Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 31 of 214
Found at i:8622425 original size:17 final size:17
Alignment explanation
Indices: 8622405--8622437 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8622395 CAAAATTGGG
8622405 TTGAGAAAATAATTTAA
1 TTGAGAAAATAATTTAA
*
8622422 TTGAGAAATTAATTTA
1 TTGAGAAAATAATTTA
8622438 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATAATTTAA
Found at i:8622444 original size:9 final size:9
Alignment explanation
Indices: 8622428--8622460 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
8622418 TTAATTGAGA
8622428 AATTAATTT
1 AATTAATTT
*
8622437 AGTTAATTT
1 AATTAATTT
8622446 AATTAA-TT
1 AATTAATTT
8622454 AATTAAT
1 AATTAAT
8622461 ATTTTTGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (9 bp):
AATTAATTT
Found at i:8628773 original size:25 final size:25
Alignment explanation
Indices: 8628745--8628796 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
8628735 AGCATCCTGA
*
8628745 TATATGGTCCTCT-CGAGCTTTCCGT
1 TATATGGTCCT-TGCGAGCTTCCCGT
*
8628770 TATATGGTTCTTGCGAGCTTCCCGT
1 TATATGGTCCTTGCGAGCTTCCCGT
8628795 TA
1 TA
8628797 ATAGCTCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.40
Consensus pattern (25 bp):
TATATGGTCCTTGCGAGCTTCCCGT
Found at i:8628805 original size:24 final size:25
Alignment explanation
Indices: 8628758--8628805 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8628748 ATGGTCCTCT
* * *
8628758 CGAGCTTTCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
8628783 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
8628806 CGGAGCATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.40
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:8628979 original size:24 final size:24
Alignment explanation
Indices: 8628952--8628999 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
8628942 GAGCTTGCCG
8628952 ATATTGGCTCGCTTGAACTTCCCA
1 ATATTGGCTCGCTTGAACTTCCCA
* *
8628976 ATATTGGCTCGTTTGAGCTTCCCA
1 ATATTGGCTCGCTTGAACTTCCCA
8629000 TTATATAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (24 bp):
ATATTGGCTCGCTTGAACTTCCCA
Found at i:8634540 original size:11 final size:11
Alignment explanation
Indices: 8634518--8634550 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
8634508 TGGCCCACCC
8634518 ATATTAATTTTT
1 ATATT-ATTTTT
8634530 ATATTATTTTT
1 ATATTATTTTT
8634541 ATATTATTTT
1 ATATTATTTT
8634551 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:8634571 original size:17 final size:19
Alignment explanation
Indices: 8634551--8634591 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
8634541 ATATTATTTT
*
8634551 AAAATATA-T-AATACATC
1 AAAATATACTAAAAACATC
8634568 AAAA-ATACTAAAAACATC
1 AAAATATACTAAAAACATC
8634586 AAAATA
1 AAAATA
8634592 AATATTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAACATC
Found at i:8634715 original size:29 final size:30
Alignment explanation
Indices: 8634673--8634733 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
8634663 CTTAACAAGA
8634673 AAATGCCTCTAAAATAATAA-AAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
* *
8634702 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
8634732 AA
1 AA
8634734 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:8636249 original size:27 final size:28
Alignment explanation
Indices: 8636198--8636255 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
8636188 AAGCAGCGGA
8636198 AAACATTATTAAAAATAATAGTTTT-CT
1 AAACATTATTAAAAATAATAGTTTTGCT
* *
8636225 AAACATTATTGAAAAA-ATTATTTTTGCT
1 AAACATTATT-AAAAATAATAGTTTTGCT
8636253 AAA
1 AAA
8636256 AGGCACACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (28 bp):
AAACATTATTAAAAATAATAGTTTTGCT
Found at i:8636451 original size:41 final size:40
Alignment explanation
Indices: 8636384--8636524 Score: 140
Period size: 41 Copynumber: 3.5 Consensus size: 40
8636374 TAGAAAAACT
* * * *
8636384 GCAATAGGTAAAGAAGTAGCGACGTTTATGAGAAAAACGCC
1 GCAAAAGGTCAAGCAGTAGCGGCGTTTATGAG-AAAACGCC
** * * *
8636425 ATAAAAGGTCAAGTAGTAGCGGCGTTTATAAGGAAAACACC
1 GCAAAAGGTCAAGCAGTAGCGGCGTTTATGA-GAAAACGCC
* * * *
8636466 GCAAAAGGTCAAACAGTAACAGCATTTATGAGAAAACGCC
1 GCAAAAGGTCAAGCAGTAGCGGCGTTTATGAGAAAACGCC
8636506 GCAAAAGGT-AAGCAGTAGC
1 GCAAAAGGTCAAGCAGTAGC
8636525 TACATTTATG
Statistics
Matches: 80, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 8 0.10
40 17 0.21
41 54 0.68
42 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (40 bp):
GCAAAAGGTCAAGCAGTAGCGGCGTTTATGAGAAAACGCC
Found at i:8636548 original size:40 final size:40
Alignment explanation
Indices: 8636457--8636550 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
8636447 CGTTTATAAG
8636457 GAAAACACCGCAAAAGGTCAAACAGTAACAGCATTTATGA
1 GAAAACACCGCAAAAGGTCAAACAGTAACAGCATTTATGA
* * *
8636497 GAAAACGCCGCAAAAGGT-AAGCAGTAGCTA-CATTTATGA
1 GAAAACACCGCAAAAGGTCAAACAGTAAC-AGCATTTATGA
*
8636536 GATAAATACCGCAAA
1 GA-AAACACCGCAAA
8636551 CTATCATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 19 0.40
40 28 0.60
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (40 bp):
GAAAACACCGCAAAAGGTCAAACAGTAACAGCATTTATGA
Found at i:8641716 original size:99 final size:99
Alignment explanation
Indices: 8641594--8641782 Score: 274
Period size: 99 Copynumber: 1.9 Consensus size: 99
8641584 ATTTGATATT
* * * *
8641594 AAGTAAAAACGTTTGTTCAATTATGAA-TT-TTTAAAAAGGTTAATTTAGTTCAATTTATTGAGT
1 AAGTAAAAACGCTTGTTAAATTAT-AAGTTCTTGAAAAA-GTTAATTTAGTTCAATTTATTGAAT
*
8641657 TTTGATATTAAGTGGAACCATTTATTCTGTTATACA
64 TTTGATATTAAGTAGAACCATTTATTCTGTTATACA
*
8641693 AAGTAAAACCGCTTGTTAAATTATAAGTTCTTGAAAAAGTTAATTTAGTTCAATTTATTGAATTT
1 AAGTAAAAACGCTTGTTAAATTATAAGTTCTTGAAAAAGTTAATTTAGTTCAATTTATTGAATTT
* *
8641758 TGATATTAAGTAGAATCGTTTATTC
66 TGATATTAAGTAGAACCATTTATTC
8641783 AATTAGATGT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 2 0.03
99 71 0.89
100 7 0.09
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (99 bp):
AAGTAAAAACGCTTGTTAAATTATAAGTTCTTGAAAAAGTTAATTTAGTTCAATTTATTGAATTT
TGATATTAAGTAGAACCATTTATTCTGTTATACA
Found at i:8642156 original size:24 final size:23
Alignment explanation
Indices: 8642129--8642173 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
8642119 TTTCATAAAT
8642129 ATTATCATAAAAATAATATATTTA
1 ATTATCATAAAAATAAT-TATTTA
*
8642153 ATTATCATAAAGATAATTATT
1 ATTATCATAAAAATAATTATT
8642174 GTTTATCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTATCATAAAAATAATTATTTA
Found at i:8648208 original size:66 final size:66
Alignment explanation
Indices: 8648093--8648230 Score: 170
Period size: 66 Copynumber: 2.1 Consensus size: 66
8648083 GCAAATTGCT
* * *
8648093 CAACTTAAAGCAGAGGCAGCATCGAGAGAAGCAAAGGCTCAAAGAAAATATGATGAACTCCAGCT
1 CAACTTAAAGCAGAGGCAGCAGCGAGAGAAGCAAAGGCACAAAGAAAATATGACGAACTCCAGCT
8648158 A
66 A
* * * ** * *
8648159 CAACTTAAAGCGGAGGTAGCAGCGAGGGAAGCAGGGGCA-ACAAGGAAATATGACGAACTCCTGC
1 CAACTTAAAGCAGAGGCAGCAGCGAGAGAAGCAAAGGCACA-AAGAAAATATGACGAACTCCAGC
8648223 TA
65 TA
8648225 CAACTT
1 CAACTT
8648231 CAAAATATGA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
65 1 0.02
66 60 0.98
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (66 bp):
CAACTTAAAGCAGAGGCAGCAGCGAGAGAAGCAAAGGCACAAAGAAAATATGACGAACTCCAGCT
A
Found at i:8648580 original size:43 final size:43
Alignment explanation
Indices: 8648533--8648632 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
8648523 AGAACATGCC
* * *
8648533 CTTTAGCGGCGTTTGAGGGAAAAGCGCAACTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGAGGAAAAAGCCCAACTAAAGGTCACGTT
* * * **
8648576 CTTTAGCAGCATTTGTGGAAAAAGCCCCGCTAAAGGTCACGTT
1 CTTTAGCGGCGTTTGAGGAAAAAGCCCAACTAAAGGTCACGTT
*
8648619 CTATAGCGGCGTTT
1 CTTTAGCGGCGTTT
8648633 TTCCACATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGAGGAAAAAGCCCAACTAAAGGTCACGTT
Found at i:8653403 original size:23 final size:25
Alignment explanation
Indices: 8653375--8653437 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 25
8653365 ATATTTTTCC
*
8653375 ATAAAAATATTTAAAAATTAGAA-A
1 ATAAAAATATTTAAAAATCAGAACA
*
8653399 A-AAAAATA--TAAAAATCATAACA
1 ATAAAAATATTTAAAAATCAGAACA
8653421 ATAAAAATATTTAAAAA
1 ATAAAAATATTTAAAAA
8653438 ATCTGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 10 0.30
22 2 0.06
23 14 0.42
24 1 0.03
25 6 0.18
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (25 bp):
ATAAAAATATTTAAAAATCAGAACA
Found at i:8653411 original size:9 final size:9
Alignment explanation
Indices: 8653399--8653581 Score: 58
Period size: 9 Copynumber: 20.2 Consensus size: 9
8653389 AAATTAGAAA
8653399 AAAAAATAT
1 AAAAAATAT
8653408 -AAAAATCAT
1 AAAAAAT-AT
*
8653417 -AACAATA-
1 AAAAAATAT
* *
8653424 AAAATATTT
1 AAAAAATAT
*
8653433 AAAAAATCT
1 AAAAAATAT
8653442 GAAAAAATCAT
1 -AAAAAAT-AT
*
8653453 -ATAAATCAT
1 AAAAAAT-AT
*
8653462 AAAAATTAT
1 AAAAAATAT
*
8653471 -AAAAATAG
1 AAAAAATAT
*
8653479 AAAAAACCAT
1 AAAAAA-TAT
*
8653489 CAAAAAT-T
1 AAAAAATAT
8653497 ATAAAAAT-T
1 A-AAAAATAT
**
8653506 ATTAAATAT
1 AAAAAATAT
*
8653515 TAAAAATAT
1 AAAAAATAT
* *
8653524 GAAAATTGAT
1 AAAAAAT-AT
* *
8653534 AAAAACTTT
1 AAAAAATAT
*
8653543 AAAAATATAA
1 AAAAA-ATAT
8653553 AAAAAATTAT
1 AAAAAA-TAT
* *
8653563 ACAAATTAT
1 AAAAAATAT
8653572 -AAAAATAT
1 AAAAAATAT
8653580 AA
1 AA
8653582 TAATTTATAA
Statistics
Matches: 125, Mismatches: 35, Indels: 28
0.66 0.19 0.15
Matches are distributed among these distances:
8 28 0.22
9 60 0.48
10 36 0.29
11 1 0.01
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAAAATAT
Found at i:8653462 original size:45 final size:45
Alignment explanation
Indices: 8653375--8653463 Score: 119
Period size: 47 Copynumber: 2.0 Consensus size: 45
8653365 ATATTTTTCC
8653375 ATAAAAATATTTAAAAATTAGAAAAAAAAATATAAAAATCATAACA
1 ATAAAAATATTTAAAAATTAGAAAAAAAAATAT-AAAATCATAACA
**
8653421 ATAAAAATATTTAAAAAATCT-GAAAAAATCATAT-AAATCATAA
1 ATAAAAATATTT-AAAAAT-TAGAAAAAAAAATATAAAATCATAA
8653464 AAATTATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
45 9 0.23
46 12 0.31
47 17 0.44
48 1 0.03
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (45 bp):
ATAAAAATATTTAAAAATTAGAAAAAAAAATATAAAATCATAACA
Found at i:8653580 original size:17 final size:16
Alignment explanation
Indices: 8653491--8653725 Score: 67
Period size: 20 Copynumber: 12.2 Consensus size: 16
8653481 AAAACCATCA
8653491 AAAATTATAAAAATTAT
1 AAAATTATAAAAA-TAT
*
8653508 TAAA-TATTAAAAATAT
1 AAAATTA-TAAAAATAT
*
8653524 GAAAATTGATAAAAACTTT
1 -AAAATT-ATAAAAA-TAT
*
8653543 AAAAATATAAAAAAAATTAT
1 -AAAAT-T-ATAAAAA-TAT
8653563 ACAAATTATAAAAATAT
1 A-AAATTATAAAAATAT
8653580 AATAATTTATAAAATGAAATTTAT
1 AA-AA-TTAT--AA--AAA--TAT
8653604 AAAATTAATAAAACATATTT
1 AAAATT-ATAAAA-ATA--T
8653624 AAAATTTTATAAAAGCATATT
1 AAAA--TTATAAAA--ATA-T
8653645 AAAATTCTATAAAAAATCAT
1 AAAA-T-TAT-AAAAAT-AT
8653665 ACAAAATTATAAAAAATATT
1 --AAAATTAT-AAAAATA-T
*
8653685 AAAATTAATATAAACTTAT
1 AAAATT-ATA-AAA-ATAT
8653704 AAAAATTATAAAAATCAT
1 -AAAATTATAAAAAT-AT
8653722 AAAA
1 AAAA
8653726 ACTTGAACTG
Statistics
Matches: 174, Mismatches: 11, Indels: 66
0.69 0.04 0.26
Matches are distributed among these distances:
16 6 0.03
17 23 0.13
18 31 0.18
19 22 0.13
20 45 0.26
21 19 0.11
22 19 0.11
23 4 0.02
24 5 0.03
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (16 bp):
AAAATTATAAAAATAT
Found at i:8653659 original size:22 final size:20
Alignment explanation
Indices: 8653516--8653722 Score: 89
Period size: 20 Copynumber: 10.4 Consensus size: 20
8653506 ATTAAATATT
* *
8653516 AAAA-ATATGAAAATTGATA
1 AAAACATATTAAAATTTATA
*
8653535 AAAAC-T-TTAAAA-ATATA
1 AAAACATATTAAAATTTATA
* *
8653552 AAAA-AAATTATACAAATTAT-
1 AAAACATATTA-A-AATTTATA
8653572 AAAA-ATA-TAATAATTTATA
1 AAAACATATTAA-AATTTATA
* * *
8653591 AAATGAAATTTATAAAATTAAT-
1 AAA--ACATAT-TAAAATTTATA
8653613 AAAACATATTTAAAATTTTATA
1 AAAACATA-TTAAAA-TTTATA
*
8653635 AAAGCATATTAAAATTCTATA
1 AAAACATATTAAAATT-TATA
*
8653656 AAAA-ATCA-TACAAAATTATA
1 AAAACAT-ATTA-AAATTTATA
*
8653676 AAAA-ATATTAAAATTAATA
1 AAAACATATTAAAATTTATA
* * *
8653695 TAAACTTA-TAAAAATTATA
1 AAAACATATTAAAATTTATA
8653714 AAAATCATA
1 AAAA-CATA
8653723 AAAACTTGAA
Statistics
Matches: 143, Mismatches: 24, Indels: 41
0.69 0.12 0.20
Matches are distributed among these distances:
17 7 0.05
18 15 0.10
19 34 0.24
20 39 0.27
21 27 0.19
22 12 0.08
23 6 0.04
24 3 0.02
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAACATATTAAAATTTATA
Found at i:8653696 original size:21 final size:20
Alignment explanation
Indices: 8653496--8653698 Score: 90
Period size: 21 Copynumber: 10.3 Consensus size: 20
8653486 CATCAAAAAT
*
8653496 TATAAAAATTATT-AAA-TA
1 TATAAAAAATATTAAAATTA
*
8653514 T-T-AAAAATATGAAAATT-
1 TATAAAAAATATTAAAATTA
* * *
8653531 GATAAAAACT-TTAAAAATA
1 TATAAAAAATATTAAAATTA
*
8653550 TAAAAAAAAT-TATACAAATTA
1 TATAAAAAATAT-TA-AAATTA
* * *
8653571 TA-AAAATATAAT-AATTTA
1 TATAAAAAATATTAAAATTA
*
8653589 TA-AAATGAAATTTATAAAATTA
1 TATAAA--AAATAT-TAAAATTA
* *
8653611 -ATAAAACATATTTAAAATTT
1 TATAAAAAATA-TTAAAATTA
* *
8653631 TATAAAAGCATATTAAAATTC
1 TATAAAA-AATATTAAAATTA
*
8653652 TATAAAAAATCA-TACAAAAT-
1 TATAAAAAAT-ATTA-AAATTA
8653672 TATAAAAAATATTAAAATTAA
1 TATAAAAAATATTAAAATT-A
8653693 TATAAA
1 TATAAA
8653699 CTTATAAAAA
Statistics
Matches: 140, Mismatches: 24, Indels: 39
0.69 0.12 0.19
Matches are distributed among these distances:
16 7 0.05
17 4 0.03
18 19 0.14
19 18 0.13
20 38 0.27
21 42 0.30
22 12 0.09
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.33
Consensus pattern (20 bp):
TATAAAAAATATTAAAATTA
Found at i:8653714 original size:9 final size:9
Alignment explanation
Indices: 8653444--8653726 Score: 120
Period size: 9 Copynumber: 30.6 Consensus size: 9
8653434 AAAAATCTGA
*
8653444 AAAAATCAT
1 AAAAATTAT
* *
8653453 ATAAATCAT
1 AAAAATTAT
8653462 AAAAATTAT
1 AAAAATTAT
*
8653471 AAAAA-TAGA
1 AAAAATTA-T
**
8653480 AAAAACCAT
1 AAAAATTAT
8653489 CAAAAATTAT
1 -AAAAATTAT
8653499 AAAAATTAT
1 AAAAATTAT
*
8653508 -TAAA-TATT
1 AAAAATTA-T
8653516 AAAAA-TAT
1 AAAAATTAT
*
8653524 GAAAATTGAT
1 AAAAATT-AT
8653534 AAAAACTT-T
1 AAAAA-TTAT
*
8653543 AAAAATATAAA
1 AAAAAT-T-AT
8653554 AAAAATTAT
1 AAAAATTAT
*
8653563 ACAAATTAT
1 AAAAATTAT
8653572 AAAAA-TAT
1 AAAAATTAT
*
8653580 AATAATT-T
1 AAAAATTAT
*
8653588 ATAAA--AT
1 AAAAATTAT
* *
8653595 GAAATTTAT
1 AAAAATTAT
8653604 -AAAATTAAT
1 AAAAATT-AT
*
8653613 AAAACATATTT
1 AAAA-AT-TAT
*
8653624 AAAATTTTAT
1 AAAA-ATTAT
8653634 AAAAGCA-TATT
1 AAAA--ATTA-T
*
8653645 AAAATTCTAT
1 AAAAAT-TAT
*
8653655 AAAAAATCAT
1 -AAAAATTAT
8653665 ACAAAATTAT
1 A-AAAATTAT
*
8653675 AAAAAATAT
1 AAAAATTAT
*
8653684 TAAAATTAAT
1 AAAAATT-AT
*
8653694 ATAAACTTAT
1 A-AAAATTAT
8653704 AAAAATTAT
1 AAAAATTAT
*
8653713 AAAAATCAT
1 AAAAATTAT
8653722 AAAAA
1 AAAAA
8653727 CTTGAACTGG
Statistics
Matches: 207, Mismatches: 40, Indels: 54
0.69 0.13 0.18
Matches are distributed among these distances:
7 5 0.02
8 28 0.14
9 98 0.47
10 42 0.20
11 33 0.16
12 1 0.00
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:8653726 original size:19 final size:18
Alignment explanation
Indices: 8653400--8653726 Score: 83
Period size: 19 Copynumber: 17.7 Consensus size: 18
8653390 AATTAGAAAA
*
8653400 AAAAATAT-AAAAATCAT
1 AAAAATATAAAAAATTAT
* *
8653417 AACAATA-AAAATATT-T
1 AAAAATATAAAAAATTAT
* *
8653433 AAAAAATCTGAAAAAATCAT
1 -AAAAATAT-AAAAAATTAT
*
8653453 ATAAATCAT-AAAAATTAT
1 AAAAAT-ATAAAAAATTAT
* **
8653471 AAAAATAGAAAAAACCAT
1 AAAAATATAAAAAATTAT
8653489 CAAAAAT-TATAAAAATTAT
1 -AAAAATATA-AAAAATTAT
* *
8653508 -TAAATATTAAAAA-TAT
1 AAAAATATAAAAAATTAT
* *
8653524 GAAAATTGATAAAAACTT-T
1 -AAAAAT-ATAAAAAATTAT
8653543 AAAAATATAAAAAAAATTAT
1 AAAAATAT--AAAAAATTAT
*
8653563 ACAAAT-TATAAAAA-TAT
1 AAAAATATA-AAAAATTAT
* * *
8653580 AATAAT-TTATAAA--AT
1 AAAAATATAAAAAATTAT
* * *
8653595 -GAAATTTATAAAATTAAT
1 AAAAATATAAAAAATT-AT
**
8653613 AAAACATATTTAAAATTTTAT
1 AAAA-ATA--TAAAAAATTAT
* *
8653634 AAAAGCATATTAAAATTCTAT
1 AAAA--ATATAAAAAAT-TAT
*
8653655 AAAAAATCATACAAAATTAT
1 -AAAAAT-ATAAAAAATTAT
*
8653675 AAAAA-ATATTAAAATTAAT
1 AAAAATATA-AAAAATT-AT
*
8653694 ATAAACT-TATAAAAATTAT
1 A-AAAATATA-AAAAATTAT
8653713 AAAAATCATAAAAA
1 AAAAAT-ATAAAAA
8653727 CTTGAACTGG
Statistics
Matches: 225, Mismatches: 49, Indels: 70
0.65 0.14 0.20
Matches are distributed among these distances:
14 3 0.01
15 6 0.03
16 8 0.04
17 40 0.18
18 47 0.21
19 56 0.25
20 36 0.16
21 15 0.07
22 14 0.06
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAATATAAAAAATTAT
Found at i:8654253 original size:7 final size:8
Alignment explanation
Indices: 8654224--8654311 Score: 52
Period size: 8 Copynumber: 10.0 Consensus size: 8
8654214 GTTTATGTAA
*
8654224 ATTTTAAT
1 ATTTTTAT
*
8654232 ATTTTAAT
1 ATTTTTAT
8654240 ATTTTTAT
1 ATTTTTAT
8654248 -TTTTTAT
1 ATTTTTAT
*
8654255 ATTTTTAAA
1 ATTTTT-AT
*
8654264 ATTTTTAAA
1 ATTTTT-AT
8654273 ATTTTTAAT
1 ATTTTT-AT
8654282 GATTTTTTAAT
1 -A-TTTTT-AT
8654293 GATTTTTAATT
1 -ATTTTT-A-T
8654304 ATTTTTAT
1 ATTTTTAT
8654312 GAGAAAAATA
Statistics
Matches: 72, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
7 7 0.10
8 21 0.29
9 19 0.26
10 14 0.19
11 11 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
ATTTTTAT
Found at i:8654260 original size:24 final size:23
Alignment explanation
Indices: 8654225--8654270 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
8654215 TTTATGTAAA
*
8654225 TTTTAATATTTTAATATTTTTAT
1 TTTTAATATTTTAAAATTTTTAT
*
8654248 TTTTTATATTTTTAAAATTTTTA
1 TTTTAATA-TTTTAAAATTTTTA
8654271 AAATTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTAATATTTTAAAATTTTTAT
Found at i:8654286 original size:10 final size:9
Alignment explanation
Indices: 8654225--8654310 Score: 90
Period size: 9 Copynumber: 9.6 Consensus size: 9
8654215 TTTATGTAAA
8654225 TTTTAATA-
1 TTTTAATAT
8654233 TTTTAATAT
1 TTTTAATAT
8654242 TTTT-AT-T
1 TTTTAATAT
8654249 TTTT-ATAT
1 TTTTAATAT
*
8654257 TTTTAAAAT
1 TTTTAATAT
*
8654266 TTTTAAAAT
1 TTTTAATAT
8654275 TTTTAATGATT
1 TTTTAAT-A-T
8654286 TTTTAATGAT
1 TTTTAAT-AT
8654296 TTTTAATTAT
1 TTTTAA-TAT
8654306 TTTTA
1 TTTTA
8654311 TGAGAAAAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
7 7 0.10
8 15 0.21
9 22 0.31
10 15 0.21
11 11 0.16
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTAATAT
Found at i:8654290 original size:11 final size:11
Alignment explanation
Indices: 8654274--8654309 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
8654264 ATTTTTAAAA
8654274 TTTTTAATGAT
1 TTTTTAATGAT
8654285 TTTTTAATGA-
1 TTTTTAATGAT
*
8654295 TTTTTAATTAT
1 TTTTTAATGAT
8654306 TTTT
1 TTTT
8654310 ATGAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (11 bp):
TTTTTAATGAT
Found at i:8667775 original size:21 final size:21
Alignment explanation
Indices: 8667751--8667791 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8667741 GATGAGATTA
8667751 AAAAACAAAAAAAATGAAATG
1 AAAAACAAAAAAAATGAAATG
* **
8667772 AAAAATAAAAATGATGAAAT
1 AAAAACAAAAAAAATGAAAT
8667792 TGGTAATGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAAACAAAAAAAATGAAATG
Found at i:8668656 original size:5 final size:5
Alignment explanation
Indices: 8668641--8668681 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
8668631 CTCACCCTTA
* * *
8668641 ACTTT ATTTT ACTTT ACTTT ACTTT ACTTT AATTT AATTT A
1 ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT A
8668682 AGGCTATGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (5 bp):
ACTTT
Found at i:8670745 original size:3 final size:3
Alignment explanation
Indices: 8670727--8670777 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
8670717 TTAAATACTC
* *
8670727 TTA TTA TTT TTA -TA TTA TTAA TT- TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
8670771 TGTA TTA
1 T-TA TTA
8670778 GTTTATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 30 0.75
4 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8670757 original size:15 final size:15
Alignment explanation
Indices: 8670727--8670777 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
8670717 TTAAATACTC
*
8670727 TTATTATTTTTA-TA
1 TTATTAATTTTATTA
8670741 TTATTAATTTTATTA
1 TTATTAATTTTATTA
*
8670756 TTATTAATATTATTA
1 TTATTAATTTTATTA
8670771 TGTATTA
1 T-TATTA
8670778 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.33
15 17 0.52
16 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTAATTTTATTA
Found at i:8671180 original size:27 final size:27
Alignment explanation
Indices: 8671150--8671208 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
8671140 ATTAGTTACG
* *
8671150 CATATATTCTTT-ACATTATCTTATGTA
1 CATATATT-TTTCACATTATATTATATA
*
8671177 CATATATTTTTCATATTATATTATATA
1 CATATATTTTTCACATTATATTATATA
8671204 CATAT
1 CATAT
8671209 CCTTTTGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.53
Consensus pattern (27 bp):
CATATATTTTTCACATTATATTATATA
Found at i:8683625 original size:60 final size:64
Alignment explanation
Indices: 8683453--8684000 Score: 432
Period size: 72 Copynumber: 8.0 Consensus size: 64
8683443 CAAGGAAATT
* *
8683453 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTTTTCCA
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA-TTTCTGT---
8683518 AATTC
62 --TTC
8683523 AACTCATATTGCGAGAAATGAGTTG-GCCTCAGGACACGCTGAGGT-ATTTC-ATTTCTGTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTC
* *** **
8683584 AA-TCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC-CTGAGGT--TTTTGTTTTCCAAATTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT-C-TGTTT
8683645 C
64 C
8683646 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG-TGAGGTAATTTCAATTTCTGTTGTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-T-T-
8683710 AAAAAATC
63 ------TC
8683718 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT-TGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-----
8683782 CAAATTTC
61 ----TTTC
*
8683790 AACTCATATTGCGAGAAATGAGCTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-T-T-
8683855 AAAAAAATC
63 -------TC
* * ** *
8683864 AACTCATATTGCGAAAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG---TT
8683929 CAAGAAAATC
63 --------TC
** * * *
8683939 AACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GTCACGCTGAGGTATTTTCCATTTCTGTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
8684001 TCAATTTTGT
Statistics
Matches: 410, Mismatches: 30, Indels: 83
0.78 0.06 0.16
Matches are distributed among these distances:
59 3 0.01
60 32 0.08
61 17 0.04
62 6 0.01
63 41 0.10
64 2 0.00
65 8 0.02
66 6 0.01
67 1 0.00
68 5 0.01
69 20 0.05
70 25 0.06
71 2 0.00
72 101 0.25
73 19 0.05
74 79 0.19
75 39 0.10
76 2 0.00
79 1 0.00
80 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (64 bp):
AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTC
Found at i:8683792 original size:72 final size:73
Alignment explanation
Indices: 8683644--8684158 Score: 651
Period size: 72 Copynumber: 6.9 Consensus size: 73
8683634 TTTCCAAATT
*
8683644 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG-TGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
8683708 TCAAAAAA
66 TCAAAAAA
8683716 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT-TGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
* **
8683780 TCCAAATT
66 TCAAAAAA
* *
8683788 TCAACTCATATTGCGAGAAATGAGCTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
8683853 TCAAAAAAA
66 TC-AAAAAA
* * ** *
8683862 TCAACTCATATTGCGAAAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TT
8683927 TTCAAGAAAA
65 TTCAA-AAAA
** * * *
8683937 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GTCACGCTGAGGTATTTTCCATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
8684001 TCAATTTTGTTTTCAAAA
66 TCAA----------AAAA
* *
8684019 TCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGT-ATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
8684083 TCAAAAAAA
66 TC-AAAAAA
** * * * * *
8684092 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
8684157 TC
66 TC
8684159 GTCATTATGT
Statistics
Matches: 386, Mismatches: 40, Indels: 32
0.84 0.09 0.07
Matches are distributed among these distances:
72 108 0.28
73 76 0.20
74 99 0.26
75 39 0.10
82 50 0.13
83 14 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (73 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
TCAAAAAA
Found at i:8684139 original size:73 final size:74
Alignment explanation
Indices: 8684015--8684155 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 74
8684005 TTTTGTTTTC
* * *
8684015 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTA-TTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCT
8684079 GTTGTCAAA
66 GTTGTCAAA
** * *
8684088 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCT
8684153 GTT
66 GTT
8684156 TTCGTCATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
73 47 0.78
74 13 0.22
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCT
GTTGTCAAA
Found at i:8684310 original size:159 final size:156
Alignment explanation
Indices: 8683857--8684527 Score: 694
Period size: 159 Copynumber: 4.3 Consensus size: 156
8683847 CTGTTGTCAA
* *
8683857 AAAAATCAACTCATATTGCGAAAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTC
8683922 TGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGTCACGCTGAGGTAT
66 TG-TTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTAT
*
8683986 TTTCCATTTCTGTTTTCAATTTTGTTTT
129 TTTCCATTTCTGTTTTCAATTATGTTTT
* * * **
8684014 CAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGT-ATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTC
* * * *
8684078 TGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATT
66 TGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATT
*
8684143 TTCCATTTCTGTTTTCGTCATTATGTTTTT
130 TTCCATTTCTGTTTTC--AATTATG-TTTT
*
8684173 GAAAGAATCAACTCATATTGCGAGAAATAAGTTGAGCC-CAAGACACATTGAGGTAATTTCAATT
1 -AAA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT
* ** * *
8684237 TCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAT
64 TCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTAT
* *
8684301 TTTCAATTTCTG----C-----T-TTTC
129 TTTCCATTTCTGTTTTCAATTATGTTTT
* * * * **
8684319 AAAATTCAACTCATATTGCGAGAAATGAATTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTC
* * * * * * *
8684384 CGTTGTCAAAAAAATCAACTCGTATTGCGAAAAGTGAGTTGAGCCTC-AGTTCACATGTTGAGAT
66 TGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-TCAC--GCTGAGGT
* * *
8684448 ATCTTT--AGTTTTTGTTTTTAATGTCTGTTTTT
127 AT-TTTCCA-TTTCTGTTTTCAAT-TATG-TTTT
* * *
8684480 AAAGAGTCAATTCATATTGCGAGAAATGAGTTG-GGCTCAAGATCACAT
1 AAA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA-CACAT
8684528 GCCAAGTAAG
Statistics
Matches: 428, Mismatches: 56, Indels: 55
0.79 0.10 0.10
Matches are distributed among these distances:
144 30 0.07
145 32 0.07
146 5 0.01
147 37 0.09
148 2 0.00
149 14 0.03
150 3 0.01
155 42 0.10
156 44 0.10
157 47 0.11
158 5 0.01
159 63 0.15
160 14 0.03
161 61 0.14
162 29 0.07
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (156 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTC
TGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTT
TCCATTTCTGTTTTCAATTATGTTTT
Found at i:8684342 original size:73 final size:72
Alignment explanation
Indices: 8684180--8684431 Score: 355
Period size: 73 Copynumber: 3.5 Consensus size: 72
8684170 TTTGAAAGAA
* *
8684180 TCAACTCATATTGCGAGAAATAAGTTGAGCC-CAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
8684244 TCAAAAT
66 TCAAAAT
*
8684251 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
8684316 TTCAAAAT
65 TTCAAAAT
* * * * * *
8684324 TCAACTCATATTGCGAGAAATGAATTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTCCGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
8684389 TCAAAAAAA
66 TC--AAAAT
*
8684398 TCAACTCGTATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
8684432 GTTCACATGT
Statistics
Matches: 162, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
71 30 0.19
72 32 0.20
73 69 0.43
74 31 0.19
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:8684497 original size:306 final size:306
Alignment explanation
Indices: 8683644--8684527 Score: 965
Period size: 306 Copynumber: 2.9 Consensus size: 306
8683634 TTTCCAAATT
*
8683644 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG-TGAGGTAATTTCAATTTCTGT-T
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-GACACGCTGAGGTATTTTCAATTTCTGTCT
* *** * *
8683707 GTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
65 TTTTCAAAATCAACTCATATTGCGAGAAATGAATTGAGCCTTAGGACACGCTGAGGT-ATTTCAA
* * * ** * * * *
8683772 TTT-TGTTTTC-CAAATTTCAACTCATATTGCGAGAAA-TGAGCTGAGCCTCAGGACACGCTGAG
129 TTTCCGTTGTCAAAAAAATCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCAGGTCACACCGAG
* * * *
8683834 GTAATTTCAATTTCTGTTGTC--A--A--------AAA-AATCAACTCATATTGCGAAAAATGAG
193 ATATTTTC-ATTTCTGTTTTCTAATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAG
*
8683886 TTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTTCAAGAAAA
257 TTGAGCC-CAAGACACATTGAGGTAATTTCAATTTCTGCTTTTCAAGAAAA
** * *
8683937 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTCACGCTGAGGTATTTTCCATTTCTGTTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGACACGCTGAGGTATTTTCAATTTCTG---T
*
8684002 CAATTTTGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGT
63 C-----T-TTTTCAAAATCAACTCATATTGCGAGAAATGAATTGAGCCTTAGGACACGCTGAGGT
* * *
8684067 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
122 ATTTCAATTTCCGTTGTCAAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCAC
* *
8684132 ACCGAGGTATTTTCCATTTCTGTTTTCGTCATTATGTTTTTGAAAGAATCAACTCATATTGCGAG
187 ACCGAGATATTTT-CATTTCTGTTTTC-TAATTATGTTTTTGAAAGAATCAACTCATATTGCGAG
* *
8684197 AAATAAGTTGAGCCCAAGACACATTGAGGTAATTTCAATTTCTG-TTTTC-A-AAAT
250 AAATGAGTTGAGCCCAAGACACATTGAGGTAATTTCAATTTCTGCTTTTCAAGAAAA
*
8684251 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-C-
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGACACGCTGAGGTATTTTCAATTTCTGTCT
8684314 TTTTCAAAATTCAACTCATATTGCGAGAAATGAATTGAGCCTTAGGACACGCTGAGGTAATTTCA
65 TTTTCAAAA-TCAACTCATATTGCGAGAAATGAATTGAGCCTTAGGACACGCTGAGGT-ATTTCA
* * **
8684379 ATTTCCGTTGTCAAAAAAATCAACTCGTATTGCGAAAAGTGAGTTGAGCCTCAGTTCACATGTTG
128 ATTTCCGTTGTCAAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCACA--CCG
* * * *
8684444 AGATATCTTT-AGTTTTTGTTTT-TAATGTCTGTTTTT-AAAGAGTCAATTCATATTGCGAGAAA
191 AGATAT-TTTCA-TTTCTGTTTTCTAAT-TATGTTTTTGAAAGAATCAACTCATATTGCGAGAAA
* *
8684506 TGAGTTGGGCTCAAGATCACAT
253 TGAGTTGAGCCCAAGA-CACAT
8684528 GCCAAGTAAG
Statistics
Matches: 505, Mismatches: 48, Indels: 62
0.82 0.08 0.10
Matches are distributed among these distances:
292 5 0.01
293 50 0.10
296 1 0.00
302 11 0.02
303 59 0.12
304 67 0.13
305 48 0.10
306 101 0.20
307 15 0.03
308 15 0.03
309 4 0.01
311 1 0.00
314 34 0.07
315 26 0.05
316 5 0.01
317 32 0.06
318 31 0.06
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (306 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGACACGCTGAGGTATTTTCAATTTCTGTCTT
TTTCAAAATCAACTCATATTGCGAGAAATGAATTGAGCCTTAGGACACGCTGAGGTATTTCAATT
TCCGTTGTCAAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCACACCGAGATA
TTTTCATTTCTGTTTTCTAATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGA
GCCCAAGACACATTGAGGTAATTTCAATTTCTGCTTTTCAAGAAAA
Found at i:8689967 original size:60 final size:59
Alignment explanation
Indices: 8689851--8689972 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 59
8689841 TTTTTAAATT
* *
8689851 TTAAATTTTTAAGAATTAAGACTAAGTTGATAGAATGTGTAAAGTTGAGAGCTAAATTTG
1 TTAAATTTTTAAGAATTAAGACTAAGTTGATAAAATCTGTAAAGTTGAGA-CTAAATTTG
* * *
8689911 TTAAATTTTTTAGATTTAAGACTAAGTTGATAAAATCTGTAAATATTTGAGA-TAAATTTG
1 TTAAATTTTTAAGAATTAAGACTAAGTTGATAAAATCTGT-AA-AGTTGAGACTAAATTTG
8689971 TT
1 TT
8689973 CTTAAGAGTG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
60 46 0.84
61 2 0.04
62 7 0.13
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.41
Consensus pattern (59 bp):
TTAAATTTTTAAGAATTAAGACTAAGTTGATAAAATCTGTAAAGTTGAGACTAAATTTG
Found at i:8690711 original size:11 final size:11
Alignment explanation
Indices: 8690695--8690773 Score: 62
Period size: 11 Copynumber: 7.5 Consensus size: 11
8690685 TTTTTTAAAA
8690695 TTTTAAAATAC
1 TTTTAAAATAC
8690706 TTTTAAAATAC
1 TTTTAAAATAC
*
8690717 TTTTTTTAAAT--
1 --TTTTAAAATAC
*
8690728 TTTT----TAA
1 TTTTAAAATAC
*
8690735 TTTTAAAATAT
1 TTTTAAAATAC
*
8690746 TTTTAAAATAT
1 TTTTAAAATAC
8690757 TTTTAAAATAC
1 TTTTAAAATAC
8690768 TTTTAA
1 TTTTAA
8690774 TTTTTTTAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
5 1 0.02
7 4 0.07
9 4 0.07
11 40 0.70
13 8 0.14
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:8690721 original size:40 final size:38
Alignment explanation
Indices: 8690676--8690760 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 38
8690666 GAATACAATA
8690676 ATTTTTTT-ATTTTTTAAAATTTTAAAATACTTTTAAAAT
1 ATTTTTTTAATTTTTT--AATTTTAAAATACTTTTAAAAT
*
8690715 ACTTTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAAT
1 A-TTTTTTT-AATTTTTTAATTTTAAAATACTTTTAAAAT
8690755 ATTTTT
1 ATTTTT
8690761 AAAATACTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
39 6 0.14
40 29 0.69
42 7 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (38 bp):
ATTTTTTTAATTTTTTAATTTTAAAATACTTTTAAAAT
Found at i:8690792 original size:48 final size:49
Alignment explanation
Indices: 8690674--8690803 Score: 185
Period size: 48 Copynumber: 2.7 Consensus size: 49
8690664 CCGAATACAA
* *
8690674 TAATTTTTTTATTTTTTAAA-A-TTTTAAAATACTTTTAAAATACTTTTTT
1 TAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTAAAATAC--TTTT
* *
8690723 TAAATTTTTTAATTTTAAAATATTTTTAAAATATTTTTAAAATAC-TTT
1 TAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTAAAATACTTTT
8690771 TAATTTTTTTAATTTTAAAATATTTTTAAAATA
1 TAATTTTTTTAATTTTAAAATATTTTTAAAATA
8690804 GAATTTTTTA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
48 35 0.47
49 17 0.23
50 1 0.01
51 21 0.28
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.58
Consensus pattern (49 bp):
TAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTAAAATACTTTT
Found at i:8690824 original size:37 final size:36
Alignment explanation
Indices: 8690746--8690843 Score: 100
Period size: 37 Copynumber: 2.8 Consensus size: 36
8690736 TTTAAAATAT
*
8690746 TTTTAAAATATTTTTAAAAT-ACTTTTAATTTTTTTAA
1 TTTTAAAATATTTTTAAAATAAATTTT--TTTTTTTAA
*
8690783 TTTTAAAATATTTTTAAAATAGAATTTTTTATTTTT-G
1 TTTTAAAATATTTTTAAAATA-AATTTTTT-TTTTTAA
8690820 TTTT---A-ATTTTTAAAATAAATTTTT
1 TTTTAAAATATTTTTAAAATAAATTTTT
8690844 GGTATTTATT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
32 7 0.12
33 12 0.21
34 1 0.02
37 26 0.46
38 5 0.09
39 5 0.09
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (36 bp):
TTTTAAAATATTTTTAAAATAAATTTTTTTTTTTAA
Found at i:8691995 original size:8 final size:8
Alignment explanation
Indices: 8691984--8692034 Score: 84
Period size: 8 Copynumber: 6.2 Consensus size: 8
8691974 TTTTTTTATT
*
8691984 TTTTAAAG
1 TTTTAAAA
8691992 TTTTAAAA
1 TTTTAAAA
8692000 TTTTAAAA
1 TTTTAAAA
8692008 TTTTAAAA
1 TTTTAAAA
8692016 TTTTAAAA
1 TTTTAAAA
8692024 TTTTAAGAA
1 TTTTAA-AA
8692033 TT
1 TT
8692035 AAGACTAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
8 37 0.90
9 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (8 bp):
TTTTAAAA
Found at i:8693544 original size:7 final size:7
Alignment explanation
Indices: 8693532--8693557 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8693522 CTATAAAAAT
8693532 AAAATTA
1 AAAATTA
8693539 AAAATTA
1 AAAATTA
8693546 AAAATTA
1 AAAATTA
8693553 AAAAT
1 AAAAT
8693558 AATTCATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:8694101 original size:18 final size:19
Alignment explanation
Indices: 8694072--8694116 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8694062 AAGGAAAATG
* *
8694072 ATTTTTAAAAAATATTTAAT
1 ATTTTTTAAAAA-AGTTAAT
8694092 -TTTTTTAAAAAAGTTAAT
1 ATTTTTTAAAAAAGTTAAT
8694110 ATTTTTT
1 ATTTTTT
8694117 TGTGTTTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTTTTAAAAAAGTTAAT
Found at i:8696989 original size:42 final size:42
Alignment explanation
Indices: 8696942--8697140 Score: 260
Period size: 42 Copynumber: 4.7 Consensus size: 42
8696932 AAAAACGTCG
* * *
8696942 CTAAAGATCATGTTCTTTAGCGGCGTTTTTCCT-TAAGCGCCA
1 CTAAAGAACATGTTCTTTAGCGGCGTTTTT-TTATAAGCGCCT
*
8696984 CTAAAGAACATGTT-TTTCAGCAGCGTTTTTTT-TAAGCGCCT
1 CTAAAGAACATGTTCTTT-AGCGGCGTTTTTTTATAAGCGCCT
* *
8697025 CTAAAGAACATGTTCTTTAGCGGCGTTTTTTATATGAGCGCCG
1 CTAAAGAACATGTTCTTTAGCGGCGTTTTTT-TATAAGCGCCT
* * *
8697068 CTAAAGAACATGTTCTTTAGCGGCATTTTTTTCTAAGCACCT
1 CTAAAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCT
*
8697110 CTAAAGAACATGTTCTTTAGCGGCGCTTTTT
1 CTAAAGAACATGTTCTTTAGCGGCGTTTTTT
8697141 CTTTGCTTTT
Statistics
Matches: 139, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
41 38 0.27
42 64 0.46
43 37 0.27
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (42 bp):
CTAAAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCT
Found at i:8697586 original size:21 final size:21
Alignment explanation
Indices: 8697539--8697587 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
8697529 CTTTTGAACC
* *
8697539 TCTGCTTCTCTCGTTGCAGCC
1 TCTGCTTCTCTCGCTGCAGCA
*
8697560 TCTGCTTCTCTCGCTGCCGCA
1 TCTGCTTCTCTCGCTGCAGCA
*
8697581 TGTGCTT
1 TCTGCTT
8697588 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.37, G:0.20, T:0.39
Consensus pattern (21 bp):
TCTGCTTCTCTCGCTGCAGCA
Found at i:8703133 original size:9 final size:9
Alignment explanation
Indices: 8703119--8703250 Score: 119
Period size: 9 Copynumber: 14.8 Consensus size: 9
8703109 AAGTTCTGTA
8703119 TTATGTAAG
1 TTATGTAAG
8703128 TTATGTAAG
1 TTATGTAAG
*
8703137 TTGTGT-A-
1 TTATGTAAG
*
8703144 TTATGTGAG
1 TTATGTAAG
8703153 TTATGTAAG
1 TTATGTAAG
8703162 TTATGTAAG
1 TTATGTAAG
* *
8703171 TTATTTAAT
1 TTATGTAAG
8703180 TTATGTAAG
1 TTATGTAAG
*
8703189 TTTATATATAAG
1 --T-TATGTAAG
*
8703201 TTATGTAGG
1 TTATGTAAG
*
8703210 CTATGT-A-
1 TTATGTAAG
* *
8703217 TTATCTAAA
1 TTATGTAAG
*
8703226 TAATGTAAG
1 TTATGTAAG
8703235 TTATGTAAG
1 TTATGTAAG
8703244 TTATGTA
1 TTATGTA
8703251 GGCCATGTAT
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
7 9 0.09
8 3 0.03
9 77 0.79
10 1 0.01
11 1 0.01
12 7 0.07
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:8703143 original size:25 final size:25
Alignment explanation
Indices: 8703084--8703317 Score: 151
Period size: 25 Copynumber: 9.3 Consensus size: 25
8703074 TGATATATTT
*
8703084 TTATGTATTATGTAAGTTACGTACTAAG
1 TTATGTATTATGTAAGTTA--T-GTAAG
*
8703112 TTCTGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
8703137 TTGTGTATTATGTGAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
8703162 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
8703189 -T-T-TA-TATATAAGTTATGTAGG
1 TTATGTATTATGTAAGTTATGTAAG
* * * *
8703210 CTATGTATTATCTAAATAATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* **
8703235 TTATGTAAGTTATGTAGGCCATGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
8703260 TTATGTTATTATATAAGTTATGCAAG
1 TTATG-TATTATGTAAGTTATGTAAG
* * *
8703286 TT-TATA-TACTGTATGTTATTTAAG
1 TTATGTATTA-TGTAAGTTATGTAAG
8703310 TTATGTAT
1 TTATGTAT
8703318 AAGTTATTAT
Statistics
Matches: 160, Mismatches: 32, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
21 14 0.09
22 1 0.01
23 4 0.03
24 28 0.17
25 62 0.39
26 8 0.05
27 25 0.16
28 18 0.11
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:8703162 original size:34 final size:34
Alignment explanation
Indices: 8703119--8703250 Score: 138
Period size: 34 Copynumber: 3.7 Consensus size: 34
8703109 AAGTTCTGTA
* *
8703119 TTATGTAAGTTATGTAAGTTGTGTATTATGTGAG
1 TTATGTAAGTTATGTAAGTTATGTATTATGTAAG
*
8703153 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGT-A-TTATGTAAG
* * * * *
8703189 TTTATATATAAGTTATGTAGGCTATGTATTATCTAAA
1 --T-TATGTAAGTTATGTAAGTTATGTATTATGTAAG
*
8703226 TAATGTAAGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
8703251 GGCCATGTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 10
0.78 0.13 0.10
Matches are distributed among these distances:
34 42 0.52
35 2 0.03
36 8 0.10
37 7 0.09
38 2 0.03
39 19 0.24
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTATGTATTATGTAAG
Found at i:8703354 original size:35 final size:35
Alignment explanation
Indices: 8703261--8703365 Score: 94
Period size: 35 Copynumber: 2.9 Consensus size: 35
8703251 GGCCATGTAT
8703261 TATGTTATTATATAAGT-TATGCAAGTTTATATACTG
1 TATGTTATTATATAAGTATAT--AAGTTTATATACTG
*
8703297 TATGTTA-T-T-TAAGTTATGTATAAG-TTATTATATTG
1 TATGTTATTATATAAG-TA--TATAAGTTTA-TATACTG
8703332 TATGTTATTATATAAGTATATAAGATTCTATATA
1 TATGTTATTATATAAGTATATAAG-TT-TATATA
8703366 TGTTTATATA
Statistics
Matches: 57, Mismatches: 1, Indels: 21
0.72 0.01 0.27
Matches are distributed among these distances:
33 4 0.07
34 5 0.09
35 23 0.40
36 8 0.14
37 11 0.19
38 6 0.11
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (35 bp):
TATGTTATTATATAAGTATATAAGTTTATATACTG
Found at i:8703524 original size:17 final size:16
Alignment explanation
Indices: 8703483--8703526 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
8703473 TAAATTTTGA
* *
8703483 AAAAATTATAGATTTT
1 AAAAATTATATATATT
8703499 AAAAA-TATATATATT
1 AAAAATTATATATATT
8703514 AAAAATGTATATA
1 AAAAAT-TATATA
8703527 AATATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
AAAAATTATATATATT
Found at i:8703774 original size:23 final size:23
Alignment explanation
Indices: 8703730--8703774 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
8703720 ATAAAATTGG
* *
8703730 AATATAGGTTATATGTCCATATT
1 AATATAGGTTATATATCAATATT
* *
8703753 AATATATGTTATATATTAATAT
1 AATATAGGTTATATATCAATAT
8703775 ATGTCCCAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (23 bp):
AATATAGGTTATATATCAATATT
Found at i:8707338 original size:14 final size:14
Alignment explanation
Indices: 8707303--8707340 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
8707293 TTCTAATCCT
*
8707303 TAACCCCAAACCAC
1 TAACCCCTAACCAC
*
8707317 TAACCCCTAACTAC
1 TAACCCCTAACCAC
8707331 TAACCCCTAA
1 TAACCCCTAA
8707341 ATTACCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (14 bp):
TAACCCCTAACCAC
Found at i:8707409 original size:13 final size:13
Alignment explanation
Indices: 8707384--8707435 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 13
8707374 AATTAATCAA
8707384 AACCCTAAACCCT
1 AACCCTAAACCCT
8707397 AACCC-AAATCCCT
1 AACCCTAAA-CCCT
8707410 AACCCCT-AACCCTT
1 AA-CCCTAAACCC-T
8707424 AACCCTTAAACC
1 AACCC-TAAACC
8707436 TTATTTCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 3 0.09
13 17 0.52
14 9 0.27
15 4 0.12
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:8707409 original size:20 final size:20
Alignment explanation
Indices: 8707381--8707435 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
8707371 ATTAATTAAT
8707381 CAAAACCCTAAACCCTAACC
1 CAAAACCCTAAACCCTAACC
* *
8707401 CAAATCCCTAACCCCTAACC
1 CAAAACCCTAAACCCTAACC
**
8707421 CTTAACCCTTAAACC
1 CAAAACCC-TAAACC
8707436 TTATTTCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.16
Consensus pattern (20 bp):
CAAAACCCTAAACCCTAACC
Found at i:8707580 original size:14 final size:15
Alignment explanation
Indices: 8707561--8707593 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
8707551 CTTAAACCAG
8707561 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
8707575 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
8707590 AATC
1 AATC
8707594 TATAAACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:8708538 original size:114 final size:114
Alignment explanation
Indices: 8708133--8708539 Score: 498
Period size: 114 Copynumber: 3.6 Consensus size: 114
8708123 TTTTCCTAGT
* * * * * *
8708133 GCCACTAATTCTAATCTACCTCAAGACTAAACGCTGCATTTTAGATAAGATATTTTGCAGCGCGT
1 GCCACTAACTCTAATCTACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTT
** * *
8708198 TCAG--ACATGCGCAGCTAATACTATGCTTTAGCGGCGTGTTCTCCCAAAC
66 TTTGTAAAATGC-C-GCTAATACTGTGCTTTAGCGGCGTGTTCTCCCAAAC
* * * * * *
8708247 GCCGCTAACTCTAATCTACCTCAAGACCAAATGGTGCGTTTTGGTTAAGATCTTTTGCGGCACTT
1 GCCACTAACTCTAATCTACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTT
* *
8708312 CTTGTAAAATGCCGCTAATACTGTGCTTTAGCGGCGTGTTCTCCCAAGC
66 TTTGTAAAATGCCGCTAATACTGTGCTTTAGCGGCGTGTTCTCCCAAAC
* * *
8708361 GCCACTAACTCTAATCTACCTCAAGACCAAACGGTGCGTTTTGGTTAAGATCTTTTGCGGCGCTT
1 GCCACTAACTCTAATCTACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTT
* *
8708426 TTTGTAAAATGTCGCTAATACTGTTCTTTAGCGGCGT-TT-TCCCGTAAAC
66 TTTGTAAAATGCCGCTAATACTGTGCTTTAGCGGCGTGTTCTCCC--AAAC
* * * * *
8708475 GCCACTAATTCTAATATACCTCAAAACCAAACTCTGCGTTTTGGTTAAGGTATTTTGCAGCGCTT
1 GCCACTAACTCTAATCTACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTT
8708540 ACAAATAAAC
Statistics
Matches: 256, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
112 4 0.02
113 2 0.01
114 244 0.95
115 1 0.00
116 5 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (114 bp):
GCCACTAACTCTAATCTACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTT
TTTGTAAAATGCCGCTAATACTGTGCTTTAGCGGCGTGTTCTCCCAAAC
Found at i:8709919 original size:17 final size:17
Alignment explanation
Indices: 8709884--8709926 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
8709874 ATATATAACT
8709884 GTAAT-ATTAA-TTAAA
1 GTAATAATTAATTTAAA
8709899 -TAATAATTAATTTAAA
1 GTAATAATTAATTTAAA
*
8709915 GTAATATTTAAT
1 GTAATAATTAAT
8709927 AATTAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 4 0.17
15 5 0.21
16 5 0.21
17 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (17 bp):
GTAATAATTAATTTAAA
Found at i:8709942 original size:15 final size:14
Alignment explanation
Indices: 8709885--8709942 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
8709875 TATATAACTG
8709885 TAAT-ATTAATTAAA
1 TAATAATTAATT-AA
8709899 TAATAATTAATTTAA
1 TAATAATTAA-TTAA
* *
8709914 -AGTAA-TATTTAA
1 TAATAATTAATTAA
8709926 TAATTAATTAATTAA
1 TAA-TAATTAATTAA
8709941 TA
1 TA
8709943 TACTTTGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
12 4 0.11
13 3 0.09
14 11 0.31
15 15 0.43
16 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
TAATAATTAATTAA
Found at i:8717322 original size:16 final size:17
Alignment explanation
Indices: 8717301--8717332 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8717291 AAATATGCAA
8717301 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
8717317 TCACATAACTTCATAT
1 TCACATAACTTCATAT
8717333 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:8717600 original size:41 final size:41
Alignment explanation
Indices: 8717501--8717648 Score: 127
Period size: 43 Copynumber: 3.5 Consensus size: 41
8717491 CAATGTCAAC
* ** * * *
8717501 GTCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCACT
1 GTCCCAGACATGGTCTTACA-CAAATCAAATA-CGATGCCAAT
* *
8717544 GTCCCAAACAGGGTCTTACACAAATCAAATACGATGCCAAT
1 GTCCCAGACATGGTCTTACACAAATCAAATACGATGCCAAT
** *
8717585 GTCCCAGACATGGTCTTACACGTATACACAAGT-CGATGCCAAC
1 GTCCCAGACATGGTCTTACACAAAT-CA-AA-TACGATGCCAAT
* *
8717628 GTCCTAGACGTGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
8717649 GAAAATACAT
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
41 29 0.33
42 10 0.11
43 47 0.54
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACAAATCAAATACGATGCCAAT
Found at i:8724070 original size:33 final size:33
Alignment explanation
Indices: 8724031--8724126 Score: 86
Period size: 37 Copynumber: 2.8 Consensus size: 33
8724021 TAATCAAATG
8724031 CCTTATTTATTTATTTTATTTACTTAATATTTC
1 CCTTATTTATTTATTTTATTTACTTAATATTTC
* * *
8724064 CCTTATTTCATTTTCACATTTATTTATTTATTATTTC
1 CCTTATTT-A-TTT-A-TTTTATTTACTTAATATTTC
* *
8724101 CTTTTATTGTATTTATTAT-TTTACTT
1 C-CTTATT-TATTTATTTTATTTACTT
8724127 TTACTACTCC
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
33 8 0.16
34 7 0.14
35 5 0.10
36 2 0.04
37 21 0.42
38 6 0.12
39 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.01, T:0.65
Consensus pattern (33 bp):
CCTTATTTATTTATTTTATTTACTTAATATTTC
Found at i:8724100 original size:22 final size:22
Alignment explanation
Indices: 8724075--8724121 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
8724065 CTTATTTCAT
8724075 TTTCACATTTATT-TATTTATTA
1 TTTC-CATTTATTGTATTTATTA
*
8724097 TTTCCTTTTATTGTATTTATTA
1 TTTCCATTTATTGTATTTATTA
8724119 TTT
1 TTT
8724122 TACTTTTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTCCATTTATTGTATTTATTA
Found at i:8724803 original size:18 final size:17
Alignment explanation
Indices: 8724780--8724822 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
8724770 ACATGCCCCT
*
8724780 TTTTAAAAAAAATTGATA
1 TTTTAAAAAAAATCG-TA
*
8724798 TTTTAACAAAGAATCGTA
1 TTTTAA-AAAAAATCGTA
8724816 TTTTAAA
1 TTTTAAA
8724823 TCTCTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 14 0.64
19 7 0.32
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.40
Consensus pattern (17 bp):
TTTTAAAAAAAATCGTA
Found at i:8728161 original size:29 final size:29
Alignment explanation
Indices: 8728124--8728183 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
8728114 TAAAAATATT
*
8728124 ATATATATTT-AGTCACTTAATTTTTAAAA
1 ATATATATTTAAGTCACTTAA-TTCTAAAA
*
8728153 ATATTTATTTAAGTCACTTAATTCTAAAA
1 ATATATATTTAAGTCACTTAATTCTAAAA
8728182 AT
1 AT
8728184 TTCACAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (29 bp):
ATATATATTTAAGTCACTTAATTCTAAAA
Found at i:8728170 original size:30 final size:34
Alignment explanation
Indices: 8728109--8728183 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 34
8728099 TTTTTAAATC
*
8728109 ATTTTTAAAAATATTATATATATTTAGTCACTTA
1 ATTTTTAAAAATATTATATATATTAAGTCACTTA
8728143 ATTTTTAAAAATA-T-T-TAT-TTAAGTCACTTA
1 ATTTTTAAAAATATTATATATATTAAGTCACTTA
*
8728173 A-TTCTAAAAAT
1 ATTTTTAAAAAT
8728184 TTCACAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 9 0.23
30 12 0.31
31 3 0.08
32 1 0.03
33 1 0.03
34 13 0.33
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (34 bp):
ATTTTTAAAAATATTATATATATTAAGTCACTTA
Found at i:8732729 original size:35 final size:32
Alignment explanation
Indices: 8732676--8732741 Score: 87
Period size: 35 Copynumber: 2.0 Consensus size: 32
8732666 TTATTTCTCG
*
8732676 AAAACGTAAAATTTATATATGAAATATTGTTTTTT
1 AAAACGTAAAATTAATATAT--AATATT-TTTTTT
*
8732711 AAAATGTAAAATTAATATATAATATTTTTTT
1 AAAACGTAAAATTAATATATAATATTTTTTT
8732742 AACACAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 5 0.17
33 6 0.21
35 18 0.62
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (32 bp):
AAAACGTAAAATTAATATATAATATTTTTTTT
Found at i:8733130 original size:20 final size:19
Alignment explanation
Indices: 8733081--8733132 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
8733071 ATTAAACCTT
*
8733081 GAACTCGAACCTTGAACCC
1 GAACTCAAACCTTGAACCC
*
8733100 TATACAT-AAACCTTGAATCCC
1 GA-AC-TCAAACCTTGAA-CCC
8733121 GAACTCAAACCT
1 GAACTCAAACCT
8733133 AAATCCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.37, C:0.33, G:0.10, T:0.21
Consensus pattern (19 bp):
GAACTCAAACCTTGAACCC
Found at i:8733859 original size:90 final size:91
Alignment explanation
Indices: 8733684--8733913 Score: 286
Period size: 90 Copynumber: 2.5 Consensus size: 91
8733674 ATACATTTAT
* * *
8733684 AAAATGTCCAA--TGATACTTGAACTATCAATTTATGTATTATTTGGTACTTGTACTTTCATAAA
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTATGTATTATTTGGTACATGTACTTTCATAAA
* * **
8733747 ATGTCTAATATGGTGCCTATACTTTG
66 ATGTCCAATATAGTAACTATACTTTG
* * *
8733773 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATT-TTTGGTACATGTAGTTTTATAAA
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTATGTATTATTTGGTACATGTACTTTCATAAA
* *
8733837 ATGTCCAATGTAGTAATTATACTTTG
66 ATGTCCAATATAGTAACTATACTTTG
* * **
8733863 AAAATGTTCAATGTGGTACATGAACTATTAACCTATGTATTATTATGGTAC
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTATGTATTATT-TGGTAC
8733914 TTGGAGTTAA
Statistics
Matches: 120, Mismatches: 17, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
89 11 0.09
90 76 0.63
91 27 0.22
92 6 0.05
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (91 bp):
AAAATGTCCAATGTGGTACATGAACTATCAATTTATGTATTATTTGGTACATGTACTTTCATAAA
ATGTCCAATATAGTAACTATACTTTG
Found at i:8734495 original size:29 final size:29
Alignment explanation
Indices: 8734450--8734559 Score: 112
Period size: 29 Copynumber: 3.7 Consensus size: 29
8734440 TAGGTATCAT
* * *
8734450 ATTGAACATTTTCAAAGTATAAGTACCAC
1 ATTGGACATTTTTAAAGTACAAGTACCAC
8734479 ATTGGACATTTTTAAAGTACAAGTACCAC
1 ATTGGACATTTTTAAAGTACAAGTACCAC
* * * *
8734508 ATTAGACGTTTTATAAAAGTGCAAGGACCAC
1 ATTGGACATTTT-T-AAAGTACAAGTACCAC
*
8734539 ATTTGACATTTTATTAAAGTA
1 ATTGGACA-TTT-TTAAAGTA
8734560 TAGGTACTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
29 36 0.54
30 1 0.01
31 25 0.37
32 4 0.06
33 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.33
Consensus pattern (29 bp):
ATTGGACATTTTTAAAGTACAAGTACCAC
Found at i:8739134 original size:22 final size:21
Alignment explanation
Indices: 8739103--8739144 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8739093 TTTTTGTTAT
8739103 TAAATTTAATTATAAA-ATATG
1 TAAATTTAA-TATAAATATATG
8739124 TAAATATTAATATAAATATAT
1 TAAAT-TTAATATAAATATAT
8739145 AATTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAATTTAATATAAATATATG
Found at i:8739153 original size:20 final size:21
Alignment explanation
Indices: 8739103--8739154 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
8739093 TTTTTGTTAT
*
8739103 TAAA-TTTAATTATAAAATATG
1 TAAATTTTAA-TATAAAATATA
*
8739124 TAAATATTAATAT-AAATATA
1 TAAATTTTAATATAAAATATA
*
8739144 TAATTTTTAAT
1 TAAATTTTAAT
8739155 CTTTTATTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 15 0.58
21 7 0.27
22 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TAAATTTTAATATAAAATATA
Found at i:8748407 original size:22 final size:22
Alignment explanation
Indices: 8748365--8748408 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8748355 CATCTAAATT
*
8748365 ATAAATATTTTTAATATTTAAA
1 ATAAATATTTTTAATAATTAAA
*
8748387 ATAAA-ATTTTGTTATAATTAAA
1 ATAAATATTTT-TAATAATTAAA
8748409 TGATTATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATAAATATTTTTAATAATTAAA
Found at i:8749352 original size:20 final size:21
Alignment explanation
Indices: 8749313--8749352 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8749303 CATTGATATA
*
8749313 TTTTAGTAGTGTTTGGGGATG
1 TTTTAGTAGTGTTTGCGGATG
*
8749334 TTTTAG-AGTGTTTTCGGAT
1 TTTTAGTAGTGTTTGCGGAT
8749353 TAATTTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.15, C:0.03, G:0.33, T:0.50
Consensus pattern (21 bp):
TTTTAGTAGTGTTTGCGGATG
Found at i:8751787 original size:22 final size:22
Alignment explanation
Indices: 8751760--8751801 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8751750 GAGAAGAACA
8751760 AGAAAAATTAGAGAAAAAGAGG
1 AGAAAAATTAGAGAAAAAGAGG
*
8751782 AGAAAAATTAGGGAAAAAGA
1 AGAAAAATTAGAGAAAAAGA
8751802 ATGGCAGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.10
Consensus pattern (22 bp):
AGAAAAATTAGAGAAAAAGAGG
Found at i:8751904 original size:13 final size:13
Alignment explanation
Indices: 8751886--8751910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8751876 TGTTAGATAC
8751886 TTAGACTTTAGTT
1 TTAGACTTTAGTT
8751899 TTAGACTTTAGT
1 TTAGACTTTAGT
8751911 AAATTAGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (13 bp):
TTAGACTTTAGTT
Found at i:8751950 original size:51 final size:45
Alignment explanation
Indices: 8751891--8751997 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
8751881 GATACTTAGA
* ** * *
8751891 CTTTAGTTTTAGACTTTAG-TAAATTAGGTT-TGTAATTGGGTAGT
1 CTTTAGTTTTAG-TTTTAGTTTTATTAGGTTGCGTAATTGGGTAGG
*
8751935 CTTTTAGTTTTAGTTTTAGTTTTATTGGGTTGCGTAATTGGGTAGG
1 C-TTTAGTTTTAGTTTTAGTTTTATTAGGTTGCGTAATTGGGTAGG
8751981 CTTTAGTTTTAGTTTTA
1 CTTTAGTTTTAGTTTTA
8751998 TTGGGTTGGA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
44 6 0.11
45 35 0.65
46 13 0.24
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.52
Consensus pattern (45 bp):
CTTTAGTTTTAGTTTTAGTTTTATTAGGTTGCGTAATTGGGTAGG
Found at i:8754229 original size:31 final size:32
Alignment explanation
Indices: 8754194--8754268 Score: 89
Period size: 35 Copynumber: 2.3 Consensus size: 32
8754184 CATGCCTAAC
8754194 TTCCCATT-TAAGTACAAAACATGAGTATGCT
1 TTCCCATTCTAAGTACAAAACATGAGTATGCT
* *
8754225 TTCCCATTCATCTTAGTACAAAACATGTGTATGCT
1 TTCCCA-T--TCTAAGTACAAAACATGAGTATGCT
*
8754260 TTGCCATTC
1 TTCCCATTC
8754269 ATCTTACCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
31 6 0.16
32 3 0.08
34 2 0.05
35 26 0.70
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (32 bp):
TTCCCATTCTAAGTACAAAACATGAGTATGCT
Found at i:8754246 original size:35 final size:35
Alignment explanation
Indices: 8754204--8754274 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
8754194 TTCCCATTTA
8754204 AGTACAAAACATGAGTATGCTTTCCCATTCATCTT
1 AGTACAAAACATGAGTATGCTTTCCCATTCATCTT
* *
8754239 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
1 AGTACAAAACATGAGTATGCTTTCCCATTCATCTT
8754274 A
1 A
8754275 CCTTCTATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (35 bp):
AGTACAAAACATGAGTATGCTTTCCCATTCATCTT
Found at i:8756470 original size:45 final size:43
Alignment explanation
Indices: 8756301--8756460 Score: 161
Period size: 45 Copynumber: 3.7 Consensus size: 43
8756291 ATATCGAACA
* * * *
8756301 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTC-ATATCG
1 ATGCCATCGTCCCAGACGTGGTCTTACACG-AATCACAATATCG
*
8756344 ATGCCA-CTGTCCCGGACAG-GGTCTTACACGAATCA-AATA-CG
1 ATGCCATC-GTCCCAGAC-GTGGTCTTACACGAATCACAATATCG
* *
8756385 ATGCCAAT-GTCCTAGACATGGTCTTACACGTAATCACATATATCG
1 ATGCC-ATCGTCCCAGACGTGGTCTTACACG-AATCACA-ATATCG
8756430 ATGCCATCGTCCCAGACGTGGTCTTACACGA
1 ATGCCATCGTCCCAGACGTGGTCTTACACGA
8756461 GAACACATAT
Statistics
Matches: 97, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
41 25 0.26
42 13 0.13
43 25 0.26
44 7 0.07
45 27 0.28
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCATCGTCCCAGACGTGGTCTTACACGAATCACAATATCG
Found at i:8758729 original size:14 final size:14
Alignment explanation
Indices: 8758710--8758740 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8758700 ATACTTTCAG
8758710 AATATGGAATCAAT
1 AATATGGAATCAAT
8758724 AATATGGAATCAAT
1 AATATGGAATCAAT
8758738 AAT
1 AAT
8758741 CCAACTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (14 bp):
AATATGGAATCAAT
Found at i:8771379 original size:17 final size:18
Alignment explanation
Indices: 8771359--8771392 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8771349 TTGTTTAGAT
8771359 TAATT-AGAGTTTTATTA
1 TAATTGAGAGTTTTATTA
8771376 TAATTGAGAGTTTTATT
1 TAATTGAGAGTTTTATT
8771393 TGGATGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (18 bp):
TAATTGAGAGTTTTATTA
Found at i:8778597 original size:16 final size:17
Alignment explanation
Indices: 8778578--8778616 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
8778568 GACAATGATC
* *
8778578 GAAAAGGACAA-AAAAG
1 GAAAAGGAAAAGAAAAA
8778594 GAAAAGGAAAAGAAAAA
1 GAAAAGGAAAAGAAAAA
8778611 GAAAAG
1 GAAAAG
8778617 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.72, C:0.03, G:0.26, T:0.00
Consensus pattern (17 bp):
GAAAAGGAAAAGAAAAA
Found at i:8792261 original size:42 final size:42
Alignment explanation
Indices: 8792215--8792296 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
8792205 GAAACTTATT
* *
8792215 AGAGCTGAACGGAAACCCAT-AAGGGTTAAACTGAAGCTCAAA
1 AGAGCTAAACGGAAA-CCATAAAGGGTTAAACTGAAACTCAAA
* *
8792257 AGAGCTAAACTGAAACCTTAAAGGGTTAAACTGAAACTCA
1 AGAGCTAAACGGAAACCATAAAGGGTTAAACTGAAACTCA
8792297 TATGAGTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.09
42 32 0.91
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (42 bp):
AGAGCTAAACGGAAACCATAAAGGGTTAAACTGAAACTCAAA
Found at i:8792267 original size:21 final size:21
Alignment explanation
Indices: 8792241--8792338 Score: 76
Period size: 21 Copynumber: 4.8 Consensus size: 21
8792231 CCATAAGGGT
*
8792241 TAAACTGAAGCTCAAAAGAGC
1 TAAACTGAAACTCAAAAGAGC
* * *
8792262 TAAACTGAAAC-CTTAAAGGGT
1 TAAACTGAAACTC-AAAAGAGC
* *
8792283 TAAACTGAAACTCATATGAG-
1 TAAACTGAAACTCAAAAGAGC
* * * *
8792303 TTAACTGAAGCTCATAAGAAC
1 TAAACTGAAACTCAAAAGAGC
8792324 TAAACTGAAAC-CAAA
1 TAAACTGAAACTCAAA
8792339 CATGGAAGTT
Statistics
Matches: 59, Mismatches: 15, Indels: 7
0.73 0.19 0.09
Matches are distributed among these distances:
20 20 0.34
21 38 0.64
22 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.20
Consensus pattern (21 bp):
TAAACTGAAACTCAAAAGAGC
Found at i:8804770 original size:18 final size:18
Alignment explanation
Indices: 8804728--8804772 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 18
8804718 TTCACTAATT
*
8804728 AATTTAAAT-ATATTTTA
1 AATTTAAATAATATTGTA
*
8804745 AA-AT-AATAATATTGTA
1 AATTTAAATAATATTGTA
8804761 AATTTAAATAAT
1 AATTTAAATAAT
8804773 TTGATTAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 5
0.73 0.10 0.17
Matches are distributed among these distances:
15 3 0.14
16 10 0.45
17 3 0.14
18 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AATTTAAATAATATTGTA
Found at i:8810870 original size:13 final size:13
Alignment explanation
Indices: 8810852--8810878 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8810842 CTTTACACTT
8810852 TGTCCCGTGACAC
1 TGTCCCGTGACAC
8810865 TGTCCCGTGACAC
1 TGTCCCGTGACAC
8810878 T
1 T
8810879 AGGATGTACT
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:0.37, G:0.22, T:0.26
Consensus pattern (13 bp):
TGTCCCGTGACAC
Found at i:8812363 original size:26 final size:24
Alignment explanation
Indices: 8812316--8812364 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
8812306 ATTTACTTTT
*
8812316 ATTTTTAAAAATCTATTAATAAAA
1 ATTTTTAAAAATCAATTAATAAAA
*
8812340 ATTTATTAAAAATACAATTCATAAA
1 ATTT-TTAAAAAT-CAATTAATAAA
8812365 TTAAAAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 9 0.43
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTTTTAAAAATCAATTAATAAAA
Found at i:8822448 original size:53 final size:53
Alignment explanation
Indices: 8822361--8822463 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
8822351 TCAACATAGT
* * *
8822361 ATTGTGAAAGTAGTGAATGAGAATACCTGGAAGCCTATTAAATTTTCCAAGTA
1 ATTGTGAAAGTAGTGAATGAGAATACATGAAAGCCTATTAAATTTGCCAAGTA
8822414 ATTGTGAAAGTAGTGAATGAGAATACATGAAAGCCTATTAAATTTGCCAA
1 ATTGTGAAAGTAGTGAATGAGAATACATGAAAGCCTATTAAATTTGCCAA
8822464 TGACGGTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (53 bp):
ATTGTGAAAGTAGTGAATGAGAATACATGAAAGCCTATTAAATTTGCCAAGTA
Found at i:8824515 original size:16 final size:15
Alignment explanation
Indices: 8824485--8824525 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
8824475 TTATTTATTA
8824485 AATTAA-TTTAAATT
1 AATTAATTTTAAATT
8824499 AATTAATTTTCAAATT
1 AATTAATTTT-AAATT
*
8824515 AAATAATTTTA
1 AATTAATTTTA
8824526 TAAACACAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 4 0.17
16 14 0.58
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTAATTTTAAATT
Found at i:8829050 original size:10 final size:10
Alignment explanation
Indices: 8829035--8829064 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8829025 GCGAGGTAAG
8829035 GGTTTTGTTA
1 GGTTTTGTTA
8829045 GGTTTTGTTA
1 GGTTTTGTTA
8829055 GGTTTT-TTA
1 GGTTTTGTTA
8829064 G
1 G
8829065 TCGAGTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.10, C:0.00, G:0.30, T:0.60
Consensus pattern (10 bp):
GGTTTTGTTA
Found at i:8833545 original size:17 final size:17
Alignment explanation
Indices: 8833525--8833566 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
8833515 ATTATTATGC
*
8833525 ATGAATTGTTACTTTAT
1 ATGAACTGTTACTTTAT
*
8833542 ATGAACTGTTATTTTAT
1 ATGAACTGTTACTTTAT
*
8833559 ACGAACTG
1 ATGAACTG
8833567 CCTATTCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (17 bp):
ATGAACTGTTACTTTAT
Found at i:8836757 original size:19 final size:20
Alignment explanation
Indices: 8836733--8836772 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8836723 ATTGTTGAAA
*
8836733 TTATGAGATTTTTG-AAGTT
1 TTATGAGAGTTTTGTAAGTT
*
8836752 TTATGATAGTTTTGTAAGTT
1 TTATGAGAGTTTTGTAAGTT
8836772 T
1 T
8836773 GATAGCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (20 bp):
TTATGAGAGTTTTGTAAGTT
Found at i:8838572 original size:55 final size:55
Alignment explanation
Indices: 8838488--8838594 Score: 144
Period size: 55 Copynumber: 1.9 Consensus size: 55
8838478 TCATGTGACC
* *
8838488 TTATTTAGAATACAGACACGGCCTAGCACAC-GGTCTAAGACACGACCGTGTGGCT
1 TTATTTAGAATACACACACGGCCGAGCACACAGG-CTAAGACACGACCGTGTGGCT
* * * *
8838543 TTATTTTGAATACTCACACGGGCGAGCACACAGGCTGAGACACGACCGTGTG
1 TTATTTAGAATACACACACGGCCGAGCACACAGGCTAAGACACGACCGTGTG
8838595 ACCCGTATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 43 0.96
56 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.21
Consensus pattern (55 bp):
TTATTTAGAATACACACACGGCCGAGCACACAGGCTAAGACACGACCGTGTGGCT
Found at i:8850464 original size:37 final size:37
Alignment explanation
Indices: 8850420--8850519 Score: 155
Period size: 37 Copynumber: 2.7 Consensus size: 37
8850410 ATCCAATCAA
** *
8850420 AACACGCCAAACACTCATAAGAGCTAATCCAACCGAT
1 AACACGCCAAATGCTCATAAGAGCTAATCCAAACGAT
8850457 AACACGCCAAATGCTCATAAGAGCTAATCCAAACGAT
1 AACACGCCAAATGCTCATAAGAGCTAATCCAAACGAT
* *
8850494 AACAAGTCAAATGCTCATAAGAGCTA
1 AACACGCCAAATGCTCATAAGAGCTA
8850520 TACATCCACC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.16
Consensus pattern (37 bp):
AACACGCCAAATGCTCATAAGAGCTAATCCAAACGAT
Found at i:8851906 original size:9 final size:9
Alignment explanation
Indices: 8851874--8851906 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
8851864 TCAAGTATGT
8851874 TTCATTTTC
1 TTCATTTTC
8851883 TTC-TTTTC
1 TTCATTTTC
8851891 ATTCATTTTC
1 -TTCATTTTC
8851901 TTCATT
1 TTCATT
8851907 GCTCCAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.23
9 12 0.55
10 5 0.23
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (9 bp):
TTCATTTTC
Found at i:8854971 original size:113 final size:113
Alignment explanation
Indices: 8854736--8855410 Score: 937
Period size: 113 Copynumber: 5.9 Consensus size: 113
8854726 AAAATAAGCA
* * *
8854736 TTAGCGGC-ATTTATTTGAAAGCGCCGCAAAAAGCCTAAGCCAAAC-GCTACCGTTTTCTGAGTT
1 TTAGCGGCGGTTT-TTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGC-ACCGTTTTCTGAGTT
* * *
8854799 TTTGGTGGTCTTTAGCGGCGTTTCTATAAAGCGCCGCTAATTCTCAAGTCT
64 TTTGG-GGTCTTTAGCGGCGTTTCTGTAAAGCGCCGCTAATGCTCAGGTCT
*
8854850 TTAGCGGCGGTTTTTTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCGGTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
* * * *
8854915 TGGGGTCTTTAGTGGCGTTTCTGTAATGCGCCGCTACTGCTCAAGTCT
66 TGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCGCTAATGCTCAGGTCT
* * * *
8854963 TTAGCGGCGTTTTTTTAAAAGCGCTGCAAAAAGCCTAAACCCAACGGCACCATTTTCTGAGTTTT
1 TTAGCGGCGGTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
* * * *
8855028 TGAGGTCTTTCA-CGGCGTTTCTGTTATGCGCCGCTAATTCTCAGGTCTT
66 TGGGGTCTTT-AGCGGCGTTTCTGTAAAGCGCCGCTAATGCTCAGGTC-T
* * * * * *
8855077 TTACCGG-TGTTTTGTTAAAAGCGCCGCAAAAAGCCTAAGCCAAACGGTACCATTTTTTGAGTTT
1 TTAGCGGCGGTTTT-TTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTT
* * * *
8855141 TTGGGGTCTTTAGCGGCATTTCTGAAAAGCGCTGCTAATGCTCAGGTGT
65 TTGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCGCTAATGCTCAGGTCT
* * *
8855190 TTAGCAGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGCTTT
1 TTAGCGGCGGTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
8855255 TGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCGCTAATGCTCAGGTCT
66 TGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCGCTAATGCTCAGGTCT
8855303 TTAGCGGC-GTTTTTCTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTT
1 TTAGCGGCGGTTTTT-TAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTT
* *
8855367 TTTGGGTCTTTAGCGGCGTTTCTGAATAAGCGCCGCTAATGCTC
65 TTGGGGTCTTTAGCGGCGTTTCTGTA-AAGCGCCGCTAATGCTC
8855411 GGCGTTTTTC
Statistics
Matches: 500, Mismatches: 52, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
112 5 0.01
113 321 0.64
114 169 0.34
115 5 0.01
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (113 bp):
TTAGCGGCGGTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
TGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCGCTAATGCTCAGGTCT
Found at i:8855140 original size:227 final size:224
Alignment explanation
Indices: 8854736--8855410 Score: 958
Period size: 227 Copynumber: 3.0 Consensus size: 224
8854726 AAAATAAGCA
* * * *
8854736 TTAGCGGCATTTATTTGAAAGCGCCGCAAAAAGCCTAAGCCAAAC-GCTACCGTTTTCTGAGTTT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGC-ACCGTTTTCTGAGTTT
* * *
8854800 TTGGTGGTCTTTAGCGGCGTTTCTATAAAGCGCCGCTAATTCTCAAGTCTTTAGCGGCGGTTTTT
65 TT-GAGGTCTTTAGCGGCGTTTCTGTAAAGCGCCGCTAATTCTCAGGTCTTTAGCGGC-GTTTTT
* *
8854865 TAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGTGG
128 TAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGG
*
8854930 CGTTTCTGTAATGCGCCGCTACTGCTCAAGTCT
193 CGTTTCTG-AATGCGCCGCTAATGCTCAAGTCT
* * *
8854963 TTAGCGGCGTTTTTTTAAAAGCGCTGCAAAAAGCCTAAACCCAACGGCACCATTTTCTGAGTTTT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
* * * *
8855028 TGAGGTCTTTCA-CGGCGTTTCTGTTATGCGCCGCTAATTCTCAGGTCTTTTACCGGTGTTTTGT
66 TGAGGTCTTT-AGCGGCGTTTCTGTAAAGCGCCGCTAATTCTCAGGTC-TTTAGCGGCGTTTT-T
* * * *
8855092 TAAAAGCGCCGCAAAAAGCCTAAGCCAAACGGTACCATTTTTTGAGTTTTTGGGGTCTTTAGCGG
128 TAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGG
* * * * *
8855157 CATTTCTGAAAAGCGCTGCTAATGCTCAGGTGT
193 CGTTTCTG-AATGCGCCGCTAATGCTCAAGTCT
* *
8855190 TTAGCAGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGCTTT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
* *
8855255 TGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTCTA
66 TGAGGTCTTTAGCGGCGTTTCTGTAAAGCGCCGCTAATTCTCAGGTCTTTAGCGGCGTTTTT-TA
*
8855320 AAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTTGGGTCTTTAGCGGCG
130 AAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCG
8855385 TTTCTGAATAAGCGCCGCTAATGCTC
195 TTTCTGAAT--GCGCCGCTAATGCTC
8855411 GGCGTTTTTC
Statistics
Matches: 394, Mismatches: 46, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
225 3 0.01
226 124 0.31
227 265 0.67
228 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (224 bp):
TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
TGAGGTCTTTAGCGGCGTTTCTGTAAAGCGCCGCTAATTCTCAGGTCTTTAGCGGCGTTTTTTAA
AAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGT
TTCTGAATGCGCCGCTAATGCTCAAGTCT
Found at i:8855377 original size:340 final size:342
Alignment explanation
Indices: 8854753--8855406 Score: 1048
Period size: 340 Copynumber: 1.9 Consensus size: 342
8854743 CATTTATTTG
*
8854753 AAAGCGCCGCAAAAAGCCTAAGCCAAACGCTACCGTTTTCTGAGTTTTTGGTGGTCTTTAGCGGC
1 AAAGCGCCGCAAAAAGCCTAAGCCAAACGCTACCATTTTCTGAGTTTTTGGTGGTCTTTAGCGGC
* * *
8854818 GTTTCTATAAAGCGCCGCTAATTCTCAAGTCTTTAGCGGCGGTTTTTTAAAAGCGCCGCAAAAAG
66 ATTTCTATAAAGCGCCGCTAATGCTCAAGTCTTTAGCAGCGGTTTTTTAAAAGCGCCGCAAAAAG
* * *
8854883 CCTAAACCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGTGGCGTTTCTGTAATGCGCCG
131 CCTAAACCCAACGGCACCGTTTTCTGAGCTTTTGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCG
* * *
8854948 CTACTGCTCAAGTCTTTAGCGGCGTTTTTTTAAAAGCGCTGCAAAAAGCCTAAACCCAACGGCAC
196 CTAATGCTCAAGTCTTTAGCGGCGTTTTTCTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCAC
* *
8855013 CATTTTCTGAGTTTTTGAGGTCTTTCA-CGGCGTTTCTG-TTATGCGCCGCTAATTCTCAGGTCT
261 CATTTTCTGAGTTTTTGAGGTCTTT-AGCGGCGTTTCTGAATAAGCGCCGCTAATTCTCAGGTCT
8855076 TTTACCGGTGTTTTGTTA
325 TTTACCGGTGTTTTGTTA
* *
8855094 AAAGCGCCGCAAAAAGCCTAAGCCAAACGGTACCATTTTTTGAGTTTTTGG-GGTCTTTAGCGGC
1 AAAGCGCCGCAAAAAGCCTAAGCCAAACGCTACCATTTTCTGAGTTTTTGGTGGTCTTTAGCGGC
* * * *
8855158 ATTTCTGA-AAAGCGCTGCTAATGCTCAGGTGTTTAGCAGCGTTTTTTTAAAAGCGCCGCAAAAA
66 ATTTCT-ATAAAGCGCCGCTAATGCTCAAGTCTTTAGCAGCGGTTTTTTAAAAGCGCCGCAAAAA
*
8855222 GCCTAAGCCCAACGGCACCGTTTTCTGAGCTTTTGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCC
130 GCCTAAACCCAACGGCACCGTTTTCTGAGCTTTTGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCC
* *
8855287 GCTAATGCTCAGGTCTTTAGCGGCGTTTTTCTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCA
195 GCTAATGCTCAAGTCTTTAGCGGCGTTTTTCTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCA
*
8855352 CCGTTTTCTGAGTTTTTTG-GGTCTTTAGCGGCGTTTCTGAATAAGCGCCGCTAAT
260 CCATTTTCTGAG-TTTTTGAGGTCTTTAGCGGCGTTTCTGAATAAGCGCCGCTAAT
8855407 GCTCGGCGTT
Statistics
Matches: 287, Mismatches: 22, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
339 1 0.00
340 218 0.76
341 68 0.24
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (342 bp):
AAAGCGCCGCAAAAAGCCTAAGCCAAACGCTACCATTTTCTGAGTTTTTGGTGGTCTTTAGCGGC
ATTTCTATAAAGCGCCGCTAATGCTCAAGTCTTTAGCAGCGGTTTTTTAAAAGCGCCGCAAAAAG
CCTAAACCCAACGGCACCGTTTTCTGAGCTTTTGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCG
CTAATGCTCAAGTCTTTAGCGGCGTTTTTCTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCAC
CATTTTCTGAGTTTTTGAGGTCTTTAGCGGCGTTTCTGAATAAGCGCCGCTAATTCTCAGGTCTT
TTACCGGTGTTTTGTTA
Found at i:8856131 original size:89 final size:89
Alignment explanation
Indices: 8856019--8856271 Score: 373
Period size: 92 Copynumber: 2.8 Consensus size: 89
8856009 GAGATTTAGG
* *
8856019 GTTAGGG-TTAGGGTTTAGATTAATTAGTGTTTTTTAATTGATATATTAAATAATGTTTAGGGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
8856083 TAGGGGTTAGTGATTCAGGGTCGA
66 TAGGGGTTAGTGATTCAGGGTCGA
*
8856107 GTTAGGGTTTAGGATTTAGATTAATTAGTATTTTTTAATTTATATATTAATAAATAATGTTTAGG
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATA-T--TAAATAATGTTTAGG
* *
8856172 GGTTTGGGGTTAGTGATTCGGGGTCGA
63 GGTTAGGGGTTAGTGATTCAGGGTCGA
* * * * * *
8856199 GTTAGAGTTTAGGATTTAGATTGATTAGTGTTTTATAATTTATATAATAAATAATGTTTAAGGTT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
8856264 TAGGGGTT
66 TAGGGGTT
8856272 TGGGGTTTGG
Statistics
Matches: 148, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
88 7 0.05
89 58 0.39
90 1 0.01
92 82 0.55
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.44
Consensus pattern (89 bp):
GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
TAGGGGTTAGTGATTCAGGGTCGA
Found at i:8856328 original size:17 final size:18
Alignment explanation
Indices: 8856306--8856344 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
8856296 AGTTAGTGAT
8856306 TTAAGGTTT-AGATCAGA
1 TTAAGGTTTAAGATCAGA
*
8856323 TTAAGGTTTAAGCTCAGA
1 TTAAGGTTTAAGATCAGA
8856341 TTAA
1 TTAA
8856345 TTAGTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (18 bp):
TTAAGGTTTAAGATCAGA
Found at i:8856670 original size:12 final size:11
Alignment explanation
Indices: 8856653--8856699 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
8856643 AATTTGGACC
8856653 AAAATATAAGAA
1 AAAATATAA-AA
8856665 AAAATA-AAAA
1 AAAATATAAAA
8856675 AAAATATAAAA
1 AAAATATAAAA
8856686 AGGAAATA-AAAA
1 A--AAATATAAAA
8856698 AA
1 AA
8856700 CTAATAATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 9 0.28
11 7 0.22
12 11 0.34
13 5 0.16
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (11 bp):
AAAATATAAAA
Found at i:8856678 original size:22 final size:22
Alignment explanation
Indices: 8856653--8856699 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
8856643 AATTTGGACC
8856653 AAAATATAAGAAA-AAATAAAAA
1 AAAATATAA-AAAGAAATAAAAA
8856675 AAAATATAAAAAGGAAATAAAAA
1 AAAATATAAAAA-GAAATAAAAA
8856698 AA
1 AA
8856700 CTAATAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.13
22 9 0.39
23 11 0.48
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (22 bp):
AAAATATAAAAAGAAATAAAAA
Found at i:8857644 original size:21 final size:21
Alignment explanation
Indices: 8857618--8857662 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
8857608 CAATCATGAA
8857618 ATTTGTCTCTGCCTCTGCATC
1 ATTTGTCTCTGCCTCTGCATC
* *
8857639 ATTTGTCTCTGCTTCTGTATC
1 ATTTGTCTCTGCCTCTGCATC
8857660 ATT
1 ATT
8857663 CGTTACTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.27, G:0.13, T:0.49
Consensus pattern (21 bp):
ATTTGTCTCTGCCTCTGCATC
Found at i:8858395 original size:31 final size:31
Alignment explanation
Indices: 8858334--8858395 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
8858324 TGCTTAAAAT
* * * *
8858334 AATACTTAAATTACATAAGTTAGTTAATTAA
1 AATACATAAAATACATAAGCTAATTAATTAA
8858365 AATACATAAAATACATAA-CTAATTACATTAA
1 AATACATAAAATACATAAGCTAATTA-ATTAA
8858396 TATTATACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (31 bp):
AATACATAAAATACATAAGCTAATTAATTAA
Found at i:8858434 original size:22 final size:22
Alignment explanation
Indices: 8858385--8858436 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
8858375 ATACATAACT
8858385 AATTACATTAATATTATACATA
1 AATTACATTAATATTATACATA
* **
8858407 ACTTACATTAATATTATATTTA
1 AATTACATTAATATTATACATA
8858429 AATTACAT
1 AATTACAT
8858437 AAGTTAGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTACATTAATATTATACATA
Found at i:8858471 original size:9 final size:9
Alignment explanation
Indices: 8858457--8858735 Score: 70
Period size: 9 Copynumber: 31.7 Consensus size: 9
8858447 ATTAATATTA
8858457 TACATAACT
1 TACATAACT
8858466 TACATAACT
1 TACATAACT
8858475 TAC--AACT
1 TACATAACT
8858482 TACATAACT
1 TACATAACT
*
8858491 TACATTAATATT
1 TACA-T-A-ACT
* *
8858503 ATACTTAAAT
1 -TACATAACT
*
8858513 TACATAAGT
1 TACATAACT
**
8858522 TAGTTAA-T
1 TACATAACT
8858530 TA-AT-A-T
1 TACATAACT
*
8858536 TATGTATAACT
1 TA--CATAACT
8858547 TACATAACT
1 TACATAACT
8858556 TAC--AACT
1 TACATAACT
8858563 TACATAACT
1 TACATAACT
*
8858572 TACATTAATATT
1 TACA-T-A-ACT
* *
8858584 ATACTTAAAT
1 -TACATAACT
*
8858594 TACATAAGT
1 TACATAACT
**
8858603 TAGTTAA-T
1 TACATAACT
8858611 TA-ATAACT
1 TACATAACT
8858619 TACATAACT
1 TACATAACT
* ***
8858628 TATATTTTTT
1 TACA-TAACT
*
8858638 TA-ATTA-T
1 TACATAACT
* *
8858645 T-CGTAAAT
1 TACATAACT
8858653 TACATAACT
1 TACATAACT
* *
8858662 TACTTAATT
1 TACATAACT
*
8858671 TTCATAA--
1 TACATAACT
*
8858678 TAAATAACT
1 TACATAACT
*
8858687 TACATAAAT
1 TACATAACT
* *
8858696 AAC-T-TCT
1 TACATAACT
8858703 TACATAACT
1 TACATAACT
** *
8858712 TATGTGACT
1 TACATAACT
8858721 TACATAACT
1 TACATAACT
8858730 TACATA
1 TACATA
8858736 GCATAATTTT
Statistics
Matches: 198, Mismatches: 45, Indels: 54
0.67 0.15 0.18
Matches are distributed among these distances:
6 4 0.02
7 30 0.15
8 15 0.08
9 119 0.60
10 11 0.06
11 7 0.04
12 6 0.03
13 6 0.03
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.41
Consensus pattern (9 bp):
TACATAACT
Found at i:8858483 original size:16 final size:16
Alignment explanation
Indices: 8858462--8858575 Score: 71
Period size: 16 Copynumber: 7.1 Consensus size: 16
8858452 TATTATACAT
8858462 AACTTACATAACTTAC
1 AACTTACATAACTTAC
8858478 AACTTACATAACTTAC
1 AACTTACATAACTTAC
*
8858494 -A-TTAATATTATACTTA-
1 AACTT-ACA-TA-ACTTAC
* *
8858510 AA-TTACATAAGTTAGTT
1 AACTTACATAACTTA--C
*
8858527 AA-TTA-ATATTA-TGTAT
1 AACTTACATA--ACT-TAC
8858543 AACTTACATAACTTAC
1 AACTTACATAACTTAC
8858559 AACTTACATAACTTAC
1 AACTTACATAACTTAC
8858575 A
1 A
8858576 TTAATATTAT
Statistics
Matches: 81, Mismatches: 4, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
14 6 0.07
15 5 0.06
16 46 0.57
17 18 0.22
18 6 0.07
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.38
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:8858502 original size:81 final size:81
Alignment explanation
Indices: 8858335--8858629 Score: 409
Period size: 81 Copynumber: 3.6 Consensus size: 81
8858325 GCTTAAAATA
**
8858335 ATACTTAAATTACATAAGTTAGTTAATTAA-A--ATACATAAAATACATAACTAATTACATTAAT
1 ATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACATAAC---TTAC----A-
*
8858397 ATTATACATAACTTACATTAATATT
58 ACT-TACATAACTTACATTAATATT
*
8858422 ATATTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACATAACTTACAACTTACAT
1 ATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACATAACTTACAACTTACAT
8858487 AACTTACATTAATATT
66 AACTTACATTAATATT
**
8858503 ATACTTAAATTACATAAGTTAGTTAATTAATATTATGTATAACTTACATAACTTACAACTTACAT
1 ATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACATAACTTACAACTTACAT
8858568 AACTTACATTAATATT
66 AACTTACATTAATATT
*
8858584 ATACTTAAATTACATAAGTTAGTTAATTAATAACT-TACATAACTTA
1 ATACTTAAATTACATAAGTTAGTTAATTAAT-ATTATACATAACTTA
8858630 TATTTTTTTA
Statistics
Matches: 194, Mismatches: 10, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
81 139 0.72
82 4 0.02
83 1 0.01
87 33 0.17
88 1 0.01
90 16 0.08
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.40
Consensus pattern (81 bp):
ATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACATAACTTACAACTTACAT
AACTTACATTAATATT
Found at i:8858766 original size:25 final size:25
Alignment explanation
Indices: 8858737--8858793 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
8858727 ACTTACATAG
* *
8858737 CATAATTTTCATAATACACAACTTA
1 CATAATTTGCATAATAAACAACTTA
** *
8858762 CATAATTTGGGTAATAAATAACTTA
1 CATAATTTGCATAATAAACAACTTA
8858787 CATAATT
1 CATAATT
8858794 AGGAAATACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (25 bp):
CATAATTTGCATAATAAACAACTTA
Found at i:8864380 original size:66 final size:66
Alignment explanation
Indices: 8864232--8864362 Score: 201
Period size: 66 Copynumber: 2.0 Consensus size: 66
8864222 AGCAAATTAC
* * *
8864232 ACAACTTAAAGCAGAGGCAACATCGAGAGAAGTTGAGGTTCAAAAAATATATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGGTTCAAAAAATATATGAAGAACTCCAGC
8864297 T
66 T
* *
8864298 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGGTTCAACGAAA-GTATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGGTTCAA-AAAATATATGAAGAACTCCAG
8864362 C
65 C
8864363 AGCAGCTTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 56 0.95
67 3 0.05
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.17
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGGTTCAAAAAATATATGAAGAACTCCAGC
T
Found at i:8864393 original size:66 final size:66
Alignment explanation
Indices: 8864232--8864395 Score: 188
Period size: 66 Copynumber: 2.5 Consensus size: 66
8864222 AGCAAATTAC
* * * *
8864232 ACAACTTAAAGCAGAGGCAACATCGAGAGAAGTTGAGGTTCAAAAAATATATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAGCAGCAAGAGAAGTTGAGGTTCAAAAAATATATGAAGAACTCCAGC
8864297 T
66 T
* * *
8864298 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGGTTCAACGAAA-GTATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCAAGAGAAGTTGAGGTTCAA-AAAATATATGAAGAACTCCAG
8864362 C-
65 CT
* * * * *
8864363 AGCAGCTTAGAGTAGATGTAGCGGCAAGAGAAG
1 A-CAACTTAAAGCAGATGCAGCAGCAAGAGAAG
8864396 CAGAGGCGGT
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 81 0.95
67 3 0.04
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.16
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGCAAGAGAAGTTGAGGTTCAAAAAATATATGAAGAACTCCAGC
T
Found at i:8864437 original size:21 final size:21
Alignment explanation
Indices: 8864413--8864484 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
8864403 GGTAGCAAGA
* *
8864413 GAAGTACAGGCTGCAGCGATG
1 GAAGTAGAGGCTGCAGCGAGG
* **
8864434 GAAGCAGAGGCTAAAGCGAGG
1 GAAGTAGAGGCTGCAGCGAGG
* *
8864455 GAAATAGAGGCTGCAACGAGG
1 GAAGTAGAGGCTGCAGCGAGG
*
8864476 GAAGCAGAG
1 GAAGTAGAG
8864485 CAGCGTCAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.36, C:0.15, G:0.40, T:0.08
Consensus pattern (21 bp):
GAAGTAGAGGCTGCAGCGAGG
Found at i:8864961 original size:86 final size:86
Alignment explanation
Indices: 8864835--8865057 Score: 232
Period size: 86 Copynumber: 2.6 Consensus size: 86
8864825 GGTGTTTGGC
* * * *
8864835 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGTCTTTTGCGGCATTTGTGGAAAA
1 CTTTAGCGGCGTTTTTAGTCAAAACGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTGTGGAAAA
*
8864900 GGCGCCACTAAAGATCATGGT
66 GGCGCCACTAAAGATCAGGGT
* * * * * * * ***
8864921 CTTTAGCGGCGTTTTTAGTGAAAACGCTGTTAAAGATTAGGTTCTTTAGTGGCGTTTGTTGTCGA
1 CTTTAGCGGCGTTTTTAGTCAAAACGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTGTGGAAAA
* *
8864986 GGCGCCGCTATAGATCAGGGT
66 GGCGCCACTAAAGATCAGGGT
* * ** *
8865007 CTTTAGCGGCGCTTAT-CCCAAAAACGCCGCTAAAGATCAGGGTCTTTAGCG
1 CTTTAGCGGCGTTTTTAGTC-AAAACGCCGCTAAAGATTAGGGTCTTTAGCG
8865058 ACGCTTATCC
Statistics
Matches: 109, Mismatches: 27, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
86 109 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (86 bp):
CTTTAGCGGCGTTTTTAGTCAAAACGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTGTGGAAAA
GGCGCCACTAAAGATCAGGGT
Found at i:8865010 original size:43 final size:43
Alignment explanation
Indices: 8864835--8865126 Score: 180
Period size: 43 Copynumber: 6.8 Consensus size: 43
8864825 GGTGTTTGGC
* * *
8864835 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGT
1 CTTTAGCGGCGTTTTTAGTCAAAGCGCCGCTAAAGATCAGGGT
* * * ** * *
8864878 CTTTTGCGGCATTTGT-GGAAAAGGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTTTAGTCAAA-GCGCCGCTAAAGATCAGGGT
* * * * * *
8864921 CTTTAGCGGCGTTTTTAGTGAAAACGCTGTTAAAGATTAGGTT
1 CTTTAGCGGCGTTTTTAGTCAAAGCGCCGCTAAAGATCAGGGT
* * * *
8864964 CTTTAGTGGCGTTTGTT-GTCGAGGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTT-TTAGTCAAAGCGCCGCTAAAGATCAGGGT
* * ** *
8865007 CTTTAGCGGCGCTTAT-CCCAAAAACGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGTTTTTAGTC-AAAGCGCCGCTAAAGATCAGGGT
* * * ** * * *
8865050 CTTTAGCGACGCTTAT-CCCAAAAACACCGCTAAAGATCAGGAT
1 CTTTAGCGGCGTTTTTAGTC-AAAGCGCCGCTAAAGATCAGGGT
* * * *
8865093 CTTTAGCGGCGCTTCTACT-AAAGTGCCGCTAAAG
1 CTTTAGCGGCGTTTTTAGTCAAAGCGCCGCTAAAG
8865127 GTCTTATTCT
Statistics
Matches: 195, Mismatches: 49, Indels: 11
0.76 0.19 0.04
Matches are distributed among these distances:
42 18 0.09
43 170 0.87
44 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTAGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:8865074 original size:129 final size:129
Alignment explanation
Indices: 8864835--8865103 Score: 272
Period size: 129 Copynumber: 2.1 Consensus size: 129
8864825 GGTGTTTGGC
* * * * **
8864835 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGTCTTTTGCGGCATTTGTGGAAAA
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCACTTATCCAAAA
* * * * * *** * * * * *
8864900 GGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTTTAGTGAAAACGCTGTTAAAGATTAGGTT
66 GACGCCACTAAAGATCAGGGTCTTTAGCGACGCTTATACCAAAAACACCGCTAAAGATCAGGAT
* * * *
8864964 CTTTAGTGGCGTTTGTT-GTCGAGGCGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTATCCCAA
1 CTTTAGTGGCGTTT-TTGGTCAAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCACTTAT-CCAA
* *
8865028 AA-ACGCCGCTAAAGATCAGGGTCTTTAGCGACGCTTATCCCAAAAACACCGCTAAAGATCAGGA
64 AAGACGCCACTAAAGATCAGGGTCTTTAGCGACGCTTATACCAAAAACACCGCTAAAGATCAGGA
8865092 T
129 T
*
8865093 CTTTAGCGGCG
1 CTTTAGTGGCG
8865104 CTTCTACTAA
Statistics
Matches: 112, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
129 106 0.95
130 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (129 bp):
CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCACTTATCCAAAA
GACGCCACTAAAGATCAGGGTCTTTAGCGACGCTTATACCAAAAACACCGCTAAAGATCAGGAT
Found at i:8865542 original size:17 final size:17
Alignment explanation
Indices: 8865516--8865549 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8865506 TCTTTTTTTT
*
8865516 TAGGCCTTATGAATAGA
1 TAGGCATTATGAATAGA
*
8865533 TAGGCATTATGAGTAGA
1 TAGGCATTATGAATAGA
8865550 ATAATTGTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (17 bp):
TAGGCATTATGAATAGA
Found at i:8869710 original size:97 final size:96
Alignment explanation
Indices: 8869577--8869902 Score: 474
Period size: 96 Copynumber: 3.4 Consensus size: 96
8869567 AACAACTAGT
* * * *
8869577 TTTATTTGATTTTTTTCTTAAAACCCTAAATACTAAACCCCAATCTAATTTTTTTAAAATTTATA
1 TTTATTTAATTTTTTCCTTAAAACCCTAAAAACTAAACCCTAATCTAATTTTTTTAAAATTTATA
*
8869642 ATTAATTTACTCAAGTAACCCTAGACCCTAA
66 ATTAATTTACTCAAGTAACCCTAAACCCTAA
* * * *
8869673 TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACTCTAATCT-ATTTTTTAAAAAATTTA
1 TTTATTTAATTTTTTCCTT-AAAACCCTAAAAACTAAACCCTAATCTAATTTTTT-TAAAATTTA
8869737 TAATTAATTTACTCAAGTAACCCTAAACCCTAA
64 TAATTAATTTACTCAAGTAACCCTAAACCCTAA
* *
8869770 TTTATTTAATTTTTTCCTTAAAACCATAAAAACTAAACCCTAATCTAAGTTTTTTAAAATTTATA
1 TTTATTTAATTTTTTCCTTAAAACCCTAAAAACTAAACCCTAATCTAATTTTTTTAAAATTTATA
* * * *
8869835 ATTAATTTAATTAAGAAACCCTAAACCCTTA
66 ATTAATTTACTCAAGTAACCCTAAACCCTAA
* *
8869866 TTTATTTAATTTTTTCCTTAAAACCTTAAAATCTAAA
1 TTTATTTAATTTTTTCCTTAAAACCCTAAAAACTAAA
8869903 AACTCTAAAA
Statistics
Matches: 209, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
96 121 0.58
97 88 0.42
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.42
Consensus pattern (96 bp):
TTTATTTAATTTTTTCCTTAAAACCCTAAAAACTAAACCCTAATCTAATTTTTTTAAAATTTATA
ATTAATTTACTCAAGTAACCCTAAACCCTAA
Done.