1p36.21c"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0003"; repClass "LTR"; repEnd "746"; repFamily "ERVK"; repLeft "-6790"; repStart "2"; +chr1 rmsk exon 13208789 13215426 21447 + . gene_id "HML2_1p36.21c"; transcript_id "HML2_1p36.21c"; locus "HML2_1p36.21c"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0003"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "-89"; repStart "743"; +chr1 rmsk exon 13215516 13216513 7965 + . gene_id "HML2_1p36.21c"; transcript_id "HML2_1p36.21c"; locus "HML2_1p36.21c"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0003"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_1p36.21d ### +chr1 rmsk gene 13352736 13362257 . + . gene_id "HML2_1p36.21d"; transcript_id "HML2_1p36.21d"; locus "HML2_1p36.21d"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0004"; model_cov "7449"; model_pct "98.8"; +chr1 rmsk exon 13352736 13353726 7746 + . gene_id "HML2_1p36.21d"; transcript_id "HML2_1p36.21d"; locus "HML2_1p36.21d"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0004"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr1 rmsk exon 13353727 13354460 4505 + . gene_id "HML2_1p36.21d"; transcript_id "HML2_1p36.21d"; locus "HML2_1p36.21d"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0004"; repClass "LTR"; repEnd "746"; repFamily "ERVK"; repLeft "-6790"; repStart "1"; +chr1 rmsk exon 13354553 13361170 21857 + . gene_id "HML2_1p36.21d"; transcript_id "HML2_1p36.21d"; locus "HML2_1p36.21d"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0004"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "-89"; repStart "743"; +chr1 rmsk exon 13361260 13362257 8099 + . gene_id "HML2_1p36.21d"; transcript_id "HML2_1p36.21d"; locus "HML2_1p36.21d"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0004"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_1p34.3 ### +chr1 rmsk gene 36488984 36491127 . - . gene_id "HML2_1p34.3"; transcript_id "HML2_1p34.3"; locus "HML2_1p34.3"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0006"; model_cov "1096"; model_pct "14.5"; +chr1 rmsk exon 36488984 36489934 5851 - . gene_id "HML2_1p34.3"; transcript_id "HML2_1p34.3"; locus "HML2_1p34.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0006"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr1 rmsk exon 36490048 36490378 2634 - . gene_id "HML2_1p34.3"; transcript_id "HML2_1p34.3"; locus "HML2_1p34.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0006"; repClass "LTR"; repEnd "7417"; repFamily "ERVK"; repLeft "7087"; repStart "-119"; +chr1 rmsk exon 36490359 36491127 5815 - . gene_id "HML2_1p34.3"; transcript_id "HML2_1p34.3"; locus "HML2_1p34.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0006"; repClass "LTR"; repEnd "5868"; repFamily "ERVK"; repLeft "5102"; repStart "-1668"; +### HML2_1p31.1 ### +chr1 rmsk gene 75377086 75383458 . + . gene_id "HML2_1p31.1"; transcript_id "HML2_1p31.1"; locus "HML2_1p31.1"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0007"; model_cov "4355"; model_pct "57.8"; +chr1 rmsk exon 75377086 75378053 8811 + . gene_id "HML2_1p31.1"; transcript_id "HML2_1p31.1"; locus "HML2_1p31.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0007"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr1 rmsk exon 75378054 75380597 22845 + . gene_id "HML2_1p31.1"; transcript_id "HML2_1p31.1"; locus "HML2_1p31.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0007"; repClass "LTR"; repEnd "2543"; repFamily "ERVK"; repLeft "-4993"; repStart "1"; +chr1 rmsk exon 75380582 75380780 1643 + . gene_id "HML2_1p31.1"; transcript_id "HML2_1p31.1"; locus "HML2_1p31.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0007"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "-2002"; repStart "5336"; +chr1 rmsk exon 75380780 75382395 14607 + . gene_id "HML2_1p31.1"; transcript_id "HML2_1p31.1"; locus "HML2_1p31.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0007"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "-95"; repStart "5826"; +chr1 rmsk exon 75382491 75383458 8811 + . gene_id "HML2_1p31.1"; transcript_id "HML2_1p31.1"; locus "HML2_1p31.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0007"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_1q21.3 ### +chr1 rmsk gene 150632886 150634662 . - . gene_id "HML2_1q21.3"; transcript_id "HML2_1q21.3"; locus "HML2_1q21.3"; category "internal"; intModel "HERVK-int"; locid "HERVK-int_0009"; model_cov "1783"; model_pct "23.7"; +chr1 rmsk exon 150632886 150634662 15187 - . gene_id "HML2_1q21.3"; transcript_id "HML2_1q21.3"; locus "HML2_1q21.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0009"; repClass "LTR"; repEnd "5563"; repFamily "ERVK"; repLeft "3780"; repStart "-1973"; +### HML2_1q22 ### +chr1 rmsk gene 155626666 155635845 . - . gene_id "HML2_1q22"; transcript_id "HML2_1q22"; locus "HML2_1q22"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0011"; model_cov "7148"; model_pct "94.9"; +chr1 rmsk exon 155626666 155627633 8978 - . gene_id "HML2_1q22"; transcript_id "HML2_1q22"; locus "HML2_1q22"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0011"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr1 rmsk exon 155627729 155629344 14971 - . gene_id "HML2_1q22"; transcript_id "HML2_1q22"; locus "HML2_1q22"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0011"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "5826"; repStart "-95"; +chr1 rmsk exon 155629344 155634877 50700 - . gene_id "HML2_1q22"; transcript_id "HML2_1q22"; locus "HML2_1q22"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0011"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "1"; repStart "-2002"; +chr1 rmsk exon 155634878 155635845 8978 - . gene_id "HML2_1q22"; transcript_id "HML2_1q22"; locus "HML2_1q22"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0011"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_1q23.3 ### +chr1 rmsk gene 160690785 160700016 . + . gene_id "HML2_1q23.3"; transcript_id "HML2_1q23.3"; locus "HML2_1q23.3"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0012"; model_cov "7209"; model_pct "95.7"; +chr1 rmsk exon 160690785 160691753 8986 + . gene_id "HML2_1q23.3"; transcript_id "HML2_1q23.3"; locus "HML2_1q23.3"; repName "LTR5"; geneRegion "ltr"; locid "HERVK-int_0012"; repClass "LTR"; repEnd "969"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr1 rmsk exon 160691754 160697338 32110 + . gene_id "HML2_1q23.3"; transcript_id "HML2_1q23.3"; locus "HML2_1q23.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0012"; repClass "LTR"; repEnd "5178"; repFamily "ERVK"; repLeft "-2358"; repStart "-416"; +chr1 rmsk exon 160697338 160698953 14352 + . gene_id "HML2_1q23.3"; transcript_id "HML2_1q23.3"; locus "HML2_1q23.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0012"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "-95"; repStart "5826"; +chr1 rmsk exon 160699048 160700016 8448 + . gene_id "HML2_1q23.3"; transcript_id "HML2_1q23.3"; locus "HML2_1q23.3"; repName "LTR5"; geneRegion "ltr"; locid "HERVK-int_0012"; repClass "LTR"; repEnd "969"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_1q24.1 ### +chr1 rmsk gene 166605366 166611021 . - . gene_id "HML2_1q24.1"; transcript_id "HML2_1q24.1"; locus "HML2_1q24.1"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0013"; model_cov "3660"; model_pct "48.6"; +chr1 rmsk exon 166605366 166606355 7845 - . gene_id "HML2_1q24.1"; transcript_id "HML2_1q24.1"; locus "HML2_1q24.1"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0013"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr1 rmsk exon 166606445 166609934 20727 - . gene_id "HML2_1q24.1"; transcript_id "HML2_1q24.1"; locus "HML2_1q24.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0013"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "3882"; repStart "-89"; +chr1 rmsk exon 166609929 166610025 470 - . gene_id "HML2_1q24.1"; transcript_id "HML2_1q24.1"; locus "HML2_1q24.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0013"; repClass "LTR"; repEnd "102"; repFamily "ERVK"; repLeft "7"; repStart "-7434"; +chr1 rmsk exon 166610032 166611021 7616 - . gene_id "HML2_1q24.1"; transcript_id "HML2_1q24.1"; locus "HML2_1q24.1"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0013"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_1q32.2 ### +chr1 rmsk gene 207635112 207639291 . - . gene_id "HML2_1q32.2"; transcript_id "HML2_1q32.2"; locus "HML2_1q32.2"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0014"; model_cov "3184"; model_pct "42.3"; +chr1 rmsk exon 207635112 207636074 7708 - . gene_id "HML2_1q32.2"; transcript_id "HML2_1q32.2"; locus "HML2_1q32.2"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0014"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr1 rmsk exon 207636165 207637777 13912 - . gene_id "HML2_1q32.2"; transcript_id "HML2_1q32.2"; locus "HML2_1q32.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0014"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "5826"; repStart "-95"; +chr1 rmsk exon 207637777 207638358 4802 - . gene_id "HML2_1q32.2"; transcript_id "HML2_1q32.2"; locus "HML2_1q32.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0014"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "4952"; repStart "-2002"; +chr1 rmsk exon 207638337 207639291 7029 - . gene_id "HML2_1q32.2"; transcript_id "HML2_1q32.2"; locus "HML2_1q32.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0014"; repClass "LTR"; repEnd "2716"; repFamily "ERVK"; repLeft "1729"; repStart "-4820"; +### HML2_1q43 ### +chr1 rmsk gene 238762295 238764473 . - . gene_id "HML2_1q43"; transcript_id "HML2_1q43"; locus "HML2_1q43"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0015"; model_cov "1101"; model_pct "14.6"; +chr1 rmsk exon 238762295 238763288 7387 - . gene_id "HML2_1q43"; transcript_id "HML2_1q43"; locus "HML2_1q43"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0015"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr1 rmsk exon 238763378 238764473 7000 - . gene_id "HML2_1q43"; transcript_id "HML2_1q43"; locus "HML2_1q43"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0015"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "6346"; repStart "-89"; +### HML2_2q21.1 ### +chr2 rmsk gene 129961965 129965044 . - . gene_id "HML2_2q21.1"; transcript_id "HML2_2q21.1"; locus "HML2_2q21.1"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0016"; model_cov "2023"; model_pct "26.8"; +chr2 rmsk exon 129961965 129962925 8380 - . gene_id "HML2_2q21.1"; transcript_id "HML2_2q21.1"; locus "HML2_2q21.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0016"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr2 rmsk exon 129963021 129964636 14541 - . gene_id "HML2_2q21.1"; transcript_id "HML2_2q21.1"; locus "HML2_2q21.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0016"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "5826"; repStart "-95"; +chr2 rmsk exon 129964636 129965044 3589 - . gene_id "HML2_2q21.1"; transcript_id "HML2_2q21.1"; locus "HML2_2q21.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0016"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "5126"; repStart "-2002"; +### HML2_3p25.3 ### +chr3 rmsk gene 9847662 9854552 . - . gene_id "HML2_3p25.3"; transcript_id "HML2_3p25.3"; locus "HML2_3p25.3"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0020"; model_cov "4918"; model_pct "65.3"; +chr3 rmsk exon 9847662 9848644 7459 - . gene_id "HML2_3p25.3"; transcript_id "HML2_3p25.3"; locus "HML2_3p25.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0020"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr3 rmsk exon 9848734 9850354 13139 - . gene_id "HML2_3p25.3"; transcript_id "HML2_3p25.3"; locus "HML2_3p25.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0020"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "5826"; repStart "-89"; +chr3 rmsk exon 9850354 9850938 4633 - . gene_id "HML2_3p25.3"; transcript_id "HML2_3p25.3"; locus "HML2_3p25.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0020"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "4952"; repStart "-2002"; +chr3 rmsk exon 9850917 9853634 21518 - . gene_id "HML2_3p25.3"; transcript_id "HML2_3p25.3"; locus "HML2_3p25.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0020"; repClass "LTR"; repEnd "2716"; repFamily "ERVK"; repLeft "1"; repStart "-4820"; +chr3 rmsk exon 9853635 9854552 6737 - . gene_id "HML2_3p25.3"; transcript_id "HML2_3p25.3"; locus "HML2_3p25.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0020"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_3p12.3 ### +chr3 rmsk gene 75551314 75559999 . + . gene_id "HML2_3p12.3"; transcript_id "HML2_3p12.3"; locus "HML2_3p12.3"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0022"; model_cov "7535"; model_pct "100.0"; +chr3 rmsk exon 75551314 75551382 580 + . gene_id "HML2_3p12.3"; transcript_id "HML2_3p12.3"; locus "HML2_3p12.3"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0022"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "0"; repStart "965"; +chr3 rmsk exon 75551383 75558968 37160 + . gene_id "HML2_3p12.3"; transcript_id "HML2_3p12.3"; locus "HML2_3p12.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0022"; repClass "LTR"; repEnd "7536"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr3 rmsk exon 75558969 75559999 8382 + . gene_id "HML2_3p12.3"; transcript_id "HML2_3p12.3"; locus "HML2_3p12.3"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0022"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_3q12.3 ### +chr3 rmsk gene 101691893 101701015 . + . gene_id "HML2_3q12.3"; transcript_id "HML2_3q12.3"; locus "HML2_3q12.3"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0023"; model_cov "7148"; model_pct "94.9"; +chr3 rmsk exon 101691893 101692861 8050 + . gene_id "HML2_3q12.3"; transcript_id "HML2_3q12.3"; locus "HML2_3q12.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0023"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr3 rmsk exon 101692862 101698340 22220 + . gene_id "HML2_3q12.3"; transcript_id "HML2_3q12.3"; locus "HML2_3q12.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0023"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "-2002"; repStart "1"; +chr3 rmsk exon 101698340 101699951 14507 + . gene_id "HML2_3q12.3"; transcript_id "HML2_3q12.3"; locus "HML2_3q12.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0023"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "-95"; repStart "5826"; +chr3 rmsk exon 101700047 101701015 8320 + . gene_id "HML2_3q12.3"; transcript_id "HML2_3q12.3"; locus "HML2_3q12.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0023"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_3q13.2 ### +chr3 rmsk gene 113024277 113033435 . - . gene_id "HML2_3q13.2"; transcript_id "HML2_3q13.2"; locus "HML2_3q13.2"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0024"; model_cov "7148"; model_pct "94.9"; +chr3 rmsk exon 113024277 113025236 9337 - . gene_id "HML2_3q13.2"; transcript_id "HML2_3q13.2"; locus "HML2_3q13.2"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0024"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr3 rmsk exon 113025332 113026948 14772 - . gene_id "HML2_3q13.2"; transcript_id "HML2_3q13.2"; locus "HML2_3q13.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0024"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "5826"; repStart "-95"; +chr3 rmsk exon 113026948 113032475 50828 - . gene_id "HML2_3q13.2"; transcript_id "HML2_3q13.2"; locus "HML2_3q13.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0024"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "1"; repStart "-2002"; +chr3 rmsk exon 113032476 113033435 9337 - . gene_id "HML2_3q13.2"; transcript_id "HML2_3q13.2"; locus "HML2_3q13.2"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0024"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_3q21.2 ### +chr3 rmsk gene 125890459 125899596 . + . gene_id "HML2_3q21.2"; transcript_id "HML2_3q21.2"; locus "HML2_3q21.2"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0026"; model_cov "7446"; model_pct "98.8"; +chr3 rmsk exon 125890459 125891239 6706 + . gene_id "HML2_3q21.2"; transcript_id "HML2_3q21.2"; locus "HML2_3q21.2"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0026"; repClass "LTR"; repEnd "789"; repFamily "ERVK"; repLeft "-179"; repStart "1"; +chr3 rmsk exon 125891209 125891262 317 + . gene_id "HML2_3q21.2"; transcript_id "HML2_3q21.2"; locus "HML2_3q21.2"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0026"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "915"; +chr3 rmsk exon 125891263 125898703 63114 + . gene_id "HML2_3q21.2"; transcript_id "HML2_3q21.2"; locus "HML2_3q21.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0026"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "-89"; repStart "1"; +chr3 rmsk exon 125898793 125899573 6625 + . gene_id "HML2_3q21.2"; transcript_id "HML2_3q21.2"; locus "HML2_3q21.2"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0026"; repClass "LTR"; repEnd "789"; repFamily "ERVK"; repLeft "-179"; repStart "1"; +chr3 rmsk exon 125899543 125899596 290 + . gene_id "HML2_3q21.2"; transcript_id "HML2_3q21.2"; locus "HML2_3q21.2"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0026"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "915"; +### HML2_3q24 ### +chr3 rmsk gene 148563690 148567609 . - . gene_id "HML2_3q24"; transcript_id "HML2_3q24"; locus "HML2_3q24"; category "internal"; intModel "HERVK-int"; locid "HERVK-int_0028"; model_cov "3918"; model_pct "52.0"; +chr3 rmsk exon 148563690 148567609 35394 - . gene_id "HML2_3q24"; transcript_id "HML2_3q24"; locus "HML2_3q24"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0028"; repClass "LTR"; repEnd "3919"; repFamily "ERVK"; repLeft "1"; repStart "-3617"; +### HML2_3q27.2 ### +chr3 rmsk gene 185562548 185571727 . - . gene_id "HML2_3q27.2"; transcript_id "HML2_3q27.2"; locus "HML2_3q27.2"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0029"; model_cov "7148"; model_pct "94.9"; +chr3 rmsk exon 185562548 185563515 8924 - . gene_id "HML2_3q27.2"; transcript_id "HML2_3q27.2"; locus "HML2_3q27.2"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0029"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr3 rmsk exon 185563611 185565226 14815 - . gene_id "HML2_3q27.2"; transcript_id "HML2_3q27.2"; locus "HML2_3q27.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0029"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "5826"; repStart "-95"; +chr3 rmsk exon 185565226 185570759 50470 - . gene_id "HML2_3q27.2"; transcript_id "HML2_3q27.2"; locus "HML2_3q27.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0029"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "1"; repStart "-2002"; +chr3 rmsk exon 185570760 185571727 8884 - . gene_id "HML2_3q27.2"; transcript_id "HML2_3q27.2"; locus "HML2_3q27.2"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0029"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_4p16.3a ### +chr4 rmsk gene 241200 245565 . + . gene_id "HML2_4p16.3a"; transcript_id "HML2_4p16.3a"; locus "HML2_4p16.3a"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0030"; model_cov "3299"; model_pct "43.8"; +chr4 rmsk exon 241200 242201 7488 + . gene_id "HML2_4p16.3a"; transcript_id "HML2_4p16.3a"; locus "HML2_4p16.3a"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0030"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "4"; +chr4 rmsk exon 242202 242389 1073 + . gene_id "HML2_4p16.3a"; transcript_id "HML2_4p16.3a"; locus "HML2_4p16.3a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0030"; repClass "LTR"; repEnd "198"; repFamily "ERVK"; repLeft "-7338"; repStart "1"; +chr4 rmsk exon 242385 245212 15829 + . gene_id "HML2_4p16.3a"; transcript_id "HML2_4p16.3a"; locus "HML2_4p16.3a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0030"; repClass "LTR"; repEnd "3715"; repFamily "ERVK"; repLeft "-3821"; repStart "873"; +chr4 rmsk exon 245308 245565 1656 + . gene_id "HML2_4p16.3a"; transcript_id "HML2_4p16.3a"; locus "HML2_4p16.3a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0030"; repClass "LTR"; repEnd "3958"; repFamily "ERVK"; repLeft "-3578"; repStart "3698"; +### HML2_4p16.3b ### +chr4 rmsk gene 3977324 3986912 . - . gene_id "HML2_4p16.3b"; transcript_id "HML2_4p16.3b"; locus "HML2_4p16.3b"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0031"; model_cov "7535"; model_pct "100.0"; +chr4 rmsk exon 3977324 3978367 8576 - . gene_id "HML2_4p16.3b"; transcript_id "HML2_4p16.3b"; locus "HML2_4p16.3b"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0031"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr4 rmsk exon 3978368 3985909 45400 - . gene_id "HML2_4p16.3b"; transcript_id "HML2_4p16.3b"; locus "HML2_4p16.3b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0031"; repClass "LTR"; repEnd "7536"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr4 rmsk exon 3985910 3986912 8316 - . gene_id "HML2_4p16.3b"; transcript_id "HML2_4p16.3b"; locus "HML2_4p16.3b"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0031"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_4p16.1a ### +chr4 rmsk gene 9121786 9131367 . + . gene_id "HML2_4p16.1a"; transcript_id "HML2_4p16.1a"; locus "HML2_4p16.1a"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0034"; model_cov "7446"; model_pct "98.8"; +chr4 rmsk exon 9121786 9122809 8752 + . gene_id "HML2_4p16.1a"; transcript_id "HML2_4p16.1a"; locus "HML2_4p16.1a"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0034"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr4 rmsk exon 9122810 9130255 44130 + . gene_id "HML2_4p16.1a"; transcript_id "HML2_4p16.1a"; locus "HML2_4p16.1a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0034"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "-89"; repStart "1"; +chr4 rmsk exon 9130345 9131367 8342 + . gene_id "HML2_4p16.1a"; transcript_id "HML2_4p16.1a"; locus "HML2_4p16.1a"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0034"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_4p16.1b ### +chr4 rmsk gene 9657956 9667550 . + . gene_id "HML2_4p16.1b"; transcript_id "HML2_4p16.1b"; locus "HML2_4p16.1b"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0036"; model_cov "7447"; model_pct "98.8"; +chr4 rmsk exon 9657956 9658973 8450 + . gene_id "HML2_4p16.1b"; transcript_id "HML2_4p16.1b"; locus "HML2_4p16.1b"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0036"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr4 rmsk exon 9658974 9666434 46859 + . gene_id "HML2_4p16.1b"; transcript_id "HML2_4p16.1b"; locus "HML2_4p16.1b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0036"; repClass "LTR"; repEnd "7448"; repFamily "ERVK"; repLeft "-88"; repStart "1"; +chr4 rmsk exon 9666525 9667550 8382 + . gene_id "HML2_4p16.1b"; transcript_id "HML2_4p16.1b"; locus "HML2_4p16.1b"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0036"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_4q13.2 ### +chr4 rmsk gene 68597991 68603505 . + . gene_id "HML2_4q13.2"; transcript_id "HML2_4q13.2"; locus "HML2_4q13.2"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0037"; model_cov "3562"; model_pct "47.3"; +chr4 rmsk exon 68597991 68598948 6942 + . gene_id "HML2_4q13.2"; transcript_id "HML2_4q13.2"; locus "HML2_4q13.2"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0037"; repClass "LTR"; repEnd "955"; repFamily "ERVK"; repLeft "-78"; repStart "1"; +chr4 rmsk exon 68598949 68602490 20320 + . gene_id "HML2_4q13.2"; transcript_id "HML2_4q13.2"; locus "HML2_4q13.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0037"; repClass "LTR"; repEnd "7511"; repFamily "ERVK"; repLeft "-25"; repStart "3949"; +chr4 rmsk exon 68602500 68603505 7736 + . gene_id "HML2_4q13.2"; transcript_id "HML2_4q13.2"; locus "HML2_4q13.2"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0037"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_4q32.1 ### +chr4 rmsk gene 160658786 160660924 . + . gene_id "HML2_4q32.1"; transcript_id "HML2_4q32.1"; locus "HML2_4q32.1"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0038"; model_cov "1186"; model_pct "15.7"; +chr4 rmsk exon 160658786 160659753 8801 + . gene_id "HML2_4q32.1"; transcript_id "HML2_4q32.1"; locus "HML2_4q32.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0038"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr4 rmsk exon 160659754 160660025 2390 + . gene_id "HML2_4q32.1"; transcript_id "HML2_4q32.1"; locus "HML2_4q32.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0038"; repClass "LTR"; repEnd "272"; repFamily "ERVK"; repLeft "-7264"; repStart "1"; +chr4 rmsk exon 160660008 160660924 8165 + . gene_id "HML2_4q32.1"; transcript_id "HML2_4q32.1"; locus "HML2_4q32.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0038"; repClass "LTR"; repEnd "1338"; repFamily "ERVK"; repLeft "-6198"; repStart "423"; +### HML2_4q32.3 ### +chr4 rmsk gene 164995688 165002916 . + . gene_id "HML2_4q32.3"; transcript_id "HML2_4q32.3"; locus "HML2_4q32.3"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0040"; model_cov "4910"; model_pct "65.2"; +chr4 rmsk exon 164995688 164996655 7694 + . gene_id "HML2_4q32.3"; transcript_id "HML2_4q32.3"; locus "HML2_4q32.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0040"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr4 rmsk exon 164996656 164999353 21428 + . gene_id "HML2_4q32.3"; transcript_id "HML2_4q32.3"; locus "HML2_4q32.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0040"; repClass "LTR"; repEnd "2716"; repFamily "ERVK"; repLeft "-4820"; repStart "1"; +chr4 rmsk exon 164999332 164999426 2771 + . gene_id "HML2_4q32.3"; transcript_id "HML2_4q32.3"; locus "HML2_4q32.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0040"; repClass "LTR"; repEnd "5043"; repFamily "ERVK"; repLeft "-2493"; repStart "4952"; +chr4 rmsk exon 164999735 165000000 2771 + . gene_id "HML2_4q32.3"; transcript_id "HML2_4q32.3"; locus "HML2_4q32.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0040"; repClass "LTR"; repEnd "5301"; repFamily "ERVK"; repLeft "-2235"; repStart "5044"; +chr4 rmsk exon 165000001 165000233 1948 + . gene_id "HML2_4q32.3"; transcript_id "HML2_4q32.3"; locus "HML2_4q32.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0040"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "-2002"; repStart "5302"; +chr4 rmsk exon 165000233 165001857 13233 + . gene_id "HML2_4q32.3"; transcript_id "HML2_4q32.3"; locus "HML2_4q32.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0040"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "-95"; repStart "5826"; +chr4 rmsk exon 165001953 165002916 7826 + . gene_id "HML2_4q32.3"; transcript_id "HML2_4q32.3"; locus "HML2_4q32.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0040"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_4q35.2 ### +chr4 rmsk gene 190106259 190113546 . - . gene_id "HML2_4q35.2"; transcript_id "HML2_4q35.2"; locus "HML2_4q35.2"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0041"; model_cov "4984"; model_pct "66.1"; +chr4 rmsk exon 190106259 190107263 7790 - . gene_id "HML2_4q35.2"; transcript_id "HML2_4q35.2"; locus "HML2_4q35.2"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0041"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr4 rmsk exon 190107266 190108168 5549 - . gene_id "HML2_4q35.2"; transcript_id "HML2_4q35.2"; locus "HML2_4q35.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0041"; repClass "LTR"; repEnd "7534"; repFamily "ERVK"; repLeft "6626"; repStart "-2"; +chr4 rmsk exon 190108264 190111540 23124 - . gene_id "HML2_4q35.2"; transcript_id "HML2_4q35.2"; locus "HML2_4q35.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0041"; repClass "LTR"; repEnd "6328"; repFamily "ERVK"; repLeft "3007"; repStart "-1208"; +chr4 rmsk exon 190111624 190111683 261 - . gene_id "HML2_4q35.2"; transcript_id "HML2_4q35.2"; locus "HML2_4q35.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0041"; repClass "LTR"; repEnd "820"; repFamily "ERVK"; repLeft "761"; repStart "-6716"; +chr4 rmsk exon 190111667 190111959 1729 - . gene_id "HML2_4q35.2"; transcript_id "HML2_4q35.2"; locus "HML2_4q35.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0041"; repClass "LTR"; repEnd "696"; repFamily "ERVK"; repLeft "401"; repStart "-6840"; +chr4 rmsk exon 190112160 190112541 2323 - . gene_id "HML2_4q35.2"; transcript_id "HML2_4q35.2"; locus "HML2_4q35.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0041"; repClass "LTR"; repEnd "402"; repFamily "ERVK"; repLeft "1"; repStart "-7134"; +chr4 rmsk exon 190112542 190113546 7805 - . gene_id "HML2_4q35.2"; transcript_id "HML2_4q35.2"; locus "HML2_4q35.2"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0041"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "6"; repStart "0"; +### HML2_5p13.3 ### +chr5 rmsk gene 30486653 30496098 . - . gene_id "HML2_5p13.3"; transcript_id "HML2_5p13.3"; locus "HML2_5p13.3"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0042"; model_cov "7440"; model_pct "98.7"; +chr5 rmsk exon 30486653 30487612 8378 - . gene_id "HML2_5p13.3"; transcript_id "HML2_5p13.3"; locus "HML2_5p13.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0042"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr5 rmsk exon 30487708 30495147 66061 - . gene_id "HML2_5p13.3"; transcript_id "HML2_5p13.3"; locus "HML2_5p13.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0042"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "1"; repStart "-95"; +chr5 rmsk exon 30495148 30496098 8198 - . gene_id "HML2_5p13.3"; transcript_id "HML2_5p13.3"; locus "HML2_5p13.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0042"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_5p12 ### +chr5 rmsk gene 46000057 46009900 . - . gene_id "HML2_5p12"; transcript_id "HML2_5p12"; locus "HML2_5p12"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0043"; model_cov "7241"; model_pct "96.1"; +chr5 rmsk exon 46000057 46001004 6385 - . gene_id "HML2_5p12"; transcript_id "HML2_5p12"; locus "HML2_5p12"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0043"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr5 rmsk exon 46001005 46002716 13121 - . gene_id "HML2_5p12"; transcript_id "HML2_5p12"; locus "HML2_5p12"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0043"; repClass "LTR"; repEnd "7536"; repFamily "ERVK"; repLeft "5826"; repStart "0"; +chr5 rmsk exon 46002716 46008021 41714 - . gene_id "HML2_5p12"; transcript_id "HML2_5p12"; locus "HML2_5p12"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0043"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "217"; repStart "-2002"; +chr5 rmsk exon 46008729 46008936 41714 - . gene_id "HML2_5p12"; transcript_id "HML2_5p12"; locus "HML2_5p12"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0043"; repClass "LTR"; repEnd "216"; repFamily "ERVK"; repLeft "2"; repStart "-7320"; +chr5 rmsk exon 46008940 46009900 6205 - . gene_id "HML2_5p12"; transcript_id "HML2_5p12"; locus "HML2_5p12"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0043"; repClass "LTR"; repEnd "965"; repFamily "ERVK"; repLeft "1"; repStart "-3"; +### HML2_5q33.2 ### +chr5 rmsk gene 154635953 154644655 . - . gene_id "HML2_5q33.2"; transcript_id "HML2_5q33.2"; locus "HML2_5q33.2"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0046"; model_cov "6623"; model_pct "87.9"; +chr5 rmsk exon 154635953 154636977 7881 - . gene_id "HML2_5q33.2"; transcript_id "HML2_5q33.2"; locus "HML2_5q33.2"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0046"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "-30"; repStart "0"; +chr5 rmsk exon 154636980 154640034 20165 - . gene_id "HML2_5q33.2"; transcript_id "HML2_5q33.2"; locus "HML2_5q33.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0046"; repClass "LTR"; repEnd "7534"; repFamily "ERVK"; repLeft "4466"; repStart "-2"; +chr5 rmsk exon 154640032 154642817 16400 - . gene_id "HML2_5q33.2"; transcript_id "HML2_5q33.2"; locus "HML2_5q33.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0046"; repClass "LTR"; repEnd "3553"; repFamily "ERVK"; repLeft "743"; repStart "-3983"; +chr5 rmsk exon 154642910 154643647 4615 - . gene_id "HML2_5q33.2"; transcript_id "HML2_5q33.2"; locus "HML2_5q33.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0046"; repClass "LTR"; repEnd "746"; repFamily "ERVK"; repLeft "1"; repStart "-6790"; +chr5 rmsk exon 154643648 154644655 7899 - . gene_id "HML2_5q33.2"; transcript_id "HML2_5q33.2"; locus "HML2_5q33.2"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0046"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "3"; repStart "0"; +### HML2_5q33.3 ### +chr5 rmsk gene 156657706 156666885 . - . gene_id "HML2_5q33.3"; transcript_id "HML2_5q33.3"; locus "HML2_5q33.3"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0047"; model_cov "7148"; model_pct "94.9"; +chr5 rmsk exon 156657706 156658673 8851 - . gene_id "HML2_5q33.3"; transcript_id "HML2_5q33.3"; locus "HML2_5q33.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0047"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr5 rmsk exon 156658769 156660384 14111 - . gene_id "HML2_5q33.3"; transcript_id "HML2_5q33.3"; locus "HML2_5q33.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0047"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "5826"; repStart "-95"; +chr5 rmsk exon 156660384 156665917 47612 - . gene_id "HML2_5q33.3"; transcript_id "HML2_5q33.3"; locus "HML2_5q33.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0047"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "1"; repStart "-2002"; +chr5 rmsk exon 156665918 156666885 8861 - . gene_id "HML2_5q33.3"; transcript_id "HML2_5q33.3"; locus "HML2_5q33.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0047"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_6p22.1 ### +chr6 rmsk gene 28682591 28692958 . + . gene_id "HML2_6p22.1"; transcript_id "HML2_6p22.1"; locus "HML2_6p22.1"; category "unknown"; intModel "HERVK-int"; locid "HERVK-int_0049"; model_cov "7588"; model_pct "100.0"; +chr6 rmsk exon 28682591 28683408 3942 + . gene_id "HML2_6p22.1"; transcript_id "HML2_6p22.1"; locus "HML2_6p22.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0049"; repClass "LTR"; repEnd "965"; repFamily "ERVK"; repLeft "-3"; repStart "189"; +chr6 rmsk exon 28683412 28684170 5291 + . gene_id "HML2_6p22.1"; transcript_id "HML2_6p22.1"; locus "HML2_6p22.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0049"; repClass "LTR"; repEnd "776"; repFamily "ERVK"; repLeft "-6760"; repStart "1"; +chr6 rmsk exon 28684224 28687381 53735 + . gene_id "HML2_6p22.1"; transcript_id "HML2_6p22.1"; locus "HML2_6p22.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0049"; repClass "LTR"; repEnd "3909"; repFamily "ERVK"; repLeft "-3627"; repStart "722"; +chr6 rmsk exon 28687382 28688356 6122 + . gene_id "HML2_6p22.1"; transcript_id "HML2_6p22.1"; locus "HML2_6p22.1"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0049"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr6 rmsk exon 28688357 28692010 53735 + . gene_id "HML2_6p22.1"; transcript_id "HML2_6p22.1"; locus "HML2_6p22.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0049"; repClass "LTR"; repEnd "7536"; repFamily "ERVK"; repLeft "0"; repStart "3910"; +chr6 rmsk exon 28692011 28692958 5830 + . gene_id "HML2_6p22.1"; transcript_id "HML2_6p22.1"; locus "HML2_6p22.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0049"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_6p21.1 ### +chr6 rmsk gene 42893671 42903629 . - . gene_id "HML2_6p21.1"; transcript_id "HML2_6p21.1"; locus "HML2_6p21.1"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0050"; model_cov "7529"; model_pct "99.9"; +chr6 rmsk exon 42893671 42894666 7663 - . gene_id "HML2_6p21.1"; transcript_id "HML2_6p21.1"; locus "HML2_6p21.1"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0050"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr6 rmsk exon 42894674 42900373 42072 - . gene_id "HML2_6p21.1"; transcript_id "HML2_6p21.1"; locus "HML2_6p21.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0050"; repClass "LTR"; repEnd "7524"; repFamily "ERVK"; repLeft "1856"; repStart "-12"; +chr6 rmsk exon 42900685 42901811 42072 - . gene_id "HML2_6p21.1"; transcript_id "HML2_6p21.1"; locus "HML2_6p21.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0050"; repClass "LTR"; repEnd "1855"; repFamily "ERVK"; repLeft "743"; repStart "-5681"; +chr6 rmsk exon 42901891 42902625 4270 - . gene_id "HML2_6p21.1"; transcript_id "HML2_6p21.1"; locus "HML2_6p21.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0050"; repClass "LTR"; repEnd "758"; repFamily "ERVK"; repLeft "9"; repStart "-6778"; +chr6 rmsk exon 42902633 42903629 7599 - . gene_id "HML2_6p21.1"; transcript_id "HML2_6p21.1"; locus "HML2_6p21.1"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0050"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_6q11.1 ### +chr6 rmsk gene 60654987 60660975 . + . gene_id "HML2_6q11.1"; transcript_id "HML2_6q11.1"; locus "HML2_6q11.1"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0051"; model_cov "3472"; model_pct "46.1"; +chr6 rmsk exon 60654987 60656012 8037 + . gene_id "HML2_6q11.1"; transcript_id "HML2_6q11.1"; locus "HML2_6q11.1"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0051"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr6 rmsk exon 60656013 60656707 3744 + . gene_id "HML2_6q11.1"; transcript_id "HML2_6q11.1"; locus "HML2_6q11.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0051"; repClass "LTR"; repEnd "696"; repFamily "ERVK"; repLeft "-6840"; repStart "1"; +chr6 rmsk exon 60656834 60659432 16583 + . gene_id "HML2_6q11.1"; transcript_id "HML2_6q11.1"; locus "HML2_6q11.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0051"; repClass "LTR"; repEnd "5613"; repFamily "ERVK"; repLeft "-1923"; repStart "3007"; +chr6 rmsk exon 60659770 60659941 1027 + . gene_id "HML2_6q11.1"; transcript_id "HML2_6q11.1"; locus "HML2_6q11.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0051"; repClass "LTR"; repEnd "7528"; repFamily "ERVK"; repLeft "-8"; repStart "7357"; +chr6 rmsk exon 60659956 60660975 7824 + . gene_id "HML2_6q11.1"; transcript_id "HML2_6q11.1"; locus "HML2_6q11.1"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0051"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_6q14.1 ### +chr6 rmsk gene 77716945 77726366 . - . gene_id "HML2_6q14.1"; transcript_id "HML2_6q14.1"; locus "HML2_6q14.1"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0053"; model_cov "7440"; model_pct "98.7"; +chr6 rmsk exon 77716945 77717904 8674 - . gene_id "HML2_6q14.1"; transcript_id "HML2_6q14.1"; locus "HML2_6q14.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0053"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr6 rmsk exon 77718000 77725406 48157 - . gene_id "HML2_6q14.1"; transcript_id "HML2_6q14.1"; locus "HML2_6q14.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0053"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "1"; repStart "-95"; +chr6 rmsk exon 77725407 77726366 8726 - . gene_id "HML2_6q14.1"; transcript_id "HML2_6q14.1"; locus "HML2_6q14.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0053"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_6q25.1 ### +chr6 rmsk gene 150859613 150862438 . + . gene_id "HML2_6q25.1"; transcript_id "HML2_6q25.1"; locus "HML2_6q25.1"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0054"; model_cov "1757"; model_pct "23.3"; +chr6 rmsk exon 150859613 150861371 13136 + . gene_id "HML2_6q25.1"; transcript_id "HML2_6q25.1"; locus "HML2_6q25.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0054"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "-95"; repStart "5684"; +chr6 rmsk exon 150861466 150862438 6300 + . gene_id "HML2_6q25.1"; transcript_id "HML2_6q25.1"; locus "HML2_6q25.1"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0054"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_7p22.1 ### +chr7 rmsk gene 4582426 4600400 . - . gene_id "HML2_7p22.1"; transcript_id "HML2_7p22.1"; locus "HML2_7p22.1"; category "tandem*"; intModel "HERVK-int"; locid "HERVK-int_0055"; model_cov "7440"; model_pct "98.7"; +chr7 rmsk exon 4582426 4583393 8941 - . gene_id "HML2_7p22.1"; transcript_id "HML2_7p22.1"; locus "HML2_7p22.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0055"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr7 rmsk exon 4583489 4590929 68784 - . gene_id "HML2_7p22.1"; transcript_id "HML2_7p22.1"; locus "HML2_7p22.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0055"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "1"; repStart "-95"; +chr7 rmsk exon 4590930 4591897 8936 - . gene_id "HML2_7p22.1"; transcript_id "HML2_7p22.1"; locus "HML2_7p22.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0055"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr7 rmsk exon 4591993 4599432 68780 - . gene_id "HML2_7p22.1"; transcript_id "HML2_7p22.1"; locus "HML2_7p22.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0055"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "1"; repStart "-95"; +chr7 rmsk exon 4599433 4600400 8980 - . gene_id "HML2_7p22.1"; transcript_id "HML2_7p22.1"; locus "HML2_7p22.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0055"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_7q11.21 ### +chr7 rmsk gene 66004684 66007803 . - . gene_id "HML2_7q11.21"; transcript_id "HML2_7q11.21"; locus "HML2_7q11.21"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0058"; model_cov "2029"; model_pct "26.9"; +chr7 rmsk exon 66004684 66005676 8096 - . gene_id "HML2_7q11.21"; transcript_id "HML2_7q11.21"; locus "HML2_7q11.21"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0058"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr7 rmsk exon 66005766 66007803 11693 - . gene_id "HML2_7q11.21"; transcript_id "HML2_7q11.21"; locus "HML2_7q11.21"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0058"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "5418"; repStart "-89"; +### HML2_7q22.2 ### +chr7 rmsk gene 104748902 104752819 . - . gene_id "HML2_7q22.2"; transcript_id "HML2_7q22.2"; locus "HML2_7q22.2"; category "internal"; intModel "HERVK-int"; locid "HERVK-int_0059"; model_cov "3915"; model_pct "52.0"; +chr7 rmsk exon 104748902 104752819 33350 - . gene_id "HML2_7q22.2"; transcript_id "HML2_7q22.2"; locus "HML2_7q22.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0059"; repClass "LTR"; repEnd "3919"; repFamily "ERVK"; repLeft "4"; repStart "-3617"; +### HML2_7q34 ### +chr7 rmsk gene 141752118 141756138 . - . gene_id "HML2_7q34"; transcript_id "HML2_7q34"; locus "HML2_7q34"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0060"; model_cov "3914"; model_pct "51.9"; +chr7 rmsk exon 141752118 141755274 25017 - . gene_id "HML2_7q34"; transcript_id "HML2_7q34"; locus "HML2_7q34"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0060"; repClass "LTR"; repEnd "3918"; repFamily "ERVK"; repLeft "743"; repStart "-3618"; +chr7 rmsk exon 141755372 141756103 5407 - . gene_id "HML2_7q34"; transcript_id "HML2_7q34"; locus "HML2_7q34"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0060"; repClass "LTR"; repEnd "741"; repFamily "ERVK"; repLeft "2"; repStart "-6795"; +chr7 rmsk exon 141756105 141756138 282 - . gene_id "HML2_7q34"; transcript_id "HML2_7q34"; locus "HML2_7q34"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0060"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "969"; repStart "0"; +### HML2_8p23.1a ### +chr8 rmsk gene 7497875 7502767 . - . gene_id "HML2_8p23.1a"; transcript_id "HML2_8p23.1a"; locus "HML2_8p23.1a"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0063"; model_cov "3854"; model_pct "51.1"; +chr8 rmsk exon 7497875 7498842 8965 - . gene_id "HML2_8p23.1a"; transcript_id "HML2_8p23.1a"; locus "HML2_8p23.1a"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0063"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr8 rmsk exon 7498938 7500000 9764 - . gene_id "HML2_8p23.1a"; transcript_id "HML2_8p23.1a"; locus "HML2_8p23.1a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0063"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "6379"; repStart "-95"; +chr8 rmsk exon 7500001 7502767 56636 - . gene_id "HML2_8p23.1a"; transcript_id "HML2_8p23.1a"; locus "HML2_8p23.1a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0063"; repClass "LTR"; repEnd "6378"; repFamily "ERVK"; repLeft "3586"; repStart "-1158"; +### HML2_8p23.1b ### +chr8 rmsk gene 7502828 7507337 . - . gene_id "HML2_8p23.1b"; transcript_id "HML2_8p23.1b"; locus "HML2_8p23.1b"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0064"; model_cov "3584"; model_pct "47.6"; +chr8 rmsk exon 7502828 7506377 56636 - . gene_id "HML2_8p23.1b"; transcript_id "HML2_8p23.1b"; locus "HML2_8p23.1b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0064"; repClass "LTR"; repEnd "6378"; repFamily "ERVK"; repLeft "2794"; repStart "-1158"; +chr8 rmsk exon 7506378 7507337 8874 - . gene_id "HML2_8p23.1b"; transcript_id "HML2_8p23.1b"; locus "HML2_8p23.1b"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0064"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_8p23.1c ### +chr8 rmsk gene 8197178 8206699 . + . gene_id "HML2_8p23.1c"; transcript_id "HML2_8p23.1c"; locus "HML2_8p23.1c"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0066"; model_cov "7446"; model_pct "98.8"; +chr8 rmsk exon 8197178 8198203 8731 + . gene_id "HML2_8p23.1c"; transcript_id "HML2_8p23.1c"; locus "HML2_8p23.1c"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0066"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr8 rmsk exon 8198204 8205586 41196 + . gene_id "HML2_8p23.1c"; transcript_id "HML2_8p23.1c"; locus "HML2_8p23.1c"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0066"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "-89"; repStart "1"; +chr8 rmsk exon 8205676 8206699 8476 + . gene_id "HML2_8p23.1c"; transcript_id "HML2_8p23.1c"; locus "HML2_8p23.1c"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0066"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_8p23.1d ### +chr8 rmsk gene 12216461 12225988 . - . gene_id "HML2_8p23.1d"; transcript_id "HML2_8p23.1d"; locus "HML2_8p23.1d"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0067"; model_cov "7365"; model_pct "97.7"; +chr8 rmsk exon 12216461 12217484 8110 - . gene_id "HML2_8p23.1d"; transcript_id "HML2_8p23.1d"; locus "HML2_8p23.1d"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0067"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr8 rmsk exon 12217574 12223144 35557 - . gene_id "HML2_8p23.1d"; transcript_id "HML2_8p23.1d"; locus "HML2_8p23.1d"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0067"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "1872"; repStart "-89"; +chr8 rmsk exon 12223176 12224961 7773 - . gene_id "HML2_8p23.1d"; transcript_id "HML2_8p23.1d"; locus "HML2_8p23.1d"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0067"; repClass "LTR"; repEnd "1893"; repFamily "ERVK"; repLeft "103"; repStart "-5643"; +chr8 rmsk exon 12224962 12225988 8788 - . gene_id "HML2_8p23.1d"; transcript_id "HML2_8p23.1d"; locus "HML2_8p23.1d"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0067"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_8p23.1e ### +chr8 rmsk gene 12458983 12461064 . - . gene_id "HML2_8p23.1e"; transcript_id "HML2_8p23.1e"; locus "HML2_8p23.1e"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0068"; model_cov "998"; model_pct "13.2"; +chr8 rmsk exon 12458983 12460006 8570 - . gene_id "HML2_8p23.1e"; transcript_id "HML2_8p23.1e"; locus "HML2_8p23.1e"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0068"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr8 rmsk exon 12460096 12461064 44166 - . gene_id "HML2_8p23.1e"; transcript_id "HML2_8p23.1e"; locus "HML2_8p23.1e"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0068"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "6449"; repStart "-89"; +### HML2_8p23.1f ### +chr8 rmsk gene 12461223 12468498 . - . gene_id "HML2_8p23.1f"; transcript_id "HML2_8p23.1f"; locus "HML2_8p23.1f"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0069"; model_cov "6447"; model_pct "85.5"; +chr8 rmsk exon 12461223 12467471 44166 - . gene_id "HML2_8p23.1f"; transcript_id "HML2_8p23.1f"; locus "HML2_8p23.1f"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0069"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "1000"; repStart "-89"; +chr8 rmsk exon 12467472 12468498 8725 - . gene_id "HML2_8p23.1f"; transcript_id "HML2_8p23.1f"; locus "HML2_8p23.1f"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0069"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_8p22 ### +chr8 rmsk gene 17908096 17916431 . - . gene_id "HML2_8p22"; transcript_id "HML2_8p22"; locus "HML2_8p22"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0072"; model_cov "7010"; model_pct "93.0"; +chr8 rmsk exon 17908096 17912373 17248 - . gene_id "HML2_8p22"; transcript_id "HML2_8p22"; locus "HML2_8p22"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0072"; repClass "LTR"; repEnd "7536"; repFamily "ERVK"; repLeft "3280"; repStart "0"; +chr8 rmsk exon 17912665 17914948 17248 - . gene_id "HML2_8p22"; transcript_id "HML2_8p22"; locus "HML2_8p22"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0072"; repClass "LTR"; repEnd "3279"; repFamily "ERVK"; repLeft "966"; repStart "-4257"; +chr8 rmsk exon 17915408 17915839 970 - . gene_id "HML2_8p22"; transcript_id "HML2_8p22"; locus "HML2_8p22"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0072"; repClass "LTR"; repEnd "442"; repFamily "ERVK"; repLeft "1"; repStart "-7094"; +chr8 rmsk exon 17916217 17916431 252 - . gene_id "HML2_8p22"; transcript_id "HML2_8p22"; locus "HML2_8p22"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0072"; repClass "LTR"; repEnd "510"; repFamily "ERVK"; repLeft "279"; repStart "-458"; +### HML2_8q11.1a ### +chr8 rmsk gene 46264028 46267723 . - . gene_id "HML2_8q11.1a"; transcript_id "HML2_8q11.1a"; locus "HML2_8q11.1a"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0073"; model_cov "2666"; model_pct "35.4"; +chr8 rmsk exon 46264028 46265053 7799 - . gene_id "HML2_8q11.1a"; transcript_id "HML2_8q11.1a"; locus "HML2_8q11.1a"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0073"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr8 rmsk exon 46265056 46267136 11384 - . gene_id "HML2_8q11.1a"; transcript_id "HML2_8q11.1a"; locus "HML2_8q11.1a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0073"; repClass "LTR"; repEnd "7534"; repFamily "ERVK"; repLeft "5462"; repStart "-2"; +chr8 rmsk exon 46267142 46267723 3196 - . gene_id "HML2_8q11.1a"; transcript_id "HML2_8q11.1a"; locus "HML2_8q11.1a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0073"; repClass "LTR"; repEnd "652"; repFamily "ERVK"; repLeft "58"; repStart "-6884"; +### HML2_8q11.1b ### +chr8 rmsk gene 46267760 46272039 . - . gene_id "HML2_8q11.1b"; transcript_id "HML2_8q11.1b"; locus "HML2_8q11.1b"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0074"; model_cov "5442"; model_pct "72.2"; +chr8 rmsk exon 46267760 46271002 15126 - . gene_id "HML2_8q11.1b"; transcript_id "HML2_8q11.1b"; locus "HML2_8q11.1b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0074"; repClass "LTR"; repEnd "5476"; repFamily "ERVK"; repLeft "34"; repStart "-2060"; +chr8 rmsk exon 46271034 46272039 7285 - . gene_id "HML2_8q11.1b"; transcript_id "HML2_8q11.1b"; locus "HML2_8q11.1b"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0074"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_8q24.3a ### +chr8 rmsk gene 139459906 139462993 . - . gene_id "HML2_8q24.3a"; transcript_id "HML2_8q24.3a"; locus "HML2_8q24.3a"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0075"; model_cov "2025"; model_pct "26.9"; +chr8 rmsk exon 139459906 139460873 8925 - . gene_id "HML2_8q24.3a"; transcript_id "HML2_8q24.3a"; locus "HML2_8q24.3a"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0075"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr8 rmsk exon 139460969 139461717 6940 - . gene_id "HML2_8q24.3a"; transcript_id "HML2_8q24.3a"; locus "HML2_8q24.3a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0075"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "6693"; repStart "-95"; +chr8 rmsk exon 139461716 139462993 11668 - . gene_id "HML2_8q24.3a"; transcript_id "HML2_8q24.3a"; locus "HML2_8q24.3a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0075"; repClass "LTR"; repEnd "1278"; repFamily "ERVK"; repLeft "1"; repStart "-6258"; +### HML2_8q24.3b ### +chr8 rmsk gene 145021244 145028834 . - . gene_id "HML2_8q24.3b"; transcript_id "HML2_8q24.3b"; locus "HML2_8q24.3b"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0076"; model_cov "5527"; model_pct "73.3"; +chr8 rmsk exon 145021244 145022259 8134 - . gene_id "HML2_8q24.3b"; transcript_id "HML2_8q24.3b"; locus "HML2_8q24.3b"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0076"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr8 rmsk exon 145022262 145026351 27966 - . gene_id "HML2_8q24.3b"; transcript_id "HML2_8q24.3b"; locus "HML2_8q24.3b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0076"; repClass "LTR"; repEnd "7534"; repFamily "ERVK"; repLeft "3452"; repStart "-2"; +chr8 rmsk exon 145026350 145027823 7746 - . gene_id "HML2_8q24.3b"; transcript_id "HML2_8q24.3b"; locus "HML2_8q24.3b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0076"; repClass "LTR"; repEnd "1446"; repFamily "ERVK"; repLeft "1"; repStart "-6090"; +chr8 rmsk exon 145027824 145028834 8116 - . gene_id "HML2_8q24.3b"; transcript_id "HML2_8q24.3b"; locus "HML2_8q24.3b"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0076"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "2"; repStart "0"; +### HML2_9q34.11 ### +chr9 rmsk gene 128850236 128857457 . + . gene_id "HML2_9q34.11"; transcript_id "HML2_9q34.11"; locus "HML2_9q34.11"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0077"; model_cov "7533"; model_pct "100.0"; +chr9 rmsk exon 128850236 128851238 7849 + . gene_id "HML2_9q34.11"; transcript_id "HML2_9q34.11"; locus "HML2_9q34.11"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0077"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr9 rmsk exon 128851239 128856449 16412 + . gene_id "HML2_9q34.11"; transcript_id "HML2_9q34.11"; locus "HML2_9q34.11"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0077"; repClass "LTR"; repEnd "7534"; repFamily "ERVK"; repLeft "-2"; repStart "1"; +chr9 rmsk exon 128856452 128857457 7931 + . gene_id "HML2_9q34.11"; transcript_id "HML2_9q34.11"; locus "HML2_9q34.11"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0077"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_9q34.3 ### +chr9 rmsk gene 136780314 136789776 . - . gene_id "HML2_9q34.3"; transcript_id "HML2_9q34.3"; locus "HML2_9q34.3"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0078"; model_cov "5732"; model_pct "76.1"; +chr9 rmsk exon 136780314 136781296 6274 - . gene_id "HML2_9q34.3"; transcript_id "HML2_9q34.3"; locus "HML2_9q34.3"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0078"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr9 rmsk exon 136781297 136781482 1708 - . gene_id "HML2_9q34.3"; transcript_id "HML2_9q34.3"; locus "HML2_9q34.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0078"; repClass "LTR"; repEnd "7536"; repFamily "ERVK"; repLeft "7350"; repStart "0"; +chr9 rmsk exon 136781788 136781880 1708 - . gene_id "HML2_9q34.3"; transcript_id "HML2_9q34.3"; locus "HML2_9q34.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0078"; repClass "LTR"; repEnd "7349"; repFamily "ERVK"; repLeft "7258"; repStart "-187"; +chr9 rmsk exon 136781866 136783596 11943 - . gene_id "HML2_9q34.3"; transcript_id "HML2_9q34.3"; locus "HML2_9q34.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0078"; repClass "LTR"; repEnd "5592"; repFamily "ERVK"; repLeft "3860"; repStart "-1944"; +chr9 rmsk exon 136783849 136785013 19279 - . gene_id "HML2_9q34.3"; transcript_id "HML2_9q34.3"; locus "HML2_9q34.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0078"; repClass "LTR"; repEnd "3710"; repFamily "ERVK"; repLeft "2565"; repStart "-3826"; +chr9 rmsk exon 136786163 136787981 19279 - . gene_id "HML2_9q34.3"; transcript_id "HML2_9q34.3"; locus "HML2_9q34.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0078"; repClass "LTR"; repEnd "2564"; repFamily "ERVK"; repLeft "743"; repStart "-4972"; +chr9 rmsk exon 136788061 136788797 4132 - . gene_id "HML2_9q34.3"; transcript_id "HML2_9q34.3"; locus "HML2_9q34.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0078"; repClass "LTR"; repEnd "758"; repFamily "ERVK"; repLeft "1"; repStart "-6778"; +chr9 rmsk exon 136788798 136789776 6413 - . gene_id "HML2_9q34.3"; transcript_id "HML2_9q34.3"; locus "HML2_9q34.3"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0078"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_10p14 ### +chr10 rmsk gene 6824179 6833641 . - . gene_id "HML2_10p14"; transcript_id "HML2_10p14"; locus "HML2_10p14"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0079"; model_cov "7440"; model_pct "98.7"; +chr10 rmsk exon 6824179 6825146 7814 - . gene_id "HML2_10p14"; transcript_id "HML2_10p14"; locus "HML2_10p14"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0079"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr10 rmsk exon 6825242 6832673 63906 - . gene_id "HML2_10p14"; transcript_id "HML2_10p14"; locus "HML2_10p14"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0079"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "1"; repStart "-95"; +chr10 rmsk exon 6832674 6833641 7901 - . gene_id "HML2_10p14"; transcript_id "HML2_10p14"; locus "HML2_10p14"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0079"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_10q24.2 ### +chr10 rmsk gene 99820812 99827988 . - . gene_id "HML2_10q24.2"; transcript_id "HML2_10q24.2"; locus "HML2_10q24.2"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0081"; model_cov "6068"; model_pct "80.5"; +chr10 rmsk exon 99820812 99821797 8326 - . gene_id "HML2_10q24.2"; transcript_id "HML2_10q24.2"; locus "HML2_10q24.2"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0081"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr10 rmsk exon 99821893 99827959 54777 - . gene_id "HML2_10q24.2"; transcript_id "HML2_10q24.2"; locus "HML2_10q24.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0081"; repClass "LTR"; repEnd "6069"; repFamily "ERVK"; repLeft "1"; repStart "-1467"; +chr10 rmsk exon 99827960 99827988 254 - . gene_id "HML2_10q24.2"; transcript_id "HML2_10q24.2"; locus "HML2_10q24.2"; repName "LTR5"; geneRegion "ltr"; locid "HERVK-int_0081"; repClass "LTR"; repEnd "969"; repFamily "ERVK"; repLeft "941"; repStart "0"; +### HML2_11p15.4a ### +chr11 rmsk gene 3447426 3456979 . - . gene_id "HML2_11p15.4a"; transcript_id "HML2_11p15.4a"; locus "HML2_11p15.4a"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0082"; model_cov "7535"; model_pct "100.0"; +chr11 rmsk exon 3447426 3448449 8563 - . gene_id "HML2_11p15.4a"; transcript_id "HML2_11p15.4a"; locus "HML2_11p15.4a"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0082"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr11 rmsk exon 3448450 3455952 47463 - . gene_id "HML2_11p15.4a"; transcript_id "HML2_11p15.4a"; locus "HML2_11p15.4a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0082"; repClass "LTR"; repEnd "7536"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr11 rmsk exon 3455953 3456979 8618 - . gene_id "HML2_11p15.4a"; transcript_id "HML2_11p15.4a"; locus "HML2_11p15.4a"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0082"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_11p15.4b ### +chr11 rmsk gene 4459435 4461473 . - . gene_id "HML2_11p15.4b"; transcript_id "HML2_11p15.4b"; locus "HML2_11p15.4b"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0084"; model_cov "817"; model_pct "10.8"; +chr11 rmsk exon 4459435 4459640 1531 - . gene_id "HML2_11p15.4b"; transcript_id "HML2_11p15.4b"; locus "HML2_11p15.4b"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0084"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "789"; repStart "0"; +chr11 rmsk exon 4459658 4459795 611 - . gene_id "HML2_11p15.4b"; transcript_id "HML2_11p15.4b"; locus "HML2_11p15.4b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0084"; repClass "LTR"; repEnd "3010"; repFamily "ERVK"; repLeft "2888"; repStart "-4526"; +chr11 rmsk exon 4459781 4460462 4101 - . gene_id "HML2_11p15.4b"; transcript_id "HML2_11p15.4b"; locus "HML2_11p15.4b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0084"; repClass "LTR"; repEnd "696"; repFamily "ERVK"; repLeft "1"; repStart "-6840"; +chr11 rmsk exon 4460468 4461473 8224 - . gene_id "HML2_11p15.4b"; transcript_id "HML2_11p15.4b"; locus "HML2_11p15.4b"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0084"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "4"; repStart "0"; +### HML2_11q12.1 ### +chr11 rmsk gene 59000009 59005723 . + . gene_id "HML2_11q12.1"; transcript_id "HML2_11q12.1"; locus "HML2_11q12.1"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0085"; model_cov "5004"; model_pct "66.4"; +chr11 rmsk exon 59000009 59000147 654 + . gene_id "HML2_11q12.1"; transcript_id "HML2_11q12.1"; locus "HML2_11q12.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0085"; repClass "LTR"; repEnd "696"; repFamily "ERVK"; repLeft "-6840"; repStart "559"; +chr11 rmsk exon 59000270 59002749 13680 + . gene_id "HML2_11q12.1"; transcript_id "HML2_11q12.1"; locus "HML2_11q12.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0085"; repClass "LTR"; repEnd "5434"; repFamily "ERVK"; repLeft "-2102"; repStart "2427"; +chr11 rmsk exon 59002774 59004639 10154 + . gene_id "HML2_11q12.1"; transcript_id "HML2_11q12.1"; locus "HML2_11q12.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0085"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "-89"; repStart "5587"; +chr11 rmsk exon 59004729 59005723 7568 + . gene_id "HML2_11q12.1"; transcript_id "HML2_11q12.1"; locus "HML2_11q12.1"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0085"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_11q12.3a ### +chr11 rmsk gene 62368491 62370999 . - . gene_id "HML2_11q12.3a"; transcript_id "HML2_11q12.3a"; locus "HML2_11q12.3a"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0086"; model_cov "1457"; model_pct "19.3"; +chr11 rmsk exon 62368491 62369451 5940 - . gene_id "HML2_11q12.3a"; transcript_id "HML2_11q12.3a"; locus "HML2_11q12.3a"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0086"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr11 rmsk exon 62369545 62370999 11630 - . gene_id "HML2_11q12.3a"; transcript_id "HML2_11q12.3a"; locus "HML2_11q12.3a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0086"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "5984"; repStart "-95"; +### HML2_11q12.3b ### +chr11 rmsk gene 62375545 62383091 . - . gene_id "HML2_11q12.3b"; transcript_id "HML2_11q12.3b"; locus "HML2_11q12.3b"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0087"; model_cov "6011"; model_pct "79.8"; +chr11 rmsk exon 62375545 62375829 42079 - . gene_id "HML2_11q12.3b"; transcript_id "HML2_11q12.3b"; locus "HML2_11q12.3b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0087"; repClass "LTR"; repEnd "5998"; repFamily "ERVK"; repLeft "5718"; repStart "-1538"; +chr11 rmsk exon 62376126 62381099 42079 - . gene_id "HML2_11q12.3b"; transcript_id "HML2_11q12.3b"; locus "HML2_11q12.3b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0087"; repClass "LTR"; repEnd "5717"; repFamily "ERVK"; repLeft "743"; repStart "-1819"; +chr11 rmsk exon 62381171 62381929 5179 - . gene_id "HML2_11q12.3b"; transcript_id "HML2_11q12.3b"; locus "HML2_11q12.3b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0087"; repClass "LTR"; repEnd "758"; repFamily "ERVK"; repLeft "1"; repStart "-6778"; +chr11 rmsk exon 62381930 62382006 5110 - . gene_id "HML2_11q12.3b"; transcript_id "HML2_11q12.3b"; locus "HML2_11q12.3b"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0087"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "892"; repStart "0"; +chr11 rmsk exon 62382200 62383091 5294 - . gene_id "HML2_11q12.3b"; transcript_id "HML2_11q12.3b"; locus "HML2_11q12.3b"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0087"; repClass "LTR"; repEnd "891"; repFamily "ERVK"; repLeft "-33"; repStart "-77"; +### HML2_11q22.1 ### +chr11 rmsk gene 101695063 101704528 . + . gene_id "HML2_11q22.1"; transcript_id "HML2_11q22.1"; locus "HML2_11q22.1"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0091"; model_cov "7439"; model_pct "98.7"; +chr11 rmsk exon 101695063 101696030 8870 + . gene_id "HML2_11q22.1"; transcript_id "HML2_11q22.1"; locus "HML2_11q22.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0091"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr11 rmsk exon 101696031 101699581 62466 + . gene_id "HML2_11q22.1"; transcript_id "HML2_11q22.1"; locus "HML2_11q22.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0091"; repClass "LTR"; repEnd "3583"; repFamily "ERVK"; repLeft "-3953"; repStart "1"; +chr11 rmsk exon 101699645 101703465 62466 + . gene_id "HML2_11q22.1"; transcript_id "HML2_11q22.1"; locus "HML2_11q22.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0091"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "-95"; repStart "3584"; +chr11 rmsk exon 101703561 101704528 8897 + . gene_id "HML2_11q22.1"; transcript_id "HML2_11q22.1"; locus "HML2_11q22.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0091"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_11q23.3 ### +chr11 rmsk gene 118721015 118730174 . - . gene_id "HML2_11q23.3"; transcript_id "HML2_11q23.3"; locus "HML2_11q23.3"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0092"; model_cov "7243"; model_pct "96.1"; +chr11 rmsk exon 118721015 118721981 8482 - . gene_id "HML2_11q23.3"; transcript_id "HML2_11q23.3"; locus "HML2_11q23.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0092"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr11 rmsk exon 118721982 118723687 14138 - . gene_id "HML2_11q23.3"; transcript_id "HML2_11q23.3"; locus "HML2_11q23.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0092"; repClass "LTR"; repEnd "7536"; repFamily "ERVK"; repLeft "5826"; repStart "0"; +chr11 rmsk exon 118723687 118729206 48710 - . gene_id "HML2_11q23.3"; transcript_id "HML2_11q23.3"; locus "HML2_11q23.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0092"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "1"; repStart "-2002"; +chr11 rmsk exon 118729207 118730174 8460 - . gene_id "HML2_11q23.3"; transcript_id "HML2_11q23.3"; locus "HML2_11q23.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0092"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_12p11.1 ### +chr12 rmsk gene 34619620 34629282 . - . gene_id "HML2_12p11.1"; transcript_id "HML2_12p11.1"; locus "HML2_12p11.1"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0093"; model_cov "7199"; model_pct "95.5"; +chr12 rmsk exon 34619620 34620533 4503 - . gene_id "HML2_12p11.1"; transcript_id "HML2_12p11.1"; locus "HML2_12p11.1"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0093"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr12 rmsk exon 34620629 34621290 5119 - . gene_id "HML2_12p11.1"; transcript_id "HML2_12p11.1"; locus "HML2_12p11.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0093"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "6780"; repStart "-95"; +chr12 rmsk exon 34621720 34627344 41180 - . gene_id "HML2_12p11.1"; transcript_id "HML2_12p11.1"; locus "HML2_12p11.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0093"; repClass "LTR"; repEnd "6777"; repFamily "ERVK"; repLeft "1130"; repStart "-759"; +chr12 rmsk exon 34627339 34627473 876 - . gene_id "HML2_12p11.1"; transcript_id "HML2_12p11.1"; locus "HML2_12p11.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0093"; repClass "LTR"; repEnd "877"; repFamily "ERVK"; repLeft "743"; repStart "-6659"; +chr12 rmsk exon 34627553 34628301 4435 - . gene_id "HML2_12p11.1"; transcript_id "HML2_12p11.1"; locus "HML2_12p11.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0093"; repClass "LTR"; repEnd "758"; repFamily "ERVK"; repLeft "1"; repStart "-6778"; +chr12 rmsk exon 34628302 34629282 5536 - . gene_id "HML2_12p11.1"; transcript_id "HML2_12p11.1"; locus "HML2_12p11.1"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0093"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "6"; repStart "0"; +### HML2_12q14.1 ### +chr12 rmsk gene 58327459 58336915 . - . gene_id "HML2_12q14.1"; transcript_id "HML2_12q14.1"; locus "HML2_12q14.1"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0094"; model_cov "7440"; model_pct "98.7"; +chr12 rmsk exon 58327459 58328426 8871 - . gene_id "HML2_12q14.1"; transcript_id "HML2_12q14.1"; locus "HML2_12q14.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0094"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr12 rmsk exon 58328522 58335947 49293 - . gene_id "HML2_12q14.1"; transcript_id "HML2_12q14.1"; locus "HML2_12q14.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0094"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "1"; repStart "-95"; +chr12 rmsk exon 58335948 58336915 8873 - . gene_id "HML2_12q14.1"; transcript_id "HML2_12q14.1"; locus "HML2_12q14.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0094"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_12q24.33 ### +chr12 rmsk gene 133090536 133096478 . - . gene_id "HML2_12q24.33"; transcript_id "HML2_12q24.33"; locus "HML2_12q24.33"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0097"; model_cov "2905"; model_pct "38.5"; +chr12 rmsk exon 133090536 133091545 8594 - . gene_id "HML2_12q24.33"; transcript_id "HML2_12q24.33"; locus "HML2_12q24.33"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0097"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr12 rmsk exon 133091560 133093500 12073 - . gene_id "HML2_12q24.33"; transcript_id "HML2_12q24.33"; locus "HML2_12q24.33"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0097"; repClass "LTR"; repEnd "7522"; repFamily "ERVK"; repLeft "5587"; repStart "-14"; +chr12 rmsk exon 133093506 133093784 2003 - . gene_id "HML2_12q24.33"; transcript_id "HML2_12q24.33"; locus "HML2_12q24.33"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0097"; repClass "LTR"; repEnd "5462"; repFamily "ERVK"; repLeft "5187"; repStart "-2074"; +chr12 rmsk exon 133093979 133095471 4356 - . gene_id "HML2_12q24.33"; transcript_id "HML2_12q24.33"; locus "HML2_12q24.33"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0097"; repClass "LTR"; repEnd "696"; repFamily "ERVK"; repLeft "1"; repStart "-6840"; +chr12 rmsk exon 133095472 133096478 8541 - . gene_id "HML2_12q24.33"; transcript_id "HML2_12q24.33"; locus "HML2_12q24.33"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0097"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_14q11.2 ### +chr14 rmsk gene 24009696 24015776 . - . gene_id "HML2_14q11.2"; transcript_id "HML2_14q11.2"; locus "HML2_14q11.2"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0099"; model_cov "3838"; model_pct "50.9"; +chr14 rmsk exon 24009696 24010720 8164 - . gene_id "HML2_14q11.2"; transcript_id "HML2_14q11.2"; locus "HML2_14q11.2"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0099"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr14 rmsk exon 24010723 24010906 1116 - . gene_id "HML2_14q11.2"; transcript_id "HML2_14q11.2"; locus "HML2_14q11.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0099"; repClass "LTR"; repEnd "7534"; repFamily "ERVK"; repLeft "7351"; repStart "-2"; +chr14 rmsk exon 24011391 24015051 21036 - . gene_id "HML2_14q11.2"; transcript_id "HML2_14q11.2"; locus "HML2_14q11.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0099"; repClass "LTR"; repEnd "3656"; repFamily "ERVK"; repLeft "1"; repStart "-3880"; +chr14 rmsk exon 24015052 24015776 5820 - . gene_id "HML2_14q11.2"; transcript_id "HML2_14q11.2"; locus "HML2_14q11.2"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0099"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "308"; repStart "0"; +### HML2_14q32.33 ### +chr14 rmsk gene 105673313 105676203 . + . gene_id "HML2_14q32.33"; transcript_id "HML2_14q32.33"; locus "HML2_14q32.33"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0100"; model_cov "1886"; model_pct "25.0"; +chr14 rmsk exon 105673313 105675001 11016 + . gene_id "HML2_14q32.33"; transcript_id "HML2_14q32.33"; locus "HML2_14q32.33"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0100"; repClass "LTR"; repEnd "5462"; repFamily "ERVK"; repLeft "-2074"; repStart "3766"; +chr14 rmsk exon 105675007 105675106 414 + . gene_id "HML2_14q32.33"; transcript_id "HML2_14q32.33"; locus "HML2_14q32.33"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0100"; repClass "LTR"; repEnd "5686"; repFamily "ERVK"; repLeft "-1850"; repStart "5587"; +chr14 rmsk exon 105675105 105675196 575 + . gene_id "HML2_14q32.33"; transcript_id "HML2_14q32.33"; locus "HML2_14q32.33"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0100"; repClass "LTR"; repEnd "7532"; repFamily "ERVK"; repLeft "-4"; repStart "7441"; +chr14 rmsk exon 105675200 105676203 8253 + . gene_id "HML2_14q32.33"; transcript_id "HML2_14q32.33"; locus "HML2_14q32.33"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0100"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_15q25.2 ### +chr15 rmsk gene 84160268 84163612 . + . gene_id "HML2_15q25.2"; transcript_id "HML2_15q25.2"; locus "HML2_15q25.2"; category "internal"; intModel "HERVK-int"; locid "HERVK-int_0101"; model_cov "3522"; model_pct "46.7"; +chr15 rmsk exon 84160268 84163612 11857 + . gene_id "HML2_15q25.2"; transcript_id "HML2_15q25.2"; locus "HML2_15q25.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0101"; repClass "LTR"; repEnd "6330"; repFamily "ERVK"; repLeft "-1206"; repStart "2808"; +### HML2_16p11.2a ### +chr16 rmsk gene 34412057 34414804 . - . gene_id "HML2_16p11.2a"; transcript_id "HML2_16p11.2a"; locus "HML2_16p11.2a"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0104"; model_cov "1692"; model_pct "22.5"; +chr16 rmsk exon 34412057 34413016 8716 - . gene_id "HML2_16p11.2a"; transcript_id "HML2_16p11.2a"; locus "HML2_16p11.2a"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0104"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr16 rmsk exon 34413112 34414727 14823 - . gene_id "HML2_16p11.2a"; transcript_id "HML2_16p11.2a"; locus "HML2_16p11.2a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0104"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "5826"; repStart "-95"; +chr16 rmsk exon 34414727 34414804 602 - . gene_id "HML2_16p11.2a"; transcript_id "HML2_16p11.2a"; locus "HML2_16p11.2a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0104"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "5457"; repStart "-2002"; +### HML2_16p11.2b ### +chr16 rmsk gene 34997026 34999771 . + . gene_id "HML2_16p11.2b"; transcript_id "HML2_16p11.2b"; locus "HML2_16p11.2b"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0105"; model_cov "1692"; model_pct "22.5"; +chr16 rmsk exon 34997026 34997103 600 + . gene_id "HML2_16p11.2b"; transcript_id "HML2_16p11.2b"; locus "HML2_16p11.2b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0105"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "-2002"; repStart "5457"; +chr16 rmsk exon 34997103 34998718 14851 + . gene_id "HML2_16p11.2b"; transcript_id "HML2_16p11.2b"; locus "HML2_16p11.2b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0105"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "-95"; repStart "5826"; +chr16 rmsk exon 34998814 34999771 9064 + . gene_id "HML2_16p11.2b"; transcript_id "HML2_16p11.2b"; locus "HML2_16p11.2b"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0105"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_17p13.1 ### +chr17 rmsk gene 8056337 8063901 . + . gene_id "HML2_17p13.1"; transcript_id "HML2_17p13.1"; locus "HML2_17p13.1"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0107"; model_cov "6060"; model_pct "80.4"; +chr17 rmsk exon 8056337 8056551 407 + . gene_id "HML2_17p13.1"; transcript_id "HML2_17p13.1"; locus "HML2_17p13.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0107"; repClass "LTR"; repEnd "510"; repFamily "ERVK"; repLeft "-458"; repStart "279"; +chr17 rmsk exon 8057039 8057470 1171 + . gene_id "HML2_17p13.1"; transcript_id "HML2_17p13.1"; locus "HML2_17p13.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0107"; repClass "LTR"; repEnd "442"; repFamily "ERVK"; repLeft "-7094"; repStart "1"; +chr17 rmsk exon 8057909 8058482 11977 + . gene_id "HML2_17p13.1"; transcript_id "HML2_17p13.1"; locus "HML2_17p13.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0107"; repClass "LTR"; repEnd "1551"; repFamily "ERVK"; repLeft "-5985"; repStart "966"; +chr17 rmsk exon 8058796 8061901 11977 + . gene_id "HML2_17p13.1"; transcript_id "HML2_17p13.1"; locus "HML2_17p13.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0107"; repClass "LTR"; repEnd "4676"; repFamily "ERVK"; repLeft "-2860"; repStart "1552"; +chr17 rmsk exon 8062292 8063901 2161 + . gene_id "HML2_17p13.1"; transcript_id "HML2_17p13.1"; locus "HML2_17p13.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0107"; repClass "LTR"; repEnd "6588"; repFamily "ERVK"; repLeft "-948"; repStart "4678"; +### HML2_19p13.3 ### +chr19 rmsk gene 385095 387637 . + . gene_id "HML2_19p13.3"; transcript_id "HML2_19p13.3"; locus "HML2_19p13.3"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0109"; model_cov "1491"; model_pct "19.8"; +chr19 rmsk exon 385095 386584 12032 + . gene_id "HML2_19p13.3"; transcript_id "HML2_19p13.3"; locus "HML2_19p13.3"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0109"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "-95"; repStart "5950"; +chr19 rmsk exon 386680 387637 8361 + . gene_id "HML2_19p13.3"; transcript_id "HML2_19p13.3"; locus "HML2_19p13.3"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0109"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_19p12a ### +chr19 rmsk gene 20276591 20286703 . + . gene_id "HML2_19p12a"; transcript_id "HML2_19p12a"; locus "HML2_19p12a"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0110"; model_cov "7444"; model_pct "98.8"; +chr19 rmsk exon 20276591 20277574 6327 + . gene_id "HML2_19p12a"; transcript_id "HML2_19p12a"; locus "HML2_19p12a"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0110"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr19 rmsk exon 20277575 20278301 5156 + . gene_id "HML2_19p12a"; transcript_id "HML2_19p12a"; locus "HML2_19p12a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0110"; repClass "LTR"; repEnd "746"; repFamily "ERVK"; repLeft "-6790"; repStart "1"; +chr19 rmsk exon 20278394 20282633 41844 + . gene_id "HML2_19p12a"; transcript_id "HML2_19p12a"; locus "HML2_19p12a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0110"; repClass "LTR"; repEnd "4994"; repFamily "ERVK"; repLeft "-2542"; repStart "743"; +chr19 rmsk exon 20282931 20284402 41844 + . gene_id "HML2_19p12a"; transcript_id "HML2_19p12a"; locus "HML2_19p12a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0110"; repClass "LTR"; repEnd "6447"; repFamily "ERVK"; repLeft "-1089"; repStart "4995"; +chr19 rmsk exon 20284741 20285656 3635 + . gene_id "HML2_19p12a"; transcript_id "HML2_19p12a"; locus "HML2_19p12a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0110"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "-95"; repStart "6445"; +chr19 rmsk exon 20285752 20286703 5747 + . gene_id "HML2_19p12a"; transcript_id "HML2_19p12a"; locus "HML2_19p12a"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0110"; repClass "LTR"; repEnd "965"; repFamily "ERVK"; repLeft "-3"; repStart "1"; +### HML2_19p12b ### +chr19 rmsk gene 22575022 22581759 . + . gene_id "HML2_19p12b"; transcript_id "HML2_19p12b"; locus "HML2_19p12b"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0111"; model_cov "4920"; model_pct "65.3"; +chr19 rmsk exon 22575022 22575897 6995 + . gene_id "HML2_19p12b"; transcript_id "HML2_19p12b"; locus "HML2_19p12b"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0111"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "83"; +chr19 rmsk exon 22575898 22578608 22553 + . gene_id "HML2_19p12b"; transcript_id "HML2_19p12b"; locus "HML2_19p12b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0111"; repClass "LTR"; repEnd "2716"; repFamily "ERVK"; repLeft "-4820"; repStart "1"; +chr19 rmsk exon 22578587 22579173 4900 + . gene_id "HML2_19p12b"; transcript_id "HML2_19p12b"; locus "HML2_19p12b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0111"; repClass "LTR"; repEnd "5536"; repFamily "ERVK"; repLeft "-2000"; repStart "4952"; +chr19 rmsk exon 22579171 22580702 8329 + . gene_id "HML2_19p12b"; transcript_id "HML2_19p12b"; locus "HML2_19p12b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0111"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "-89"; repStart "5826"; +chr19 rmsk exon 22580792 22581759 7910 + . gene_id "HML2_19p12b"; transcript_id "HML2_19p12b"; locus "HML2_19p12b"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0111"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_19q11 ### +chr19 rmsk gene 27637590 27646453 . - . gene_id "HML2_19q11"; transcript_id "HML2_19q11"; locus "HML2_19q11"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0112"; model_cov "7438"; model_pct "98.7"; +chr19 rmsk exon 27637590 27638584 8676 - . gene_id "HML2_19q11"; transcript_id "HML2_19q11"; locus "HML2_19q11"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0112"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr19 rmsk exon 27638680 27641547 63870 - . gene_id "HML2_19q11"; transcript_id "HML2_19q11"; locus "HML2_19q11"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0112"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "4584"; repStart "-95"; +chr19 rmsk exon 27641861 27646453 63870 - . gene_id "HML2_19q11"; transcript_id "HML2_19q11"; locus "HML2_19q11"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0112"; repClass "LTR"; repEnd "4583"; repFamily "ERVK"; repLeft "2"; repStart "-2953"; +### HML2_19q13.12a ### +chr19 rmsk gene 35572527 35576532 . - . gene_id "HML2_19q13.12a"; transcript_id "HML2_19q13.12a"; locus "HML2_19q13.12a"; category "internal"; intModel "HERVK-int"; locid "HERVK-int_0113"; model_cov "3681"; model_pct "48.8"; +chr19 rmsk exon 35572527 35575603 24890 - . gene_id "HML2_19q13.12a"; transcript_id "HML2_19q13.12a"; locus "HML2_19q13.12a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0113"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "4362"; repStart "-89"; +chr19 rmsk exon 35575937 35576532 4594 - . gene_id "HML2_19q13.12a"; transcript_id "HML2_19q13.12a"; locus "HML2_19q13.12a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0113"; repClass "LTR"; repEnd "2957"; repFamily "ERVK"; repLeft "2361"; repStart "-4579"; +### HML2_19q13.12b ### +chr19 rmsk gene 37106647 37116164 . - . gene_id "HML2_19q13.12b"; transcript_id "HML2_19q13.12b"; locus "HML2_19q13.12b"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0114"; model_cov "7454"; model_pct "98.9"; +chr19 rmsk exon 37106647 37107600 5785 - . gene_id "HML2_19q13.12b"; transcript_id "HML2_19q13.12b"; locus "HML2_19q13.12b"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0114"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "5"; repStart "0"; +chr19 rmsk exon 37107697 37114371 40845 - . gene_id "HML2_19q13.12b"; transcript_id "HML2_19q13.12b"; locus "HML2_19q13.12b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0114"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "744"; repStart "-95"; +chr19 rmsk exon 37114452 37115196 5138 - . gene_id "HML2_19q13.12b"; transcript_id "HML2_19q13.12b"; locus "HML2_19q13.12b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0114"; repClass "LTR"; repEnd "758"; repFamily "ERVK"; repLeft "1"; repStart "-6778"; +chr19 rmsk exon 37115197 37116164 6571 - . gene_id "HML2_19q13.12b"; transcript_id "HML2_19q13.12b"; locus "HML2_19q13.12b"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0114"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_19q13.41a ### +chr19 rmsk gene 52745023 52748339 . - . gene_id "HML2_19q13.41a"; transcript_id "HML2_19q13.41a"; locus "HML2_19q13.41a"; category "internal"; intModel "HERVK-int"; locid "HERVK-int_0115"; model_cov "5405"; model_pct "71.7"; +chr19 rmsk exon 52745023 52748339 26124 - . gene_id "HML2_19q13.41a"; transcript_id "HML2_19q13.41a"; locus "HML2_19q13.41a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0115"; repClass "LTR"; repEnd "6681"; repFamily "ERVK"; repLeft "1276"; repStart "-855"; +### HML2_19q13.41b ### +chr19 rmsk gene 52748422 52750454 . - . gene_id "HML2_19q13.41b"; transcript_id "HML2_19q13.41b"; locus "HML2_19q13.41b"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0116"; model_cov "1362"; model_pct "18.1"; +chr19 rmsk exon 52748422 52748830 26124 - . gene_id "HML2_19q13.41b"; transcript_id "HML2_19q13.41b"; locus "HML2_19q13.41b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0116"; repClass "LTR"; repEnd "6681"; repFamily "ERVK"; repLeft "6013"; repStart "-855"; +chr19 rmsk exon 52748809 52749491 4464 - . gene_id "HML2_19q13.41b"; transcript_id "HML2_19q13.41b"; locus "HML2_19q13.41b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0116"; repClass "LTR"; repEnd "696"; repFamily "ERVK"; repLeft "2"; repStart "-6840"; +chr19 rmsk exon 52749493 52750454 5671 - . gene_id "HML2_19q13.41b"; transcript_id "HML2_19q13.41b"; locus "HML2_19q13.41b"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0116"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "5"; repStart "0"; +### HML2_19q13.42 ### +chr19 rmsk gene 53359095 53364791 . + . gene_id "HML2_19q13.42"; transcript_id "HML2_19q13.42"; locus "HML2_19q13.42"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0117"; model_cov "3616"; model_pct "48.0"; +chr19 rmsk exon 53359095 53360013 28625 + . gene_id "HML2_19q13.42"; transcript_id "HML2_19q13.42"; locus "HML2_19q13.42"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0117"; repClass "LTR"; repEnd "4740"; repFamily "ERVK"; repLeft "-2796"; repStart "3824"; +chr19 rmsk exon 53361020 53363705 28625 + . gene_id "HML2_19q13.42"; transcript_id "HML2_19q13.42"; locus "HML2_19q13.42"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0117"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "-95"; repStart "4741"; +chr19 rmsk exon 53363801 53364791 6549 + . gene_id "HML2_19q13.42"; transcript_id "HML2_19q13.42"; locus "HML2_19q13.42"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0117"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_20q11.22 ### +chr20 rmsk gene 34127754 34136578 . + . gene_id "HML2_20q11.22"; transcript_id "HML2_20q11.22"; locus "HML2_20q11.22"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0120"; model_cov "4785"; model_pct "63.5"; +chr20 rmsk exon 34127754 34128531 5764 + . gene_id "HML2_20q11.22"; transcript_id "HML2_20q11.22"; locus "HML2_20q11.22"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0120"; repClass "LTR"; repEnd "1001"; repFamily "ERVK"; repLeft "-1"; repStart "220"; +chr20 rmsk exon 34128532 34129076 4425 + . gene_id "HML2_20q11.22"; transcript_id "HML2_20q11.22"; locus "HML2_20q11.22"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0120"; repClass "LTR"; repEnd "556"; repFamily "ERVK"; repLeft "-6980"; repStart "1"; +chr20 rmsk exon 34129382 34129595 4425 + . gene_id "HML2_20q11.22"; transcript_id "HML2_20q11.22"; locus "HML2_20q11.22"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0120"; repClass "LTR"; repEnd "758"; repFamily "ERVK"; repLeft "-6778"; repStart "557"; +chr20 rmsk exon 34129673 34130246 3702 + . gene_id "HML2_20q11.22"; transcript_id "HML2_20q11.22"; locus "HML2_20q11.22"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0120"; repClass "LTR"; repEnd "1325"; repFamily "ERVK"; repLeft "-6211"; repStart "743"; +chr20 rmsk exon 34130235 34131782 12082 + . gene_id "HML2_20q11.22"; transcript_id "HML2_20q11.22"; locus "HML2_20q11.22"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0120"; repClass "LTR"; repEnd "5190"; repFamily "ERVK"; repLeft "-2346"; repStart "3636"; +chr20 rmsk exon 34133703 34135592 14111 + . gene_id "HML2_20q11.22"; transcript_id "HML2_20q11.22"; locus "HML2_20q11.22"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0120"; repClass "LTR"; repEnd "7535"; repFamily "ERVK"; repLeft "-1"; repStart "5642"; +chr20 rmsk exon 34135594 34136578 5656 + . gene_id "HML2_20q11.22"; transcript_id "HML2_20q11.22"; locus "HML2_20q11.22"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0120"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_21q21.1 ### +chr21 rmsk gene 18561341 18569644 . - . gene_id "HML2_21q21.1"; transcript_id "HML2_21q21.1"; locus "HML2_21q21.1"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0121"; model_cov "6986"; model_pct "92.7"; +chr21 rmsk exon 18561341 18561597 2222 - . gene_id "HML2_21q21.1"; transcript_id "HML2_21q21.1"; locus "HML2_21q21.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0121"; repClass "LTR"; repEnd "257"; repFamily "ERVK"; repLeft "1"; repStart "-711"; +chr21 rmsk exon 18561693 18563304 14060 - . gene_id "HML2_21q21.1"; transcript_id "HML2_21q21.1"; locus "HML2_21q21.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0121"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "5826"; repStart "-95"; +chr21 rmsk exon 18563304 18568678 45482 - . gene_id "HML2_21q21.1"; transcript_id "HML2_21q21.1"; locus "HML2_21q21.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0121"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "163"; repStart "-2002"; +chr21 rmsk exon 18568679 18569644 8533 - . gene_id "HML2_21q21.1"; transcript_id "HML2_21q21.1"; locus "HML2_21q21.1"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0121"; repClass "LTR"; repEnd "966"; repFamily "ERVK"; repLeft "1"; repStart "-2"; +### HML2_22q11.21 ### +chr22 rmsk gene 18938674 18947848 . + . gene_id "HML2_22q11.21"; transcript_id "HML2_22q11.21"; locus "HML2_22q11.21"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0122"; model_cov "7154"; model_pct "94.9"; +chr22 rmsk exon 18938674 18939641 9026 + . gene_id "HML2_22q11.21"; transcript_id "HML2_22q11.21"; locus "HML2_22q11.21"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0122"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr22 rmsk exon 18939642 18945174 43432 + . gene_id "HML2_22q11.21"; transcript_id "HML2_22q11.21"; locus "HML2_22q11.21"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0122"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "-2002"; repStart "1"; +chr22 rmsk exon 18945174 18946795 13254 + . gene_id "HML2_22q11.21"; transcript_id "HML2_22q11.21"; locus "HML2_22q11.21"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0122"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "-89"; repStart "5826"; +chr22 rmsk exon 18946885 18947848 8954 + . gene_id "HML2_22q11.21"; transcript_id "HML2_22q11.21"; locus "HML2_22q11.21"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0122"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_22q11.23 ### +chr22 rmsk gene 23536062 23546900 . + . gene_id "HML2_22q11.23"; transcript_id "HML2_22q11.23"; locus "HML2_22q11.23"; category "unknown"; intModel "HERVK-int"; locid "HERVK-int_0123"; model_cov "7693"; model_pct "100.0"; +chr22 rmsk exon 23536062 23537026 6743 + . gene_id "HML2_22q11.23"; transcript_id "HML2_22q11.23"; locus "HML2_22q11.23"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0123"; repClass "LTR"; repEnd "964"; repFamily "ERVK"; repLeft "-4"; repStart "1"; +chr22 rmsk exon 23537028 23537189 1108 + . gene_id "HML2_22q11.23"; transcript_id "HML2_22q11.23"; locus "HML2_22q11.23"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0123"; repClass "LTR"; repEnd "163"; repFamily "ERVK"; repLeft "-7373"; repStart "1"; +chr22 rmsk exon 23537190 23537250 437 + . gene_id "HML2_22q11.23"; transcript_id "HML2_22q11.23"; locus "HML2_22q11.23"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0123"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "942"; +chr22 rmsk exon 23537740 23538729 7295 + . gene_id "HML2_22q11.23"; transcript_id "HML2_22q11.23"; locus "HML2_22q11.23"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0123"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr22 rmsk exon 23538730 23546008 30409 + . gene_id "HML2_22q11.23"; transcript_id "HML2_22q11.23"; locus "HML2_22q11.23"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0123"; repClass "LTR"; repEnd "7267"; repFamily "ERVK"; repLeft "-269"; repStart "1"; +chr22 rmsk exon 23546306 23546576 30409 + . gene_id "HML2_22q11.23"; transcript_id "HML2_22q11.23"; locus "HML2_22q11.23"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0123"; repClass "LTR"; repEnd "7533"; repFamily "ERVK"; repLeft "-3"; repStart "7268"; +chr22 rmsk exon 23546582 23546900 2050 + . gene_id "HML2_22q11.23"; transcript_id "HML2_22q11.23"; locus "HML2_22q11.23"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0123"; repClass "LTR"; repEnd "331"; repFamily "ERVK"; repLeft "-671"; repStart "1"; +### HML2_Xq11.1 ### +chrX rmsk gene 62740079 62742584 . + . gene_id "HML2_Xq11.1"; transcript_id "HML2_Xq11.1"; locus "HML2_Xq11.1"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0125"; model_cov "2423"; model_pct "32.2"; +chrX rmsk exon 62740079 62740554 2893 + . gene_id "HML2_Xq11.1"; transcript_id "HML2_Xq11.1"; locus "HML2_Xq11.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0125"; repClass "LTR"; repEnd "5462"; repFamily "ERVK"; repLeft "-2074"; repStart "4986"; +chrX rmsk exon 62740560 62742508 10851 + . gene_id "HML2_Xq11.1"; transcript_id "HML2_Xq11.1"; locus "HML2_Xq11.1"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0125"; repClass "LTR"; repEnd "7534"; repFamily "ERVK"; repLeft "-2"; repStart "5587"; +chrX rmsk exon 62742511 62742584 630 + . gene_id "HML2_Xq11.1"; transcript_id "HML2_Xq11.1"; locus "HML2_Xq11.1"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0125"; repClass "LTR"; repEnd "74"; repFamily "ERVK"; repLeft "-928"; repStart "1"; +### HML2_Xq12 ### +chrX rmsk gene 66464290 66466342 . - . gene_id "HML2_Xq12"; transcript_id "HML2_Xq12"; locus "HML2_Xq12"; category "internal"; intModel "HERVK-int"; locid "HERVK-int_0126"; model_cov "2058"; model_pct "27.3"; +chrX rmsk exon 66464290 66466342 13660 - . gene_id "HML2_Xq12"; transcript_id "HML2_Xq12"; locus "HML2_Xq12"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0126"; repClass "LTR"; repEnd "5139"; repFamily "ERVK"; repLeft "3081"; repStart "-2397"; +### HML2_Xq28a ### +chrX rmsk gene 154588662 154591282 . + . gene_id "HML2_Xq28a"; transcript_id "HML2_Xq28a"; locus "HML2_Xq28a"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0127"; model_cov "805"; model_pct "10.7"; +chrX rmsk exon 154588662 154589649 8253 + . gene_id "HML2_Xq28a"; transcript_id "HML2_Xq28a"; locus "HML2_Xq28a"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0127"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chrX rmsk exon 154589650 154591282 4975 + . gene_id "HML2_Xq28a"; transcript_id "HML2_Xq28a"; locus "HML2_Xq28a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0127"; repClass "LTR"; repEnd "3812"; repFamily "ERVK"; repLeft "-3724"; repStart "3007"; +### HML2_Xq28b ### +chrX rmsk gene 154608423 154615762 . - . gene_id "HML2_Xq28b"; transcript_id "HML2_Xq28b"; locus "HML2_Xq28b"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0128"; model_cov "7445"; model_pct "98.8"; +chrX rmsk exon 154608423 154609415 8174 - . gene_id "HML2_Xq28b"; transcript_id "HML2_Xq28b"; locus "HML2_Xq28b"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0128"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chrX rmsk exon 154609505 154614774 22434 - . gene_id "HML2_Xq28b"; transcript_id "HML2_Xq28b"; locus "HML2_Xq28b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0128"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "2"; repStart "-89"; +chrX rmsk exon 154614775 154615762 8243 - . gene_id "HML2_Xq28b"; transcript_id "HML2_Xq28b"; locus "HML2_Xq28b"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0128"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_Yp11.2 ### +chrY rmsk gene 6958400 6965343 . - . gene_id "HML2_Yp11.2"; transcript_id "HML2_Yp11.2"; locus "HML2_Yp11.2"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0129"; model_cov "5908"; model_pct "78.4"; +chrY rmsk exon 6958400 6959413 7973 - . gene_id "HML2_Yp11.2"; transcript_id "HML2_Yp11.2"; locus "HML2_Yp11.2"; repName "LTR5A"; geneRegion "ltr"; locid "HERVK-int_0129"; repClass "LTR"; repEnd "1033"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chrY rmsk exon 6959419 6963041 24065 - . gene_id "HML2_Yp11.2"; transcript_id "HML2_Yp11.2"; locus "HML2_Yp11.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0129"; repClass "LTR"; repEnd "7531"; repFamily "ERVK"; repLeft "3912"; repStart "-5"; +chrY rmsk exon 6963034 6965343 11787 - . gene_id "HML2_Yp11.2"; transcript_id "HML2_Yp11.2"; locus "HML2_Yp11.2"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0129"; repClass "LTR"; repEnd "2820"; repFamily "ERVK"; repLeft "531"; repStart "-4716"; +### HML2_Yq11.23a ### +chrY rmsk gene 24251690 24254888 . - . gene_id "HML2_Yq11.23a"; transcript_id "HML2_Yq11.23a"; locus "HML2_Yq11.23a"; category "internal"; intModel "HERVK-int"; locid "HERVK-int_0130"; model_cov "3385"; model_pct "44.9"; +chrY rmsk exon 24251690 24254888 11436 - . gene_id "HML2_Yq11.23a"; transcript_id "HML2_Yq11.23a"; locus "HML2_Yq11.23a"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0130"; repClass "LTR"; repEnd "6193"; repFamily "ERVK"; repLeft "2808"; repStart "-1343"; +### HML2_Yq11.23b ### +chrY rmsk gene 25415255 25418454 . + . gene_id "HML2_Yq11.23b"; transcript_id "HML2_Yq11.23b"; locus "HML2_Yq11.23b"; category "internal"; intModel "HERVK-int"; locid "HERVK-int_0131"; model_cov "3385"; model_pct "44.9"; +chrY rmsk exon 25415255 25418454 11433 + . gene_id "HML2_Yq11.23b"; transcript_id "HML2_Yq11.23b"; locus "HML2_Yq11.23b"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0131"; repClass "LTR"; repEnd "6193"; repFamily "ERVK"; repLeft "-1343"; repStart "2808"; +### HML2_1_KI270766v1_alt ### +chr1_KI270766v1_alt rmsk gene 150436 159977 . + . gene_id "HML2_1_KI270766v1_alt"; transcript_id "HML2_1_KI270766v1_alt"; locus "HML2_1_KI270766v1_alt"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0132"; model_cov "7448"; model_pct "98.8"; +chr1_KI270766v1_alt rmsk exon 150436 151426 7851 + . gene_id "HML2_1_KI270766v1_alt"; transcript_id "HML2_1_KI270766v1_alt"; locus "HML2_1_KI270766v1_alt"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0132"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr1_KI270766v1_alt rmsk exon 151428 152160 4512 + . gene_id "HML2_1_KI270766v1_alt"; transcript_id "HML2_1_KI270766v1_alt"; locus "HML2_1_KI270766v1_alt"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0132"; repClass "LTR"; repEnd "746"; repFamily "ERVK"; repLeft "-6790"; repStart "2"; +chr1_KI270766v1_alt rmsk exon 152253 158890 20253 + . gene_id "HML2_1_KI270766v1_alt"; transcript_id "HML2_1_KI270766v1_alt"; locus "HML2_1_KI270766v1_alt"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0132"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "-89"; repStart "743"; +chr1_KI270766v1_alt rmsk exon 158980 159977 8041 + . gene_id "HML2_1_KI270766v1_alt"; transcript_id "HML2_1_KI270766v1_alt"; locus "HML2_1_KI270766v1_alt"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0132"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_6_GL000251v2_alt ### +chr6_GL000251v2_alt rmsk gene 172412 182779 . + . gene_id "HML2_6_GL000251v2_alt"; transcript_id "HML2_6_GL000251v2_alt"; locus "HML2_6_GL000251v2_alt"; category "unknown"; intModel "HERVK-int"; locid "HERVK-int_0134"; model_cov "7558"; model_pct "100.0"; +chr6_GL000251v2_alt rmsk exon 172412 173229 3560 + . gene_id "HML2_6_GL000251v2_alt"; transcript_id "HML2_6_GL000251v2_alt"; locus "HML2_6_GL000251v2_alt"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0134"; repClass "LTR"; repEnd "965"; repFamily "ERVK"; repLeft "-3"; repStart "189"; +chr6_GL000251v2_alt rmsk exon 173233 173967 4885 + . gene_id "HML2_6_GL000251v2_alt"; transcript_id "HML2_6_GL000251v2_alt"; locus "HML2_6_GL000251v2_alt"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0134"; repClass "LTR"; repEnd "746"; repFamily "ERVK"; repLeft "-6790"; repStart "1"; +chr6_GL000251v2_alt rmsk exon 174045 177202 50015 + . gene_id "HML2_6_GL000251v2_alt"; transcript_id "HML2_6_GL000251v2_alt"; locus "HML2_6_GL000251v2_alt"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0134"; repClass "LTR"; repEnd "3909"; repFamily "ERVK"; repLeft "-3627"; repStart "722"; +chr6_GL000251v2_alt rmsk exon 177203 178177 5650 + . gene_id "HML2_6_GL000251v2_alt"; transcript_id "HML2_6_GL000251v2_alt"; locus "HML2_6_GL000251v2_alt"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0134"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +chr6_GL000251v2_alt rmsk exon 178178 181831 50015 + . gene_id "HML2_6_GL000251v2_alt"; transcript_id "HML2_6_GL000251v2_alt"; locus "HML2_6_GL000251v2_alt"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0134"; repClass "LTR"; repEnd "7536"; repFamily "ERVK"; repLeft "0"; repStart "3910"; +chr6_GL000251v2_alt rmsk exon 181832 182779 5423 + . gene_id "HML2_6_GL000251v2_alt"; transcript_id "HML2_6_GL000251v2_alt"; locus "HML2_6_GL000251v2_alt"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0134"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_8_KI270813v1_alt(a) ### +chr8_KI270813v1_alt rmsk gene 180978 185867 . - . gene_id "HML2_8_KI270813v1_alt(a)"; transcript_id "HML2_8_KI270813v1_alt(a)"; locus "HML2_8_KI270813v1_alt(a)"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0136"; model_cov "3848"; model_pct "51.1"; +chr8_KI270813v1_alt rmsk exon 180978 181945 8834 - . gene_id "HML2_8_KI270813v1_alt(a)"; transcript_id "HML2_8_KI270813v1_alt(a)"; locus "HML2_8_KI270813v1_alt(a)"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0136"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr8_KI270813v1_alt rmsk exon 182041 185867 63496 - . gene_id "HML2_8_KI270813v1_alt(a)"; transcript_id "HML2_8_KI270813v1_alt(a)"; locus "HML2_8_KI270813v1_alt(a)"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0136"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "3593"; repStart "-95"; +### HML2_8_KI270813v1_alt(b) ### +chr8_KI270813v1_alt rmsk gene 185912 190440 . - . gene_id "HML2_8_KI270813v1_alt(b)"; transcript_id "HML2_8_KI270813v1_alt(b)"; locus "HML2_8_KI270813v1_alt(b)"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0137"; model_cov "3591"; model_pct "47.7"; +chr8_KI270813v1_alt rmsk exon 185912 189480 63496 - . gene_id "HML2_8_KI270813v1_alt(b)"; transcript_id "HML2_8_KI270813v1_alt(b)"; locus "HML2_8_KI270813v1_alt(b)"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0137"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "3850"; repStart "-95"; +chr8_KI270813v1_alt rmsk exon 189481 190440 8730 - . gene_id "HML2_8_KI270813v1_alt(b)"; transcript_id "HML2_8_KI270813v1_alt(b)"; locus "HML2_8_KI270813v1_alt(b)"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0137"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_14_KI270846v1_alt ### +chr14_KI270846v1_alt rmsk gene 141082 143972 . + . gene_id "HML2_14_KI270846v1_alt"; transcript_id "HML2_14_KI270846v1_alt"; locus "HML2_14_KI270846v1_alt"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0138"; model_cov "1886"; model_pct "25.0"; +chr14_KI270846v1_alt rmsk exon 141082 142770 11016 + . gene_id "HML2_14_KI270846v1_alt"; transcript_id "HML2_14_KI270846v1_alt"; locus "HML2_14_KI270846v1_alt"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0138"; repClass "LTR"; repEnd "5462"; repFamily "ERVK"; repLeft "-2074"; repStart "3766"; +chr14_KI270846v1_alt rmsk exon 142776 142875 414 + . gene_id "HML2_14_KI270846v1_alt"; transcript_id "HML2_14_KI270846v1_alt"; locus "HML2_14_KI270846v1_alt"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0138"; repClass "LTR"; repEnd "5686"; repFamily "ERVK"; repLeft "-1850"; repStart "5587"; +chr14_KI270846v1_alt rmsk exon 142874 142965 575 + . gene_id "HML2_14_KI270846v1_alt"; transcript_id "HML2_14_KI270846v1_alt"; locus "HML2_14_KI270846v1_alt"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0138"; repClass "LTR"; repEnd "7532"; repFamily "ERVK"; repLeft "-4"; repStart "7441"; +chr14_KI270846v1_alt rmsk exon 142969 143972 8253 + . gene_id "HML2_14_KI270846v1_alt"; transcript_id "HML2_14_KI270846v1_alt"; locus "HML2_14_KI270846v1_alt"; repName "LTR5B"; geneRegion "ltr"; locid "HERVK-int_0138"; repClass "LTR"; repEnd "1002"; repFamily "ERVK"; repLeft "0"; repStart "1"; +### HML2_19_GL383575v2_alt ### +chr19_GL383575v2_alt rmsk gene 10454 19925 . - . gene_id "HML2_19_GL383575v2_alt"; transcript_id "HML2_19_GL383575v2_alt"; locus "HML2_19_GL383575v2_alt"; category "prototype"; intModel "HERVK-int"; locid "HERVK-int_0139"; model_cov "7446"; model_pct "98.8"; +chr19_GL383575v2_alt rmsk exon 10454 11421 8772 - . gene_id "HML2_19_GL383575v2_alt"; transcript_id "HML2_19_GL383575v2_alt"; locus "HML2_19_GL383575v2_alt"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0139"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +chr19_GL383575v2_alt rmsk exon 11511 18957 64100 - . gene_id "HML2_19_GL383575v2_alt"; transcript_id "HML2_19_GL383575v2_alt"; locus "HML2_19_GL383575v2_alt"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0139"; repClass "LTR"; repEnd "7447"; repFamily "ERVK"; repLeft "1"; repStart "-89"; +chr19_GL383575v2_alt rmsk exon 18958 19925 8778 - . gene_id "HML2_19_GL383575v2_alt"; transcript_id "HML2_19_GL383575v2_alt"; locus "HML2_19_GL383575v2_alt"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0139"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "1"; repStart "0"; +### HML2_19_GL383576v1_alt ### +chr19_GL383576v1_alt rmsk gene 69114 77314 . + . gene_id "HML2_19_GL383576v1_alt"; transcript_id "HML2_19_GL383576v1_alt"; locus "HML2_19_GL383576v1_alt"; category "oneside"; intModel "HERVK-int"; locid "HERVK-int_0140"; model_cov "7148"; model_pct "94.9"; +chr19_GL383576v1_alt rmsk exon 69114 74636 50491 + . gene_id "HML2_19_GL383576v1_alt"; transcript_id "HML2_19_GL383576v1_alt"; locus "HML2_19_GL383576v1_alt"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0140"; repClass "LTR"; repEnd "5534"; repFamily "ERVK"; repLeft "-2002"; repStart "1"; +chr19_GL383576v1_alt rmsk exon 74636 76251 14968 + . gene_id "HML2_19_GL383576v1_alt"; transcript_id "HML2_19_GL383576v1_alt"; locus "HML2_19_GL383576v1_alt"; repName "HERVK-int"; geneRegion "internal"; locid "HERVK-int_0140"; repClass "LTR"; repEnd "7441"; repFamily "ERVK"; repLeft "-95"; repStart "5826"; +chr19_GL383576v1_alt rmsk exon 76347 77314 9262 + . gene_id "HML2_19_GL383576v1_alt"; transcript_id "HML2_19_GL383576v1_alt"; locus "HML2_19_GL383576v1_alt"; repName "LTR5_Hs"; geneRegion "ltr"; locid "HERVK-int_0140"; repClass "LTR"; repEnd "968"; repFamily "ERVK"; repLeft "0"; repStart "1";
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/telescope-out1.tabular Tue Sep 03 18:12:09 2019 -0400 @@ -0,0 +1,48 @@ +## RunInfo version:1.0.3 annotated_features:99 total_fragments:9088 pair_mapped:9088 pair_mixed:0 single_mapped:0 unmapped:0 unique:9060 ambig:28 overlap_unique:0 overlap_ambig:136 +transcript transcript_length final_count final_conf final_prop init_aligned unique_count init_best init_best_random init_best_avg init_prop +HML2_1q22 9180 95 33.00 0.472 136 0 5 17 16.81 0.351 +HML2_10p14 9463 5 4.00 0.000241 39 0 4 4 4.14 0.000167 +HML2_19q13.12b 9518 5 5.00 0.000121 7 0 3 3 3.08 7.72e-05 +HML2_3p25.3 6891 4 4.00 0.0216 22 0 4 4 4.00 0.0216 +HML2_1q23.3 9232 4 4.00 6.51e-05 68 0 4 5 5.33 0.000101 +HML2_11q23.3 9160 3 3.00 0.000175 68 0 3 4 4.38 0.000421 +HML2_4q32.3 7229 3 3.00 5.58e-06 9 0 3 3 3.00 5.58e-06 +HML2_2q21.1 3080 2 2.00 0.253 29 0 2 2 2.70 0.259 +HML2_19p13.3 2543 2 1.00 0.000155 16 0 1 3 1.76 9.98e-05 +HML2_6q14.1 9422 1 1.00 0.242 120 0 1 2 6.31 0.162 +HML2_7p22.1 17975 1 1.00 0.00912 123 0 1 10 8.04 0.0231 +HML2_16p11.2a 2748 1 1.00 0.00192 34 0 1 1 1.95 0.0018 +HML2_22q11.21 9175 1 1.00 0.000329 122 0 1 7 4.97 0.0149 +HML2_3q12.3 9123 1 0.00 0.000119 46 0 1 3 2.36 0.000761 +HML2_3q21.2 9138 1 1.00 1.83e-05 75 0 1 2 1.65 0.000137 +HML2_1q32.2 4180 1 1.00 1.53e-05 12 0 1 1 1.25 1.6e-05 +HML2_16p11.2b 2746 1 1.00 1.21e-05 34 0 1 1 1.95 0.000129 +HML2_19q13.42 5697 1 1.00 2.5e-06 3 0 1 1 1.00 2.5e-06 +HML2_21q21.1 8304 1 1.00 1.38e-06 55 0 1 1 1.48 1.32e-05 +HML2_1q21.3 1777 1 1.00 3.23e-07 4 0 1 1 1.00 3.28e-06 +HML2_8q11.1b 4280 1 1.00 1.22e-07 2 0 1 1 1.00 1.22e-07 +HML2_7q34 4021 1 1.00 5.95e-09 2 0 1 1 1.00 1.02e-07 +HML2_10q24.2 7177 0 0.00 3.5e-05 62 0 0 3 1.90 0.0158 +HML2_6p22.1 10368 0 0.00 3.34e-18 8 0 1 1 1.00 3.34e-05 +HML2_1p31.1 6373 0 0.00 1.14e-40 78 0 0 1 3.31 0.0655 +HML2_19p12b 6738 0 0.00 8.65e-75 25 0 0 0 0.06 3.21e-05 +HML2_5q33.3 9180 0 0.00 5.1e-106 134 0 0 7 8.30 0.0313 +HML2_5p13.3 9446 0 0.00 1.77e-109 103 0 0 3 2.64 0.00129 +HML2_3q27.2 9180 0 0.00 3.12e-130 116 0 0 5 3.74 0.0193 +HML2_19p12a 10113 0 0.00 1.19e-134 4 0 1 1 1.00 2.85e-06 +HML2_8p23.1a 4893 0 0.00 3.34e-135 81 0 0 4 4.24 0.0144 +HML2_11q22.1 9466 0 0.00 3.34e-135 128 0 0 6 4.73 0.0144 +HML2_19q13.41a 3317 0 0.00 3.05e-142 1 0 1 1 1.00 1.08e-06 +HML2_3q13.2 9159 0 0.00 6.06e-212 121 0 0 4 4.65 0.00249 +HML2_19q13.12a 4006 0 0.00 4.67e-241 17 0 0 0 0.06 3.07e-07 +HML2_19q11 8864 0 0.00 1.19e-292 109 0 0 3 3.50 0.000384 +__no_feature 0 0 0.00 0 4 0 0 0 0.00 5.95e-33 +HML2_3q24 3920 0 0.00 0 50 0 0 7 3.41 8.35e-30 +HML2_4q32.1 2139 0 0.00 0 31 0 0 4 1.71 5.61e-30 +HML2_5p12 9844 0 0.00 0 2 0 0 0 0.00 2.69e-33 +HML2_7q22.2 3918 0 0.00 0 51 0 0 2 1.93 6.32e-30 +HML2_8p23.1b 4510 0 0.00 0 69 0 0 1 3.23 1.24e-29 +HML2_8q24.3a 3088 0 0.00 0 40 0 0 0 1.41 8.25e-30 +HML2_11q12.3a 2509 0 0.00 0 1 0 0 0 0.00 1.72e-08 +HML2_11q12.3b 7547 0 0.00 0 10 0 0 0 0.15 1.72e-30 +HML2_12q14.1 9457 0 0.00 0 130 0 0 6 4.86 3.06e-06