Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 235 of 250
Found at i:72540095 original size:23 final size:23
Alignment explanation
Indices: 72540031--72540111 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 23
72540021 ATAAAGTTAA
*
72540031 AAAATATTTTCAAAAATA-ATAAT
1 AAAATATTTT-AAAAATATATTAT
* *
72540054 TAAAT-TTTTAAAAAAATATTAT
1 AAAATATTTTAAAAATATATTAT
*
72540076 AAAATATTTTAAATATATATTA-
1 AAAATATTTTAAAAATATATTAT
* *
72540098 CAAATTTTTTAAAA
1 AAAATATTTTAAAA
72540112 TTAATAATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 6 0.13
22 23 0.49
23 18 0.38
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAATATTTTAAAAATATATTAT
Found at i:72540125 original size:23 final size:22
Alignment explanation
Indices: 72540043--72540126 Score: 75
Period size: 23 Copynumber: 3.8 Consensus size: 22
72540033 AATATTTTCA
72540043 AAAATAATAAT-TAAA-TTTTT
1 AAAATAATAATATAAATTTTTT
* * *
72540063 AAAAAAATATTATAAAATATTTT
1 AAAATAATAATAT-AAATTTTTT
* *
72540086 -AAATATATATTACAAATTTTTT
1 AAAATA-ATAATATAAATTTTTT
72540108 AAAATTAATAATATAAATT
1 AAAA-TAATAATATAAATT
72540127 AAATAAGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 9 0.18
21 1 0.02
22 15 0.30
23 23 0.46
24 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATAATAATATAAATTTTTT
Found at i:72547649 original size:38 final size:38
Alignment explanation
Indices: 72547598--72547681 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
72547588 ATTTGATGTG
* * * * *
72547598 TATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGATAAATCCCGCAAGCCTAGTGCTGGTATTA
72547636 TATCCGGGATAAATCCCGCAAGCCTAGTGCTGGTATTA
1 TATCCGGGATAAATCCCGCAAGCCTAGTGCTGGTATTA
*
72547674 TATTCGGG
1 TATCCGGG
72547682 CCTTCGTGCC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
TATCCGGGATAAATCCCGCAAGCCTAGTGCTGGTATTA
Found at i:72547841 original size:43 final size:43
Alignment explanation
Indices: 72547674--72547828 Score: 274
Period size: 43 Copynumber: 3.6 Consensus size: 43
72547664 GCTGGTATTA
*
72547674 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
72547717 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
72547760 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
72547803 TATTCGGGACTTCGTGCCTAGAAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
72547829 GTAATGCCGG
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.11, C:0.24, G:0.34, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:72548586 original size:443 final size:443
Alignment explanation
Indices: 72547818--72548727 Score: 1655
Period size: 443 Copynumber: 2.1 Consensus size: 443
72547808 GGGACTTCGT
72547818 GCCTAG-AAGGCGTAATGCCGGTGAAAAGATATGTTACGTGAATTCGGTGTTCCTTGTAAGATAA
1 GCCTAGCAA-GCGTAATGCCGGTGAAAAGATATGTTACGTGAATTCGGTGTTCCTTGTAAGATAA
* *
72547882 GGGTTTAGCCGAATGTTAAATATGAAATGATAGTGTATTGTATCATGCTTATATGGCCTAATGAC
65 GGGTTTAGCCAAATGTTAAAGATGAAATGATAGTGTATTGTATCATGCTTATATGGCCTAATGAC
* *
72547947 AAGTATAACATGTTGGTAAATATGCAATGTGCTTTTATAATCGAACGATAAGTTTGAAATGAATG
130 AAGTATAAAATATTGGTAAATATGCAATGTGCTTTTATAATCGAACGATAAGTTTGAAATGAATG
72548012 TGAGTGAAATGTTATGCATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTT
195 TGAGTGAAATGTTATGCATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTT
72548077 TGAGATGTATAATTACATACGTTCGAATGATGTTAGTACTTAATTGATATGAATATGTTATATGG
260 TGAGATGTATAATTACATACGTTCGAATGATGTTAGTACTTAATTGATATGAATATGTTATATGG
* * *
72548142 AACTTGTTGTTTTGATTATTCGAGCCTTTGAGCTTAGCAGACTATAATGTCAGTGAGATACTATT
325 AACTTGTTGATTTGATTATTCGAGCCTTTGAGCTTAGCAAACTATAATGCCAGTGAGATACTATT
*
72548207 CGGGCTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGATATCGGGCCTCGA
390 CGGGCTTTCGAGCCTAGCAGACTATAATGCCGATGAAATGATATCGGGCCTCGA
*
72548261 GTCTAGCAAGCGTAATGCCGGT-AAAATGATATGTTACGTGAATTCGGTGTTCCTTGTAAGATAA
1 GCCTAGCAAGCGTAATGCCGGTGAAAA-GATATGTTACGTGAATTCGGTGTTCCTTGTAAGATAA
72548325 GGGTTTAGCCAAATGTTAAAGATGAAATGATAGTGTATTGTATCATGCTTATATGGCCTAATGGA
65 GGGTTTAGCCAAATGTTAAAGATGAAATGATAGTGTATTGTATCATGCTTATATGGCCTAAT-GA
72548390 -AAGTATAAAATATTGGTAAATATGCAATGTGCTTTTATAATCGAACGATAAGTTTGAAATGAAT
129 CAAGTATAAAATATTGGTAAATATGCAATGTGCTTTTATAATCGAACGATAAGTTTGAAATGAAT
*
72548454 GTGAGTGAAATGTTATGCCTAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGT
194 GTGAGTGAAATGTTATGCATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGT
72548519 TTGAGATGTATAATTACATACGTTCGAATGATGTTAGTACTTAATTGATATGAATATGTTATATG
259 TTGAGATGTATAATTACATACGTTCGAATGATGTTAGTACTTAATTGATATGAATATGTTATATG
72548584 GAACTTGTTGATTTGATTATTCGAGCCTTTGAGCTTAGCAAACTATAATGCCAGTGAGATACTAT
324 GAACTTGTTGATTTGATTATTCGAGCCTTTGAGCTTAGCAAACTATAATGCCAGTGAGATACTAT
*
72548649 TCGGGCTTTCGAGCCTAGCAGACTATAATGCCGGTGAAATGATATCGGGCCTCGA
389 TCGGGCTTTCGAGCCTAGCAGACTATAATGCCGATGAAATGATATCGGGCCTCGA
* *
72548704 GCCTAGCAGGCGAAATGCCGGTGA
1 GCCTAGCAAGCGTAATGCCGGTGA
72548728 TTTGAGAAAA
Statistics
Matches: 449, Mismatches: 14, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
442 4 0.01
443 440 0.98
444 5 0.01
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (443 bp):
GCCTAGCAAGCGTAATGCCGGTGAAAAGATATGTTACGTGAATTCGGTGTTCCTTGTAAGATAAG
GGTTTAGCCAAATGTTAAAGATGAAATGATAGTGTATTGTATCATGCTTATATGGCCTAATGACA
AGTATAAAATATTGGTAAATATGCAATGTGCTTTTATAATCGAACGATAAGTTTGAAATGAATGT
GAGTGAAATGTTATGCATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTTT
GAGATGTATAATTACATACGTTCGAATGATGTTAGTACTTAATTGATATGAATATGTTATATGGA
ACTTGTTGATTTGATTATTCGAGCCTTTGAGCTTAGCAAACTATAATGCCAGTGAGATACTATTC
GGGCTTTCGAGCCTAGCAGACTATAATGCCGATGAAATGATATCGGGCCTCGA
Found at i:72548674 original size:45 final size:45
Alignment explanation
Indices: 72548601--72548712 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 45
72548591 TTGATTTGAT
* * * *
72548601 TATTCGAGCCTTT-GAGCTTAGCAAACTATAATGCCAGTGAGAT-A
1 TATTCG-GGCTTTCGAGCCTAGCAGACTATAATGCCAGTGAAATGA
*
72548645 CTATTCGGGCTTTCGAGCCTAGCAGACTATAATGCCGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGACTATAATGCCAGTGAAATGA
*
72548691 TA-TCGGGC-CTCGAGCCTAGCAG
1 TATTCGGGCTTTCGAGCCTAGCAG
72548713 GCGAAATGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
43 13 0.22
44 11 0.19
45 34 0.58
46 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGACTATAATGCCAGTGAAATGA
Found at i:72550177 original size:18 final size:18
Alignment explanation
Indices: 72550154--72550192 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
72550144 TAATTGTATT
*
72550154 TAAAACTTAATTTAAAAA
1 TAAAACATAATTTAAAAA
* *
72550172 TAAAACATATTTTAAATA
1 TAAAACATAATTTAAAAA
72550190 TAA
1 TAA
72550193 TTAAATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAACATAATTTAAAAA
Found at i:72558272 original size:29 final size:29
Alignment explanation
Indices: 72558201--72558272 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 29
72558191 CAAATAATTT
* *
72558201 ATAATAAAATTACACTTTACCCCTTAAAT
1 ATAATAAAATTATACTTTACCCCTTAAAA
*
72558230 ATGAA-AAACA-TATA-TTTAATCCCTTAAAA
1 AT-AATAAA-ATTATACTTT-ACCCCTTAAAA
72558259 ATAATAAAATTATA
1 ATAATAAAATTATA
72558273 AATTAATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
28 6 0.17
29 26 0.74
30 3 0.09
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.33
Consensus pattern (29 bp):
ATAATAAAATTATACTTTACCCCTTAAAA
Found at i:72558636 original size:48 final size:47
Alignment explanation
Indices: 72558584--72558675 Score: 121
Period size: 47 Copynumber: 1.9 Consensus size: 47
72558574 TACATACCCT
* *
72558584 AATCCAACCGAATATGAAGAAAAAATCGTTGAATTTAATTAATATTCC
1 AATCCAACCGAAAATG-AGAAAAAATAGTTGAATTTAATTAATATTCC
* ** *
72558632 AATCCAACCTAAAATGAGAGCAAATAGTTGGATTTAATTAATAT
1 AATCCAACCGAAAATGAGAAAAAATAGTTGAATTTAATTAATAT
72558676 ACTACAGTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
47 24 0.63
48 14 0.37
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (47 bp):
AATCCAACCGAAAATGAGAAAAAATAGTTGAATTTAATTAATATTCC
Found at i:72568480 original size:5 final size:5
Alignment explanation
Indices: 72568454--72568508 Score: 82
Period size: 5 Copynumber: 11.8 Consensus size: 5
72568444 AACCAAAGAT
72568454 TAAA- TAAA- TAAA- TAAA- TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC
1 TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC
72568500 TAAAC TAAA
1 TAAAC TAAA
72568509 GAACATTCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 16 0.32
5 34 0.68
ACGTcount: A:0.65, C:0.13, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAC
Found at i:72584811 original size:30 final size:30
Alignment explanation
Indices: 72584775--72584837 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
72584765 CCGGGAAAGA
* *
72584775 ATGAAACATCCAACAATCCGATGAGTTGTT
1 ATGAAACATCCAACAACCCGATAAGTTGTT
72584805 ATGAAACATCCAACAACCCGATAAGTTGTT
1 ATGAAACATCCAACAACCCGATAAGTTGTT
72584835 ATG
1 ATG
72584838 TATGTGGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (30 bp):
ATGAAACATCCAACAACCCGATAAGTTGTT
Found at i:72587644 original size:89 final size:88
Alignment explanation
Indices: 72587508--72587770 Score: 431
Period size: 89 Copynumber: 3.0 Consensus size: 88
72587498 TTGAAAAACA
* *
72587508 ACATTGTCCTAAGATAAGATAAAGCC--AATAAGCTACGAACATTTTCACTTGGAGTTTAAACAG
1 ACATTGTCCTAAGATAAGATAAAGCCATAACAAGCTACGAACATTTTCACTTGGATTTTAAACAG
*
72587571 GCTTTTCAGATAACAACAGGGAT
66 GCTTTTCAGATAACAACAGGGAG
* * *
72587594 ACATTGTCCTCACATAAGATAAAGCCAGTAACAAACTACGAACATTTTCACTTGGATTTTAAACA
1 ACATTGTCCTAAGATAAGATAAAGCCA-TAACAAGCTACGAACATTTTCACTTGGATTTTAAACA
72587659 GGCTTTTCAGATAACAACAGGGAG
65 GGCTTTTCAGATAACAACAGGGAG
*
72587683 ACATTGTCCTAAGAGAAGATAAAGCCATTAACAAGCTACGAACATTTTCACTTGGATTTTAAACA
1 ACATTGTCCTAAGATAAGATAAAGCCA-TAACAAGCTACGAACATTTTCACTTGGATTTTAAACA
72587748 GGCTTTTCAGATAACAACAGGGA
65 GGCTTTTCAGATAACAACAGGGA
72587771 CTGCTTGCAA
Statistics
Matches: 163, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
86 24 0.15
89 139 0.85
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (88 bp):
ACATTGTCCTAAGATAAGATAAAGCCATAACAAGCTACGAACATTTTCACTTGGATTTTAAACAG
GCTTTTCAGATAACAACAGGGAG
Found at i:72589944 original size:59 final size:59
Alignment explanation
Indices: 72589846--72589980 Score: 170
Period size: 59 Copynumber: 2.3 Consensus size: 59
72589836 TTTATCTTGA
* * *
72589846 AATTTAATTTTT-TT-AAGTTGGATTTTAAATTTTAAAATTGTTATTACATTATGGTCTG
1 AATTT-ATTTTTATTCAAGTTGGATCTTAAATTTGAAAATTGTTATTACATTAGGGTCTG
* *
72589904 AATTTATTTTTATTCAAGTTAGGA-CTTAAATTTGACAATTGTTATTACATTAGGGTTTG
1 AATTTATTTTTATTCAAGTT-GGATCTTAAATTTGAAAATTGTTATTACATTAGGGTCTG
*
72589963 AATTT-TTTTTATCCAAGT
1 AATTTATTTTTATTCAAGT
72589981 AGCCTTTGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
57 6 0.09
58 19 0.28
59 40 0.59
60 3 0.04
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (59 bp):
AATTTATTTTTATTCAAGTTGGATCTTAAATTTGAAAATTGTTATTACATTAGGGTCTG
Found at i:72591658 original size:46 final size:46
Alignment explanation
Indices: 72591608--72591783 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
72591598 TGGTTGAGCA
72591608 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72591654 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
72591699 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72591747 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72591784 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:72591764 original size:93 final size:93
Alignment explanation
Indices: 72591605--72591776 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
72591595 GGATGGTTGA
* *
72591605 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72591670 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
72591698 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72591763 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
72591777 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:72598276 original size:6 final size:6
Alignment explanation
Indices: 72598261--72598300 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
72598251 AATCTTGATT
* * *
72598261 TTGTTA TTGTGG TTGTGG TTGTGA TTGTGA TTGTGA TTGT
1 TTGTGA TTGTGA TTGTGA TTGTGA TTGTGA TTGTGA TTGT
72598301 TTTGCAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.10, C:0.00, G:0.35, T:0.55
Consensus pattern (6 bp):
TTGTGA
Found at i:72604483 original size:46 final size:46
Alignment explanation
Indices: 72604433--72604608 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
72604423 TGGTTGAGCA
72604433 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72604479 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
72604524 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72604572 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72604609 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:72604589 original size:93 final size:93
Alignment explanation
Indices: 72604430--72604601 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
72604420 GGATGGTTGA
* *
72604430 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72604495 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
72604523 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72604588 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
72604602 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:72606679 original size:44 final size:44
Alignment explanation
Indices: 72606616--72606704 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
72606606 GCTATCGCTT
72606616 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
72606660 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
72606704 T
1 T
72606705 GATGCTATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (44 bp):
TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
Found at i:72608505 original size:19 final size:21
Alignment explanation
Indices: 72608484--72608531 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
72608474 TTATTATTTA
72608484 TTTTAGTTTTGATTTTAA-AT
1 TTTTAGTTTTGATTTTAATAT
*
72608504 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTTTAATAT
72608524 TTTTAGTT
1 TTTTAGTT
72608532 AAAATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 11 0.44
20 12 0.48
21 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (21 bp):
TTTTAGTTTTGATTTTAATAT
Found at i:72608740 original size:43 final size:43
Alignment explanation
Indices: 72608686--72608828 Score: 214
Period size: 43 Copynumber: 3.3 Consensus size: 43
72608676 TTCTAAAATT
* * *
72608686 TCATTACCTTTAGCGGCGTTTTTGGGTAAAGCGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
** * *
72608729 TCATGACCTTTAGCTACGTTTGTGGGAAAAGCGTCGTTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
72608772 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
*
72608815 TCATGATCTTTAGC
1 TCATGACCTTTAGC
72608829 AACTTTAGTG
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (43 bp):
TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
Found at i:72610289 original size:31 final size:30
Alignment explanation
Indices: 72610253--72610310 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
72610243 AAACTATAAC
72610253 AGAGGAAGATAAAAAAGATTACCAAAAGATT
1 AGAGGAAGAT-AAAAAGATTACCAAAAGATT
* *
72610284 AGAGGAAGATAAGAATATTACCAAAAG
1 AGAGGAAGATAAAAAGATTACCAAAAG
72610311 CAAATGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.16
Consensus pattern (30 bp):
AGAGGAAGATAAAAAGATTACCAAAAGATT
Found at i:72617403 original size:31 final size:30
Alignment explanation
Indices: 72617367--72617424 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
72617357 AAACTATAAC
72617367 AGAGGAAGATAAAAAAGATTACCAAAAGATT
1 AGAGGAAGAT-AAAAAGATTACCAAAAGATT
* *
72617398 AGAGGAAGATAAGAATATTACCAAAAG
1 AGAGGAAGATAAAAAGATTACCAAAAG
72617425 CAAATGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.16
Consensus pattern (30 bp):
AGAGGAAGATAAAAAGATTACCAAAAGATT
Found at i:72620146 original size:15 final size:14
Alignment explanation
Indices: 72620106--72620146 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
72620096 CTCATTCAAA
72620106 TTTTGTAG-TTAGAT
1 TTTTGTAGTTTA-AT
72620120 TTTTGT-GTTTAAT
1 TTTTGTAGTTTAAT
72620133 TTTTGTAAGTTTAA
1 TTTTGT-AGTTTAA
72620147 AATATGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.38
14 9 0.38
15 6 0.25
ACGTcount: A:0.22, C:0.00, G:0.17, T:0.61
Consensus pattern (14 bp):
TTTTGTAGTTTAAT
Found at i:72622526 original size:50 final size:51
Alignment explanation
Indices: 72622449--72622570 Score: 201
Period size: 50 Copynumber: 2.4 Consensus size: 51
72622439 GACCATCGCA
*
72622449 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATATGATCAAGGACAAATG
*
72622500 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATATGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATATGATCAAGGACAAATG
* *
72622550 ACAAGTGAAAAGTGGTAGCTT
1 ACAAGTGATAAGTGATAGCTT
72622571 TTGTTACCTG
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
50 48 0.73
51 18 0.27
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATATGATCAAGGACAAATG
Found at i:72622591 original size:31 final size:31
Alignment explanation
Indices: 72622553--72622670 Score: 166
Period size: 31 Copynumber: 3.8 Consensus size: 31
72622543 ACAAATGACA
* * *
72622553 AGTGAAAAGTGGTAGCTTTTGTTACCTGATC
1 AGTGAAAAGTGGTAGCTCTGGCTACCTGATC
*
72622584 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCTGGCTACCTGATC
*
72622615 AGTGAAAAATGGTAGCTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCTGGCTACCTGATC
*
72622646 AGTGAATAGTGGTAGCT-TCGGCTAC
1 AGTGAAAAGTGGTAGCTCT-GGCTAC
72622671 AAGTGACAAG
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
30 1 0.01
31 77 0.99
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCTGGCTACCTGATC
Found at i:72622681 original size:7 final size:7
Alignment explanation
Indices: 72622669--72622695 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
72622659 AGCTTCGGCT
72622669 ACAAGTG
1 ACAAGTG
72622676 ACAAGTG
1 ACAAGTG
72622683 ACAAGTG
1 ACAAGTG
72622690 ACAAGT
1 ACAAGT
72622696 AATTTCTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (7 bp):
ACAAGTG
Found at i:72622770 original size:47 final size:47
Alignment explanation
Indices: 72622701--72622865 Score: 173
Period size: 47 Copynumber: 3.6 Consensus size: 47
72622691 CAAGTAATTT
* *
72622701 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
72622748 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
72622795 C-GTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * *
72622837 -TGTGTAAGACCATAGCTGGGCTATGGCAT
1 CTGTATAAGACCATATCTGGGATATGGCAT
72622866 TATTATGTGA
Statistics
Matches: 106, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
41 7 0.07
42 30 0.28
46 26 0.25
47 43 0.41
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:72622966 original size:42 final size:42
Alignment explanation
Indices: 72622888--72622971 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
72622878 ATGTCTTATT
* *
72622888 ATTATGTGAATATGTGTAAGACCATAGCTAGGCTATGGCATC
1 ATTATGTGAAGATGTGTAAGACCATAGCTAGACTATGGCATC
*
72622930 ATTATGTGAAGATGTGTAAGACCATAG-TTGAACTATGGCATC
1 ATTATGTGAAGATGTGTAAGACCATAGCTAG-ACTATGGCATC
72622972 GAGAAAACGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.05
42 36 0.95
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (42 bp):
ATTATGTGAAGATGTGTAAGACCATAGCTAGACTATGGCATC
Found at i:72634985 original size:23 final size:23
Alignment explanation
Indices: 72634903--72634989 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
72634893 CCTGATCAGT
*
72634903 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
72634925 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
72634945 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
72634968 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
72634990 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:72635389 original size:15 final size:15
Alignment explanation
Indices: 72635360--72635417 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
72635350 TCATATATAT
72635360 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
*
72635376 TATAAATTCCATCAA
1 TATAAATTCAATCAA
* *
72635391 AATAATTTCAATCAA
1 TATAAATTCAATCAA
72635406 TATAAATTCAAT
1 TATAAATTCAAT
72635418 AAATTCATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:72638217 original size:22 final size:23
Alignment explanation
Indices: 72638192--72638253 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
72638182 CAACCAAATC
72638192 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
72638214 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
**
72638237 ACGTCATCACATATTTA
1 AATTCAT-ACATATTTA
72638254 AAACCAGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.18
23 18 0.55
24 9 0.27
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:72640235 original size:35 final size:35
Alignment explanation
Indices: 72640196--72640278 Score: 166
Period size: 35 Copynumber: 2.4 Consensus size: 35
72640186 ATTTCCATTG
72640196 ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
1 ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
72640231 ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
1 ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
72640266 ATTTCATTCTATT
1 ATTTCATTCTATT
72640279 CCTAATAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.48
Consensus pattern (35 bp):
ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
Found at i:72642422 original size:18 final size:18
Alignment explanation
Indices: 72642399--72642450 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
72642389 CGAGCTTGAA
72642399 AGCAAGATGTGTGAGCTC
1 AGCAAGATGTGTGAGCTC
*
72642417 AGCAAGATGTGCGAGCTC
1 AGCAAGATGTGTGAGCTC
* *
72642435 AGCAAAAGGTGTGAGC
1 AGCAAGATGTGTGAGC
72642451 CCTATAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.35, T:0.17
Consensus pattern (18 bp):
AGCAAGATGTGTGAGCTC
Found at i:72642594 original size:44 final size:44
Alignment explanation
Indices: 72642544--72642671 Score: 136
Period size: 44 Copynumber: 2.9 Consensus size: 44
72642534 AATACGAGCA
*
72642544 AGTCTAAATACAAGCCCGAATGGGTGCAAGCCGAAGTGGA-AAAC
1 AGTCTAAATGCAAGCCCGAATGGGTGCAAGCCGAAGT-GACAAAC
* * * **
72642588 GGTCTAAATGCAAGCCC-AAGTGGATGCAAGTCGAAGTGACGGAC
1 AGTCTAAATGCAAGCCCGAA-TGGGTGCAAGCCGAAGTGACAAAC
* * *
72642632 AGTCTAAATGCAAG-CCGAGTGGGTGCAAGCCAAAATGACA
1 AGTCTAAATGCAAGCCCGAATGGGTGCAAGCCGAAGTGACA
72642672 GACTGAAGGC
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
43 22 0.32
44 46 0.68
ACGTcount: A:0.36, C:0.20, G:0.29, T:0.15
Consensus pattern (44 bp):
AGTCTAAATGCAAGCCCGAATGGGTGCAAGCCGAAGTGACAAAC
Found at i:72645292 original size:7 final size:7
Alignment explanation
Indices: 72645277--72645306 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
72645267 TACACTTATC
*
72645277 TGATCAG
1 TGATAAG
72645284 TGATAAG
1 TGATAAG
72645291 TGATAAG
1 TGATAAG
72645298 TGATAAG
1 TGATAAG
72645305 TG
1 TG
72645307 GTAGCTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.37, C:0.03, G:0.30, T:0.30
Consensus pattern (7 bp):
TGATAAG
Found at i:72645319 original size:51 final size:51
Alignment explanation
Indices: 72645233--72645347 Score: 185
Period size: 51 Copynumber: 2.3 Consensus size: 51
72645223 TGAGTACTTC
* *
72645233 TGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
* *
72645284 TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
*
72645335 TGACAAGTGATAA
1 TGATAAGTGATAA
72645348 ATGTGATCAG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
TGATAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
Found at i:72650209 original size:23 final size:21
Alignment explanation
Indices: 72650166--72650209 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
72650156 TCCATCAAAC
* *
72650166 AATAAAAAATATTTTTTACAT
1 AATAAAAAATAATTTTCACAT
72650187 AATAATAAATATAATTTTCACAT
1 AATAA-AAA-ATAATTTTCACAT
72650210 CTTTTCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAAAAAATAATTTTCACAT
Found at i:72663649 original size:67 final size:67
Alignment explanation
Indices: 72663541--72663674 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
72663531 CAAATTTAGC
72663541 AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACCGACATA
1 AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACCGACATA
72663606 CT
66 CT
*
72663608 AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACTGACATA
1 AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACCGACATA
72663673 CT
66 CT
72663675 TTGCTCTAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.15, C:0.16, G:0.22, T:0.47
Consensus pattern (67 bp):
AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACCGACATA
CT
Found at i:72677471 original size:16 final size:16
Alignment explanation
Indices: 72677450--72677489 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
72677440 AAAATTATTC
72677450 ATTTAT-ACATTTTATA
1 ATTTATAACATTTTA-A
72677466 ATTTATAACATTTTAA
1 ATTTATAACATTTTAA
*
72677482 ATTAATAA
1 ATTTATAA
72677490 TAGTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTATAACATTTTAA
Found at i:72678814 original size:17 final size:17
Alignment explanation
Indices: 72678792--72678825 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
72678782 CAGTTCTGGG
72678792 GGCTTTATTCTAGTTTT
1 GGCTTTATTCTAGTTTT
72678809 GGCTTTATTCTAGTTTT
1 GGCTTTATTCTAGTTTT
72678826 AAAGGTTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.59
Consensus pattern (17 bp):
GGCTTTATTCTAGTTTT
Found at i:72681411 original size:39 final size:39
Alignment explanation
Indices: 72681368--72681451 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 39
72681358 TTAAGATTCG
* * * *
72681368 ATTAAT-ATATCAATTTAAA-AAATTTAATTAAATTAATTA
1 ATTAATCA-ATCAATATAAATAAATTGAATCAAATTAA-AA
*
72681407 ATTAATCAATTAATATAAATAAATTGAATCAAATTAAAA
1 ATTAATCAATCAATATAAATAAATTGAATCAAATTAAAA
72681446 ATTAAT
1 ATTAAT
72681452 TGAATGGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
39 22 0.58
40 16 0.42
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (39 bp):
ATTAATCAATCAATATAAATAAATTGAATCAAATTAAAA
Found at i:72681419 original size:21 final size:22
Alignment explanation
Indices: 72681393--72681456 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 22
72681383 TAAAAAATTT
72681393 AATTAAATTAATTAATT-AATC-
1 AATTAAA-TAATTAATTGAATCA
*
72681414 AATTAATATAAATAAATTGAATCA
1 AATTAA-AT-AATTAATTGAATCA
72681438 AATTAAA-AATTAATTGAAT
1 AATTAAATAATTAATTGAAT
72681457 GGTATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 18 0.49
22 8 0.22
23 5 0.14
24 6 0.16
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (22 bp):
AATTAAATAATTAATTGAATCA
Found at i:72683426 original size:14 final size:15
Alignment explanation
Indices: 72683401--72683429 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
72683391 ATCAAGAATT
72683401 AATATATAAATAAAA
1 AATATATAAATAAAA
72683416 AATAT-TAAATAAAA
1 AATATATAAATAAAA
72683430 TATAATGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATATAAATAAAA
Found at i:72686654 original size:15 final size:15
Alignment explanation
Indices: 72686615--72686661 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
72686605 AATAATAAAA
*
72686615 ATATAATAATAATTT
1 ATATAATTATAATTT
*
72686630 ATATATTTATAATTT
1 ATATAATTATAATTT
*
72686645 -TATAAATTATAAATT
1 ATAT-AATTATAATTT
72686660 AT
1 AT
72686662 CTAAATAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 3 0.12
15 22 0.85
16 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATAATTATAATTT
Found at i:72687361 original size:11 final size:11
Alignment explanation
Indices: 72687347--72687416 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 11
72687337 CAATATTCAA
*
72687347 AAAATAACAAT
1 AAAATAACAAC
*
72687358 AAAATAAGAAC
1 AAAATAACAAC
* *
72687369 AATATAATAAC
1 AAAATAACAAC
** *
72687380 AAAATAGTAAT
1 AAAATAACAAC
*
72687391 AAAATAGCAAC
1 AAAATAACAAC
* *
72687402 AAAATTACAGC
1 AAAATAACAAC
72687413 AAAA
1 AAAA
72687417 CAGTTGATTC
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 47 1.00
ACGTcount: A:0.67, C:0.10, G:0.06, T:0.17
Consensus pattern (11 bp):
AAAATAACAAC
Found at i:72693045 original size:36 final size:36
Alignment explanation
Indices: 72692997--72693069 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
72692987 TATATCAAGT
*
72692997 CTTACACGTATTGAATAGATTCATATGCCAACCAGA
1 CTTACACGTATTGAATACATTCATATGCCAACCAGA
* *
72693033 CTTACACTTATTGAATACATTCTTATGCCAACCAGA
1 CTTACACGTATTGAATACATTCATATGCCAACCAGA
72693069 C
1 C
72693070 ATCAATGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (36 bp):
CTTACACGTATTGAATACATTCATATGCCAACCAGA
Found at i:72695543 original size:18 final size:18
Alignment explanation
Indices: 72695520--72695569 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
72695510 TTATTGAAAA
*
72695520 TTATTTTATATTTTAAAT
1 TTATTTAATATTTTAAAT
* *
72695538 TTATTTAATTTTTTATAT
1 TTATTTAATATTTTAAAT
*
72695556 TTA-TAAATATTTTA
1 TTATTTAATATTTTA
72695570 TATGCTAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATTTAATATTTTAAAT
Found at i:72695569 original size:25 final size:26
Alignment explanation
Indices: 72695518--72695569 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
72695508 TTTTATTGAA
*
72695518 AATTATTTTATATTTTAAATTTATTT
1 AATTATTTTATATTTTAAATATATTT
72695544 AATT-TTTTATATTTATAAATAT-TTT
1 AATTATTTTATATTT-TAAATATATTT
72695569 A
1 A
72695570 TATGCTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
AATTATTTTATATTTTAAATATATTT
Found at i:72695570 original size:17 final size:18
Alignment explanation
Indices: 72695527--72695572 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
72695517 AAATTATTTT
* *
72695527 ATATTTTAAATTTATTTA
1 ATATTTTATATTTATTAA
*
72695545 ATTTTTTATATTTA-TAA
1 ATATTTTATATTTATTAA
72695562 ATATTTTATAT
1 ATATTTTATAT
72695573 GCTAATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTTTATATTTATTAA
Found at i:72698893 original size:10 final size:10
Alignment explanation
Indices: 72698878--72698911 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
72698868 CCACTTCAAC
72698878 GAATTATTTA
1 GAATTATTTA
72698888 GAATTA-TTA
1 GAATTATTTA
72698897 -AATTATTTA
1 GAATTATTTA
72698906 GAATTA
1 GAATTA
72698912 GAATCAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.23
9 6 0.27
10 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (10 bp):
GAATTATTTA
Found at i:72703602 original size:46 final size:46
Alignment explanation
Indices: 72703550--72703676 Score: 236
Period size: 46 Copynumber: 2.8 Consensus size: 46
72703540 AGTGTGCTCT
72703550 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
72703596 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
72703642 CTGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGAT
72703677 TTAACTCTCC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:72709089 original size:23 final size:24
Alignment explanation
Indices: 72709044--72709095 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
72709034 ATTTTTAAAA
*
72709044 AAATTAATAAATATTAAAAAATTT
1 AAATTAATAAATAATAAAAAATTT
72709068 AAATT-ATAAA-AATAAAACAATTT
1 AAATTAATAAATAATAAAA-AATTT
72709091 AAATT
1 AAATT
72709096 TTTTTATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 6 0.23
23 15 0.58
24 5 0.19
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATTAATAAATAATAAAAAATTT
Found at i:72709141 original size:15 final size:14
Alignment explanation
Indices: 72709106--72709171 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
72709096 TTTTTATGAA
72709106 ATAAAAATTA-AATT
1 ATAAAAATTATAA-T
72709120 ATGAAAAATATATAAT
1 AT-AAAAAT-TATAAT
*
72709136 AT-AAAATTATAAA
1 ATAAAAATTATAAT
*
72709149 ATAAAAATACATAAT
1 ATAAAAAT-TATAAT
72709164 ATTAAAAA
1 A-TAAAAA
72709172 AATAAAGATG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 7 0.16
14 12 0.28
15 11 0.26
16 11 0.26
17 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (14 bp):
ATAAAAATTATAAT
Found at i:72719566 original size:11 final size:11
Alignment explanation
Indices: 72719535--72719559 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
72719525 TGTTAAAAAG
72719535 TAACAAAATAA
1 TAACAAAATAA
72719546 TAACAAAATAA
1 TAACAAAATAA
72719557 TAA
1 TAA
72719560 TATAATAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (11 bp):
TAACAAAATAA
Found at i:72726482 original size:20 final size:20
Alignment explanation
Indices: 72726448--72726485 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
72726438 TGATCACTTC
72726448 GTAACAAAATAATAACATAA
1 GTAACAAAATAATAACATAA
72726468 GTAACTAAAAT-ATAACAT
1 GTAAC-AAAATAATAACAT
72726486 TTTAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (20 bp):
GTAACAAAATAATAACATAA
Found at i:72726507 original size:15 final size:15
Alignment explanation
Indices: 72726470--72726511 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
72726460 TAACATAAGT
72726470 AACTAAAATAT-AAC
1 AACTAAAATATAAAC
** *
72726484 ATTTTAAATATAAAC
1 AACTAAAATATAAAC
72726499 AACTAAAATATAA
1 AACTAAAATATAA
72726512 CTTGAGACAA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.29
Consensus pattern (15 bp):
AACTAAAATATAAAC
Found at i:72726636 original size:3 final size:3
Alignment explanation
Indices: 72726628--72726656 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
72726618 TTCAAAATTG
72726628 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
72726657 GACGAACTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:72727556 original size:17 final size:18
Alignment explanation
Indices: 72727517--72727556 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
72727507 AAACGTATTT
72727517 TAAAATTTCAGATAAATA
1 TAAAATTTCAGATAAATA
72727535 T-AAATTT-A-ATCAAATA
1 TAAAATTTCAGAT-AAATA
72727551 TAAAAT
1 TAAAAT
72727557 ATATTAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.10
16 7 0.35
17 10 0.50
18 1 0.05
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAAATTTCAGATAAATA
Found at i:72737074 original size:37 final size:37
Alignment explanation
Indices: 72737033--72737104 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
72737023 TAAGAAATGG
72737033 CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
1 CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
*
72737070 CAAGCTTAATAGGCTGTATTCAAAACTGATTAAAC
1 CAAGCTTAATAGGCTGTATTCAAAACCGATTAAAC
72737105 CCAGCATATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (37 bp):
CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
Found at i:72737740 original size:146 final size:146
Alignment explanation
Indices: 72737476--72737769 Score: 588
Period size: 146 Copynumber: 2.0 Consensus size: 146
72737466 AGTAGTAAAT
72737476 CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
1 CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
72737541 AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
66 AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
72737606 AAAAACGGATTCATTG
131 AAAAACGGATTCATTG
72737622 CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
1 CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
72737687 AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
66 AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
72737752 AAAAACGGATTCATTG
131 AAAAACGGATTCATTG
72737768 CA
1 CA
72737770 TCCAGCAACT
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 148 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (146 bp):
CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
AAAAACGGATTCATTG
Found at i:72743316 original size:39 final size:40
Alignment explanation
Indices: 72743209--72743319 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
72743199 GACCTCGAGT
* **
72743209 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
72743250 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
72743288 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
72743320 AACTATCCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
40 1 0.02
41 15 0.27
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:72743330 original size:39 final size:39
Alignment explanation
Indices: 72743209--72743339 Score: 99
Period size: 39 Copynumber: 3.3 Consensus size: 39
72743199 GACCTCGAGT
* * *
72743209 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTC-GA-ACTATC
** ** * *
72743250 CGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
72743288 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
*
72743327 CGATGAGGCACTG
1 CGATGAGACACTG
72743340 AGTGCCATAT
Statistics
Matches: 69, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
37 1 0.01
38 20 0.29
39 27 0.39
40 4 0.06
41 15 0.22
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
Found at i:72747849 original size:13 final size:13
Alignment explanation
Indices: 72747812--72747875 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
72747802 AGTTTTTCAT
72747812 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
72747825 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
72747838 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
72747851 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
72747864 TACTTTGGAAAA
1 TGCTTTTGAAAA
72747876 ATTTAAGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 3 0.07
13 37 0.86
14 3 0.07
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:72759114 original size:51 final size:51
Alignment explanation
Indices: 72759043--72759203 Score: 270
Period size: 51 Copynumber: 3.2 Consensus size: 51
72759033 CTGATCACAT
*
72759043 TTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
72759094 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTATCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
72759144 TTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
72759195 TTGTCACTT
1 TTATCACTT
72759204 ATCAAATGGT
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 47 0.46
51 55 0.54
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:72764356 original size:51 final size:51
Alignment explanation
Indices: 72764282--72764492 Score: 334
Period size: 51 Copynumber: 4.2 Consensus size: 51
72764272 CTGATCACAT
* *
72764282 TTATCACTTGTCACTGATTAGATAAGTGTAGCTAAATCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
72764333 TTATCACTTGTCACTGATCAGATAATTGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
72764383 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * *
72764434 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
72764485 TTGTCACT
1 TTATCACT
72764493 GATCAGAAGT
Statistics
Matches: 149, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 47 0.32
51 102 0.68
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:72764384 original size:101 final size:102
Alignment explanation
Indices: 72764279--72764492 Score: 349
Period size: 101 Copynumber: 2.1 Consensus size: 102
72764269 ACACTGATCA
* * *
72764279 CATTTATCACTTGTCACTGATTAGATAAGTGTAGCTAAATCTACCACTTATCACTTATCACTTGT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTAT
*
72764344 CACTGATCAGATAATTGTAGCT-AAGCTACCACTTAT
66 CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
*
72764380 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTAT
*
72764445 CACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
66 CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
* *
72764482 CACTTGTCACT
1 CATTTATCACT
72764493 GATCAGAAGT
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 82 0.79
102 22 0.21
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (102 bp):
CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTAT
CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
Found at i:72771315 original size:42 final size:42
Alignment explanation
Indices: 72771268--72771351 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
72771258 AGTCGTCCTT
72771268 AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
1 AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
72771310 AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
1 AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
72771352 TTCTTTTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (42 bp):
AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
Found at i:72783602 original size:32 final size:31
Alignment explanation
Indices: 72783566--72783647 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 31
72783556 AATTTTTTAA
* *
72783566 ATTTTTAAAAATTCAAAAAAATTATAAATATT
1 ATTTTTAAAAATT-AAAAAAATCATAAAAATT
*
72783598 ATTTTTAAAGATT--AAAAATCATAAAAATT
1 ATTTTTAAAAATTAAAAAAATCATAAAAATT
* *
72783627 ATTTTTTAAAATTTAAAAAAT
1 ATTTTTAAAAATTAAAAAAAT
72783648 TAATTAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 25 0.58
31 6 0.14
32 12 0.28
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (31 bp):
ATTTTTAAAAATTAAAAAAATCATAAAAATT
Found at i:72785196 original size:20 final size:20
Alignment explanation
Indices: 72785173--72785289 Score: 65
Period size: 20 Copynumber: 5.4 Consensus size: 20
72785163 TGATATAAAC
72785173 TTATAAAAATTATAAAAAAA
1 TTATAAAAATTATAAAAAAA
**
72785193 TTATAAGTATTATAAAAATCTAA
1 TTATAAAAATTATAAAAA---AA
* * *
72785216 TAAAATATAAAATTTTTATAAAAA
1 T----TATAAAAATTATAAAAAAA
*
72785240 TGTACT-AAAATTATATAAAAA
1 T-TA-TAAAAATTATAAAAAAA
* *
72785261 TCATAAAAATTATAAAAAAGG
1 TTATAAAAATTATAAAAAA-A
72785282 TTATAAAA
1 TTATAAAA
72785290 TTGTTAAATT
Statistics
Matches: 73, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
19 1 0.01
20 30 0.41
21 23 0.32
22 1 0.01
23 3 0.04
24 3 0.04
27 12 0.16
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TTATAAAAATTATAAAAAAA
Found at i:72785206 original size:29 final size:29
Alignment explanation
Indices: 72785173--72785288 Score: 85
Period size: 29 Copynumber: 3.9 Consensus size: 29
72785163 TGATATAAAC
*
72785173 TTATAAAAATTATAAAAAAATTATAAGTA
1 TTATAAAAATTATAAAAAAATTATAAATA
* * *
72785202 TTATAAAAA-TCTAATAAAA-TATAAAATTT
1 TTATAAAAATTATAAAAAAATTAT-AAA-TA
** *
72785231 TTATAAAAATGTACTAAAATTA-TATAAAAA
1 TTATAAAAAT-TA-TAAAAAAATTATAAATA
* *
72785261 TCATAAAAATTATAAAAAAGGTTATAAA
1 TTATAAAAATTATAAAAAA-ATTATAAA
72785289 ATTGTTAAAT
Statistics
Matches: 66, Mismatches: 14, Indels: 13
0.71 0.15 0.14
Matches are distributed among these distances:
27 3 0.05
28 15 0.23
29 21 0.32
30 15 0.23
31 4 0.06
32 8 0.12
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (29 bp):
TTATAAAAATTATAAAAAAATTATAAATA
Found at i:72785291 original size:20 final size:19
Alignment explanation
Indices: 72785217--72785279 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 19
72785207 AAAATCTAAT
*
72785217 AAAAT-ATAAAATTTTTATA
1 AAAATCATAAAA-TTATATA
*
72785236 AAAATGTACTAAAATTATATA
1 AAAAT-CA-TAAAATTATATA
72785257 AAAATCATAAAAATTATA-A
1 AAAATCAT-AAAATTATATA
72785276 AAAA
1 AAAA
72785280 GGTTATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 11 0.29
20 10 0.26
21 12 0.32
22 5 0.13
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAATCATAAAATTATATA
Found at i:72785886 original size:18 final size:18
Alignment explanation
Indices: 72785858--72785901 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
72785848 GTTTGATTAA
72785858 TTTTATAATTTATTAGAA-T
1 TTTTAT-ATTT-TTAGAAGT
*
72785877 TTTTATATTTTTATAAGT
1 TTTTATATTTTTAGAAGT
72785895 TTTTATA
1 TTTTATA
72785902 AGTTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 12 0.52
19 6 0.26
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTTATATTTTTAGAAGT
Found at i:72785897 original size:10 final size:9
Alignment explanation
Indices: 72785858--72785926 Score: 61
Period size: 10 Copynumber: 7.6 Consensus size: 9
72785848 GTTTGATTAA
72785858 TTTTATAAT
1 TTTTATAAT
*
72785867 TTATTAGAAT
1 TT-TTATAAT
72785877 TTTTAT-AT
1 TTTTATAAT
72785885 TTTTATAAGT
1 TTTTATAA-T
72785895 TTTTATAAGT
1 TTTTATAA-T
* *
72785905 TTATATAAA
1 TTTTATAAT
*
72785914 TTTCAT-AT
1 TTTTATAAT
72785922 TTTTA
1 TTTTA
72785927 ATGTTTGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
8 13 0.27
9 10 0.20
10 26 0.53
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:72785907 original size:18 final size:18
Alignment explanation
Indices: 72785858--72785909 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
72785848 GTTTGATTAA
72785858 TTTTATAATTTATTAGAAT
1 TTTTATAATTTA-TAGAAT
* *
72785877 TTTTATATTTTTATA-AGT
1 TTTTATA-ATTTATAGAAT
72785895 TTTTATAAGTTTATA
1 TTTTATAA-TTTATA
72785910 TAAATTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 15 0.54
19 9 0.32
20 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTTATAATTTATAGAAT
Found at i:72790644 original size:19 final size:20
Alignment explanation
Indices: 72790604--72790644 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
72790594 GTTTTTCAAA
*
72790604 TTTCAAAAATGAGAATTATT
1 TTTCAAAAATGAGAAATATT
*
72790624 TTTCGAAAATGA-AAATATT
1 TTTCAAAAATGAGAAATATT
72790643 TT
1 TT
72790645 GATTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTCAAAAATGAGAAATATT
Found at i:72805809 original size:26 final size:26
Alignment explanation
Indices: 72805780--72805844 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 26
72805770 AATTTTAAAA
*
72805780 ATTATATTTAATAAAATAAAGCATTT
1 ATTATATTTAATAAAATAAAACATTT
*
72805806 ATTATATTTTTTAATATAATAAAACATTT
1 ATTATA---TTTAATAAAATAAAACATTT
*
72805835 AATATATTTA
1 ATTATATTTA
72805845 TGGTAGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 10 0.30
29 23 0.70
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (26 bp):
ATTATATTTAATAAAATAAAACATTT
Found at i:72805818 original size:29 final size:29
Alignment explanation
Indices: 72805786--72805843 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
72805776 AAAAATTATA
* *
72805786 TTTAATAAAATAAAGCATTTATTATATTT
1 TTTAATAAAATAAAACATTTAATATATTT
*
72805815 TTTAATATAATAAAACATTTAATATATTT
1 TTTAATAAAATAAAACATTTAATATATTT
72805844 ATGGTAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTAATAAAATAAAACATTTAATATATTT
Found at i:72805965 original size:17 final size:17
Alignment explanation
Indices: 72805945--72805984 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
72805935 ATATTTTTTT
*
72805945 TAAAATTTATTTTTAAA
1 TAAAATTTAATTTTAAA
*
72805962 TAAAAATTAATTTTAAA
1 TAAAATTTAATTTTAAA
72805979 -AAAATT
1 TAAAATT
72805985 CAAATATAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAATTTAATTTTAAA
Found at i:72807637 original size:47 final size:50
Alignment explanation
Indices: 72807519--72807697 Score: 175
Period size: 47 Copynumber: 3.8 Consensus size: 50
72807509 TGTAACTCGC
* * **
72807519 CCATAAGTGAACTCGGACTCAACTCAATGAGCTT-GG--G-C-GTTGGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGATGACAGTTCACAT
* *
72807565 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGAC-AGTTCACAT
* *
72807615 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC--A-GACATTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGACAGTTCACAT
*
72807659 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
72807698 TTCAACCATC
Statistics
Matches: 112, Mismatches: 8, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
43 3 0.03
44 6 0.05
45 4 0.04
46 34 0.30
47 52 0.46
48 3 0.03
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (50 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGACAGTTCACAT
Found at i:72817139 original size:29 final size:29
Alignment explanation
Indices: 72817066--72817165 Score: 83
Period size: 31 Copynumber: 3.3 Consensus size: 29
72817056 GATTAAATCA
* * * *
72817066 AAATTAAAATTATAAGTACATATTTAAACT
1 AAATTAAAATT-TAAGTATATAATTACATT
* *
72817096 ATAATTAAAGTTTTACGTATATAATTACATT
1 A-AATTAAA-ATTTAAGTATATAATTACATT
**
72817127 AAATTAAAATTTATTTATATAATTATACATT
1 AAATTAAAATTTAAGTATATAA-T-TACATT
72817158 AAATTAAA
1 AAATTAAA
72817166 TTTTTTTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
29 11 0.19
30 9 0.16
31 35 0.61
32 2 0.04
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATTAAAATTTAAGTATATAATTACATT
Found at i:72818348 original size:12 final size:13
Alignment explanation
Indices: 72818333--72818375 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
72818323 TTTCACAGAA
72818333 CATTTTT-TTTTT
1 CATTTTTCTTTTT
72818345 CATTTTTCTTTTT
1 CATTTTTCTTTTT
*
72818358 C-TTCTTCTTTTT
1 CATTTTTCTTTTT
*
72818370 CCTTTT
1 CATTTT
72818376 CATAAAACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (13 bp):
CATTTTTCTTTTT
Found at i:72837722 original size:82 final size:82
Alignment explanation
Indices: 72837635--72837803 Score: 311
Period size: 82 Copynumber: 2.1 Consensus size: 82
72837625 TAAATTTAGA
* * *
72837635 TTTTTTATAAATATTTTTAAAATCTTTAGTCTTGTTTTTATTAATTTTTTTGAATTATTTCTATT
1 TTTTTTATAAATATTTTAAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
72837700 TTATATGTAAATTGAAT
66 TTATATGTAAATTGAAT
72837717 TTTTTTATAAATATTTTAAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
1 TTTTTTATAAATATTTTAAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
72837782 TTATATGTAAATTGAAT
66 TTATATGTAAATTGAAT
72837799 TTTTT
1 TTTTT
72837804 AATAGATACC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.61
Consensus pattern (82 bp):
TTTTTTATAAATATTTTAAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
TTATATGTAAATTGAAT
Found at i:72846350 original size:25 final size:27
Alignment explanation
Indices: 72846316--72846367 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
72846306 AATCGGTAAA
*
72846316 ATTTTTCTATCA-AT-ATTTTCATACG
1 ATTTTCCTATCATATAATTTTCATACG
72846341 ATTTTCCTATCATATCAATTTTCATAC
1 ATTTTCCTATCATAT-AATTTTCATAC
72846368 AAAAATATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
28 10 0.43
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.50
Consensus pattern (27 bp):
ATTTTCCTATCATATAATTTTCATACG
Found at i:72847259 original size:70 final size:71
Alignment explanation
Indices: 72847142--72847285 Score: 177
Period size: 70 Copynumber: 2.0 Consensus size: 71
72847132 ACTGAAAATT
* * *
72847142 TTCAAAATATGTTAGGTGGGTGTCACATTATCCAGGACTTGGTATCGC-ATCTCGA-AGACAATA
1 TTCAAAATATGTCAGGTGGGTATCACATTATCCAGGACTTGGCATCGCGATCTC-ATAGACAATA
*
72847205 GCCAAAC
65 GACAAAC
** *
72847212 TTCAAAATATGTCAGGTGGGTATTGCGA-TATCCAGGGCTTGGCATCGCGATCTCATAGACAATA
1 TTCAAAATATGTCAGGTGGGTATCAC-ATTATCCAGGACTTGGCATCGCGATCTCATAGACAATA
*
72847276 GATAAAC
65 GACAAAC
72847283 TTC
1 TTC
72847286 CCAATTTGGG
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
70 41 0.65
71 22 0.35
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (71 bp):
TTCAAAATATGTCAGGTGGGTATCACATTATCCAGGACTTGGCATCGCGATCTCATAGACAATAG
ACAAAC
Found at i:72858312 original size:13 final size:13
Alignment explanation
Indices: 72858294--72858319 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72858284 CTCGCATATT
72858294 TATTTAGTTCCCA
1 TATTTAGTTCCCA
72858307 TATTTAGTTCCCA
1 TATTTAGTTCCCA
72858320 CAGCTCGCAG
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:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
TATTTAGTTCCCA
Found at i:72858889 original size:4 final size:4
Alignment explanation
Indices: 72858880--72858910 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
72858870 AAAACAAATA
*
72858880 TATG TATG TATG TATG TATG TATA TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
72858911 ATCAGCTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:72858897 original size:12 final size:12
Alignment explanation
Indices: 72858877--72858910 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
72858867 TATAAAACAA
72858877 ATATATGTATGT
1 ATATATGTATGT
*
72858889 ATGTATGTATGT
1 ATATATGTATGT
72858901 ATATATGTAT
1 ATATATGTAT
72858911 ATCAGCTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (12 bp):
ATATATGTATGT
Found at i:72858911 original size:8 final size:8
Alignment explanation
Indices: 72858877--72858912 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
72858867 TATAAAACAA
72858877 ATATATGT
1 ATATATGT
*
72858885 ATGTATGT
1 ATATATGT
*
72858893 ATGTATGT
1 ATATATGT
72858901 ATATATGT
1 ATATATGT
72858909 ATAT
1 ATAT
72858913 CAGCTTCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (8 bp):
ATATATGT
Found at i:72862407 original size:31 final size:31
Alignment explanation
Indices: 72862368--72862448 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
72862358 GTTGAAAAAT
* *
72862368 AAAAACTCAAGA-ACTAATTTAAATATTAAAG
1 AAAAACTCAA-ATACTAAATTAAAAATTAAAG
* *
72862399 CAAGACTCAAATACTAAATTAAAAATTAAAG
1 AAAAACTCAAATACTAAATTAAAAATTAAAG
* *
72862430 AAAAACTCAATTACCAAAT
1 AAAAACTCAAATACTAAAT
72862449 AGTATATTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.58, C:0.14, G:0.05, T:0.23
Consensus pattern (31 bp):
AAAAACTCAAATACTAAATTAAAAATTAAAG
Found at i:72881627 original size:28 final size:28
Alignment explanation
Indices: 72881596--72881658 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
72881586 TCCCATATTA
72881596 ATGGGGTATAGGAAGAGTCTCATAACTC
1 ATGGGGTATAGGAAGAGTCTCATAACTC
* * *
72881624 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAGAGTCTCATAACTC
72881652 ATGGGGT
1 ATGGGGT
72881659 TGATAATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (28 bp):
ATGGGGTATAGGAAGAGTCTCATAACTC
Found at i:72883415 original size:39 final size:39
Alignment explanation
Indices: 72883308--72883442 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
72883298 GACCTCGAGT
* * *
72883308 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
72883349 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
72883387 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
72883426 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
72883443 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:72892711 original size:5 final size:5
Alignment explanation
Indices: 72892703--72892727 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
72892693 CAAACTTTTA
72892703 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
72892728 TACTTATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:72897188 original size:30 final size:30
Alignment explanation
Indices: 72897154--72897212 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
72897144 TTTTTTTATT
72897154 GTTAATTTTGTTATTATTTTAAAGGCATTC
1 GTTAATTTTGTTATTATTTTAAAGGCATTC
*
72897184 GTTAATTTTGTTATTATTTTACAGGCATT
1 GTTAATTTTGTTATTATTTTAAAGGCATT
72897213 TGCTTGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (30 bp):
GTTAATTTTGTTATTATTTTAAAGGCATTC
Found at i:72903873 original size:35 final size:35
Alignment explanation
Indices: 72903833--72903905 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
72903823 TGTACACCTA
72903833 TAAGACACATTTGAACTCGCACTAGCCTCAACATC
1 TAAGACACATTTGAACTCGCACTAGCCTCAACATC
72903868 TAAGACACATTTGAACTCGCACTAGCCTCAACATC
1 TAAGACACATTTGAACTCGCACTAGCCTCAACATC
72903903 TAA
1 TAA
72903906 TAACTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (35 bp):
TAAGACACATTTGAACTCGCACTAGCCTCAACATC
Found at i:72916805 original size:25 final size:25
Alignment explanation
Indices: 72916771--72916822 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
72916761 TTTGTTGACC
*
72916771 AATAAAACCGGCTAAGTAGAAAACT
1 AATAAAACCGGCCAAGTAGAAAACT
72916796 AATAAAACCGGCCAAGTAGAAAACT
1 AATAAAACCGGCCAAGTAGAAAACT
72916821 AA
1 AA
72916823 GTTATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.54, C:0.17, G:0.15, T:0.13
Consensus pattern (25 bp):
AATAAAACCGGCCAAGTAGAAAACT
Found at i:72920033 original size:23 final size:23
Alignment explanation
Indices: 72919989--72920033 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
72919979 TTAAAATAAT
* * *
72919989 AAAATTATATTTTTATTATTATA
1 AAAATTACAATTTAATTATTATA
*
72920012 AAAATTACAATTTAATTTTTAT
1 AAAATTACAATTTAATTATTAT
72920034 CTTCTTAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AAAATTACAATTTAATTATTATA
Found at i:72924628 original size:4 final size:4
Alignment explanation
Indices: 72924619--72924644 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
72924609 TGTTGAAATT
72924619 ATGC ATGC ATGC ATGC ATGC ATGC AT
1 ATGC ATGC ATGC ATGC ATGC ATGC AT
72924645 TCATACATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (4 bp):
ATGC
Found at i:72924885 original size:44 final size:44
Alignment explanation
Indices: 72924818--72924908 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
72924808 ATGAAGTTTT
72924818 TAATATATGTATATATATATGAAAACATTTTCACGTGAAAGCTG
1 TAATATATGTATATATATATGAAAACATTTTCACGTGAAAGCTG
*
72924862 TAATATATGTATATATATGTGAAAACATTTTCACGTGAAAGCTG
1 TAATATATGTATATATATATGAAAACATTTTCACGTGAAAGCTG
72924906 TAA
1 TAA
72924909 AAAGTGATGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (44 bp):
TAATATATGTATATATATATGAAAACATTTTCACGTGAAAGCTG
Found at i:72933445 original size:24 final size:26
Alignment explanation
Indices: 72933410--72933461 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
72933400 ACCATATAAA
72933410 AAATTTAATAAA-ATAAAAAT-ATAT
1 AAATTTAATAAATATAAAAATAATAT
* *
72933434 AAATTTATTAAATATTAAAATAATAT
1 AAATTTAATAAATATAAAAATAATAT
72933460 AA
1 AA
72933462 TATAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.46
25 7 0.29
26 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATTTAATAAATATAAAAATAATAT
Found at i:72933655 original size:29 final size:30
Alignment explanation
Indices: 72933595--72933657 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
72933585 TAAAAAATAT
* *** *
72933595 AAAATTATTTTTTATCTTTATTTTAAGGAA
1 AAAATTATTTTCTATCTTTATACGAAGAAA
72933625 AAAATTATTTTCTATCTTTA-ACGAAGAAA
1 AAAATTATTTTCTATCTTTATACGAAGAAA
72933654 AAAA
1 AAAA
72933658 CTAAATTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (30 bp):
AAAATTATTTTCTATCTTTATACGAAGAAA
Found at i:72936547 original size:61 final size:60
Alignment explanation
Indices: 72936482--72936612 Score: 154
Period size: 61 Copynumber: 2.2 Consensus size: 60
72936472 TAATTTTTTT
* * ** * * **
72936482 TTGAAATTTTCAGAATTAGAACTAAATTGATAAATTTTGTAAATATTGAGGGTTAAATTTA
1 TTGAAATTTTCAAAATTAGAACAAAAACGACAAATTTTGTAAATAATGAGGACTAAA-TTA
* *
72936543 TTGAAATTTTTAAAATTTGAACAAAAACGACAAATTTTGTAAATAATGAGGACTAAATTA
1 TTGAAATTTTCAAAATTAGAACAAAAACGACAAATTTTGTAAATAATGAGGACTAAATTA
*
72936603 TTGAATTTTT
1 TTGAAATTTT
72936613 TTATGTTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
60 12 0.20
61 47 0.80
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.40
Consensus pattern (60 bp):
TTGAAATTTTCAAAATTAGAACAAAAACGACAAATTTTGTAAATAATGAGGACTAAATTA
Found at i:72940524 original size:32 final size:31
Alignment explanation
Indices: 72940488--72940560 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
72940478 TAAAAAAATC
* *
72940488 AATTTGACTCTGTTTCAAAAAGTTAATGATCA
1 AATTTGACTCT-TTTCAAAAAGTTAAAGACCA
* *
72940520 AATTTGACTCTTTTTAAAATGTTAAAGACCA
1 AATTTGACTCTTTTCAAAAAGTTAAAGACCA
*
72940551 AATTTAACTC
1 AATTTGACTC
72940561 AATTGTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 25 0.69
32 11 0.31
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (31 bp):
AATTTGACTCTTTTCAAAAAGTTAAAGACCA
Found at i:72941013 original size:11 final size:11
Alignment explanation
Indices: 72940994--72941032 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
72940984 TAATGTAACG
72940994 TTAATATAATTT
1 TTAA-ATAATTT
72941006 TTAAATAATTT
1 TTAAATAATTT
*
72941017 TTTAATAATATT
1 TTAAATAAT-TT
72941029 TTAA
1 TTAA
72941033 TGTAAACTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAAATAATTT
Found at i:72947772 original size:50 final size:51
Alignment explanation
Indices: 72947695--72947823 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
72947685 GACCATGGCA
* *
72947695 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
*
72947746 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
72947796 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
72947824 CTGATAAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 47 0.66
51 24 0.34
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:72947836 original size:31 final size:31
Alignment explanation
Indices: 72947798--72947978 Score: 247
Period size: 31 Copynumber: 5.8 Consensus size: 31
72947788 GACAAATGAC
72947798 AAGTGAAAAGTGGTAGCTTCGGCTACCTGAT
1 AAGTGAAAAGTGGTAGCTTCGGCTACCTGAT
* *
72947829 AAGTGAAAAGTGGTAGATTCTGCTACCTGAT
1 AAGTGAAAAGTGGTAGCTTCGGCTACCTGAT
*
72947860 AAGTGAAAAGTGGTAGCTTCTGCTACCTGAT
1 AAGTGAAAAGTGGTAGCTTCGGCTACCTGAT
* * * *
72947891 CAGTGAAAAATGGTAGCTCCGACTACCTGAT
1 AAGTGAAAAGTGGTAGCTTCGGCTACCTGAT
* *
72947922 CAA-TGAAAAATGGTAGCTCCGGCTACCTGAT
1 -AAGTGAAAAGTGGTAGCTTCGGCTACCTGAT
* *
72947953 CAGTGAATAGTGGTAGCTTCGGCTAC
1 AAGTGAAAAGTGGTAGCTTCGGCTAC
72947979 AAGTGACAAG
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
30 1 0.01
31 132 0.99
32 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (31 bp):
AAGTGAAAAGTGGTAGCTTCGGCTACCTGAT
Found at i:72948066 original size:47 final size:46
Alignment explanation
Indices: 72947996--72948119 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
72947986 AAGTGATTTC
* *
72947996 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
72948042 CTGTATAAGACCATATATGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
72948089 CGTGTAAGACCATAGCTGGGTTATGGCATCG
1 CGTATAAGACCATATCTGGGATATGGCATCG
72948120 ATATGTGATA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 26 0.39
47 40 0.61
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:72948152 original size:49 final size:48
Alignment explanation
Indices: 72948078--72948211 Score: 154
Period size: 49 Copynumber: 2.9 Consensus size: 48
72948068 GCATCAGTGA
* *
72948078 GATATGTGATTCGTGTAAGACCATAGCTGGGTTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
* *
72948126 GATATGTGATTACGTGTAAGATCATAGCTGGGCTATGACATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
* **
72948175 GA-A---GA-T-GTGTAAGACCATAGTTGAACTATGACATCGA
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGA
72948212 GTAAACGAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
42 27 0.35
44 1 0.01
45 2 0.03
48 12 0.16
49 35 0.45
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
Found at i:72951282 original size:23 final size:24
Alignment explanation
Indices: 72951246--72951295 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
72951236 TATTTATCCC
72951246 ATTTTGAATGAAAA-AT-ACATATA
1 ATTTTGAATGAAAAGATCA-ATATA
* *
72951269 ATTTTGTATTAAAAGATCAATATA
1 ATTTTGAATGAAAAGATCAATATA
72951293 ATT
1 ATT
72951296 ATTTTAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.52
24 10 0.43
25 1 0.04
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (24 bp):
ATTTTGAATGAAAAGATCAATATA
Found at i:72955850 original size:21 final size:22
Alignment explanation
Indices: 72955821--72955867 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
72955811 AGTTGTAAAT
*
72955821 TGAATACTAATTGGCAGACCTA
1 TGAATACTAATTCGCAGACCTA
*
72955843 TGAA-ACTAATTCGTAGACCTA
1 TGAATACTAATTCGCAGACCTA
72955864 TGAA
1 TGAA
72955868 CCTATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (22 bp):
TGAATACTAATTCGCAGACCTA
Found at i:72957774 original size:21 final size:20
Alignment explanation
Indices: 72957709--72957775 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
72957699 TTAAATATTT
*
72957709 AATT-TTATCTAAAAACATAA
1 AATTATTATATAAAAA-ATAA
*
72957729 AGA-TATTATATTAAAAATAA
1 A-ATTATTATATAAAAAATAA
* *
72957749 GATTATTCTATAAAAAATTAA
1 AATTATTATATAAAAAA-TAA
72957770 AATTAT
1 AATTAT
72957776 GAAAAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
19 1 0.03
20 18 0.49
21 18 0.49
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.37
Consensus pattern (20 bp):
AATTATTATATAAAAAATAA
Found at i:72958231 original size:22 final size:22
Alignment explanation
Indices: 72958205--72958246 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
72958195 CACTAAATAA
72958205 TTTAATATAAC-ATTTTTATATT
1 TTTAA-ATAACTATTTTTATATT
*
72958227 TTTAAATATCTATTTTTATA
1 TTTAAATAACTATTTTTATA
72958247 CATATAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTAAATAACTATTTTTATATT
Found at i:72960401 original size:3 final size:3
Alignment explanation
Indices: 72960389--72960441 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
72960379 TCTCTTTTAC
* * * * *
72960389 TAT TATT TAT TAT CAT TCT TAT TAT TAC CAT CAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
72960435 TAT TAT T
1 TAT TAT T
72960442 TTCTTTTACC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:72963607 original size:132 final size:132
Alignment explanation
Indices: 72963370--72963788 Score: 590
Period size: 132 Copynumber: 3.2 Consensus size: 132
72963360 AGTTTTATGA
* * * *
72963370 TCATTCATGTTTTCTAAAAATCCTTTAAAACGAAGGCGATATTCGATATTTGGCAGTTCGCGGAA
1 TCATTCATGTTTTCTAAAAATCCTTTAAAACGAACGCGATGTTCGATATTTGGCAATTCGCAGAA
* *
72963435 TCGTGCCCTAACGTGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAG
66 TCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAA
72963500 TT
131 TT
*
72963502 TCATTCATGTTTTCTAAAAATCCTTTAAAACGAACGCGATGTTCGATATTTGGAAATTCGCAGAA
1 TCATTCATGTTTTCTAAAAATCCTTTAAAACGAACGCGATGTTCGATATTTGGCAATTCGCAGAA
*
72963567 TCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAA
66 TCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAA
72963632 TT
131 TT
* ** * *
72963634 TCATTCATGTTTTCTAAAAA-CTCTTTAAAACGAATGTAATGTTCGATGTTTGGCAATTCGGAGA
1 TCATTCATGTTTTCTAAAAATC-CTTTAAAACGAACGCGATGTTCGATATTTGGCAATTCGCAGA
* * * * * * *
72963698 GTCGTGCCCTATCGTGCTGGGTTACAATTTC-CTGTTGGTTCAAAATAATCGAATATCCCCTTTA
65 ATCGTGCCCTAACGTGCTGGGTTGCAATTTCTC-GTTTGCTCAAAATAATCGAATGT-CCCTTTG
72963762 GAATT
128 GAATT
* *
72963767 TCACTCATGTTTTTTTAAAAAT
1 TCATTCATG-TTTTCTAAAAAT
72963789 TCTAAAAAAT
Statistics
Matches: 258, Mismatches: 24, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
131 2 0.01
132 227 0.88
133 19 0.07
134 10 0.04
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (132 bp):
TCATTCATGTTTTCTAAAAATCCTTTAAAACGAACGCGATGTTCGATATTTGGCAATTCGCAGAA
TCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAA
TT
Found at i:72963825 original size:133 final size:132
Alignment explanation
Indices: 72963370--72963836 Score: 562
Period size: 132 Copynumber: 3.5 Consensus size: 132
72963360 AGTTTTATGA
* * ** * * * * *
72963370 TCATTCATGTTTTCTAAAAATCCTTTAAAACGAAGGCGATATTCGATATTTGGCAGTTCGCGGAA
1 TCATTCATGTTTTCTAAAAATTCTTTAAAACGAACGTAATGTTCGATGTTTGGAAATTCGCAGAA
* *
72963435 TCGTGCCCTAACGTGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAG
66 TCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAA
72963500 TT
131 TT
* ** *
72963502 TCATTCATGTTTTCTAAAAATCCTTTAAAACGAACGCGATGTTCGATATTTGGAAATTCGCAGAA
1 TCATTCATGTTTTCTAAAAATTCTTTAAAACGAACGTAATGTTCGATGTTTGGAAATTCGCAGAA
*
72963567 TCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAA
66 TCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAA
72963632 TT
131 TT
* * * * *
72963634 TCATTCATGTTTTCTAAAAACTCTTTAAAACGAATGTAATGTTCGATGTTTGGCAATTCGGAGAG
1 TCATTCATGTTTTCTAAAAATTCTTTAAAACGAACGTAATGTTCGATGTTTGGAAATTCGCAGAA
* * * * * *
72963699 TCGTGCCCTATCGTGCTGGGTTACAATTTC-CTGTTGGTTCAAAATAATCGAATATCCCCTTTAG
66 TCGTGCCCTAACGTGCTGGGTTGCAATTTCTC-GTTTGCTCAAAATAATCGAATGT-CCCTTTGG
72963763 AATT
129 AATT
* * * ** * * *
72963767 TCACTCATGTTTTTTTAAAAATTC-TAAAAAATAAGGTAATGCTCGATGTTTAGAAATTCG-AGG
1 TCATTCATG-TTTTCTAAAAATTCTTTAAAACGAACGTAATGTTCGATGTTTGGAAATTCGCA-G
72963830 AATCGTG
64 AATCGTG
72963837 TAACAGCCTA
Statistics
Matches: 296, Mismatches: 35, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
131 1 0.00
132 228 0.77
133 55 0.19
134 12 0.04
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (132 bp):
TCATTCATGTTTTCTAAAAATTCTTTAAAACGAACGTAATGTTCGATGTTTGGAAATTCGCAGAA
TCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAA
TT
Found at i:72966034 original size:39 final size:39
Alignment explanation
Indices: 72965988--72966150 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
72965978 GCTCTGGTGA
*
72965988 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTCTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
72966027 GCTTCAGTCAGCCTTCGGGCTTTCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
72966066 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
72966105 GCTTCAGCTAAACTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
72966144 GCTTCAG
1 GCTTCAG
72966151 CTAAACTTTG
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.13, C:0.27, G:0.23, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:72966167 original size:18 final size:18
Alignment explanation
Indices: 72966105--72966168 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
72966095 GCACTTATGT
*
72966105 GCTTCAGCTAAACTTCGG
1 GCTTCAGCTAAACTTTGG
* * * *
72966123 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-CTA-AACTT-TGG
72966144 GCTTCAGCTAAACTTTGG
1 GCTTCAGCTAAACTTTGG
72966162 GCTTCAG
1 GCTTCAG
72966169 ATCACGAAGG
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
18 15 0.44
19 6 0.18
20 6 0.18
21 7 0.21
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (18 bp):
GCTTCAGCTAAACTTTGG
Found at i:72970365 original size:11 final size:11
Alignment explanation
Indices: 72970349--72970378 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
72970339 TAATATAGTC
*
72970349 TTTTAATAATT
1 TTTTAATAATA
72970360 TTTTAATAATA
1 TTTTAATAATA
72970371 TTTTAATA
1 TTTTAATA
72970379 TAAACTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAATAATA
Found at i:72972449 original size:18 final size:20
Alignment explanation
Indices: 72972428--72972470 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
72972418 TAACATTAAT
72972428 AATAAATATA-ATG-ATAAA
1 AATAAATATACATGTATAAA
* *
72972446 AATATATATACATGTATTAA
1 AATAAATATACATGTATAAA
72972466 AATAA
1 AATAA
72972471 TGATAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 9 0.45
19 3 0.15
20 8 0.40
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (20 bp):
AATAAATATACATGTATAAA
Found at i:72974886 original size:56 final size:56
Alignment explanation
Indices: 72974633--72975444 Score: 654
Period size: 56 Copynumber: 14.3 Consensus size: 56
72974623 ACTAAACATT
* *
72974633 AAAAACAGAAATTGAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTG
1 AAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTG
*
72974692 AAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG
1 AAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG
* *
72974749 AAAAATAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTTTTG
1 AAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTT-G--ATTTTTTTG
* *
72974808 AAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
1 AAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
72974864 AAAAACAGAAATTAAAAAGCTCAACTCACCTCTGGAAATATGAGTTGATTTTTTTG
1 AAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
72974920 AAAAACAGAAATTAAAAAGCTCAACTCACCTCTGGCAATATGAGTTGATTTTTTTG
1 AAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
72974976 AAAAACAGAAATTAAAATGCTCAACTCACCTCTCGCAATATGAGTTG--GTTTTTG
1 AAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
** * * ** * ** * * ** *
72975030 AAAAACTTAACTTGAAAAGCAT-ATTTTAAAAATACCTCGACATGTGACCCGAGGCTCAACTCAC
1 AAAAACAGAAATTAAAAAGC-TCA-ACT-CACCT--CTCG-CA-AT-A--TGA-G-TTGA-T--T
* * *
72975094 CTCTCG
51 TTTTTG
*** ** ** ** ** ** ** * ** * ** * *
72975100 CAATATGAGTTGATTTTTGAAA----AACAAAAAT-T-AAAAGGCTCAACTCA-CCTCTCG
1 -AA-A--AACAGAAATTAAAAAGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTTG
*
72975154 TAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTG
1 -AAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * * * *
72975208 AAAAATAGAAATTAAAAGGCTCAGCTCACCTCTTGTAATATGAGTTGATTTTTTTG
1 AAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
72975264 AAAAACAGAAATTAAAAAGCTAAACTCACCTCTGGCAATATGAGTTGATTTTTTTG
1 AAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
72975320 AAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG
1 AAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
72975374 AAAAACAGAAA--AAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG
1 AAAAACAGAAATTAAAAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
**
72975427 AAAAGTAGAAATTAAAAA
1 AAAAACAGAAATTAAAAA
72975445 CAGAATTTGA
Statistics
Matches: 622, Mismatches: 94, Indels: 78
0.78 0.12 0.10
Matches are distributed among these distances:
51 7 0.01
52 4 0.01
53 90 0.14
54 50 0.08
55 12 0.02
56 266 0.43
57 55 0.09
58 7 0.01
59 102 0.16
60 2 0.00
61 1 0.00
63 3 0.00
64 1 0.00
65 2 0.00
68 5 0.01
70 4 0.01
71 2 0.00
72 1 0.00
74 8 0.01
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (56 bp):
AAAAACAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Done.