# Multiple XXX in alignment and weird bounds. 10376 12050 1590 1350 chr1 99585648 99587279 95567000 - RMER16-int LTR ERVK 2907 4541 865 157883 CTTCTTCCAGTACCTA/GCAAGCTTC/TTTTCAGAATACCAAGGTA/CT/CTGTAATACTCACAGA/GCAATAAAACAAAAGCTGGTTGG/ATAGACCACCAT+AAC+AACAGAT/CG/ATGA/CCAGA/GTTTCAACACACTAACACAATTAGAAAGTGTAA/CAATCAATACAACTTACATTAAATACC/TA/GTG/AGAAGAAAC+A+AAAGTAATTTC/TAACATGACCAAA/TC/TAATAG/AC/AAGATTT/AA/GT/GAGCA/CTTAACACATGT/CACTAAA/CG/AT/CTG/TGTTT/CGAAATCCAA/GATCCTGTCCCAATTTTATCTATTGCTAG/ACA/GTAT/NCA/TTCATAGAGAACTGCAGT/CG/TAACTTTCAA+AT+ATGTCTCTAAAAATGTCCAGAACCAGT/CCTTCCAAATGAAGAT/CTC/GTTATTTCCAATATTA/GGATTA/GAC/TTTCTAGACCT/AGTCCATGATTGAA/GTCAGAATAACTGGT+CA+CATTG/AAAGGAAAGAA/GAAGAGTT/CATT/CATAAC+T+TCG/TC+TTTTG+ATTAAGTTTTTGAAGGCAGTTTCCAGTCTCCATGTTCTCTGTA/CT/CCAT/CG/AAGGTCTAAAAGCTTGAAGCAAGT/GCAA/GCTTGTCCAATCTGGGATATAGGCAC/AA/GCAAAT/GGTGGGTCAGA/GAG/ACATATGTCCAAAACAGCTTC/TCCA/NGC/TCACT/CG/AC/TTA/GTCAGGGT/CACTCT/AGA/CAAGCTCAT/C+AG+GTCAGCATCATTCTTTGTCCCAGCATCAGCATGTA/CTCACCAATCAT/CTCTGGA/CAGCTAGCATGA/CTCCTTCAGT/CATCCTGGGGG/AG/A-GGGGGGGT-G/AG/AAACACAAACATGT/CT/CCTCTTCCCCATATTAAATAT/CCTGATCAGGACT/CATT/GA/CCATGTGCCAGTATGTGA/GC/ATCCTTCCATTTCAT/CCTAA/GGCATAAGTAC/TA/GCCTGGTTA/GTAGGGTA/GCCATAGACACTCAGAGAGTTG/CCTTA/GA/GCAA/TCCAAATTTTA/TAAAT/ATC/TTTAAAG/ATAAAAAGAACATA/GATTTAAATAAG/ATTTGTGGTA/GTACA/GGGT/GATATAACTC-T-T/CCCT/CTTTTTTATTTTATG+A+AGATATTGTTTTAAAGTTCCACAATACCTGTTTCTCAATACTTTGTCCTTGAGGATTAC/TAAGGG/AATCCCAGTAATATA/GGGTAATG/ATTAAATTGTCA/GACAAAACA/GTCTCAAATGCTTGACTGTAATG/AT/GA/CCAGTTCCATTATCTGTTTTAATCTGAC/TTTGA/GAACAC/NCA/CAGCATA-TATT-A/GAAAAT/AT/CAT/ATG/ATAGGCAATGACTAATTACATTTTTAGG/TTGCTTCTCCTGTTAAT/AGCAGTTGCAACTAGAAAGCCTGG/AAAAGA/GTGTCAATAGTCACATGTG/ACATAT/CTTTAT/ATTTTCT/CAAAATCAGT/AAATATGAGT+AAC+ATCCATTTGCA/CATAAC/TTGATTAA/GA/GTATAAGC/TCA/CTCA/GAGA/GATTAG/ACACCATTATGTGGA/TACAGGTAGAAATTGAGGACAC/TTG/CAGA/GACAAGTCTTTACAATTTGACA/NTGCAA/CATTCTCTAA/GAAT/ATACCAAATTGTTA/GG/TCTCAAGC+T+ATTG/ACTATTTTGATA/GATGTAAAGAG/ATGAA/GATTA/GTA/TTGT/GCC/TAATTGTA/TCT/CTGA/TGTAAGGCCA/TATAAT/CCTG/TCCTGGG/TATACAAG/ATCTGCTGA/TGGCT/AC/TTGCC+CTCA+T/CTAAGGG-GTTTT-GTCCAGGCAG/ATCCAGG/TT/ATGAGA/CTT/CTTAAAA/TGA/TCT/C-AAG-G/TACAG/AT/AC/ATAAGGAAG/CA/NGTAG/CT/GTTCTCTTAAC/ATTGG/AGTTGTAT-A-TTG+C+ATAAAC/TAATTGCAAAATTTGAGAATTAGCAGTATCTAA 7410 20240 8000 8990 chr1 99586363 99587311 95566968 - ERVB3_1-I_MM LTR ERVK 2642 3585 1831 157883 AACACAAAC/TA/GTGT/AT/CCTC/AT/GTCCCCATA-T-TA/GAATATC/AT/GGA/GTC/TA/GGG/AA/TC/TTATT/GA/CCA/GTG/TT/GGCCA/TGT+C+ATG/AT/GGA-C-TCCTTCCAT/CTTC/AAT/CC/TT/GAAGCATAA/TGTA-CAC-C/GTGG+AA+T/GTA/GT+G+AGGGTA/GCCAT/AAG/AACA/GCTC-AGAG-AGT/CTGCTT/GA+ATGTCCATGC+ACAA/TCCAAATTTTAAAAT/AT-C-TTAAAG/ATAAAAAGAACATA/GATTTAAATAA/GG/TTTTGTGG/ATATAC/TA/GGGTA/GTATAACTCTT/CC+T+C/TTTTTTTTATTTTATG+A+AGATATTGTTTTAAAGTTCCAC/TA/GA/G-T-A/GCCTGTTT/CCT/ACAATA/GCT/CTTGTCCTTGAGGATTA/GC/TAAGGG/AATCCCAGTAA/GTATA/GG/AGTAATG/ATTAAATTGTC/TA/GACAA/GAAC/AA/GT/CCTCAAATGCTTGACTGT/CAATG/AT/GA/CCAGTTCCATTATCTGTTTTAAT/GCTGACTT/GG/AA/GAACACCA/CAGC/TAT/AA-TATT-A/GAAAAT/AT/CAT/ATGTAGG/ACAATGACTAATTACATTTTTAGG/TTGCTTCTCCTGTTAAT/AGCAGTTGCA/TACTAGAAAG/ACCTGG/AAAAGA/GTGTCAATAGTCACATGTG/ACATATTTTAT/ATTTTCT/CAAAATCAGT/AAATATGAG+TAA+TATCCATTTGCA/CATAAC/TTGATTAA/GA/GTATAAGC/TCA/CTCA/GAGA/GATTAG/ACACCATTATGTGGA/TACAGGTAGAAATTGAGGACAC/TTG/CAG/AA/GACAAG/ATCTTTACAATTTGACA/TTGCAA/CATTCTCTAAAAT/ATA/CCCAAATTGTTA/GG/TCTCAAGC+T+ATTG/ACTA/GTTTTGATA/GATGTAAAGAG/ATGAA/GATTA/GTA/TTGT/GCC/TAATTGTA/TCTTGA/TGTAAGGC/TCA/TATAAT/CCTG/TCCTG/TGG/TA/GTACAAG/ATCTGCTGA/TGGCT/CC/TTGCC+CTCA+T/CTAAGGG-GTTTT-GTCCAGGCAG/ATCCAG/TG/TT/ATGAGATT/CTTAAAA/TG+A+ACTAAG/AG/AA-CAGT-C/ATAAGGAAG/CA/TGTAG/CT/GTTCTCTTAAC/ATTGG/AGTTGTAT-A-TTG+C+ATAAAC/TAATTGC/TAAAATTTGAGAATTAGCAGTATC+TCAAAAGGGAACCGTTTCAAGTAGTTG+TAA-XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 7410 20240 8000 8990 chr1 99587346 99587457 95566822 - ERVB3_1-I_MM LTR ERVK 2641 2641 2775 157883 -XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 7410 20240 8000 8990 chr1 99587498 99588521 95565758 - ERVB3_1-I_MM LTR ERVK 1566 2641 2775 157883 -XXXXXXXXXXXXXXXXXGGC+ACCATAAGCTATATATTGGC-T+AC/TCAGTATACAAATT+A+AAAGC/ATTGATTTTTTT+C+AA/GCT/ATTTCAAAAAT/CAGT/CG/AGCTA/GCAA/GCAA/CG/ATG/AA/GTTCAATTATC/TTGTGCTGAAGCAG-A-A/GGGAA/GACTCAAA/GAGAATA/GAAA/CATGTG/TAA/TCCAATCACATATGCTT/GCT/CC/TTCCCA+T+TAA/GAA/TGG/AGCT/CATT/CTA/GTAAATAG/CAGTAG/AA/GTAT/CAC/TTC/GTT/CTATA/GGGA/CTGCATGC/TA/GTAAA/GTTTACA/TG/AA/GA/GAATACAAAAGCATGCATAGAA/GGCAAATTT/GC/TAAA/CAACT/ATA/GTA/CTTTTGA/GATA/CATGATTATCAATTTTAA/TCC/TA/TAG/AAAG/AC/ATTGT/C+A+T/CATGCAATAT/GGCCAAATATCAGTATTC/TTT/GTAATAACC/TAT/AT/CT/GTAC/ATTGA/CA/TGTTTGA/GAG/AC/TAAGG+A+ATAG/AATG/AT/AC/TTCA/GTCAGGTTT/CT-TAAGACATTA-TTT/CC/TCAAAATG/AC/TTTT/CCATGATTCTA/GTC/TCTAA/CC/AATTT/CTT/GTACTAACAC/GC/AA/GCAA/TCAGCTT-C-ATAAG/TAG/AG/CA/GTGTTAAAACTTTA/CC/TTTGGAGATGAG/AGAAAG/AATGT/AATCC/TAT/CATTAATC/GC/GTCT/CCTTTTGCC/TAAAGA/GACTG/ACTGTGGGCACA-T-TGAGTA/TGC/TAA/GT/CAAATAAC/TA/GT+AAG+T/CT/AGA/CT/CT/AACAATTGATT/CAC/TAA/GTC+TA+G/TATAAT+ATATC+TA/GTTGA/TTT/GA/GCG/TGA+T+AGCTTCCTCT/CACTTTCTGCAA/TAGG/CTATTTGTCT/CCTCAC/TCAGTTAATTT/GG/TC+AAGGGGAATTAGGATTTCA+ATCT/CCCCTTGAT/GA/GA/GTATCC/AA/CG/ACAA/GAGGC/TTTAAGTC/TCTCA/CT/CGT/GG/AGTG/AAGCTTAA/TGG/ATGAGGTCTTAGCCAA+T+A/TAATC/TATCTCCTG/AG/AA/CAG/ACTTTTGAT/AAATA/CA+TT+TTTG/AA/GAGTAAGC/T-A-AAT/CCATCTTTTC/TTTT+AA+C/TTTGAATTTTCTGTGCC/TACAATTTGTG/TTAGC/GATATAAG/CTA/GAG/TGC/TCCC/TAAT/AT/CAT/CTGAA/GAAA/GGT/AA/TATTGC/TCTT/CTGAA+T+TC/TTTTTCTGGAGCAACAAT/CTA+AT+CT/CCCAAA/GT/ATTTTAAAGCC/TC/TA/GTTGTATAAGAGCC/AAAAC/GCTTA/GTAG/ATAA+CC+AA/CCT/CACT/CG/CC+CCCA+AGAAGGATCAGCTAATAAA+ATATCATCC+ATATG/AATG+AAC+AAT/CATACACT/AG/AAAAGAT+A+T/ACAAA/GG/ATCCTA/GACT/CTT/CTTGC/TATT/CGAAGCAG+CAACA+AG/AG/AC/TTC/TC/TC/GC/ACAC/T 1087 22080 6620 11350 chr1 99588573 99588900 95565379 - MMERVK9C_I LTR ERVK 1416 1699 3068 157883 ATGTAA/GAG/CCTG/A+TAT+TTAGCCATT/ACCTT/AGAGC/GCAAAA+T+TTTCCAA/GTGA-TACTGCTTCATGGG-TTA-TTTAAAATGACAAG-CAAACA/TCACTAA/GAAGCAAACCCTTTACAATC/TATC/TAG/AGATGCAAAGGAA-TAC-AAAACAAT/GCC/TTC/TC/TAA/RATG/CC/TATAATAAT/CTC/TTAC/TAT/WGG/AAGTAC/GA/GG/CAG/AGCCAGATTGTAATGCCTC/TTT/AC/TAAG/ATTCC/TAT/CAGC/TCTC/GATTA/GACCT/CTTC/TATAAAT/CC/TTTA/GC/AG/ATTTGAAC-TTTTTTTTTT-TTTT/ATTT/AGAACAACAC/TCTT/GGATAGATCTT/GT/CAAT/AA/GA/GTGCTG/CTTTTG/AG-C-CTAAG/AAGT/AAAT/ATC/TT/CC-AGGTT-CCTGGAGGA/CG/AAGGA 7410 20240 8000 8990 chr1 99588573 99588801 95565478 - ERVB3_1-I_MM LTR ERVK 1298 1565 3851 157883 -ATG-TAAA+ATAGG+GCTG/ATTAGCCATTCCTTGAGC/GC/TAAA/CAT/CTTC/TC+AAAACTTGAGGTA+AATGATAC/TT/CG/ACTTCATGGGTTA/CTTTAAAATG/TACAAG/ACAA/GA/GC/GACACTAAAA/TGCAAACCC/TTTTA/GCAATCATCAGG/AATGCAAAGGAATAC/G+TATA+AAAACAATCC/TTC/TC/TAAATG/CC/TATAATAATTC/TTAC/TA/G+TGTATTTTT+TGGAG/AT+G+A/GCAG+CTGGGCTTGGT+AGG/ACCAGA/GTTGTAA/GTGCCT/CCT/AT/AC/AAAGTTCCATAG/AC/TC/TTCATTAACCTTTC/TA/GTAAATCTTA/GC # Alignment is duplicated crossmatch, which gets passed through by # RepeatMasker. The calign encoded string ends up exceeding the bounds of the repeat. 2694 12780 3100 1570 chr10 47013646 47014091 83516771 - RLTR44E LTR ERVK 1 452 0 402058 TGC/TT/CA/GCAGGTCC/ATT/CTG/CA/CG/ACT+CCG+GA/CA/GGAGACAG/NGAACGACACA/GGACACCAAGG/TCA/GA/GGTTCACGCAT/GCAG/ACTTCTTTACTTT/GA/TGGCC/TTTTTCC/TCT/CTAA/CAGCTCTCTTCCT/CCAGCAGCTTCTTCTTCCTT/CT/CC/ATCC+T+TCTTGCA-GCAAGC-GCTA/TTTCTTACAACA/NACTT/CT/CA/CCTTACAACAGCTTCTCTTACTACAA/GCTAGCTTCTACTT/CAGGGCAA+GGGC+C/TAAACAACA+ACC+AAACC/TCCTAC/TACTCGT/CGCT/CGACTGACCTCC/A-T-TCTAGCTA/CCACCCT/CACCTCATCCAATCAGAATTCACACACGCTCCAGGCAT/CGAGCTCAGA/GTA/CGGTCAT/CC/NGATAGGCTGACAGGTCT/CGGATCAT/CGAGGAACAGTCCAGCT/CTT/GGCAGGCAGCCCACA/GCATGCAGCCTCACTGCA/GCATGCTCG+GGC+AAGGCAGTAAACATCTTGGCCCATGCGGCCA/GCACCT/CGCTTT/CCCGCA 10230 8050 4170 2840 chr10 47014094 47015679 83515183 - RLTR44-int LTR ERVK 1202 2808 4 402058 CCCCTTTTTGTTTTATTAGC/TAGCTCTGGGATCAT/GCATCC/TGTCTTAGGTTGCCCCA/CATCT/CA/GTGCCAT/CATCCTTACCT/CGTCATGA/GGAGTGAT/CGAACTCACTTTCA/GCCATCCTGTCC/TTAGGTTGGTATGCT/GCACA/GTGAGGGTCTTACCT/CGC/TCATTGATTACTA/GATT/CCAGCATGTTGAGCCAACATTGGGGGGATGTTCCTA/GCTTCCAAGGCTGCCATAGCCTGCACTAAGGCTCGTTTATCAGCCCTGTGCCA/GCCTTT/CGCATAT/CGTGCCATCCACCAAAGCATTCCTCT/CACACACAAT/CAGTCAGCAGGAA/GT/CGCTCAAAAGGT/CCATCCT/CTCCCCAA-T-TTTTTTAAGAATCCCACAGTTCCCTGGATGATCTCCAGCCATTGCTTTGCAGTTGCAATCTCCACACA/GGGTGTTGTTCACGGCAACAATT/CGATGCTCA/GCAATTCCTTCATCTTTGTGTCT/GAGATCATGACTCCAATTTCCTAGCA/CGCATCC/GCACCAATTGCACA/GG/CGACAGATTTGCAGCTCTGGAAAAATTCTGATACTGAACAGAGGA/TTACACACATTCCTGC/ACATATT/GAGTAATGCAGGAAGCAAATAG/CTAACTGCTCCAAAATATTCAC/TCTA/GTTCCTGCAACCAATCCACTCTTTGGTTAACCATAAGGATACCAGCTTTCAAATTTGTATTCCAGTGGAGCCA/GAAGCCCCGATTTCCTCTTTTCAGTT/CCCCTTT/GAAGGA/GAAGCTAGCATGGTGACTAGGCAAAA+G+CAAA+ATTTGAGCAATTCTATCTCCAGGGGAAATGGCAGAC+X/AX/CX/CX/CX/CX/TX/CX/TX/GX/GX/GX/GX/GX/AX/GX/GX/AX/AX/AX/CX/CX/AX/TX/GX/AX/TX/CX/TX/TX/AX/TX/TX/TX/TX/TX/GX/TX/GX/AX/A-XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX+CACCTTA-T+C/TACTTTCAAAACACAGAAGTACATAAAGAAAAACCTTTTATTCAAACTTGGCTATAG/TTCTGTTCTATACCCCCATACCACACTGCCTTCTGTTCCCTGA/CCTGTTCACTAAATGTCTTTTCCG/ATATCTTTTCAATGCTTAT/CTGAAG/ATACAGATTTTATAGACATAAATTTGC/TAACATATTTACATAGAGCATACATATGCATACCTAAGAACTTTAAGC/TGTTTTTATCTTACACG/AAAACAATGC/GTCT/CCTTTCATAGTGTTGTTTTCCTTCTAATACTATTGGCTAGTCCTCCCATCCACC/TATATC/AAGACCATCTTT+TC+TCTTTTTCTTTCATTTAAAGCATTCTCCTTTAATGGCTCAAGTTTCTACTACTGAGTCTTCAGGAGCTTTCCTGCAGGTTGCAATGTTTTATCTTTGAC/GA/GAAATTGCTCAAAAAGTACCTAACCTTAACTCTTACTGCCTTTATCAGAGTTTAAACA/GA/CGTGTTCA/GAC/GATTTTATAAAGGCAGCCTGGACCCT/CATAAGTA/CGAAACTGACTCCTTCAATA/CTTTGTAT/CAACCTTCCACTCCAGGGGTTCT/ATGATACCGTTGCCCCTGG/TTGGTCCTGAAATACTGGGAAGGCCCCCGCAACA/GGA/CA/GGGCACAC/TTTTTCCAGACTTTTGCATGAAGACTACGCTTTCCA/CCTTTTGTCTCCCTCATCTTTATAGGGG+GGA+GGAGAAGT/GCC/AAT/CGGA+GG+GGCTGATGGT+TCGGGCGGCCTACCGC+GCCTCAAACTCCAGCC/GGGACATT/CT/CGACTACAGAT/CGTCACTGTCA/GC 10230 8050 4170 2840 chr10 47014094 47015679 83515183 - RLTR44-int LTR ERVK 1202 2808 4 402058 CCCCTTTTTGTTTTATTAGC/TAGCTCTGGGATCAT/GCATCC/TGTCTTAGGTTGCCCCA/CATCT/CA/GTGCCAT/CATCCTTACCT/CGTCATGA/GGAGTGAT/CGAACTCACTTTCA/GCCATCCTGTCC/TTAGGTTGGTATGCT/GCACA/GTGAGGGTCTTACCT/CGC/TCATTGATTACTA/GATT/CCAGCATGTTGAGCCAACATTGGGGGGATGTTCCTA/GCTTCCAAGGCTGCCATAGCCTGCACTAAGGCTCGTTTATCAGCCCTGTGCCA/GCCTTT/CGCATAT/CGTGCCATCCACCAAAGCATTCCTCT/CACACACAAT/CAGTCAGCAGGAA/GT/CGCTCAAAAGGT/CCATCCT/CTCCCCAA-T-TTTTTTAAGAATCCCACAGTTCCCTGGATGATCTCCAGCCATTGCTTTGCAGTTGCAATCTCCACACA/GGGTGTTGTTCACGGCAACAATT/CGATGCTCA/GCAATTCCTTCATCTTTGTGTCT/GAGATCATGACTCCAATTTCCTAGCA/CGCATCC/GCACCAATTGCACA/GG/CGACAGATTTGCAGCTCTGGAAAAATTCTGATACTGAACAGAGGA/TTACACACATTCCTGC/ACATATT/GAGTAATGCAGGAAGCAAATAG/CTAACTGCTCCAAAATATTCAC/TCTA/GTTCCTGCAACCAATCCACTCTTTGGTTAACCATAAGGATACCAGCTTTCAAATTTGTATTCCAGTGGAGCCA/GAAGCCCCGATTTCCTCTTTTCAGTT/CCCCTTT/GAAGGA/GAAGCTAGCATGGTGACTAGGCAAAA+G+CAAA+ATTTGAGCAATTCTATCTCCAGGGGAAATGGCAGAC+X/AX/CX/CX/CX/CX/TX/CX/TX/GX/GX/GX/GX/GX/AX/GX/GX/AX/AX/AX/CX/CX/AX/TX/GX/AX/TX/CX/TX/TX/AX/TX/TX/TX/TX/TX/GX/TX/GX/AX/A-XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX+CACCTTA-T+C/TACTTTCAAAACACAGAAGTACATAAAGAAAAACCTTTTATTCAAACTTGGCTATAG/TTCTGTTCTATACCCCCATACCACACTGCCTTCTGTTCCCTGA/CCTGTTCACTAAATGTCTTTTCCG/ATATCTTTTCAATGCTTAT/CTGAAG/ATACAGATTTTATAGACATAAATTTGC/TAACATATTTACATAGAGCATACATATGCATACCTAAGAACTTTAAGC/TGTTTTTATCTTACACG/AAAACAATGC/GTCT/CCTTTCATAGTGTTGTTTTCCTTCTAATACTATTGGCTAGTCCTCCCATCCACC/TATATC/AAGACCATCTTT+TC+TCTTTTTCTTTCATTTAAAGCATTCTCCTTTAATGGCTCAAGTTTCTACTACTGAGTCTTCAGGAGCTTTCCTGCAGGTTGCAATGTTTTATCTTTGAC/GA/GAAATTGCTCAAAAAGTACCTAACCTTAACTCTTACTGCCTTTATCAGAGTTTAAACA/GA/CGTGTTCA/GAC/GATTTTATAAAGGCAGCCTGGACCCT/CATAAGTA/CGAAACTGACTCCTTCAATA/CTTTGTAT/CAACCTTCCACTCCAGGGGTTCT/ATGATACCGTTGCCCCTGG/TTGGTCCTGAAATACTGGGAAGGCCCCCGCAACA/GGA/CA/GGGCACAC/TTTTTCCAGACTTTTGCATGAAGACTACGCTTTCCA/CCTTTTGTCTCCCTCATCTTTATAGGGG+GGA+GGAGAAGT/GCC/AAT/CGGA+GG+GGCTGATGGT+TCGGGCGGCCTACCGC+GCCTCAAACTCCAGCC/GGGACATT/CT/CGACTACAGAT/CGTCACTGTCA/GC # decoded block is out of bounds 669 22810 12340 4710 chr11 23897080 23897356 98076013 + RMER3D-int LTR ERVK 1094 1393 1449 590319 AAACAGT/GCTCA-A-TG/A-GT-T/CAA/GTATT-T-A/GTTTAGA/CTTG/ACTTT/CAA/GTT-G-C/TTTTAAATTGC/TTTTAATTA/TTCAA/TAATA/GT/GGTGTG+ATTTTGAGTCTTGTG+GTTATATTA-AAA-TTC/TCTCTGGGAGAGAGTT/GCAAGC/ATAT/CA+AGCTTT+TCT+GGTTACAGA+T/CTAAAG+AACACG+C/NTATTTTGGGAGAAAGGC/TTTTA/GTA/CTTTGTGTTG/TA/TC/TAG/AG/AAAA/GGGA/TGAA/TA/TAGGCTT/CTA/GGACT/ACCTTCCAGAGTG/TATATC/TA/GATT/CT/AGATA/TTGAC/TAGG/AGT/GA/TAGACC+T+CT/CTA/GAAG/AAT/ACT-CAAA-AA/GATTT/CG/AAGG/AA/GAATCAAAA/CAG/AG/AA-C-AGG/ATAA/TCTTGAT 1644 19950 5650 1130 chr11 23897208 23897563 98075806 + MYSERV16_I LTR ERVK 1 372 1954 590319 TTTG/TGGAGAA/GAGGCTT/MTA/GTATTTGTGTTG/AAC/YAGGAAAGGAG/CAAAAGGCTTTA/GGACT/WCCTTC-C-AG/AAGTG/AATATC/GA/GATT/CT/AGATATGACAGGGT/GAAGAC+G+CCT/CTA/GAAGATCT+TGGCTA+CA+GACAGGAAAG+AAAAATTT/CG/AAGG/AAA/NATCAAAA/CAG/AGACAGGTAACTTGATC/TTGCTG/TATT/CCCT/WC/MG/CA/NCATG/AG-G-AACAGC/TT/CT/CG/NA/NT/RAG/ACTGGT/CTTAGACAA/CAC/AAA/CATT/GTCTCTAGCT/CAAAAT/CTTC/NAA/GCTAAAG/ATG/TAGAT/CAATAAATCTTA/GTTGGTTAT/NG/AGAATCCTTAAAATTC/NT/ATCATG/RCCC/ATCC/NT/WTCATA/RTGT/G+CATG+AATA/GG/AAGAT/BTTATTACAATTA/GGTC/TATG/TGATA/CAAAT/CTAAT/CTCATA/RAAAC/G-CC-ACAGTTGTCTTTCAT/CC 2290 15700 8470 5100 chr11 23897579 23898069 98075300 + MYSERV16_I LTR ERVK 433 940 1386 590319 AAATATCTTA/TG/AC/TAGT/AACTAAG/AAT/NTC/TTGA/GTTGTG/AAGA/NTTC/TATATATTA/RCAA/GAAT+GAAASACCAAA+ATACAGCTT/CTGACAAGATTCAT/YCCTCAGA/GGATGCTGAG/RC/ATA/GACCTGCTA/NTTCCAGCTCC+CTACTTAATTC+TGCT/CTC+AA+C/YT/NG/AA/NTGCTGT+TT+CCAGAGACTTGT/CG/TTCCAGAACAGCC/TTCAG/AGAATT/NGCTA/NCTG/AATTC/NCA/CG/AA/TTGA-TCTTG-CCTCATCCAA/TCCTTTCAGACG/AT/GATCC/TAGTCAA/GA/RACTTCAGTC/TAAG/ACC/AT/CTGAACC/TT+T+CTAAG/ACATAC/AAGAGACTGGATAC/ACAGATGCTC/AC/AAGCTAC/GCTTTCTTAAGTCTAACCAG/ATTTTC/TC+TN+AG/TTTC/TCC+TGCNCNTCNT+CACCCC/ATTT+NTT+AAAGAATTT/N-CTTG-TCT/ACCCCTA/N-TTC-AGCAGGA-AGAAGCCACAGA-GAGT/NC/TATCAG/TT/CCCA/NATT/CCCC/TTG/TGGTTTGGGTGTCTGGTTATGGTTATTTTAC/TAAATTATAGATAG/TGTTGC/TCATTTTAAT/GGGC/ATAATA/TTGGAAATGGTCATAATTT-C-TAACAGG/NG/AAGGAAA+C+TAG/AATA 1267 21840 2550 13580 chr11 23897873 23898403 98074966 + RMER3D-int LTR ERVK 1549 2018 824 590319 CCAG/TTTTT/CCCA/TG/AT/CT/CCCCCACCCCT/C-TTA-AAGA/GATT/ATCTT/CG/AT/ACT/GCCCC/AT/CA/GTT/ACAGCA/TG/TGAAGAAGC/TC/TAC/TA/TGA+A+GAGTCATCA/GG/CT/CCCA/GATTCCCTG/AG/AG/A+C+TTTGGGT/AGT/GCTGG/AT/AT/AA/GTGGTTATTT/CTA-CAAATTATAGAT-AGGTTGC/TCA/TTTT/CTAA/GT/AG-GCT-AATA/TTG/AGAAATGGTCATAATTT-CT-AACAGGGAGGAAA/TTAGA/CTA-TGAT-GG/AATTA/G-CTAATTTTATTCTTGAACAAAGC-ATTA/GTAT/CAGCCATAAT+CTCATT+TGA/GTAT/GAAATCT/CTTG/ATAA/TTTGA/TTG/AT/CA/TG/AAA/GT/CTG/AAAGTTATAATT/CTC/TTTACATTGGTACAGAATTT-TTAT-AT-A-TTGATAA/CA-G-AA/GTTA/TAT/GG/ATTTG/TCTTTGG/AC/TATA/GAATTTT/CT-A-TATT/CGATA/TC/TAAAATT-TGATATT-AATATTGTTACTCT+CA+TG/AG/TATAGGCATTGTGCCTATG/ACG/AACT/ACATTC/TAAGA/TATACAAGGCTTT/AG/TACT/CCAGA/TCCTT-CTAA-TA-G-CTA/GCTATTAC/AAAA+A+CTG/A+A+TT/CTA/GAGATGATTAA-GT-AC-CAG-AT-A-GTA/GAGTTAAGGA/GCCAGATAGT/CAAAC/TTT/CATGGT/CT 2524 12020 3850 2180 chr11 23898060 23898519 98074850 + MYSERV16_I LTR ERVK 1062 1528 798 590319 AAATAGA/G-TAT-GATG/AGATTAC/YTAAT/ATTTAT/CTCTTG/AAACAAAG/ACATTA/GTATAGCCATAAT+CTTACAT+TGA/GTAT/GAAATCTTTG/ATAATTGATG/AT/CAG/AAA/NTTGAAGTTATAATTTCTTACATTGGTACAGAATTT-TT-ATATATTGATAA/CAGAA/TTTAAT/GGTTTG/TCT/ATTGGC/TATAAATTT+CT+T/NTATATTGATACAAAATTTGAT/AATTAATATTGTTACTCTTG/AGATAGGCATTGTGCCTATG/ACG/AACTCATTC/TAAGAATACAAGGCTTT/AGACT/CCAGA/TCCTTCTA/NATAGCTA/GCTATTACAAACTGTTTAAGATGATTAAGTA-CCAG-AT-A-GT/YAAGTTAAGGA/GCCAGATAGT/CAAACTT/CATGGTTATG/AA/TTAGATTCTA/GC/ATTT+TGTT+AATTATAATAAAGC/TA/GTTTTCAAT/GTTAC/ATTA/CAAT+TA+ATGAG/A+A+TGGCC/TAAGAGTAGC/TTAAGA/GTTTAAT/CG/AGTTCAA/GATATA+CT+TTT/NTAC/TATAG/TATAGATA/GGTCTTCA 8796 12980 6950 8020 chr11 23899908 23901188 98072181 + ETnERV2 LTR ERVK 1656 2919 4487 590319 CTG/ACA/GTGTCTTC/GT/GTCATAGAGT/NATTA/GGCTTATAAGA/TTATT+T+GGGTATGATTAAAAAGGTGA/TAACAT/CTC/GGTA/TACA-A-GAAAGTTAA/GCTTT/AAAAT/NTGGTAACTCAG/AGA/GT/NTG/AGAGTC+ATTTT+CAA+ACAAAAG+CACGTGGCATAAAC/GT/CAGG/CCCAGAAAACTAGG/NCCTCTAAG/AA/GATACTTCTAAATTGAGATAATATTTA/NATGTGG/ATTCTTATCCTAG/AAAAGTAGACTTAG/AA-AGA-GATAAGATTC/TAAAACAATGTCTCTTTAATGAAGCATTAAAATTTG/ACACTGC/TCATC/GT/CATTCATA-GGTA-TA/GAATTGGCAGCCAAACTTCA/GTAACGTGATAGTGATGTTTCTAA/GTATTT/GATTTTAAA/GGAT/NA/GATAAATTA/GTTTTAAAATTGGGTT/CTTGCTTTT/CCC/NAAAC/GC/TTGTAGATATT/AATTCTAG/AC/TATTGCAG/AA/NAGAAACTTAAAAATTA/NTGGTTAAAATTGCCAGTGTT/CCCATTGACTGCAGC/TTTGCAGTTTGATT/CGCAAG/ATTTAAGAT/CTTTTAACTCACCCATATATTGTTAATTAAGATTATTACC/AAGAGTAATCATCTC/TATGAGAA/GCGCTAATA/GCAGCTCACTT/NC/NGGCCATC/TCAT/GCCATACAAAG/ACAAAGG/ACAGAG/N-AG-TTAT/NCTAG/NATATG/ATTT/CG/ATCTTTGTACAG/NAAATTAGACCCTCAT/CACAATCAG/ATTTGG/ACTATGGTTGCT/GGCCTA/TG/ACAGGA-GA-CT/CA-CAG-TAC/AAAGC/G-AATTTTTTT-TCA-CAGCAC-TAAA-GTTAT-AA/GAG/AAAC/TGTTTT/NAA/GC/GTATAAGTCG/ATCTTAAGAAAGAC/TTGTCCAAAATT/CAGAGGT/CATA/GGACAGACAGTC/TA/GAATTGT/CTCCC/TCTA/GGAATCTGC/TCCTCATTGCAGA/GAGGGC-C-AAGAT+GCTCAAAKTAAAAAATATWTACATTTGGGTTAATACAAAGCTCAGAGCAGCCTCAGCGAAGCTTGTGCGA-XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX-CGTTTCTTTCGTTTTGC+AA/GACC/TA/GT/CGCCTAAGG/AAAGTTCTTGG/AG/AACC/TT-C-A/GCCC/TCTCCCTGCCTTCAGGGG/AG/AAT/ATTC/TT/CTTTTAGCTAAACA/G+AACATT+TTTG/N+CT+TTTCAGATT/CTACCT/CAGGTGTTGTTCA/NT/NA/GATAAAGTTTAAATTCAAGATTTATAAAAGGTCAAC/TCAGGA/CTG/ATAG/AAACTTATG/AAAGGCATTACAAGA/NTGG/ACTTGCCTACTTCATA/GTAAAATTATTG/ATAGATTTG/AAAAGTTTGTTTTTTCCTTTGCATCC-T-GA-T-AATTGTAAAGGGTTTGCTTCTAGTGAG/ACTC/GA/GTGAT/CCACTGGAAAA/NTTTTGCT/CTT/CTAGGTATGGCTAATA+TA+GC/TCTTG/ACATTAC/TGTAAGAAAAAA/TTTTTATTGTCTT/NTGCTTCAATACAAGAAGCTAAG/AA 384 20000 1160 1160 chr11 23900737 23900823 98072546 + RMER16A3 LTR ERVK 120 205 252 590319 GCT/CCA/TGATTAAA/GAA-A-T/CATA/TTACATTTGAGTTAATA/GCAAAGCTCAGAGCAGC/GCTCAG+C+GGAAGCT/ATGTGC/TA/GA/GT/CG/AT/GTT/CCTTG/TTGTA/CTTG 8796 12980 6950 8020 chr11 23901381 23901833 98071536 + ETnERV2 LTR ERVK 2920 3368 4038 590319 -GCTAAGA-GTTTG/AAATCTTTCAGTGTATAC/TTGTTTCT/CTAAA/GTGGAAAGTAA/TTTTATTAGCA/TAC/ATGCCTCTAAAA/GG/AGAAGTTTACTTCAAT/ATCT/CTTG-C-TCTCACAC/AAAT/GG/AAGC/TT-C-TAAAGTC/TT/CTGGG/AA+A+GTAA/GTTGTTGCTCCAA/TAAA-A-GATTCAGAT/GA/GCAATATCTTTTT+T+AATATT/CTG/AGGGTTTTAGTTATC/AT/CTA-G-AAAAATTGTG-G-TACA-A-GAAAAT/AT/ATT/CTAAA/GAAAT/GG/AAT/AGATTTG/AC/TTTAT/CTA/TCAAA+ATT+TTATTTTT/CG/AAAA+A+GCTTCCAGGAGATGTTAATTGGCTAAA/GACCA/TCACCG/TTAAACTCACCACAGGAGAACT/CTAAGCCTTTGTTAGGTGCTATCAAGTGAGATTCAAATTAACTGGTG/NAGAAA/CC/TAAAA/NAA/GGCTTTG/A+A+T/CG/AGAAAGTAGAGAAAG/ACT+TCT+GTG/AATC/NA/TATTGT/ATATCAATTA/GTAATCA/GAG/TGA/GTAATCAAATATTAGCTGCT/NTATT 4815 15450 2210 3330 chr11 23901892 23902762 98070607 + ETnERV3 LTR ERVK 4397 5256 552 590319 AAATTTG/AG/AG/ATC/GC/TCC/AAAAACCTT/CG/TCTG/A-CTGAGTG-AGTGC/TCT-T-ATA/GG/AT/CAT/CT/CCTACAAC/TCA/TG/AG/ACATACA/TT/CATG/A-CCT-AGG/ATAAAG-AGAAA-GGATCCACTTATTGGCACAT-T-GGCATGATCCTGTTCAGG/ATACTTAAA/TATGGGGAAG/AAGGGGG+C+AATG/ATTTT/CTGTTTTTTCCACAGAATGCTG/ACAG/AA/GAGCA/GTGCTAGCTT/CCCAGAATGATTCCTGTGACAGGCTGACCTGTGAGTTCCTGAGTGCCCTGACAGTGGTGACA/CG/AGAAAGCTGTATTGG/AGTG/AT/CACAG/AAG/AAAG/AAA+AAAAA+GG/AAAG/TCAG/A-GG-AG/AAG/ACAGA/TCACTT/CG/ACAAG/ACAAAATG/AAAGAG/AACTCTC/TCCTATCC/TCT/CGCCAC/TA/GGA/GCTG/AC/TAG/ACAAT/GGAGAGCC/AGACCTGGTG+TCAACTTGAAA+AG/CG/AACTAAAG/AAAGCTGACTCGTGAGGCG/AG/CAG/AAGACTGG/CTACA/TG/AAGA/TAT+T+GGACAC/AGAT-GCT-TTCG/ATCAGAGAC-AC-TGTTTTTGGCCATTT/CAGGCCAACTCCCCTATAGCTGTG/AAAG/AGCTTGTGTG/ACCTTACCC/TA/GTATGCT-A-TATTGTTG/AG/AG/ATA/GATTTTG/AA-TA-GAGTTAAGATCACCAATCTTT/GT/ACAAGTCTTTTC/TATATT/AA/CATTGTAATTCT/CTGTCAA/TTTAACTAATTGTGTAGATCCTAATTTAG/AATAAGG/AAATCTG/ACTGTTATGATG/TTTGTTAAAAAGAC/T+T+CTGCTTAC/TGTTTTG/ACTGC/TCTGTAGAGTTAGGAAAT/CA/GATT/CCTTGGTTTGAG/AAATTCAG/AGATTGCAAA/GCTTTG/AAAAAA/GG/AT/CTAAATGAACTTATTAGACCA/TAAG-G-AGATTTGTT/AA/GCAGCTC/TTGATT/CT/CTA/GGG/AAATTACTGCTTTAATTGT/CA/TATTTTAACTTCT/CTTT-T-G/ACAG/ATATCT/CACCACAGCT/CTTAGTT/ACAGCAACT/AACATACC/TT/GCTCATTTTGTTA 4640 16520 5420 5710 chr11 23901918 23902881 98070488 + ERVB4_1B-I_MM LTR ERVK 2416 3375 913 590319 CTG/TAG/ATG/AAG/ATGCCTT/CATAGTATT/CC/TTAC/AAACC/TAGG/ACATAC/AA/TT/CATGC/TCTAGGTA/GA+G+AG/TA/GG/AAAAGGAT/CCCACTT/CATTGG/ACACAT-T-GGCATGAT/GCCTG/AT/AT/ACAGG/AT/AA/GC/GTTAA/TA/TATGGGGAAG/AAGGGGG+C+A/GA/GTGTTTT/CTGTTTTT/ATCCACAGAATGCTGCAG/AAAGCATGCTAGCTTCCAGAATGATTCC/GTGTGACAGG/ACTGACCTGTGAGTTCC/ATGAGTGCCCTGA/GCAGTGG/ATGACAG/AGAAAGCTGTA/GTTGG/AGTGT/CACAGAG/AAAG/AA/GAG/AGAAG/TCAGG/AGAGAGCAGACACTTG/ACAAG/ACAAA/GATGAAGAG/AACTC/T-TC-CCTATCC/TC/TT/CGCCAC/TA/GGA/GCTG/ACAG/ACAATGAGAGCCGACCTG/AGTG+TCCACTTG+AGGAC+AAC+TAA/TAG/AAA/TGC/ATGACT/CCGTGA/GGGCG/AGAGAGACTGG/CTACAGA/TGA/TATG/T+T+G/AACAC/AGAT-GCT-TTCG/ATCAGAGACACTGTTTTTGGCCATTT/CAGGCCAACTCCCCTATAGCTGTG/RAAG/AGCTTG/TTGTG/ACCTTACCC/TATATGCTATATTGTTG/AGG/ATAATTTTG/AA-TA-GAGTTAAGATCACCAATCTTT/GT/ACAAGTCTTTTCATATTA/CATTGTAATTC/GTTGTCAATTAACTAATT/CG/CTGTA/GGATCCTAATTTAGATAAGGAATC/TTGCTGTTATGATG/TTTGTTAAAA/GAGACCTG/CCTTAC/TGTTTTGCTGCCTGT+T+AG/AAG/ATTAGGAAATA/GATT/CCTTG/AGTTTG/AAG/AAA+A+TT/CCAGG/AAT/ATG/ACAAACTTT/GGAAAAA/GGTT/CAAATGAA/GC-TTATTAGACCAAAGGAGATTTGTTACAGCTCT-G/AATTTTA/TG/AGAA/TTTACTGCTTTAA/GTTGT/CAATTTTAACTTC-TTTTTGC-AG/ATATCTACCACAGCTTTAGT/ATCAG/ACAA/GCTA/GCATACC/TT/GC/ATCATTTTGTTA+ATGATATGCATAAGTAATATTAGCAACTTATTG+TAGATAAA+AAA+C/TTG/AGAGGCAAAGGTTAATG-CTT-TT/CTTAC/GAAA/GA/TG/AGC/TA/GGTT/CTT/CAG/ACAATA-GATTG-AGACAGGATATAG/ACAAATATTAAGGCTAG/CG/AT/AT/AA/GACAGAAAA/TTTCAGA/GTATTAGC/AAGAA