Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 23 of 199
Found at i:7446645 original size:20 final size:20
Alignment explanation
Indices: 7446625--7446663 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7446615 ATTAATTTTA
7446625 AAAATATT-AAATTTTAATT
1 AAAATATTAAAATTTTAATT
**
7446644 AATTTATTAAAATTTTAATT
1 AAAATATTAAAATTTTAATT
7446664 CATTATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAATATTAAAATTTTAATT
Found at i:7447629 original size:2 final size:2
Alignment explanation
Indices: 7447622--7447650 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7447612 CTCATGCTTT
7447622 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7447651 AATAGACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7454487 original size:9 final size:9
Alignment explanation
Indices: 7454473--7454514 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
7454463 ATTAATTATT
7454473 TTTTAAAAA
1 TTTTAAAAA
7454482 TTTT-AAAA
1 TTTTAAAAA
*
7454490 TTATAAAAA
1 TTTTAAAAA
*
7454499 TTATAAAAA
1 TTTTAAAAA
7454508 -TTTAAAA
1 TTTTAAAA
7454515 GAATATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 13 0.43
9 17 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:7454513 original size:17 final size:16
Alignment explanation
Indices: 7454474--7454514 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
7454464 TTAATTATTT
*
7454474 TTTAAAAATTTTAAAA
1 TTTAAAAATTTAAAAA
7454490 TTATAAAAATTATAAAAA
1 TT-TAAAAATT-TAAAAA
7454508 TTTAAAA
1 TTTAAAA
7454515 GAATATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 13 0.59
18 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TTTAAAAATTTAAAAA
Found at i:7455409 original size:16 final size:16
Alignment explanation
Indices: 7455388--7455418 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7455378 GAATGAAAGA
*
7455388 GGAAAAAAAATAGAAT
1 GGAAAAAAAAAAGAAT
7455404 GGAAAAAAAAAAGAA
1 GGAAAAAAAAAAGAA
7455419 AAAGAAAGGG
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:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (16 bp):
GGAAAAAAAAAAGAAT
Found at i:7459678 original size:92 final size:92
Alignment explanation
Indices: 7459515--7459692 Score: 232
Period size: 92 Copynumber: 1.9 Consensus size: 92
7459505 CAGGGCTTAA
* * *
7459515 TATTCCTGTATTCTCAAGCCCACAACATATGCAGGAGCTCAAAATCTAAACTTGTATTCTCAAGT
1 TATTCCTGTATTCTCAAGCCCACAACATATACAGGAGCTCAAAACCTAAACATGTATTCTCAAGT
*
7459580 CTGCAACATATGCAGAAGCTCAAAACT
66 CCGCAACATATGCAGAAGCTCAAAACT
* * * ** *
7459607 TATTCCTGTATTCTCGAA-TCCACAACATATATAGGAGCTCGAAACCTATTCATGTATTCTCGAG
1 TATTCCTGTATTCTC-AAGCCCACAACATATACAGGAGCTCAAAACCTAAACATGTATTCTCAAG
* *
7459671 TCCGCAACATATGTAGGAGCTC
65 TCCGCAACATATGCAGAAGCTC
7459693 GGAACCTGGG
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
92 71 0.97
93 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (92 bp):
TATTCCTGTATTCTCAAGCCCACAACATATACAGGAGCTCAAAACCTAAACATGTATTCTCAAGT
CCGCAACATATGCAGAAGCTCAAAACT
Found at i:7459699 original size:46 final size:46
Alignment explanation
Indices: 7459515--7459692 Score: 196
Period size: 46 Copynumber: 3.9 Consensus size: 46
7459505 CAGGGCTTAA
* *
7459515 TATTCCTGTATTCTCAAGCCCACAACATATGCAGGAGCTCAAAATC
1 TATTCCTGTATTCTCAAGTCCACAACATATGCAGGAGCTCAAAACC
** * ** * *
7459561 TAAACTTGTATTCTCAAGTCTGCAACATATGCAGAAGCTCAAAACT
1 TATTCCTGTATTCTCAAGTCCACAACATATGCAGGAGCTCAAAACC
** *
7459607 TATTCCTGTATTCTCGAA-TCCACAACATATATAGGAGCTCGAAACC
1 TATTCCTGTATTCTC-AAGTCCACAACATATGCAGGAGCTCAAAACC
* * * *
7459653 TATTCATGTATTCTCGAGTCCGCAACATATGTAGGAGCTC
1 TATTCCTGTATTCTCAAGTCCACAACATATGCAGGAGCTC
7459693 GGAACCTGGG
Statistics
Matches: 107, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
45 1 0.01
46 104 0.97
47 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (46 bp):
TATTCCTGTATTCTCAAGTCCACAACATATGCAGGAGCTCAAAACC
Found at i:7460108 original size:18 final size:20
Alignment explanation
Indices: 7460068--7460109 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
7460058 TTTTTATTTT
*
7460068 ATTTTATACAATTTTCTTAA
1 ATTTTATACAATTTTATTAA
*
7460088 ATTTT-TAC-ATTTTATTCA
1 ATTTTATACAATTTTATTAA
7460106 ATTT
1 ATTT
7460110 AGCCTCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 3 0.15
20 5 0.25
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTATACAATTTTATTAA
Found at i:7470116 original size:2 final size:2
Alignment explanation
Indices: 7470109--7470137 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7470099 ATATCGTAGA
7470109 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7470138 AAAGACTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7487821 original size:25 final size:25
Alignment explanation
Indices: 7487793--7487848 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
7487783 CATCGGATTT
7487793 CTTCAGAGTAAAAGAAATGGGAAGA
1 CTTCAGAGTAAAAGAAATGGGAAGA
*
7487818 CTTCAGTGTAAAAGAAATGGGAAGA
1 CTTCAGAGTAAAAGAAATGGGAAGA
7487843 CTTCAG
1 CTTCAG
7487849 CGTTCGGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.20
Consensus pattern (25 bp):
CTTCAGAGTAAAAGAAATGGGAAGA
Found at i:7489795 original size:29 final size:32
Alignment explanation
Indices: 7489763--7489822 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
7489753 TTTTTGCTTC
7489763 TTTCTTCAATCTAG-CCC-AATTGT-TTCCTT
1 TTTCTTCAATCTAGCCCCAAATTGTATTCCTT
* *
7489792 TTTCTTCTATTTAGCCCCAAATTGTATTCCT
1 TTTCTTCAATCTAGCCCCAAATTGTATTCCT
7489823 GCACAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 12 0.46
30 3 0.12
31 6 0.23
32 5 0.19
ACGTcount: A:0.18, C:0.27, G:0.07, T:0.48
Consensus pattern (32 bp):
TTTCTTCAATCTAGCCCCAAATTGTATTCCTT
Found at i:7490891 original size:18 final size:18
Alignment explanation
Indices: 7490864--7490915 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
7490854 TTTTCCTACA
* *
7490864 AAAATAAAATAAAATAGT
1 AAAATTAAATAAAATAGG
7490882 AAAATTAAATAATAATAGG
1 AAAATTAAATAA-AATAGG
*
7490901 AAAATTAAAAAAAAT
1 AAAATTAAATAAAAT
7490916 TTCTTTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAATTAAATAAAATAGG
Found at i:7506604 original size:20 final size:22
Alignment explanation
Indices: 7506581--7506620 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
7506571 AAATAATACA
7506581 TTAAATTAAA-AAAA-AAACTC
1 TTAAATTAAAGAAAATAAACTC
*
7506601 TTAATTTAAAGAAAATAAAC
1 TTAAATTAAAGAAAATAAAC
7506621 ATAATTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (22 bp):
TTAAATTAAAGAAAATAAACTC
Found at i:7506768 original size:17 final size:17
Alignment explanation
Indices: 7506714--7506769 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
7506704 TTAAGTAATT
* *
7506714 AATATTATGATATATAG
1 AATATTATGATATACAA
* * *
7506731 AATA-TATGAAATTCATT
1 AATATTATGATATACA-A
7506748 AATATTATGATATACAA
1 AATATTATGATATACAA
7506765 AATAT
1 AATAT
7506770 AAAATTTATA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 8 0.27
17 13 0.43
18 9 0.30
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (17 bp):
AATATTATGATATACAA
Found at i:7506775 original size:32 final size:34
Alignment explanation
Indices: 7506711--7506775 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
7506701 CCATTAAGTA
* *
7506711 ATTAATATTATGATATATAGAATATATGAAATTC
1 ATTAATATTATGATATACAGAATATATAAAATTC
7506745 ATTAATATTATGATATACA-AA-ATATAAAATT
1 ATTAATATTATGATATACAGAATATATAAAATT
7506776 TATAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 9 0.31
33 2 0.07
34 18 0.62
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (34 bp):
ATTAATATTATGATATACAGAATATATAAAATTC
Found at i:7507066 original size:31 final size:31
Alignment explanation
Indices: 7507030--7507091 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
7507020 GCACTTTTAT
**
7507030 TTGATCAATTTTAGTCTATATACTTTTCAAA
1 TTGATCAATTTTAACCTATATACTTTTCAAA
*
7507061 TTGATCAATTTTAACCTCTATACTTTTCAAA
1 TTGATCAATTTTAACCTATATACTTTTCAAA
7507092 CAAATTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (31 bp):
TTGATCAATTTTAACCTATATACTTTTCAAA
Found at i:7510127 original size:44 final size:44
Alignment explanation
Indices: 7510062--7510152 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
7510052 TCAGTATAGT
*
7510062 TTCATCAAGATGTTGAGTAAAAGAATAAGATAAAAGATTCAAAC
1 TTCATCAAGATGTTGAGTAAAAGAACAAGATAAAAGATTCAAAC
* * * * * *
7510106 TTCATTAAGATGTTGATTAAAATAACCAGATACAAGATTCAAGC
1 TTCATCAAGATGTTGAGTAAAAGAACAAGATAAAAGATTCAAAC
7510150 TTC
1 TTC
7510153 TAGTTGCAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (44 bp):
TTCATCAAGATGTTGAGTAAAAGAACAAGATAAAAGATTCAAAC
Found at i:7510567 original size:102 final size:102
Alignment explanation
Indices: 7510391--7510587 Score: 376
Period size: 102 Copynumber: 1.9 Consensus size: 102
7510381 TTTCATGAAG
7510391 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
1 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
7510456 ATGCAGTATTTTCAGTAACTATTTCATTCTCCTCAAC
66 ATGCAGTATTTTCAGTAACTATTTCATTCTCCTCAAC
*
7510493 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTTCCCATGCACAA
1 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
*
7510558 ATGCAGTATTTTCAGTACCTATTTCATTCT
66 ATGCAGTATTTTCAGTAACTATTTCATTCT
7510588 TATCATCTTC
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (102 bp):
AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
ATGCAGTATTTTCAGTAACTATTTCATTCTCCTCAAC
Found at i:7513823 original size:21 final size:21
Alignment explanation
Indices: 7513755--7513823 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
7513745 CAAGGCTATT
* *
7513755 AAAATAACATTAATTATATTTTA
1 AAAATAAAATT-ATTATA-TATA
** * *
7513778 AAAATAAAATGTCCTA-AAATT
1 AAAATAAAAT-TATTATATATA
7513799 AAAATAAAATTATTATATATA
1 AAAATAAAATTATTATATATA
7513820 AAAA
1 AAAA
7513824 AACTTAAACT
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.53
22 1 0.03
23 11 0.32
24 1 0.03
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (21 bp):
AAAATAAAATTATTATATATA
Found at i:7519828 original size:314 final size:314
Alignment explanation
Indices: 7519259--7519893 Score: 1261
Period size: 314 Copynumber: 2.0 Consensus size: 314
7519249 TTATTATGTT
7519259 CCCATAAGCCTGGAAAAGTTCCTGATTCTTCACTAAACAAGGCAGCACAAAATAAAAGTTACCAT
1 CCCATAAGCCTGGAAAAGTTCCTGATTCTTCACTAAACAAGGCAGCACAAAATAAAAGTTACCAT
7519324 TGTGCATATATAGAACTGATTTTTTTCGTCTATCTCTACCTTAAGCAAATTGATTTCAATAATAC
66 TGTGCATATATAGAACTGATTTTTTTCGTCTATCTCTACCTTAAGCAAATTGATTTCAATAATAC
7519389 ATTAGAAATTAAAAAAGAAACAAGCTAAAATAGTTGTCTAGTTTGTTCAGAATTTAGATAAAAAA
131 ATTAGAAATTAAAAAAGAAACAAGCTAAAATAGTTGTCTAGTTTGTTCAGAATTTAGATAAAAAA
*
7519454 GGATTTCAAAACTTAGTTATTTACCAGTTTAATTGAATCTCTTTATAAATATTTTTGTTCATCAT
196 GGATTTCAAAACTTAGTTATTTACCAGTTTAATTGAATCTCTTTATAAACATTTTTGTTCATCAT
7519519 ATTGCAGTAATAGTGGAGGTGTAAAATGAAAAACACTTTCCAAACCTAAACAGA
261 ATTGCAGTAATAGTGGAGGTGTAAAATGAAAAACACTTTCCAAACCTAAACAGA
7519573 CCCATAAGCCTGGAAAAGTTCCTGATTCTTCACTAAACAAGGCAGCACAAAATAAAAGTTACCAT
1 CCCATAAGCCTGGAAAAGTTCCTGATTCTTCACTAAACAAGGCAGCACAAAATAAAAGTTACCAT
7519638 TGTGCATATATAGAACTGATTTTTTTCGTCTATCTCTACCTTAAGCAAATTGATTTCAATAATAC
66 TGTGCATATATAGAACTGATTTTTTTCGTCTATCTCTACCTTAAGCAAATTGATTTCAATAATAC
7519703 ATTAGAAATTAAAAAAGAAACAAGCTAAAATAGTTGTCTAGTTTGTTCAGAATTTAGATAAAAAA
131 ATTAGAAATTAAAAAAGAAACAAGCTAAAATAGTTGTCTAGTTTGTTCAGAATTTAGATAAAAAA
7519768 GGATTTCAAAACTTAGTTATTTACCAGTTTAATTGAATCTCTTTATAAACATTTTTGTTCATCAT
196 GGATTTCAAAACTTAGTTATTTACCAGTTTAATTGAATCTCTTTATAAACATTTTTGTTCATCAT
7519833 ATTGCAGTAATAGTGGAGGTGTAAAATGAAAAACACTTTCCAAACCTAAACAGA
261 ATTGCAGTAATAGTGGAGGTGTAAAATGAAAAACACTTTCCAAACCTAAACAGA
7519887 CCCATAA
1 CCCATAA
7519894 ACTTATCCTC
Statistics
Matches: 320, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
314 320 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32
Consensus pattern (314 bp):
CCCATAAGCCTGGAAAAGTTCCTGATTCTTCACTAAACAAGGCAGCACAAAATAAAAGTTACCAT
TGTGCATATATAGAACTGATTTTTTTCGTCTATCTCTACCTTAAGCAAATTGATTTCAATAATAC
ATTAGAAATTAAAAAAGAAACAAGCTAAAATAGTTGTCTAGTTTGTTCAGAATTTAGATAAAAAA
GGATTTCAAAACTTAGTTATTTACCAGTTTAATTGAATCTCTTTATAAACATTTTTGTTCATCAT
ATTGCAGTAATAGTGGAGGTGTAAAATGAAAAACACTTTCCAAACCTAAACAGA
Found at i:7524126 original size:14 final size:15
Alignment explanation
Indices: 7524104--7524180 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
7524094 CAATTAAATA
7524104 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
7524118 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
7524133 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
7524153 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
7524167 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
7524181 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:7524145 original size:20 final size:20
Alignment explanation
Indices: 7524120--7524159 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7524110 AATATTTTCC
*
7524120 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
7524140 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
7524160 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:7524165 original size:34 final size:35
Alignment explanation
Indices: 7524108--7524174 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
7524098 TAAATACCAG
*
7524108 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
7524143 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
7524175 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:7524937 original size:21 final size:21
Alignment explanation
Indices: 7524913--7524952 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7524903 TGTACATGTG
* *
7524913 TTAGTATACTTTGTATAGGAT
1 TTAGAATACTTTATATAGGAT
*
7524934 TTAGAATAGTTTATATAGG
1 TTAGAATACTTTATATAGG
7524953 TTTTTAGGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.45
Consensus pattern (21 bp):
TTAGAATACTTTATATAGGAT
Found at i:7527309 original size:9 final size:9
Alignment explanation
Indices: 7527292--7527328 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
7527282 TGAGTTTTCG
7527292 AATTCGAAT
1 AATTCGAAT
*
7527301 AACTCGAAT
1 AATTCGAAT
*
7527310 AATTTGAAT
1 AATTCGAAT
7527319 AATTCGAAT
1 AATTCGAAT
7527328 A
1 A
7527329 TCAAAGTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7527577 original size:30 final size:31
Alignment explanation
Indices: 7527543--7527602 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
7527533 AAACCTTTTA
*
7527543 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
7527573 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
7527603 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:7529908 original size:11 final size:11
Alignment explanation
Indices: 7529894--7529926 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
7529884 CTCCTCTTCC
7529894 CTTTTTCTTTT
1 CTTTTTCTTTT
7529905 CTTTTTCTTTT
1 CTTTTTCTTTT
*
7529916 TTTTTTCTTTT
1 CTTTTTCTTTT
7529927 GTTAGCCTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:7529910 original size:6 final size:6
Alignment explanation
Indices: 7529894--7529926 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
7529884 CTCCTCTTCC
7529894 CTTTTT C-TTTT CTTTTT CTTTTT -TTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTT
7529927 GTTAGCCTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
CTTTTT
Found at i:7529914 original size:17 final size:17
Alignment explanation
Indices: 7529894--7529926 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7529884 CTCCTCTTCC
7529894 CTTTTTCTTTTCTTTTT
1 CTTTTTCTTTTCTTTTT
*
7529911 CTTTTTTTTTTCTTTT
1 CTTTTTCTTTTCTTTT
7529927 GTTAGCCTGC
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
CTTTTTCTTTTCTTTTT
Found at i:7530481 original size:77 final size:75
Alignment explanation
Indices: 7530355--7530496 Score: 196
Period size: 77 Copynumber: 1.9 Consensus size: 75
7530345 GAATTGATCG
* * * *
7530355 AAAAATCAACAAAAAAATAAAAACTATCAGAATATCAATTGACTACACAAACTCGGAACAAAAAA
1 AAAAATCAACAAAAAAATAAAAAATATCAGAATACCAATTGACCACACAAACTCAGAACAAAAAA
7530420 TAGAAACTCT
66 TAGAAACTCT
* *
7530430 AAAAATCAAC-AAAAAATAGAAACTAATATCAGAATACCAATTGGCCACACAATCTCAGAACAAA
1 AAAAATCAACAAAAAAATA-AAA--AATATCAGAATACCAATTGACCACACAAACTCAGAACAAA
7530494 AAA
63 AAA
7530497 AAATCTTGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
74 8 0.14
75 13 0.22
77 37 0.64
ACGTcount: A:0.58, C:0.18, G:0.07, T:0.16
Consensus pattern (75 bp):
AAAAATCAACAAAAAAATAAAAAATATCAGAATACCAATTGACCACACAAACTCAGAACAAAAAA
TAGAAACTCT
Found at i:7532700 original size:15 final size:16
Alignment explanation
Indices: 7532676--7532711 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
7532666 TATGTTAGCG
7532676 AATA-AAATAAAT-TA
1 AATATAAATAAATATA
7532690 AATATAAATAAATATA
1 AATATAAATAAATATA
7532706 AA-ATAA
1 AATATAA
7532712 TTTATATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 12 0.60
16 4 0.20
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AATATAAATAAATATA
Found at i:7540836 original size:111 final size:111
Alignment explanation
Indices: 7540694--7540926 Score: 448
Period size: 111 Copynumber: 2.1 Consensus size: 111
7540684 AAAGAAGCTT
7540694 CTTGAATATTCATAGATGTAGCTATTTGTTATCGATGGCACTAACATCTAAATAGCTAAATTTCT
1 CTTGAATATTCATAGATGTAGCTATTTGTTATCGATGGCACTAACATCTAAATAGCTAAATTTCT
7540759 ACTGCTTTTACAACCTATGGCATATCTTCTTAATCTTTTCTACTTG
66 ACTGCTTTTACAACCTATGGCATATCTTCTTAATCTTTTCTACTTG
*
7540805 CTTGAATATTCATAGATGTAGCTATTTGTTATCGATGGCACTAACATCTAAATATCTAAATTTCT
1 CTTGAATATTCATAGATGTAGCTATTTGTTATCGATGGCACTAACATCTAAATAGCTAAATTTCT
7540870 ACTGCTTTTACAACCTATGGCATATCTTCTTAATCTTTTCTACTTG
66 ACTGCTTTTACAACCTATGGCATATCTTCTTAATCTTTTCTACTTG
7540916 CTTGAAATATT
1 CTTG-AATATT
7540927 TCCCTAGTAT
Statistics
Matches: 120, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
111 114 0.95
112 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.42
Consensus pattern (111 bp):
CTTGAATATTCATAGATGTAGCTATTTGTTATCGATGGCACTAACATCTAAATAGCTAAATTTCT
ACTGCTTTTACAACCTATGGCATATCTTCTTAATCTTTTCTACTTG
Found at i:7541461 original size:14 final size:14
Alignment explanation
Indices: 7541442--7541471 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7541432 TTTACATGTT
7541442 TAGTTTTTATTTTA
1 TAGTTTTTATTTTA
7541456 TAGTTTTTATTTTA
1 TAGTTTTTATTTTA
7541470 TA
1 TA
7541472 TCTTCTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (14 bp):
TAGTTTTTATTTTA
Found at i:7545984 original size:30 final size:31
Alignment explanation
Indices: 7545929--7546013 Score: 109
Period size: 30 Copynumber: 2.7 Consensus size: 31
7545919 TAATGTTATT
* ** *
7545929 TAATATTAAATTAAATTAAATATTTATCTTTA
1 TAATATTATATT-AATTTGATATTTATCTTGA
7545961 TAATATTAT-TTAATTTGATATTTATCTTGA
1 TAATATTATATTAATTTGATATTTATCTTGA
*
7545991 TAATATTTTATTAATTTGATATT
1 TAATATTATATTAATTTGATATT
7546014 AAGGTGATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
30 24 0.51
31 15 0.32
32 8 0.17
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (31 bp):
TAATATTATATTAATTTGATATTTATCTTGA
Found at i:7546022 original size:30 final size:31
Alignment explanation
Indices: 7545960--7546029 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 31
7545950 ATTTATCTTT
* * *
7545960 ATAATATTAT-TTAATTTGATATTTATCTTG
1 ATAATATTTTATTAATTTGATATTTAACGTG
*
7545990 ATAATATTTTATTAATTTGATA-TTAAGGTG
1 ATAATATTTTATTAATTTGATATTTAACGTG
7546020 ATAA-ATTTTA
1 ATAATATTTTA
7546030 ATCCTTGAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.17
30 18 0.51
31 11 0.31
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.53
Consensus pattern (31 bp):
ATAATATTTTATTAATTTGATATTTAACGTG
Found at i:7546575 original size:5 final size:5
Alignment explanation
Indices: 7546565--7546605 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
7546555 CCCAAGTATT
7546565 CAACC CAACC CAACC CAACC CAATTACC CAACC CAACC CAA
1 CAACC CAACC CAACC CAACC C-A--ACC CAACC CAACC CAA
7546606 TCATAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 27 0.82
6 1 0.03
7 1 0.03
8 4 0.12
ACGTcount: A:0.41, C:0.54, G:0.00, T:0.05
Consensus pattern (5 bp):
CAACC
Found at i:7546585 original size:28 final size:29
Alignment explanation
Indices: 7546542--7546607 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
7546532 TATTCACCTA
**
7546542 AACCCAATCCAAACCCAAGTATTCAACCC
1 AACCCAATCCAAACCCAAGTACCCAACCC
* *
7546571 AACCCAA-CCCAACCCAATTACCCAACCC
1 AACCCAATCCAAACCCAAGTACCCAACCC
7546599 AACCCAATC
1 AACCCAATC
7546608 ATAAAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.41, C:0.47, G:0.02, T:0.11
Consensus pattern (29 bp):
AACCCAATCCAAACCCAAGTACCCAACCC
Found at i:7546593 original size:18 final size:18
Alignment explanation
Indices: 7546572--7546606 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7546562 ATTCAACCCA
7546572 ACCCAACCCAACCCAATT
1 ACCCAACCCAACCCAATT
7546590 ACCCAACCCAACCCAAT
1 ACCCAACCCAACCCAAT
7546607 CATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.51, G:0.00, T:0.09
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:7546723 original size:9 final size:9
Alignment explanation
Indices: 7546709--7546739 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7546699 GTAGTGATTC
7546709 AATTCGGTT
1 AATTCGGTT
*
7546718 AATTCGGGT
1 AATTCGGTT
7546727 AATTCGGTT
1 AATTCGGTT
7546736 AATT
1 AATT
7546740 TTTAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:7548374 original size:13 final size:13
Alignment explanation
Indices: 7548358--7548385 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7548348 TTAATTGGAA
7548358 AATTAATTTAGTT
1 AATTAATTTAGTT
7548371 AATTAATTTAGTT
1 AATTAATTTAGTT
7548384 AA
1 AA
7548386 AGTAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
AATTAATTTAGTT
Found at i:7551429 original size:46 final size:47
Alignment explanation
Indices: 7551327--7551432 Score: 126
Period size: 47 Copynumber: 2.3 Consensus size: 47
7551317 ATATATTTGC
* * * * *
7551327 GTTAAAAATGTGTATTCATCATATCATAATATATTTTTTTCGAGTGT
1 GTTAAAAAGGTGTATTCATCATACCATAATAGATTTTTTTCAAATGT
* *
7551374 GTTAGAAAGGTGTACTT-ATCATACCTTAATAGATTTTTTT-AAATGT
1 GTTAAAAAGGTGTA-TTCATCATACCATAATAGATTTTTTTCAAATGT
7551420 GTTAAAAAGGTGT
1 GTTAAAAAGGTGT
7551433 TTTTGAGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 16 0.32
47 32 0.64
48 2 0.04
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (47 bp):
GTTAAAAAGGTGTATTCATCATACCATAATAGATTTTTTTCAAATGT
Found at i:7553646 original size:9 final size:9
Alignment explanation
Indices: 7553632--7553675 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
7553622 ATACAAATTC
*
7553632 AAAAATAAA
1 AAAAATCAA
*
7553641 AAAAATCAT
1 AAAAATCAA
7553650 AAAAATCAA
1 AAAAATCAA
* *
7553659 AAAAATTAT
1 AAAAATCAA
7553668 AAAAATCA
1 AAAAATCA
7553676 GTTAAGGGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAAATCAA
Found at i:7553674 original size:18 final size:18
Alignment explanation
Indices: 7553632--7553675 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
7553622 ATACAAATTC
*
7553632 AAAAATAAAAAAAATCAT
1 AAAAATCAAAAAAATCAT
*
7553650 AAAAATCAAAAAAATTAT
1 AAAAATCAAAAAAATCAT
7553668 AAAAATCA
1 AAAAATCA
7553676 GTTAAGGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAATCAAAAAAATCAT
Found at i:7557041 original size:9 final size:9
Alignment explanation
Indices: 7557021--7557057 Score: 65
Period size: 9 Copynumber: 4.0 Consensus size: 9
7557011 ATAATTTAAT
7557021 ATAAATAAAA
1 ATAAA-AAAA
7557031 ATAAAAAAA
1 ATAAAAAAA
7557040 ATAAAAAAA
1 ATAAAAAAA
7557049 ATAAAAAAA
1 ATAAAAAAA
7557058 TTATAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 22 0.81
10 5 0.19
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:7557073 original size:18 final size:17
Alignment explanation
Indices: 7557024--7557075 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
7557014 ATTTAATATA
7557024 AATAAAAATAAAAAAAAT
1 AATAAAAAT-AAAAAAAT
*
7557042 AAAAAAAATAAAAAAAT
1 AATAAAAATAAAAAAAT
* * *
7557059 TATAAAATTATAAAAAT
1 AATAAAAATAAAAAAAT
7557076 CAGTTAAGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 21 0.72
18 8 0.28
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAAAAATAAAAAAAT
Found at i:7564651 original size:19 final size:19
Alignment explanation
Indices: 7564624--7564667 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
7564614 AAACTATATA
7564624 TTTTATAATTTATT-TAAAT
1 TTTTATAATTT-TTATAAAT
*
7564643 TTTTGTAATTTTTATAAAT
1 TTTTATAATTTTTATAAAT
7564662 TTTTAT
1 TTTTAT
7564668 TATGTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTTATAAAT
Found at i:7566611 original size:112 final size:111
Alignment explanation
Indices: 7566414--7566742 Score: 518
Period size: 110 Copynumber: 3.0 Consensus size: 111
7566404 GAAATTCGAG
* * * *
7566414 AGGATATTTGGCTATTTGGTTAAACGAGAAATATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* *
7566479 GAATTTCCCAAATGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
66 GAATTTTCCAAACGCAAAACATTGCCTTATTT-GAAAATTTTTTAAA
* * *
7566526 AGGATATTTAGCCATTTGGTTGAACAAGAAAAATCGACACCCAGCACCTTGGGGCACGTTCTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
7566591 GAATTTTCCAAACGCAAAACATTGCCTTATTTGAAAA-TTTTTAAA
66 GAATTTTCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTTAAA
* *
7566636 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGTACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
7566701 -AAATTTCTCAAACGCAAAACATTGCCTTATTTGAAAATTTTT
66 GAATTTTC-CAAACGCAAAACATTGCCTTATTTGAAAATTTTT
7566743 GTTTTTGATG
Statistics
Matches: 200, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
109 6 0.03
110 97 0.49
111 9 0.05
112 88 0.44
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (111 bp):
AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTTCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTTAAA
Found at i:7568075 original size:20 final size:21
Alignment explanation
Indices: 7568037--7568075 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7568027 AACCGAATGA
* *
7568037 AAATAAGAAAAAACGAATCTG
1 AAATAACAAAAAACAAATCTG
7568058 AAATAACAAAAAA-AAATC
1 AAATAACAAAAAACAAATC
7568076 ACCTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.69, C:0.10, G:0.08, T:0.13
Consensus pattern (21 bp):
AAATAACAAAAAACAAATCTG
Found at i:7568836 original size:15 final size:16
Alignment explanation
Indices: 7568813--7568845 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7568803 AGGCTCTTAG
*
7568813 TAAACAAATA-AAAAA
1 TAAAAAAATAGAAAAA
7568828 TAAAAAAATAGAAAAA
1 TAAAAAAATAGAAAAA
7568844 TA
1 TA
7568846 GGGTCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (16 bp):
TAAAAAAATAGAAAAA
Found at i:7570299 original size:16 final size:16
Alignment explanation
Indices: 7570268--7570319 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
7570258 ATTATGCACT
*
7570268 TTTTTTTCTTTA--TA
1 TTTTTTTGTTTATTTA
7570282 TTTTTTTGTTTATTTA
1 TTTTTTTGTTTATTTA
* *
7570298 TTTGTTTGTTGATTTA
1 TTTTTTTGTTTATTTA
7570314 TGTTTT
1 T-TTTT
7570320 CGTATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 11 0.35
16 17 0.55
17 3 0.10
ACGTcount: A:0.12, C:0.02, G:0.10, T:0.77
Consensus pattern (16 bp):
TTTTTTTGTTTATTTA
Found at i:7570515 original size:6 final size:6
Alignment explanation
Indices: 7570504--7570533 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
7570494 TACTCGATTT
7570504 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
7570534 ATTTTCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:7573607 original size:36 final size:36
Alignment explanation
Indices: 7573553--7573624 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
7573543 CGAGTAGGTT
*
7573553 CAGTGACATGTTGATTGGCCTTCCCACTAAAACTAG
1 CAGTGACATATTGATTGGCCTTCCCACTAAAACTAG
* * *
7573589 CAGTGGCATATTGGTTGGCCTTTCCACTAAAACTAG
1 CAGTGACATATTGATTGGCCTTCCCACTAAAACTAG
7573625 AGAAAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (36 bp):
CAGTGACATATTGATTGGCCTTCCCACTAAAACTAG
Found at i:7574912 original size:15 final size:16
Alignment explanation
Indices: 7574892--7574921 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7574882 TATTATTCCA
7574892 TATTTATATT-TATAT
1 TATTTATATTCTATAT
7574907 TATTTATATTCTATA
1 TATTTATATTCTATA
7574922 ATATATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTATATTCTATAT
Found at i:7578434 original size:43 final size:43
Alignment explanation
Indices: 7578370--7578460 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
7578360 CTTTGAGTTC
* * * *
7578370 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTCATTAAGAAAATGCATTATATCTTTT
* *
7578412 ATTACCAAGATTTACTTCATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTCATTAAGAAAATGCATTATATCTTTT
7578455 ATTACC
1 ATTACC
7578461 TTGCAATGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTCATTAAGAAAATGCATTATATCTTTT
Found at i:7582949 original size:19 final size:18
Alignment explanation
Indices: 7582925--7582961 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
7582915 CCAAAATATT
7582925 GAATATGATTAAATAAAAA
1 GAATAT-ATTAAATAAAAA
*
7582944 GAATATTTTAAATAAAAA
1 GAATATATTAAATAAAAA
7582962 CAAAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (18 bp):
GAATATATTAAATAAAAA
Found at i:7588093 original size:18 final size:18
Alignment explanation
Indices: 7588053--7588099 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
7588043 ACTTAATTGG
*
7588053 AAAATTAATTTATCTAAT
1 AAAATTAATTTATCAAAT
*
7588071 TAAATTAATTTAAT-AAAT
1 AAAATTAATTT-ATCAAAT
*
7588089 AAAATTTATTT
1 AAAATTAATTT
7588100 TAGGAAATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATTAATTTATCAAAT
Found at i:7588390 original size:20 final size:20
Alignment explanation
Indices: 7588365--7588402 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7588355 ATAGTGGAAA
7588365 TTTATTTTCTAAGAATAAAT
1 TTTATTTTCTAAGAATAAAT
*
7588385 TTTATTTTCTAGGAATAA
1 TTTATTTTCTAAGAATAA
7588403 CAATTCTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTATTTTCTAAGAATAAAT
Found at i:7590423 original size:17 final size:17
Alignment explanation
Indices: 7590403--7590496 Score: 58
Period size: 17 Copynumber: 5.6 Consensus size: 17
7590393 TAATACTATT
7590403 ATAATATAAATATTAAA
1 ATAATATAAATATTAAA
*
7590420 ATAATATTAAGATTATT-AT
1 ATAATA-TAA-A-TATTAAA
*
7590439 ATAA-AAAAAT-TTAATAA
1 ATAATATAAATATT-A-AA
7590456 ATAA-A-AAATTATT-AA
1 ATAATATAAA-TATTAAA
*
7590471 ATTAT-TAAATATTAAA
1 ATAATATAAATATTAAA
7590487 ATAATATAAA
1 ATAATATAAA
7590497 CCAACCTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 24
0.67 0.06 0.27
Matches are distributed among these distances:
14 2 0.03
15 10 0.17
16 13 0.22
17 19 0.32
18 6 0.10
19 6 0.10
20 4 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (17 bp):
ATAATATAAATATTAAA
Found at i:7590471 original size:15 final size:16
Alignment explanation
Indices: 7590431--7590472 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
7590421 TAATATTAAG
*
7590431 ATTATTATATAAAAAA
1 ATTATTAAATAAAAAA
*
7590447 ATTTAATAAAT-AAAAA
1 A-TTATTAAATAAAAAA
7590463 ATTATTAAAT
1 ATTATTAAAT
7590473 TATTAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 8 0.36
16 7 0.32
17 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTATTAAATAAAAAA
Found at i:7590496 original size:40 final size:43
Alignment explanation
Indices: 7590403--7590496 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 43
7590393 TAATACTATT
*
7590403 ATAATATAAATATTAAAATAATATTAAGATTATTATATAAAAAA
1 ATAATATAAATA-TAAAATAATATTAAGATTATTAAATAAAAAA
* * **
7590447 AT-TTAATAAATA-AAAA-ATTATTAA-ATTATTAAATATTAAA
1 ATAAT-ATAAATATAAAATAATATTAAGATTATTAAATAAAAAA
7590487 ATAATATAAA
1 ATAATATAAA
7590497 CCAACCTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
40 20 0.48
41 8 0.19
42 4 0.10
43 1 0.02
44 9 0.21
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (43 bp):
ATAATATAAATATAAAATAATATTAAGATTATTAAATAAAAAA
Found at i:7593064 original size:4 final size:4
Alignment explanation
Indices: 7593057--7593081 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7593047 AATATGAGTA
7593057 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
7593082 TGTGGGGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:7600248 original size:23 final size:22
Alignment explanation
Indices: 7600206--7600248 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
7600196 CTAGTAATAT
*
7600206 TAATTTATTATTATTATTTAAA
1 TAATTTATTATAATTATTTAAA
7600228 TAATATTATTAATAATT-TTTA
1 TAAT-TTATT-ATAATTATTTA
7600249 TAAGTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 9 0.50
24 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TAATTTATTATAATTATTTAAA
Found at i:7612179 original size:23 final size:23
Alignment explanation
Indices: 7612121--7612179 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
7612111 AAGAGAACAT
*
7612121 AAGTGCTAAATT-AGGAGCACCG
1 AAGTGCTAAATTCAAGAGCACCG
*
7612143 AAGTGC-AAGTTTCAAGAGCACCGG
1 AAGTGCTAA-ATTCAAGAGCACC-G
7612167 AA-TGCTAAATTCA
1 AAGTGCTAAATTCA
7612180 TGAACGCGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 15 0.50
24 5 0.17
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (23 bp):
AAGTGCTAAATTCAAGAGCACCG
Found at i:7612764 original size:54 final size:54
Alignment explanation
Indices: 7612682--7612790 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
7612672 ATAATCAAAG
7612682 TAAACATGCAACTATCACTAAAGCATGAAGATCTTACCTTAAAGCCTTAGTTAA
1 TAAACATGCAACTATCACTAAAGCATGAAGATCTTACCTTAAAGCCTTAGTTAA
7612736 TAAACATGCAACTATCACTAAAGCATGAAGATCTTACCTTAAAGCCTTAGTTAA
1 TAAACATGCAACTATCACTAAAGCATGAAGATCTTACCTTAAAGCCTTAGTTAA
7612790 T
1 T
7612791 CACATTATCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.28
Consensus pattern (54 bp):
TAAACATGCAACTATCACTAAAGCATGAAGATCTTACCTTAAAGCCTTAGTTAA
Found at i:7613245 original size:17 final size:17
Alignment explanation
Indices: 7613225--7613258 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7613215 AAAAAAATTT
7613225 TATTCGTCATCATTATC
1 TATTCGTCATCATTATC
7613242 TATTCGTCATCATTATC
1 TATTCGTCATCATTATC
7613259 CACTAGATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.47
Consensus pattern (17 bp):
TATTCGTCATCATTATC
Found at i:7619248 original size:16 final size:17
Alignment explanation
Indices: 7619219--7619251 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
7619209 AGAAAGATGA
7619219 GTGGGTTGGATTTGATT
1 GTGGGTTGGATTTGATT
7619236 GTGGGTT-GATTTGATT
1 GTGGGTTGGATTTGATT
7619252 AGAGTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.12, C:0.00, G:0.39, T:0.48
Consensus pattern (17 bp):
GTGGGTTGGATTTGATT
Found at i:7626386 original size:24 final size:26
Alignment explanation
Indices: 7626337--7626386 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 26
7626327 CAATCCCAAG
*
7626337 TTTGACATTTCAAAGTGCTGTTGCAT
1 TTTGACATTTCAAAGTGCTGTAGCAT
7626363 TTTGAC-TTT-AAAGCTGCT-TAGCAT
1 TTTGACATTTCAAAG-TGCTGTAGCAT
7626387 CTCATGATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 9 0.41
25 7 0.32
26 6 0.27
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (26 bp):
TTTGACATTTCAAAGTGCTGTAGCAT
Found at i:7630480 original size:3 final size:3
Alignment explanation
Indices: 7630472--7630504 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
7630462 ATCTACCAGG
*
7630472 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7630505 GTATCTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7633891 original size:23 final size:23
Alignment explanation
Indices: 7633857--7633905 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
7633847 AATTAAAAAG
*
7633857 ATGAAAGAATATTAGCTATTATT
1 ATGAAAGAATATTAGCTATCATT
*
7633880 ATGAAAGCATATTAGCTATCATT
1 ATGAAAGAATATTAGCTATCATT
7633903 ATG
1 ATG
7633906 TTGTTTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (23 bp):
ATGAAAGAATATTAGCTATCATT
Found at i:7633995 original size:9 final size:9
Alignment explanation
Indices: 7633983--7634014 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
7633973 ACAAATATTA
7633983 AAAATAAAC
1 AAAATAAAC
7633992 AAAATAAAC
1 AAAATAAAC
*
7634001 AAAGTAAAC
1 AAAATAAAC
7634010 AAAAT
1 AAAAT
7634015 GCACCAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.75, C:0.09, G:0.03, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:7638364 original size:23 final size:23
Alignment explanation
Indices: 7638334--7638382 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
7638324 AATTAAAAAG
*
7638334 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
7638357 ATGAAAGCATATTAGCTATCATT
1 ATGAAAGCATATTAGCTATCATT
7638380 ATG
1 ATG
7638383 TTGTTTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:7638472 original size:9 final size:9
Alignment explanation
Indices: 7638460--7638491 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
7638450 ACAAATATTA
7638460 AAAATAAAC
1 AAAATAAAC
7638469 AAAATAAAC
1 AAAATAAAC
7638478 AAAATAAAC
1 AAAATAAAC
7638487 AAAAT
1 AAAAT
7638492 GCACCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:7640132 original size:18 final size:18
Alignment explanation
Indices: 7640109--7640149 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
7640099 ATTTATTTAA
* * *
7640109 AAAATCGTAAAATATTAT
1 AAAATCATAAAAAATTAC
7640127 AAAATCATAAAAAATTAC
1 AAAATCATAAAAAATTAC
7640145 AAAAT
1 AAAAT
7640150 AAATAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAATCATAAAAAATTAC
Found at i:7640199 original size:31 final size:31
Alignment explanation
Indices: 7640164--7640222 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
7640154 AGAAATAAAG
* *
7640164 AAAAAAA-ATTATAATTTTTTATAAAATCGTA
1 AAAAAAATATTATAA-ATATTATAAAATCGTA
7640195 AAAAAAATATTATAAATATTATAAAATC
1 AAAAAAATATTATAAATATTATAAAATC
7640223 AAGTAGAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (31 bp):
AAAAAAATATTATAAATATTATAAAATCGTA
Found at i:7644677 original size:21 final size:21
Alignment explanation
Indices: 7644644--7644724 Score: 94
Period size: 21 Copynumber: 3.7 Consensus size: 21
7644634 GGATATAATA
7644644 ATTTTTATAAATTTTTTTCAGG
1 ATTTTTAT-AATTTTTTTCAGG
*
7644666 ATTTTTATAATTTTCTTTTACA-A
1 ATTTTTATAA-TTT-TTTT-CAGG
7644689 ATTTTTATAATTTTTTT-AGG
1 ATTTTTATAATTTTTTTCAGG
7644709 ATATTTTATAATTTTT
1 AT-TTTTATAATTTTT
7644725 GCAATTTTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.02
20 2 0.04
21 19 0.37
22 14 0.27
23 14 0.27
24 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (21 bp):
ATTTTTATAATTTTTTTCAGG
Found at i:7644800 original size:9 final size:9
Alignment explanation
Indices: 7644788--7644818 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
7644778 TTTTAATATT
7644788 TTTTATAAC
1 TTTTATAAC
7644797 TTTTATAAC
1 TTTTATAAC
7644806 TTTTATAAC
1 TTTTATAAC
7644815 TTTT
1 TTTT
7644819 TTATTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTATAAC
Found at i:7644827 original size:18 final size:18
Alignment explanation
Indices: 7644772--7644827 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
7644762 TCTATAAACA
7644772 ATAACTTTTTAATATTTTTT
1 ATAACTTTTT--TATTTTTT
* **
7644792 ATAACTTTTATAACTTTT
1 ATAACTTTTTTATTTTTT
7644810 ATAACTTTTTTATTTTTT
1 ATAACTTTTTTATTTTTT
7644828 TATCTTTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 21 0.70
20 9 0.30
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (18 bp):
ATAACTTTTTTATTTTTT
Found at i:7646290 original size:30 final size:29
Alignment explanation
Indices: 7646256--7646388 Score: 167
Period size: 30 Copynumber: 4.4 Consensus size: 29
7646246 AATCTTAGCT
7646256 TTTTCCACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACA-C
7646286 TTTTCCACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACA-C
*
7646316 TTTTCCACCACCAAATCCACTAGCCACAC
1 TTTTCCACCACCAACTCCACTAGCCACAC
* ** * *
7646345 TTGCTCCATTACCTACTCCACTAACCACAC
1 TT-TTCCACCACCAACTCCACTAGCCACAC
*
7646375 TTGCTCCACCACCA
1 TT-TTCCACCACCA
7646389 CTTGTACCTA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 3 0.03
30 89 0.97
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (29 bp):
TTTTCCACCACCAACTCCACTAGCCACAC
Found at i:7646292 original size:18 final size:18
Alignment explanation
Indices: 7646271--7646323 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
7646261 CACCACCAAC
7646271 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
*
7646289 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
7646301 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
7646319 TCCAC
1 TCCAC
7646324 CACCAAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 6 0.22
13 3 0.11
14 1 0.04
15 2 0.07
16 1 0.04
17 3 0.11
18 11 0.41
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.23
Consensus pattern (18 bp):
TCCACTAGCCACACCTTT
Found at i:7646970 original size:25 final size:25
Alignment explanation
Indices: 7646942--7647098 Score: 77
Period size: 25 Copynumber: 6.1 Consensus size: 25
7646932 ATATTACGTA
* *
7646942 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
7646967 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
* * ** *
7646992 TATATTTTTTTTTCTAC-ATGTTATCT
1 TATA-TATATTTAATACTATATTAT-T
*
7647018 TATGTATATATCTT-A-ACTATATTATG
1 TA--TATATAT-TTAATACTATATTATT
* * * *
7647044 TATGTATTTTTAACACTATATTATG
1 TATATATATTTAATACTATATTATT
* * *
7647069 TACATATTTTTAATATTATCATGTATT
1 TATATATATTTAATACTAT-AT-TATT
7647096 TAT
1 TAT
7647099 TTTTTATATA
Statistics
Matches: 99, Mismatches: 23, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
23 2 0.02
24 6 0.06
25 57 0.58
26 16 0.16
27 14 0.14
28 4 0.04
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:7647099 original size:23 final size:24
Alignment explanation
Indices: 7647019--7647109 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
7647009 ATGTTATCTT
*
7647019 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
7647041 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
7647066 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
7647089 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
7647110 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:7647256 original size:16 final size:14
Alignment explanation
Indices: 7647237--7647270 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
7647227 TATTATTCTA
7647237 ATATTTTGATATTTT
1 ATATTTT-ATATTTT
7647252 GATATTTTATATTTT
1 -ATATTTTATATTTT
7647267 ATAT
1 ATAT
7647271 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:7647265 original size:7 final size:8
Alignment explanation
Indices: 7647237--7647270 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
7647227 TATTATTCTA
7647237 ATATTTTG
1 ATATTTTG
7647245 ATATTTTG
1 ATATTTTG
7647253 ATATTTT-
1 ATATTTTG
7647260 ATATTTT-
1 ATATTTTG
7647267 ATAT
1 ATAT
7647271 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:7647272 original size:16 final size:15
Alignment explanation
Indices: 7647237--7647277 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
7647227 TATTATTCTA
7647237 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
*
7647253 ATATTTTATATTTTAT
1 ATATTTTATATTTT-G
7647269 ATATTTTAT
1 ATATTTTAT
7647278 TATTCCCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:7648899 original size:2 final size:2
Alignment explanation
Indices: 7648892--7648922 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7648882 ACATGCATGA
7648892 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7648923 AAACTTGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7651425 original size:23 final size:22
Alignment explanation
Indices: 7651373--7651425 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
7651363 TCCACGTCTT
*
7651373 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
7651395 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
7651418 TTTCTTTT
1 TTTCTTTT
7651426 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:7657907 original size:21 final size:21
Alignment explanation
Indices: 7657881--7657921 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7657871 ATCTGCTCAA
* *
7657881 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
7657902 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
7657922 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:7669607 original size:20 final size:21
Alignment explanation
Indices: 7669582--7669620 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
7669572 GATAAATAAT
7669582 TATAATGCATTTAT-TGTTAC
1 TATAATGCATTTATGTGTTAC
*
7669602 TATAATGTATTTATGTGTT
1 TATAATGCATTTATGTGTT
7669621 TAAATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (21 bp):
TATAATGCATTTATGTGTTAC
Found at i:7678375 original size:24 final size:24
Alignment explanation
Indices: 7678339--7678392 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
7678329 TCTTTCTAGA
* * *
7678339 ATATTTAGTATTTATGAGTATACT
1 ATATTTAGCATTTATGAGCATAAT
*
7678363 ATATTTAGCATTTATTAGCATAAT
1 ATATTTAGCATTTATGAGCATAAT
7678387 ATATTT
1 ATATTT
7678393 GACTTTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (24 bp):
ATATTTAGCATTTATGAGCATAAT
Found at i:7679440 original size:19 final size:19
Alignment explanation
Indices: 7679416--7679464 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
7679406 ACAAAACAAG
*
7679416 ATCAAAGGGGAGGCTGTGA
1 ATCAAAAGGGAGGCTGTGA
7679435 ATCAAAAGGGAGGCTGTGA
1 ATCAAAAGGGAGGCTGTGA
7679454 ATCAAAAGGGA
1 ATCAAAAGGGA
7679465 AAACAACTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.39, C:0.10, G:0.37, T:0.14
Consensus pattern (19 bp):
ATCAAAAGGGAGGCTGTGA
Found at i:7682352 original size:50 final size:49
Alignment explanation
Indices: 7682297--7682425 Score: 127
Period size: 50 Copynumber: 2.6 Consensus size: 49
7682287 CATTGAGATT
*
7682297 ATGAGAGGTCTCATGAAAGACCATGTCTGGGACATGGCGT-TGGCACCGAG
1 ATGAGAGGTCTCATG-AAGACCATGTCTGGGACATGGCATGT-GCACCGAG
* * * *
7682347 ATGAGAGGTCCCCCAT-AAGACAATGTCTAGGACATGGCATGTGCACCGAT
1 ATGAGAGGT--CTCATGAAGACCATGTCTGGGACATGGCATGTGCACCGAG
** *
7682397 ATGAGAACTCTCATGTAAGACCATATCTG
1 ATGAGAGGTCTCATG-AAGACCATGTCTG
7682426 AGATATGACA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
48 4 0.06
50 54 0.86
51 1 0.02
52 4 0.06
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (49 bp):
ATGAGAGGTCTCATGAAGACCATGTCTGGGACATGGCATGTGCACCGAG
Found at i:7688650 original size:20 final size:21
Alignment explanation
Indices: 7688625--7688663 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7688615 GGCTGAACAG
*
7688625 GTTGCAGCA-TTGAAGCAGAA
1 GTTGCAGAACTTGAAGCAGAA
7688645 GTTGCAGAACTTGAAGCAG
1 GTTGCAGAACTTGAAGCAG
7688664 CCTACACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (21 bp):
GTTGCAGAACTTGAAGCAGAA
Found at i:7689731 original size:18 final size:18
Alignment explanation
Indices: 7689708--7689750 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7689698 ACCCAATCTA
**
7689708 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
7689726 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
7689744 AACCCAA
1 AACCCAA
7689751 CCCAATCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:7689880 original size:9 final size:9
Alignment explanation
Indices: 7689863--7689938 Score: 109
Period size: 9 Copynumber: 8.4 Consensus size: 9
7689853 GTAGTGATTA
*
7689863 AATTTGGTT
1 AATTCGGTT
7689872 AATTCGGTT
1 AATTCGGTT
7689881 AATTCGGTT
1 AATTCGGTT
7689890 AATTCAGG-T
1 AATTC-GGTT
7689899 AATTCGGTT
1 AATTCGGTT
*
7689908 AATTCGGGT
1 AATTCGGTT
*
7689917 AATTTGGTT
1 AATTCGGTT
7689926 AATTCGGTT
1 AATTCGGTT
7689935 AATT
1 AATT
7689939 AAGTTAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
8 2 0.03
9 56 0.93
10 2 0.03
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:7689948 original size:27 final size:27
Alignment explanation
Indices: 7689863--7689948 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
7689853 GTAGTGATTA
7689863 AATTTGGTTAATTCGGTTAATTCGGTT
1 AATTTGGTTAATTCGGTTAATTCGGTT
* *
7689890 AATTCAGG-TAATTCGGTTAATTCGGGT
1 AATT-TGGTTAATTCGGTTAATTCGGTT
**
7689917 AATTTGGTTAATTCGGTTAATTAAGTT
1 AATTTGGTTAATTCGGTTAATTCGGTT
7689944 AATTT
1 AATTT
7689949 TTAACCAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
26 2 0.04
27 47 0.92
28 2 0.04
ACGTcount: A:0.27, C:0.07, G:0.21, T:0.45
Consensus pattern (27 bp):
AATTTGGTTAATTCGGTTAATTCGGTT
Found at i:7701148 original size:91 final size:91
Alignment explanation
Indices: 7701022--7701229 Score: 294
Period size: 91 Copynumber: 2.3 Consensus size: 91
7701012 TTGATTTTAG
* *
7701022 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCA-CTATTAAATTA
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATC-ATTAAATTA
* *
7701086 TATTTAAT-ATTAATTATTTTAAATTGTA
64 TATGTAATAATT-ATTATTTTAAATTATA
*
7701114 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATCATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATCATTAAATTATA
7701179 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
7701205 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
7701230 GTTATAATTA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
91 85 0.81
92 20 0.19
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATCATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:7701405 original size:15 final size:15
Alignment explanation
Indices: 7701370--7701421 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7701360 TTAAGAATTT
*
7701370 TATTAAATTAT-ATA
1 TATTTAATTATAATA
7701384 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
7701398 TATTTAATAATAAT-
1 TATTTAATTATAATA
7701412 TATGTTAATT
1 TAT-TTAATT
7701422 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:7701517 original size:16 final size:16
Alignment explanation
Indices: 7701498--7701539 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7701488 TTATTAAATT
*
7701498 ATATATTTTAATTATA
1 ATATATTTTAATAATA
7701514 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
7701529 AT-TATGTTTAA
1 ATATAT-TTTAA
7701540 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:7701524 original size:15 final size:15
Alignment explanation
Indices: 7701489--7701530 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7701479 CTTAAGAATT
*
7701489 TATTAAATTAT-ATA
1 TATTTAATTATAATA
7701503 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
7701517 TATTTAATAATAAT
1 TATTTAATTATAAT
7701531 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:7701529 original size:119 final size:120
Alignment explanation
Indices: 7701245--7701541 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
7701235 AATTATTTTA
* * * *
7701245 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTATTT
*
7701309 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
7701365 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TATTT
* *
7701429 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGATTATTAATTCTTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
7701485 AA-TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
7701542 ATGATTAAAT
Statistics
Matches: 166, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
119 53 0.32
120 108 0.65
121 5 0.03
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:7701710 original size:39 final size:40
Alignment explanation
Indices: 7701667--7701771 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
7701657 TTCCATTATG
7701667 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
7701706 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
7701751 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
7701772 ACACCTTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:7701765 original size:45 final size:44
Alignment explanation
Indices: 7701665--7701774 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
7701655 TTTTCCATTA
7701665 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
7701704 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
7701749 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
7701775 CCTTTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:7727085 original size:13 final size:13
Alignment explanation
Indices: 7727067--7727091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7727057 GTTATAGAGG
7727067 ATAAAAATAAAAC
1 ATAAAAATAAAAC
7727080 ATAAAAATAAAA
1 ATAAAAATAAAA
7727092 AAATTCTATA
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAAATAAAAC
Found at i:7730472 original size:59 final size:61
Alignment explanation
Indices: 7730401--7730517 Score: 141
Period size: 59 Copynumber: 1.9 Consensus size: 61
7730391 AAGGGGCTTA
***
7730401 AAAAGTTATTTTTTTTAACTTTTAAAGG-TTAAAAAAAATTT-A-CTAACTTTTAAGGGTCC
1 AAAAGTTATTTTTACCAACTTTTAAAGGATTAAAAAAAATTTCATC-AACTTTTAAGGGTCC
* * *
7730460 AAAAGTTTTTTTTACCAATTTTTAAGGGACTTAAAAAAAATTTCATCAACTTTTAAGG
1 AAAAGTTATTTTTACCAACTTTTAAAGGA-TTAAAAAAAATTTCATCAACTTTTAAGG
7730518 AACCTAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
59 22 0.46
61 13 0.27
62 12 0.25
63 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.41
Consensus pattern (61 bp):
AAAAGTTATTTTTACCAACTTTTAAAGGATTAAAAAAAATTTCATCAACTTTTAAGGGTCC
Found at i:7730848 original size:49 final size:51
Alignment explanation
Indices: 7730752--7730879 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 51
7730742 TCGAAAGTTT
* *
7730752 TTTTTCGTGAAAGGAAATGAAAAGTTTTTTTGAAGCTTGAAAATTTTAGGG
1 TTTTTCGTGAAAAGAAATGAAAAGTTTTTTTGAAGCCTGAAAATTTTAGGG
* *
7730803 TTTTT-GTGAAAAGAAAT-AAAAGGTTTTTTT-AAGCCTGAAAGTTTTA-AG
1 TTTTTCGTGAAAAGAAATGAAAA-GTTTTTTTGAAGCCTGAAAATTTTAGGG
* * * * *
7730851 ATTATCCTGAAAGGAAATGAAAGGTTTTT
1 TTTTTCGTGAAAAGAAATGAAAAGTTTTT
7730880 CTTCTTAGAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
48 4 0.06
49 34 0.52
50 22 0.34
51 5 0.08
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (51 bp):
TTTTTCGTGAAAAGAAATGAAAAGTTTTTTTGAAGCCTGAAAATTTTAGGG
Found at i:7738999 original size:31 final size:29
Alignment explanation
Indices: 7738963--7739040 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 29
7738953 GAATTTTGAA
7738963 ATTTTGATTTATATTTTTAAGATTA-TTTTT
1 ATTTTGATTTATATTTTTAA-A-TAGTTTTT
7738993 ATTTTTGATTCT-TAATTTTTAAATAGTTTTT
1 A-TTTTGATT-TAT-ATTTTTAAATAGTTTTT
7739024 ATTTTG-TTTAT-TTTTTA
1 ATTTTGATTTATATTTTTA
7739041 GTTTTAAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
27 6 0.14
28 1 0.02
29 3 0.07
30 8 0.19
31 16 0.37
32 9 0.21
ACGTcount: A:0.24, C:0.01, G:0.06, T:0.68
Consensus pattern (29 bp):
ATTTTGATTTATATTTTTAAATAGTTTTT
Found at i:7740596 original size:22 final size:20
Alignment explanation
Indices: 7740571--7740611 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
7740561 ATAATTATTT
*
7740571 TAAATTTTTTATGATGTAAAAA
1 TAAATATTTTAT-AT-TAAAAA
7740593 TAAATATTTTATATTAAAA
1 TAAATATTTTATATTAAAA
7740612 TAGTGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
TAAATATTTTATATTAAAAA
Found at i:7751538 original size:25 final size:24
Alignment explanation
Indices: 7751497--7751579 Score: 91
Period size: 25 Copynumber: 3.5 Consensus size: 24
7751487 GGATTAGACA
*
7751497 TAAAAC-TAGAATTAGACTTAAGTT
1 TAAAACTTAGGATTAGACTTAAG-T
7751521 TAAAACTTAGGATTAGACTTAAGT
1 TAAAACTTAGGATTAGACTTAAGT
* *
7751545 TAAGAGCTTAGGATTAGA-TTTAG-
1 TAA-AACTTAGGATTAGACTTAAGT
*
7751568 TCAAACTTAGGA
1 TAAAACTTAGGA
7751580 CTTAAAACTC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
22 8 0.15
23 2 0.04
24 14 0.27
25 28 0.54
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (24 bp):
TAAAACTTAGGATTAGACTTAAGT
Found at i:7757349 original size:11 final size:10
Alignment explanation
Indices: 7757326--7757355 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
7757316 TTCACTGGCA
7757326 TCTTTCTTTT
1 TCTTTCTTTT
7757336 TCTTTCTCTTT
1 TCTTTCT-TTT
7757347 TCTTTCTTT
1 TCTTTCTTT
7757356 GTGGATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
TCTTTCTTTT
Found at i:7760739 original size:3 final size:3
Alignment explanation
Indices: 7760731--7760761 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7760721 ATATCAGTCA
7760731 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
7760762 GAACTTGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:7784047 original size:52 final size:52
Alignment explanation
Indices: 7783985--7784088 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
7783975 GCAAAGTTAG
*
7783985 AACATATTTAGGTTCTGTTGTGCAAGTTCTTTCTTGGGAAAGAGG-TAGAGAC
1 AACATATTTAGGTTCTATTGTGCAAGTTCTTTCTTGGGAAAG-GGATAGAGAC
7784037 AACATATTTAGGTTCTATTGTGCAAGTTCTTTCTTGGGAAAGGGATAGAGAC
1 AACATATTTAGGTTCTATTGTGCAAGTTCTTTCTTGGGAAAGGGATAGAGAC
7784089 TTTTGACCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 2 0.04
52 48 0.96
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.35
Consensus pattern (52 bp):
AACATATTTAGGTTCTATTGTGCAAGTTCTTTCTTGGGAAAGGGATAGAGAC
Found at i:7789460 original size:15 final size:15
Alignment explanation
Indices: 7789440--7789469 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7789430 TTTGGTACTC
7789440 GTGGATTATATGCTT
1 GTGGATTATATGCTT
7789455 GTGGATTATATGCTT
1 GTGGATTATATGCTT
7789470 CGACGTACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (15 bp):
GTGGATTATATGCTT
Found at i:7790647 original size:26 final size:27
Alignment explanation
Indices: 7790609--7790659 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
7790599 TTTTTATACA
7790609 TTTTTACTATTTG-ATAATATTTAATAT
1 TTTTTACTATTTGAATAA-ATTTAATAT
*
7790636 TTTTTA-TTTTTGAATAAATTTAAT
1 TTTTTACTATTTGAATAAATTTAAT
7790660 TCAAAAGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTTTACTATTTGAATAAATTTAATAT
Found at i:7796435 original size:24 final size:25
Alignment explanation
Indices: 7796404--7796460 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
7796394 AACAAATTTG
7796404 AAATTAAAAT-ATTG-AAATATTCAA
1 AAATTAAAATGATTGAAAAT-TTCAA
*
7796428 AAATTAAAGTGATTGAAAATTTCAA
1 AAATTAAAATGATTGAAAATTTCAA
7796453 ATAATTAA
1 A-AATTAA
7796461 TGAGGTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 9 0.31
25 10 0.34
26 10 0.34
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (25 bp):
AAATTAAAATGATTGAAAATTTCAA
Found at i:7800637 original size:27 final size:27
Alignment explanation
Indices: 7800596--7800656 Score: 113
Period size: 27 Copynumber: 2.2 Consensus size: 27
7800586 TGCACTCTAG
7800596 AGATCAACTTCCTAGGCATGCACTTGAA
1 AGAT-AACTTCCTAGGCATGCACTTGAA
7800624 AGATAACTTCCTAGGCATGCACTTGAA
1 AGATAACTTCCTAGGCATGCACTTGAA
7800651 AGATAA
1 AGATAA
7800657 ATAGTACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (27 bp):
AGATAACTTCCTAGGCATGCACTTGAA
Found at i:7806958 original size:22 final size:22
Alignment explanation
Indices: 7806900--7806961 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 22
7806890 TAAGTTTTTG
*
7806900 AACATTTG--AATTTTTTATAT
1 AACATTTGATAATTTTTTACAT
**
7806920 ATAC-TTTAGATTTTTTTTTACAT
1 A-ACATTT-GATAATTTTTTACAT
7806943 AACATTTGATAATTTTTTA
1 AACATTTGATAATTTTTTA
7806962 TAATTTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 12 0.38
23 13 0.41
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (22 bp):
AACATTTGATAATTTTTTACAT
Found at i:7808976 original size:16 final size:16
Alignment explanation
Indices: 7808929--7808978 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
7808919 ACAAATCTTT
*
7808929 TATATT-TATAATATAA
1 TATATTATATAAT-TTA
*
7808945 TATATTAT-TACTTTTA
1 TATATTATATA-ATTTA
7808961 TATATTATATAATTTA
1 TATATTATATAATTTA
7808977 TA
1 TA
7808979 ACACAAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 24 0.86
17 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TATATTATATAATTTA
Found at i:7819692 original size:14 final size:14
Alignment explanation
Indices: 7819673--7819699 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7819663 AATTTTTTAA
7819673 ATTTTTTTAATATT
1 ATTTTTTTAATATT
7819687 ATTTTTTTAATAT
1 ATTTTTTTAATAT
7819700 AATTAGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTTTAATATT
Found at i:7832015 original size:50 final size:50
Alignment explanation
Indices: 7831520--7832049 Score: 228
Period size: 50 Copynumber: 10.7 Consensus size: 50
7831510 GGAACAGTCG
* * * *
7831520 GAAGCTACAACAACGAATCTCATTTCCCCGACATTGCAATTTG-AA-AGATC
1 GAAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAA--TGAAATAGATT
* * * * * * ** * *
7831570 GAAGCCACAACGGCGAATCTTACTT-TCAGGCGA-TGCAGCGGAACAGATT
1 GAAGCTACAACAGCGAATCTCACTTCCCTGAC-ATTGCAATGAAATAGATT
* *
7831619 GAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTG-AA-AGATC
1 GAAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAA--TGAAATAGATT
* ** * * * * ** * * *
7831669 GAAGCCACAATGGTGAATCTTACTT-CCAGGCGA-TGCAGCGGAACATATT
1 GAAGCTACAACAGCGAATCTCACTTCCCTGAC-ATTGCAATGAAATAGATT
* * * *
7831718 GAAGCTACAACAACGAATCTTACTTCCCCGACATTGCAATTTGAAA-A-ATC
1 GAAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAA--TGAAATAGATT
* ** * * * * * * ** * *
7831768 GAAGCCACAATGGCGAATCTTA-TTTCCAGGCAATACAGCGGAACAGATT
1 GAAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAATGAAATAGATT
* * *
7831817 GAAGCTACAACAGCGAATCTCACTTCCCCGACATTACAATTTG-AA-AGATC
1 GAAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAA--TGAAATAGATT
* * * * * ** *
7831867 GAAGCCACAACGGCGAATCTTACTT-CCAGGCGA-TGCAGCGGAATAGATT
1 GAAGCTACAACAGCGAATCTCACTTCCCTGAC-ATTGCAATGAAATAGATT
* *
7831916 GAAGCTACAACAGCGAATCTCACTTTCCC-GACATTGCAATTAAAAAGATT
1 GAAGCTACAACAGCGAATCTCAC-TTCCCTGACATTGCAATGAAATAGATT
* * ** *
7831966 GAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAATGAAATAGATT
1 GAAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAATGAAATAGATT
* * * * *
7832016 AAAGCTACGACGGCGAATCTAATTTCCCTGACAT
1 GAAGCTACAACAGCGAATCTCACTTCCCTGACAT
7832050 CACAGTTAAA
Statistics
Matches: 355, Mismatches: 99, Indels: 52
0.70 0.20 0.10
Matches are distributed among these distances:
47 6 0.02
48 7 0.02
49 133 0.37
50 197 0.55
51 7 0.02
52 5 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (50 bp):
GAAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAATGAAATAGATT
Found at i:7832043 original size:99 final size:99
Alignment explanation
Indices: 7831455--7831992 Score: 794
Period size: 99 Copynumber: 5.4 Consensus size: 99
7831445 AAACCATAGT
* * * *
7831455 TTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTT-CTGGCGATGCAGTGGAACAG-T
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGAT
* * *
7831518 CGGAAGCTACAACAACGAATCTCATTTCCCCGACA
66 -TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* *
7831553 TTGCAATTTGAAAGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAGCGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGAT
7831618 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * *
7831652 TTGCAATTTGAAAGATCGAAGCCACAATGGTGAATCTTACTTCCAGGCGATGCAGCGGAACATAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGAT
* *
7831717 TGAAGCTACAACAACGAATCTTACTTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * *
7831751 TTGCAATTTGAAAA-ATCGAAGCCACAATGGCGAATCTTATTTCCAGGCAATACAGCGGAACAGA
1 TTGCAATTT-AAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
7831815 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * *
7831850 TTACAATTTGAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAATAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGAT
*
7831915 TGAAGCTACAACAGCGAATCTCACTTTCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * *
7831949 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCC
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCC
7831993 CTGGCGGTGT
Statistics
Matches: 400, Mismatches: 36, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
98 42 0.10
99 354 0.88
100 4 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (99 bp):
TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGAT
TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
Done.