Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_041085
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 838420
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:30829 original size:18 final size:18
Alignment explanation
Indices: 30806--30852 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
30796 CGTGAAAGAT
*
30806 CGGGCTTAGAATCGGGAA
1 CGGGCTTAGAATCAGGAA
30824 CGGGCTTAGAATCAGGAA
1 CGGGCTTAGAATCAGGAA
*
30842 CGGGCATAGAA
1 CGGGCTTAGAA
30853 CGGAAAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.32, C:0.17, G:0.36, T:0.15
Consensus pattern (18 bp):
CGGGCTTAGAATCAGGAA
Left flanking sequence: Indices 30306 -- 30805
CTACTTAATTAAGCCTTTTTCTTTCCGAGGACAGCACAGGGCTCAGCACTCAAACTGTATAGGTT
TCCGCATTTGGAGGGACAACTACGGCTTATCCATAAGCAAGGGCCTGGCCTGAAACTGACTAAAA
AGATACCGCCCCAGCTGAATAAGTATACTAGTAGAGTAGTCTCCTGTAGAGAGATTAGATAGGCG
AAGGGGAACAAAGCTATTTATTCTCTAGAATCTTAAGATAAATCTATCTATTATCATTAGCTCTT
TCAGGGAAATACCTATAGATTACTGGTAGGGATGGAACATAACTCCCAGAAAGGAAAACTTCCAC
TGCCCCAGCTTTTGACCTTGACCTAACCCTTTAACAACCTAGACCTAGCTATTAACCTGTGCCTG
CCCTAGCCGTCTTTGATCTAGCTGGCTTGAGAAAGAAAATCCCAGATAAAAGCGGGACCACCCAC
AGGCATAGTGACCAAATAGACCCTCTCTTGTAGCTCGTGAAAGAT
Right flanking sequence: Indices 30853 -- 31352
CGGAAAATGAGCCTGTTAACTACTTGCCAGGTTCGCCTACCTTATTAGATTCGGCCTACAGAACT
TATTGGATTTACTTACATTCCTGTTTTTTAGATAACTTCTTCACTGACAACTTCTTTGATTCATC
GCCCATCGATCAAAAGAAAGACTAACGGCCTAAAAGCTTCCTTCGCCTGAGACTGAGCTTACCTT
GCCCACTTGAATGTACTATCTATTTGAGTTCTATTTTCAGTTTCGTGGCTGGATTAGAAGTTCGA
CTGAGCTATAGTCTCCGGACTAGTTGAACACTGACTCTTATTCCACTACTAGAAGTCCTTCTTCT
TATCGATTTGAGTGAGATTGAATCTTGAGCCCCCATCCTTGCTTTGATTTCCATTTATCTTCTCC
ACGGATGAACACCGGAATGGATTGATCTGACTCAATCTCTTTCTTCATGTCTCGCCCTGAAGATC
GAATTCCGTATTTACATTGATTTGACCTACCTTCTGCAATAGTGA
Found at i:64433 original size:18 final size:17
Alignment explanation
Indices: 64406--64442 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
64396 TCCCAGCTCC
*
64406 TGCCTTGCTTGCTTTCTT
1 TGCCTGGCTTGC-TTCTT
64424 TGCCTGGCTTGCTTCTT
1 TGCCTGGCTTGCTTCTT
64441 TG
1 TG
64443 TGTTTCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.00, C:0.27, G:0.22, T:0.51
Consensus pattern (17 bp):
TGCCTGGCTTGCTTCTT
Left flanking sequence: Indices 63906 -- 64405
CCCAGGGTTGACTCCCTTCACTAGTCAACGAAGTGCATCTACGGATGTAGGCACATTCTTGCTTG
ATCATTTGCTCTCACTAGACCGCCCTAGAGTACGATACTGGTTCGCCATAGGTTCGAAGGGCTGT
CTCTTGTGTGCGATGGTTGGGTATGAATGGAGCTTGCTCGGTAGAAAGGAGAGTAACCTTTGGGT
AATATAATATAATTAACTCATTCCTTCATAATGAAATATTCTACTCTTTTCTTTCTCCGTGGATT
ACTTGAGGATTGATCTGTTGTTGGATCCGTTGATGGATCGACCCTCCCTAACCACCCTATTTTTG
AGCACAGGCAGGTTTGAAGTGAAGGGATAGAATCCTGTACGTAGAAGGCTGAACCCATAACTCGT
GATTCGTAGCTTACAACCTATCCTTTCTCATCTTTGCTTACCGCTTCGCCCCCTTGCTCAAGTAT
GAGTCCTAACGGTAAGGCAAGAAAGAGATTCTCAATCCCAGCTCC
Right flanking sequence: Indices 64443 -- 64942
TGTTTCATAGTGACTAATCTACCTATTCCTATGCTGGCAGGGGACTCAAGGTTGGCAGGGTTGTC
TCTAGGGTTGGGAATGAGACTATGAAACTCTTTCCTTTCCCGCCGGTAAGCAAGCAAGTCAAAAC
GCTAACACTGATGAGCTTGCTCTAATGAAACTACTAACACTCAGACTAGGGACAGGGGCTCAGAC
CCTGTTGCCTAGAAGAAGGAGATTCTATTTAGTTAGTCGGGTCTTAACAAGGAGCTAATGGATGC
ACTAACATATCGCCCCGTGTCCTAATAGTTATCTTACTACTGGAGTTAGATTGACTCCTTGGGTC
GGGCACCAAGGGAAGGATTAGTTCATATCCTAAACACCTATCGATTGTGTTAGTGAGTAAGTAAT
CACCCCCCGTGTATCCTTATAGAGTTCAGTTTAGTGCTTCTTACTGGTTGGGGTGGAGTCTAGCT
ACTACTACACGAGTCCCACACACCACTCCACAGCTCTAGGCTTTC
Found at i:73349 original size:13 final size:13
Alignment explanation
Indices: 73331--73356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73321 TAAGGAAGGC
73331 CTTGCCTTATTAG
1 CTTGCCTTATTAG
73344 CTTGCCTTATTAG
1 CTTGCCTTATTAG
73357 AGAGATATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
CTTGCCTTATTAG
Left flanking sequence: Indices 72831 -- 73330
CTCAGACTCGCAGAAGACAAGTGAAAAGTATCTCGAGGTTTCTCCGCTTCTTGTTTCAAAATATC
GCAAAAATTCAGCGCTCTAAAAAAAAGGCCGGAAGGCCCCAGGACCCCCACCCCACGGCCCCTAT
GCCAAAGCAGTTGAGTGCAAGGAGGTCAGAGCAGAGGAGCTTCCCGGGTAGCAAGCTAGTTAGGA
GAGAATTCACCTATGGATTATTAAGTAGGTAGGAAAGCACGATAGGAGGCATGTCTCAGGCCTAG
GTGACAGCGGAGAACTTTAGAGGTAGGCTGGAAGGAAAGAGAAAGGCTAGGAGCTAGGCTAAATA
CGGAAGTAAATTCGTCTTTCGTCTGTATTGTGATCCCATGCCAGGACGAAGAAATCAAAGGATTT
ATAGTCATGCTCATGGAAGTATTGACTGGTTTAACGCTCATACCAATACGGCAGAGCATTTTTTC
TTAACTATTGAAAAAGCTCTTGATTTTTTCGGTTTTAAGGAAGGC
Right flanking sequence: Indices 73357 -- 73856
AGAGATATAGCCACCATAGACTAGCTCGTCCGTAGGGCTATGATCAGGCCATGCGGTCTAGAGAT
CTAGTTGACGCTTGGAAGAAACGGATATCCTTTCGAGAGAGAACGTGGCCATCCCGACCTGGAAG
GACTTTTATACTTCCTGCTTTGAGTGGGCCAGAAAGACAGATCAGTTCGTTTGCAACAGATCTTG
GAAGAAAATCAACAGAAAGAAGGTTGAGTGATAGACGAGGGGTTGTTTTCAGATGACGAAGTATT
CGTCAGCGATAGGGCTTCGCGCCTGAGAACAAAAAAAATTAAGGAAAAAAAAAGGCTTACAGAGG
ATTTCCAATAAGAAAAGGAAGAAGACCCCCATAGAACTCAAAGCGGAGGGGCTCTTCCTCAGAAT
GACGATGTGTGAGTTGCTTTTGTGAGAGGATAAAAGAGGTATGAAGAAAGTTGGCCAAGGTCATA
AGGTAAGGCCAAAGGTATTGGTGCATCTTTTTCTAGAAGTGGTCA
Found at i:115940 original size:22 final size:22
Alignment explanation
Indices: 115901--115943 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
115891 CTTCATCCGA
*
115901 ATAAGGAAGAGACAGGTACAAT
1 ATAAGGAAGAAACAGGTACAAT
* *
115923 ATAAGGAATAAACTGGTACAA
1 ATAAGGAAGAAACAGGTACAA
115944 GGAGTCCAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.16
Consensus pattern (22 bp):
ATAAGGAAGAAACAGGTACAAT
Left flanking sequence: Indices 115401 -- 115900
GTGAAACAAAGGAATGCTCCGTCAATTAAGTATTACCGGGGCCCCTTCTCCCTTATTCGCTCCTA
GGAATTAAGGGGAATAGGGCGCCTCGATTCAGTAGTTACAGGCCCGGGGCCTATATCTAGATTAG
AGGAATTAAATCGAGGAAGAAAAGGGAGCTGCGGATAAGGACAAGTCCGATCAGAACTACTACAC
AACCTTCAATGACTCTAACAAAAAACCTTGATGAATTAGATTAGAAAGGAAAGAAAGAGAAAAGG
AAGAAGAAAAGAAATTATCCTAAGGAAATGAAACTAATAACAAATAGGATAATAGAGAGAAAGAA
CAACTTAAAGCTCATAGCATGCTAGCCGCCCTAGCTACTAGAGCGCTTAGCTAACAGCTCTTGGC
TCAGAAAGAATAGCTCCTAGGGCGAAAATTCTTTTATAAATTACCCGCTCAATCAGATAGGACGA
CCTACTCCTTAGTTGAACCGGACTTTGCCACTCACCTTCATCCGA
Right flanking sequence: Indices 115944 -- 116443
GGAGTCCAGCTGAACCACCCAGATCCGCTTCTTTCATCAAGCAACACAGCCTAGTCTAACCCGAG
CCCGAGTTCGTATTGGTAAATTTCGGGTCAGCAGGCAAAGGAAAGGGAACACCCACGTTCTACTT
TAATTAAGATGTGGTACAGTACTCTTCCCATGTTAAACTGCCCTGCCTTTCTAAAGGCCTGGTAC
ATCTTTTTTTTTGAAACCTATTCTCGACCCTCCTTCCTACCCCACCCACCGCTCTTCCTTTGAGG
CAAAAGTCTCTCTTATTCGACCAGAAGAGCCTTCTTCTTCATTTCACCTATGGACTTTTTCCACG
TAGCAACTTCCATACTGCACGAAGTCTTCTTCGGGAATGGCTTACCGCTCCGTGGGAATTGGATT
TAGTCCCGCGCGCTCCTGAAATGGGGGCTCTTTCCTCGGTGCGAAGGATCAAACCCTACGCCCAC
TGCCCTTGTTCCAAGATCTCACTTCATTCACGTATCCGCATCTGC
Found at i:161502 original size:16 final size:16
Alignment explanation
Indices: 161481--161516 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
161471 GATAGAGATC
161481 TATATCTATCGATAGA
1 TATATCTATCGATAGA
161497 TATATCTATCGATAGA
1 TATATCTATCGATAGA
161513 TATA
1 TATA
161517 GATAGAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (16 bp):
TATATCTATCGATAGA
Left flanking sequence: Indices 160981 -- 161480
GAACCGTCGGTTACCTTTTGAATCAAAGTACAAGCCGAGTACTACGACTACAGGGGGGGGGGAGC
TTTGCTTCGTAGACAGCTTCGCTTCCTCGTCGCTTCTTTCTGGCGACTAGCTTCGTGAGTAGGTG
GCTTGGTAAGCAACAAGCTACCCTCAGCATCGGTAAAATCCCTATCAAAAAAAAAAGAGGCCAGA
ATGGTGGGGAAGGGGGCCCTCCCTACTTCAATGGAAAGGGGGGCCGTTTCACAGCCGTTCCTCTA
CAACTACCTTTCGCCCAACATGATCACAAACGAAGACAGAGAATTGCAGGAGGACGAAATGAACC
ATGTCCTGATCGGAACGATTGAAGAAAGAAAGAAAATGGTGGCCCCTTTCGCCCAGGGGACATCG
TCGGAGAACAATGTCGGGGACAGGGTGAGAACCTTCCTTCCGTTGGTTACGCCTTTTAAGTGTCG
GTTCTTCCATATTTAGATATGGAGATAGATCCAGAGATAGAGATC
Right flanking sequence: Indices 161517 -- 162016
GATAGAGATCTGGTTTCAAGATCTATGAACACGAGAGACCCCTAAATATCCATTTGAAAAAAGAG
ATGAATAAATGGGTAGGGCGGAGCCAGCGGAAGGAAGGTCGCCGTTAGCGCCCCTGCAATCTTTC
TAAAGTAAGAAGCGCGAAACGTCGACTTCACGAAAGAAGGGCCTTCCATTAGATATTAGAATATT
AGTAAAGGCGCGTTAGCCTATCTATAGAAAGGGGCTTCTTCAAATATCCCATAAATAAAGCAGGG
GCTTCTCATGTAGTTTTTAGGGGTGCGTAGGCGCGACGGCCCCCTGGGGCTAGCGCGCAATGACT
TTCTCTGATAGGGGCTCGCTTCTTCGACGCTCCGCTTGCTGCTTTTCATTTTGATAGGAGTAGTA
GGTGCTTGCTGCTCGCTTGCTGTCTACTAAACGAGCCTTCACTGCCCGCCCGGCCCCTCTCTTTA
ATCTTAAAAGTGAAGTCAAATCAATGAAGTGAACAGCCCAACCTC
Found at i:277459 original size:18 final size:18
Alignment explanation
Indices: 277419--277461 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
277409 AGCGCCCTGC
277419 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
277438 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
277455 CATAGTC
1 CATAGTC
277462 AACAAGGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 276919 -- 277418
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTGTCTGTTGGAGCGAATTGGATGATCGGGCCGAGCCCCCTCTTCCCCGTGCTCTCCTTTC
CCTAATATGAACCTCACGTCATCAATTTCTGACTCGGCCTGGCCCGGTCGCCCTACGCGACTGGC
GCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTGACGGGGCTCCCACTTTTTGTTATCT
AAAGGCGAAGACTCAGAAGTGGGCGTCGACTCGGCCCAGCGGGCGAACATGCCGGGCTCCGGCTC
CGCGCACCTGCCCTTTCGAAGCACTTTCTAGTGTGCGCTTTAGTTTTCGAATGTGTTGTTCAGCG
TCACGAGTCTACAAGCCTTTCGTGTTTCAGTGCTCGCCTTCATAATCTTCAGTAGGGGCCGTCTA
GTCTTTTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGCCCTGC
Right flanking sequence: Indices 277462 -- 277961
AACAAGGTCACAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:296577 original size:33 final size:33
Alignment explanation
Indices: 296535--296602 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
296525 ACAGAGGTGA
* * *
296535 CTAATACAGACGAGGAGAAAGAGAAACCGATAC
1 CTAATACAGACGACGAGAAAAAGAAACCGAAAC
296568 CTAATACAGACGACGAGAAAAAGAAACCGAAAC
1 CTAATACAGACGACGAGAAAAAGAAACCGAAAC
296601 CT
1 CT
296603 CCTTGAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.09
Consensus pattern (33 bp):
CTAATACAGACGACGAGAAAAAGAAACCGAAAC
Left flanking sequence: Indices 296035 -- 296534
TGCCCAGAGGAGGATGCTAGTGAGTTGTTAAGGAACTTCTTGCATTGCACATAGGGAAGGTGCGG
AGCGGTTCTTTATCTTATCATTGCCCTAAGGTAAGGCTTGGAACTGAACTGCAAGTATATAAGAA
AGGATATTGCTAAGAGTTAGCAGTCGAAGGGAGTTTGAACTGTGAAGGAATTACCGGTGCGCACA
GAGAAGGGGGAGAGAATACAGAAAATACGCCCTTGACTATACGGAGGATAAGAAATTAGGCAGGA
CTGATTTCCCTTCTTATCTTATTGTTGAGACAGGAAAGCAGTCAAGCGAATCGACGCATCTATCA
GCAGTAGGAGTAGGACGTAGCGCATAAGAGGGTCTTAGGAATCGATCTAGATGCCCAGAAGAGGA
TGCTATCGAATGCCCTCTTTGACGGGCTTGTGCAAGAAGCCGATTATTCTACCATCTTTTCCAAT
AGTGCCATTTTATTGATGCTATCGAAGAAGAACCAACAGAGGTGA
Right flanking sequence: Indices 296603 -- 297102
CCTTGAAAGAAGGAAAAATGCCACATCAGTAAGAGAAGTGGGCAAAAAAGCTGCTCTCCTATTTG
GACCACCTTCCACCCTGTCTCCCTCTCCATACATACAGAACCGTAGTTTATGGTCTCTTGTGTTT
ACAGCCCATTCTTCACCTTTCCTATAGCCAGCAAATCAAGGAGATACGGCTTAAAAGCCTACGCG
CGTCAGGTTGTTCGGCTTCGGCCCTTCCTACACGTGACTACACGGAATTCACTTTACTTTACGGT
ACGGAACTAGATATGAATTTCATCCTCTGTTGGCGAGATCAGAGGCAACGGTGGCAGCAGCTGTG
GATTCTGTTGATTCTTCATCTCCTCGCTTGACGCTCTCTTCAATTGCAGATCCTGAACCTTCGGT
CAAGTTGCTTTTCTATCCTGAACTTTCGGCTAAAGTGGCTTCCTCCTCTCTTCTCTTGAACTTTC
GTTCAAGTGGCTTCCTGTAGGGGCCTTTGAACGGGCCTTGGTGGG
Found at i:376928 original size:24 final size:24
Alignment explanation
Indices: 376901--376948 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
376891 AACTTGCAAA
*
376901 CATAACCAGGCAGTGAGGGATCTT
1 CATAACCAGGCAGTGAGGAATCTT
* *
376925 CATACCCAGGCGGTGAGGAATCTT
1 CATAACCAGGCAGTGAGGAATCTT
376949 AAGGGGAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (24 bp):
CATAACCAGGCAGTGAGGAATCTT
Left flanking sequence: Indices 376401 -- 376900
AAATCAGGTCTTGTAATATACTGCAGGGCTCCAACGATGCTTCTGTACAGAGATGGATTATGAAA
TGGAGTAGAAGAGACTGCAGCAGAGGACTGATTTTAAAGTTAATTGGAGAAGAGCAGGGCTTACA
ATTCAGCATAGCAGCTCTCTGGAGGAGATCCAACGCATATTTTTGCTGTGTTAAAAAAAGTCCAC
GATCATTCTTGTCTTGAGTACCTCAATGCCAAGAAAATAGTTCAAGTTCCCGAGGTTCTTTATAG
CAAACTGAGCACTTAATTCAGTGATTAGAGTGGAGATATAAGAGGTATCACTGCCAGTTATAATA
ATATCATCCACATAAACCGCAAGAATTGTAGTTCGCAAACTGTTAGTTTGAATAAATAACGAGGA
ATCACTACGGCTCATAAGAAAGCCTTTACTGATTAAACAGCTATAAAACTTATCATACCAAGCGC
GTGATGCCTGTTTAAGACCATACAATGCTTTCTGCAACTTGCAAA
Right flanking sequence: Indices 376949 -- 377448
AAGGGGAGGGGTTGGTAGTGAAGGGAAGTCCAGGGCTGTGTCTGATCAGCTTACTGGGAGAATTC
CAGGCGAGGGAGTATTGGTAAGGTTATGGAGGAAAGAGGAAATAGGATTTTGGGCATCTCTCGTT
GCTTCGGATTTTTATGATAAATAAGCTTCTCACAGATATTTACTTTTAGATAGATACCAGCATAG
TATCTTAATTAGCAGTTTCTTGAACTTGGTTGCACTCGTAAAGCAGCTTAAGAGAGCAACGAAAG
ACGGAGCGGTGATATTTCCTGACTAGCAAGTGGAGGATCATTCCAGGCTCTAATTCAGTCTCTGA
TGGCGTAGCTGATGTGTCATGCTAGGAAGCTGAGCTAGGGCATTTCTTCTTTCGGTTTAAGTGTT
CTAAGAAGTGAAAACCCTCCTCTCCGCTTCGCTTCTGGCAGCATAGAAGGAAGCTTGGGGGAAAG
GTCTAAGTGCAAGCATTGAGTCAAACTGATTCAGGTATAGCAATG
Found at i:398450 original size:22 final size:22
Alignment explanation
Indices: 398418--398468 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
398408 CTCTGGCTAT
398418 GCTATGCTGGAGGGAATCTCTG
1 GCTATGCTGGAGGGAATCTCTG
* *
398440 GCTATGGTGGAGGGATTCTCTG
1 GCTATGCTGGAGGGAATCTCTG
398462 GCTATGC
1 GCTATGC
398469 AAATGCTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.37, T:0.29
Consensus pattern (22 bp):
GCTATGCTGGAGGGAATCTCTG
Left flanking sequence: Indices 397918 -- 398417
GGAAAGAAGTTTGCAGGTAGCTGTTAGACGTCGCTCCTAGAGCAGAAAGAAGTCAACCATCAAGA
GATCCTAGAAGATCAAGAGAAAGAATTTATCACAGGACTCAAAATCTTCCCCTTCCGATTAACAA
TCTCTTCCTTCCATTATGAAGATTCATTTATGAATTCTGAACGTTCATCTCTCTTTTAGTAGTAG
TCGGAGTACTGGGGAATATCTTATCGTCAGAGAAGTCAAAAAGGAAATGCCAACTTTCCTTTCCC
TCCTAAGCTCCTCATTTCACACAATAAACTATTTTCCGACATTTCTTTTCTTTACTTCACTCGCT
TTCGAGTCGACGAAGAAAAGAAGATTAACAACACCTTATGGAGATAGCTTGCCTTCACTCTCACA
GCTTGTGTGCCGTGGAAGGGGAAGGTCTTGCTTCCTCTCGTGCCTTTAAAAAAAGTACCCATACC
ATTATGATCACCTTTAGAGTAAAACTAATGTCGTTCTCTGGCTAT
Right flanking sequence: Indices 398469 -- 398968
AAATGCTGGAGGGATTATGAAGTCTTTGGGTAATGGCACTAAGCTTAATACACTTAGGAAATCCC
TAGATAGAGAATGACCTTCACAGGAACAAAGCTCTATTCAATCCACATCCACAGATAGAGACCTT
AAAAGGAACAAAGCTCTATTAAATGCCGGTCTCCTGCTGTATGTTTTTATTTTTATTCTCTTACA
TAAAATTAAGGACATAGTGTCCGAAAACCTCTCATAGCAGGTGTTAAGTCTAAATCAGACTGAGA
CTGATGGTCCAGGGTAGCGACACCTGAAATCTTATTGGCAATGGTCGCTTGGTATGAAGGGGATT
CATGAGGGCTAAAGCAGCCTGGGGTGAGACCCGAAAAGGAGATCCATCTGTTTCCTTTGGTATCT
CATGATCCTGTCAAGTAAGTTCTTACTAATTGACCATCTTTCTATTTGGTTTGGGGAGGAAAAGT
GCGGGGGTGAGGGAGGGTTCCCCTCGTGATAGCATAAGGAGGCTA
Found at i:400399 original size:30 final size:26
Alignment explanation
Indices: 400366--400418 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
400356 ACTTTTTTCA
400366 AATAAATAGATAGAAGAGGCTTTCTG
1 AATAAATAGATAGAAGAGGCTTTCTG
400392 AATAAATAGATAGAAGAGGCTTTCTG
1 AATAAATAGATAGAAGAGGCTTTCTG
400418 A
1 A
400419 TAAGCCCACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.23, T:0.26
Consensus pattern (26 bp):
AATAAATAGATAGAAGAGGCTTTCTG
Left flanking sequence: Indices 399866 -- 400365
ATACTATACTCCCTTTCTTCTAGACCAAGACATACCCGATGATAAGCAATGAATTGAGGATCCAC
AATGCCATGATAGAGTTTTCGCGTTCATACAAGAGAGACTCAGTAGGCGGATGAAGAGCCAGGAG
CGGGAGCCCAAACTAGAATAGGTGAATTATTAACCAACTATTCCACCTCCAAGGATGGAAAGAGC
CGATTCGTCTTCGAGCATCGCTGGCAATAAACCTCGTTGAGAGAGCAGGACGAACCTAGGTTGAT
TCTACAGGAATCATAGATTGAAGCTTAGGAATGCCCCTTGAGACTGACTAAGTAAGGAGCAGCGG
CTGCCCACTCTCCCTTTCCTTCTGATGAGGATTCGAGTGTACTAACTAAGGTGATCTCTTTGACT
CTCTTTTCAGTTTATCCATCCCACAGTGAGCAATTCCCGATCACTCGAAAATCTCTCTATCCAAA
GGGGTTGGAGTCGTTCTAGAGTGAGAAGGAGAATGACTTTTTTCA
Right flanking sequence: Indices 400419 -- 400918
TAAGCCCACCCAGCGAAAAGAGTGGCTCTCCGGCGAACAGGAAAGAAAGGGCTGTTCAGGACAAA
GCTCTAATCCCATAGGTGGGTCAGGCGGGAATCCAGCCAGTTCAAATCCAATAGCCAGTACCTCA
CAACTAAAGGAAATACCACTCTTTAAGCTTAGAAAGCGTATTGTGAACTGTCAGTGGAAAAGAAA
GGGCTCTTTAAGCCAAGAAAAAGGGCATTTTTGAATGAGGTTAAGCCAGCCACGAGAAAGAGAAG
TAGGAGATTAGGCCGCCTAATTCAGATCAAGGAGAAATTCCCCCAGAAAAGAAAGGGTAGAGCCT
TAGTTACGTTACCCGCAGCTCATAAGCTGGTAACCAGTTTCAAACAAGAGTCGAAGCAAGGGGAT
TGAAATTAGAACTCGAAATATCATAAGAGAAAAGAGCTTCGGGTTCAGAAGTCGTACGTCTGGTT
CACCGCGAAGTGGGCTTGACGAGATTAAATAAGATTAGGTTTTAT
Found at i:403998 original size:21 final size:21
Alignment explanation
Indices: 403939--403990 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
403929 GCCAATACCC
* * * *
403939 GCAATCAAGTCATACTCAACA
1 GCAATCAAGTTAAAATCACCA
403960 GCAATCAAGTTAAAATCACCA
1 GCAATCAAGTTAAAATCACCA
403981 GCAATCAAGT
1 GCAATCAAGT
403991 AAGCATCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (21 bp):
GCAATCAAGTTAAAATCACCA
Left flanking sequence: Indices 403439 -- 403938
AGGGTCCTCTTGGAAATCCTGCTCCTTCTACGGCTGCTAGTATCCTTGTTCTTCTACTCGCAGGC
AGGGCTGCTCTTGCTATTGTTGCTAGGATCCTCTTATCCTATTGGTTGCTAGTCCCGGGCTTCTA
GGACAAAGTGTAAAGAGAAGAGTTAGAGTTCTTCCTCTTTCTCCCCTATCACTTAAAGGGAGATG
GCCTAATTTCTATTCTATCTATGGATCGAGAATAATCGTCAGTTTGAGGCCTGTCTTTGAACATA
AGGCATGAGAATCCTTCTCAGCGGAGTCTCTGTGTGTTGAGATCGAGGGTAGTTTGATTCTGGGA
ACCGAGCCGGCTTCGGCCAACGAATGAAGTTCTTTAGTAGGTTATCCGGGCATAGTTGAGTTAGG
AGCGAGGGAGTTCCATTTACTAGCTATATCCTCTTATTCTCGGGAAAGGGCAGTTCCAGCTAGGG
CTAGAGGACAGTCACATTCCTATTAGTAGGTTGAGGCCAATACCC
Right flanking sequence: Indices 403991 -- 404490
AAGCATCAACTGCTTTACCGTATAACAGTTCCTTGAGCAGATGTGATTGCAAATCTTCTACTACC
AAAGAATCTCTATCCGTCCCCCATATGCCCTTCGTTCTCCTGTCGTATGGATGTCTGTTTTCCCC
CCCCCCCTTCAATGCTGTCGCATTCTTGCCCCTTTTCGGTATGGTCCTTTCATTCAGGCCTTTCC
TTATGCACCGATGGTTTCATGATTCCTTGAAAAAAAAAATGTTTGCGAGCGTCAAAGCACCTAAC
CATACCTACTACACCATGCACTCCGCCGGTAAGCAGCCCGGACATGAAAGAAAGTGCATTTGGAA
GCATATGTGTGCCACTTTGGCACGAGATTTCAGCTCTACTTTGACTTTCATGGTTCCACTGTTCG
TCGAGATCCCTTGAGTGCTACTAAATGTAGAGAAAGACATTCATAGCTTGAACCTTCTGGTCACT
TCATTCCCTTTACATAAAAAAAGGTTTTGCTTGCTTTTCCACCTA
Found at i:459139 original size:17 final size:17
Alignment explanation
Indices: 459117--459161 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
459107 TGGGGAAGAA
*
459117 AGGAAATCTGTCTTTAT
1 AGGAAATCTGTATTTAT
* *
459134 AGGAAATTTATATTTAT
1 AGGAAATCTGTATTTAT
*
459151 AGGGAATCTGT
1 AGGAAATCTGT
459162 GCTTACTAAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (17 bp):
AGGAAATCTGTATTTAT
Left flanking sequence: Indices 458617 -- 459116
CTCCCTGTCAGCTCCCTTCAACCATACATATATCTTAAATCTAGCTGGGTGCATGCAGACGTTTG
CGGACATCACCTATGGTGAATTTCCCGAAGCACATCTCGTTGGATGGATGTCGTTGCCGCGAAGT
GAGCTGGGCCACCTTCTGAGCGGAAGTGCCTTTGTAGCCTAGATCGTGCTCAGCTGGATAGGTTC
TTACTCTTACTTACGGATCGAAATAACAAAAGAAAGAACTAGAGCCCTGCTGTTCTAAAGCACAA
GTAAGGGCTTTTTTGTTCTACCAGAGAGAGTCTATTCTCACACTGAATCAATCATTCGAAGGGTC
GGGGAAGGAAGCGATGATCGGTCTATCCCATTAAGCGTAATCCCGTTAGCCAATGAAAGGACTAC
CTTTCTTGGACTGTGAGCGACGACACCAGATCAGAGCTAAGCGAGAAACGAGAAGCTGCGGTGAA
TCAATCAGTATTAGCTAAGGCAAGCATTCTAATTCTGGGGAAGAA
Right flanking sequence: Indices 459162 -- 459661
GCTTACTAAGCCTTTGTTTGAAGGACCGGTCTGAAAGTGCAAGACTAGCTGGACCCGGACTGACT
AATCGCTAAGAGCTCGTCCCGAGAGAACTCTCAGTACGGCATTCAGTAAGAAGTTAGCCAAGTTC
TGTTAGCCGTTACGTTAGGGTGACTCGAGAAAGTTTGAAAGGGAATTCCGATAGCCCTTAAGCTT
CAAGCTATCCGGCTTCAAGCCGTGAAGGAGGAATCCGAGTTACATCCTCTTAAAATAAGGAAGAT
CGTTCATCAGCGCTTTCAGTAACTAAGAGTCAATCAGGTGCGTAATCAAGCTCATCTCATTACTT
AGGATCTCACTCTCTCAATCTCCTATCTGGATTCTTTGCTTAGTCAGAGTTGAATCTTATAATAA
GGACAAGAAAGACTGGCATTCAGGTAAGGCATGATTCGGAAGATAGTGAATCTCTCCTTACTTGA
CTCTAGAAAGCTCTTTCTTTGCAAGTGGCAAGCAAGACTATGGTT
Found at i:504369 original size:21 final size:21
Alignment explanation
Indices: 504343--504382 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
504333 TGAGAGCGAT
*
504343 GCAGCGGCAGAGGCGACATTA
1 GCAGCGGCAGAAGCGACATTA
*
504364 GCAGCGGGAGAAGCGACAT
1 GCAGCGGCAGAAGCGACAT
504383 CCCTCTGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.40, T:0.07
Consensus pattern (21 bp):
GCAGCGGCAGAAGCGACATTA
Left flanking sequence: Indices 503843 -- 504342
GCTAATGTTCTGGCTCTATTATATGAAATGCCCCTCCGGTTCTATTAGTGACAGCAGAACCCTAA
TCAGAGTCTGAAGTTAAAGTGGCACATGACTCTTCAACCAAAATCTCATCCGGGCTGGGCTCCTA
ACCTTGCTTTCGAGCCAATTGCCAGCCTTTTCCGCGGTACCTTCGTGAGTCAGAGACAGTGAAAT
CGCTGCGGAGTCGTTCAAAGCGAAAGAAGTTCTGATCACAGCTTCTAAAACAATAGAAAAGCGAA
GAGAAGCTGCTAACACCAGTTAGGCCTTTTCCTATGATAGCAGCAAACTCAACAGATTCAATGGC
AGCCTTTTTTTTTCCTTCAACAGTGGAAACAAGGAAATTAGAAAACCTCTATCACAGCTTATGAA
AGAAAAGCTAGAACTGCTGAGTCGACTTCCCCGACGGTCTAAACCGGGTATTCACTTTACTTTAA
GTATCTCTCCCTCCATTTTACTTTTGCCATTAAGATGAGAGCGAT
Right flanking sequence: Indices 504383 -- 504882
CCCTCTGGAGTGAAGCCCTTAGTCTTTTCGGTCGGCTCAAGCTGTTGACAATTGTGAAGCTTCGG
AAGTTCATTCTCGAGTTGAGGCTTCGTGAGCGGGTGATAAATGCGATTTGGCGAGATGCTATGAT
CTCACTAGTAAGGCGCCGTGCGCCATATGTCAATTTTTTTAAGAGATAAGCATAAACTATGCAGT
GACTCTTGGTCTCCGAACGGGATCTCCTCCTCCACTCAATGAGGACCTGCCCGAATTTCCGTCTC
TGGGTGAGACCATGGTCCGCGTGATTCCTGAAAGTGTGCTGTCTTATGGGGGGCTGGCGCTGCTC
TTGGTGCAGCTTACGATAAGTGAGGAATCAATGAGGCGAGTCAGTCTCTATGTACCCAGGGGAGA
ATAACCCGTGGACTGGCAACTGCGGTTGATCACAGAGATGGCATCGGAAAGGTGCTGCAGGCGGA
AAGTACTTTAGCCCCGGTTCTATCAAAGCAGACTATTCAACCCTG
Found at i:594535 original size:20 final size:20
Alignment explanation
Indices: 594510--594549 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
594500 TGATAGCCTT
594510 TTTGATCTCATTCTTATTGA
1 TTTGATCTCATTCTTATTGA
594530 TTTGATCTCATTCTTATTGA
1 TTTGATCTCATTCTTATTGA
594550 AAGGTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTGATCTCATTCTTATTGA
Left flanking sequence: Indices 594010 -- 594509
GAAGTCCATCCTCTGGAGATACTATAAGCAAGAGAGAGGGATAACTTCCTTTGTTGGTAGTAGAG
CTGGTTCTAGAATTAAACCTTCAAGAAACCTAGGGCAGATTACTCTATCTATCTCTTCTAACAAG
AAAGGGCCTTAGGCTTTAGTCTAGTCAAATACGAATTGAGATAGGATAGTCCTGGGAAAGCATCT
ATCGTAAGTTTGATACCACCTTCCGGTTAAAGGAATGAATGAAGCTATGATCCGATCAACTTCAT
TCTCTCGCTCGCTCTTTTTATTTATCTTATAGAAAGATGATACACTTGAATTTGACTGTTAGTAA
GAAAGAATCAGAAATCATCCATCTCATAAGCTTTTCAAAGGACATTCTAAACAAACGAATGCTAT
ATGCTTGACACAAAGAAATACTTTTTTTAATTACGTAAGTAGGTCGGTGAACGCTTTCTTTTGGC
TTGGAAGAATAAATCGGGGGGGAGATTCGCTCTAATGATAGCCTT
Right flanking sequence: Indices 594550 -- 595049
AAGGTGTTTATGGAATTATTATAGCAGGTTGGTCTAGGTAGTTTCTGTTTCTCCTGATAAAATCG
TTGTTTCCAGTTTCGTTTGTGCATCTTTCCCATGCTGTTAGTTGGTCAACAACCAACCACAATTC
TCGTTTAGTTGTTCACTCCTCGTACAGGAAGGAGTCTCTTTCTGGAAGAATTTCTTTTTTCTCAA
ATGCCTCAACTGGATAAATTCACTTATTTCACACAATTCTTCTGGTCATGCCTTTTCCTCTTTAC
TTTCTATATTCCCTTCCTGCTAAGGTCAAAGCGTACAACCAAAGTCTGCCTATATTTATACAATT
TTACGCTGTTCTTTGTGGTTTTCGTTAGAGTGGTGCATTTTTTTTCTTATCAACTGTTTTCATAT
CGCCAAGGTGGGGTGTGCAGTGCTGCCAGATTTGAATCTGCCGGCCTTGCCTCCTTCCCCCGAGC
CGGCCGCTCCAGTAGTGGAAATACAGCAATTTCCTATAGTTGCTG
Found at i:628596 original size:35 final size:35
Alignment explanation
Indices: 628550--628629 Score: 160
Period size: 35 Copynumber: 2.3 Consensus size: 35
628540 GGCCCTTTTG
628550 CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
1 CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
628585 CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
1 CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
628620 CGACTCAAAC
1 CGACTCAAAC
628630 GGGCGGAGGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.23, C:0.38, G:0.21, T:0.19
Consensus pattern (35 bp):
CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
Left flanking sequence: Indices 628050 -- 628549
ACCTCCGATCAGACAGAAAGATGCGATCGTTAGAGATTCGACGATTCCCGGTTGGACCTATTCAA
GCGATTGAACGAGATACTCGACAACTAGAAAGACGCACTTGAATACTGAATGCTATGAGTCGAGA
GAGAAAGAATGAATATCACCAACCATAAAGACGATAAAAGAAGGCACTCCCGTTCCCCCGAAATC
ATCTTCTGTGCGTGGTTATCCAATCATGATGTGGTAGGCTTAGTAGGGCTCGAACCTACAATCTA
ACCGTTATGAGCGGTACGTTTCAACCAATTAAACTATAAGCCCCTACGGATCTCTACATGCAATT
CGCTCACTTCGGGAAGAGCGGACGGAAGGCGACGGGGAGGCCTTTGCTCTATCTGCTTCTTCCTC
TTCTCAGGAATGAAGAATTAGATAAAAAAAAATGGATTATATTATTATATATATAATATTCTATA
TCTATTATTAGAATTAATAATATAATTAAGCAAGCGGCCCTTTTG
Right flanking sequence: Indices 628630 -- 629129
GGGCGGAGGCTCTCTATTTGCTTGCACTGCCGGCTGTTCGCCTTTAGTTAGAAGTAGAAGTCGCT
CTTTGCCCCACACTTCTAAAAAAGTATGGATTAATTAAGTAAGAAAAAAAAACTTGGTTACGGGA
ACCGAAGGTTAGGCCGACTACTTACTTTCTCCTTACCCTTAACAGGATTGTCTCCTACCGATCGA
GGAAAGGCTTAGAATCCATGCTTTGACCGGTAATGTCCAATCTAAGAACGTCTTGTGCCTTTTCC
TGGGCCCCCTTCATTCTGACTTAGCTAATTCAATTCTTTCTATTTCTAATGGGCTTATACTTTTT
TCTATATCCCCTGAGAAAAGAAAGTCCTGCTATATCTAATGTATTTTTTCCAGGACCGCTTGCTT
CTGATCGCGCTTTAGAGTCTGTGCCGGTTGATGATCCTCAGTCGCAAGGTCAAAGAGGGTCTGAT
TTCTAGCATCTATGAAATCACTAAGTCTGGTAGGCTTCTGCACAT
Found at i:668346 original size:20 final size:20
Alignment explanation
Indices: 668321--668359 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
668311 AGGTAACTCG
668321 AGAGTA-GAAAGAACTAGAAT
1 AGAGTATGAAAGAAC-AGAAT
*
668341 AGAGTATGACAGAACAGAA
1 AGAGTATGAAAGAACAGAA
668360 CCAGTAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.08, G:0.26, T:0.13
Consensus pattern (20 bp):
AGAGTATGAAAGAACAGAAT
Left flanking sequence: Indices 667821 -- 668320
GATCTTCTTTCTCCGTTGTGAAAGGAGTTGGTTCCGTAGTTTTAGAATTCGGCTGATCCCAAGTA
CTCCATCTCCATCATTGCATATTTTTATATAGAAAGTAAAGAAGAAAAGGCATAACCAGAAGAAT
TGTGTAAAATAAGTAAATTTATCCAGTTGAGGCATGATTGATTTGAGAAAAAAGAAATTCTTACT
TCCAGAAAGAAAGAGCTCCCTTCCTGTACGAGTAAACAATAGATAAGGTTTGCTTGTTGGTTGTT
GACCAACAGAAAGCATGGGATGCCCCACAACAAATAGATGGGAGCAGGAAATCTTTATCATTCGG
CGTAGTGCAGCTTATATAGAAGGGGCAAAGCGCTGTTCGTGGCACAGCTTTCTTATATTACGATA
TTTTCATTGATCGTAGCTAATTAGGTGGCAACAACCGAAGAAGCAGAAGAAGTAGCTGCTACCGC
TTCGTGGGCTTCTTCTTTTTCTGAGTCTGCTCGAAAGGTAACTCG
Right flanking sequence: Indices 668360 -- 668859
CCAGTAGCTTTGAGCTTTCACGTGTTTCAGCTCTTGTTCACAATCCAGCTGCTATTGAATCAGCG
TAAGGAGATGCCGATGAGGGTACAATAGAGAAAAGAATGAGCTTTTGTTCAGAGCTTGAATCAGA
ATATCCTTCAGTAACTCCAGGATTCCCCTGGTAGGGCATACAGGACATACCAGGTGAGAAGTTCG
GGCGGAAAGATAGATCGAGTTTACTTTACCCTCTTGATTGACTTTCACTTTAGGACTGAAAGATA
GCAAAGGAAATGGCAGCAGTGCTTTATATAACTGCTTTTAGGTCTTCGTTGATCACTTCTGCTTA
ATTCTCTTTCGAAACCTAGAAAGCGAGAAAGAGAATAGTGAACGACTCCGATGCTATTTCTATTT
AAGAAGATGGAGGAATAAGCGATGCTGCTAAGATCCGCAGTCGATTTAGCTCTTGAGGGAAGGGA
AAGGCGTAATTTGATGGGCTTTTAGGACTGGCCCGGAGAGAAAGT
Found at i:739859 original size:19 final size:19
Alignment explanation
Indices: 739824--739862 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
739814 GAGCAAGCCC
*
739824 AAACAGAAGCAACAAGAAA
1 AAACAGAAGCAAAAAGAAA
739843 AAACA-AAGCAAGAAAGAAA
1 AAACAGAAGCAA-AAAGAAA
739862 A
1 A
739863 CAGCTCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.72, C:0.13, G:0.15, T:0.00
Consensus pattern (19 bp):
AAACAGAAGCAAAAAGAAA
Left flanking sequence: Indices 739324 -- 739823
TTCACTGGTCGGAGGCTAAGAGCTTTCTTTGACTCTGAGTCATATGGGATGGGTCCCTACTCTCA
CTATGGCATAGTGGCCCAACGGTTCCTATGAAAGTCATAGCCGGACCTACTCTCCTCTCGCCGAT
GGTTTGAGAGTTGCGTTGGCGTGACGCTAATCTACTGATATTCGAGTGCTTGAGTTTCACTCATG
TAGAGATAACGAAGGGAAAGGGCATTTGAGGGAGAGCCCAACCCAAGGGAAGGGGCAAAGAAAGG
ACCTGAGCACATTGACATCGAAGAAAAGGCCAATGAAAATAGGGAAAGTCCTATTCAAGCCGCTT
TACCGACGAGGTTAAAGAGCGGTAGCCCCTCCTTCGAGCAAGCAAGCGGCACTAAAAGCAGGATG
AAAGCAAGCAAGGAGTGTAAGCCACTTGCCCGATAGGGTAAGGAGCGGAGACCCTTCCTTCATTC
ATTAAGTTTAGGGATTTGAGTCAGGGATAACAGAGGAGCAAGCCC
Right flanking sequence: Indices 739863 -- 740362
CAGCTCTTTGTCTTACTGTGCCCGAGGAAGGGAAGAAAGAAGATGACAGACAAAGCACAACGGAG
GAATGAACTTCAAGCATGGAGGGGGAAAGTAACGGCACTCAAAGCTGTCTTCCATCAACCAAGCA
TGAAACAGAAGCCATGGACTAAGATGACTGGACAGGAGCGATAAGCAGCTATCAGCCACTCGAAC
CAAGTTAGAGGTTTTTTTCATGAGAGTCTTTCTAACATTCTTCACCTGAACCCGGGAACAGCTTT
GACTTAGATACTCTATTGTCAGATAGTTGAATGGCACCGGGAATGGATTAGGGAGCAAAGGAGAT
TAGGGAAAGTCCTCTGAAAGCCCTTTTTCCAACTGAGAGGGGCAGGAGAAGGATAGAAAGGTAGT
TTCCTCCAGCAAGAGGGATGACTTCTTCCTTTCCGCAAATAACAAGCGCTTTTCTTCGCCACATC
GCGTATAACGGGAATCGAACCCCCCTGCTGCTGGCGGGCGGATGG
Found at i:786909 original size:15 final size:15
Alignment explanation
Indices: 786885--786918 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
786875 CCGTATTCTA
786885 TTAA-TTTATTAATT
1 TTAATTTTATTAATT
786899 TTAATTTTATTAATT
1 TTAATTTTATTAATT
786914 TTAAT
1 TTAAT
786919 AAAATAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATTTTATTAATT
Left flanking sequence: Indices 786385 -- 786884
GGCTTGAAGACCCTACCGCATTCCGGCCCCGGGGCAGCATGCCGGGAATGAATAAGGGGGGACAT
ACTGGATCCACTCCCTTGGTTGGGGGCTGTGCCCCCCCTATCCTTTCAATTTATGGATTCCCTGG
TCTTTTTTTTTATTCTTTATCTCTTCTCGTGACCTTCTTATGCGAGATAAAGTAACCCTTTATTA
TCTTATATCATCAGGGTAATGATCCATCAACCTATTGCTGCTATTTATGAAGCACAAATAGGAGA
ATTTGTCCTGGAAGCGGAAGAACTACTGAAACTGCGCGAAATCCTCACAAGGGTTTATGCACAAA
GAACAGGCAAACCCTTATGTTATGGGTTGTATCCGAAGACATGGAAAGGGATGTTTTTATGTCAG
CAGCAGAAGCCCAAGTTCATGGAATTGTTGATCTTGTAGCAGTTGCATAAAAAATAGCAGGAATT
TAACACAAATCGCGATTTGAGATTTTAGTTTCTTACCGTATTCTA
Right flanking sequence: Indices 786919 -- 787418
AAAATAGAATATGAATATAGAAAGAATTCATAATCATCCGGTTAGGATCGATCTAAACCAGCCCA
TTATGCATACGATTCAACATGCCAACTATTAAACAACTTATTAGAAACACAAGACAGCCAATCAG
AAATGTCACCAAATCCCCCGCTCTCGGGGGATGCCCTCAGCGCCGAGGGACATGTACTAGGGTGT
ATGTGCGACTCGTTCAGATTTCAGATTGTGGGTTGGGACAAAAGAAAAGAAAGAATTTTTCCACT
ATCCGTGATCAGTACCGATGAATAGGATAGAATGGAAGACTCCCCTTCACTATCTAAAACGAAAA
AAATAAGATCTAGAATATCCTTCTATTGTGTATCAAATTTATGGTTTCTATTGGTGCAAATTTAA
TTACCTCAATTTTCAATTGAAAATGCGAAAGAATTCCCCATTGGTAGCAAATGATTATCTGTTAA
GCAGGGCAAATCTTATTTAAATTAAAAAGCCGAAAATGGATGCCT
Found at i:788812 original size:15 final size:15
Alignment explanation
Indices: 788792--788822 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
788782 TGCTTATTTC
788792 TATTAACATATCATA
1 TATTAACATATCATA
*
788807 TATTAACATATGATA
1 TATTAACATATCATA
788822 T
1 T
788823 GCTAATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (15 bp):
TATTAACATATCATA
Left flanking sequence: Indices 788292 -- 788791
ATGGAATTCCTTGGAAAATGAATTCCGGGAAGGTAGAATAGAAATAAGTATGATAAAATATGATC
ATAATATGATCAAGTAGTCAAACTGAACAAAAACATTCAATAAAAAAATATTTATTCTTTTTACT
TTACCCAATTCGTTTTTTTCAAATTGTCTTTCATTATTAAGAAAGGGTAATGAAGATAAAATACG
AGCTTGTTTTATAGCAATAGTAATTAATCGTTGTTGTTTTAAAGTCAATCTATTCACCCGTCTAG
ATAAGATTTTTCCTTGTTCACTAATAAATCGACTAATTAAACTCATGTTTCTATAATCAATTCGA
TCCCCCGATCCAATCGGGGGCAGACGCCTACGAAGAGATCGCTTGGGCTTAAGAAAAAGTCGCTT
GGATTTATCCATGGCTTGTTTATTTTAATTTAATTCCTTTTTTCGAGAATCCTATTTCCGATCAA
AAATGCTAATGATTTCGAATTAAGAAATAGGATTTTGCTTATTTC
Right flanking sequence: Indices 788823 -- 789322
GCTAATATATGATATGTTAATATGTTAATATGTCATTTTTCATCTTCCTTGTAAAAGTCACACGC
AGTTGATCGATTCCATCTATTTCTTTATCTCCCCTTGAATTGTATGTTTGTAACAATAGGGACAG
AATTTTCTCAACTCCAATCGACTAGGCCTATTGTGTCGATTCTTTTGAGTAATATATCTAGAAAT
GCCTATTTATTTCTTATTAACACTGTTTCGAACACAACTGGTACATTCTAAAATAACCCTTATTC
GGACGTCTTTACCATTGGCCATGAACCTCCTTTTGGTTTTTATTCACTCAACTCTTCTATTTTCC
TATCCGAAACGAAGAAGAAAAGAAGGAAAAAATACAAGTTACTAACTCGAAATCAAATTATGAAA
GATTTTGTTGCAGCCTTTTTATATAGTAAAAATAAGTAATACAATGATTAAAAATTCAATTTACA
TTAGAAGTTTAGATTAGAATAGAAGTACAGTCTTTCTATTTTATT
Found at i:788846 original size:13 final size:15
Alignment explanation
Indices: 788814--788845 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
788804 ATATATTAAC
788814 ATATGATATGCTAAT
1 ATATGATATGCTAAT
*
788829 ATATGATATGTTAAT
1 ATATGATATGCTAAT
788844 AT
1 AT
788846 GTTAATATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (15 bp):
ATATGATATGCTAAT
Left flanking sequence: Indices 788314 -- 788813
TTCCGGGAAGGTAGAATAGAAATAAGTATGATAAAATATGATCATAATATGATCAAGTAGTCAAA
CTGAACAAAAACATTCAATAAAAAAATATTTATTCTTTTTACTTTACCCAATTCGTTTTTTTCAA
ATTGTCTTTCATTATTAAGAAAGGGTAATGAAGATAAAATACGAGCTTGTTTTATAGCAATAGTA
ATTAATCGTTGTTGTTTTAAAGTCAATCTATTCACCCGTCTAGATAAGATTTTTCCTTGTTCACT
AATAAATCGACTAATTAAACTCATGTTTCTATAATCAATTCGATCCCCCGATCCAATCGGGGGCA
GACGCCTACGAAGAGATCGCTTGGGCTTAAGAAAAAGTCGCTTGGATTTATCCATGGCTTGTTTA
TTTTAATTTAATTCCTTTTTTCGAGAATCCTATTTCCGATCAAAAATGCTAATGATTTCGAATTA
AGAAATAGGATTTTGCTTATTTCTATTAACATATCATATATTAAC
Right flanking sequence: Indices 788846 -- 789345
GTTAATATGTCATTTTTCATCTTCCTTGTAAAAGTCACACGCAGTTGATCGATTCCATCTATTTC
TTTATCTCCCCTTGAATTGTATGTTTGTAACAATAGGGACAGAATTTTCTCAACTCCAATCGACT
AGGCCTATTGTGTCGATTCTTTTGAGTAATATATCTAGAAATGCCTATTTATTTCTTATTAACAC
TGTTTCGAACACAACTGGTACATTCTAAAATAACCCTTATTCGGACGTCTTTACCATTGGCCATG
AACCTCCTTTTGGTTTTTATTCACTCAACTCTTCTATTTTCCTATCCGAAACGAAGAAGAAAAGA
AGGAAAAAATACAAGTTACTAACTCGAAATCAAATTATGAAAGATTTTGTTGCAGCCTTTTTATA
TAGTAAAAATAAGTAATACAATGATTAAAAATTCAATTTACATTAGAAGTTTAGATTAGAATAGA
AGTACAGTCTTTCTATTTTATTTCAACTTCTTGTATGATACTGTT
Done.