######################################## # Program: stretcher # Rundate: Tue 15 May 2018 17:01:31 # Commandline: stretcher # -auto # -stdout # -asequence emboss_stretcher-I20180515-170128-0371-22292969-p1m.aupfile # -bsequence emboss_stretcher-I20180515-170128-0371-22292969-p1m.bupfile # -datafile EDNAFULL # -gapopen 16 # -gapextend 4 # -aformat3 pair # -snucleotide1 # -snucleotide2 # Align_format: pair # Report_file: stdout ######################################## #======================================= # # Aligned_sequences: 2 # 1: hg38_chrX_131691529_131830643_47210_48660 # 2: mm10_chrX_50555743_50635321_27140_27743 # Matrix: EDNAFULL # Gap_penalty: 16 # Extend_penalty: 4 # # Length: 1450 # Identity: 441/1450 (30.4%) # Similarity: 441/1450 (30.4%) # Gaps: 847/1450 (58.4%) # Score: -2623 # # #======================================= hg38_chrX_131 1 GGCAGGTGCATAGCTTGAGCCTAGGAGTTCAAGTCCAGCCCTGACAATGT 50 | ||||||.|||.||..||. | mm10_chrX_505 1 G--------------------------TTCAAGGCCATCCGGGAT----T 20 hg38_chrX_131 51 AGAGAGACCCCGTCTCTTCAAAAAATACAAAAAATAGCCAGGCATGGTGA 100 |.|| ||.|..| |.||.|...|.| ||||.|| mm10_chrX_505 21 AAAG-------GTGTGGT-----------AGAACTCTTCTG--ATGGAGA 50 hg38_chrX_131 101 CCTACAATGGAAGCCCTAGCTACGTAGGAGGCGGAAATGGGAGGATCACC 150 | |||..||| ||.||.|||.|| mm10_chrX_505 51 C----AATATAAG--------------------GACATTGGAAGA----- 71 hg38_chrX_131 151 TCAGCCCAGGGAGGCTGATGTTGCAGTGAGCCATGATCATGCCTCTACAC 200 |||||| |.|||| ||.||.||.|.|..||||. mm10_chrX_505 72 -------AGGGAG-----TCTTGC------CCTTGCTCCTTCGCCTACT- 102 hg38_chrX_131 201 TCCACCCTGGGCAACAGAGTAAGATGCTGTCTAAAATATATATATATGCA 250 ||||||.|||.| mm10_chrX_505 103 ------------------------TGCTGTGTAAGA-------------- 114 hg38_chrX_131 251 TATCTGTGTGTATATATATATATATATATGTGTGTGTGTGTGTGTGTATA 300 |||.|| mm10_chrX_505 115 ---CTGAGT----------------------------------------- 120 hg38_chrX_131 301 TACATATGTGTGTGTATATACATATATGTGTATATATATATGTGTGTATA 350 mm10_chrX_505 121 -------------------------------------------------- 120 hg38_chrX_131 351 TATACATATACATATTCAGCATCACCTTATATTCTTTGAATATATCTACA 400 |.|.||| |.|..|||.||.| mm10_chrX_505 121 --------------------AACTCCT-AGACCCTTGGACT--------- 140 hg38_chrX_131 401 TCAATACATACTTTTGAGTGCTTGAAATTTTTTATATTTTACTCTAGAAG 450 |.|.|||.||.. |||...|||. mm10_chrX_505 141 --------TCCATTTCAGCC--------------------ACTACTGAAC 162 hg38_chrX_131 451 AACTGTAAGAAATTATAAAGTAGAAAACTTGTGGTAGGTCAAACATAGTA 500 .|.|||..|.||||.. |..|.|.||| |||.||||...||| mm10_chrX_505 163 CATTGTTGGGAATTGG---GCTGCAGACT----GTAAGTCATCAATA--- 202 hg38_chrX_131 501 AGAAGAAATAATCACTTTTTAAAGGTCTGTGCTAGGTACTATGATCTGTT 550 |||..|||| |||||. mm10_chrX_505 203 ---------AATTCCTTT-------------------ACTATA------- 217 hg38_chrX_131 551 CCCTATATATACATAATATGGACTTTTATAAACTAATGTTCAAATTCCCC 600 ||.|.|||| ||| mm10_chrX_505 218 --------------------------TAGAGACTA----------TCC-- 229 hg38_chrX_131 601 TGTAGTATAACTTCTTGTTGTTGTTTATTTTTTTTTTTTTGTATTTTTCA 650 ||||.||||. |.| mm10_chrX_505 230 ------ATAAATTCTG-------------------------------TGA 242 hg38_chrX_131 651 TTTTAGATATGGGGTTTCACTCTGTTGACCAGGCTGATCTCGAACCACTG 700 .|.||||.| ||.|| |||.|. ||.|||| mm10_chrX_505 243 CTCTAGAGA---------ACCCT---GACAAT-----------ACAACTG 269 hg38_chrX_131 701 GTCTCAAGCGATCCTCCCATCTTGGACTCCCAAAGTGCTAGGATTACAGG 750 | mm10_chrX_505 270 G------------------------------------------------- 270 hg38_chrX_131 751 CACGAGGCACCTTGACTGGCCACCATGTACTATAGCTGTTAAAACAAGTT 800 ||.|||| ||.||.|.|.| mm10_chrX_505 271 ---GAAGCAC-------GGACATCCTCT---------------------- 288 hg38_chrX_131 801 TGTTTCACTGATAACTGGAGTACTTTTCAAATATAATTAATAATTCATGG 850 ||.|.||||||||| ||| mm10_chrX_505 289 -------------------------TTGAGATATAATTA-----TCA--- 305 hg38_chrX_131 851 AAATAATGATAGCTTTAAAAGTATTGGCACTTTTAAAAACTGAGTTTGTA 900 |.|| || ||||.||.| |||| ||| | mm10_chrX_505 306 ----ACTG---GC-----AAGTGTTTG----TTTA----------TTG-A 328 hg38_chrX_131 901 AACTTCATATAACATAAAATTAACCATTAAAATGTATTAATTTCAATGGC 950 .|.||.|..|||.|.|||.||||.|.| |.|.| ||.| mm10_chrX_505 329 TATTTTACTTAAGACAAAGTTAAACCT------------ACTCC--TGTC 364 hg38_chrX_131 951 ATTTAGGACACTCACAATGCAGTGCAAGCATTACCACTATGTAGTGGCAA 1000 .|.|.|| || ||..|||||.. ||| |.|..||| mm10_chrX_505 365 CTCTGGG-----CA--------TGGTAGCATGG--ACT-TATTCTGG--- 395 hg38_chrX_131 1001 ATCATTTTCACTACCACAAAAGAAAATCCTGGACCCATTAGTTAGTCATT 1050 .|||||||.|. |||||..|.|.|.|| || mm10_chrX_505 396 --------AACTACCAGAG--GAAAAGACAGAAGCC------TA------ 423 hg38_chrX_131 1051 CCCCATTCCACTCTCTGCCCAGCCCCTGGCAAACACTCATCTGATTTCCC 1100 |||...||.|||.||| |||| mm10_chrX_505 424 --------------CTGGAAAGGCCCAGGC-------CATC--------- 443 hg38_chrX_131 1101 TCACTACTGATCATCACAACAAGTGGCCTTGTTCATCTTGTTGTGGGAAC 1150 ||| |.||||||.|| mm10_chrX_505 444 ------CTG------------------------CCTCTTGTAGT------ 457 hg38_chrX_131 1151 CAGGAGACCAGAGAGACCAATGGGTGGAACAGGAGGATTTTACTAGGTGG 1200 |.|||||| mm10_chrX_505 458 ---------------------------------------TCACTAGG--- 465 hg38_chrX_131 1201 TCACCGACTCAGCAGATTAACATCCAAAGGCTGAGCCCCAAACCAAGAGA 1250 |.||| ||||.||| |.| mm10_chrX_505 466 ----------ACCAG-------------GGCTCAGC-----------ATA 481 hg38_chrX_131 1251 GGGCTTGACTTTTATACATATATCTGAAAAGGGCCCAAAACCTGTAAGGC 1300 |..||||.|||.| |.|||||..| |.|.|.||.||. | mm10_chrX_505 482 GTCCTTGGCTTCT------AAATCTGCTA------CCATATCTTTAT--C 517 hg38_chrX_131 1301 CGGTAAGCAAGCTTACAGCAGAACAAAGGCAGTTTATCAAACAGTGACAG 1350 ..||| ||.||.|||..|.|..||| || ||||||| mm10_chrX_505 518 ATGTA---AAACTGACACAAAATTAAA--CA---TATCAAA--------- 550 hg38_chrX_131 1351 GTTTTACAGTTCAGGCATGTCTTGTGACCTTTGCCATAACTGCACAGCTG 1400 |.||.|.|.|. |||.| |||.| |.||| mm10_chrX_505 551 -------ATTTTATGAAA--------ACCAT-----TAAGT----ATCTG 576 hg38_chrX_131 1401 GAAAACAGGAACTTACAAAATCCTTACAAGCTTGCAGAAACAGTTACAAA 1450 |||||.| |.|||||| ||||||||.||| mm10_chrX_505 577 GAAAAGA-------AAAAAATC----------------AACAGTTATAAA 603 #--------------------------------------- #---------------------------------------