Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 100 of 240
Found at i:31226192 original size:127 final size:128
Alignment explanation
Indices: 31225968--31226206 Score: 349
Period size: 127 Copynumber: 1.9 Consensus size: 128
31225958 GAAGATAGCA
* * * *
31225968 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGATAATCCTATCTCCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACAGACAATCCTATCTCCCTGAAGTTA
* * * *
31226033 CAGTGGAACTGATTAAAGCCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATTT
66 CAGTGGAACAGATTAAAGCCTGAAATCTTATCTCCCTGAAGTTGCAGAGAGCAGATCACATTT
*
31226096 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAACAGACAATCCTATCTCTCTGAAGTTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACAGACAATCCTATCTCCCTGAAGTTA
*
31226160 CAGTGGAGCAGATTAAAGCC-GACAAT-TCTATCTCCCTGAAGTTGCAG
66 CAGTGGAACAGATTAAAGCCTGA-AATCT-TATCTCCCTGAAGTTGCAG
31226207 TGGAGCGGAT
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
126 2 0.02
127 63 0.64
128 34 0.34
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (128 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACAGACAATCCTATCTCCCTGAAGTTA
CAGTGGAACAGATTAAAGCCTGAAATCTTATCTCCCTGAAGTTGCAGAGAGCAGATCACATTT
Found at i:31227163 original size:25 final size:23
Alignment explanation
Indices: 31227127--31227173 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31227117 GAATCAAAGG
31227127 TTGTTACTTGCATTTTTATTTTTTT
1 TTGTTACTTGCA--TTTATTTTTTT
31227152 TTGTTA-TATGCATTTATTTTTT
1 TTGTTACT-TGCATTTATTTTTT
31227174 ATCGTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 10 0.48
24 1 0.05
25 10 0.48
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.70
Consensus pattern (23 bp):
TTGTTACTTGCATTTATTTTTTT
Found at i:31230401 original size:13 final size:13
Alignment explanation
Indices: 31230362--31230411 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
31230352 AGTTTGGCAA
31230362 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
31230375 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
*
31230388 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
31230401 TGCTTTT-AAAA
1 TGCTTTTGAAAA
31230412 AATTTGAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 5 0.16
13 24 0.77
14 2 0.06
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:31231452 original size:17 final size:16
Alignment explanation
Indices: 31231414--31231452 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
31231404 AAATCGTAAA
*
31231414 AAAATATAAAATATAT
1 AAAATATAAAAAATAT
31231430 AGAAATATAAAAAATTAT
1 A-AAATATAAAAAA-TAT
31231448 AAAAT
1 AAAAT
31231453 TTTATAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.75
18 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (16 bp):
AAAATATAAAAAATAT
Found at i:31231550 original size:19 final size:21
Alignment explanation
Indices: 31231528--31231567 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
31231518 AAAAATTATA
31231528 CTATAAC-TTTAT-AATTTTT
1 CTATAACTTTTATCAATTTTT
31231547 CTATAACTTTTATCAATTTTT
1 CTATAACTTTTATCAATTTTT
31231568 AAAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 5 0.26
21 7 0.37
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
CTATAACTTTTATCAATTTTT
Found at i:31231583 original size:29 final size:30
Alignment explanation
Indices: 31231535--31231597 Score: 110
Period size: 29 Copynumber: 2.1 Consensus size: 30
31231525 ATACTATAAC
*
31231535 TTTATAATTTTTCTATAACTTTTATCAATT
1 TTTAAAATTTTTCTATAACTTTTATCAATT
31231565 TTTAAAATTTTT-TATAACTTTTATCAATT
1 TTTAAAATTTTTCTATAACTTTTATCAATT
31231594 TTTA
1 TTTA
31231598 TTTTTTTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTAAAATTTTTCTATAACTTTTATCAATT
Found at i:31231586 original size:10 final size:9
Alignment explanation
Indices: 31231535--31231613 Score: 61
Period size: 10 Copynumber: 8.3 Consensus size: 9
31231525 ATACTATAAC
31231535 TTTATAATTT
1 TTTATAA-TT
*
31231545 TTCTATAACT
1 TT-TATAATT
31231555 TTTATCAATT
1 TTTAT-AATT
*
31231565 TTTAAAATTT
1 TTTATAA-TT
*
31231575 TTTATAACT
1 TTTATAATT
31231584 TTTATCAATT
1 TTTAT-AATT
*
31231594 TTTAT-TTT
1 TTTATAATT
*
31231602 TTTATCATT
1 TTTATAATT
31231611 TTT
1 TTT
31231614 CACCACATGT
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
8 7 0.12
9 16 0.29
10 28 0.50
11 5 0.09
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTATAATT
Found at i:31231828 original size:37 final size:37
Alignment explanation
Indices: 31231746--31231831 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
31231736 TAAAAAAATA
*
31231746 AATTTTTTATAAAATTCTAATTTTTTATATTTTTATT
1 AATTTTTAATAAAATTCTAATTTTTTATATTTTTATT
** * *
31231783 AAAATTTAATAAAATT-TAA-TTTTTAGTTTTTTTTTCT
1 AATTTTTAATAAAATTCTAATTTTTTA-TATTTTTAT-T
31231820 AATTTTTAATAA
1 AATTTTTAATAA
31231832 TTGCAGGGGT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
35 6 0.15
36 10 0.25
37 24 0.60
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (37 bp):
AATTTTTAATAAAATTCTAATTTTTTATATTTTTATT
Found at i:31232000 original size:80 final size:75
Alignment explanation
Indices: 31231903--31232052 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 75
31231893 TTCAAGTACC
* * *
31231903 CAATTGAGTGAAAAAAAAAAGCAGGGGCTTAATTACTTTTTTTTGAAGAAGTTTGAGGGCCTTTT
1 CAATTGAGTGAAAAAAAAAAG-AGAGACTTAATT-CTTTTTTTT--AGAAGTTTGACGG-CTTTT
31231968 TATACTATTAGTGCT
61 TATACTATTAGTGCT
* * * * **
31231983 CAATTGAGTGCAGAAAAAAAGAGAGATTTAATTGTTTTTTTTTTAAGTTTGACGGCTTTTTATAC
1 CAATTGAGTGAAAAAAAAAAGAGAGACTTAATTCTTTTTTTTAGAAGTTTGACGGCTTTTTATAC
31232048 TATTA
66 TATTA
31232053 AGTTATTTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
75 15 0.25
76 10 0.16
78 8 0.13
79 9 0.15
80 19 0.31
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (75 bp):
CAATTGAGTGAAAAAAAAAAGAGAGACTTAATTCTTTTTTTTAGAAGTTTGACGGCTTTTTATAC
TATTAGTGCT
Found at i:31234210 original size:73 final size:73
Alignment explanation
Indices: 31234091--31234236 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
31234081 CTCAGAACCA
31234091 GCAAAAGTAATGTAAGGTTGATTTGCTGAATGTTGCATGAAAGTGTAGACATGCATCCAAACAAA
1 GCAAAAGTAATGTAAGGTTGATTTGCTGAATGTTGCATGAAAGTGTAGACATGCATCCAAACAAA
31234156 TTGGGGTT
66 TTGGGGTT
31234164 GCAAAAGTAATGTAAGGTTGATTTGCTGAATGTTGCATGAAAGTGTAGACATGCATCCAAACAAA
1 GCAAAAGTAATGTAAGGTTGATTTGCTGAATGTTGCATGAAAGTGTAGACATGCATCCAAACAAA
31234229 TTGGGGTT
66 TTGGGGTT
31234237 AAAAGGAAGG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (73 bp):
GCAAAAGTAATGTAAGGTTGATTTGCTGAATGTTGCATGAAAGTGTAGACATGCATCCAAACAAA
TTGGGGTT
Found at i:31243414 original size:55 final size:55
Alignment explanation
Indices: 31243330--31243434 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
31243320 AACGAATCTT
* *
31243330 ATCTCATTGAGTATTTTAGAGTTGAAATGATGCAGAATC-AACATCGAGTTTTTTC
1 ATCTCATTAAGTATTTTAGAGTTGAAATGATGCAGAA-CAAACATAGAGTTTTTTC
* *
31243385 ATCTCCTTAAGTATTTTAGAGTTGAAATGATGTAGAACAAACATAGAGTT
1 ATCTCATTAAGTATTTTAGAGTTGAAATGATGCAGAACAAACATAGAGTT
31243435 GAGCAGCATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.98
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (55 bp):
ATCTCATTAAGTATTTTAGAGTTGAAATGATGCAGAACAAACATAGAGTTTTTTC
Found at i:31245710 original size:10 final size:10
Alignment explanation
Indices: 31245695--31245768 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
31245685 TAAAAGTACC
31245695 TTTTTTTAAA
1 TTTTTTTAAA
31245705 TTTTTTT--A
1 TTTTTTTAAA
31245713 TTTTGTTTAAA
1 TTTT-TTTAAA
*
31245724 TTTTTTT--G
1 TTTTTTTAAA
*
31245732 TTTTATT-AA
1 TTTTTTTAAA
31245741 -TTTTTTACAA
1 TTTTTTTA-AA
31245751 TTTTTTTTAAA
1 -TTTTTTTAAA
*
31245762 ATTTTTT
1 TTTTTTT
31245769 CTCTTTTTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
8 16 0.31
9 3 0.06
10 18 0.35
11 7 0.14
12 7 0.14
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:31245740 original size:18 final size:18
Alignment explanation
Indices: 31245695--31245746 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 18
31245685 TAAAAGTACC
31245695 TTTTTTTAAATTTTTTTA
1 TTTTTTTAAATTTTTTTA
*
31245713 TTTTGTTTAAATTTTTTTG
1 TTTT-TTTAAATTTTTTTA
*
31245732 TTTTATT-AATTTTTT
1 TTTTTTTAAATTTTTT
31245747 ACAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 8 0.26
18 6 0.19
19 17 0.55
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTTTTTAAATTTTTTTA
Found at i:31247447 original size:22 final size:22
Alignment explanation
Indices: 31247419--31247460 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
31247409 AGTGGTCATA
*
31247419 TTATATATTTAAAAAGGAAAGC
1 TTATATATTTAAAAAAGAAAGC
31247441 TTATATATTTAAAAAAGAAA
1 TTATATATTTAAAAAAGAAA
31247461 ATATATTTTT
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:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (22 bp):
TTATATATTTAAAAAAGAAAGC
Found at i:31248060 original size:3 final size:3
Alignment explanation
Indices: 31248052--31248081 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
31248042 TCTAACATTG
31248052 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
31248082 GGTTTAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:31250724 original size:19 final size:19
Alignment explanation
Indices: 31250700--31250743 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
31250690 TAAAAGCAAC
31250700 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
31250719 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
31250738 ACAACA
1 ACAACA
31250744 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:31256462 original size:41 final size:40
Alignment explanation
Indices: 31256330--31256462 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 40
31256320 ACCAGTTTGG
* * *
31256330 CACCCAGTGCCTCATCGGA-TAATTCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATC-GATTAATCCGAAGTAGTAAATTGA
* * * *
31256370 CACCCAGTGTCTCATCGGTTAAACCGAAGT-G--AATTGG
1 CACCCAGTGCCTCATCGATTAATCCGAAGTAGTAAATTGA
* *
31256407 CACGCAGCGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCG-ATTAATCCGAAGTAGTAAATTGA
* *
31256448 CACCTAGTGTCTCAT
1 CACCCAGTGCCTCAT
31256463 TGACTTGCAG
Statistics
Matches: 71, Mismatches: 17, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
37 18 0.25
38 11 0.15
39 2 0.03
40 24 0.34
41 16 0.23
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGATTAATCCGAAGTAGTAAATTGA
Found at i:31256666 original size:24 final size:24
Alignment explanation
Indices: 31256621--31256667 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
31256611 TATATATACC
31256621 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
31256645 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
31256668 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:31257462 original size:8 final size:8
Alignment explanation
Indices: 31257449--31257480 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
31257439 AACATTAAGA
31257449 TATAATAT
1 TATAATAT
31257457 TATAATAT
1 TATAATAT
31257465 TATAATAT
1 TATAATAT
31257473 TATAATAT
1 TATAATAT
31257481 ATATTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATAATAT
Found at i:31258439 original size:6 final size:6
Alignment explanation
Indices: 31258425--31258463 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
31258415 AAAATATAAA
31258425 TTCATTT TTCATT TTCATT TTCATT TTCATT TTCATT TT
1 TTCA-TT TTCATT TTCATT TTCATT TTCATT TTCATT TT
31258464 GGAGAAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCATT
Found at i:31258567 original size:57 final size:57
Alignment explanation
Indices: 31258437--31258565 Score: 174
Period size: 57 Copynumber: 2.3 Consensus size: 57
31258427 CATTTTTCAT
* * *
31258437 TTTCATTT-T-CATTTTCATTTTCATTTTGGAGAAAATCACATTTATTTCCAAATGA
1 TTTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGA
**
31258492 TTTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATG-
1 TTTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGA
31258548 TTTCTTATTTCTCCATTT
1 TTTC--ATTTCTCCATTT
31258566 CACCATTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
55 8 0.12
56 5 0.08
57 40 0.62
58 12 0.18
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.50
Consensus pattern (57 bp):
TTTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGA
Found at i:31265512 original size:30 final size:29
Alignment explanation
Indices: 31265455--31265512 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
31265445 AACAATTATT
31265455 AATAAAGCCAACATATTTCGTTCAAAAAAA
1 AATAAAGCCAACATATTTC-TTCAAAAAAA
*
31265485 AATAAAGTCAACATATTAT-TTCAAAAAA
1 AATAAAGCCAACATATT-TCTTCAAAAAA
31265513 TGTTATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
30 16 0.62
31 1 0.04
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (29 bp):
AATAAAGCCAACATATTTCTTCAAAAAAA
Found at i:31265605 original size:44 final size:44
Alignment explanation
Indices: 31265518--31265610 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
31265508 AAAAATGTTA
* **
31265518 TTATTGATAATTGTGATGATATTATGAGGAAAGTAGTTCCTTTT
1 TTATTGATAATTGTGATGATATTATGAAGAAAGTAGTGACTTTT
* *
31265562 TTATTGATAATTGTTATGATATTATTAAGAAAGTAGTGACTTTT
1 TTATTGATAATTGTGATGATATTATGAAGAAAGTAGTGACTTTT
*
31265606 GTATT
1 TTATT
31265611 ATGAGATATA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.47
Consensus pattern (44 bp):
TTATTGATAATTGTGATGATATTATGAAGAAAGTAGTGACTTTT
Found at i:31271904 original size:3 final size:3
Alignment explanation
Indices: 31271896--31271924 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
31271886 TTATTTTGCA
31271896 ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
31271925 TTCTTTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:31272801 original size:20 final size:21
Alignment explanation
Indices: 31272766--31272808 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
31272756 AAAGTTATGG
31272766 TTTTTAATATATTTTTTTAGA
1 TTTTTAATATATTTTTTTAGA
31272787 TTTTTAATATA-TTTTTTAGA
1 TTTTTAATATATTTTTTTAGA
31272807 TT
1 TT
31272809 ATGACATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTAATATATTTTTTTAGA
Found at i:31274663 original size:147 final size:147
Alignment explanation
Indices: 31274374--31274647 Score: 350
Period size: 147 Copynumber: 1.9 Consensus size: 147
31274364 AAAGGAATTG
* * * ** * *
31274374 GGTGTTAGTCAGGGACTTAGTTATCGATGGCTGAGATCCAGCATGTGTTGTGGATACTCTACAGC
1 GGTGCTAGTCAGGGACTTAGTTATCAATGGCTGAAATCCAGCAAATGTTGTAGATACTCTACAAC
* * * * * * *
31274439 TTGTGTGAGCAATACCGAATAACACTTATATGAATAATCCCGACCTACATCTTATGCGAGTAAAC
66 TTGTGAGAGCAACACCAAATAACACTTATATCAACAATCCCAACCTACAACTTATGCGAGTAAAC
31274504 CCAAATGATATAGTTCC
131 CCAAATGATATAGTTCC
* * *
31274521 GGTGCTAGTTAGGGACTTAGTTATCAATGGTTGAAATCCAGCAAATGTTGTAGATTCTCTACAAC
1 GGTGCTAGTCAGGGACTTAGTTATCAATGGCTGAAATCCAGCAAATGTTGTAGATACTCTACAAC
* * * * *
31274586 TTGTGAGAGCAGCATCAAATAACACTTATATCAACAATCCTAACCTACAACTTGTGTGAGTA
66 TTGTGAGAGCAACACCAAATAACACTTATATCAACAATCCCAACCTACAACTTATGCGAGTA
31274648 GACTTGAATT
Statistics
Matches: 105, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
147 105 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (147 bp):
GGTGCTAGTCAGGGACTTAGTTATCAATGGCTGAAATCCAGCAAATGTTGTAGATACTCTACAAC
TTGTGAGAGCAACACCAAATAACACTTATATCAACAATCCCAACCTACAACTTATGCGAGTAAAC
CCAAATGATATAGTTCC
Found at i:31277188 original size:69 final size:69
Alignment explanation
Indices: 31277104--31277240 Score: 179
Period size: 69 Copynumber: 2.0 Consensus size: 69
31277094 TTCTCATTTC
* *
31277104 AACTAAAATCTCATTTATTTTTTATA-TCAAATTTCTATACATATATTTGTTAGATAATGCTATT
1 AACTAAAATCTCATTTATTTTTTATATTAAAATTT-TATACATATATTTATTAGATAATGCTATT
31277168 TTTTA
65 TTTTA
* ** **
31277173 AACTAAAAAT-TCATTTGTTTTTTATATTAAAATTTTATAGTTATATTTATTAGATAATTTTATT
1 AACT-AAAATCTCATTTATTTTTTATATTAAAATTTTATACATATATTTATTAGATAATGCTATT
31277237 TTTT
65 TTTT
31277241 CACCTAGGTC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
69 47 0.80
70 12 0.20
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (69 bp):
AACTAAAATCTCATTTATTTTTTATATTAAAATTTTATACATATATTTATTAGATAATGCTATTT
TTTA
Found at i:31279978 original size:63 final size:64
Alignment explanation
Indices: 31279900--31280019 Score: 206
Period size: 64 Copynumber: 1.9 Consensus size: 64
31279890 AGCTTTGAGA
* *
31279900 TCAAATTTGGAATAGAC-TTAGCTTTGACTAAATTGGAGAATAATGCCTTCTTATTTGGCGAGG
1 TCAAATTTGGAATAGACTTTAGCTTTGACTAAACTGAAGAATAATGCCTTCTTATTTGGCGAGG
*
31279963 TCAAATTTGGAATAGACTTTAGCTTTGGCTAAACTGAAGAATAATGCCTTCTTATTT
1 TCAAATTTGGAATAGACTTTAGCTTTGACTAAACTGAAGAATAATGCCTTCTTATTT
31280020 AGCAGTGGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
63 17 0.32
64 36 0.68
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (64 bp):
TCAAATTTGGAATAGACTTTAGCTTTGACTAAACTGAAGAATAATGCCTTCTTATTTGGCGAGG
Found at i:31284194 original size:13 final size:13
Alignment explanation
Indices: 31284176--31284201 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31284166 GGGGTGTCTC
31284176 TTATTGAGAAAAA
1 TTATTGAGAAAAA
31284189 TTATTGAGAAAAA
1 TTATTGAGAAAAA
31284202 GGGGAAGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
TTATTGAGAAAAA
Found at i:31298629 original size:26 final size:26
Alignment explanation
Indices: 31298559--31298629 Score: 108
Period size: 26 Copynumber: 2.7 Consensus size: 26
31298549 AAAAATAAAA
*
31298559 ATTTACGAAAATAT-TATAACTTTTTT
1 ATTTACCAAAATATATA-AACTTTTTT
*
31298585 ATTTACCAAAATATATAAATTTTTTT
1 ATTTACCAAAATATATAAACTTTTTT
31298611 ATTTACCAAAATATATAAA
1 ATTTACCAAAATATATAAA
31298630 AAAAACTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 40 0.95
27 2 0.05
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.45
Consensus pattern (26 bp):
ATTTACCAAAATATATAAACTTTTTT
Found at i:31298743 original size:27 final size:27
Alignment explanation
Indices: 31298686--31298748 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
31298676 AATGGTATTG
* *
31298686 GCGGCACCAAAGGTGCCAAAACCATTG
1 GCGGCACCAAAGGTGCCAAAACAATTA
* *
31298713 GCGGCACCAATGGTGCC-ATACTAATTA
1 GCGGCACCAAAGGTGCCAAAAC-AATTA
31298740 GCGGCACCA
1 GCGGCACCA
31298749 CTCGTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.14
Consensus pattern (27 bp):
GCGGCACCAAAGGTGCCAAAACAATTA
Found at i:31298931 original size:19 final size:21
Alignment explanation
Indices: 31298893--31298931 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
31298883 AATAATTGAT
*
31298893 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
31298914 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
31298932 TTGTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:31298998 original size:3 final size:3
Alignment explanation
Indices: 31298992--31299044 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
31298982 GTTAGTATTA
31298992 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
31299040 TTG TT
1 TTG TT
31299045 AGTATTAAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:31299247 original size:12 final size:12
Alignment explanation
Indices: 31299230--31299266 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
31299220 ATAATTTTAG
31299230 TGTGTATTATTT
1 TGTGTATTATTT
31299242 TGTGTATTATTT
1 TGTGTATTATTT
* *
31299254 TGAGTATAATTT
1 TGTGTATTATTT
31299266 T
1 T
31299267 TTTTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:31299874 original size:21 final size:18
Alignment explanation
Indices: 31299823--31299867 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
31299813 GGTTGGTGGT
*
31299823 GAAGAAGAAGGTGCCGGC
1 GAAGAAGAAGGTGCCGAC
31299841 GAAGAAGAAGGTGCCGAC
1 GAAGAAGAAGGTGCCGAC
31299859 GAAGAAGAA
1 GAAGAAGAA
31299868 TGTGGTGGCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.42, C:0.13, G:0.40, T:0.04
Consensus pattern (18 bp):
GAAGAAGAAGGTGCCGAC
Found at i:31304684 original size:159 final size:158
Alignment explanation
Indices: 31304238--31304687 Score: 359
Period size: 159 Copynumber: 2.8 Consensus size: 158
31304228 AGTTGAAAAA
* * *
31304238 AAAAGTTAGTAAATAAATCTTACTT-TGGCCATTTATTCATATTTTTTTCTTCGCATTTTATTAC
1 AAAAGTTAGT-AATAACTCTTACTTCT-GCCATTTGTTCGTA-TTTTTTC-TCG-ATTTTATTAC
**
31304302 TTTAAAAAATATCAT-AATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAA
61 TTTAAAAAATATCATAAATTAGT-ATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAA
* * *
31304366 TTTATTACTCTAGTGTGTTATTTAAATTAATTTGGTGT
125 --TATTACTCTAGTGTATTATTT-AATGAATTT-GTAT
* ** * *
31304404 AAAA---A--AATAACCCTTACCCCTGCCCTTTGCTCGTATTATTTTCTCGATTTTTATTACTTT
1 AAAAGTTAGTAATAACTCTTACTTCTGCCATTTGTTCGTATT-TTTTCTCGA-TTTTATTACTTT
* * * ** * * ** *
31304464 AAATAAAATTAT-ATTATTCTGGTATTTTATTGTTTTATATTATTTCAGTACATTTTCTTTGAAA
64 -AA-AAAA-TATCATAAAT-TAGTATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAA
* * *
31304528 TATT-TTGTA-T-TAATTATTT-CTGAATTT-TAT
125 TATTACTCTAGTGT-ATTATTTAATGAATTTGTAT
31304558 AAAAGTTAGTAATACACTCTTACTTCTGCCATTTGTTCGTATTTTTCTCTCCGTATTTTATTACT
1 AAAAGTTAGTAATA-ACTCTTACTTCTGCCATTTGTTCGTATTTTT-TCT-CG-ATTTTATTACT
* *
31304623 TTAAAAAATATCATAAACTTAGTCTTTTATAATTTTACATTATTTCAGTGCATCATGTTTGAAAT
62 TTAAAAAATATCATAAA-TTAGTATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAAT
31304688 TTATTAATTT
Statistics
Matches: 224, Mismatches: 40, Indels: 47
0.72 0.13 0.15
Matches are distributed among these distances:
154 6 0.03
156 6 0.03
157 2 0.01
158 11 0.05
159 71 0.32
160 60 0.27
161 21 0.09
162 40 0.18
163 3 0.01
166 4 0.02
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.49
Consensus pattern (158 bp):
AAAAGTTAGTAATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTCTCGATTTTATTACTTTAA
AAAATATCATAAATTAGTATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATATTAC
TCTAGTGTATTATTTAATGAATTTGTAT
Found at i:31305585 original size:4 final size:4
Alignment explanation
Indices: 31305569--31305706 Score: 99
Period size: 4 Copynumber: 34.0 Consensus size: 4
31305559 CTCCTTTCCT
*
31305569 TTTC TTTC CTTC TTTC TTTC TTT- TTTC -TTC TCTTC -TTC -TTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC
* *
31305614 TTTC TTTTT TTTC TTCTCC TTTCCC TTTC TTTC CTTC -TT- TTTC TTTC
1 TTTC -TTTC TTTC TT-T-C TTT--C TTTC TTTC TTTC TTTC TTTC TTTC
* * * *
31305661 TTCCC TCTCC TTTC TTCC TTTC TTTC TCTC TTTC TTTC TTTC TTTC
1 TT-TC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
31305707 CCTCTCCTCT
Statistics
Matches: 111, Mismatches: 11, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
3 16 0.14
4 73 0.66
5 13 0.12
6 9 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:31305609 original size:29 final size:29
Alignment explanation
Indices: 31305577--31305706 Score: 101
Period size: 29 Copynumber: 4.4 Consensus size: 29
31305567 CTTTTCTTTC
31305577 CTTCTTTCTTTCTTTTTTCTTCTCTTCTT
1 CTTCTTTCTTTCTTTTTTCTTCTCTTCTT
*
31305606 CTTCTTTCTTTCTTTTTT-TTCTTCTCCTT
1 CTTCTTTCTTTCTTTTTTCTTC-TCTTCTT
* *
31305635 -TCCCTTTCTTTCCTTCTTTTTCTT-TCTTCCCT
1 CT-TCTTTCTTT-C-T-TTTTTCTTCTCTT-CTT
* *
31305667 CTCCTTTCTTCCTTTCTTTC-TCTC-T-TT
1 CTTCTTTCTTTCTTT-TTTCTTCTCTTCTT
31305694 CTTTCTTTCTTTC
1 C-TTCTTTCTTTC
31305707 CCTCTCCTCT
Statistics
Matches: 82, Mismatches: 8, Indels: 23
0.73 0.07 0.20
Matches are distributed among these distances:
27 2 0.02
28 13 0.16
29 36 0.44
30 8 0.10
31 5 0.06
32 15 0.18
33 3 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (29 bp):
CTTCTTTCTTTCTTTTTTCTTCTCTTCTT
Found at i:31305620 original size:33 final size:33
Alignment explanation
Indices: 31305570--31305685 Score: 122
Period size: 31 Copynumber: 3.7 Consensus size: 33
31305560 TCCTTTCCTT
31305570 TTCTT-TCC-TTCTTTCTTTCTTTTTTCTTCTC
1 TTCTTCTCCTTTCTTTCTTTCTTTTTTCTTCTC
*
31305601 TTCTTCTTCTTTCTTTC-TT-TTTTTTCTTCTC
1 TTCTTCTCCTTTCTTTCTTTCTTTTTTCTTCTC
* *
31305632 CT-TTC-CCTTTCTTTCCTTC-TTTTTCTT-TC
1 TTCTTCTCCTTTCTTTCTTTCTTTTTTCTTCTC
* *
31305661 TTCCCTCTCCTTTCTTCCTTTCTTT
1 TT-CTTCTCCTTTCTTTCTTTCTTT
31305686 CTCTCTTTCT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
29 12 0.17
30 13 0.19
31 20 0.29
32 16 0.23
33 9 0.13
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (33 bp):
TTCTTCTCCTTTCTTTCTTTCTTTTTTCTTCTC
Found at i:31305643 original size:70 final size:67
Alignment explanation
Indices: 31305511--31305709 Score: 199
Period size: 70 Copynumber: 2.9 Consensus size: 67
31305501 TTCCTTTTTT
* * * * * *
31305511 TTCTTTTTTTTTCCTTCCTTCCCTCTTATTC-TTCTTT-TTTTTTCTCTTCTCCTTTCCTTTTCT
1 TTCTTTTTCTTT-CTTCCCT-CTTCTTCTTCTTTCTTTCTTTTTTTTCTTCTCCTTTCCCTTTCT
31305574 TTCC
64 TTCC
* *
31305578 TTCTTTCTTTCTTTTTTCTTCTCTTCTTCTTCTTTCTTTCTTTTTTTTCTTCTCCTTTCCCTTTC
1 TTC-TT-TTTCTTTCTTC-CCTCTTCTTCTTCTTTCTTTCTTTTTTTTCTTCTCCTTTCCCTTTC
31305643 TTTCC
63 TTTCC
*
31305648 TTCTTTTTCTTTCTTCCCTCTCCTTTCTTCCTTTCTTTCTCTCTTTCTTTCTT-T-CTTTCCCT
1 TTCTTTTTCTTTCTTCCCTCTTC-TTCTT-CTTTCTTTCT-T-TTT-TTTCTTCTCCTTTCCCT
31305710 CTCCTCTGCC
Statistics
Matches: 111, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
67 8 0.07
68 28 0.25
69 25 0.23
70 40 0.36
71 4 0.04
72 6 0.05
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (67 bp):
TTCTTTTTCTTTCTTCCCTCTTCTTCTTCTTTCTTTCTTTTTTTTCTTCTCCTTTCCCTTTCTTT
CC
Found at i:31305778 original size:27 final size:27
Alignment explanation
Indices: 31305748--31305814 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
31305738 TATTATTAAC
31305748 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* * *
31305775 TGGTGCCGCAAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
*
31305802 TGGTGCCGTCAAT
1 TGGTGCCGCCAAT
31305815 CCCATTGGCG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.16, C:0.24, G:0.30, T:0.30
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:31305910 original size:27 final size:27
Alignment explanation
Indices: 31305872--31305925 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
31305862 GTTTTTTTTG
31305872 TTTTTTTGATATATTTTGGTAAATAAA
1 TTTTTTTGATATATTTTGGTAAATAAA
*
31305899 TTTTTTTTATATATTTTGGTAAATAAA
1 TTTTTTTGATATATTTTGGTAAATAAA
31305926 AAAAAGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.57
Consensus pattern (27 bp):
TTTTTTTGATATATTTTGGTAAATAAA
Found at i:31325115 original size:65 final size:65
Alignment explanation
Indices: 31325011--31325140 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
31325001 GTGTTTTCCA
31325011 GGAAACAAACTTCAAAACAAGTATGAATTGGATTTTGAATACAAGTTTTCTTTTTATCACTTCAC
1 GGAAACAAACTTCAAAACAAGTATGAATTGGATTTTGAATACAAGTTTTCTTTTTATCACTTCAC
31325076 GGAAACAAACTTCAAAACAAGTATGAATTGGATTTTGAATACAAGTTTTCTTTTTATCACTTCAC
1 GGAAACAAACTTCAAAACAAGTATGAATTGGATTTTGAATACAAGTTTTCTTTTTATCACTTCAC
31325141 TTATGATTCA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (65 bp):
GGAAACAAACTTCAAAACAAGTATGAATTGGATTTTGAATACAAGTTTTCTTTTTATCACTTCAC
Found at i:31325301 original size:20 final size:21
Alignment explanation
Indices: 31325276--31325318 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
31325266 TGGTTGTTAT
31325276 ATATTTAT-ATAATATTCGAG
1 ATATTTATAATAATATTCGAG
*
31325296 ATATTTATAATAATATTTGAG
1 ATATTTATAATAATATTCGAG
31325317 AT
1 AT
31325319 TTAAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (21 bp):
ATATTTATAATAATATTCGAG
Found at i:31325626 original size:18 final size:16
Alignment explanation
Indices: 31325584--31325626 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
31325574 TAAATAAAAC
31325584 ATAAAAAATTAATTTT
1 ATAAAAAATTAATTTT
*
31325600 ACAACAAAATTAATTATT
1 ATAA-AAAATTAATT-TT
31325618 ATAATAAAA
1 ATAA-AAAA
31325627 CACTGTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
18 9 0.41
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAAAAATTAATTTT
Found at i:31332529 original size:20 final size:20
Alignment explanation
Indices: 31332478--31332530 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
31332468 TAATAACAAA
*
31332478 AATTTATCCGTATCAACCAT
1 AATTTATCCATATCAACCAT
* **
31332498 AATTTATACATATCAACGGT
1 AATTTATCCATATCAACCAT
*
31332518 AATTCATCCATAT
1 AATTTATCCATAT
31332531 AATTACATAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.36
Consensus pattern (20 bp):
AATTTATCCATATCAACCAT
Found at i:31332712 original size:26 final size:24
Alignment explanation
Indices: 31332680--31332770 Score: 73
Period size: 23 Copynumber: 3.8 Consensus size: 24
31332670 AGTCATGATC
*
31332680 GGTAAGCTCATT-TCGAGCTAATAAAT
1 GGTAAGCTC-TTATCGAGCT--GAAAT
31332706 GGTAAGCT-TTATCGAGCTGAAAT
1 GGTAAGCTCTTATCGAGCTGAAAT
* * *
31332729 GGTAAGCTC-TATAGAGCTGGAAC
1 GGTAAGCTCTTATCGAGCTGAAAT
* *
31332752 GATAAGCTCATAT-GAGCTG
1 GGTAAGCTCTTATCGAGCTG
31332771 TGGTGAGTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
23 37 0.65
24 5 0.09
25 7 0.12
26 8 0.14
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (24 bp):
GGTAAGCTCTTATCGAGCTGAAAT
Found at i:31332732 original size:23 final size:23
Alignment explanation
Indices: 31332702--31332770 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
31332692 TCGAGCTAAT
* *
31332702 AAATGGTAAGCTTTATCGAGCTG
1 AAATGGTAAGCTCTATAGAGCTG
31332725 AAATGGTAAGCTCTATAGAGCTG
1 AAATGGTAAGCTCTATAGAGCTG
* * *
31332748 GAACGATAAGCTC-ATATGAGCTG
1 AAATGGTAAGCTCTATA-GAGCTG
31332771 TGGTGAGTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 3 0.08
23 37 0.93
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.26
Consensus pattern (23 bp):
AAATGGTAAGCTCTATAGAGCTG
Found at i:31334224 original size:29 final size:29
Alignment explanation
Indices: 31334189--31334281 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
31334179 GTATACTAAA
*
31334189 CGATGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTTGACACCATCCCTTTTCATATT
*
31334218 CGATGG-TCATCACCATCCCTTTTCATATT
1 CGATGGTTGA-CACCATCCCTTTTCATATT
* * * *
31334247 CCATGGTCGTCACCATCCTTTTTCATATT
1 CGATGGTTGACACCATCCCTTTTCATATT
31334276 CGATGG
1 CGATGG
31334282 GCGTCGATAC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.04
29 52 0.96
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.38
Consensus pattern (29 bp):
CGATGGTTGACACCATCCCTTTTCATATT
Found at i:31334286 original size:29 final size:29
Alignment explanation
Indices: 31334200--31334286 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
31334190 GATGGTTGAA
*
31334200 ACCATCCCTTTTCATATTCGATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
31334229 ACCATCCCTTTTCATATTCCATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
31334258 ACCATCCTTTTTCATATTCGATGGGCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
31334287 GATACGCCGT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.18, C:0.31, G:0.13, T:0.38
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:31337124 original size:7 final size:7
Alignment explanation
Indices: 31337112--31337163 Score: 104
Period size: 7 Copynumber: 7.4 Consensus size: 7
31337102 TATAGTGTCT
31337112 ATATAAA
1 ATATAAA
31337119 ATATAAA
1 ATATAAA
31337126 ATATAAA
1 ATATAAA
31337133 ATATAAA
1 ATATAAA
31337140 ATATAAA
1 ATATAAA
31337147 ATATAAA
1 ATATAAA
31337154 ATATAAA
1 ATATAAA
31337161 ATA
1 ATA
31337164 ATTTTAATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATATAAA
Found at i:31339592 original size:3 final size:3
Alignment explanation
Indices: 31339584--31339631 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
31339574 AATGGCTCAA
* * *
31339584 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATAA AAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
31339630 AT
1 AT
31339632 CTTTTTTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 37 0.97
4 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:31340109 original size:130 final size:129
Alignment explanation
Indices: 31339934--31340203 Score: 470
Period size: 131 Copynumber: 2.1 Consensus size: 129
31339924 TGGGAAATTT
* *
31339934 TTTTTATTTTTTTTAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATG-TTTTTTAATCATA
1 TTTTGATTTTTTTTAAAAAGAGAAAATTTAGATTTTTAAAATAAAAATATGTTTTTTTAATCATA
*
31339998 TTAAAGGAAATTTTTAAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAA
66 TTAAAGGAAATGTTTAAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAA
31340062 TTTTGATTTTTTTTAAAAAAAGAGAAAATTTAGATTTTTAAAATAAAAATATGTTTTTTTAATCA
1 TTTTGATTTTTTTT--AAAAAGAGAAAATTTAGATTTTTAAAATAAAAATATGTTTTTTTAATCA
*
31340127 TATTAAAGGAAATGTTTAAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTTGAAATAAA
64 TATTAAAGGAAATGTTTAAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAA
*
31340192 G
129 A
31340193 TTTTGATTTTT
1 TTTTGATTTTT
31340204 AAGAAAAATA
Statistics
Matches: 134, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
128 13 0.10
130 36 0.27
131 85 0.63
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (129 bp):
TTTTGATTTTTTTTAAAAAGAGAAAATTTAGATTTTTAAAATAAAAATATGTTTTTTTAATCATA
TTAAAGGAAATGTTTAAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAA
Found at i:31340352 original size:146 final size:147
Alignment explanation
Indices: 31340065--31340377 Score: 425
Period size: 146 Copynumber: 2.1 Consensus size: 147
31340055 AATAAAATTT
* * * *
31340065 TGATTTTTTTTAAAAAAAGAGAAAATTTAGATTTTTAAAATAAAAATATGTTTTTTTAATCATAT
1 TGATTTTTTTT-AAAGAAGAGAAAATTTAGATTATTAAAATAAAAATATGTTTTTTTAAGC--AC
* *
31340130 TAAAGGAAATGTTTAAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTTGAAATAAAGTT
63 TAAAGGAAAAGTTTAAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTT
31340195 TTGATTTTTAAGAAAAATAG
128 TTGATTTTTAAGAAAAATAG
* * *
31340215 TGATTTTTTTTAAAGAAGAGAAAGTTTAGATTATTAACATAAAAATCTG-TTTTTT-AGC-CTAA
1 TGATTTTTTTTAAAGAAGAGAAAATTTAGATTATTAAAATAAAAATATGTTTTTTTAAGCACTAA
* * * *
31340277 AGGAAAAGTTTAAATTTTTTAAAATAAAGTTTTGATTTTTTTTCAACTATTTCGATATAAAGTTT
66 AGGAAAAGTTTAAA-TTCTTAAAACAAAGTTTTGA-TCTTTTTCAACTATTTCGAAATAAAGTTT
* *
31340342 TGATTTTTAAGGAAAGTAG
129 TGATTTTTAAGAAAAATAG
31340361 TGATTTTTTTTAAAGAA
1 TGATTTTTTTTAAAGAA
31340378 AAATTTGATT
Statistics
Matches: 146, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
144 16 0.11
145 18 0.12
146 60 0.41
147 2 0.01
148 6 0.04
149 33 0.23
150 11 0.08
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (147 bp):
TGATTTTTTTTAAAGAAGAGAAAATTTAGATTATTAAAATAAAAATATGTTTTTTTAAGCACTAA
AGGAAAAGTTTAAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTG
ATTTTTAAGAAAAATAG
Found at i:31354553 original size:26 final size:27
Alignment explanation
Indices: 31354497--31354568 Score: 110
Period size: 26 Copynumber: 2.7 Consensus size: 27
31354487 AAAAATAAAA
*
31354497 ATTTATCAAAATATTATAACTTTTTTTT
1 ATTTAACAAAATA-TATAACTTTTTTTT
*
31354525 ATTTACCAAAATATATAA-TTTTTTTT
1 ATTTAACAAAATATATAACTTTTTTTT
31354551 ATTTAACAAAATATATAA
1 ATTTAACAAAATATATAA
31354569 AAAAAAACTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 25 0.60
27 5 0.12
28 12 0.29
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTAACAAAATATATAACTTTTTTTT
Found at i:31354659 original size:27 final size:27
Alignment explanation
Indices: 31354625--31354691 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
31354615 CGCTAATGGA
31354625 ATTGGCGGCACCAAAGGTGCCAATGCC
1 ATTGGCGGCACCAAAGGTGCCAATGCC
* *
31354652 ATTTGCGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAAAGGTGCCAATGCC
*
31354679 GTTGGCGGCACCA
1 ATTGGCGGCACCA
31354692 CTCGTATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.22, C:0.30, G:0.30, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAATGCC
Found at i:31354788 original size:11 final size:11
Alignment explanation
Indices: 31354772--31354808 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
31354762 GTTGGCACGG
31354772 AAAAGAAGAGA
1 AAAAGAAGAGA
31354783 AAAAG-AGAGA
1 AAAAGAAGAGA
*
31354793 AAAAGAGGAGA
1 AAAAGAAGAGA
31354804 AAAAG
1 AAAAG
31354809 GAGGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:31354873 original size:19 final size:21
Alignment explanation
Indices: 31354835--31354873 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
31354825 AATAATTGAT
*
31354835 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
31354856 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
31354874 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:31354937 original size:3 final size:3
Alignment explanation
Indices: 31354919--31354962 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
31354909 AAAATAAAAG
* *
31354919 TAT TAGT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
31354963 GTTGTTGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:31355242 original size:12 final size:12
Alignment explanation
Indices: 31355225--31355255 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
31355215 ATAATTTTAG
31355225 TGTGTATTATTT
1 TGTGTATTATTT
31355237 TGTGTATTATTT
1 TGTGTATTATTT
*
31355249 TGAGTAT
1 TGTGTAT
31355256 AAATTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:31361656 original size:29 final size:29
Alignment explanation
Indices: 31361609--31361722 Score: 75
Period size: 29 Copynumber: 4.1 Consensus size: 29
31361599 TTACCTTTTT
*
31361609 TTCTTTTTTTCCTTC-CTTCCCTCTTCTTC
1 TTCTTTTTTT-TTTCTCTTCCCTCTTCTTC
31361638 TTCTTTTTTTTTTCTCTT--CTCTTC-TC
1 TTCTTTTTTTTTTCTCTTCCCTCTTCTTC
** * *
31361664 --C-TTTCCTTTTCT-TTCCTTCTT-TTT
1 TTCTTTTTTTTTTCTCTTCCCTCTTCTTC
*
31361688 TTCTTTTTTCTTTTCTTTTCCTTCTCTTCTTC
1 TTCTTTTTT-TTTTCTCTTCC--CTCTTCTTC
31361720 TTC
1 TTC
31361723 CTTCTTTCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 21
0.68 0.10 0.22
Matches are distributed among these distances:
22 2 0.03
23 9 0.14
24 6 0.09
26 3 0.05
27 9 0.14
28 9 0.14
29 17 0.27
31 4 0.06
32 5 0.08
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (29 bp):
TTCTTTTTTTTTTCTCTTCCCTCTTCTTC
Found at i:31361676 original size:34 final size:33
Alignment explanation
Indices: 31361602--31361687 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 33
31361592 AATAAAATTA
31361602 CCTTTT-TTTCTTTTTTTCCTTCCTTCCCTCTT
1 CCTTTTCTTTCTTTTTTTCCTTCCTTCCCTCTT
31361634 -CTTCTTCTTT-TTTTTTTCTCTTCTCTTCTCCT-TT
1 CCTT-TTCTTTCTTTTTTTC-CTTC-CTTC-CCTCTT
31361668 CCTTTTCTTTCCTTCTTTTT
1 CCTTTTCTTT-CTT-TTTTT
31361688 TTCTTTTTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
31 3 0.07
32 10 0.22
33 7 0.16
34 12 0.27
35 6 0.13
36 2 0.04
37 5 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (33 bp):
CCTTTTCTTTCTTTTTTTCCTTCCTTCCCTCTT
Found at i:31361727 original size:29 final size:28
Alignment explanation
Indices: 31361629--31361777 Score: 111
Period size: 27 Copynumber: 5.5 Consensus size: 28
31361619 CCTTCCTTCC
31361629 CTCTTCTTCTTCTT-TTTT-TTTTCTCTT
1 CTCTTCTTCTTCTTCTTTTCTTTTC-CTT
* *
31361656 CTCTTCTCCTT-TCCTTTTC-TTTCCTT
1 CTCTTCTTCTTCTTCTTTTCTTTTCCTT
* * *
31361682 CTTTTTTTCTTTTTTCTTTTCTTTTCCTT
1 CTCTTCTTC-TTCTTCTTTTCTTTTCCTT
*
31361711 CTCTTCTTCTTCCTTC-TTTCTTTT-TTT
1 CTCTTCTTCTT-CTTCTTTTCTTTTCCTT
* * *
31361738 CTCTTCTCCTT-TCCCTTTC-TTTCCTT
1 CTCTTCTTCTTCTTCTTTTCTTTTCCTT
31361764 CT-TT-TTCTTTCTTC
1 CTCTTCTTC-TTCTTC
31361778 CCTCTCCTTT
Statistics
Matches: 97, Mismatches: 15, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
24 2 0.02
25 9 0.09
26 20 0.21
27 32 0.33
28 17 0.18
29 17 0.18
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (28 bp):
CTCTTCTTCTTCTTCTTTTCTTTTCCTT
Found at i:31361731 original size:4 final size:4
Alignment explanation
Indices: 31361671--31361816 Score: 79
Period size: 4 Copynumber: 36.0 Consensus size: 4
31361661 CTCCTTTCCT
* * *
31361671 TTTC TTTC CTTC TTTT TTTC TTT- TTTC TTTTC TTTTC CTTC TCTTC -TTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC -TTTC TTTC T-TTC TTTC
* * * *
31361720 -TTC CTTC TTTC TTTT TTTC TCTTC -TCC TTTCCC TTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT--C TTTC TTTC TTTC TTTC
* * * *
31361767 TTTC TTTC TTCCC TCTCC TTTC TTCC TTTC TTTC TCTC TTTC TTTC TTTC
1 TTTC TTTC TT-TC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
31361817 CCTCTCCTTC
Statistics
Matches: 112, Mismatches: 18, Indels: 24
0.73 0.12 0.16
Matches are distributed among these distances:
3 15 0.13
4 72 0.64
5 20 0.18
6 5 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:31361757 original size:82 final size:84
Alignment explanation
Indices: 31361605--31361769 Score: 239
Period size: 82 Copynumber: 2.0 Consensus size: 84
31361595 AAAATTACCT
* *
31361605 TTTTTTCTTTTTTTCCTTCCTTCCCTCTTCTTCTTCTTTTTTTTTTCTCTTCTCTTCTCCTTTCC
1 TTTTTTCTTTTCTT-CTTCCTT-CCTCTTCTTCTTCTTTTTCTTTTCTCTTCTCTTCTCCTTTCC
*
31361670 TTTTCTTTCCTTCTTTTTTTC
64 CTTTCTTTCCTTCTTTTTTTC
31361691 TTTTTTCTTTTCTT-TTCCTT-CTCTTCTTCTTCCTTCTTTCTTTT-T-TTCTCTTCTCCTTTCC
1 TTTTTTCTTTTCTTCTTCCTTCCTCTTCTTCTT-CTT-TTTCTTTTCTCTTCTCTTCTCCTTTCC
31361752 CTTTCTTTCCTTCTTTTT
64 CTTTCTTTCCTTCTTTTT
31361770 CTTTCTTCCC
Statistics
Matches: 74, Mismatches: 3, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
82 44 0.59
83 4 0.05
84 13 0.18
86 13 0.18
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (84 bp):
TTTTTTCTTTTCTTCTTCCTTCCTCTTCTTCTTCTTTTTCTTTTCTCTTCTCTTCTCCTTTCCCT
TTCTTTCCTTCTTTTTTTC
Found at i:31361762 original size:38 final size:38
Alignment explanation
Indices: 31361720--31361825 Score: 128
Period size: 38 Copynumber: 2.7 Consensus size: 38
31361710 TCTCTTCTTC
*
31361720 TTCCTTCTTTCTTTTTTTCTCTTCTCCTTTC-CCTTTCT
1 TTCCTTCTTTCTTTTTTTC-CCTCTCCTTTCTCCTTTCT
31361758 TTCCTTCTTT-TTCTTTCTTCCCTCTCCTTTCTTCCTTTCT
1 TTCCTTCTTTCTT-TTT-TTCCCTCTCCTTTC-TCCTTTCT
*
31361798 TT-CTCTCTTTCTTTCTTTCCCTCTCCTT
1 TTCCT-TCTTTCTTTTTTTCCCTCTCCTT
31361826 CTGCCCCCAC
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
37 2 0.03
38 23 0.38
39 17 0.28
40 16 0.27
41 2 0.03
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (38 bp):
TTCCTTCTTTCTTTTTTTCCCTCTCCTTTCTCCTTTCT
Found at i:31361765 original size:48 final size:45
Alignment explanation
Indices: 31361631--31361773 Score: 126
Period size: 41 Copynumber: 3.3 Consensus size: 45
31361621 TTCCTTCCCT
*
31361631 CTTCTTCTTCTTTTTTTTTTCTCTTCTCTTCTCCTTTCCTTTTCTTT-
1 CTTCTTCTTC-TTTTTTTTT-T-TTCTCTTCTCCTTTCCCTTTCTTTC
* *
31361678 C--CTTCTT-TTTTTCTTTTTTCT-TT-T-CTTTTCC-TTCTCTT-
1 CTTCTTCTTCTTTTTTTTTTTTCTCTTCTCCTTTCCCTTTCT-TTC
*
31361716 CTTCTTCCTTC-TTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTC
1 CTTCTT-CTTCTTTTTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTC
*
31361761 CTTCTTTTTCTTT
1 CTTCTTCTTCTTT
31361774 CTTCCCTCTC
Statistics
Matches: 78, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
37 4 0.05
38 8 0.10
39 1 0.01
40 5 0.06
41 18 0.23
42 3 0.04
43 9 0.12
44 11 0.14
45 18 0.23
47 1 0.01
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (45 bp):
CTTCTTCTTCTTTTTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTC
Found at i:31361776 original size:48 final size:48
Alignment explanation
Indices: 31361670--31361776 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 48
31361660 TCTCCTTTCC
* * * * *
31361670 TTTTCTTTCCTTCTTTTTTTCTTTTTTCTTTTCTTTTCCTTCTCTTCT
1 TTTTCTTTCTTTCTTTTTTTCTTTCTCCTTTCCCTTTCCTTCTCTTCT
* * *
31361718 TCTTCCTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTC-CTTCT
1 TTTTCTTTCTTTCTTTTTTTCT-TTCTCCTTTCCCTTTCCTTCTCTTCT
31361766 TTTTCTTTCTT
1 TTTTCTTTCTT
31361777 CCCTCTCCTT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 33 0.69
49 15 0.31
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (48 bp):
TTTTCTTTCTTTCTTTTTTTCTTTCTCCTTTCCCTTTCCTTCTCTTCT
Found at i:31361821 original size:16 final size:16
Alignment explanation
Indices: 31361787--31361825 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
31361777 CCCTCTCCTT
*
31361787 TCTTCCTTTCTTTCTC
1 TCTTCCTTTCTTTCCC
*
31361803 TCTTTCTTTCTTTCCC
1 TCTTCCTTTCTTTCCC
31361819 TC-TCCTT
1 TCTTCCTT
31361826 CTGCCCCCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
TCTTCCTTTCTTTCCC
Found at i:31361925 original size:27 final size:27
Alignment explanation
Indices: 31361849--31361915 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
31361839 TATTATTAAC
31361849 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* *
31361876 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
31361903 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
31361916 CCCATTGGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:31362018 original size:26 final size:27
Alignment explanation
Indices: 31361983--31362052 Score: 115
Period size: 26 Copynumber: 2.6 Consensus size: 27
31361973 GGTTTTTTTG
31361983 ATATATTTTGGTAAATAAAAAAAA-TT
1 ATATATTTTGGTAAATAAAAAAAAGTT
*
31362009 ATATATTTTGATAAATAAAAAAAAGTT
1 ATATATTTTGGTAAATAAAAAAAAGTT
31362036 ATAATATTTTGGTAAAT
1 AT-ATATTTTGGTAAAT
31362053 TTTTATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 23 0.57
27 4 0.10
28 13 0.32
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAAAGTT
Found at i:31364120 original size:11 final size:11
Alignment explanation
Indices: 31364104--31364135 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
31364094 GTATATTGTC
31364104 TATTTCAAATT
1 TATTTCAAATT
*
31364115 TATTTCCAATT
1 TATTTCAAATT
31364126 TATTTCAAAT
1 TATTTCAAAT
31364136 ACCAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (11 bp):
TATTTCAAATT
Found at i:31367198 original size:28 final size:28
Alignment explanation
Indices: 31367167--31367292 Score: 82
Period size: 28 Copynumber: 4.5 Consensus size: 28
31367157 CCAAAATCTT
*
31367167 GCCACAAGGGCTATTCGTTCAAGAATTC
1 GCCACAAAGGCTATTCGTTCAAGAATTC
* * *
31367195 GCCACTCAA-GCTATTCTTTC-AGATATTT
1 GCCAC-AAAGGCTATTCGTTCAAGA-ATTC
* * *
31367223 ACCACAAAGGCTATTCTTTTCGA-AATTC
1 GCCACAAAGGCTATTC-GTTCAAGAATTC
* * *
31367251 GCCA-AATAGGCTAATCGTTCATG-ATTT
1 GCCACAA-AGGCTATTCGTTCAAGAATTC
*
31367278 GCCACAAGGGCTATT
1 GCCACAAAGGCTATT
31367293 ATTTTTTAAC
Statistics
Matches: 75, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
27 23 0.31
28 45 0.60
29 6 0.08
30 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (28 bp):
GCCACAAAGGCTATTCGTTCAAGAATTC
Found at i:31372319 original size:36 final size:36
Alignment explanation
Indices: 31372247--31372319 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 36
31372237 GTTGTATGTT
*
31372247 TAATATCCTTATGGTTAAGGAAAATGTCATGTTATG
1 TAATATCCTTATGGTTAAGGAAAATGTCATGATATG
* * * *
31372283 TAATATGCTTTTGGTTGAGGAAAGGTGT-ATGATATG
1 TAATATCCTTATGGTTAAGGAAA-ATGTCATGATATG
31372319 T
1 T
31372320 TTTGATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
36 28 0.90
37 3 0.10
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (36 bp):
TAATATCCTTATGGTTAAGGAAAATGTCATGATATG
Found at i:31379709 original size:43 final size:44
Alignment explanation
Indices: 31379616--31379739 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
31379606 ATGTTTTTAG
* * **
31379616 CAGAGAAAAGAAGAGAAAACGAAATTTGGAAGAAGAAAGGTCATA
1 CAGA-AAAAGAAGAGAAAAGGAAATTGGGAAGAAGAAACATCATA
* *
31379661 GAGAAAAAGAAGAGAAAAGGAAATTGGGAAGAAGAAACATCA-C
1 CAGAAAAAGAAGAGAAAAGGAAATTGGGAAGAAGAAACATCATA
*
31379704 CAGAAAAAGAAAGAAGAAAAAGGAAATTGTGAAGAA
1 CAGAAAAAG-AAG-AG-AAAAGGAAATTGGGAAGAA
31379740 TTAAGTGTCA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
43 8 0.12
44 37 0.54
45 5 0.07
46 18 0.26
ACGTcount: A:0.59, C:0.06, G:0.27, T:0.09
Consensus pattern (44 bp):
CAGAAAAAGAAGAGAAAAGGAAATTGGGAAGAAGAAACATCATA
Found at i:31384439 original size:27 final size:27
Alignment explanation
Indices: 31384405--31384737 Score: 348
Period size: 27 Copynumber: 12.3 Consensus size: 27
31384395 GCAAAGGATT
**
31384405 GAAATACCCTCGAAGGGTAAAATGATT
1 GAAATACCCTCGAAGGGTAAAATGACC
* * *
31384432 GAAATACCCCCGAAGGGTAAAATAATC
1 GAAATACCCTCGAAGGGTAAAATGACC
* * * * *
31384459 AAAATACCCCCGAATGGTAAAATAACT
1 GAAATACCCTCGAAGGGTAAAATGACC
* * * *
31384486 GAAATACCC-CTGGAGGGTTAAATAACT
1 GAAATACCCTC-GAAGGGTAAAATGACC
*
31384513 GAAATACCCTTGAAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACC
31384540 GAAATACCC-CTGAAGGGTAAAATGACC
1 GAAATACCCTC-GAAGGGTAAAATGACC
* *
31384567 AAAATACCC-CTAAAGGGTAAAATGACC
1 GAAATACCCTC-GAAGGGTAAAATGACC
* *
31384594 GAAATACCTTCGAAGGGTAAAATGACT
1 GAAATACCCTCGAAGGGTAAAATGACC
* *
31384621 GAAATACCCTCAAAGGGTAAAATAACC
1 GAAATACCCTCGAAGGGTAAAATGACC
* * *
31384648 TAAATACCCCCGAAGGATAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACC
** * * *
31384675 GAAATAATCTTGAAGGATAAAATGATC
1 GAAATACCCTCGAAGGGTAAAATGACC
*
31384702 GAAATACCCTCGAAAGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACC
31384729 GAAATACCC
1 GAAATACCC
31384738 CTATAGGATA
Statistics
Matches: 258, Mismatches: 44, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.00
27 256 0.99
28 1 0.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATGACC
Found at i:31386207 original size:28 final size:26
Alignment explanation
Indices: 31386121--31386218 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 26
31386111 TAATGAGATT
* *
31386121 AGCACTAAGTGTGCGACTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTGATT-AA
* **
31386148 ATGCACTAAGTGTGCGAGTATAGGGGTAA
1 A-GCACTAAGTGTGCGAGT-T-TGATTAA
31386177 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTGATTA--A
31386205 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
31386219 ATACTTATTA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
26 3 0.05
27 2 0.03
28 48 0.83
29 4 0.07
30 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGAGTTTGATTAA
Found at i:31387196 original size:25 final size:25
Alignment explanation
Indices: 31387166--31387239 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
31387156 TTAATGTACA
*
31387166 ATGCTGTCAAATTTTAAGTATATTG
1 ATGCTGTCCAATTTTAAGTATATTG
*
31387191 ATGCTG-CCCATTTTAATGTATA---
1 ATGCTGTCCAATTTTAA-GTATATTG
* *
31387213 ATCCTGTCCAATTTTGAGTATATTG
1 ATGCTGTCCAATTTTAAGTATATTG
31387238 AT
1 AT
31387240 TGTGACATCC
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
22 10 0.26
23 8 0.21
24 8 0.21
25 13 0.33
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (25 bp):
ATGCTGTCCAATTTTAAGTATATTG
Found at i:31388141 original size:39 final size:39
Alignment explanation
Indices: 31388098--31388175 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
31388088 TTAAACGTTG
*
31388098 AGGTTAGCATTTGGGTTGTTGAATATGCCGAACTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
* *
31388137 AGGTTAGCATTTGGGTTGTTCAATGTGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
31388176 TTAGGGAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.37
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
Found at i:31390041 original size:47 final size:47
Alignment explanation
Indices: 31389956--31390547 Score: 864
Period size: 47 Copynumber: 12.6 Consensus size: 47
31389946 TAATTGAATA
*
31389956 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATG
* * * *
31390004 AATGTGAACATGCATATATGAGATAAGGCAGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
31390051 AATGTGAACACGTATATGTGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
31390098 AAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
31390145 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
31390192 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
31390239 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31390286 AAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31390333 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31390380 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31390427 AATGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * * *
31390474 AATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
**
31390521 AATGTGAA-AGTGTATAAATGTGATAAG
1 AATGTGAACA-TGTATATGTGTGATAAG
31390548 TCCCGAAGGG
Statistics
Matches: 501, Mismatches: 41, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 482 0.96
48 17 0.03
49 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:31390722 original size:37 final size:37
Alignment explanation
Indices: 31390666--31390745 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
31390656 CCGGGCTATA
* * *
31390666 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
31390703 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
31390740 AAGACT
1 AAGACT
31390746 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:31392597 original size:40 final size:40
Alignment explanation
Indices: 31392542--31393203 Score: 1218
Period size: 40 Copynumber: 16.6 Consensus size: 40
31392532 TCGAATGATG
31392542 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
31392582 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
31392622 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
31392662 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
31392702 TCCGGGCTAAGTCCCGAAGAGCATTCGAGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
31392742 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
31392782 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
31392822 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
31392862 TCCGGGCTAAGTCCCGAAGAGCATTCGAGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
31392902 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
31392942 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
31392982 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
31393022 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
31393062 TCCGGGCTAAGTCCCGAAGAGCATTTGAGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
31393102 TCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
31393141 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
31393181 TCCGTGCTAAATCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
31393204 ATCATGCTGG
Statistics
Matches: 602, Mismatches: 19, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 0.06
40 566 0.94
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:31395206 original size:39 final size:39
Alignment explanation
Indices: 31395163--31395240 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
31395153 TTAAACGTTG
*
31395163 AGGTTAGCATTTGGGTTGTTGAATATGCCGAACTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
* *
31395202 AGGTTAGCATTTGGGTTGTTCAATGTGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
31395241 TTAGGGAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.37
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
Found at i:31397106 original size:47 final size:47
Alignment explanation
Indices: 31397021--31397565 Score: 788
Period size: 47 Copynumber: 11.6 Consensus size: 47
31397011 TAATTGAATA
*
31397021 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATG
* * * *
31397069 AATGTGAACATGCATATATGAGATAAGGCAGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
31397116 AATGTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
31397163 AAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
31397210 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
31397257 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31397304 AAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31397351 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31397398 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31397445 AATGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * * *
31397492 AATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
**
31397539 AATGTGAA-AGTGTATAAATGTGATAAG
1 AATGTGAACA-TGTATATGTGTGATAAG
31397566 TCCCGAAGGG
Statistics
Matches: 456, Mismatches: 39, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 437 0.96
48 17 0.04
49 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:31397740 original size:37 final size:37
Alignment explanation
Indices: 31397684--31397763 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
31397674 CCGGGCTATA
* * *
31397684 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
31397721 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
31397758 AAGACT
1 AAGACT
31397764 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:31399130 original size:22 final size:22
Alignment explanation
Indices: 31399102--31399227 Score: 85
Period size: 22 Copynumber: 5.5 Consensus size: 22
31399092 TGTTACATTG
*
31399102 ATGCTGTCCATTTTAATGTATA
1 ATGCTGTCCATTTTGATGTATA
31399124 ATGCTGTCCAATTTTGA-GTATA
1 ATGCTGTCC-ATTTTGATGTATA
* * * *
31399146 TTTAAGCTGTCTAATTCGATGTATA
1 ---ATGCTGTCCATTTTGATGTATA
*
31399171 ATGCTGTCCATTTAGA-GCATATTA
1 ATGCTGTCCATTTTGATG--TA-TA
* * *
31399195 TTGCTGTCCAATTTGATGAATA
1 ATGCTGTCCATTTTGATGTATA
31399217 ATTGCTGTCCA
1 A-TGCTGTCCA
31399228 AAACAGGGTT
Statistics
Matches: 80, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
21 1 0.01
22 28 0.35
23 18 0.22
24 20 0.25
25 13 0.16
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (22 bp):
ATGCTGTCCATTTTGATGTATA
Found at i:31399173 original size:47 final size:47
Alignment explanation
Indices: 31399117--31399228 Score: 138
Period size: 46 Copynumber: 2.4 Consensus size: 47
31399107 GTCCATTTTA
* * *
31399117 ATGTATAATGCTGTCCAATTTTGAGTATATT-TAAGCTGTCTAATTCG
1 ATGTATAATGCTGTCCAATTTAGAGCATATTAT-AGCTGTCCAATTCG
* *
31399164 ATGTATAATGCTGTCC-ATTTAGAGCATATTATTGCTGTCCAATTTG
1 ATGTATAATGCTGTCCAATTTAGAGCATATTATAGCTGTCCAATTCG
*
31399210 ATGAATAATTGCTGTCCAA
1 ATGTATAA-TGCTGTCCAA
31399229 AACAGGGTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
46 30 0.54
47 25 0.45
48 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (47 bp):
ATGTATAATGCTGTCCAATTTAGAGCATATTATAGCTGTCCAATTCG
Found at i:31399218 original size:46 final size:46
Alignment explanation
Indices: 31399102--31399227 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 46
31399092 TGTTACATTG
* * * *
31399102 ATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTATATTT
1 ATGCTGTCCAATTTGATGTATAATGCTGTCC-ATTTAGAGCATATTT
* * *
31399149 AAGCTGTCTAATTCGATGTATAATGCTGTCCATTTAGAGCATA-TT
1 ATGCTGTCCAATTTGATGTATAATGCTGTCCATTTAGAGCATATTT
*
31399194 ATTGCTGTCCAATTTGATGAATAATTGCTGTCCA
1 A-TGCTGTCCAATTTGATGTATAA-TGCTGTCCA
31399228 AAACAGGGTT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 3 0.05
46 28 0.42
47 35 0.53
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (46 bp):
ATGCTGTCCAATTTGATGTATAATGCTGTCCATTTAGAGCATATTT
Found at i:31399904 original size:28 final size:28
Alignment explanation
Indices: 31399863--31399947 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
31399853 ACTGCACTAT
*
31399863 ACTGTTACTCTATTGGGCTAAGGCCCAC
1 ACTGTTACTATATTGGGCTAAGGCCCAC
* *
31399891 ACTGTTACTATATTGGGTTAAGGCTCAC
1 ACTGTTACTATATTGGGCTAAGGCCCAC
* *
31399919 AATGTTACTGA-AATGGGCTAAGGCCCAC
1 ACTGTTACT-ATATTGGGCTAAGGCCCAC
31399947 A
1 A
31399948 TTCCACTGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
28 48 0.98
29 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (28 bp):
ACTGTTACTATATTGGGCTAAGGCCCAC
Found at i:31402644 original size:27 final size:27
Alignment explanation
Indices: 31402604--31402770 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
31402594 GATTTGTGGG
31402604 AAAATGATCGAAATACCCCCGAAGGGT
1 AAAATGATCGAAATACCCCCGAAGGGT
* *
31402631 AAAATGATCAAAATACCCCCAAAGGGT
1 AAAATGATCGAAATACCCCCGAAGGGT
* *
31402658 AAAATGATCGAAATACCCTCGAAGGAT
1 AAAATGATCGAAATACCCCCGAAGGGT
* ***
31402685 -AAATGACCGAAATACCCTTAAAGGGT
1 AAAATGATCGAAATACCCCCGAAGGGT
* *
31402711 AAAATGATCGAAAAACCCTCGAAGGGT
1 AAAATGATCGAAATACCCCCGAAGGGT
*
31402738 AAAAT-AACTGAAATACCCCC-ATAGGGT
1 AAAATGATC-GAAATACCCCCGA-AGGGT
31402765 AAAATG
1 AAAATG
31402771 TCTAATATAC
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
26 25 0.21
27 94 0.79
ACGTcount: A:0.45, C:0.20, G:0.19, T:0.17
Consensus pattern (27 bp):
AAAATGATCGAAATACCCCCGAAGGGT
Found at i:31402668 original size:54 final size:54
Alignment explanation
Indices: 31402604--31402783 Score: 231
Period size: 54 Copynumber: 3.4 Consensus size: 54
31402594 GATTTGTGGG
* * *
31402604 AAAATGATCGAAATACCCCCGAAGGGTAAAATGATCAAAATACCCCCAAAGGGT
1 AAAATGATCGAAATACCCTCGAAGGGTAAAATGAACGAAATACCCCCAAAGGGT
* * **
31402658 AAAATGATCGAAATACCCTCGAAGGAT-AAATGACCGAAATACCCTTAAAGGGT
1 AAAATGATCGAAATACCCTCGAAGGGTAAAATGAACGAAATACCCCCAAAGGGT
* *
31402711 AAAATGATCGAAAAACCCTCGAAGGGTAAAAT-AACTGAAATACCCCCATAGGGT
1 AAAATGATCGAAATACCCTCGAAGGGTAAAATGAAC-GAAATACCCCCAAAGGGT
*
31402765 AAAATG-TCTAATATACCCT
1 AAAATGATCGAA-ATACCCT
31402784 TAGGAGTCGG
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 53 0.49
54 56 0.51
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (54 bp):
AAAATGATCGAAATACCCTCGAAGGGTAAAATGAACGAAATACCCCCAAAGGGT
Found at i:31402738 original size:80 final size:80
Alignment explanation
Indices: 31402605--31402755 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 80
31402595 ATTTGTGGGA
* * *
31402605 AAATGATCGAAATACCCCCGAAGGGTAAAATGATCAAAATACCCCCAAAGGGTAAAATGA-TCGA
1 AAATGACCGAAATACCCCCAAAGGGTAAAATGATCAAAATACCCCCAAAGGGTAAAATAACT-GA
31402669 AATACCCTCGAAGGAT
65 AATACCCTCGAAGGAT
** * *
31402685 AAATGACCGAAATACCCTTAAAGGGTAAAATGATCGAAAA-ACCCTCGAAGGGTAAAATAACTGA
1 AAATGACCGAAATACCCCCAAAGGGTAAAATGATC-AAAATACCCCCAAAGGGTAAAATAACTGA
31402749 AATACCC
65 AATACCC
31402756 CCATAGGGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 57 0.92
81 5 0.08
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.17
Consensus pattern (80 bp):
AAATGACCGAAATACCCCCAAAGGGTAAAATGATCAAAATACCCCCAAAGGGTAAAATAACTGAA
ATACCCTCGAAGGAT
Found at i:31403059 original size:23 final size:25
Alignment explanation
Indices: 31403009--31403058 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
31402999 ACTTATACTG
* *
31403009 TTATTGGCAGCTTTGCTGCGATTCTA
1 TTATTGGCAGCTCTGCTGCGA-TATA
*
31403035 TTATTGGCAGCTCTGCTGCAATAT
1 TTATTGGCAGCTCTGCTGCGATAT
31403059 TGGTGTGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (25 bp):
TTATTGGCAGCTCTGCTGCGATATA
Found at i:31403201 original size:28 final size:28
Alignment explanation
Indices: 31403160--31403242 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
31403150 ACTGCGCTGT
*
31403160 ACTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTATATTGGGCTAAGGCCCAC
* *
31403188 ACTGTTACTATATTGGGTTAAGGCTCAC
1 ACTGTTACTATATTGGGCTAAGGCCCAC
*
31403216 ACTGTTACTGA-AATGGGCTAAGGCCCA
1 ACTGTTACT-ATATTGGGCTAAGGCCCA
31403243 TATTCCACTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 47 0.98
29 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (28 bp):
ACTGTTACTATATTGGGCTAAGGCCCAC
Found at i:31407151 original size:30 final size:29
Alignment explanation
Indices: 31407102--31407174 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
31407092 ACTCAATTTT
*
31407102 AGCTCATTTAGCTTGATTCACCTCCAATC-
1 AGCTCATTTAGCTTAATTCACCT-CAATCG
* *
31407131 AGCTTATTTGAGCTTAATTCAGCTCAATCG
1 AGCTCATTT-AGCTTAATTCACCTCAATCG
31407161 AGCTCAATTTAGCT
1 AGCTC-ATTTAGCT
31407175 ACATTTCAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 13 0.35
30 20 0.54
31 4 0.11
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (29 bp):
AGCTCATTTAGCTTAATTCACCTCAATCG
Found at i:31409573 original size:12 final size:12
Alignment explanation
Indices: 31409552--31409682 Score: 63
Period size: 12 Copynumber: 10.9 Consensus size: 12
31409542 AGAAAAGGAG
*
31409552 AAAGAGATTGAA
1 AAAGAAATTGAA
31409564 AAAGAAATTG--
1 AAAGAAATTGAA
**
31409574 AAAGAAA-ACAA
1 AAAGAAATTGAA
**
31409585 AAAGAAAACGAA
1 AAAGAAATTGAA
*
31409597 AAAGAAAATGAA
1 AAAGAAATTGAA
** *
31409609 ATCGCAAA-AGAA
1 AAAG-AAATTGAA
*
31409621 AAAGAAATCGAA
1 AAAGAAATTGAA
** **
31409633 AAAGTGAGAGAA
1 AAAGAAATTGAA
*
31409645 AAAGAAAATGAAGA
1 AAAGAAATTG-A-A
31409659 AAAGAAAATTGAA
1 AAAG-AAATTGAA
31409672 AAAGAAATTGA
1 AAAGAAATTGA
31409683 GATTGAGAAA
Statistics
Matches: 90, Mismatches: 21, Indels: 16
0.71 0.17 0.13
Matches are distributed among these distances:
10 7 0.08
11 10 0.11
12 53 0.59
13 9 0.10
14 6 0.07
15 5 0.06
ACGTcount: A:0.67, C:0.04, G:0.19, T:0.10
Consensus pattern (12 bp):
AAAGAAATTGAA
Found at i:31409590 original size:11 final size:12
Alignment explanation
Indices: 31409574--31409678 Score: 72
Period size: 12 Copynumber: 8.6 Consensus size: 12
31409564 AAAGAAATTG
31409574 AAAGAAAAC-AA
1 AAAGAAAACGAA
31409585 AAAGAAAACGAA
1 AAAGAAAACGAA
*
31409597 AAAGAAAATGAA
1 AAAGAAAACGAA
**
31409609 ATCGCAAAA-GAA
1 AAAG-AAAACGAA
*
31409621 AAAGAAATCGAA
1 AAAGAAAACGAA
* *
31409633 AAAGTGAGA-GAA
1 AAAG-AAAACGAA
*
31409645 AAAGAAAATGAAGA
1 AAAGAAAACG-A-A
*
31409659 AAAGAAAATTGAA
1 AAAGAAAA-CGAA
31409672 AAAGAAA
1 AAAGAAA
31409679 TTGAGATTGA
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
11 14 0.19
12 35 0.47
13 14 0.19
14 10 0.13
15 2 0.03
ACGTcount: A:0.70, C:0.05, G:0.18, T:0.07
Consensus pattern (12 bp):
AAAGAAAACGAA
Found at i:31409604 original size:18 final size:18
Alignment explanation
Indices: 31409578--31409678 Score: 76
Period size: 18 Copynumber: 5.4 Consensus size: 18
31409568 AAATTGAAAG
*
31409578 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAAACGA
* * *
31409596 AAAAGAAAATGAAATCGC
1 AAAAGAAAAAGAAAACGA
*
31409614 AAAAGAAAAAGAAATCGA
1 AAAAGAAAAAGAAAACGA
** * *
31409632 AAAAGTGAGAGAAAAAGA
1 AAAAGAAAAAGAAAACGA
* *
31409650 AAATGAAGAAAAGAAAATTGA
1 AAAAG-A-AAAAGAAAA-CGA
31409671 AAAAGAAA
1 AAAAGAAA
31409679 TTGAGATTGA
Statistics
Matches: 63, Mismatches: 17, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
18 47 0.75
19 2 0.03
20 8 0.13
21 6 0.10
ACGTcount: A:0.70, C:0.05, G:0.18, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAACGA
Found at i:31409650 original size:6 final size:6
Alignment explanation
Indices: 31409574--31409678 Score: 59
Period size: 6 Copynumber: 17.2 Consensus size: 6
31409564 AAAGAAATTG
* * * ** *
31409574 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AATGAA ATCGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
31409621 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
31409672 AAAGAA A
1 AAAGAA A
31409679 TTGAGATTGA
Statistics
Matches: 71, Mismatches: 25, Indels: 7
0.69 0.24 0.07
Matches are distributed among these distances:
5 3 0.04
6 57 0.80
7 7 0.10
8 4 0.06
ACGTcount: A:0.70, C:0.05, G:0.18, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:31409687 original size:18 final size:18
Alignment explanation
Indices: 31409664--31409712 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
31409654 GAAGAAAAGA
31409664 AAATTGAAAAAGAAATTG
1 AAATTGAAAAAGAAATTG
*
31409682 AGATTGAGAAAA-AAATTG
1 AAATTGA-AAAAGAAATTG
*
31409700 AAATAGAAAAAGA
1 AAATTGAAAAAGA
31409713 TGTTGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 4 0.15
18 18 0.69
19 4 0.15
ACGTcount: A:0.63, C:0.00, G:0.18, T:0.18
Consensus pattern (18 bp):
AAATTGAAAAAGAAATTG
Found at i:31417049 original size:13 final size:13
Alignment explanation
Indices: 31417031--31417056 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31417021 GCAGCACTTG
31417031 TGCAAATTCAGTA
1 TGCAAATTCAGTA
31417044 TGCAAATTCAGTA
1 TGCAAATTCAGTA
31417057 AGTTGTTGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGCAAATTCAGTA
Found at i:31421759 original size:43 final size:43
Alignment explanation
Indices: 31421711--31421822 Score: 99
Period size: 43 Copynumber: 2.6 Consensus size: 43
31421701 AACTCATACA
*
31421711 ATGCCAACGTCCCAGACGTGGTCTTACATGTA-AT-CACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATATACA-AT-TCG
*
31421754 ATGCC-AC-TACCCCAGACAG-GGTCTTTCACGTATATACAATTCG
1 ATGCCAACGT--CCCAGAC-GTGGTCTTACACGTATATACAATTCG
* * *
31421797 AAGCCACCGTCTCAGACGTGGTCTTA
1 ATGCCAACGTCCCAGACGTGGTCTTA
31421823 TACGAAAACA
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
41 1 0.02
42 3 0.05
43 42 0.76
44 6 0.11
45 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTATATACAATTCG
Found at i:31439684 original size:27 final size:27
Alignment explanation
Indices: 31439654--31439719 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
31439644 TTACCACTTT
*
31439654 TGGAGACATCTCACACTTCGCCATGTA
1 TGGAGACAACTCACACTTCGCCATGTA
** * * *
31439681 TGGAGACAACTTGCACTTTGCGATGTG
1 TGGAGACAACTCACACTTCGCCATGTA
31439708 TGGAGACAACTC
1 TGGAGACAACTC
31439720 GCATCTTGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (27 bp):
TGGAGACAACTCACACTTCGCCATGTA
Found at i:31443835 original size:27 final size:27
Alignment explanation
Indices: 31443781--31443847 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
31443771 CATGCTCATG
* * *
31443781 GGTCAACTAGCACTTTCATACTTTGTA
1 GGTCAACTAGCACTTTCACAATTAGTA
*
31443808 GGTCAACTAGCACTTTGACAATTAGTA
1 GGTCAACTAGCACTTTCACAATTAGTA
* *
31443835 GGCCAGCTAGCAC
1 GGTCAACTAGCAC
31443848 ATTGCCACTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (27 bp):
GGTCAACTAGCACTTTCACAATTAGTA
Found at i:31443972 original size:27 final size:27
Alignment explanation
Indices: 31443953--31444008 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
31443943 AGACATCTCG
*
31443953 CACTTCACCA-TGTGTGGAGAAAAATCA
1 CACTTCACCACT-TGTGGAGACAAATCA
*
31443980 CACTTCACCACTTGTGGAGACAACTCA
1 CACTTCACCACTTGTGGAGACAAATCA
31444007 CA
1 CA
31444009 TAATGCAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (27 bp):
CACTTCACCACTTGTGGAGACAAATCA
Found at i:31447011 original size:29 final size:29
Alignment explanation
Indices: 31446948--31447015 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
31446938 TAATCAACCA
31446948 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
31446977 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
31447006 CGCACACTTA
1 CGCACACTTA
31447016 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:31447156 original size:29 final size:29
Alignment explanation
Indices: 31447117--31447194 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
31447107 CTTAATAATC
31447117 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCC-TGTACATTTA
*
31447147 AACTCGCACACTTAGTG-CTGTACAATTTA
1 AACCCGCACACTTAGTGCCTGTAC-ATTTA
31447176 AACCCGCACACTTAGTGCC
1 AACCCGCACACTTAGTGCC
31447195 GAAAACCAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCTGTACATTTA
Found at i:31447189 original size:174 final size:173
Alignment explanation
Indices: 31446838--31447189 Score: 517
Period size: 173 Copynumber: 2.0 Consensus size: 173
31446828 AACTCAAGGT
* * *
31446838 ACTTACCTTTTTCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
31446903 GAAAATATATACTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATACTGGGTTACACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
* ***
31446968 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
*
31447011 ACTTACCTTTTCCGCTGTCCAAAATCGACTTGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * * *
31447076 GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATACTGGGTT-ACACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGC
* **
31447141 ACTTTAAACTCGCACACTTAGTGCTGTACAATTT-AAACCCGCAC
130 ACTTTAAACTCACACACTTAGTGCCATAC-ATTTCAAACCCGCAC
31447185 ACTTA
1 ACTTA
31447190 GTGCCGAAAA
Statistics
Matches: 159, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
173 78 0.49
174 77 0.48
175 4 0.03
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATACTGGGTTACACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
Found at i:31455136 original size:29 final size:29
Alignment explanation
Indices: 31455073--31455140 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
31455063 TAATCAACCA
31455073 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
31455102 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
31455131 CGCACACTTA
1 CGCACACTTA
31455141 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:31455281 original size:29 final size:30
Alignment explanation
Indices: 31455242--31455320 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
31455232 CTTAATAATC
31455242 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
31455272 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
31455301 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31455321 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:31462869 original size:44 final size:43
Alignment explanation
Indices: 31462806--31463060 Score: 118
Period size: 44 Copynumber: 5.6 Consensus size: 43
31462796 TGATCTATAA
* * * * *
31462806 TACTGTAA-CTTTAGAGAGATAAGATCCTTTGTTTTAATCTGCTC
1 TACTGTAATC-TTAGGGAGATAAGATAC-TAGCTTCAATCTGCTC
* *
31462850 TACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTT
1 TACTGTAATCTTAGGGAGATAAGA-TACTAGCTTCAATCTGCTC
* * * *
31462894 TGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATATGATCTAC
1 TACTGTAATCTTAGGGAGATAAGA-TACTAGCTTCAATC-----TG--CT-C
* * * * * * *
31462946 TATACTGTAAGT-TCAGAGAGATAAGATCCTTTGTTTTAATCCGCTC
1 --TACTGTAA-TCTTAGGGAGATAAGATAC-TAGCTTCAATCTGCTC
* * *
31462992 CACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTC
1 TACTGTAATCTTAGGGAGATAAGA-TACTAGCTTCAATCTGCTC
** * *
31463036 CGCTGTAATCTCAAGGAGATAAGAT
1 TACTGTAATCTTAGGGAGATAAGAT
31463061 TTCTGGCTTC
Statistics
Matches: 164, Mismatches: 31, Indels: 33
0.72 0.14 0.14
Matches are distributed among these distances:
43 2 0.01
44 118 0.72
45 5 0.03
46 1 0.01
47 2 0.01
49 3 0.02
51 2 0.01
53 2 0.01
54 28 0.17
55 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (43 bp):
TACTGTAATCTTAGGGAGATAAGATACTAGCTTCAATCTGCTC
Found at i:31462964 original size:142 final size:142
Alignment explanation
Indices: 31462782--31463076 Score: 475
Period size: 142 Copynumber: 2.1 Consensus size: 142
31462772 TGCTGTTGTA
* * * *
31462782 GCTTCAATTTGATGTGATCTATAATACTGTAACTTTAGAGAGATAAGATCCTTTGTTTTAATCTG
1 GCTTCAATCTGATATGATCTATAATACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCG
* * ** *
31462847 CTCTACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTTTGCTGTAATCTCAGGGAG
66 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAG
31462912 ATAAGATTTCTG
131 ATAAGATTTCTG
*
31462924 GCTTCAATCTGATATGATCTACT-ATACTGTAAGTTCAGAGAGATAAGATCCTTTGTTTTAATCC
1 GCTTCAATCTGATATGATCTA-TAATACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCC
31462988 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGA
65 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGA
31463053 GATAAGATTTCTG
130 GATAAGATTTCTG
*
31463066 GCTTCAGTCTG
1 GCTTCAATCTG
31463077 CCACACTGTG
Statistics
Matches: 141, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
142 140 0.99
143 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (142 bp):
GCTTCAATCTGATATGATCTATAATACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCG
CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAG
ATAAGATTTCTG
Found at i:31463070 original size:44 final size:44
Alignment explanation
Indices: 31462983--31463085 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
31462973 CCTTTGTTTT
* * *
31462983 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAAGGAGATAAGATTACTAGCTTC
* * *
31463027 AATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAAGGAGATAAGATTACTAGCTTC
*
31463071 AGTCTGC-CACACTGT
1 AATCTGCTC-CACTGT
31463086 GACCTCAGAG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
43 1 0.02
44 49 0.98
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAAGGAGATAAGATTACTAGCTTC
Found at i:31481072 original size:17 final size:16
Alignment explanation
Indices: 31481040--31481087 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
31481030 ATCATAAATC
*
31481040 TATAATAAATTATTAACA
1 TATAA-AAATTTTTAA-A
31481058 TATAAAAATTTTTAAA
1 TATAAAAATTTTTAAA
*
31481074 TAAAAAAATATTTT
1 TATAAAAAT-TTTT
31481088 TTTAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 9 0.33
17 13 0.48
18 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAAAAATTTTTAAA
Found at i:31487857 original size:44 final size:43
Alignment explanation
Indices: 31487787--31488381 Score: 225
Period size: 44 Copynumber: 13.5 Consensus size: 43
31487777 AGTCCCATCT
* * *
31487787 CCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCA
1 CCCTAAGCAGTAGTGGAGCAGATTGAAGATTG-AGATTCTATCA
* * * * *
31487831 CCCTAAGCAGTAGTGGAGCAAATTGAAGATGGTGAATCTTATCT
1 CCCTAAGCAGTAGTGGAGCAGATTGAAGATTGAGATTC-TATCA
* * * * * * *
31487875 TCCTAAGACAGTGGAGAAGCAGATTTAAGCCATT-AG-TCCTATCT
1 CCCTAAG-CAGTAGTGGAGCAGATTGAAG--ATTGAGATTCTATCA
* * * *
31487919 CCCTAAACAGTAGTGGAGTAGGTTGAAGATTGTAGATTCTGTCA
1 CCCTAAGCAGTAGTGGAGCAGATTGAAGATTG-AGATTCTATCA
* * * * *
31487963 CCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTT
1 CCCTAAGCAGTAGTGGAGCAGATTGAAGATTGAGATTC-TATC-A
* * * * *
31488008 CCC-AAGACAGTGGAGAAGCAGAATT-AAGCCATT-AG-TCCTATCC
1 CCCTAAG-CAGTAGTGGAGCAG-ATTGAAG--ATTGAGATTCTATCA
** * * *
31488051 CCCTAAGCAGTAGTGGAATAGGTCGAAGATTGCAGATTCTGTCA
1 CCCTAAGCAGTAGTGGAGCAGATTGAAGATTG-AGATTCTATCA
* * * * *
31488095 CCCTAAGCAATAGTGGAGCAGATCGAAGATGGTGAATCTTATC-
1 CCCTAAGCAGTAGTGGAGCAGATTGAAGATTGAGATTC-TATCA
** * * * *
31488138 TTCTCAAG-A-TAGTGGAGAAGCATATTTAAGCCATT-AG-TCCTATCT
1 CCCT-AAGCAGTAGT-G-G-AGCAGATTGAAG--ATTGAGATTCTATCA
* * * *
31488183 CCCTAAGCAGTAGTGGAGTAGGTAGAAGATTGCAGATTCTGTCA
1 CCCTAAGCAGTAGTGGAGCAGATTGAAGATTG-AGATTCTATCA
* * * * *
31488227 CCCTAAGCAGTAGTGGAGTAGATTGAAGATGGTGAATCTTATCTT
1 CCCTAAGCAGTAGTGGAGCAGATTGAAGATTGAGATTC-TATC-A
* * *
31488272 CCC-AAG-A-TAGTGGAGAAGCAGATTTAAACCATT-AG-TCCTATCA
1 CCCTAAGCAGTAGT-G-G-AGCAGA-TTGAA-GATTGAGATTCTATCA
* ** * ** *
31488315 CTCTAAGCAGTAGTGGAATAGGTCAAAGATTGTAGATTCTGT-A
1 CCCTAAGCAGTAGTGGAGCAGATTGAAGATTG-AGATTCTATCA
31488358 TCCCTAAGCAGTAGTGGAGCAGAT
1 -CCCTAAGCAGTAGTGGAGCAGAT
31488382 CAAATACGGT
Statistics
Matches: 395, Mismatches: 111, Indels: 90
0.66 0.19 0.15
Matches are distributed among these distances:
41 12 0.03
42 13 0.03
43 73 0.18
44 211 0.53
45 60 0.15
46 18 0.05
47 8 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (43 bp):
CCCTAAGCAGTAGTGGAGCAGATTGAAGATTGAGATTCTATCA
Found at i:31488411 original size:132 final size:132
Alignment explanation
Indices: 31487777--31488413 Score: 1006
Period size: 132 Copynumber: 4.8 Consensus size: 132
31487767 AAAAATAGTA
* *
31487777 AGTCCCATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGT
* * * *
31487842 AGTGGAGCAAATTGAAGATGGTGAATCTTATCTTCCTAAGACAGTGGAGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCA
31487907 TT
131 TT
* * *
31487909 AGTCCTATCTCCCTAAACAGTAGTGGAGTAGGTTGAAGATTGTAGATTCTGTCACCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGT
* *
31487974 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGACAGTGGAGAAGCAGAATTAAGCCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCA
31488039 TT
131 TT
* * *
31488041 AGTCCTATCCCCCTAAGCAGTAGTGGAATAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAAT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGT
* *
31488106 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCTCAAGATAGTGGAGAAGCATATTTAAGCCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCA
31488171 TT
131 TT
*
31488173 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTAGAAGATTGCAGATTCTGTCACCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGT
* * *
31488238 AGTGGAGTAGATTGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCA
31488303 TT
131 TT
* * * * *
31488305 AGTCCTATCACTCTAAGCAGTAGTGGAATAGGTCAAAGATTGTAGATTCTGT-ATCCCTAAGCAG
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCA-CCCTAAGCAG
* * *
31488369 TAGTGGAGCAGATCAAATACGGTGAATCTTATCTTCCCAAGATAG
65 TAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAG
31488414 AAGGGTAGTA
Statistics
Matches: 467, Mismatches: 37, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
131 1 0.00
132 466 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGT
AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCA
TT
Found at i:31490219 original size:12 final size:12
Alignment explanation
Indices: 31490196--31490289 Score: 54
Period size: 12 Copynumber: 8.0 Consensus size: 12
31490186 TTTACATACG
*
31490196 TATATATATATA
1 TATATTTATATA
31490208 CT-TATTTATATA
1 -TATATTTATATA
31490220 TATATTTATATA
1 TATATTTATATA
31490232 -ATAATTT-TA-A
1 TAT-ATTTATATA
* * *
31490242 AATATGTACATA
1 TATATTTATATA
* *
31490254 TGTTTTTATAT-
1 TATATTTATATA
*
31490265 TTTATATTATATA
1 TATAT-TTATATA
*
31490278 TATATGTATATA
1 TATATTTATATA
31490290 CGTGAATACA
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
10 4 0.06
11 11 0.18
12 42 0.68
13 5 0.08
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (12 bp):
TATATTTATATA
Found at i:31490219 original size:16 final size:16
Alignment explanation
Indices: 31490198--31490228 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31490188 TACATACGTA
31490198 TATATATATACTTATT
1 TATATATATACTTATT
*
31490214 TATATATATATTTAT
1 TATATATATACTTAT
31490229 ATAATAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TATATATATACTTATT
Found at i:31490444 original size:8 final size:8
Alignment explanation
Indices: 31490433--31490463 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
31490423 TATATATATC
*
31490433 TTTTATAT
1 TTTTATAG
31490441 TTTTATAG
1 TTTTATAG
31490449 TTTTATAG
1 TTTTATAG
31490457 TTTTATA
1 TTTTATA
31490464 CATTTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (8 bp):
TTTTATAG
Found at i:31508678 original size:13 final size:13
Alignment explanation
Indices: 31508662--31508686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31508652 AAAAGATTTC
31508662 GTGAAAATTTCGT
1 GTGAAAATTTCGT
31508675 GTGAAAATTTCG
1 GTGAAAATTTCG
31508687 ACGTTTGGGA
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:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
GTGAAAATTTCGT
Done.