Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 224 of 226
Found at i:67252649 original size:43 final size:43
Alignment explanation
Indices: 67252539--67252678 Score: 126
Period size: 43 Copynumber: 3.3 Consensus size: 43
67252529 TATCCTAGAT
* *
67252539 ATGGTCTTACA-TATAATCACATATCGATGCCAATAG-CCCAGCC
1 ATGGTCTTACACGA-AATCACATATCGATGCCAAT-GTCCCAGAC
* *
67252582 ATGGTCTTGCACGAAATCACATATCGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGAAATCACATATCGATGCCAATGTCCCAGAC
* ** * * * *
67252625 ATGGTCTTACATGATGTCTA-ATATCTATGTC-ATATCCCAGAT
1 ATGGTCTTACACGAAATC-ACATATCGATGCCAATGTCCCAGAC
67252667 ATGGTCTTACAC
1 ATGGTCTTACAC
67252679 ATAATTTCGG
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 20 0.25
43 58 0.73
44 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCACATATCGATGCCAATGTCCCAGAC
Found at i:67261956 original size:16 final size:16
Alignment explanation
Indices: 67261910--67261957 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
67261900 ATTTTGGGAA
67261910 ATTTTTATAAAATTTTT
1 ATTTTTAT-AAATTTTT
* *
67261927 ATTTTTTTAGATTTTT
1 ATTTTTATAAATTTTT
*
67261943 GTTTTTATAAATTTT
1 ATTTTTATAAATTTT
67261958 AATTATTTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
ATTTTTATAAATTTTT
Found at i:67262026 original size:12 final size:12
Alignment explanation
Indices: 67262009--67262033 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67261999 ATCGACTATG
67262009 AAATATAGGTGA
1 AAATATAGGTGA
67262021 AAATATAGGTGA
1 AAATATAGGTGA
67262033 A
1 A
67262034 GTATCATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATATAGGTGA
Found at i:67262892 original size:3 final size:3
Alignment explanation
Indices: 67262886--67262912 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
67262876 AGCCAGCAGC
67262886 ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT
67262913 TCACATGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:67266776 original size:81 final size:80
Alignment explanation
Indices: 67266638--67266794 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 80
67266628 CAATTAAGGA
* * * *
67266638 TAAAATATTATCATGGAGAATTGATTTTGTGATATAAAATATTTGACATCAAATAATAATCTTTT
1 TAAAATATTAT-ATGGAGAATTGATTTGGTGATATAAAATATATGACATCAAATAATAAACATTT
67266703 AAAAATATATGAAATG
65 AAAAATATATGAAATG
* ** * * *
67266719 TAAAATATTAT-TGGGAGGAATTGGTTTGGTGATATAGGATATATGATATTAATTAATAAACATT
1 TAAAATATTATAT-GGA-GAATTGATTTGGTGATATAAAATATATGACATCAAATAATAAACATT
*
67266783 TACAAATATATG
64 TAAAAATATATG
67266795 GTTAAAAATT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.02
80 3 0.05
81 59 0.94
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (80 bp):
TAAAATATTATATGGAGAATTGATTTGGTGATATAAAATATATGACATCAAATAATAAACATTTA
AAAATATATGAAATG
Found at i:67271086 original size:3 final size:3
Alignment explanation
Indices: 67271078--67271105 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
67271068 CTATAATGAA
67271078 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
67271106 TTTAAAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:67274699 original size:31 final size:32
Alignment explanation
Indices: 67274664--67274756 Score: 108
Period size: 31 Copynumber: 3.1 Consensus size: 32
67274654 ATCAAAATTG
* *
67274664 AAATTTTA-AAATTCGAAAAATACAAAAACTA
1 AAATTTGATAAATTCAAAAAATACAAAAACTA
67274695 AAA-TTGATAAATTCAAAAAATACAAAAACTA
1 AAATTTGATAAATTCAAAAAATACAAAAACTA
*
67274726 AAA-TTGATCAAATT---AAAATACAATAACTA
1 AAATTTGAT-AAATTCAAAAAATACAAAAACTA
67274755 AA
1 AA
67274757 TAAACAAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
29 16 0.28
30 3 0.05
31 33 0.58
32 5 0.09
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (32 bp):
AAATTTGATAAATTCAAAAAATACAAAAACTA
Found at i:67274714 original size:23 final size:23
Alignment explanation
Indices: 67274670--67274713 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
67274660 ATTGAAATTT
67274670 TAAAATTCGAAAAATACAAAAAC
1 TAAAATTCGAAAAATACAAAAAC
* *
67274693 TAAAATT-GATAAATTCAAAAA
1 TAAAATTCGAAAAATACAAAAA
67274714 ATACAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.64, C:0.09, G:0.05, T:0.23
Consensus pattern (23 bp):
TAAAATTCGAAAAATACAAAAAC
Found at i:67274753 original size:29 final size:29
Alignment explanation
Indices: 67274679--67274756 Score: 113
Period size: 31 Copynumber: 2.6 Consensus size: 29
67274669 TTAAAATTCG
67274679 AAAAATACAAAAACTAAAATTGATAAATT
1 AAAAATACAAAAACTAAAATTGATAAATT
67274708 CAAAAAATACAAAAACTAAAATTGATCAAATT
1 --AAAAATACAAAAACTAAAATTGAT-AAATT
*
67274740 -AAAATACAATAACTAAA
1 AAAAATACAAAAACTAAA
67274757 TAAACAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
29 16 0.36
31 24 0.53
32 5 0.11
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.22
Consensus pattern (29 bp):
AAAAATACAAAAACTAAAATTGATAAATT
Found at i:67277210 original size:13 final size:13
Alignment explanation
Indices: 67277192--67277231 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
67277182 AGTTCTTCAT
67277192 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
67277205 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
67277218 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
67277231 T
1 T
67277232 TTGGTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:67278876 original size:3 final size:3
Alignment explanation
Indices: 67278868--67278892 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
67278858 TTACTCTAAA
67278868 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
67278893 ACTGTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:67279416 original size:22 final size:22
Alignment explanation
Indices: 67279388--67279431 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
67279378 GCAAAGAAAG
67279388 AAAAAAAAAAACATGGCAGCCT
1 AAAAAAAAAAACATGGCAGCCT
67279410 AAAAAAAAAAACATGGCAGCCT
1 AAAAAAAAAAACATGGCAGCCT
67279432 TTTTGTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.18, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAAAAAAACATGGCAGCCT
Found at i:67280418 original size:16 final size:17
Alignment explanation
Indices: 67280397--67280430 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
67280387 ATTTTTAGCG
*
67280397 TTTTTTATATAT-TATA
1 TTTTTTAAATATATATA
67280413 TTTTTTAAATATATATA
1 TTTTTTAAATATATATA
67280430 T
1 T
67280431 AAATTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTAAATATATATA
Found at i:67282480 original size:35 final size:34
Alignment explanation
Indices: 67282440--67282587 Score: 106
Period size: 33 Copynumber: 4.4 Consensus size: 34
67282430 CACTATGGAC
*
67282440 GTAAGACCATGGTTGGACCATGGCAGTGCTTATAT
1 GTAAGACCATAGTTGGACCATGGCA-TGCTTATAT
* * * *
67282475 GTAAGACCATAGTTGGGCTATGGCATTC-T-GAT
1 GTAAGACCATAGTTGGACCATGGCATGCTTATAT
** *** * *
67282507 GATAAGACCATAACTGGGTTATGGCA--CTATAAAC
1 G-TAAGACCATAGTTGGACCATGGCATGCT-TATAT
* *
67282541 GTAAGACCATGGTTGGACCATGGCAGTGTTTATAT
1 GTAAGACCATAGTTGGACCATGGCA-TGCTTATAT
67282576 GTAAGACCATAG
1 GTAAGACCATAG
67282588 CTGAGATATG
Statistics
Matches: 86, Mismatches: 20, Indels: 14
0.72 0.17 0.12
Matches are distributed among these distances:
31 1 0.01
32 3 0.03
33 41 0.48
34 4 0.05
35 36 0.42
36 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (34 bp):
GTAAGACCATAGTTGGACCATGGCATGCTTATAT
Found at i:67282581 original size:101 final size:101
Alignment explanation
Indices: 67282406--67282645 Score: 363
Period size: 101 Copynumber: 2.4 Consensus size: 101
67282396 TGAATTGACG
* **
67282406 GATAAGACAATAACTGGGTTATGGCACTATGGACGTAAGACCATGGTTGGACCATGGCAGTGCTT
1 GATAAGACCATAACTGGGTTATGGCACTATAAACGTAAGACCATGGTTGGACCATGGCAGTGCTT
* * * *
67282471 ATATGTAAGACCATAGTTGGGCTATGGCATTCTGAT
66 ATATGTAAGACCATAGCTGAGATATGGAATTCTGAT
*
67282507 GATAAGACCATAACTGGGTTATGGCACTATAAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATAAACGTAAGACCATGGTTGGACCATGGCAGTGCTT
*
67282572 ATATGTAAGACCATAGCTGAGATATGGAATTTTGAT
66 ATATGTAAGACCATAGCTGAGATATGGAATTCTGAT
* * * *
67282608 GATAATACCATAACTGGGTTATGACACTACAAATGTAA
1 GATAAGACCATAACTGGGTTATGGCACTATAAACGTAA
67282646 AGGATGAATT
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 126 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATAAACGTAAGACCATGGTTGGACCATGGCAGTGCTT
ATATGTAAGACCATAGCTGAGATATGGAATTCTGAT
Found at i:67282665 original size:24 final size:24
Alignment explanation
Indices: 67282638--67282684 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
67282628 ATGACACTAC
67282638 AAATGTAAAGGATGAATTGACGGA
1 AAATGTAAAGGATGAATTGACGGA
67282662 AAATGTAAAGGATGAATTGACGG
1 AAATGTAAAGGATGAATTGACGG
67282685 CAGATTACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.30, T:0.21
Consensus pattern (24 bp):
AAATGTAAAGGATGAATTGACGGA
Found at i:67284490 original size:19 final size:19
Alignment explanation
Indices: 67284466--67284503 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
67284456 AACCAAAAAC
67284466 TACAAGACTTAAAAATAAA
1 TACAAGACTTAAAAATAAA
*
67284485 TACAAGCCTTAAAAATAAA
1 TACAAGACTTAAAAATAAA
67284504 AATTTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.13, G:0.05, T:0.21
Consensus pattern (19 bp):
TACAAGACTTAAAAATAAA
Found at i:67285140 original size:15 final size:16
Alignment explanation
Indices: 67285112--67285146 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
67285102 TCTAAAAAAT
67285112 ATATTTATATAATTTA
1 ATATTTATATAATTTA
*
67285128 ATATTTA-ATAATTTT
1 ATATTTATATAATTTA
67285143 ATAT
1 ATAT
67285147 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTTATATAATTTA
Found at i:67285155 original size:23 final size:22
Alignment explanation
Indices: 67285115--67285168 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
67285105 AAAAAATATA
67285115 TTTATATAATTTAATATTTAATAAT
1 TTTATAT-ATTTAATA-TTAA-AAT
*
67285140 TTTATATATTT-TTATTAAAAT
1 TTTATATATTTAATATTAAAAT
*
67285161 ATTATATA
1 TTTATATA
67285169 GAATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.37
22 4 0.15
23 2 0.07
24 4 0.15
25 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTATATATTTAATATTAAAAT
Found at i:67285719 original size:38 final size:38
Alignment explanation
Indices: 67285663--67285738 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
67285653 TCATTTGACT
* *
67285663 CCCTTAAAAATTTATTCTGGCTTCGCCCCTGCCCTTTC
1 CCCTTAAAAATTTATTCTGGCATCGCCCCTACCCTTTC
*
67285701 CCCTTAAAAATTTGTTCTGGCATCGCCCCTACCCTTTC
1 CCCTTAAAAATTTATTCTGGCATCGCCCCTACCCTTTC
67285739 TAGTGTTGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.17, C:0.37, G:0.11, T:0.36
Consensus pattern (38 bp):
CCCTTAAAAATTTATTCTGGCATCGCCCCTACCCTTTC
Found at i:67287161 original size:15 final size:15
Alignment explanation
Indices: 67287122--67287161 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
67287112 AAATATAGTA
*
67287122 TTTTGAATATTAATT
1 TTTTAAATATTAATT
67287137 TTTTAAAATATTAATT
1 TTTT-AAATATTAATT
*
67287153 TTTTTAATA
1 TTTTAAATA
67287162 AGATAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTTTAAATATTAATT
Found at i:67287391 original size:16 final size:18
Alignment explanation
Indices: 67287352--67287391 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
67287342 AAAATAAAAA
67287352 ATTT-ATTTTAGCCTTCT
1 ATTTAATTTTAGCCTTCT
*
67287369 ATTTAATTTTTGCC-TCT
1 ATTTAATTTTAGCCTTCT
67287386 -TTTAAT
1 ATTTAAT
67287392 CATTGAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 7 0.33
18 8 0.38
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.60
Consensus pattern (18 bp):
ATTTAATTTTAGCCTTCT
Found at i:67287721 original size:16 final size:16
Alignment explanation
Indices: 67287700--67287732 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
67287690 GTAGCACGAG
67287700 TTAGGTTTTCTATGTC
1 TTAGGTTTTCTATGTC
67287716 TTAGGTTTTCTATGTC
1 TTAGGTTTTCTATGTC
67287732 T
1 T
67287733 ACCTTGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (16 bp):
TTAGGTTTTCTATGTC
Found at i:67303231 original size:20 final size:21
Alignment explanation
Indices: 67303206--67303258 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
67303196 TAATTTTGTA
*
67303206 ATTTTTTATGATTTTTA-TTT
1 ATTTTTTATGATTTTAAGTTT
* *
67303226 ATTTTTAAAGATTTTAAGTTT
1 ATTTTTTATGATTTTAAGTTT
67303247 -TTTTTGTATGAT
1 ATTTTT-TATGAT
67303259 GACATTATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (21 bp):
ATTTTTTATGATTTTAAGTTT
Found at i:67308754 original size:6 final size:6
Alignment explanation
Indices: 67308743--67308793 Score: 84
Period size: 6 Copynumber: 8.3 Consensus size: 6
67308733 TATACATACA
*
67308743 TATATG TATATG TTATATG TGTATG TATATG TATATG TATATG TATATG
1 TATATG TATATG -TATATG TATATG TATATG TATATG TATATG TATATG
67308792 TA
1 TA
67308794 AATGCTCACC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 36 0.86
7 6 0.14
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:67308956 original size:2 final size:2
Alignment explanation
Indices: 67308951--67308978 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
67308941 ATATATATAT
67308951 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
67308979 TCCCCAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:67309737 original size:14 final size:15
Alignment explanation
Indices: 67309692--67309738 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
67309682 TTGGTATTTG
*
67309692 AAATTTACATAATTGA
1 AAATTTAAATAATT-A
*
67309708 AAA-TTAAATAAATA
1 AAATTTAAATAATTA
67309722 AAATTTAAAT-ATTA
1 AAATTTAAATAATTA
67309736 AAA
1 AAA
67309739 ATTATATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 10 0.37
15 14 0.52
16 3 0.11
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
AAATTTAAATAATTA
Found at i:67317639 original size:52 final size:47
Alignment explanation
Indices: 67317620--67317913 Score: 411
Period size: 46 Copynumber: 6.3 Consensus size: 47
67317610 TGACAAGTGG
* * *
67317620 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA-T
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
*
67317666 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
*
67317712 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A
67317760 GTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTG--A
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
* *
67317809 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
** *
67317855 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
67317901 AAAGTGATAAGTG
1 AAAGTGATAAGTG
67317914 GCTACACTTA
Statistics
Matches: 230, Mismatches: 9, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
45 42 0.18
46 144 0.63
49 1 0.00
52 43 0.19
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (47 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
Found at i:67317921 original size:37 final size:37
Alignment explanation
Indices: 67317877--67317985 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
67317867 GATAGCTTTA
67317877 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
67317914 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
67317951 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
67317986 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:67319879 original size:45 final size:45
Alignment explanation
Indices: 67319784--67319879 Score: 104
Period size: 45 Copynumber: 2.1 Consensus size: 45
67319774 AACGGTAGCA
* * *
67319784 ATAACAGTAATAATAACAGTATTCAACACACAAAGTGCTGAATCT
1 ATAACAGTAACAATAACAGTATTCAACACACAAAGTGCTGAACCG
* ** *
67319829 ATAACAGTAACGATAACAGTATTTGACACACAATGTG-TCGAACCG
1 ATAACAGTAACAATAACAGTATTCAACACACAAAGTGCT-GAACCG
*
67319874 GTAACA
1 ATAACA
67319880 ATTATAGTAG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 1 0.02
45 41 0.98
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.23
Consensus pattern (45 bp):
ATAACAGTAACAATAACAGTATTCAACACACAAAGTGCTGAACCG
Found at i:67320132 original size:40 final size:40
Alignment explanation
Indices: 67320088--67320175 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
67320078 AATTCATTAC
* * * *
67320088 TTCAGTAATTTCGCAGTTCAATACA-ACACACATAACAATA
1 TTCAGTAACTTCACAATTCAATACAGACACA-AAAACAATA
* *
67320128 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAAACAATA
1 TTCAGTAACTTCACAATTCAATACAG-ACACAAAAACAATA
67320169 TTCAGTA
1 TTCAGTA
67320176 TTCCATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 21 0.52
41 15 0.38
42 4 0.10
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.30
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATACAGACACAAAAACAATA
Found at i:67324513 original size:26 final size:25
Alignment explanation
Indices: 67324429--67324513 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 25
67324419 AAAAAAATTA
* *
67324429 TTAATTTATTAATGTATGGATTTACT
1 TTAATTTATTAATGTAT-TATTTAAT
67324455 TTAATTTATTAATGTATT-TTTAAT
1 TTAATTTATTAATGTATTATTTAAT
* *
67324479 ATAA-TTATTAAT-TATTATCGTTATT
1 TTAATTTATTAATGTATTAT--TTAAT
67324504 TTAATTTATT
1 TTAATTTATT
67324514 TAATTTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
22 4 0.08
23 9 0.18
24 8 0.16
25 7 0.14
26 22 0.44
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (25 bp):
TTAATTTATTAATGTATTATTTAAT
Found at i:67324574 original size:13 final size:14
Alignment explanation
Indices: 67324558--67324595 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
67324548 AAAACATATG
67324558 TTAAAAATTAAAT-
1 TTAAAAATTAAATA
67324571 TTAAAAA-TAAATA
1 TTAAAAATTAAATA
67324584 TTATAAAATTAA
1 TTA-AAAATTAA
67324596 TAATTTTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.23
13 10 0.45
14 4 0.18
15 3 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAAAATTAAATA
Found at i:67326293 original size:15 final size:15
Alignment explanation
Indices: 67326240--67326286 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
67326230 TTTAATGTGT
67326240 TATAAAATACATA-ATA
1 TATAAAATA-ATATA-A
67326256 TATAAAAATAATATAA
1 TAT-AAAATAATATAA
*
67326272 TATAAAATATTATAA
1 TATAAAATAATATAA
67326287 ACTAAAAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 11 0.39
16 10 0.36
17 7 0.25
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (15 bp):
TATAAAATAATATAA
Found at i:67330386 original size:22 final size:23
Alignment explanation
Indices: 67330337--67330387 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
67330327 AAATTTTCGA
* **
67330337 AGTTAGGTGACCAAAAAAAATTT
1 AGTTGGGTGACCAAAAAAAACAT
*
67330360 TGTTGGGTGA-CAAAAAAAACAT
1 AGTTGGGTGACCAAAAAAAACAT
67330382 AGTTGG
1 AGTTGG
67330388 ATGAACTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.25
Consensus pattern (23 bp):
AGTTGGGTGACCAAAAAAAACAT
Found at i:67333379 original size:14 final size:14
Alignment explanation
Indices: 67333360--67333399 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
67333350 TTGGTTGCGA
*
67333360 GTAAAATGTTTTCT
1 GTAAAATATTTTCT
*
67333374 GTAAAATAATTTCT
1 GTAAAATATTTTCT
*
67333388 GGAAAATATTTT
1 GTAAAATATTTT
67333400 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (14 bp):
GTAAAATATTTTCT
Found at i:67333411 original size:34 final size:35
Alignment explanation
Indices: 67333368--67333434 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
67333358 GAGTAAAATG
*
67333368 TTTTCTGTAAAATAATTT-CTGGAAAATATTTTAC
1 TTTTCTGTAAAATAATTTACTAGAAAATATTTTAC
*
67333402 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCTGTAAAATAATTTACTAGAAAATATTTT
67333435 CTGCTGTTTG
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:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:67339077 original size:14 final size:15
Alignment explanation
Indices: 67339060--67339089 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
67339050 AAGTGAGATT
67339060 AAAAATTAATTTTTAA
1 AAAAATTAATTTTT-A
67339076 AAAAATTAATTTTT
1 AAAAATTAATTTTT
67339090 TTTATTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAAATTAATTTTTA
Found at i:67339738 original size:7 final size:7
Alignment explanation
Indices: 67339726--67339755 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
67339716 TTAAATAAAA
67339726 AAATTAC
1 AAATTAC
67339733 AAATTAC
1 AAATTAC
67339740 AAATTAC
1 AAATTAC
67339747 AAATT-C
1 AAATTAC
67339753 AAA
1 AAA
67339756 GATTGAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATTAC
Found at i:67341349 original size:26 final size:27
Alignment explanation
Indices: 67341306--67341358 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
67341296 TAAGATTGAG
*
67341306 ATTATTTATGTTGATTTAAGA-ATTTTT
1 ATTATTTATGTCGATTTAA-ATATTTTT
*
67341333 ATTATTTA-GTCGTTTTAAATATTTTT
1 ATTATTTATGTCGATTTAAATATTTTT
67341359 TCAATAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.04
26 14 0.61
27 8 0.35
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (27 bp):
ATTATTTATGTCGATTTAAATATTTTT
Found at i:67350529 original size:6 final size:6
Alignment explanation
Indices: 67350518--67350552 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
67350508 TAATCTTCAT
67350518 TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA TCCCC
1 TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA TCCCC
67350553 CTCCGGCTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.69, G:0.00, T:0.17
Consensus pattern (6 bp):
TCCCCA
Found at i:67370664 original size:37 final size:38
Alignment explanation
Indices: 67370623--67370702 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
67370613 GGCCTAGCCC
67370623 AAATA-TAATAAATATA-TTTTTTAATTTTTTAATTTTA
1 AAATATTAATAAA-ATACTTTTTTAATTTTTTAATTTTA
** * *
67370660 AAATATTTTTAAAATACTTTTTTTATTTTTTATTTTTA
1 AAATATTAATAAAATACTTTTTTAATTTTTTAATTTTA
67370698 AAATA
1 AAATA
67370703 AATTTTTAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 8 0.22
38 29 0.78
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (38 bp):
AAATATTAATAAAATACTTTTTTAATTTTTTAATTTTA
Found at i:67370708 original size:26 final size:27
Alignment explanation
Indices: 67370663--67370719 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
67370653 AATTTTAAAA
** * *
67370663 TATTTTTAAAATACTTTTTTTATTTTT
1 TATTTTTAAAATACAATTTTTAGTGTT
67370690 TATTTTTAAAATA-AATTTTTAGTGTT
1 TATTTTTAAAATACAATTTTTAGTGTT
67370716 TATT
1 TATT
67370720 AAAAAAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (27 bp):
TATTTTTAAAATACAATTTTTAGTGTT
Found at i:67372059 original size:30 final size:29
Alignment explanation
Indices: 67372025--67372091 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
67372015 ATTAATAATA
* *
67372025 ATAAAATTATACGTTGATCTTTCAAAAATT
1 ATAAAATT-TAAGTTAATCTTTCAAAAATT
* * *
67372055 ATAAAAATTTAATTTAATTTTTTAAAAATT
1 AT-AAAATTTAAGTTAATCTTTCAAAAATT
67372085 ATAAAAT
1 ATAAAAT
67372092 ATAAATTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 5 0.16
30 20 0.65
31 6 0.19
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (29 bp):
ATAAAATTTAAGTTAATCTTTCAAAAATT
Found at i:67374544 original size:22 final size:22
Alignment explanation
Indices: 67374494--67374544 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
67374484 ATAATAAAAA
67374494 TATATT-TAAAATAATATAATT
1 TATATTATAAAATAATATAATT
* *
67374515 TATTTTATAAAATAAATATATTT
1 TATATTATAAAAT-AATATAATT
67374538 TA-ATTAT
1 TATATTAT
67374545 TACTGAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 5 0.20
22 10 0.40
23 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATTATAAAATAATATAATT
Found at i:67375701 original size:3 final size:3
Alignment explanation
Indices: 67375695--67375722 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
67375685 ATTTGACCAA
67375695 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
67375723 GCATAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:67380681 original size:21 final size:21
Alignment explanation
Indices: 67380655--67380695 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67380645 AGACGAGCAA
* *
67380655 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
67380676 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
67380696 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:67395959 original size:186 final size:187
Alignment explanation
Indices: 67395633--67395993 Score: 471
Period size: 186 Copynumber: 1.9 Consensus size: 187
67395623 AAAATACTCA
** * * *
67395633 TTTACTAATCTGGTTCTCTTATAGTTGGAATCTATGCTGCCGAAGCAGGAAAAGACCACCGGGAA
1 TTTACTAATCCAGTTCCCTGATAGTTGGAATCTATGCTGCCGAAGCAGGAAAAGACCACCGCGAA
* * *
67395698 CCAAGGGGCTCCGACTCAAAGGGCTTCAGCTTTAGCTGCCTTAACTTCAGCATTCAATAAATCTC
66 CCAAGGGGCTCCGACTCAAAGGGCTTCAGCTTTAGCTGCCTTAACTTAAGCATTCAATAAAGCTA
*
67395763 CTTCCAAATCACCCCCTCCGGTAATAAACTGCTTATGCCAATAAATGATGATACTTG
131 CTTCCAAATCACCCACTCCGGTAATAAACTGCTTATGCCAATAAATGATGATACTTG
* *
67395820 TTTACTAATCCAGTTCCCTGATCGTTGGAATC-ATGCTGCC-AAGACAGGAAAAGACCACTGCGA
1 TTTACTAATCCAGTTCCCTGATAGTTGGAATCTATGCTGCCGAAG-CAGGAAAAGACCACCGCGA
* * *
67395883 ACCAAGGGGGTCCTACTCAAAGGGCTTCAGCTTTAGCTGCCTTAAC-TAATGCATTCAA-ATCAG
65 ACCAAGGGGCTCCGACTCAAAGGGCTTCAGCTTTAGCTGCCTTAACTTAA-GCATTCAATA-AAG
* * ** * *
67395946 CTAC-TCGCAAATCATCCACTCTGGTAATAATTTTCTTATGCCATTAAA
128 CTACTTC-CAAATCACCCACTCCGGTAATAAACTGCTTATGCCAATAAA
67395994 CTCTTTTTTT
Statistics
Matches: 150, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
185 8 0.05
186 115 0.77
187 27 0.18
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (187 bp):
TTTACTAATCCAGTTCCCTGATAGTTGGAATCTATGCTGCCGAAGCAGGAAAAGACCACCGCGAA
CCAAGGGGCTCCGACTCAAAGGGCTTCAGCTTTAGCTGCCTTAACTTAAGCATTCAATAAAGCTA
CTTCCAAATCACCCACTCCGGTAATAAACTGCTTATGCCAATAAATGATGATACTTG
Found at i:67396229 original size:9 final size:9
Alignment explanation
Indices: 67396215--67396239 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
67396205 ACAAAGAGCT
67396215 GCAGCTTTA
1 GCAGCTTTA
67396224 GCAGCTTTA
1 GCAGCTTTA
67396233 GCAGCTT
1 GCAGCTT
67396240 CATTTAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (9 bp):
GCAGCTTTA
Found at i:67396604 original size:66 final size:65
Alignment explanation
Indices: 67396526--67396657 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 65
67396516 TGCAGACTCA
* ** * *
67396526 AGTGAAGTGAACCCTTCTGAAGCTGATGATTCTGTAGGGGTTGCCAAAACCAATAAGGAAGACTT
1 AGTGAAGCGAACCCTTCTGAAGCTGATGATTCTCAAGAGGTTGCCAAAACCAACAAGGAAGA-TT
67396591 G
65 G
* *
67396592 AGTGAAGCGAACCCTTCTGGAGCTGATGATTCTCAAGAGGTTGCTAAAACCAACAAGGAAGATTG
1 AGTGAAGCGAACCCTTCTGAAGCTGATGATTCTCAAGAGGTTGCCAAAACCAACAAGGAAGATTG
67396657 A
1 A
67396658 AAACCGAAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
65 4 0.07
66 55 0.93
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (65 bp):
AGTGAAGCGAACCCTTCTGAAGCTGATGATTCTCAAGAGGTTGCCAAAACCAACAAGGAAGATTG
Found at i:67404382 original size:21 final size:21
Alignment explanation
Indices: 67404356--67404404 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
67404346 GGGATGCCAA
67404356 CAACAACTAGACGAGATACGC
1 CAACAACTAGACGAGATACGC
* * *
67404377 CAACAATTAGATGAGGTACGC
1 CAACAACTAGACGAGATACGC
*
67404398 CGACAAC
1 CAACAAC
67404405 AATCAGAGGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.27, G:0.20, T:0.12
Consensus pattern (21 bp):
CAACAACTAGACGAGATACGC
Found at i:67407597 original size:26 final size:27
Alignment explanation
Indices: 67407545--67407599 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
67407535 TGATGCTCAT
* *
67407545 ATGGTATTTGGTATTTAAATTCAGTGA
1 ATGGTATTGGGTATTTAAACTCAGTGA
* *
67407572 ATGGT-TTGGGTATTTCAACTCGGTGA
1 ATGGTATTGGGTATTTAAACTCAGTGA
67407598 AT
1 AT
67407600 TTGTATGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (27 bp):
ATGGTATTGGGTATTTAAACTCAGTGA
Found at i:67407671 original size:33 final size:30
Alignment explanation
Indices: 67407627--67407708 Score: 85
Period size: 33 Copynumber: 2.6 Consensus size: 30
67407617 TATATTTGGT
*
67407627 TTTGGTCTTTGAACTCAGTAAATCATTTCAGTA
1 TTTGGTATTTGAACTCAGT--AT-ATTTCAGTA
* **
67407660 TTTGGTATTTGAACTCA-TATGTTTTGGTA
1 TTTGGTATTTGAACTCAGTATATTTCAGTA
67407689 TTTGGTATTTTGAACTCAGT
1 TTTGGTA-TTTGAACTCAGT
67407709 TAAAGAACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 13 0.30
30 12 0.28
31 1 0.02
32 1 0.02
33 16 0.37
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.48
Consensus pattern (30 bp):
TTTGGTATTTGAACTCAGTATATTTCAGTA
Found at i:67410115 original size:15 final size:15
Alignment explanation
Indices: 67410095--67410128 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
67410085 GAAAGTTAAT
67410095 AGAAAAAGAATA-AAA
1 AGAAAAAGAA-ACAAA
67410110 AGAAAAAGAAACAAA
1 AGAAAAAGAAACAAA
67410125 AGAA
1 AGAA
67410129 GAACAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (15 bp):
AGAAAAAGAAACAAA
Found at i:67410151 original size:29 final size:28
Alignment explanation
Indices: 67410107--67410163 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
67410097 AAAAAGAATA
67410107 AAAAGAAAAAGAAACAAAA-GAAGAACAG
1 AAAAGAAAAAGAAACAAAACGAA-AACAG
67410135 AAAAGAAACAA-AGAACAAAACGAAAACAG
1 AAAAGAAA-AAGA-AACAAAACGAAAACAG
67410164 GGGAACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 9 0.35
29 14 0.54
30 3 0.12
ACGTcount: A:0.74, C:0.11, G:0.16, T:0.00
Consensus pattern (28 bp):
AAAAGAAAAAGAAACAAAACGAAAACAG
Found at i:67410159 original size:22 final size:22
Alignment explanation
Indices: 67410098--67410160 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
67410088 AGTTAATAGA
*
67410098 AAAAGAATAAAAAGAAAAAGAAAC
1 AAAAGAA-CAAAAG-AAAAGAAAC
* *
67410122 AAAAGAAGAACAGAAAAGAAAC
1 AAAAGAACAAAAGAAAAGAAAC
67410144 -AAAGAACAAAACGAAAA
1 AAAAGAACAAAA-GAAAA
67410161 CAGGGGAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 9 0.26
22 14 0.41
23 4 0.12
24 7 0.21
ACGTcount: A:0.76, C:0.08, G:0.14, T:0.02
Consensus pattern (22 bp):
AAAAGAACAAAAGAAAAGAAAC
Found at i:67410543 original size:22 final size:24
Alignment explanation
Indices: 67410518--67410561 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
67410508 TATGGGAAGA
67410518 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGCTAGAAAAGTAAGTATG
67410540 AATTAAGCTAGAAAAGTAAGTA
1 AATTAAGCTAGAAAAGTAAGTA
67410562 GGTTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGCTAGAAAAGTAAGTATG
Found at i:67419254 original size:107 final size:105
Alignment explanation
Indices: 67419033--67419255 Score: 233
Period size: 107 Copynumber: 2.1 Consensus size: 105
67419023 CGATGATTGA
* *
67419033 AAATTTAAAA-TTTGAAAAGTATAGGAACTAAAATCAACCAAATTAAAGTATAGTGATTAAATTC
1 AAATTTAAAATTTTGAAAAGTATAGGAACTAAAAGCAACCAAATTAAAGTATAGTGATCAAATTC
* **
67419097 ACAGCTTCTGCAAAGGAAATTAAAGTATATAGATTAAATTC
66 ACAACTTCTGCAAAGGAAAGGAAAGTATATAGATTAAA-TC
* * *
67419138 ACAA-CTAAAATTTTGAAAAGTGTAAGG-ACTAAAAGCTAACCAAATTAAATTATA-TGGATCAA
1 A-AATTTAAAATTTTGAAAAGTAT-AGGAACTAAAAGC-AACCAAATTAAAGTATAGT-GATCAA
* * *
67419200 ATTCACAACTTTTGCAAAGTGAAAGGATTAGTA-ATAGATTTTAA-C
62 ATTCACAACTTCTGCAAAG-GAAAGGA-AAGTATATAGA-TTAAATC
67419245 AAATTTAAAAT
1 AAATTTAAAAT
67419256 GAAATAAACA
Statistics
Matches: 97, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
105 6 0.06
106 24 0.25
107 49 0.51
108 10 0.10
109 8 0.08
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.30
Consensus pattern (105 bp):
AAATTTAAAATTTTGAAAAGTATAGGAACTAAAAGCAACCAAATTAAAGTATAGTGATCAAATTC
ACAACTTCTGCAAAGGAAAGGAAAGTATATAGATTAAATC
Found at i:67420443 original size:18 final size:18
Alignment explanation
Indices: 67420416--67420463 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
67420406 ATGTTTAGTT
67420416 ATTT-ATTTTTCAATTTA
1 ATTTAATTTTTCAATTTA
*** *
67420433 ATTTAATTTTTTTGTTTT
1 ATTTAATTTTTCAATTTA
67420451 ATTTAATTTTTCA
1 ATTTAATTTTTCA
67420464 TACAATGTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTTAATTTTTCAATTTA
Found at i:67445310 original size:5 final size:5
Alignment explanation
Indices: 67445300--67445331 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
67445290 TATTAATATT
67445300 TTATA TTATA TTATA TTATA TTATA TATATA T
1 TTATA TTATA TTATA TTATA TTATA T-TATA T
67445332 ATGACAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:67445380 original size:21 final size:21
Alignment explanation
Indices: 67445354--67445419 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
67445344 GAAAGAAAAG
67445354 AAACAGAGAGCAAAACAAACA
1 AAACAGAGAGCAAAACAAACA
* * *
67445375 AAACAGAGAAGGGAGAAAGAAA-G
1 AAACAGAG-A-GCA-AAACAAACA
67445398 AAACAGAGAGCAAAACGAAACA
1 AAACAGAGAGCAAAAC-AAACA
67445420 GAGAAGGAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
20 3 0.09
21 13 0.38
22 2 0.06
23 10 0.29
24 6 0.18
ACGTcount: A:0.64, C:0.14, G:0.23, T:0.00
Consensus pattern (21 bp):
AAACAGAGAGCAAAACAAACA
Found at i:67445407 original size:44 final size:44
Alignment explanation
Indices: 67445342--67445445 Score: 140
Period size: 44 Copynumber: 2.3 Consensus size: 44
67445332 ATGACAAAGA
67445342 AAGAAAGAAAAGAAACAGAGAGCAAAAC-AAACA-AAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACGAAACAGAAA-AG-GAAGG
* *
67445387 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAAAAGGAAGG
67445431 AAGGAAAGAAAGAAA
1 AA-GAAAGAAAGAAA
67445446 GAAAAGAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
44 26 0.49
45 25 0.47
46 2 0.04
ACGTcount: A:0.64, C:0.09, G:0.27, T:0.00
Consensus pattern (44 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAAAAGGAAGG
Found at i:67445420 original size:40 final size:42
Alignment explanation
Indices: 67445342--67445441 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 42
67445332 ATGACAAAGA
67445342 AAGAAAGAAAAGAAACAGAGAGCAAAACAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGC--AACAAACAAAACAGAGAAGG
* *
67445387 GAGAAAGAAAGAAACAGAGAGC-A-AAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAACAAACAAAACAGAGAAGG
*
67445427 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
67445442 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 17 0.34
41 12 0.24
44 15 0.30
45 6 0.12
ACGTcount: A:0.64, C:0.09, G:0.27, T:0.00
Consensus pattern (42 bp):
AAGAAAGAAAGAAACAGAGAGCAACAAACAAAACAGAGAAGG
Found at i:67445449 original size:49 final size:45
Alignment explanation
Indices: 67445340--67445445 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
67445330 ATATGACAAA
*
67445340 GAAAGAAAGAAAAGAAACAGAGAGCAAAACAAACAAAACAGAGAAG
1 GAAAGAAAG-AAAGAAACAGAGAGCAAAACAAACAAAAAAGAGAAG
* * *
67445386 G-GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAG-GAAG
1 GAAAGAAAGAAAGAAACAGAGAGCAAAAC-AAACAAAAAAGAGAAG
*
67445430 GAAGGAAAGAAAGAAA
1 GAAAGAAAGAAAGAAA
67445446 GAAAAGAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
44 25 0.48
45 26 0.50
46 1 0.02
ACGTcount: A:0.64, C:0.08, G:0.27, T:0.00
Consensus pattern (45 bp):
GAAAGAAAGAAAGAAACAGAGAGCAAAACAAACAAAAAAGAGAAG
Found at i:67446684 original size:41 final size:39
Alignment explanation
Indices: 67446636--67446747 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 39
67446626 TCGACCTTGA
67446636 GTCGATGAGACACTGGGTGTCATACTATTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-ACTATTACTTCGGATAG
* ** ** * *
67446676 ATTCGATGAGGTACTGGGTACCAAC--TTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
* *
67446714 GCCGATGAGACACTGGGTGTCAACTATTGCTTCG
1 GTCGATGAGACACTGGGTGTCAACTATTACTTCG
67446748 AACTATCCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
37 18 0.33
38 11 0.20
39 7 0.13
40 2 0.04
41 17 0.31
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
Found at i:67457830 original size:45 final size:45
Alignment explanation
Indices: 67457766--67457851 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
67457756 GGTATATTAA
67457766 AATATACTGATACCAATATGTACCAATTCCAATAGAAAAGTATTT
1 AATATACTGATACCAATATGTACCAATTCCAATAGAAAAGTATTT
67457811 AATATACTGATACCAATATGTACCAATTCCAATAGAAAAGT
1 AATATACTGATACCAATATGTACCAATTCCAATAGAAAAGT
67457852 GATACGTCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.29
Consensus pattern (45 bp):
AATATACTGATACCAATATGTACCAATTCCAATAGAAAAGTATTT
Found at i:67458032 original size:87 final size:87
Alignment explanation
Indices: 67457886--67458055 Score: 322
Period size: 87 Copynumber: 2.0 Consensus size: 87
67457876 GCTACCTTGA
* *
67457886 AAGGAATTATGTGGTAGATTTGTTTGAAAAGAAATGGGTAAAACCGTGTTGAGATAGTATTTCGG
1 AAGGAATTATGTGGTAGACTTGTTTGAAAAGAAATGGGTAAAACCGTGTTAAGATAGTATTTCGG
67457951 GTGGCTATAATGTTTGATGCTT
66 GTGGCTATAATGTTTGATGCTT
67457973 AAGGAATTATGTGGTAGACTTGTTTGAAAAGAAATGGGTAAAACCGTGTTAAGATAGTATTTCGG
1 AAGGAATTATGTGGTAGACTTGTTTGAAAAGAAATGGGTAAAACCGTGTTAAGATAGTATTTCGG
67458038 GTGGCTATAATGTTTGAT
66 GTGGCTATAATGTTTGAT
67458056 CCTTTCTTTT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (87 bp):
AAGGAATTATGTGGTAGACTTGTTTGAAAAGAAATGGGTAAAACCGTGTTAAGATAGTATTTCGG
GTGGCTATAATGTTTGATGCTT
Found at i:67464930 original size:18 final size:18
Alignment explanation
Indices: 67464894--67464930 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
67464884 CTCAACTAAA
*
67464894 ATTTTAATTTTTTTATAC
1 ATTTTAATTTTATTATAC
*
67464912 ATTTTAATTTTATTGTAC
1 ATTTTAATTTTATTATAC
67464930 A
1 A
67464931 CACTTTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
ATTTTAATTTTATTATAC
Found at i:67474635 original size:17 final size:18
Alignment explanation
Indices: 67474615--67474648 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67474605 TTTAAAATGT
67474615 ATATTAT-TTTTAATTTA
1 ATATTATCTTTTAATTTA
*
67474632 ATATTTTCTTTTAATTT
1 ATATTATCTTTTAATTT
67474649 TTTGTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
ATATTATCTTTTAATTTA
Found at i:67476870 original size:13 final size:13
Alignment explanation
Indices: 67476849--67476887 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
67476839 TTACATTTGC
67476849 AAAAA-AAAAAAT
1 AAAAAGAAAAAAT
67476861 AAAAAGAAAAAAT
1 AAAAAGAAAAAAT
67476874 ATAAAGAGAAAAAA
1 A-AAA-AGAAAAAA
67476888 AATACCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 8 0.33
14 3 0.12
15 8 0.33
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAGAAAAAAT
Found at i:67476872 original size:15 final size:15
Alignment explanation
Indices: 67476852--67476891 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
67476842 CATTTGCAAA
67476852 AAAAAAAATAAAAAG
1 AAAAAAAATAAAAAG
* *
67476867 AAAAAATATAAAGAG
1 AAAAAAAATAAAAAG
67476882 AAAAAAAATA
1 AAAAAAAATA
67476892 CCTTTTATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAAAAATAAAAAG
Found at i:67479978 original size:12 final size:11
Alignment explanation
Indices: 67479952--67479991 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
67479942 AAAAAATAAC
67479952 AATAAATTAAA
1 AATAAATTAAA
* *
67479963 AATAAAATTCAC
1 AAT-AAATTAAA
67479975 AATAAATTAAA
1 AATAAATTAAA
67479986 AATAAA
1 AATAAA
67479992 ATTCTAACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAAATTAAA
Found at i:67479993 original size:12 final size:12
Alignment explanation
Indices: 67479955--67479994 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
67479945 AAATAACAAT
67479955 AAATTAAAAATA
1 AAATTAAAAATA
* *
67479967 AAATTCACAAT-
1 AAATTAAAAATA
67479978 AAATTAAAAATA
1 AAATTAAAAATA
67479990 AAATT
1 AAATT
67479995 CTAACTCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATTAAAAATA
Found at i:67480005 original size:22 final size:23
Alignment explanation
Indices: 67479950--67479995 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
67479940 TAAAAAAATA
67479950 ACAATAAATTAAAAATAAAATTC
1 ACAATAAATTAAAAATAAAATTC
67479973 ACAATAAATTAAAAATAAAATTC
1 ACAATAAATTAAAAATAAAATTC
67479996 TAACTCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (23 bp):
ACAATAAATTAAAAATAAAATTC
Found at i:67483484 original size:15 final size:15
Alignment explanation
Indices: 67483464--67483505 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
67483454 ATCATCTATA
67483464 ATATATATATATTAT
1 ATATATATATATTAT
67483479 ATATATA-AGTATTAT
1 ATATATATA-TATTAT
67483494 ACTATAT-TATAT
1 A-TATATATATAT
67483506 ACCTAGTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.04
15 17 0.71
16 6 0.25
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
ATATATATATATTAT
Found at i:67502201 original size:17 final size:17
Alignment explanation
Indices: 67502179--67502213 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
67502169 ACTTTATATT
67502179 AATTCAATATTGAGAGG
1 AATTCAATATTGAGAGG
67502196 AATTCAATATTGAGAGG
1 AATTCAATATTGAGAGG
67502213 A
1 A
67502214 TAGCCAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.29
Consensus pattern (17 bp):
AATTCAATATTGAGAGG
Found at i:67517828 original size:18 final size:19
Alignment explanation
Indices: 67517788--67517831 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
67517778 TTTTATTTAT
*
67517788 AATA-ATTTATTTGATATT
1 AATATATTTATTTGATATA
*
67517806 TATATATTTATTT-ATATA
1 AATATATTTATTTGATATA
67517824 AATATATT
1 AATATATT
67517832 AAATATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AATATATTTATTTGATATA
Found at i:67523943 original size:77 final size:77
Alignment explanation
Indices: 67523816--67523973 Score: 280
Period size: 77 Copynumber: 2.1 Consensus size: 77
67523806 GAAGATGGAC
*
67523816 CCCAAGTAGTTGTTGCTGGGAAAAGACAATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGAAA
1 CCCAAGTAGTTGTTGATGGGAAAAGACAATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGAAA
*
67523881 TTATTGCACCCT
66 TTATTACACCCT
* *
67523893 CCCAAGTGGTTGTTGATGGGAAAAGACAATGAAAGTGGAAATTAAAGAGGTCCGAGTCCATGAAA
1 CCCAAGTAGTTGTTGATGGGAAAAGACAATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGAAA
67523958 TTATTACACCCT
66 TTATTACACCCT
67523970 CCCA
1 CCCA
67523974 TTTTTTCCGT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (77 bp):
CCCAAGTAGTTGTTGATGGGAAAAGACAATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGAAA
TTATTACACCCT
Found at i:67524218 original size:21 final size:21
Alignment explanation
Indices: 67524156--67524230 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 21
67524146 AATTTTAAAA
*
67524156 TTTTAAAAATTTATTTTTTTATATT
1 TTTTAAAAA--TAATTTTTTA-A-T
* *
67524181 TTTTAACAATAA-ATTTTAAT
1 TTTTAAAAATAATTTTTTAAT
*
67524201 TTTTAAAAATAATTTTTTAAA
1 TTTTAAAAATAATTTTTTAAT
67524222 TTTTAAAAA
1 TTTTAAAAA
67524231 ATTGATTAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 12 0.28
21 16 0.37
22 5 0.12
23 2 0.05
25 8 0.19
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAAAAATAATTTTTTAAT
Found at i:67524223 original size:22 final size:22
Alignment explanation
Indices: 67524148--67524232 Score: 75
Period size: 22 Copynumber: 3.8 Consensus size: 22
67524138 ATCTAATTAA
* *
67524148 TTTTAAAATTTTAAAAATTTATTT
1 TTTTAAATTTTTAAAAA--TAATT
* * *
67524172 TTTTATATTTTTTAACAATAA-A
1 TTTTA-AATTTTTAAAAATAATT
67524194 TTTT-AATTTTTAAAAATAATT
1 TTTTAAATTTTTAAAAATAATT
*
67524215 TTTTAAATTTTAAAAAAT
1 TTTTAAATTTTTAAAAAT
67524233 TGATTAAGTA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
20 13 0.27
21 4 0.08
22 16 0.33
23 2 0.04
24 5 0.10
25 9 0.18
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTAAATTTTTAAAAATAATT
Found at i:67524974 original size:28 final size:28
Alignment explanation
Indices: 67524928--67524987 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
67524918 TACATGGTAT
*
67524928 TATATAAAAAAATTCAATAAATAAAA-AA
1 TATATAAAAAAATTAAAT-AATAAAATAA
** *
67524956 TATATAAAATTATTAAATATTAAAATAA
1 TATATAAAAAAATTAAATAATAAAATAA
67524984 TATA
1 TATA
67524988 ATATAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
TATATAAAAAAATTAAATAATAAAATAA
Found at i:67535524 original size:57 final size:57
Alignment explanation
Indices: 67535457--67535568 Score: 224
Period size: 57 Copynumber: 2.0 Consensus size: 57
67535447 TGTATTTCAA
67535457 AGAACTACAAAAATCTCACATTGCTAAAAAAAGATATTGAGTCATTATTTATAAGCC
1 AGAACTACAAAAATCTCACATTGCTAAAAAAAGATATTGAGTCATTATTTATAAGCC
67535514 AGAACTACAAAAATCTCACATTGCTAAAAAAAGATATTGAGTCATTATTTATAAG
1 AGAACTACAAAAATCTCACATTGCTAAAAAAAGATATTGAGTCATTATTTATAAG
67535569 TCATTATACT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (57 bp):
AGAACTACAAAAATCTCACATTGCTAAAAAAAGATATTGAGTCATTATTTATAAGCC
Found at i:67538040 original size:19 final size:18
Alignment explanation
Indices: 67538018--67538093 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 18
67538008 TTAAAGTGAC
67538018 TATAATTTTTTATGATTTT
1 TATAATTTTTTAT-ATTTT
** *
67538037 TATAAAATTTTACAATTTCT
1 TATAATTTTTTA-TATTT-T
*
67538057 TAT-ATTTTTTCTAGTTTT
1 TATAATTTTTTATA-TTTT
67538075 TAATAATTTTTTAATATTT
1 T-ATAATTTTTT-ATATTT
67538094 GAATTTTTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
18 3 0.07
19 24 0.56
20 14 0.33
21 2 0.05
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (18 bp):
TATAATTTTTTATATTTT
Found at i:67543113 original size:18 final size:17
Alignment explanation
Indices: 67543090--67543163 Score: 103
Period size: 18 Copynumber: 4.2 Consensus size: 17
67543080 CCCAGCTACT
67543090 GTATACGTGAATAGTATC
1 GTATACGTGAATAGTA-C
67543108 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
* *
67543125 TATATACGTGAATAGTGCC
1 -GTATACGTGAATAGT-AC
67543144 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
67543161 GTA
1 GTA
67543164 AACGGTCGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
17 5 0.10
18 44 0.88
19 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (17 bp):
GTATACGTGAATAGTAC
Found at i:67543138 original size:36 final size:36
Alignment explanation
Indices: 67543086--67543160 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
67543076 CAGTCCCAGC
* *
67543086 TACTGTATACGTGAATAGTATCGTATACGTGAATAG
1 TACTATATACGTGAATAGTACCGTATACGTGAATAG
*
67543122 TACTATATACGTGAATAGTGCCGTATACGTGAATAG
1 TACTATATACGTGAATAGTACCGTATACGTGAATAG
67543158 TAC
1 TAC
67543161 GTAAACGGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.32
Consensus pattern (36 bp):
TACTATATACGTGAATAGTACCGTATACGTGAATAG
Found at i:67553237 original size:27 final size:27
Alignment explanation
Indices: 67553196--67553247 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
67553186 CATTTTAGTC
67553196 CTTTGGCACCATTGGTGCCGCCAATCA
1 CTTTGGCACCATTGGTGCCGCCAATCA
*
67553223 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
67553248 GTGATTGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.29
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCA
Found at i:67553354 original size:28 final size:27
Alignment explanation
Indices: 67553307--67553369 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
67553297 TTTTTTTGGT
**
67553307 ATATTTTGGTAAATAAAAAATTTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
67553334 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAAT-AAAAAAAGTTATA
67553362 ATATTTTG
1 ATATTTTG
67553370 ATTATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 14 0.42
28 19 0.58
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:67554044 original size:16 final size:16
Alignment explanation
Indices: 67554023--67554062 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
67554013 CCTACTCCCT
* *
67554023 CCCAATTTAAACTCAG
1 CCCAATTTAAACCCAA
*
67554039 CCCAATATAAACCCAA
1 CCCAATTTAAACCCAA
67554055 CCCAATTT
1 CCCAATTT
67554063 TTTCTTAGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.40, C:0.35, G:0.03, T:0.23
Consensus pattern (16 bp):
CCCAATTTAAACCCAA
Found at i:67554171 original size:43 final size:43
Alignment explanation
Indices: 67554110--67554194 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
67554100 ACCCCTAGCC
67554110 CAGTAGCCTTAGAACCTGCTCATGCTGCCCATTTCTGATTTCT
1 CAGTAGCCTTAGAACCTGCTCATGCTGCCCATTTCTGATTTCT
67554153 CAGTAGCCTTAGAACCTGCTCATGCTGCCCATTTCTGATTTC
1 CAGTAGCCTTAGAACCTGCTCATGCTGCCCATTTCTGATTTC
67554195 ACTTTCACTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (43 bp):
CAGTAGCCTTAGAACCTGCTCATGCTGCCCATTTCTGATTTCT
Found at i:67554611 original size:9 final size:9
Alignment explanation
Indices: 67554597--67554665 Score: 84
Period size: 9 Copynumber: 7.4 Consensus size: 9
67554587 TCAAATTGTC
67554597 AATTCGGGT
1 AATTCGGGT
*
67554606 AATTCGGAT
1 AATTCGGGT
*
67554615 AATTTTCGGTT
1 AA--TTCGGGT
67554626 AATTCGGGT
1 AATTCGGGT
*
67554635 AATTCGGAT
1 AATTCGGGT
*
67554644 AATTTGGGT
1 AATTCGGGT
67554653 AATTCGGGT
1 AATTCGGGT
67554662 AATT
1 AATT
67554666 TTAAACCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
9 43 0.84
11 8 0.16
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (9 bp):
AATTCGGGT
Found at i:67554628 original size:20 final size:20
Alignment explanation
Indices: 67554599--67554638 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
67554589 AAATTGTCAA
67554599 TTCGGGTAATTCGGATAATT
1 TTCGGGTAATTCGGATAATT
* *
67554619 TTCGGTTAATTCGGGTAATT
1 TTCGGGTAATTCGGATAATT
67554639 CGGATAATTT
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:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (20 bp):
TTCGGGTAATTCGGATAATT
Found at i:67554630 original size:29 final size:27
Alignment explanation
Indices: 67554597--67554665 Score: 111
Period size: 29 Copynumber: 2.5 Consensus size: 27
67554587 TCAAATTGTC
*
67554597 AATTCGGGTAATTCGGATAATTTTCGGTT
1 AATTCGGGTAATTCGGATAA-TTT-GGGT
67554626 AATTCGGGTAATTCGGATAATTTGGGT
1 AATTCGGGTAATTCGGATAATTTGGGT
67554653 AATTCGGGTAATT
1 AATTCGGGTAATT
67554666 TTAAACCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 16 0.41
28 3 0.08
29 20 0.51
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (27 bp):
AATTCGGGTAATTCGGATAATTTGGGT
Found at i:67556406 original size:28 final size:28
Alignment explanation
Indices: 67556362--67556417 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
67556352 TTCATGTTGT
*
67556362 TCATGAGGACAATCAGATATATATAAAG
1 TCATGAGGACAACCAGATATATATAAAG
67556390 TCATGAGGACAACCAGATATATATAAAG
1 TCATGAGGACAACCAGATATATATAAAG
67556418 AAAAGGTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.23
Consensus pattern (28 bp):
TCATGAGGACAACCAGATATATATAAAG
Found at i:67559292 original size:33 final size:33
Alignment explanation
Indices: 67559250--67559315 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
67559240 CATGCATTAC
67559250 GAATCGGGACTTATCGTTACTGGATGTCTGAAA
1 GAATCGGGACTTATCGTTACTGGATGTCTGAAA
*
67559283 GAATCGGGACTTATCTTTACTGGATGTCTGAAA
1 GAATCGGGACTTATCGTTACTGGATGTCTGAAA
67559316 AAATGACCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (33 bp):
GAATCGGGACTTATCGTTACTGGATGTCTGAAA
Found at i:67561531 original size:31 final size:31
Alignment explanation
Indices: 67561496--67561554 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
67561486 ATTATTAGAT
*
67561496 TATTTAAAAGTT-TTCATTTAAGTCACTAAAC
1 TATTTAAAAGTTGTT-ATCTAAGTCACTAAAC
**
67561527 TATTTGGAAGTTGTTATCTAAGTCACTA
1 TATTTAAAAGTTGTTATCTAAGTCACTA
67561555 CTTTGTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (31 bp):
TATTTAAAAGTTGTTATCTAAGTCACTAAAC
Found at i:67563143 original size:22 final size:21
Alignment explanation
Indices: 67563117--67563352 Score: 102
Period size: 22 Copynumber: 11.1 Consensus size: 21
67563107 TAGATTAGAA
67563117 TTTTGTATGAATATTCTAACTT
1 TTTTGTATGAATATTCTAA-TT
*
67563139 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
*
67563160 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTCTAATT
* *
67563178 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
* *
67563199 ATTT-TAT--A-ATT-AAATT
1 TTTTGTATGAATATTCTAATT
* * * * *
67563215 TGTATT-TAT-AGTTTTGGATTAGTA
1 T-T-TTGTATGAATATT---CTAATT
*
67563239 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTCTAATT
*
67563258 TTTTGTATGAATATTGTAATTTT
1 TTTTGTATGAATATTCTAA--TT
*
67563281 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTCT-A-A-T-T
67563306 AATTTTGTATGAATATTGC-AATTT
1 --TTTTGTATGAATATT-CTAA-TT
*
67563330 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTCTAATT
67563351 TT
1 TT
67563353 GTAATTTTGT
Statistics
Matches: 173, Mismatches: 17, Indels: 49
0.72 0.07 0.21
Matches are distributed among these distances:
16 4 0.02
17 4 0.02
18 9 0.05
19 33 0.19
20 19 0.11
21 14 0.08
22 37 0.21
23 21 0.12
24 11 0.06
25 5 0.03
26 1 0.01
27 15 0.09
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.56
Consensus pattern (21 bp):
TTTTGTATGAATATTCTAATT
Found at i:67563189 original size:61 final size:60
Alignment explanation
Indices: 67563119--67563300 Score: 171
Period size: 61 Copynumber: 3.0 Consensus size: 60
67563109 GATTAGAATT
*
67563119 TTGTATGAATATTCTAACTTTTTTGTATGAATATTGTAATTTTTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAA-TTTTTTGTATGAATATTGTAATTTTTTTATGAATATTGTAATG
* * * *
67563180 TTGTATGAATATTGTAATTATTTTATAATTAA-ATTTGT-ATTTATAGTTT-TGGAT-TAGT-AT
1 TTGTATGAATATTGTAATT-TTTTGT-ATGAATA-TTGTAATTT-T--TTTATGAATATTGTAAT
*
67563240 T
60 G
67563241 TTGTATGAATATTGTAA--TTTTGTATGAATATTGTAATTTTTTTTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAATTTTTTGTATGAATATTGTAA--TTTTTT-TATGAATATTGTAAT
67563301 ATTATAATTT
Statistics
Matches: 97, Mismatches: 10, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
57 10 0.10
58 8 0.08
59 5 0.05
60 8 0.08
61 47 0.48
62 12 0.12
63 4 0.04
64 3 0.03
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (60 bp):
TTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTTATGAATATTGTAATG
Found at i:67563286 original size:69 final size:70
Alignment explanation
Indices: 67563238--67563399 Score: 200
Period size: 76 Copynumber: 2.2 Consensus size: 70
67563228 TTGGATTAGT
* * *
67563238 ATTTTGTATGAATATTGTAA-TTTTGTATGAATATTGTAATTTTTTTTGTATGAATATTGTAATA
1 ATTTTGTATGAATATTGCAATTTTTGTATGAATATTATAATTTTTTTTGTATGAATATTGTAAGA
67563302 TTATA
66 TTATA
*
67563307 ATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTATAATTTTGTAATTTTGTATAAATATT
1 ATTTTGTATGAATATTGCAA--TTTTTGTATGAATATTATAA-TTT-T--TTTTGTATGAATATT
** *
67563372 GTAATTTTGTA
60 GTAAGATTATA
67563383 ATTTTGTATGAATATTG
1 ATTTTGTATGAATATTG
67563400 TAATGTCGGG
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
69 19 0.23
72 18 0.22
73 3 0.04
74 1 0.01
76 40 0.49
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (70 bp):
ATTTTGTATGAATATTGCAATTTTTGTATGAATATTATAATTTTTTTTGTATGAATATTGTAAGA
TTATA
Found at i:67563298 original size:80 final size:82
Alignment explanation
Indices: 67563159--67563312 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 82
67563149 ATATTGTAAT
* *
67563159 TTTTTTATGAATATTGTAATGTTGTATGAATATTGTAATTATTTTATAATTAAATTTGT-AT-TT
1 TTTTGTATGAATATTGTAATGTTGTATGAATATTGTAATTATTTTATAATGAAATTTGTAATATT
*
67563222 ATAGTTTTGGATTAGTA
66 ATAATTTTGGATTAGTA
* * *
67563239 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATT-TTTTTTGTATG-AATATTGTAATA
1 TTTTGTATGAATATTGTAATGTTGTATGAATATTGTAATTATTTTAT-AATGAAAT-TTGTAATA
67563302 TTATAATTTTG
64 TTATAATTTTG
67563313 TATGAATATT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 8 0.12
80 44 0.69
81 2 0.03
82 10 0.16
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.56
Consensus pattern (82 bp):
TTTTGTATGAATATTGTAATGTTGTATGAATATTGTAATTATTTTATAATGAAATTTGTAATATT
ATAATTTTGGATTAGTA
Found at i:67563319 original size:27 final size:27
Alignment explanation
Indices: 67563248--67563403 Score: 195
Period size: 27 Copynumber: 6.1 Consensus size: 27
67563238 ATTTTGTATG
67563248 AATATTGTAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
67563275 AAT-TT-T--TTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
*
67563298 AATATTATAATTTTGTATGAATATTG-
1 AATATTGTAATTTTGTATGAATATTGT
* *
67563324 CA-ATT-T--TTTTGTATGAATATTAT
1 AATATTGTAATTTTGTATGAATATTGT
* *
67563347 AATTTTGTAATTTTGTATAAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
*
67563374 AATTTTGTAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
67563401 AAT
1 AAT
67563404 GTCGGGATAT
Statistics
Matches: 113, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
22 15 0.13
23 21 0.19
24 5 0.04
25 6 0.05
26 3 0.03
27 63 0.56
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (27 bp):
AATATTGTAATTTTGTATGAATATTGT
Found at i:67563358 original size:49 final size:49
Alignment explanation
Indices: 67563248--67563379 Score: 210
Period size: 49 Copynumber: 2.7 Consensus size: 49
67563238 ATTTTGTATG
*
67563248 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAA-TTTTTTTGTATGAATATTAT
* *
67563298 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTAT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTAT
* *
67563347 AATTTTGTAATTTTGTATAAATATTGTAATTTT
1 AATATTGTAATTTTGTATGAATATTGTAATTTT
67563380 GTAATTTTGT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
49 48 0.64
50 27 0.36
ACGTcount: A:0.33, C:0.01, G:0.11, T:0.55
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTAT
Found at i:67563359 original size:8 final size:8
Alignment explanation
Indices: 67563346--67563390 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
67563336 ATGAATATTA
67563346 TAATTTTG
1 TAATTTTG
67563354 TAATTTTG
1 TAATTTTG
*
67563362 TATAAATATTG
1 --T-AATTTTG
67563373 TAATTTTG
1 TAATTTTG
67563381 TAATTTTG
1 TAATTTTG
67563389 TA
1 TA
67563391 TGAATATTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 24 0.75
9 1 0.03
10 1 0.03
11 6 0.19
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (8 bp):
TAATTTTG
Found at i:67563403 original size:19 final size:19
Alignment explanation
Indices: 67563115--67563355 Score: 153
Period size: 19 Copynumber: 12.5 Consensus size: 19
67563105 TTTAGATTAG
*
67563115 AATTTTGTATGAATATTCT
1 AATTTTGTATGAATATTGT
67563134 AACTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
*
67563156 AATTTTTTTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
*
67563176 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
67563195 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
67563218 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
67563238 -ATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
67563256 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
* *
67563275 AATTTTTTTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
67563290 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
*
67563306 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
67563325 AATTTTTTTGTATGAATATTAT
1 AA---TTTTGTATGAATATTGT
67563347 AATTTTGTA
1 AATTTTGTA
67563356 ATTTTGTATA
Statistics
Matches: 175, Mismatches: 23, Indels: 48
0.71 0.09 0.20
Matches are distributed among these distances:
13 1 0.01
14 2 0.01
15 6 0.03
16 8 0.05
17 7 0.04
18 5 0.03
19 65 0.37
20 32 0.18
21 1 0.01
22 40 0.23
23 4 0.02
24 3 0.02
25 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:67563444 original size:21 final size:22
Alignment explanation
Indices: 67563419--67563459 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
67563409 GATATATTGT
67563419 AATATTGTAATT-TTTTATATG
1 AATATTGTAATTATTTTATATG
67563440 AATATTGTAATTATTTTATA
1 AATATTGTAATTATTTTATA
67563460 ATTAATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (22 bp):
AATATTGTAATTATTTTATATG
Found at i:67563513 original size:60 final size:60
Alignment explanation
Indices: 67563444--67563565 Score: 167
Period size: 60 Copynumber: 2.0 Consensus size: 60
67563434 TATATGAATA
* * * *
67563444 TTGTAATTATTTTATAA-TTAATTTGTTAGTAATTT-GAGATTATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAG-GATTAAGCTATAAATTTTTGTGT
*
67563504 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTTTTGTGT
1 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTTTTGTGT
67563564 TT
1 TT
67563566 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
59 6 0.11
60 48 0.87
61 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTTTTGTGT
Found at i:67563644 original size:38 final size:38
Alignment explanation
Indices: 67563599--67563680 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
67563589 CATATAAAGT
*
67563599 TTATAAAAAAATTAAAAATTATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
67563637 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
67563675 TTATAA
1 TTATAA
67563681 CTGACTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:67564986 original size:24 final size:24
Alignment explanation
Indices: 67564952--67565017 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
67564942 TCAATAAATA
67564952 AAAAATGAATAAAATTATTAAATA-TT
1 AAAAAT-AATAAAA-TA-TAAATATTT
*
67564978 -AAAATAATATAATATAAATATTT
1 AAAAATAATAAAATATAAATATTT
*
67565001 AAAAAAAATAAAA-ATAA
1 AAAAATAATAAAATATAA
67565018 TATGGCCAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 6 0.17
23 8 0.23
24 16 0.46
25 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAAATAATAAAATATAAATATTT
Found at i:67565011 original size:22 final size:21
Alignment explanation
Indices: 67564959--67565011 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
67564949 ATAAAAAATG
*
67564959 AATAAAATTATTAAATATTAA
1 AATAAAATAATTAAATATTAA
*
67564980 AATAATATAATATAAATATTTAA
1 AATAAAATAAT-TAAATA-TTAA
67565003 AA-AAAATAA
1 AATAAAATAA
67565012 AAATAATATG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.33
22 12 0.44
23 6 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AATAAAATAATTAAATATTAA
Found at i:67575926 original size:23 final size:22
Alignment explanation
Indices: 67575879--67575922 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
67575869 ATAAAATTAT
* *
67575879 TAAATATTAAAATAATATAATA
1 TAAATATTAAAAAAATATAAAA
67575901 TAAATATTTAAAAAAAT-TAAAA
1 TAAATA-TTAAAAAAATATAAAA
67575923 ATAATATGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAATATTAAAAAAATATAAAA
Found at i:67579351 original size:32 final size:32
Alignment explanation
Indices: 67579291--67579351 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
67579281 GGCTGTAATA
* *
67579291 TTTGATGCTTTGTTTTCTTTTGAGTATTTTGG
1 TTTGATGCTTTGATTTCTGTTGAGTATTTTGG
*
67579323 TTTGATGCTTTTGATTTGTGTTGA-TATTT
1 TTTGATGC-TTTGATTTCTGTTGAGTATTT
67579352 GAGTGTAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 13 0.52
33 12 0.48
ACGTcount: A:0.11, C:0.05, G:0.21, T:0.62
Consensus pattern (32 bp):
TTTGATGCTTTGATTTCTGTTGAGTATTTTGG
Found at i:67588539 original size:77 final size:77
Alignment explanation
Indices: 67588412--67588570 Score: 275
Period size: 77 Copynumber: 2.1 Consensus size: 77
67588402 AGAAGATGGA
67588412 TCCCAAGTGGTTGTTGCTGGGAAAAGCAAATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGAA
1 TCCCAAGTGGTTGTTGCTGGGAAAAGCAAATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGAA
* *
67588477 ATTCTTGCACCC
66 ACTATTGCACCC
*
67588489 TCCCAAGTGGTTGTTGCTGGGAGAAG-ACAATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGA
1 TCCCAAGTGGTTGTTGCTGGGAAAAGCA-AATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGA
67588553 AACTATTGCACCC
65 AACTATTGCACCC
67588566 TCCCA
1 TCCCA
67588571 TTTTTCCGTC
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 1 0.01
77 77 0.99
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (77 bp):
TCCCAAGTGGTTGTTGCTGGGAAAAGCAAATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGAA
ACTATTGCACCC
Found at i:67589512 original size:23 final size:24
Alignment explanation
Indices: 67589445--67589513 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
67589435 AATTTCAATA
* *
67589445 AAAAAATATAAAATTATTAAATATT
1 AAAAAATATAAAATTAAT-ATTATT
* * *
67589470 AAAATAATATAATATAAATATTTTT
1 AAAA-AATATAAAATTAATATTATT
67589495 AAAAAA-ATAAAATTAATAT
1 AAAAAATATAAAATTAATAT
67589514 GAACAGGGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 11 0.31
24 2 0.06
25 12 0.33
26 11 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAAAATATAAAATTAATATTATT
Found at i:67591854 original size:153 final size:152
Alignment explanation
Indices: 67591576--67591891 Score: 569
Period size: 153 Copynumber: 2.1 Consensus size: 152
67591566 TCCTATCCCT
* * * *
67591576 TCTTCTGGAAATGACACCACACGTGAGCATCCCTCACCGCCGATATTGAGCTCTTGAGTGGAGGT
1 TCTTCTGGGAATGACACCACACGTGAGCATCCCTCACCGCCAATAGTGAGCTCTTGAGTAGAGGT
67591641 GAGTCTATTTAATCCCCATTCAACAAGTGATGTATACATTTTGGGTCCATTTGAGATTTCAAGTG
66 GAGTCTATTTAATCCCCATTCAACAAGTGATGTATACATTTTGGGTCCATTTGAGATTTCAAGTG
*
67591706 ATGTGAGATTCGTAGGGAAACCC
131 ATGTGAGATTCGTAAGGAAA-CC
67591729 TCTTCTGGGAATGACACCACACGTGAGCATCCCTCACCGCCAATAGTGAGCTCTTGAGTAGAGGT
1 TCTTCTGGGAATGACACCACACGTGAGCATCCCTCACCGCCAATAGTGAGCTCTTGAGTAGAGGT
*
67591794 GAGTCTATTTAATCCCCATTCAACAAGTGATGTATATATTTTGGGTCCATTTGAGATTTCAAGTG
66 GAGTCTATTTAATCCCCATTCAACAAGTGATGTATACATTTTGGGTCCATTTGAGATTTCAAGTG
67591859 ATGTGAGATTCGTAAGGAAACC
131 ATGTGAGATTCGTAAGGAAACC
67591881 TCTTCTGGGAA
1 TCTTCTGGGAA
67591892 GGATATATCA
Statistics
Matches: 157, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
152 13 0.08
153 144 0.92
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (152 bp):
TCTTCTGGGAATGACACCACACGTGAGCATCCCTCACCGCCAATAGTGAGCTCTTGAGTAGAGGT
GAGTCTATTTAATCCCCATTCAACAAGTGATGTATACATTTTGGGTCCATTTGAGATTTCAAGTG
ATGTGAGATTCGTAAGGAAACC
Found at i:67606579 original size:32 final size:31
Alignment explanation
Indices: 67606533--67606778 Score: 161
Period size: 32 Copynumber: 8.0 Consensus size: 31
67606523 TCTTAGATAA
67606533 TTTTAAAGAGTTTTATTAGGATTCAATTACT
1 TTTTAAAGAGTTTTATTAGGATTCAATTACT
*
67606564 TTTTAAAGAGTTTTTATTAGGATTCAATTGCT
1 TTTTAAAGAG-TTTTATTAGGATTCAATTACT
* *
67606596 CTTGAAAGAGTTTTATTAGGATTCAATTACT
1 TTTTAAAGAGTTTTATTAGGATTCAATTACT
* * ** * * * * ***
67606627 CTTGTAATTTGCCTATAAATAGGCTTGTTTGTTA-T
1 -TTTTAA--AGAGTTTTATTAGG-AT-TCAATTACT
*** *
67606662 TATTTATTTA-TTTTCTTA-GA-T--A--A--
1 T-TTTAAAGAGTTTTATTAGGATTCAATTACT
67606685 TTTTAAAGAGTTTTATTAGGATTCAATTACT
1 TTTTAAAGAGTTTTATTAGGATTCAATTACT
*
67606716 CTTTAAAGAGTTTTTATTAGGATTCAATTACT
1 TTTTAAAGAG-TTTTATTAGGATTCAATTACT
* *
67606748 CTTGAAAGAGTTTTATTAGGATTCAATTACT
1 TTTTAAAGAGTTTTATTAGGATTCAATTACT
67606779 CTTGTAATTT
Statistics
Matches: 165, Mismatches: 33, Indels: 34
0.71 0.14 0.15
Matches are distributed among these distances:
22 5 0.03
23 8 0.05
24 3 0.02
25 1 0.01
27 1 0.01
28 1 0.01
29 1 0.01
31 61 0.37
32 65 0.39
33 1 0.01
34 9 0.05
35 5 0.03
36 4 0.02
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (31 bp):
TTTTAAAGAGTTTTATTAGGATTCAATTACT
Found at i:67606686 original size:152 final size:152
Alignment explanation
Indices: 67606505--67606808 Score: 590
Period size: 152 Copynumber: 2.0 Consensus size: 152
67606495 TATTGGTTAG
*
67606505 GTTATTATTTATTTATTTTCTTAGATAATTTTAAAGAGTTTTATTAGGATTCAATTACTTTTTAA
1 GTTATTATTTATTTATTTTCTTAGATAATTTTAAAGAGTTTTATTAGGATTCAATTACTCTTTAA
*
67606570 AGAGTTTTTATTAGGATTCAATTGCTCTTGAAAGAGTTTTATTAGGATTCAATTACTCTTGTAAT
66 AGAGTTTTTATTAGGATTCAATTACTCTTGAAAGAGTTTTATTAGGATTCAATTACTCTTGTAAT
67606635 TTGCCTATAAATAGGCTTGTTT
131 TTGCCTATAAATAGGCTTGTTT
67606657 GTTATTATTTATTTATTTTCTTAGATAATTTTAAAGAGTTTTATTAGGATTCAATTACTCTTTAA
1 GTTATTATTTATTTATTTTCTTAGATAATTTTAAAGAGTTTTATTAGGATTCAATTACTCTTTAA
67606722 AGAGTTTTTATTAGGATTCAATTACTCTTGAAAGAGTTTTATTAGGATTCAATTACTCTTGTAAT
66 AGAGTTTTTATTAGGATTCAATTACTCTTGAAAGAGTTTTATTAGGATTCAATTACTCTTGTAAT
67606787 TTGCCTATAAATAGGCTTGTTT
131 TTGCCTATAAATAGGCTTGTTT
67606809 TCTACACATT
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 150 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.49
Consensus pattern (152 bp):
GTTATTATTTATTTATTTTCTTAGATAATTTTAAAGAGTTTTATTAGGATTCAATTACTCTTTAA
AGAGTTTTTATTAGGATTCAATTACTCTTGAAAGAGTTTTATTAGGATTCAATTACTCTTGTAAT
TTGCCTATAAATAGGCTTGTTT
Found at i:67606779 original size:31 final size:31
Alignment explanation
Indices: 67606689--67606782 Score: 170
Period size: 31 Copynumber: 3.0 Consensus size: 31
67606679 AGATAATTTT
*
67606689 AAAGAGTTTTATTAGGATTCAATTACTCTTT
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
67606720 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
67606752 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
67606783 TAATTTGCCT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 31 0.51
32 30 0.49
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:67617537 original size:28 final size:28
Alignment explanation
Indices: 67617494--67617549 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
67617484 ATCATGTTGT
*
67617494 TCATGAGGACAGTCAGATATATATAAAG
1 TCATGAGGACAATCAGATATATATAAAG
67617522 TCATGAGGACAATCAGATATATATAAAG
1 TCATGAGGACAATCAGATATATATAAAG
67617550 AAAAGGTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.25
Consensus pattern (28 bp):
TCATGAGGACAATCAGATATATATAAAG
Found at i:67624523 original size:1 final size:1
Alignment explanation
Indices: 67624517--67624544 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
67624507 GCTTTAATTT
67624517 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
67624545 GAACAACTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:67624739 original size:13 final size:13
Alignment explanation
Indices: 67624721--67624745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67624711 AGTTCTTTAT
67624721 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
67624734 TGCTTTTGAGAA
1 TGCTTTTGAGAA
67624746 ATTTGAGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:67625403 original size:44 final size:44
Alignment explanation
Indices: 67625355--67625448 Score: 179
Period size: 44 Copynumber: 2.1 Consensus size: 44
67625345 TATATTCAAT
*
67625355 AAATGATTTGGTTAATATAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
67625399 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
67625443 AAATGA
1 AAATGA
67625449 AAGTCGAGAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (44 bp):
AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
Done.