Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 11 of 284
Found at i:3549864 original size:14 final size:14
Alignment explanation
Indices: 3549843--3549883 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
3549833 CTTACCTAAT
3549843 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* **
3549857 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTGA
3549871 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
3549884 CAAGTTGCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.37
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:3559507 original size:25 final size:25
Alignment explanation
Indices: 3559473--3559523 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
3559463 ATAATACAAG
3559473 TTTACATACCAAATTTGACTCTCTC
1 TTTACATACCAAATTTGACTCTCTC
3559498 TTTACATACCAAATTTGACTCTCTC
1 TTTACATACCAAATTTGACTCTCTC
3559523 T
1 T
3559524 CTCTCTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.41
Consensus pattern (25 bp):
TTTACATACCAAATTTGACTCTCTC
Found at i:3566751 original size:11 final size:11
Alignment explanation
Indices: 3566719--3566752 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3566709 TGCTTCTCTG
*
3566719 TTTCTATTCTA
1 TTTCTATTCTT
*
3566730 TTTCTTTTCTT
1 TTTCTATTCTT
3566741 TTTCTATTCTT
1 TTTCTATTCTT
3566752 T
1 T
3566753 ATTTGTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCTATTCTT
Found at i:3572131 original size:27 final size:26
Alignment explanation
Indices: 3572101--3572189 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
3572091 TTTATATAAA
3572101 ATAGTCATGACTGACTTTCCACAAAAG
1 ATAGTCATGAC-GACTTTCCACAAAAG
* * *
3572128 ATAGTCTTGACAGACTTTCTACCAAAG
1 ATAGTCATGAC-GACTTTCCACAAAAG
* * **
3572155 ATAGTCCTGACGAACTTCCCACATTAG
1 ATAGTCATGACG-ACTTTCCACAAAAG
3572182 ATAGTCAT
1 ATAGTCAT
3572190 TGTGGACTTC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
26 1 0.02
27 49 0.98
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (26 bp):
ATAGTCATGACGACTTTCCACAAAAG
Found at i:3572198 original size:27 final size:26
Alignment explanation
Indices: 3572168--3572239 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
3572158 GTCCTGACGA
* **
3572168 ACTTCCCACATTAGATAGTCATTGTGG
1 ACTTCCCGCATTAGATAGTC-TTGCAG
* *
3572195 ACTTCCTGCATAAGATAGTCTTGCAG
1 ACTTCCCGCATTAGATAGTCTTGCAG
*
3572221 ACTTCCCGCATTACATAGT
1 ACTTCCCGCATTAGATAGT
3572240 TATTACAAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
26 20 0.54
27 17 0.46
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (26 bp):
ACTTCCCGCATTAGATAGTCTTGCAG
Found at i:3572231 original size:26 final size:26
Alignment explanation
Indices: 3572125--3572231 Score: 76
Period size: 27 Copynumber: 4.0 Consensus size: 26
3572115 CTTTCCACAA
*
3572125 AAGATAGTCTTGACAGACTTTCTAC-CA-
1 AAGATAGTCTTG-CAGAC-TTC-CCGCAT
* *
3572152 AAGATAGTCCTG-ACGAACTTCCCACAT
1 AAGATAGTCTTGCA-G-ACTTCCCGCAT
* ** *
3572179 TAGATAGTCATTGTGGACTTCCTGCAT
1 AAGATAGTC-TTGCAGACTTCCCGCAT
3572206 AAGATAGTCTTGCAGACTTCCCGCAT
1 AAGATAGTCTTGCAGACTTCCCGCAT
3572232 TACATAGTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
25 2 0.03
26 20 0.32
27 38 0.60
28 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (26 bp):
AAGATAGTCTTGCAGACTTCCCGCAT
Found at i:3572238 original size:26 final size:27
Alignment explanation
Indices: 3572168--3572259 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
3572158 GTCCTGACGA
* **
3572168 ACTTCCCACATTAGATAGTCATTGTGG
1 ACTTCCCGCATTAGATAGTCATTGCAG
* *
3572195 ACTTCCTGCATAAGATAGTC-TTGCAG
1 ACTTCCCGCATTAGATAGTCATTGCAG
* * * *
3572221 ACTTCCCGCATTACATAGTTATTACAA
1 ACTTCCCGCATTAGATAGTCATTGCAG
*
3572248 ACTTCCCACATT
1 ACTTCCCGCATT
3572260 TACGGTAATG
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 20 0.38
27 32 0.62
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (27 bp):
ACTTCCCGCATTAGATAGTCATTGCAG
Found at i:3573851 original size:97 final size:98
Alignment explanation
Indices: 3573744--3573938 Score: 338
Period size: 97 Copynumber: 2.0 Consensus size: 98
3573734 AAAAAGTATA
* *
3573744 AATAAATTATACTAAAAAATCAAAAAATATTGTATTAAAAAAATTAAAAAT-TAAAAATAAGAAA
1 AATAAATTATACTAAAAAATCAAAAAATATTGTATTAAAAAAATTAAAAATAAAAAAAGAAGAAA
*
3573808 AATGTATCAAATGATTCGAAAAGAAATGAACAC
66 AATGTATCAAATGATTCAAAAAGAAATGAACAC
* *
3573841 AATAAGTTATACTAAAAAATCAAAACATATTGTATTAAAAAAATTAAAAATAAAAAAAGAAGAAA
1 AATAAATTATACTAAAAAATCAAAAAATATTGTATTAAAAAAATTAAAAATAAAAAAAGAAGAAA
3573906 AATGTATCAAATGATTCAAAAAGAAATGAACAC
66 AATGTATCAAATGATTCAAAAAGAAATGAACAC
3573939 GAAATAGATT
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 49 0.53
98 43 0.47
ACGTcount: A:0.62, C:0.07, G:0.08, T:0.24
Consensus pattern (98 bp):
AATAAATTATACTAAAAAATCAAAAAATATTGTATTAAAAAAATTAAAAATAAAAAAAGAAGAAA
AATGTATCAAATGATTCAAAAAGAAATGAACAC
Found at i:3574253 original size:60 final size:60
Alignment explanation
Indices: 3574160--3574290 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 60
3574150 TCCTTTTTGA
** * *
3574160 AATTTTT-GAAATTTGAACTAATTTGAGAAATTTTATAAATGTTGA-GAGCTAAATTTATTG
1 AATTTTTAG-AATTTGAACTAAAATGACAAATTTTATAAATATTGAGGA-CTAAATTTATTG
* * * *
3574220 AATTTTTAGAATTTGGACTAAAATGACAAATTTTGTAAATATTGAGGATTAAATTTGTTG
1 AATTTTTAGAATTTGAACTAAAATGACAAATTTTATAAATATTGAGGACTAAATTTATTG
3574280 AACTTTTTAGA
1 AA-TTTTTAGA
3574291 TTTAACATCA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
60 49 0.82
61 11 0.18
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (60 bp):
AATTTTTAGAATTTGAACTAAAATGACAAATTTTATAAATATTGAGGACTAAATTTATTG
Found at i:3574736 original size:16 final size:17
Alignment explanation
Indices: 3574695--3574740 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
3574685 CTTTTTAACC
3574695 ATAACTTTAAAAAATATT
1 ATAA-TTTAAAAAATATT
*
3574713 ATAATTTAAATAATA-T
1 ATAATTTAAAAAATATT
*
3574729 ATATTTTAAAAA
1 ATAATTTAAAAA
3574741 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.44
17 10 0.40
18 4 0.16
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATTTAAAAAATATT
Found at i:3575258 original size:16 final size:17
Alignment explanation
Indices: 3575223--3575259 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
3575213 ATATATTAAT
*
3575223 TATTTTAATAATTCAAA
1 TATTTTAATAATTAAAA
3575240 TATTTTAATAA-TAAAA
1 TATTTTAATAATTAAAA
3575256 TATT
1 TATT
3575260 CCTATCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTTTAATAATTAAAA
Found at i:3575553 original size:24 final size:24
Alignment explanation
Indices: 3575482--3575554 Score: 69
Period size: 30 Copynumber: 2.9 Consensus size: 24
3575472 TTTTTAGTAA
3575482 TATTTTTAAAT-TA-AATTATAAT
1 TATTTTTAAATGTATAATTATAAT
*
3575504 TATTTTTAAATGTGGAATTATCATTATAGT
1 TATTTTTAAATGT---A-TA--ATTATAAT
3575534 TATTTTTAAATGTATAATTAT
1 TATTTTTAAATGTATAATTAT
3575555 TACAAATTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
22 11 0.26
23 1 0.02
24 5 0.12
26 3 0.07
27 1 0.02
28 1 0.02
30 20 0.48
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.53
Consensus pattern (24 bp):
TATTTTTAAATGTATAATTATAAT
Found at i:3575553 original size:30 final size:30
Alignment explanation
Indices: 3575496--3575554 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
3575486 TTTAAATTAA
*
3575496 ATTATAATTATTTTTAAATGTGGAATTATC
1 ATTATAATTATTTTTAAATGTAGAATTATC
* *
3575526 ATTATAGTTATTTTTAAATGTATAATTAT
1 ATTATAATTATTTTTAAATGTAGAATTAT
3575555 TACAAATTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (30 bp):
ATTATAATTATTTTTAAATGTAGAATTATC
Found at i:3577634 original size:22 final size:21
Alignment explanation
Indices: 3577598--3577638 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
3577588 AAAATTGTTT
3577598 TAATGTTGCACGTAATTTTCA
1 TAATGTTGCACGTAATTTTCA
*
3577619 TAATAGTTGCATGTAATTTT
1 TAAT-GTTGCACGTAATTTT
3577639 TTATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (21 bp):
TAATGTTGCACGTAATTTTCA
Found at i:3580350 original size:43 final size:43
Alignment explanation
Indices: 3580214--3580372 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 43
3580204 CATAAACTCG
* * * *
3580214 TACAATGCC-ATATCCCAGACATGGTCTTATATGTTATCAC-A
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCTCAA
* * * * *
3580255 TATCGATGCCACTATCACAGACAGGGTCTTACACG-AA-ATCAA
1 TA-CAATGCCAATATCCCAGACATGGTCTTACACGTAATCTCAA
*
3580297 TTA-ATGATGCCAATTTCCCAGACATGGTCTTACACGTAATCTCAA
1 -TACA--ATGCCAATATCCCAGACATGGTCTTACACGTAATCTCAA
* *
3580342 TACAATGCCAATGTCCCAGACATGGTGTTAC
1 TACAATGCCAATATCCCAGACATGGTCTTAC
3580373 TTGTAATCAC
Statistics
Matches: 92, Mismatches: 17, Indels: 16
0.74 0.14 0.13
Matches are distributed among these distances:
41 3 0.03
42 8 0.09
43 72 0.78
44 4 0.04
45 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCTCAA
Found at i:3584407 original size:5 final size:5
Alignment explanation
Indices: 3584362--3584392 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
3584352 CCATATAGAA
3584362 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
3584393 CATATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:3584547 original size:24 final size:24
Alignment explanation
Indices: 3584511--3584564 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
3584501 ATATATTAGA
*
3584511 ATATTTAATATTTGTTAGTATAAT
1 ATATTTAACATTTGTTAGTATAAT
* *
3584535 ATATTTAGCATTTTTTAGTATAAT
1 ATATTTAACATTTGTTAGTATAAT
*
3584559 TTATTT
1 ATATTT
3584565 GACCTACGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
ATATTTAACATTTGTTAGTATAAT
Found at i:3585823 original size:19 final size:19
Alignment explanation
Indices: 3585772--3585842 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
3585762 TTACAAAAAA
* * *
3585772 AAAAATCAAAGTAATTTTC
1 AAAATTCAAAATAATTTTT
*
3585791 AAAATTTGAAAATAATTTTT
1 AAAA-TTCAAAATAATTTTT
*
3585811 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTTT
3585829 AGAAATTCTAAAAT
1 A-AAATTC-AAAAT
3585843 TTATATTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 6 0.14
19 17 0.40
20 20 0.47
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:3585844 original size:18 final size:19
Alignment explanation
Indices: 3585799--3585847 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
3585789 TCAAAATTTG
*
3585799 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
3585818 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
*
3585837 TAAA-ATTTATA
1 AAAATATTTATA
3585848 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:3586223 original size:21 final size:21
Alignment explanation
Indices: 3586199--3586238 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3586189 ACCTTTTCTA
*
3586199 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
3586220 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
3586239 CATTGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:3590106 original size:17 final size:17
Alignment explanation
Indices: 3590084--3590136 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 17
3590074 TCAAACAATA
3590084 ATAAAAATTATAAAAAT
1 ATAAAAATTATAAAAAT
*
3590101 ATAAAAATTATTAAGAATT
1 ATAAAAATTA-TAA-AAAT
3590120 ATAAGAAATTATAAAAA
1 ATAA-AAATTATAAAAA
3590137 GATTATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 10 0.32
18 5 0.16
19 10 0.32
20 6 0.19
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (17 bp):
ATAAAAATTATAAAAAT
Found at i:3590113 original size:20 final size:20
Alignment explanation
Indices: 3590090--3590136 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
3590080 AATAATAAAA
3590090 ATTATAAAAATATAA-AAATT
1 ATTA-AAAAATATAAGAAATT
* *
3590110 ATTAAGAATTATAAGAAATT
1 ATTAAAAAATATAAGAAATT
3590130 A-TAAAAA
1 ATTAAAAA
3590137 GATTATTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (20 bp):
ATTAAAAAATATAAGAAATT
Found at i:3590132 original size:10 final size:9
Alignment explanation
Indices: 3590084--3590136 Score: 72
Period size: 10 Copynumber: 5.8 Consensus size: 9
3590074 TCAAACAATA
3590084 ATAAAAATT
1 ATAAAAATT
3590093 ATAAAAA-T
1 ATAAAAATT
3590101 ATAAAAATT
1 ATAAAAATT
*
3590110 ATTAAGAATT
1 A-TAAAAATT
3590120 ATAAGAAATT
1 ATAA-AAATT
3590130 ATAAAAA
1 ATAAAAA
3590137 GATTATTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
8 8 0.21
9 15 0.38
10 16 0.41
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:3590512 original size:11 final size:10
Alignment explanation
Indices: 3590491--3590550 Score: 52
Period size: 10 Copynumber: 5.8 Consensus size: 10
3590481 TCTGGACATT
3590491 ATTTTTAATA
1 ATTTTTAATA
3590501 ATTTTTAGATA
1 ATTTTTA-ATA
*
3590512 A-GTTTAATA
1 ATTTTTAATA
3590521 ATTTATT-ATAA
1 ATTT-TTAAT-A
*
3590532 ATTTTAAATA
1 ATTTTTAATA
3590542 ATTCTTTAA
1 ATT-TTTAA
3590551 ATTTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
9 4 0.10
10 19 0.47
11 17 0.43
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:3590537 original size:20 final size:20
Alignment explanation
Indices: 3590493--3590549 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
3590483 TGGACATTAT
3590493 TTTTAATAATTTTTAGATAA
1 TTTTAATAATTTTTAGATAA
* *
3590513 GTTTAATAATTTATTATA-AA
1 TTTTAATAATTT-TTAGATAA
3590533 TTTTAAATAATTCTTTA
1 TTTT-AATAATT-TTTA
3590550 AATTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 16 0.52
21 14 0.45
22 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTTAATAATTTTTAGATAA
Found at i:3590668 original size:17 final size:18
Alignment explanation
Indices: 3590646--3590693 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
3590636 TATTAAGGAA
*
3590646 TTTTATTTTTT-TAGATT
1 TTTTATTTTTTAAAGATT
*
3590663 TTTTATTTCTTTAAATATT
1 TTTTATTT-TTTAAAGATT
3590682 TTTTATTTTTTA
1 TTTTATTTTTTA
3590694 TTAGATGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 8 0.30
18 7 0.26
19 12 0.44
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTTAAAGATT
Found at i:3592608 original size:12 final size:12
Alignment explanation
Indices: 3592591--3592634 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
3592581 ACGAATAACC
3592591 AAATAAAAAATT
1 AAATAAAAAATT
*
3592603 AAATAAAAAAAT
1 AAATAAAAAATT
*
3592615 AACAAAAAATAATT
1 AA-ATAAAA-AATT
3592629 AAATAA
1 AAATAA
3592635 GGTTAATAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 13 0.50
13 8 0.31
14 5 0.19
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (12 bp):
AAATAAAAAATT
Found at i:3596057 original size:29 final size:29
Alignment explanation
Indices: 3596015--3596273 Score: 181
Period size: 29 Copynumber: 8.9 Consensus size: 29
3596005 TGTGCTAAAA
** *
3596015 CGATGGTTGTAACCATCCTTTTTCATATT
1 CGATGGTCATAACCATCCCTTTTCATATT
* *
3596044 CGATGGTCAAAACCATCCCTTTTCATTAAT
1 CGATGGTCATAACCATCCCTTTTCA-TATT
* *
3596074 CGACGGTCATCACCATCCCTTTTCATAGTT
1 CGATGGTCATAACCATCCCTTTTCATA-TT
* *
3596104 -GATGGTCGTCACCATCCCTTTTCATAATT
1 CGATGGTCATAACCATCCCTTTTCAT-ATT
* * *
3596133 -AATAG-C-TGAAGCTATCCCTTTTCATATT
1 CGATGGTCAT-AA-CCATCCCTTTTCATATT
** *
3596161 CGATGGTTGTCACCATCCCTTTTCATAGTT
1 CGATGGTCATAACCATCCCTTTTCATA-TT
* * *
3596191 -GATGGTCATCACCTTCCCATTTCATAATT
1 CGATGGTCATAACCATCCCTTTTCAT-ATT
* * * *
3596220 -AATAGTCGA-AGCTATCCCTTTTCATATT
1 CGATGGTC-ATAACCATCCCTTTTCATATT
* *
3596248 CGATGGTCGTCACCATCCCTTTTCAT
1 CGATGGTCATAACCATCCCTTTTCAT
3596274 TGGTCGATGA
Statistics
Matches: 180, Mismatches: 37, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
27 1 0.01
28 8 0.04
29 138 0.77
30 32 0.18
31 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.38
Consensus pattern (29 bp):
CGATGGTCATAACCATCCCTTTTCATATT
Found at i:3596082 original size:30 final size:30
Alignment explanation
Indices: 3596025--3596099 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
3596015 CGATGGTTGT
* * *
3596025 AACCATCCTTTTTCA-TATTCGATGGTCAA
1 AACCATCCCTTTTCATTAATCGACGGTCAA
*
3596054 AACCATCCCTTTTCATTAATCGACGGTCAT
1 AACCATCCCTTTTCATTAATCGACGGTCAA
*
3596084 CACCATCCCTTTTCAT
1 AACCATCCCTTTTCAT
3596100 AGTTGATGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 14 0.35
30 26 0.65
ACGTcount: A:0.25, C:0.31, G:0.08, T:0.36
Consensus pattern (30 bp):
AACCATCCCTTTTCATTAATCGACGGTCAA
Found at i:3596197 original size:87 final size:87
Alignment explanation
Indices: 3596058--3596273 Score: 344
Period size: 87 Copynumber: 2.5 Consensus size: 87
3596048 GGTCAAAACC
* * * * *
3596058 ATCCCTTTTCATTAATCGACGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCT
1 ATCCCTTTTCA-TATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCA
3596123 TTTCATAATTAATAG-CTGAAGCT
65 TTTCATAATTAATAGTC-GAAGCT
* *
3596146 ATCCCTTTTCATATTCGATGGTTGTCACCATCCCTTTTCATAGTTGATGGTCATCACCTTCCCAT
1 ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCAT
3596211 TTCATAATTAATAGTCGAAGCT
66 TTCATAATTAATAGTCGAAGCT
3596233 ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCAT
1 ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCAT
3596274 TGGTCGATGA
Statistics
Matches: 119, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
87 107 0.90
88 12 0.10
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.38
Consensus pattern (87 bp):
ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCAT
TTCATAATTAATAGTCGAAGCT
Found at i:3596214 original size:58 final size:58
Alignment explanation
Indices: 3596034--3596273 Score: 204
Period size: 58 Copynumber: 4.1 Consensus size: 58
3596024 TAACCATCCT
*** * * *
3596034 TTTTCATATTCGATGGTCAAAACCATCCCTTTTCATTAATCGACGGTCATCACCATCCC
1 TTTTCATATTCGATGGTCGTCACCATCCCTTTTCA-TAATTGATGGTCATCACCTTCCC
* * * *
3596093 TTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATAATTAATAG-C-TGAAGCTATCCC
1 TTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCATAATTGATGGTCAT-CACCT-TCCC
* *
3596151 TTTTCATATTCGATGGTTGTCACCATCCCTTTTCATAGTTGATGGTCATCACCTTCCC
1 TTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATTGATGGTCATCACCTTCCC
* * * * * * *
3596209 ATTTCATAATT-AATAGTCG-AAGCTATCCCTTTTCAT-ATTCGATGGTCGTCACCATCCC
1 TTTTCAT-ATTCGATGGTCGTCA-CCATCCCTTTTCATAATT-GATGGTCATCACCTTCCC
3596267 TTTTCAT
1 TTTTCAT
3596274 TGGTCGATGA
Statistics
Matches: 146, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
56 1 0.01
57 8 0.05
58 98 0.67
59 36 0.25
60 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (58 bp):
TTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATTGATGGTCATCACCTTCCC
Found at i:3600621 original size:40 final size:40
Alignment explanation
Indices: 3600577--3600670 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 40
3600567 CTATTTGTGG
** *
3600577 CACTTAGTGTGCGATTCGACATAGTTTCGGCTATATATGA
1 CACTTAGTGTGCGATTCGACATAGCGTCGGCTATATACGA
* * * *
3600617 CACTTAGTGTGCGATTTGAGATAGCGTCGGCTATGTACGG
1 CACTTAGTGTGCGATTCGACATAGCGTCGGCTATATACGA
*
3600657 CACTTAGTTTGCGA
1 CACTTAGTGTGCGA
3600671 GATATCAAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (40 bp):
CACTTAGTGTGCGATTCGACATAGCGTCGGCTATATACGA
Found at i:3600697 original size:28 final size:28
Alignment explanation
Indices: 3600655--3600727 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
3600645 GGCTATGTAC
* *
3600655 GGCACTTAGTTTGCGAGATATCAAGTGT
1 GGCACTTAGTGTGCGAGATATCAAGTAT
* **
3600683 GGCACTTAGTGTGCGAAATATTGAGTAT
1 GGCACTTAGTGTGCGAGATATCAAGTAT
*
3600711 GGCACTAAGTGTGCGAG
1 GGCACTTAGTGTGCGAG
3600728 GCATTGAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.29
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGATATCAAGTAT
Found at i:3600733 original size:28 final size:28
Alignment explanation
Indices: 3600682--3600738 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
3600672 ATATCAAGTG
* *
3600682 TGGCACTTAGTGTGCGAAATATTGAGTA
1 TGGCACTAAGTGTGCGAAACATTGAGTA
**
3600710 TGGCACTAAGTGTGCGAGGCATTGAGTA
1 TGGCACTAAGTGTGCGAAACATTGAGTA
3600738 T
1 T
3600739 TCAACGACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAAACATTGAGTA
Found at i:3605835 original size:14 final size:13
Alignment explanation
Indices: 3605796--3605835 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
3605786 GTGTTACAAT
*
3605796 TTAATTAAAAAAA
1 TTAATTAATAAAA
3605809 TTAATTAATTAAAA
1 TTAATTAA-TAAAA
3605823 TTAATTTAATAAA
1 TTAA-TTAATAAA
3605836 TAATGTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 12 0.50
15 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAATTAATAAAA
Found at i:3612020 original size:24 final size:24
Alignment explanation
Indices: 3611993--3612041 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
3611983 ACTGAGCTGT
3611993 AAGGTTATGACTAATTTGAGGGCA
1 AAGGTTATGACTAATTTGAGGGCA
3612017 AAGGTTATGACTAATTTGAGGGCA
1 AAGGTTATGACTAATTTGAGGGCA
3612041 A
1 A
3612042 TGTTTGCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (24 bp):
AAGGTTATGACTAATTTGAGGGCA
Found at i:3630647 original size:40 final size:40
Alignment explanation
Indices: 3630552--3630769 Score: 257
Period size: 40 Copynumber: 5.5 Consensus size: 40
3630542 AAGCCAAGTA
* * *
3630552 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
3630590 CCTTCGGGACATT-GCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGAC-TTAGCCCGGATATAGTAACTCGCACAAATG
* *
3630630 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
3630670 CCTTCGGGACTTAGCTCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
3630710 CCTTCGGGACTTAGCCCAGTTATAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT--CGCACAAATG
3630751 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
3630770 TTATCATCCA
Statistics
Matches: 159, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
38 10 0.06
39 21 0.13
40 101 0.64
41 23 0.14
42 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:3631187 original size:40 final size:40
Alignment explanation
Indices: 3631105--3631282 Score: 211
Period size: 40 Copynumber: 4.5 Consensus size: 40
3631095 AAGCCAAGTA
* * * *
3631105 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
* * *
3631143 CCTTCGGGACATAGCCCGGATATAGTAACTTGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
3631183 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
3631223 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCAC-AAATG
3631264 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
3631283 TTATCATCCA
Statistics
Matches: 124, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
38 12 0.10
39 17 0.14
40 71 0.57
41 24 0.19
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:3631592 original size:513 final size:513
Alignment explanation
Indices: 3630605--3631880 Score: 2412
Period size: 513 Copynumber: 2.5 Consensus size: 513
3630595 GGGACATTGC
* * * * * *
3630605 CCGGATATAG-TAACTCGCACCAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAAT
1 CCGGATATAGCT-ACTCGC-TCAATGCCTTCGGGACATAGCCCGGATATAGTAACTTGCACCAAT
* * * **
3630669 GCCTTCGGGACTTAGCTCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTA-T
64 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-GGAACT
3630733 AGTCACTAGCGCAAAATGCCTTCGGGACTTAGCCCGGTTATCATCCAAATATTCATGCACATATC
128 AGTCACTAGCGCAAAATGCCTTCGGGACTTAGCCCGGTTATCATCCAAATATTCATGCACATATC
3630798 AATAAATCATGACACATCTATATTTCATTTTCATAATTAGAGTTCAAACACAAGTCACGTATTAA
193 AATAAATCATGACACATCTATATTTCATTTTCATAATTAGAGTTCAAACACAAGTCACGTATTAA
3630863 GCAATCCCATTTCATATGCACAAATTCTCAATATCATACTTACTTCACATTACCAACCCTTATAT
258 GCAATCCCATTTCATATGCACAAATTCTCAATATCATACTTACTTCACATTACCAACCCTTATAT
3630928 TCATACACAAAAGATCAACTTAGCCAAAGGCCGGTAGCTCATTTATCGACTGAGCGAATACTAAT
323 TCATACACAAAAGATCAACTTAGCCAAAGGCCGGTAGCTCATTTATCGACTGAGCGAATACTAAT
3630993 TGTAAGGGATCAACTAAATCAATGCATATACGAGACATACCTCATTGCTGGGATTTTACGAGCAT
388 TGTAAGGGATCAACTAAATCAATGCATATACGAGACATACCTCATTGCTGGGATTTTACGAGCAT
3631058 ATTAATTGAAACTATTACAGCAAGGTCGCTCATTCCCAAGCCAAGTACCTTCGGGATTTAA
453 ATTAATTGAAACTATTACAGCAAGGTCGCTCATTCCCAAGCCAAGTACCTTCGGGATTTAA
3631119 CCGGATATAGCTACTCGCTCAATGCCTTCGGGACATAGCCCGGATATAGTAACTTGCACCAATGC
1 CCGGATATAGCTACTCGCTCAATGCCTTCGGGACATAGCCCGGATATAGTAACTTGCACCAATGC
3631184 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
66 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
3631249 CACTAGCGCAAAATGCCTTCGGGACTTAGCCCGGTTATCATCCAAATATTCATGCACATATCAAT
131 CACTAGCGCAAAATGCCTTCGGGACTTAGCCCGGTTATCATCCAAATATTCATGCACATATCAAT
3631314 AAATCATGACACATCTATATTTCATTTTCATAATTAGAGTTCAAACACAAGTCACGTATTAAGCA
196 AAATCATGACACATCTATATTTCATTTTCATAATTAGAGTTCAAACACAAGTCACGTATTAAGCA
3631379 ATCCCATTTCATATGCACAAATTCTCAATATCATACTTACTTCACATTACCAACCCTTATATTCA
261 ATCCCATTTCATATGCACAAATTCTCAATATCATACTTACTTCACATTACCAACCCTTATATTCA
3631444 TACACAAAAGATCAACTTAGCCAAAGGCCGGTAGCTCATTTATCGACTGAGCGAATACTAATTGT
326 TACACAAAAGATCAACTTAGCCAAAGGCCGGTAGCTCATTTATCGACTGAGCGAATACTAATTGT
3631509 AAGGGATCAACTAAATCAATGCATATACGAGACATACCTCATTGCTGGGATTTTACGAGCATATT
391 AAGGGATCAACTAAATCAATGCATATACGAGACATACCTCATTGCTGGGATTTTACGAGCATATT
3631574 AATTGAAACTATTACAGCAAGGTCGCTCATTCCCAAGCCAAGTACCTTCGGGATTTAA
456 AATTGAAACTATTACAGCAAGGTCGCTCATTCCCAAGCCAAGTACCTTCGGGATTTAA
3631632 CCGGATATAGCTACTCGCTCAATGCCTTCGGGACATAGCCCGGATATAGTAACTTGCACCAATGC
1 CCGGATATAGCTACTCGCTCAATGCCTTCGGGACATAGCCCGGATATAGTAACTTGCACCAATGC
3631697 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
66 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
3631762 CACTAGCGCAAAATGCCTTCGGGACTTAGCCCGGTTATCATCCAAATATTCATGCACATATCAAT
131 CACTAGCGCAAAATGCCTTCGGGACTTAGCCCGGTTATCATCCAAATATTCATGCACATATCAAT
3631827 AAATCATGACACATCTATATTTCATTTTCATAATTAGAGTTCAAACACAAGTCA
196 AAATCATGACACATCTATATTTCATTTTCATAATTAGAGTTCAAACACAAGTCA
3631881 TTAACCTATC
Statistics
Matches: 749, Mismatches: 11, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
512 2 0.00
513 730 0.97
514 16 0.02
515 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (513 bp):
CCGGATATAGCTACTCGCTCAATGCCTTCGGGACATAGCCCGGATATAGTAACTTGCACCAATGC
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
CACTAGCGCAAAATGCCTTCGGGACTTAGCCCGGTTATCATCCAAATATTCATGCACATATCAAT
AAATCATGACACATCTATATTTCATTTTCATAATTAGAGTTCAAACACAAGTCACGTATTAAGCA
ATCCCATTTCATATGCACAAATTCTCAATATCATACTTACTTCACATTACCAACCCTTATATTCA
TACACAAAAGATCAACTTAGCCAAAGGCCGGTAGCTCATTTATCGACTGAGCGAATACTAATTGT
AAGGGATCAACTAAATCAATGCATATACGAGACATACCTCATTGCTGGGATTTTACGAGCATATT
AATTGAAACTATTACAGCAAGGTCGCTCATTCCCAAGCCAAGTACCTTCGGGATTTAA
Found at i:3631700 original size:40 final size:40
Alignment explanation
Indices: 3631618--3631795 Score: 211
Period size: 40 Copynumber: 4.5 Consensus size: 40
3631608 AAGCCAAGTA
* * * *
3631618 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
* * *
3631656 CCTTCGGGACATAGCCCGGATATAGTAACTTGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
3631696 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
3631736 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCAC-AAATG
3631777 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
3631796 TTATCATCCA
Statistics
Matches: 124, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
38 12 0.10
39 17 0.14
40 71 0.57
41 24 0.19
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:3638337 original size:40 final size:40
Alignment explanation
Indices: 3638242--3638458 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
3638232 AAGCCAAGTA
* * *
3638242 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
3638280 CCTTCGGGACATT-GCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGAC-TTAGCCCGGATATAGTAACTCGCACAAATG
*
3638320 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
3638360 CCTTCGGGACTTAGCCTGGATGTAATAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
3638400 CCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
3638440 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
3638459 TTATCATCCG
Statistics
Matches: 161, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
38 10 0.06
39 21 0.13
40 130 0.81
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:3647191 original size:39 final size:40
Alignment explanation
Indices: 3647146--3647317 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
3647136 GCTCCTCGTT
* * *
3647146 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
3647186 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
3647225 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
3647265 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
3647305 CAAATGCCTTCGG
1 CAAATGCCTTCGG
3647318 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:3647246 original size:40 final size:39
Alignment explanation
Indices: 3647148--3647370 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
3647138 TCCTCGTTCA
* * * *
3647148 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
3647187 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
3647226 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
3647266 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
3647306 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
3647347 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
3647371 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:3647330 original size:80 final size:79
Alignment explanation
Indices: 3647146--3647370 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
3647136 GCTCCTCGTT
* * * * *
3647146 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
3647210 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
3647225 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
3647290 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
3647305 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
3647369 GA
63 GA
3647371 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:3647379 original size:41 final size:41
Alignment explanation
Indices: 3647302--3647379 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
3647292 TTTGTATCTC
* * *
3647302 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
3647343 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
3647380 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:3651708 original size:13 final size:13
Alignment explanation
Indices: 3651690--3651716 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3651680 AAAGTAATTG
3651690 CACACGGGCGTGT
1 CACACGGGCGTGT
3651703 CACACGGGCGTGT
1 CACACGGGCGTGT
3651716 C
1 C
3651717 CCTGCCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:3652713 original size:51 final size:51
Alignment explanation
Indices: 3652583--3653528 Score: 1451
Period size: 51 Copynumber: 18.7 Consensus size: 51
3652573 ATTGTGAATA
* * **
3652583 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-AT-ACTGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-T
* *
3652633 CGCCTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
3652684 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
3652735 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
3652786 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
3652837 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
3652888 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
3652939 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
3652990 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
3653041 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
3653092 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
3653143 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
3653194 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
* * **
3653245 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-AT-ACTGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-T
* *
3653295 CGCCTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
* ** *
3653346 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTTTAC-CAGATTG--TTAG-T
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-A-TGACTTCGAT
* * * *
3653395 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG--TTAG-T
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-A-TGACTTCGAT
* * * *
3653444 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG--TTAG-T
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-A-TGACTTCGAT
*
3653493 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTA
3653529 TCAGATAGCT
Statistics
Matches: 858, Mismatches: 28, Indels: 21
0.95 0.03 0.02
Matches are distributed among these distances:
48 3 0.00
49 135 0.16
50 73 0.09
51 631 0.74
52 10 0.01
53 6 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
Found at i:3654372 original size:13 final size:13
Alignment explanation
Indices: 3654354--3654379 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3654344 TACTAGTATG
3654354 ATTGTTTTACTTT
1 ATTGTTTTACTTT
3654367 ATTGTTTTACTTT
1 ATTGTTTTACTTT
3654380 GATAAATTGA
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:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
ATTGTTTTACTTT
Found at i:3656727 original size:64 final size:64
Alignment explanation
Indices: 3656646--3656830 Score: 196
Period size: 67 Copynumber: 2.9 Consensus size: 64
3656636 AGACATTATG
* *
3656646 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
3656710 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
3656775 AA
63 AA
* * * *
3656777 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGCT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCT
3656831 GAACTATATG
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:3663742 original size:167 final size:166
Alignment explanation
Indices: 3663450--3663781 Score: 628
Period size: 167 Copynumber: 2.0 Consensus size: 166
3663440 TTTTGGAAAG
*
3663450 TTTAGTAGTAAGGGCATTTTGGTCATTTGTATATTAAATGAAATAAAATGGGAAAAATAACATAA
1 TTTAGTAGTAAGGGCATTTTGGTCATTTGTATATTAAATGAAATAAAATGGGAAAAATAACAAAA
*
3663515 AAATGGTCATCTTCTCAATTAGTTGCTGCCAAGTTTTTGCTCTCGTCCATAGCTAGGGTTTCTTC
66 AAATGGTCATCTTCTCAATTAGTTGCTGCCAAATTTTTGCTCTCGTCCATAGCTAGGGTTTCTTC
*
3663580 AATTTTCAAGCTTCATAATCAAGAAAGATGTGGAAT
131 AATTTTCAAGCTTCATAATCAAGAAAGACGTGGAAT
3663616 TTTAGTAGTAAGGGCATTTTGGTCATTTGTATATTAAATGAAATAAAATGGGAAAAATAACACAA
1 TTTAGTAGTAAGGGCATTTTGGTCATTTGTATATTAAATGAAATAAAATGGGAAAAATAACA-AA
3663681 AAAATGGTCATCTTCTCAATTAGTTGCTGCCAAATTTTTGCTCTCGTCCATAGCTAGGGTTTCTT
65 AAAATGGTCATCTTCTCAATTAGTTGCTGCCAAATTTTTGCTCTCGTCCATAGCTAGGGTTTCTT
3663746 CAATTTTCAAGCTTCATAATCAAGAAAGACGTGGAA
130 CAATTTTCAAGCTTCATAATCAAGAAAGACGTGGAA
3663782 GCGATCGTGA
Statistics
Matches: 162, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
166 62 0.38
167 100 0.62
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (166 bp):
TTTAGTAGTAAGGGCATTTTGGTCATTTGTATATTAAATGAAATAAAATGGGAAAAATAACAAAA
AAATGGTCATCTTCTCAATTAGTTGCTGCCAAATTTTTGCTCTCGTCCATAGCTAGGGTTTCTTC
AATTTTCAAGCTTCATAATCAAGAAAGACGTGGAAT
Found at i:3664173 original size:51 final size:51
Alignment explanation
Indices: 3664043--3664934 Score: 1512
Period size: 51 Copynumber: 17.5 Consensus size: 51
3664033 ATTGTGAATA
* ** **
3664043 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-AT-ACTGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACT-TCGA-T
*
3664093 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
3664144 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
3664195 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
3664246 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
3664297 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
3664348 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
3664399 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
3664450 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
3664501 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
3664552 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
3664603 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
3664654 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
3664705 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
* ** **
3664756 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-AT-ACTGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACT-TCGA-T
*
3664806 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
* ** * ** *
3664857 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG-GTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCA-ATGACTTCGAT
3664907 CACGTGTGTAGTACTAAGTGCAGGCTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTAC
3664935 CACGTGCACC
Statistics
Matches: 807, Mismatches: 26, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
48 3 0.00
49 4 0.00
50 102 0.13
51 684 0.85
52 8 0.01
53 6 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
Found at i:3664890 original size:28 final size:27
Alignment explanation
Indices: 3664857--3664940 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
3664847 TGACTTCGAT
3664857 CACGTGTGTAGTACTAAGTGCAGGCTA
1 CACGTGTGTAGTACTAAGTGCAGGCTA
* *
3664884 CTACGTGTATCAG-A-T-GGTG-AGG-T-
1 C-ACGTGTGT-AGTACTAAGTGCAGGCTA
3664907 CACGTGTGTAGTACTAAGTGCAGGCTA
1 CACGTGTGTAGTACTAAGTGCAGGCTA
3664934 CCACGTG
1 -CACGTG
3664941 CACCAGATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 17
0.68 0.06 0.26
Matches are distributed among these distances:
21 2 0.05
22 8 0.18
23 2 0.05
24 4 0.09
25 6 0.14
26 4 0.09
27 2 0.05
28 14 0.32
29 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (27 bp):
CACGTGTGTAGTACTAAGTGCAGGCTA
Found at i:3665115 original size:27 final size:26
Alignment explanation
Indices: 3665085--3665136 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
3665075 GGGAAAATCG
3665085 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
3665112 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
3665137 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:3683732 original size:29 final size:31
Alignment explanation
Indices: 3683683--3683741 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
3683673 AATGTGTATC
* *
3683683 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
3683712 TATTTATTCTAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
3683742 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:3699244 original size:19 final size:19
Alignment explanation
Indices: 3699222--3699259 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3699212 AGAGTCTGGG
3699222 AAAGAGTTCACTGTCTATA
1 AAAGAGTTCACTGTCTATA
3699241 AAAGAGTTCACTGTCTATA
1 AAAGAGTTCACTGTCTATA
3699260 GTGATGCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
AAAGAGTTCACTGTCTATA
Found at i:3704889 original size:30 final size:30
Alignment explanation
Indices: 3704855--3704912 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3704845 TTTTCGGGCA
* *
3704855 TAGGGGTAAAACGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAACGGTCATTTTACCAAAGTC
*
3704885 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAACGGTCATTTTACCAAAG
3704913 ATGTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAACGGTCATTTTACCAAAGTC
Found at i:3705417 original size:94 final size:91
Alignment explanation
Indices: 3705252--3705565 Score: 268
Period size: 94 Copynumber: 3.4 Consensus size: 91
3705242 TGATTTGTGC
* * ** *
3705252 GCCAGTGTAAGACATGTCTAGGACAT-GCTTCTGTCACATTATGAGAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATC-G-CACAAGATGAGTGCCAGTGTAAGA-CATGT
*
3705316 CTAGGACATGCATCATCTATACTATGATA
63 CTAGGACATGCATCACCTATACTATGATA
3705345 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGAGATGAGTGCCAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATC-GCACA-AGATGAGTGCCAGTGTAAGACATGT
* *
3705410 CTGGGACATGCATCAGCCT-TGAC-AGAGATA
63 CTAGGACATGCATCA-CCTAT-ACTA-TGATA
** * * *
3705440 GCCAGTGTAAGATGTGTCTGGGACA-CGCATCG-ACTAAGA-GTTGTGCTAGTGTAAGACATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGCAC-AAGATG-AGTGCCAGTGTAAGACATGTC
*
3705502 TTA-GACATGCATCAGCGC-ACGTA-TATGAGA
64 -TAGGACATGCATCA-C-CTA--TACTATGATA
* *
3705532 GCCAGTGGAAGACCATGTCTGGGACATGACATCG
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
3705566 GCAATATATC
Statistics
Matches: 183, Mismatches: 22, Indels: 31
0.78 0.09 0.13
Matches are distributed among these distances:
90 1 0.01
91 37 0.20
92 18 0.10
93 30 0.16
94 55 0.30
95 42 0.23
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (91 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGCACAAGATGAGTGCCAGTGTAAGACATGTCTA
GGACATGCATCACCTATACTATGATA
Found at i:3705444 original size:47 final size:46
Alignment explanation
Indices: 3705252--3705564 Score: 216
Period size: 47 Copynumber: 6.7 Consensus size: 46
3705242 TGATTTGTGC
* * * * *
3705252 GCCAGTGTAAGACATGTCTAGGACATGCTTCTGTC-ACATTATGA-GA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTACA-GA-GATGA
* * * *
3705298 GCCAGTGTAAGACCATGTCTAGGACATGCATCATCTATACTA-TGAT-A
1 GCCAGTGTAAGA-CATGTCTGGGACATGCATCAGC-CTAC-AGAGATGA
3705345 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-C-ACAGAGATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTACAGAGATGA
3705391 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGACAGAGAT-A
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCAGCC-T-ACAGAGATGA
** * * * *
3705440 GCCAGTGTAAGATGTGTCTGGGACACGCATC-GACTA-AGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTACAGAGATGA
* ** *
3705484 GCTAGTGTAAGACATGTCTTAGACATGCATCAGCGC-AC-GTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC-CTACAG-AGAT--GA
*
3705532 GCCAGTGGAAGACCATGTCTGGGACATGACATC
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATC
3705565 GGCAATATAT
Statistics
Matches: 214, Mismatches: 30, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
43 5 0.02
44 27 0.13
45 9 0.04
46 25 0.12
47 90 0.42
48 29 0.14
49 16 0.07
50 13 0.06
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTACAGAGATGA
Found at i:3708414 original size:47 final size:46
Alignment explanation
Indices: 3708257--3708616 Score: 203
Period size: 47 Copynumber: 7.7 Consensus size: 46
3708247 ATATATTGCC
*
3708257 GATGCCATGTCCCAGACATGGTCTTACACTGGCT--CTCATATACGCGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTACCTC-T-T-CGAG-GCT
* *
3708307 GATGCATGTCCCAGACATGTCTTACACTAGC-ACAACTCTT--A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTAC--CTCTTCGAGGCT
* * *
3708351 GATGCGTGTCCTAGACACGTCTTACACTGGCTACCTCTGTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTACCTCT-TCGAGGCT
* * * *
3708398 AATGCATGTCCCAGACATGTCTTACACTGGC-A-CTCATCTCTGTGCCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTACCTC-T-TC-GAGGCT
* *
3708445 G-TGCCATGTCCCAGACATGGTCTTACACTGGCTA--TCATAGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTACCTCTTCG-A-GGCT
* * * * *
3708492 GATGCATGTCCTAGACATGTCTTACACTAGC--CCTCGTCTGGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTACCTC-T-TCGAGGCT
* * *
3708538 GATGCCATGTCCCAGACATGGTTTTACACTGGCT--CTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTACCTC-T--TCGAGGCT
* *
3708586 GAAGCATGTCCCAGACATGACTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
3708617 GCACAAATCA
Statistics
Matches: 247, Mismatches: 38, Indels: 54
0.73 0.11 0.16
Matches are distributed among these distances:
43 4 0.02
44 30 0.12
45 6 0.02
46 39 0.16
47 90 0.36
48 53 0.21
49 17 0.07
50 5 0.02
51 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTACCTCTTCGAGGCT
Found at i:3708510 original size:94 final size:94
Alignment explanation
Indices: 3708253--3708613 Score: 384
Period size: 94 Copynumber: 3.9 Consensus size: 94
3708243 TGGGATATAT
* *
3708253 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCGTGCTGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCTGATGCATGTC
*
3708317 CCAGACATGTCTTACACTAGCA--CAACTCT-
63 CCAGACATGTCTTACACTAGCACTCATCTCTG
* * * *
3708346 TAGCCGATG-CGTGTCCTAGACA-CGTCTTACACTGGCTACCTC-T-GTCGA-GGCTAATGCATG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA--TCATAGT--ATGGCTGATGCATG
*
3708406 TCCCAGACATGTCTTACACTGGCACTCATCTCTG
61 TCCCAGACATGTCTTACACTAGCACTCATCTCTG
*
3708440 TGCC-AGTGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCT
1 TGCCGA-TGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCC
* * *
3708504 AGACATGTCTTACACTAGCCCTCGTCT-GG
65 AGACATGTCTTACACTAGCACTCATCTCTG
* * * * * *
3708533 ATGCCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCC
*
3708598 AGACATGACTTACACT
65 AGACATGTCTTACACT
3708614 GGCGCACAAA
Statistics
Matches: 227, Mismatches: 24, Indels: 33
0.80 0.08 0.12
Matches are distributed among these distances:
91 33 0.15
92 16 0.07
93 29 0.13
94 130 0.57
95 19 0.08
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTCTG
Found at i:3708997 original size:30 final size:30
Alignment explanation
Indices: 3708957--3709013 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
3708947 AATTTACATC
* *
3708957 TTTGGTAAAATGACCATTTTGCCCCTAGAT
1 TTTGGCAAAATGACCATTTTACCCCTAGAT
3708987 TTTGGCAAAATGACCATTTTACCCCTA
1 TTTGGCAAAATGACCATTTTACCCCTA
3709014 TGCTTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (30 bp):
TTTGGCAAAATGACCATTTTACCCCTAGAT
Found at i:3718319 original size:19 final size:19
Alignment explanation
Indices: 3718282--3718319 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3718272 ACCTGTCAGA
*
3718282 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
3718301 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
3718320 CAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:3719755 original size:46 final size:46
Alignment explanation
Indices: 3719705--3719880 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
3719695 TGGTTGAGCA
*
3719705 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
3719751 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * * *
3719798 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
3719844 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
3719881 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 72 0.68
47 34 0.32
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:3719861 original size:93 final size:93
Alignment explanation
Indices: 3719702--3719872 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
3719692 GGATGGTTGA
* ***
3719702 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
3719767 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
3719795 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
3719860 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
3719873 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:3726451 original size:29 final size:29
Alignment explanation
Indices: 3726412--3726507 Score: 115
Period size: 29 Copynumber: 3.3 Consensus size: 29
3726402 CCGACGAATG
*
3726412 AAAAGGGATAGCTTTGGCTATCGAAT-TAA
1 AAAAGGGATAGCTTCGGCTATCGAATAT-A
* * *
3726441 AAAAGGAATAGCTTCAGCTATCGAATATG
1 AAAAGGGATAGCTTCGGCTATCGAATATA
*
3726470 AAAAGGGATAGCTTCGGCTATC-AATGATG
1 AAAAGGGATAGCTTCGGCTATCGAAT-ATA
3726499 AAAAGGGAT
1 AAAAGGGAT
3726508 GGTGATGACC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
28 3 0.05
29 55 0.93
30 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.24
Consensus pattern (29 bp):
AAAAGGGATAGCTTCGGCTATCGAATATA
Found at i:3728306 original size:43 final size:43
Alignment explanation
Indices: 3728258--3728354 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
3728248 TTGTGATTCG
*
3728258 TGTAAGACCATGCCTAGGACATTGGCATCGA-AGTGAGAAAACA
1 TGTAAGACCATGCCTAGGACAGTGGCATCGATA-TGAGAAAACA
* * * * * * *
3728301 TGTAAGACCCTGTCTGGGACAGTGGCATTGATATGTGATAGCA
1 TGTAAGACCATGCCTAGGACAGTGGCATCGATATGAGAAAACA
3728344 TGTAAGACCAT
1 TGTAAGACCAT
3728355 ATCCGGGATA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
43 43 0.98
44 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (43 bp):
TGTAAGACCATGCCTAGGACAGTGGCATCGATATGAGAAAACA
Found at i:3730635 original size:40 final size:40
Alignment explanation
Indices: 3730581--3730786 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
3730571 GAATTTAACA
* *
3730581 GGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
3730621 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
3730661 GGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
3730700 -GAAATTAGTAACTTGCACAAATGCCTTC-GGATCTTAGTCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCC
** * *
3730740 GGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCC
1 GGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
3730781 GGATAT
1 GGATAT
3730787 CATTCGAATA
Statistics
Matches: 140, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
38 4 0.03
39 29 0.21
40 74 0.53
41 30 0.21
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:3730699 original size:79 final size:81
Alignment explanation
Indices: 3730565--3730783 Score: 227
Period size: 79 Copynumber: 2.7 Consensus size: 81
3730555 GAATCACATA
* * * **
3730565 CCTTCGGAAT-TTAA-CAGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTA-
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAAT
3730626 TAGTAACTCGCACAAATG
64 TAGTAACTCGCACAAATG
* *
3730644 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCC-GAAATT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATT
*
3730706 AGTAACTTGCACAAATG
65 AGTAACTCGCACAAATG
** ** * *
3730723 CCTTCGGATCTTAGTCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
3730784 TATCATTCGA
Statistics
Matches: 115, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
78 5 0.04
79 55 0.48
80 45 0.39
81 8 0.07
82 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATTA
GTAACTCGCACAAATG
Found at i:3738917 original size:39 final size:40
Alignment explanation
Indices: 3738803--3738989 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
3738793 GCTACTCGCT
*
3738803 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGTA
*
3738843 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGTA
* * *
3738883 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGTA
* * * ** * *
3738922 CAAATGCCTTC-AGATCTTAGTCCGGATATAGTCGCTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGTA
* *
3738963 CAAAAGCCTTCAGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
3738990 ATCATTCGAA
Statistics
Matches: 125, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 32 0.26
40 63 0.50
41 27 0.22
42 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGTA
Found at i:3738947 original size:79 final size:80
Alignment explanation
Indices: 3738780--3738953 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
3738770 CCTTCGGAAT
* * *
3738780 TTAA-CCGGATATAGCT-ACTCGCT-CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGT
1 TTAACCCGGATATAG-TAACTCG-TACCAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGC
*
3738842 ACAAATGCCTTCGGGAC
64 ACAAATGCCTTCGAGAC
* *
3738859 TTAACCCGGATTTAGTAACTCGTACCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 TTAACCCGGATATAGTAACTCGTACCAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCA
3738922 CAAATGCCTTC-AGATC
65 CAAATGCCTTCGAGA-C
**
3738938 TTAGTCCGGATATAGT
1 TTAACCCGGATATAGT
3738954 CGCTTAGCAC
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
78 3 0.04
79 51 0.63
80 27 0.33
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
TTAACCCGGATATAGTAACTCGTACCAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC
AAATGCCTTCGAGAC
Found at i:3741383 original size:104 final size:104
Alignment explanation
Indices: 3741196--3741406 Score: 314
Period size: 104 Copynumber: 2.0 Consensus size: 104
3741186 CACACGAGAG
* * * *
3741196 AAATTATCCAACCCATGATCTCGAACTAGCCGCCATCGTATTTGCTTTGAGAATATGGCGACATT
1 AAATTATCCAACCCATGAACTCGAACTAGCCGCCATCGTATTCGCCTTGAAAATATGGCGACATT
* *
3741261 ATTTGTTTGGCGAAAAGTGCCATGTATTTTCGGATCACA
66 ATTTATTTGGCGAAAAGTGCCATGTATATTCGGATCACA
** * *
3741300 AAATTATCTGACCCATGAACTCGAACTAGCTGCCATCGTGTTCGCCTTGAAAATATGGCGACATT
1 AAATTATCCAACCCATGAACTCGAACTAGCCGCCATCGTATTCGCCTTGAAAATATGGCGACATT
* *
3741365 ATTTATTTGGTGAGAAGTGCCATGTATATTCGGATCACA
66 ATTTATTTGGCGAAAAGTGCCATGTATATTCGGATCACA
3741404 AAA
1 AAA
3741407 GTCTCAAATA
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
104 95 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (104 bp):
AAATTATCCAACCCATGAACTCGAACTAGCCGCCATCGTATTCGCCTTGAAAATATGGCGACATT
ATTTATTTGGCGAAAAGTGCCATGTATATTCGGATCACA
Found at i:3741721 original size:41 final size:41
Alignment explanation
Indices: 3741664--3741745 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
3741654 TCAGAAAGTC
*
3741664 GATGATGAATTGGTTGCAAAACGGGCT-AAGTGTTTTCCGAA
1 GATGATGAATTGGTTGCAAAACGGGCTGAA-TGTGTTCCGAA
*
3741705 GATGATGATTTGGTTGCAAAACGGGCTGAATGTGTTCCGAA
1 GATGATGAATTGGTTGCAAAACGGGCTGAATGTGTTCCGAA
3741746 TATGGAATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 36 0.95
42 2 0.05
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.29
Consensus pattern (41 bp):
GATGATGAATTGGTTGCAAAACGGGCTGAATGTGTTCCGAA
Found at i:3750007 original size:28 final size:27
Alignment explanation
Indices: 3749975--3750029 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
3749965 ATATGCAATG
* *
3749975 GATGTTTTGACATAAGCTTAGTATATAT
1 GATGTATTGACATAAGCTT-GAATATAT
**
3750003 GATGTATTGTTATAAGCTTGAATATAT
1 GATGTATTGACATAAGCTTGAATATAT
3750030 TATAAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (27 bp):
GATGTATTGACATAAGCTTGAATATAT
Found at i:3755355 original size:27 final size:27
Alignment explanation
Indices: 3755320--3755371 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
3755310 CTCTTTATTC
*
3755320 TTAGTCTAGATAATAAAAAAATAGTTT
1 TTAGGCTAGATAATAAAAAAATAGTTT
*
3755347 TTAGGCTAGTTAATAAAAAAATAGT
1 TTAGGCTAGATAATAAAAAAATAGT
3755372 CATTACTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.13, T:0.35
Consensus pattern (27 bp):
TTAGGCTAGATAATAAAAAAATAGTTT
Found at i:3762868 original size:47 final size:47
Alignment explanation
Indices: 3762817--3763336 Score: 959
Period size: 47 Copynumber: 11.1 Consensus size: 47
3762807 TTAGGATTTT
*
3762817 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
3762864 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
3762911 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
3762958 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
3763005 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
3763052 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
3763099 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
3763146 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
3763193 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
3763240 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
3763287 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
3763334 ATG
1 ATG
3763337 CGAAACGTGT
Statistics
Matches: 465, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 465 1.00
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:3763669 original size:37 final size:37
Alignment explanation
Indices: 3763619--3763710 Score: 148
Period size: 37 Copynumber: 2.5 Consensus size: 37
3763609 GATTAAATGT
*
3763619 TGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGA
1 TGACTACGTGTGGAGATTATGTCCAGGTAAGACCCGA
3763656 TGACTACGTGTGGAGATTATGTCCAGGTAAGACCCGA
1 TGACTACGTGTGGAGATTATGTCCAGGTAAGACCCGA
* * *
3763693 TAACTTCATGTGGAGATT
1 TGACTACGTGTGGAGATT
3763711 TCGTCTGAGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (37 bp):
TGACTACGTGTGGAGATTATGTCCAGGTAAGACCCGA
Found at i:3764986 original size:27 final size:26
Alignment explanation
Indices: 3764948--3765034 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
3764938 TGGATGAAGC
3764948 GTTCTGGTGGCTAC-GCCACAAATATCT
1 GTTCTGGTGGCT-CTGCCAC-AATATCT
3764975 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
3765001 GTATCTAGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
3765028 GTTCTGG
1 GTTCTGG
3765035 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:3772336 original size:27 final size:26
Alignment explanation
Indices: 3772291--3772363 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
3772281 CAGTGGCTAC
*
3772291 GCCACAAATATCTGTTCTGGCGGCTCT
1 GCCAC-AATATCTGTTCTGGCGACTCT
* * *
3772318 GCCATAGTATCTGTATCTGGTGACTCT
1 GCCACAATATCTGT-TCTGGCGACTCT
*
3772345 GTCACAATATCTGTTCTGG
1 GCCACAATATCTGTTCTGG
3772364 TAGCCATGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 13 0.34
27 25 0.66
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (26 bp):
GCCACAATATCTGTTCTGGCGACTCT
Found at i:3773353 original size:55 final size:55
Alignment explanation
Indices: 3773279--3773393 Score: 149
Period size: 55 Copynumber: 2.1 Consensus size: 55
3773269 TTATATGGCT
* *
3773279 GTGGTTGAGCCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGTAGAAGACCC
1 GTGGTTGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGTAGAACACCC
** * * * **
3773334 GTGGTTGAACCTGTTAAAACAGCACGGGCGTGTGACACGCTCGTGTCTAACACCC
1 GTGGTTGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGTAGAACACCC
3773389 GTGGT
1 GTGGT
3773394 CAAACCTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.18
Consensus pattern (55 bp):
GTGGTTGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGTAGAACACCC
Found at i:3773400 original size:55 final size:55
Alignment explanation
Indices: 3773294--3773406 Score: 145
Period size: 55 Copynumber: 2.1 Consensus size: 55
3773284 TGAGCCTGCC
* **
3773294 AAAACAACACGGGCGTGCGACACGCCCGTGTAGAAGACCCGTGGTTGAACCTGTT
1 AAAACAACACGGGCGTGCGACACGCCCGTGTAGAACACCCGTGGTCAAACCTGTT
* * * ** *
3773349 AAAACAGCACGGGCGTGTGACACGCTCGTGTCTAACACCCGTGGTCAAACCTTTT
1 AAAACAACACGGGCGTGCGACACGCCCGTGTAGAACACCCGTGGTCAAACCTGTT
3773404 AAA
1 AAA
3773407 TTGACATGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.19
Consensus pattern (55 bp):
AAAACAACACGGGCGTGCGACACGCCCGTGTAGAACACCCGTGGTCAAACCTGTT
Found at i:3785747 original size:12 final size:12
Alignment explanation
Indices: 3785730--3785754 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3785720 TGAAATATGC
3785730 TATTTATATTAT
1 TATTTATATTAT
3785742 TATTTATATTAT
1 TATTTATATTAT
3785754 T
1 T
3785755 TATGCTTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTATATTAT
Found at i:3786148 original size:16 final size:16
Alignment explanation
Indices: 3786127--3786167 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
3786117 TAATAATAAA
3786127 ATATTATAGGCCCAAT
1 ATATTATAGGCCCAAT
*
3786143 ATATTAGATAGGTCCAAT
1 ATATT--ATAGGCCCAAT
3786161 ATATTAT
1 ATATTAT
3786168 GTATGCCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.32
18 15 0.68
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (16 bp):
ATATTATAGGCCCAAT
Found at i:3786177 original size:18 final size:18
Alignment explanation
Indices: 3786132--3786166 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3786122 ATAAAATATT
3786132 ATAGGCCCAATATATTAG
1 ATAGGCCCAATATATTAG
*
3786150 ATAGGTCCAATATATTA
1 ATAGGCCCAATATATTA
3786167 TGTATGCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (18 bp):
ATAGGCCCAATATATTAG
Found at i:3791308 original size:17 final size:17
Alignment explanation
Indices: 3791286--3791324 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
3791276 TTCGAATGAT
3791286 ATGAATAAAGTTCTGAC
1 ATGAATAAAGTTCTGAC
3791303 ATGAATAAAGTTCTGAC
1 ATGAATAAAGTTCTGAC
3791320 ATGAA
1 ATGAA
3791325 ATAATCTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (17 bp):
ATGAATAAAGTTCTGAC
Found at i:3797318 original size:50 final size:50
Alignment explanation
Indices: 3797244--3797536 Score: 378
Period size: 50 Copynumber: 5.9 Consensus size: 50
3797234 ATCAAAGTTG
*
3797244 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTATATCGAGG-CA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGCCA
* * * ** *
3797293 GATGTCATGTCCCAGACATGATCTTACATTGGCTCTCATCTATCG-GTGCCA
1 -ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAG-GCCA
* * *
3797344 ATGTCATGTCCCAGACATGGTCTTACACTAACTCTCATATCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGCCA
* * * *
3797394 ATGCCATGTCTCAGACATGGTCTTACGCTAGCTCCCATAT-TCGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGCCA
* *
3797443 ATGCCATG-CCCTAGACATGGTCTTACAACTAGCTCTCATATCTCGAGGCCA
1 ATGCCATGTCCC-AGACATGGTCTTAC-ACTAACTCTCATATATCGAGGCCA
3797494 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATC
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATC
3797537 CGGTCTATTC
Statistics
Matches: 211, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
48 2 0.01
49 31 0.15
50 141 0.67
51 34 0.16
52 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGCCA
Found at i:3797374 original size:100 final size:99
Alignment explanation
Indices: 3797198--3797533 Score: 383
Period size: 100 Copynumber: 3.4 Consensus size: 99
3797188 AGGTGCTGAC
* * * * * * ***
3797198 GCCATGTCCCGGACATGGTCTTACACTGGCTCACACA-TCAAAGTTGATGCCATGTCCCAGACAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCCCATATTCGAGGCCAATGCCATGTCCCAGACAT
* *
3797262 GGTCTTACACTAACTCTCGTATATCGAGGCAGAT
66 GGTCTTACACTAACTCTCATATCTCGAGGCAGAT
* * * * * * *
3797296 GTCATGTCCCAGACATGATCTTACATTGGCTCTCATCTATCG-GTGCCAATGTCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCCCATAT-TCGAG-GCCAATGCCATGTCCCAGAC
*
3797360 ATGGTCTTACACTAACTCTCATATCTCGAGGCCGAT
64 ATGGTCTTACACTAACTCTCATATCTCGAGGCAGAT
* *
3797396 GCCATGTCTCAGACATGGTCTTACGCTAGCTCCCATATTCGAGGCCAATGCCATG-CCCTAGACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCCCATATTCGAGGCCAATGCCATGTCCC-AGACA
*
3797460 TGGTCTTACAACTAGCTCTCATATCTCGAGGCCA-AT
65 TGGTCTTAC-ACTAACTCTCATATCTCGAGG-CAGAT
* *
3797496 GCCATGTCCCAGACATGGTCTTACACTAACTCTCATAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCCCATAT
3797534 ATCCGGTCTA
Statistics
Matches: 200, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
98 33 0.17
99 28 0.14
100 138 0.69
101 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (99 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCCCATATTCGAGGCCAATGCCATGTCCCAGACAT
GGTCTTACACTAACTCTCATATCTCGAGGCAGAT
Found at i:3803349 original size:13 final size:14
Alignment explanation
Indices: 3803326--3803354 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3803316 AATGGGTGCA
3803326 AAAAGAAAAAAAAG
1 AAAAGAAAAAAAAG
3803340 AAAA-AAAAAAAAG
1 AAAAGAAAAAAAAG
3803353 AA
1 AA
3803355 CCCCACAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:3806827 original size:38 final size:38
Alignment explanation
Indices: 3806784--3806859 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
3806774 ATCAGATTAA
3806784 ATCAAAATTCACATATACAATTACACATTAATTAAAGT
1 ATCAAAATTCACATATACAATTACACATTAATTAAAGT
*
3806822 ATCAAAATTCACATATACAATTGCACATTAATTAAAGT
1 ATCAAAATTCACATATACAATTACACATTAATTAAAGT
3806860 TTATGTATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.32
Consensus pattern (38 bp):
ATCAAAATTCACATATACAATTACACATTAATTAAAGT
Found at i:3807981 original size:57 final size:57
Alignment explanation
Indices: 3807860--3807997 Score: 149
Period size: 58 Copynumber: 2.4 Consensus size: 57
3807850 CAAGGAAATA
* * **
3807860 TCAAGAATTAATTTGGAGAAAAAAAATTCAAATCCCAATATGAGATTAATCGACAAGT
1 TCAAAAATTAATTTGGACAAAAAAAATTCAAATCCC-ATATGAGAACAATCGACAAGT
*
3807918 TCAAAAATTAATTTGGACAAAAAAAATTCAAAT-CC-TATGAAAGAACAATTG-CAAAGT
1 TCAAAAATTAATTTGGACAAAAAAAATTCAAATCCCATATG--AGAACAATCGAC-AAGT
* *
3807975 TCAAAAA-TAACTTAGACAAAAAA
1 TCAAAAATTAATTTGGACAAAAAA
3807998 TTCAAAACCT
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
55 4 0.06
56 15 0.21
57 20 0.29
58 31 0.44
ACGTcount: A:0.53, C:0.12, G:0.11, T:0.24
Consensus pattern (57 bp):
TCAAAAATTAATTTGGACAAAAAAAATTCAAATCCCATATGAGAACAATCGACAAGT
Found at i:3808029 original size:54 final size:55
Alignment explanation
Indices: 3807913--3808039 Score: 136
Period size: 54 Copynumber: 2.3 Consensus size: 55
3807903 GATTAATCGA
* * *
3807913 CAAGTTCAAAAATTAATTTGGACAAAAAAAATTCAAATCCTATGAAAGAACAATTG
1 CAAGTTCAAAAATTAACTTAGAC-AAAAAAATTCAAAACCTATGAAAGAACAATTG
*
3807969 CAAAGTTCAAAAA-TAACTTAGAC-AAAAAATTCAAAACCTTAT-ATAAGAA-TATTG
1 C-AAGTTCAAAAATTAACTTAGACAAAAAAATTCAAAACC-TATGA-AAGAACAATTG
*
3808023 TCAAGTTCAAATATTAA
1 -CAAGTTCAAAAATTAA
3808040 TTCGCATAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
54 29 0.48
55 12 0.20
56 9 0.15
57 11 0.18
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.27
Consensus pattern (55 bp):
CAAGTTCAAAAATTAACTTAGACAAAAAAATTCAAAACCTATGAAAGAACAATTG
Found at i:3810410 original size:46 final size:46
Alignment explanation
Indices: 3810340--3810551 Score: 292
Period size: 46 Copynumber: 4.7 Consensus size: 46
3810330 GCCATAGTGC
* * * * *
3810340 CTTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTAT
*
3810386 CTTTCAACCATGATCTTACACATTTCATATCAGGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTAT
*
3810432 CTTCCAACCATGGTCTTACACATTT--TAT-A--TTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTAT
*
3810473 CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTAT
*
3810519 CTTCCAACCATGGTCTTACACATTTCATATCAG
1 CTTTCAACCATGGTCTTACACATTTCATATCAG
3810552 AAAGCACACT
Statistics
Matches: 149, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
41 36 0.24
43 4 0.03
44 4 0.03
45 4 0.03
46 101 0.68
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.40
Consensus pattern (46 bp):
CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTAT
Found at i:3810480 original size:87 final size:87
Alignment explanation
Indices: 3810369--3810548 Score: 324
Period size: 87 Copynumber: 2.1 Consensus size: 87
3810359 TCATTTTCTG
*
3810369 TCATGTTGCCATGGTATCTTTCAACCATGATCTTACACATTTCATATCAGGTTGCCATGGTATCT
1 TCATATTGCCATGGTATCTTTCAACCATGATCTTACACATTTCATATCAGGTTGCCATGGTATCT
3810434 TCCAACCATGGTCTTACACATT
66 TCCAACCATGGTCTTACACATT
* * *
3810456 TTATATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCT
1 TCATATTGCCATGGTATCTTTCAACCATGATCTTACACATTTCATATCAGGTTGCCATGGTATCT
3810521 TCCAACCATGGTCTTACACATT
66 TCCAACCATGGTCTTACACATT
3810543 TCATAT
1 TCATAT
3810549 CAGAAAGCAC
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (87 bp):
TCATATTGCCATGGTATCTTTCAACCATGATCTTACACATTTCATATCAGGTTGCCATGGTATCT
TCCAACCATGGTCTTACACATT
Found at i:3815418 original size:21 final size:21
Alignment explanation
Indices: 3815392--3815433 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3815382 GATTAAGAGA
3815392 AAGTAAAATCTTAATATTTAC
1 AAGTAAAATCTTAATATTTAC
3815413 AAGTAAAATCTTAATATTTAC
1 AAGTAAAATCTTAATATTTAC
3815434 TTGTAGTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (21 bp):
AAGTAAAATCTTAATATTTAC
Found at i:3824808 original size:40 final size:40
Alignment explanation
Indices: 3824753--3824833 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
3824743 AAGGTCCCTG
3824753 TACTATGTTTTTTTTTAATATTAAGCACTTACTATGTGCT
1 TACTATGTTTTTTTTTAATATTAAGCACTTACTATGTGCT
3824793 TACTATGTTTTTTTTTAATATTAAGCACTTACTATGTGCT
1 TACTATGTTTTTTTTTAATATTAAGCACTTACTATGTGCT
3824833 T
1 T
3824834 TGATATTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (40 bp):
TACTATGTTTTTTTTTAATATTAAGCACTTACTATGTGCT
Found at i:3826224 original size:70 final size:69
Alignment explanation
Indices: 3826111--3826250 Score: 235
Period size: 70 Copynumber: 2.0 Consensus size: 69
3826101 GCTCTCTCCT
* * *
3826111 TTCTTTATTTTTAATTTCTGTTTTTCTTTAATCAATGGCCCTAACAAGAAAAACTCAAAAATAAA
1 TTCTTTATTTTTAATTTCTGCTTTTCTTTAATCAATAGCCCTAAAAAG-AAAACTCAAAAATAAA
3826176 AAATA
65 AAATA
*
3826181 TTCTTTCTTTTTAATTTCTGCTTTTCTTTAATCAATAGCCCTAAAAAGAAAACTCAAAAATAAAA
1 TTCTTTATTTTTAATTTCTGCTTTTCTTTAATCAATAGCCCTAAAAAGAAAACTCAAAAATAAAA
3826246 AATA
66 AATA
3826250 T
1 T
3826251 CAGCAGGAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
69 22 0.33
70 44 0.67
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (69 bp):
TTCTTTATTTTTAATTTCTGCTTTTCTTTAATCAATAGCCCTAAAAAGAAAACTCAAAAATAAAA
AATA
Found at i:3832798 original size:14 final size:15
Alignment explanation
Indices: 3832772--3832800 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3832762 ATTTTATGAA
3832772 TTTCATGATGTGTTG
1 TTTCATGATGTGTTG
3832787 TTTCAT-ATGTGTTG
1 TTTCATGATGTGTTG
3832801 ATGATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.14, C:0.07, G:0.24, T:0.55
Consensus pattern (15 bp):
TTTCATGATGTGTTG
Found at i:3832992 original size:50 final size:51
Alignment explanation
Indices: 3832915--3833043 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
3832905 GACCATGGCA
*
3832915 ACAAGTGATAAGTGATAGCCTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
3832966 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
3833016 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
3833044 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:3833057 original size:31 final size:31
Alignment explanation
Indices: 3833019--3833136 Score: 209
Period size: 31 Copynumber: 3.8 Consensus size: 31
3833009 ACAAATGACA
*
3833019 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
3833050 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
3833081 AGTGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
3833112 AGTGAAAAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
3833137 AAGTGACAAG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 83 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:3833234 original size:47 final size:45
Alignment explanation
Indices: 3833161--3833283 Score: 165
Period size: 46 Copynumber: 2.7 Consensus size: 45
3833151 AAGTGATTTC
* *
3833161 CGTATAAGACCATACTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATACTGGGATATGGCATCGGTGAGATATATGATA
* *
3833206 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATA
1 C-GTATAAGACCATA-CTGGGATATGGCATCGGTGAGATATATGATA
* *
3833253 CGTGTAAGACCATAACTGGGCTATGGCATCG
1 CGTATAAGACCAT-ACTGGGATATGGCATCG
3833284 ATATATGAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 1 0.01
46 38 0.56
47 29 0.43
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (45 bp):
CGTATAAGACCATACTGGGATATGGCATCGGTGAGATATATGATA
Found at i:3833261 original size:46 final size:45
Alignment explanation
Indices: 3833165--3833325 Score: 159
Period size: 46 Copynumber: 3.6 Consensus size: 45
3833155 GATTTCCGTA
* * * * *
3833165 TAAGACCATACTGGGATATGGCATCGGTGTGATATATGCTACTGTA
1 TAAGACCATACTGGGATATGGCATCAGTGAGATATGTGATAC-GTG
3833211 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATACGTG
1 TAAGACCATA-CTGGGATATGGCATCAGTGAGATATGTGATACGTG
* * * *
3833257 TAAGACCATAACTGGGCTATGGCATC---GATATATG-AATATGTG
1 TAAGACCAT-ACTGGGATATGGCATCAGTGAGATATGTGATACGTG
* *
3833299 AAAGACCATAGCTGGGCTATGGCATCA
1 TAAGACCATA-CTGGGATATGGCATCA
3833326 TTATTTAAAG
Statistics
Matches: 101, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 7 0.07
46 35 0.35
47 29 0.29
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (45 bp):
TAAGACCATACTGGGATATGGCATCAGTGAGATATGTGATACGTG
Found at i:3833314 original size:42 final size:42
Alignment explanation
Indices: 3833211--3833351 Score: 140
Period size: 42 Copynumber: 3.3 Consensus size: 42
3833201 TGCTACTGTA
* * * * *
3833211 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATACGTG
1 TAAGACCATAGCTGGGCTATGGCATC---GATATATG-AATATGTG
*
3833257 TAAGACCATAACTGGGCTATGGCATCGATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
* * * *
3833299 AAAGACCATAGCTGGGCTATGGCATC-ATTATTTAAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTG
3833341 TAAGACCATAG
1 TAAGACCATAG
3833352 TTGAACTATG
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.01
42 51 0.61
43 7 0.08
46 24 0.29
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
Found at i:3838497 original size:14 final size:14
Alignment explanation
Indices: 3838456--3838498 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
3838446 TATTAAATTT
*
3838456 TTTTATAAATTTAA
1 TTTTATAAATATAA
* *
3838470 TTTAATTAATATAA
1 TTTTATAAATATAA
*
3838484 TTTTATAAAAATAA
1 TTTTATAAATATAA
3838498 T
1 T
3838499 ATATCTAGAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTTATAAATATAA
Found at i:3841348 original size:22 final size:22
Alignment explanation
Indices: 3841280--3841349 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
3841270 CTATACTCCT
*
3841280 AAAATGAGTAAGATCATAGCTGA
1 AAAATGAGTAAGACCATAGCT-A
* * * *
3841303 AAAATG-CTATG-GCATCAGGATA
1 AAAATGAGTAAGACCAT-A-GCTA
3841325 AAAATGAGTAAGACCATAGCTA
1 AAAATGAGTAAGACCATAGCTA
3841347 AAA
1 AAA
3841350 TATGTTATGG
Statistics
Matches: 35, Mismatches: 8, Indels: 9
0.67 0.15 0.17
Matches are distributed among these distances:
21 3 0.09
22 17 0.49
23 12 0.34
24 3 0.09
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (22 bp):
AAAATGAGTAAGACCATAGCTA
Found at i:3841394 original size:22 final size:22
Alignment explanation
Indices: 3841325--3841394 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
3841315 CATCAGGATA
3841325 AAAATGAGTAAGACCATAGCT-
1 AAAATGAGTAAGACCATAGCTG
* * *
3841346 AAAAT-ATGTTATG-GCATCATGATG
1 AAAATGA-G-TAAGACCAT-A-GCTG
3841370 AAAATGAGTAAGACCATAGCTG
1 AAAATGAGTAAGACCATAGCTG
3841392 AAA
1 AAA
3841395 GACGCTATGA
Statistics
Matches: 36, Mismatches: 6, Indels: 13
0.65 0.11 0.24
Matches are distributed among these distances:
20 1 0.03
21 9 0.25
22 10 0.28
23 6 0.17
24 9 0.25
25 1 0.03
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (22 bp):
AAAATGAGTAAGACCATAGCTG
Found at i:3841410 original size:45 final size:45
Alignment explanation
Indices: 3841280--3841417 Score: 190
Period size: 45 Copynumber: 3.1 Consensus size: 45
3841270 CTATACTCCT
* * *
3841280 AAAATGAGTAAGATCATAGCTGAAAAATGCTATGGCATCAGGATA
1 AAAATGAGTAAGACCATAGCTGAAAAATGCTATGGCATCATGATG
*
3841325 AAAATGAGTAAGACCATAGCT-AAAATATGTTATGGCATCATGATG
1 AAAATGAGTAAGACCATAGCTGAAAA-ATGCTATGGCATCATGATG
* * *
3841370 AAAATGAGTAAGACCATAGCTGAAAGACGCTATGACATCAT-ATG
1 AAAATGAGTAAGACCATAGCTGAAAAATGCTATGGCATCATGATG
3841414 AAAA
1 AAAA
3841418 CACGCCAGAA
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
44 11 0.13
45 69 0.83
46 3 0.04
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.22
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTGAAAAATGCTATGGCATCATGATG
Found at i:3842409 original size:36 final size:36
Alignment explanation
Indices: 3842362--3842433 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
3842352 AATTACCAAC
3842362 CAAACAACTAATTTGGTAGGGAGCAGATATGTAGGG
1 CAAACAACTAATTTGGTAGGGAGCAGATATGTAGGG
* * *
3842398 CAAACAACTAATTTTGTAGGGAGTAGATATTTAGGG
1 CAAACAACTAATTTGGTAGGGAGCAGATATGTAGGG
3842434 AAAATTATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (36 bp):
CAAACAACTAATTTGGTAGGGAGCAGATATGTAGGG
Found at i:3850209 original size:43 final size:43
Alignment explanation
Indices: 3850148--3850233 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
3850138 TCTTTGCATA
3850148 TCTCACAAACTTTGCGGCCTTTATCCTTTCTTTTAGCTAACTT
1 TCTCACAAACTTTGCGGCCTTTATCCTTTCTTTTAGCTAACTT
3850191 TCTCACAAACTTTGCGGCCTTTATCCTTTCTTTTAGCTAACTT
1 TCTCACAAACTTTGCGGCCTTTATCCTTTCTTTTAGCTAACTT
3850234 CTTTCTTCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (43 bp):
TCTCACAAACTTTGCGGCCTTTATCCTTTCTTTTAGCTAACTT
Found at i:3855662 original size:44 final size:45
Alignment explanation
Indices: 3855567--3855681 Score: 144
Period size: 44 Copynumber: 2.6 Consensus size: 45
3855557 ACAGGACAGA
*
3855567 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGATTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGATTTGGAG
* *
3855613 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCA-TTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGG-ATTTGGAG
* **
3855657 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
3855682 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
44 34 0.56
45 1 0.02
46 26 0.43
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGATTTGGAG
Found at i:3863050 original size:44 final size:45
Alignment explanation
Indices: 3862962--3863050 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 45
3862952 AGAGCAGAAA
* *
3862962 TGAGCCATGTAAGTCTATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
*
3863008 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGA
3863051 ATAATTCATG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 20 0.50
46 20 0.50
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:3863061 original size:44 final size:45
Alignment explanation
Indices: 3862964--3863066 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
3862954 AGCAGAAATG
* * * *
3862964 AGCCATGTAAGTCTATATTAGAAATATGGCTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAATA
*
3863010 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATA
**
3863054 ATTCATGTAAGTC
1 AGCCATGTAAGTC
3863067 AATGTCAAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATA
Found at i:3866926 original size:5 final size:5
Alignment explanation
Indices: 3866916--3866965 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
3866906 GGCAGTTAAG
* *
3866916 ATTTT ATTTT ATTTTT ATCTT ATCTT ATTTT A--TT ATCTTT ATTTT ATTTT
1 ATTTT ATTTT A-TTTT ATTTT ATTTT ATTTT ATTTT AT-TTT ATTTT ATTTT
3866966 GAAATTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 3 0.08
5 27 0.69
6 9 0.23
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:3869660 original size:21 final size:21
Alignment explanation
Indices: 3869636--3869713 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 21
3869626 AAGACAGACG
*
3869636 AGGTGCTTGATACAACACATA
1 AGGTGCCTGATACAACACATA
*
3869657 AGGTGCCTGAAATACGACACATA
1 AGGTGCCTG--ATACAACACATA
* *
3869680 AAGTGCCTGATATACGACACATA
1 AGGTGCCTG--ATACAACACATA
*
3869703 AAGTGCCTGAT
1 AGGTGCCTGAT
3869714 CAGAAAAGCA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.20
23 41 0.80
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (21 bp):
AGGTGCCTGATACAACACATA
Found at i:3869713 original size:23 final size:23
Alignment explanation
Indices: 3869645--3869713 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
3869635 GAGGTGCTTG
* * *
3869645 ATACAACACATAAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAT
3869668 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAT
3869691 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAT
3869714 CAGAAAAGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAT
Found at i:3869830 original size:17 final size:18
Alignment explanation
Indices: 3869798--3869831 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3869788 TAATAGGGTA
3869798 TTTTAATTCTCAATTCAC
1 TTTTAATTCTCAATTCAC
*
3869816 TTTTATTTC-CAATTCA
1 TTTTAATTCTCAATTCA
3869832 AGATCACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTAATTCTCAATTCAC
Found at i:3869880 original size:35 final size:37
Alignment explanation
Indices: 3869841--3869914 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 37
3869831 AAGATCACTT
*
3869841 TTCAATTATA-ATTTCACATTCA-AA-TCAATATACAG
1 TTCAATTATACA-TACACATTCACAATTCAATATACAG
3869876 TTCAATTATACATACACATTCACAATTCAATATACAG
1 TTCAATTATACATACACATTCACAATTCAATATACAG
3869913 TT
1 TT
3869915 TAACTTAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
35 19 0.54
36 3 0.09
37 13 0.37
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (37 bp):
TTCAATTATACATACACATTCACAATTCAATATACAG
Found at i:3871789 original size:42 final size:42
Alignment explanation
Indices: 3871731--3871881 Score: 160
Period size: 42 Copynumber: 3.5 Consensus size: 42
3871721 CTTGATCAGT
* *
3871731 ATACGATACAT-AAGTGCCTGAAACCACACATGAGGTGCCTG
1 ATACGACACATGAAGTGCCTGAAACAACACATGAGGTGCCTG
* *
3871772 ATACGACACATGAAGTGCCTGATACAACACACGAGGTGCCTG
1 ATACGACACATGAAGTGCCTGAAACAACACATGAGGTGCCTG
* * * * * *
3871814 ATACAACACACGAGGTGCCTGAAATATGACACATAAAGTGCCTG
1 ATACGACACATGAAGTGCCTGAAACA--ACACATGAGGTGCCTG
*
3871858 ATATACGACACATAAAGTGCCTGA
1 --ATACGACACATGAAGTGCCTGA
3871882 TCGGCAAAGC
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
41 10 0.11
42 48 0.54
44 13 0.15
46 18 0.20
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (42 bp):
ATACGACACATGAAGTGCCTGAAACAACACATGAGGTGCCTG
Found at i:3871861 original size:21 final size:21
Alignment explanation
Indices: 3871731--3871882 Score: 144
Period size: 21 Copynumber: 7.1 Consensus size: 21
3871721 CTTGATCAGT
*
3871731 ATACGATACAT-AAGTGCCTG
1 ATACGACACATGAAGTGCCTG
* * *
3871751 AAACCACACATGAGGTGCCTG
1 ATACGACACATGAAGTGCCTG
3871772 ATACGACACATGAAGTGCCTG
1 ATACGACACATGAAGTGCCTG
* * *
3871793 ATACAACACACGAGGTGCCTG
1 ATACGACACATGAAGTGCCTG
* * *
3871814 ATACAACACACGAGGTGCCTG
1 ATACGACACATGAAGTGCCTG
* *
3871835 AAATATGACACATAAAGTGCCTG
1 --ATACGACACATGAAGTGCCTG
*
3871858 ATATACGACACATAAAGTGCCTG
1 --ATACGACACATGAAGTGCCTG
3871881 AT
1 AT
3871883 CGGCAAAGCC
Statistics
Matches: 112, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
20 8 0.07
21 67 0.60
23 37 0.33
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (21 bp):
ATACGACACATGAAGTGCCTG
Found at i:3872007 original size:23 final size:22
Alignment explanation
Indices: 3871981--3872033 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 22
3871971 AATTCTCAAT
3871981 TCACTTTCATTCCCAATTCAAGA
1 TCACTTTC-TTCCCAATTCAAGA
*
3872004 TCACTTTTCTTTCCAATTCAAGA
1 TCAC-TTTCTTCCCAATTCAAGA
3872027 TCACTTT
1 TCACTTT
3872034 TTAATTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 3 0.11
23 21 0.75
24 4 0.14
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.42
Consensus pattern (22 bp):
TCACTTTCTTCCCAATTCAAGA
Found at i:3872842 original size:23 final size:24
Alignment explanation
Indices: 3872793--3872843 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
3872783 AATAAATTAT
3872793 TTTATAACAAGTGTACATATATCTA
1 TTTATAACAAGTGTACA-ATATCTA
* *
3872818 TTTATTACAAGTGTAC-ATATGTA
1 TTTATAACAAGTGTACAATATCTA
3872841 TTT
1 TTT
3872844 GTTTAAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.38
25 15 0.62
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (24 bp):
TTTATAACAAGTGTACAATATCTA
Found at i:3873317 original size:14 final size:14
Alignment explanation
Indices: 3873282--3873321 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 14
3873272 AATTTAGATT
3873282 TTAT-TTTATTTTA
1 TTATCTTTATTTTA
3873295 --ATC-TTATTTTA
1 TTATCTTTATTTTA
3873306 TTATCTTTATTTTA
1 TTATCTTTATTTTA
3873320 TT
1 TT
3873322 TTGAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 10 0.43
13 3 0.13
14 10 0.43
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATCTTTATTTTA
Done.