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 36 of 199
Found at i:11079501 original size:49 final size:51
Alignment explanation
Indices: 11079424--11079541 Score: 161
Period size: 49 Copynumber: 2.4 Consensus size: 51
11079414 TTCATGTACA
* * * *
11079424 GGTATGCTCATAAGAGCT-ATGAATCGGTATGCTCTCACGAGCTGTGAATC
1 GGTAAGCTCATACGAGCTGATGAATCGGTAAGCTCTCACGAGCTGTAAATC
*
11079474 GG-AAGCTCATACGAGCTGA-GAATCGGTAAGCTCTCACGAGCTGTAAATT
1 GGTAAGCTCATACGAGCTGATGAATCGGTAAGCTCTCACGAGCTGTAAATC
*
11079523 GGTAAGTTCATACGAGCTG
1 GGTAAGCTCATACGAGCTG
11079542 TGGTGTGTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
49 42 0.70
50 18 0.30
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (51 bp):
GGTAAGCTCATACGAGCTGATGAATCGGTAAGCTCTCACGAGCTGTAAATC
Found at i:11079541 original size:25 final size:25
Alignment explanation
Indices: 11079424--11079542 Score: 111
Period size: 25 Copynumber: 4.8 Consensus size: 25
11079414 TTCATGTACA
* * * *
11079424 GGTATGCTCATAAGAGCTATGAATC
1 GGTAAGCTCATACGAGCTGTAAATC
* *
11079449 GGTATGCTC-TCACGAGCTGTGAATC
1 GGTAAGCTCAT-ACGAGCTGTAAATC
11079474 GG-AAGCTCATACGAGCTG-AGAATC
1 GGTAAGCTCATACGAGCTGTA-AATC
*
11079498 GGTAAGCTC-TCACGAGCTGTAAATT
1 GGTAAGCTCAT-ACGAGCTGTAAATC
*
11079523 GGTAAGTTCATACGAGCTGT
1 GGTAAGCTCATACGAGCTGT
11079543 GGTGTGTCCA
Statistics
Matches: 81, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
24 21 0.26
25 58 0.72
26 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (25 bp):
GGTAAGCTCATACGAGCTGTAAATC
Found at i:11082513 original size:23 final size:23
Alignment explanation
Indices: 11082481--11082541 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
11082471 GAATAGGAAC
* * **
11082481 AAGTACTAGAAGATGCGGTGTAG
1 AAGTATTAGAAGATGCAGAATAG
11082504 AAGTATTAGAAGATGCAGAATAG
1 AAGTATTAGAAGATGCAGAATAG
11082527 AAGTATTAGAAGATG
1 AAGTATTAGAAGATG
11082542 TAGTGTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.43, C:0.05, G:0.30, T:0.23
Consensus pattern (23 bp):
AAGTATTAGAAGATGCAGAATAG
Found at i:11082806 original size:57 final size:57
Alignment explanation
Indices: 11082718--11082832 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
11082708 GAACTATGCC
*
11082718 AGTGTGATTGGAAAGTACTTTTTAAATAAGTACCAAGAGAGGTGAACTCGACTACTG
1 AGTGTGATTGGAAAGTACTCTTTAAATAAGTACCAAGAGAGGTGAACTCGACTACTG
* *
11082775 AGTGTGATTGGAAAGTACTCTTTAAATAAGTACTAAGAGAGGTGAACTGGACTACTG
1 AGTGTGATTGGAAAGTACTCTTTAAATAAGTACCAAGAGAGGTGAACTCGACTACTG
11082832 A
1 A
11082833 TATTTTAGCT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (57 bp):
AGTGTGATTGGAAAGTACTCTTTAAATAAGTACCAAGAGAGGTGAACTCGACTACTG
Found at i:11085608 original size:24 final size:24
Alignment explanation
Indices: 11085574--11085619 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
11085564 ATTACACATA
*
11085574 CCTGTATATTCTTCTTATCATCTT
1 CCTGTACATTCTTCTTATCATCTT
11085598 CCTGTACATTCTTCTTATCATC
1 CCTGTACATTCTTCTTATCATC
11085620 ATTTCCAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.28, G:0.04, T:0.50
Consensus pattern (24 bp):
CCTGTACATTCTTCTTATCATCTT
Found at i:11089611 original size:11 final size:10
Alignment explanation
Indices: 11089587--11089632 Score: 51
Period size: 9 Copynumber: 4.5 Consensus size: 10
11089577 ACTTCTTGTT
11089587 ATTTTT-TGA
1 ATTTTTATGA
11089596 ATTTTTATGAA
1 ATTTTTATG-A
11089607 ATTTTTAT-A
1 ATTTTTATGA
11089616 ATTTCTTATTGA
1 ATTT-TTA-TGA
11089628 ATTTT
1 ATTTT
11089633 ATTTTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 11 0.34
10 5 0.16
11 11 0.34
12 5 0.16
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (10 bp):
ATTTTTATGA
Found at i:11089624 original size:21 final size:20
Alignment explanation
Indices: 11089587--11089632 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 20
11089577 ACTTCTTGTT
11089587 ATTTTTTGAATTTTTA-TGAA
1 ATTTTTTGAATTTTTATTG-A
11089607 ATTTTTAT-AATTTCTTATTGA
1 ATTTTT-TGAATTT-TTATTGA
11089628 ATTTT
1 ATTTT
11089633 ATTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 11 0.48
21 10 0.43
22 2 0.09
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (20 bp):
ATTTTTTGAATTTTTATTGA
Found at i:11098376 original size:19 final size:20
Alignment explanation
Indices: 11098331--11098376 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
11098321 ATAACTTAAA
11098331 TAAAA-TTTTTTGAATATTT
1 TAAAATTTTTTTGAATATTT
*
11098350 TAATAATTTTTTTGACT-TTT
1 TAA-AATTTTTTTGAATATTT
11098370 TAAAATT
1 TAAAATT
11098377 AAATGCTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (20 bp):
TAAAATTTTTTTGAATATTT
Found at i:11099970 original size:42 final size:42
Alignment explanation
Indices: 11099909--11100039 Score: 183
Period size: 42 Copynumber: 3.1 Consensus size: 42
11099899 TCCTCCAAAG
*
11099909 CCACCTAAGCCTCCCGTGGTAAACCCACCATATCACCCTAAA
1 CCACCTAAGCCTCCGGTGGTAAACCCACCATATCACCCTAAA
* * * * *
11099951 CCACCGAAGCCACCGGTGGTGAAGCCACCGTATCACCCTAAA
1 CCACCTAAGCCTCCGGTGGTAAACCCACCATATCACCCTAAA
*
11099993 CCACCTAAGCCTCCGATGGTGAAACCC-CCATATCACCCTAAA
1 CCACCTAAGCCTCCGGTGGT-AAACCCACCATATCACCCTAAA
11100035 CCACC
1 CCACC
11100040 AAAACATCCA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
42 72 0.95
43 4 0.05
ACGTcount: A:0.30, C:0.42, G:0.14, T:0.15
Consensus pattern (42 bp):
CCACCTAAGCCTCCGGTGGTAAACCCACCATATCACCCTAAA
Found at i:11100162 original size:36 final size:36
Alignment explanation
Indices: 11100105--11100312 Score: 371
Period size: 36 Copynumber: 5.8 Consensus size: 36
11100095 AAGCCACCTA
* * *
11100105 TTGTAAAGCCTCCACCGTATACACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
11100141 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
11100177 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
11100213 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
* *
11100249 TTGTGAAGCCTCCGCCATATGCACCCAAACTGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
11100285 TTGTGAAGCCTCCGCCATATACACCCAA
1 TTGTGAAGCCTCCGCCATATACACCCAA
11100313 GCCACCTTAC
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 166 1.00
ACGTcount: A:0.25, C:0.38, G:0.19, T:0.18
Consensus pattern (36 bp):
TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
Found at i:11100456 original size:143 final size:144
Alignment explanation
Indices: 11100251--11100545 Score: 538
Period size: 143 Copynumber: 2.1 Consensus size: 144
11100241 ACCGCCGGTT
* * * *
11100251 GTGAAGCCTCCGCCATATGCACCCAAACTGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCC
1 GTGAACCCTCCACCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCC
*
11100316 ACCTTACTATCCAATACCGCCGGTCATCTCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
66 ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
11100381 CCAGTCCACCAATA
131 CCAGTCCACCAATA
11100395 GTGAACCCTCCACCATATACACCC-AACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCC
1 GTGAACCCTCCACCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCC
11100459 ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
66 ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
11100524 CCAGTCCACCAATA
131 CCAGTCCACCAATA
11100538 GTGAACCC
1 GTGAACCC
11100546 ACCAACACCG
Statistics
Matches: 146, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
143 125 0.86
144 21 0.14
ACGTcount: A:0.28, C:0.42, G:0.13, T:0.17
Consensus pattern (144 bp):
GTGAACCCTCCACCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCC
ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
CCAGTCCACCAATA
Found at i:11100634 original size:24 final size:24
Alignment explanation
Indices: 11100566--11100659 Score: 82
Period size: 24 Copynumber: 3.9 Consensus size: 24
11100556 CCGATTCTGC
*
11100566 CACCTCCTATTGTGAATCCACCAA
1 CACCTCCTATTGTGAACCCACCAA
* * * * *
11100590 CACCGCCGATTCT-ACCACCACCAT
1 CACCTCCTATTGTGAAC-CCACCAA
*
11100614 CACCACCTATTGTGAACCCACCAA
1 CACCTCCTATTGTGAACCCACCAA
* * *
11100638 CGCCTCCTATCGTGAAGCCACC
1 CACCTCCTATTGTGAACCCACC
11100660 TTCACCGGGA
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
23 1 0.02
24 50 0.94
25 2 0.04
ACGTcount: A:0.27, C:0.44, G:0.11, T:0.19
Consensus pattern (24 bp):
CACCTCCTATTGTGAACCCACCAA
Found at i:11107024 original size:16 final size:16
Alignment explanation
Indices: 11107003--11107041 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
11106993 TTATCATATT
* *
11107003 TTTAATTATTGTTTGA
1 TTTAATTATCGTTTAA
11107019 TTTAATTATCGTTTAA
1 TTTAATTATCGTTTAA
11107035 TTTAATT
1 TTTAATT
11107042 TGGTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTAATTATCGTTTAA
Found at i:11107068 original size:167 final size:167
Alignment explanation
Indices: 11106871--11107192 Score: 495
Period size: 167 Copynumber: 1.9 Consensus size: 167
11106861 CTTATTCTTG
11106871 AATTTGGTAATTTTTCATCTTAAATTTTAATTTTTTATTACATTTTCTCAATTTA-TTCATTAAA
1 AATTTGGTAATTTTTCATCTTAAATTTTAATTTTTTATTACATTTTCTCAATTTAGTT-ATTAAA
* * * * *
11106935 TTTAGATTTGGTTAAAATGCGATCATGC-ATCACTTTGGTTGAAATTTAGAATATCACGTTATCA
65 TTTAGATTTAGTTAAAATGCGATCATGCGA-CACTTTGGCTGAAATTTAGAACATCACATGATCA
* *
11106999 TATTTTTAATTATTGTTTGATTTAATTATCGTTTAATTT
129 CATTTTTAATTATCGTTTGATTTAATTATCGTTTAATTT
*
11107038 AATTTGGTAATTTTTCATCTTAACTTTTAATTTTTTATTACATTTTCTCAATTTAGTTATTAAAT
1 AATTTGGTAATTTTTCATCTTAAATTTTAATTTTTTATTACATTTTCTCAATTTAGTTATTAAAT
* * * * *
11107103 TTAGATTTAGTTAAAATGTGATGATGCGAGATTTTGGCTGAAATTTAGAACATCACATGATCACG
66 TTAGATTTAGTTAAAATGCGATCATGCGACACTTTGGCTGAAATTTAGAACATCACATGATCACA
11107168 TTTTTAATTATCGTTTGATTTAATT
131 TTTTTAATTATCGTTTGATTTAATT
11107193 TACCAGGTTA
Statistics
Matches: 140, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
167 137 0.98
168 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (167 bp):
AATTTGGTAATTTTTCATCTTAAATTTTAATTTTTTATTACATTTTCTCAATTTAGTTATTAAAT
TTAGATTTAGTTAAAATGCGATCATGCGACACTTTGGCTGAAATTTAGAACATCACATGATCACA
TTTTTAATTATCGTTTGATTTAATTATCGTTTAATTT
Found at i:11107527 original size:7 final size:7
Alignment explanation
Indices: 11107515--11107541 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11107505 AAATAAAGGA
11107515 AATAAAC
1 AATAAAC
11107522 AATAAAC
1 AATAAAC
11107529 AATAAAC
1 AATAAAC
11107536 AATAAA
1 AATAAA
11107542 AACACTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (7 bp):
AATAAAC
Found at i:11107698 original size:80 final size:80
Alignment explanation
Indices: 11107604--11107770 Score: 334
Period size: 80 Copynumber: 2.1 Consensus size: 80
11107594 AAAAATTACT
11107604 TTTTAAATTAAAAATTTTCAATGTATAAGCATATATATAACAAAATAGAATTTTGAATAATTTTA
1 TTTTAAATTAAAAATTTTCAATGTATAAGCATATATATAACAAAATAGAATTTTGAATAATTTTA
11107669 GTGATAATTAGTTCC
66 GTGATAATTAGTTCC
11107684 TTTTAAATTAAAAATTTTCAATGTATAAGCATATATATAACAAAATAGAATTTTGAATAATTTTA
1 TTTTAAATTAAAAATTTTCAATGTATAAGCATATATATAACAAAATAGAATTTTGAATAATTTTA
11107749 GTGATAATTAGTTCC
66 GTGATAATTAGTTCC
11107764 TTTTAAA
1 TTTTAAA
11107771 ACATTTATAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 87 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (80 bp):
TTTTAAATTAAAAATTTTCAATGTATAAGCATATATATAACAAAATAGAATTTTGAATAATTTTA
GTGATAATTAGTTCC
Found at i:11127455 original size:21 final size:19
Alignment explanation
Indices: 11127416--11127476 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 19
11127406 CATATCCAAT
**
11127416 AAATTTTAATTAAAAATAATA
1 AAATTTTAATT-ATTATAA-A
11127437 AAATTTTAATTAGTTATAAA
1 AAATTTTAATTA-TTATAAA
*
11127457 AACATTTTAATGATTATAAA
1 AA-ATTTTAATTATTATAAA
11127477 TTGTAATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 11 0.31
21 24 0.69
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (19 bp):
AAATTTTAATTATTATAAA
Found at i:11128086 original size:33 final size:33
Alignment explanation
Indices: 11128039--11128103 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
11128029 GTAGAGGGAT
* *
11128039 TAAATTCTTGAAAATAAAAGTATAGGGACTAAC
1 TAAATTCTTAAAAATAAAAGTATAAGGACTAAC
11128072 TAAATTCTTAAAAATAAAAGTATAAGGACTAA
1 TAAATTCTTAAAAATAAAAGTATAAGGACTAA
11128104 ATTCTAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (33 bp):
TAAATTCTTAAAAATAAAAGTATAAGGACTAAC
Found at i:11128103 original size:29 final size:29
Alignment explanation
Indices: 11128025--11128108 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 29
11128015 TTTAAATTTG
* * *
11128025 AAAAGTAGAGGGATTAAATTCTTGAAAAT
1 AAAAGTATAGGGACTAAATTCTTAAAAAT
11128054 AAAAGTATAGGGACTAACTAAATTCTTAAAAAT
1 AAAAGTATAGGG----ACTAAATTCTTAAAAAT
*
11128087 AAAAGTATAAGGACTAAATTCT
1 AAAAGTATAGGGACTAAATTCT
11128109 AAATTTGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
29 21 0.45
33 26 0.55
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.27
Consensus pattern (29 bp):
AAAAGTATAGGGACTAAATTCTTAAAAAT
Found at i:11128302 original size:18 final size:20
Alignment explanation
Indices: 11128267--11128308 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 20
11128257 TTTAAAATTA
11128267 TAATAATTTATATTGATATAT
1 TAATAATTTATA-TGATATAT
*
11128288 TAATAATTT-TA-GATATTT
1 TAATAATTTATATGATATAT
11128306 TAA
1 TAA
11128309 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
TAATAATTTATATGATATAT
Found at i:11131538 original size:37 final size:37
Alignment explanation
Indices: 11131475--11131587 Score: 99
Period size: 37 Copynumber: 3.1 Consensus size: 37
11131465 TTTCTAAAAA
*
11131475 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
11131511 TAATATTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
* * * *
11131549 AAAGTGATTATCTTAATA-TTAAAT-TTAATTTAATGTT
1 TAA-T-ATTATCTTAATAGTTTAATATTAAATTAATATT
11131586 TA
1 TA
11131588 TCTTGTAGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
36 5 0.08
37 36 0.57
38 9 0.14
39 12 0.19
40 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:11131550 original size:11 final size:11
Alignment explanation
Indices: 11131475--11131550 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
11131465 TTTCTAAAAA
*
11131475 TAATATTATTT
1 TAATATTAATT
11131486 TAATAGTTTAATAT
1 TAATA--TTAAT-T
11131500 TAA-ATTAAATT
1 TAATATT-AATT
*
11131511 TAATATTTATCT
1 TAATATTAAT-T
*
11131523 TAATAGT-ATT
1 TAATATTAATT
11131533 T--TATTAATT
1 TAATATTAATT
11131542 TAATATTAA
1 TAATATTAA
11131551 AGTGATTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 13 0.25
13 5 0.10
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:11131577 original size:51 final size:48
Alignment explanation
Indices: 11131475--11131570 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
11131465 TTTCTAAAAA
* * * *
11131475 TAATATTATTTTAATAGTTTAATATTAAATTAAATTTAATATTTATCT
1 TAATAGTATTTTAATAATTTAATATTAAATGAAATTTAATATTAATCT
* *
11131523 TAATAGTATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTAA
1 TAATAGTATTTTAATAATTTAATATTAAA-TGA-AAT-TTAATATTAA
11131571 ATTTAATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
48 26 0.67
49 2 0.05
50 2 0.05
51 9 0.23
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (48 bp):
TAATAGTATTTTAATAATTTAATATTAAATGAAATTTAATATTAATCT
Found at i:11134764 original size:16 final size:16
Alignment explanation
Indices: 11134743--11134773 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11134733 ATATACTAAA
11134743 TAAAATAATAAAATAC
1 TAAAATAATAAAATAC
*
11134759 TAAAATACTAAAATA
1 TAAAATAATAAAATA
11134774 TTATTTAAAA
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:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAATAATAAAATAC
Found at i:11135936 original size:17 final size:17
Alignment explanation
Indices: 11135898--11135936 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
11135888 TTTTAATCTA
* *
11135898 ATATTTAATATTTTTAT
1 ATATTTAAAATTTATAT
*
11135915 TTATTTAAAATTTATAT
1 ATATTTAAAATTTATAT
11135932 ATATT
1 ATATT
11135937 CATCTTTGTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTTAAAATTTATAT
Found at i:11136757 original size:22 final size:24
Alignment explanation
Indices: 11136705--11136758 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
11136695 TTTTTGATGA
*
11136705 TTAAATTATTGTTATTAAATATGTT
1 TTAAATTATTGTTATT-AATATCTT
*
11136730 TGAAATTATTG-TATT-ATATCTT
1 TTAAATTATTGTTATTAATATCTT
11136752 TTAAATT
1 TTAAATT
11136759 GAATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 12 0.46
24 4 0.15
25 10 0.38
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATCTT
Found at i:11160143 original size:20 final size:21
Alignment explanation
Indices: 11160120--11160171 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
11160110 TACAAATTCA
11160120 AAAAAAAATCAATAA-ATTTT
1 AAAAAAAATCAATAATATTTT
* *
11160140 AAAAAAAAGTTAATAATTTTTTT
1 AAAAAAAA-TCAATAA-TATTTT
11160163 AAAAAAAAT
1 AAAAAAAAT
11160172 GATTCATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 6 0.22
22 1 0.04
23 12 0.44
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAAAAATCAATAATATTTT
Found at i:11160145 original size:21 final size:22
Alignment explanation
Indices: 11160119--11160171 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
11160109 ATACAAATTC
11160119 AAAAAAAAATCAATAA-ATTTT
1 AAAAAAAAATCAATAATATTTT
* * *
11160140 AAAAAAAAGTTAATAATTTTTT
1 AAAAAAAAATCAATAATATTTT
*
11160162 TAAAAAAAAT
1 AAAAAAAAAT
11160172 GATTCATATC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAAAAAAATCAATAATATTTT
Found at i:11160877 original size:42 final size:42
Alignment explanation
Indices: 11160804--11160894 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
11160794 GGCACTTAGC
* *
11160804 AGCTTTCCATTTCCAATGGCGGCGAACCCTCCAAACACCGTT
1 AGCTTTCCATTTCCAATGACGCCGAACCCTCCAAACACCGTT
* * ** *
11160846 AGCTTTCCATTTTCGATGACGCCGAGGCCTCCAACCACCGTT
1 AGCTTTCCATTTCCAATGACGCCGAACCCTCCAAACACCGTT
11160888 AGCTTTC
1 AGCTTTC
11160895 GATTGGATCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (42 bp):
AGCTTTCCATTTCCAATGACGCCGAACCCTCCAAACACCGTT
Found at i:11175335 original size:24 final size:24
Alignment explanation
Indices: 11175307--11175358 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11175297 TTTCTAGAAG
*
11175307 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATGAGCATAATAT
* *
11175331 ATTTAGTATTTATTAGCATAATGT
1 ATTTAGTATTTATGAGCATAATAT
11175355 ATTT
1 ATTT
11175359 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATGAGCATAATAT
Found at i:11179282 original size:24 final size:24
Alignment explanation
Indices: 11179219--11179270 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
11179209 TTTATAGAAG
* *
11179219 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
11179243 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATTAGCATAATAT
11179267 ATTT
1 ATTT
11179271 GACTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:11194586 original size:3 final size:3
Alignment explanation
Indices: 11194578--11194615 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11194568 ACCTGCAAAA
11194578 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
11194616 ATGAATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11198814 original size:52 final size:54
Alignment explanation
Indices: 11198750--11198871 Score: 153
Period size: 52 Copynumber: 2.3 Consensus size: 54
11198740 TTCGAAGAAC
*
11198750 TTAAATTAAAATTGAATATTATAAAAAATTATT-CA-TCATGAATTCAAATA-A-
1 TTAAATTAAAATTAAATATTATAAAAAATTATTACATTCAT-AATTCAAATATAT
* * * *
11198801 TTATAATTAAAATTAAATATTTTAAAATATTATTACATTGATAATTTAAATATAT
1 TTA-AATTAAAATTAAATATTATAAAAAATTATTACATTCATAATTCAAATATAT
11198856 TTAAATTAAAATTAAA
1 TTAAATTAAAATTAAA
11198872 AAAATTAAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
51 3 0.05
52 27 0.44
53 11 0.18
54 17 0.28
55 3 0.05
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (54 bp):
TTAAATTAAAATTAAATATTATAAAAAATTATTACATTCATAATTCAAATATAT
Found at i:11203216 original size:12 final size:12
Alignment explanation
Indices: 11203199--11203223 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11203189 ACTTTCCATC
11203199 ACAATCATCAGA
1 ACAATCATCAGA
11203211 ACAATCATCAGA
1 ACAATCATCAGA
11203223 A
1 A
11203224 ACTCTCACAG
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:0.24, G:0.08, T:0.16
Consensus pattern (12 bp):
ACAATCATCAGA
Found at i:11204986 original size:23 final size:23
Alignment explanation
Indices: 11204953--11204996 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11204943 GAATTTCTGC
*
11204953 AAAAATGCAATCATCTTTTATGG
1 AAAAATCCAATCATCTTTTATGG
* *
11204976 AAAAATCCAATCTTTTTTTAT
1 AAAAATCCAATCATCTTTTAT
11204997 CAAGCTTCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (23 bp):
AAAAATCCAATCATCTTTTATGG
Found at i:11213524 original size:45 final size:46
Alignment explanation
Indices: 11213475--11213576 Score: 188
Period size: 45 Copynumber: 2.2 Consensus size: 46
11213465 TAGAATTACG
11213475 TGTATATATATATGAAAATTAAGAATATGTATAT-ATATATATATA
1 TGTATATATATATGAAAATTAAGAATATGTATATAATATATATATA
11213520 TGTATATATATATGAAAATTAAGAATATGTATATAAATATATATATA
1 TGTATATATATATGAAAATTAAGAATATGTATAT-AATATATATATA
11213567 TGTATATATA
1 TGTATATATA
11213577 AGGTATAGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 34 0.62
47 21 0.38
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (46 bp):
TGTATATATATATGAAAATTAAGAATATGTATATAATATATATATA
Found at i:11213595 original size:2 final size:2
Alignment explanation
Indices: 11213499--11213576 Score: 56
Period size: 2 Copynumber: 40.5 Consensus size: 2
11213489 AAAATTAAGA
* * *
11213499 AT AT GT AT AT AT AT AT AT AT AT GT AT AT AT AT AT GA- AA AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* * * *
11213540 A- AG A- AT AT GT AT AT AA AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11213577 AGGTATAGAA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
1 4 0.07
2 55 0.92
3 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (2 bp):
AT
Found at i:11213769 original size:3 final size:3
Alignment explanation
Indices: 11213761--11213794 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
11213751 AAGGGAAAAT
11213761 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11213795 GTATTAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11225220 original size:16 final size:17
Alignment explanation
Indices: 11225189--11225221 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11225179 ATTGTTTTTT
11225189 TTTTTAATAATTTATTTA
1 TTTTTAAT-ATTTATTTA
11225207 TTTTTAAT-TTTATTT
1 TTTTTAATATTTATTT
11225222 GTAGCCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTAATATTTATTTA
Found at i:11234960 original size:75 final size:75
Alignment explanation
Indices: 11234682--11234973 Score: 327
Period size: 75 Copynumber: 3.9 Consensus size: 75
11234672 GGGCAAATTA
* * * ** *
11234682 TTTCGTCAGTTTATCTGACTAGTGCTGGGCATACCATTATACTCATCGGTTTATCCGACTAGAGC
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGGTTTATCCGACTAGCGC
11234747 TGGACGTAAC
66 TGGACGTAAC
* * * * * *
11234757 TTTTGTCAGTTTATCTGACTAGTGCTGGGCACATTATTATATTTTTTGATTTATCCCACTAGCGC
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGGTTTATCCGACTAGCGC
*
11234822 T-GATTGTAAC
66 TGGA-CGTAAC
* * ** * *
11234832 TTTCGTCAGTTTATTTTACTAGTGCTGGGCACATCATTATATTTGTCATTTTATCTGACTAGCGT
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGGTTTATCCGACTAGCGC
* *
11234897 TGGGCGCAAC
66 TGGACGTAAC
* * * * *
11234907 TTTCGCCAGTTTATCTGACTAGTGCTAGGTACATCATTATATTTGTCGGTTTATTCG-CTAGTGC
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGGTTTATCCGACTAGCGC
11234971 TGG
66 TGG
11234974 GTACATCATT
Statistics
Matches: 178, Mismatches: 37, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
74 10 0.06
75 167 0.94
76 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (75 bp):
TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGGTTTATCCGACTAGCGC
TGGACGTAAC
Found at i:11234960 original size:150 final size:150
Alignment explanation
Indices: 11234682--11234960 Score: 360
Period size: 150 Copynumber: 1.9 Consensus size: 150
11234672 GGGCAAATTA
* *
11234682 TTTCGTCAGTTTATCTGACTAGTGCTGGGCATACCATTATACTCATCGGTTTATCCGACTAGAGC
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACACCATTATACTCATCAGTTTATCCGACTAGAGC
* * * * * * *
11234747 TGGACGTAACTTTTGTCAGTTTATCTGACTAGTGCTGGGCACATTATTATATTTTTTGATTTATC
66 TGGACGCAACTTTCGCCAGTTTATCTGACTAGTGCTAGGCACATCATTATATTTGTCGATTTATC
11234812 CCACTAGCGCTGATTGTAAC
131 CCACTAGCGCTGATTGTAAC
* * * * ** * * * *
11234832 TTTCGTCAGTTTATTTTACTAGTGCTGGGCACATCATTATATTTGTCATTTTATCTGACTAGCGT
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACACCATTATACTCATCAGTTTATCCGACTAGAGC
* * *
11234897 TGGGCGCAACTTTCGCCAGTTTATCTGACTAGTGCTAGGTACATCATTATATTTGTCGGTTTAT
66 TGGACGCAACTTTCGCCAGTTTATCTGACTAGTGCTAGGCACATCATTATATTTGTCGATTTAT
11234961 TCGCTAGTGC
Statistics
Matches: 107, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
150 107 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (150 bp):
TTTCGTCAGTTTATCTGACTAGTGCTGGGCACACCATTATACTCATCAGTTTATCCGACTAGAGC
TGGACGCAACTTTCGCCAGTTTATCTGACTAGTGCTAGGCACATCATTATATTTGTCGATTTATC
CCACTAGCGCTGATTGTAAC
Found at i:11235006 original size:39 final size:39
Alignment explanation
Indices: 11234915--11235014 Score: 157
Period size: 39 Copynumber: 2.5 Consensus size: 39
11234905 ACTTTCGCCA
*
11234915 GTTTATCTGACTAGTGCTAGGTACATCATTATATTTGTCG
1 GTTTATCTG-CTAGTGCTGGGTACATCATTATATTTGTCG
11234955 GTTTAT-TCGCTAGTGCTGGGTACATCATTATATTTGTCG
1 GTTTATCT-GCTAGTGCTGGGTACATCATTATATTTGTCG
*
11234994 GTTTATCTGCTAGCGCTGGGT
1 GTTTATCTGCTAGTGCTGGGT
11235015 GCAACTTTCA
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
39 48 0.86
40 8 0.14
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.42
Consensus pattern (39 bp):
GTTTATCTGCTAGTGCTGGGTACATCATTATATTTGTCG
Found at i:11235059 original size:113 final size:114
Alignment explanation
Indices: 11234850--11235073 Score: 342
Period size: 113 Copynumber: 2.0 Consensus size: 114
11234840 GTTTATTTTA
* * *
11234850 CTAGTGCTGGGCACATCATTATATTTGTCATTTTATCTGACTAGCGTTGGGCGCAACTTTCGCCA
1 CTAGTGCTGGGCACATCATTATATTTGTCAGTTTATCTGACTAGCGCTGGGCGCAACTTTCACCA
* * *
11234915 GTTTATCTGACTAGTGCTAGGTACATCATTATATTTGTCGGTTTATTCG
66 ATTTATCTGACTAGTGCTAGGCACATCATTATATTTGTCGATTTATTCG
* * * *
11234964 CTAGTGCTGGGTACATCATTATATTTGTCGGTTTATCTG-CTAGCGCTGGGTGCAACTTTCATCA
1 CTAGTGCTGGGCACATCATTATATTTGTCAGTTTATCTGACTAGCGCTGGGCGCAACTTTCACCA
*
11235028 ATTTATCTGACTAGTGCTAGGCACATTATTATATTTGTCGATTTAT
66 ATTTATCTGACTAGTGCTAGGCACATCATTATATTTGTCGATTTAT
11235074 CCGACTAGCG
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
113 63 0.64
114 36 0.36
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (114 bp):
CTAGTGCTGGGCACATCATTATATTTGTCAGTTTATCTGACTAGCGCTGGGCGCAACTTTCACCA
ATTTATCTGACTAGTGCTAGGCACATCATTATATTTGTCGATTTATTCG
Found at i:11240035 original size:12 final size:13
Alignment explanation
Indices: 11240012--11240040 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11240002 AAAATAAGGT
11240012 TTAAAATGATGAA
1 TTAAAATGATGAA
11240025 TTAAAAT-ATGAA
1 TTAAAATGATGAA
11240037 TTAA
1 TTAA
11240041 TTTATCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (13 bp):
TTAAAATGATGAA
Found at i:11242627 original size:15 final size:14
Alignment explanation
Indices: 11242601--11242630 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11242591 GGCTCACAAA
11242601 AAAATAATAAACAC
1 AAAATAATAAACAC
11242615 AAAATAATAAA-AC
1 AAAATAATAAACAC
11242628 AAA
1 AAA
11242631 GTCTAAGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAATAATAAACAC
Found at i:11242761 original size:12 final size:12
Alignment explanation
Indices: 11242744--11242769 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11242734 AGGATATGCA
11242744 ATCTTAGATATG
1 ATCTTAGATATG
11242756 ATCTTAGATATG
1 ATCTTAGATATG
11242768 AT
1 AT
11242770 ATATGCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:11242792 original size:19 final size:20
Alignment explanation
Indices: 11242756--11242803 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
11242746 CTTAGATATG
11242756 ATCTTAGATATGATATATGCA
1 ATCTTAGATATGA-ATATGCA
*
11242777 ATCTTAGATATG-ATATGTA
1 ATCTTAGATATGAATATGCA
*
11242796 ATATTAGA
1 ATCTTAGA
11242804 AGATATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 13 0.52
21 12 0.48
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (20 bp):
ATCTTAGATATGAATATGCA
Found at i:11242810 original size:22 final size:23
Alignment explanation
Indices: 11242782--11242826 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11242772 ATGCAATCTT
11242782 AGATATGA-TATGTAATATTAGA
1 AGATATGATTATGTAATATTAGA
* *
11242804 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATATTAGA
11242827 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATATTAGA
Found at i:11242836 original size:22 final size:23
Alignment explanation
Indices: 11242792--11242836 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11242782 AGATATGATA
*
11242792 TGTAATATTAGAAGATATGATTT
1 TGTAATATTAGAAGATATAATTT
* *
11242815 TGTAATCTTAG-AGATTTAATTT
1 TGTAATATTAGAAGATATAATTT
11242837 GTAGATAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATATTAGAAGATATAATTT
Found at i:11243114 original size:3 final size:3
Alignment explanation
Indices: 11243106--11243197 Score: 55
Period size: 3 Copynumber: 31.0 Consensus size: 3
11243096 TATTTTTTAT
* * *
11243106 TTA TTA TTA TTA -AA TT- TTA TT- TTC TTG TTA TTAA GTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA TTA
* * * * * * *
11243150 TTG TTA TTG TTA TTA TCA TCA TCA TTA TTA TTC TTC TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11243198 CTATATATAC
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
2 5 0.07
3 63 0.88
4 2 0.03
5 2 0.03
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:11248869 original size:132 final size:132
Alignment explanation
Indices: 11248631--11249170 Score: 893
Period size: 132 Copynumber: 4.1 Consensus size: 132
11248621 GAAAATCAGT
*
11248631 GAAGATAGCAGGTCTTGTCTTCCTATATTGGT-GGAAAGTGGATCGAAGATGCAGATCTTGTCTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGG-AAGTGGATCGAAGATGCAGATCTTGTCTT
* *
11248695 CCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAG
65 CCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAG
11248760 ATC
130 ATC
11248763 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * * *
11248828 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATATATTGGCGTAAAGTAGA
66 CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAGA
11248893 TC
131 TC
* * * * *
11248895 GAAGATAGCAGATCATGTCTTCCTATATTGGTAGCGAAGTGAATCGAAAATACAGATCTTGTCTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTT
* *
11248960 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCATATATTGTCTTCATATATTGGCGTGAAGTAG
65 CCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAG
11249025 ATC
130 ATC
*
11249028 GAAGATAGCATGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * *
11249093 CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGA
66 CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAGA
11249158 TC
131 TC
11249160 GAAGATAGCAG
1 GAAGATAGCAG
11249171 ATATTGCCTT
Statistics
Matches: 379, Mismatches: 27, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
132 256 0.68
133 123 0.32
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAGA
TC
Found at i:11249157 original size:265 final size:264
Alignment explanation
Indices: 11248631--11249172 Score: 924
Period size: 265 Copynumber: 2.0 Consensus size: 264
11248621 GAAAATCAGT
* * * * *
11248631 GAAGATAGCAGGTCTTGTCTTCCTATATTGGTGGAAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGATCATGTCTTCCTATATTGGTGGAAAGTGAATCGAAAATACAGATCTTGTCTTC
* * *
11248696 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAGA
11248761 TCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCT
131 TCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCT
* *
11248826 TCCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATATATTGGCGTAAAGTA
196 TCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATATATTAGCGTAAAGTA
11248891 GATC
261 GATC
11248895 GAAGATAGCAGATCATGTCTTCCTATATTGGTAGCG-AAGTGAATCGAAAATACAGATCTTGTCT
1 GAAGATAGCAGATCATGTCTTCCTATATTGGT-G-GAAAGTGAATCGAAAATACAGATCTTGTCT
*
11248959 TCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCATATATTGTCTTCATATATTGGCGTGAAGTA
64 TCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATATATTGGCGTGAAGTA
*
11249024 GATCGAAGATAGCATGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
129 GATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
* * *
11249089 CTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAG
194 CTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATATATTAGCGTAAAG
11249154 TAGATC
259 TAGATC
11249160 GAAGATAGCAGAT
1 GAAGATAGCAGAT
11249173 ATTGCCTTCA
Statistics
Matches: 261, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
264 30 0.11
265 230 0.88
266 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (264 bp):
GAAGATAGCAGATCATGTCTTCCTATATTGGTGGAAAGTGAATCGAAAATACAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAGA
TCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCT
TCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATATATTAGCGTAAAGTA
GATC
Found at i:11249184 original size:44 final size:44
Alignment explanation
Indices: 11248631--11249181 Score: 526
Period size: 44 Copynumber: 12.5 Consensus size: 44
11248621 GAAAATCAGT
* * *
11248631 GAAGATAGCAGGTCTTGTCTTCCTATATTGGTG-GAAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTG-AAGTAGATC
* * * *
11248675 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
11248719 GAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * * *
11248763 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
11248807 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
11248851 GAAGAAAGCAAATCTTGTCTTCATATATTGGCGTAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * *
11248895 GAAGATAGCAGATCATGTCTTCCTATATTGGTAGCGAAGT-GAATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAG-ATC
* * * * *
11248940 GAAAATA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
11248984 GAAGAAAGCATATATTGTCTTCATATATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * *
11249028 GAAGATAGCATG-TCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCA-GATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * *
11249072 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
11249116 GAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* *
11249160 GAAGATAGCAGATATTGCCTTC
1 GAAGATAGCAGATCTTGTCTTC
11249182 ATGCACCGAT
Statistics
Matches: 415, Mismatches: 77, Indels: 30
0.80 0.15 0.06
Matches are distributed among these distances:
42 1 0.00
43 67 0.16
44 250 0.60
45 97 0.23
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
Found at i:11249269 original size:88 final size:88
Alignment explanation
Indices: 11249164--11249470 Score: 533
Period size: 88 Copynumber: 3.5 Consensus size: 88
11249154 TAGATCGAAG
* * *
11249164 ATAGCAGATATTGCCTTCATGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
11249229 GGTTGCAGCGGAGCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
11249252 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
11249317 GGTTGCAGCGGAGCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
*
11249340 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
* * **
11249405 GGTTGTAGCAGAGCAGTTTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
*
11249428 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
11249471 TGACCCCAAT
Statistics
Matches: 209, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 209 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.19
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
GGTTGCAGCGGAGCAGGCTAAAA
Found at i:11249294 original size:265 final size:264
Alignment explanation
Indices: 11248682--11249297 Score: 661
Period size: 265 Copynumber: 2.3 Consensus size: 264
11248672 ATCGAAGATG
* * * * * * * * ** *
11248682 CAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTAT
1 CAGACCTTGTCCTCCCATA-CGGTGGCGAAGCAGAGCGAAAAAAGCAGATATTGCCTTCATACAC
* * *
11248747 TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGA
65 CGACGCGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGA
*
11248812 TGCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATAT
130 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATAT
* * * * ** * *
11248877 ATTGGCGTAAAGTAGATCGAAGATAGCAGATCATGTCTTCCTATATTGGTAGCGAAGTGAATCGA
195 ATTAGCGTAAAGTAGATCGAAGATAGCAGATCATGCCTTCATACACCGATAGCGAAGAGAATCGA
*
11248942 AAATA
260 AAACA
* * * * * * * * *
11248947 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCATATATTGTCTTCATATAT
1 CAGACCTTGTCCTCCCATAC-GGTGGCGAAGCAGAGCGAAAAAAGCAGATATTGCCTTCATACAC
* * * *
11249012 TGGCGTGAAGTAGATCGAAGATAGCATGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGA
65 CGACGCGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGA
* *
11249077 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGT
130 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATAT
* *
11249142 ATTAGCGTGAAGTAGATCGAAGATAGCAGAT-ATTGCCTTCATGCACCGATAGCGAAGCAG-ATC
195 ATTAGCGTAAAGTAGATCGAAGATAGCAGATCA-TGCCTTCATACACCGATAGCGAAG-AGAATC
*
11249205 GAAGACA
258 GAAAACA
* * * *
11249212 CCAG-CCTTG-CCTCCC-TA-GGTTGCAGCGGAGCAG-GCTAAAAATAGCAGATCTTGCCTTCCT
1 -CAGACCTTGTCCTCCCATACGG-TG--GCGAAGCAGAGCGAAAAA-AGCAGATATTGCCTTCAT
* *
11249272 GCACCGACAGCGAAGCAGATCGAAGA
61 ACACCGAC-GCGAAGTAGATCGAAGA
11249298 CACCAGCCTT
Statistics
Matches: 304, Mismatches: 38, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
261 2 0.01
262 2 0.01
263 7 0.02
264 30 0.10
265 259 0.85
266 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (264 bp):
CAGACCTTGTCCTCCCATACGGTGGCGAAGCAGAGCGAAAAAAGCAGATATTGCCTTCATACACC
GACGCGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATATA
TTAGCGTAAAGTAGATCGAAGATAGCAGATCATGCCTTCATACACCGATAGCGAAGAGAATCGAA
AACA
Found at i:11249397 original size:44 final size:44
Alignment explanation
Indices: 11249174--11249399 Score: 131
Period size: 44 Copynumber: 5.1 Consensus size: 44
11249164 ATAGCAGATA
* *
11249174 TTGCCTTCATGCACCGATAGCGAAGCAGATCGAAGACACCAGCC
1 TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
* *** * * * * * * *
11249218 TTGCCTCCCTAG-GTTG-CAGCGGAGCAG-GCTAAAAATAGCAGATC
1 TTGCCTTCCT-GCACCGACAGCGAAGCAGATC-GAAGACACCAG-CC
11249262 TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
1 TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
* *** * * * * * * *
11249306 TTGCCTCCCTAG-GTTG-CAGCGGAGCAG-GCTAAAAATAGCAGATC
1 TTGCCTTCCT-GCACCGACAGCGAAGCAGATC-GAAGACACCAG-CC
*
11249350 TTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCC
1 TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
11249394 TTGCCT
1 TTGCCT
11249400 CCCTAGGTTG
Statistics
Matches: 123, Mismatches: 47, Indels: 24
0.63 0.24 0.12
Matches are distributed among these distances:
42 2 0.02
43 35 0.28
44 49 0.40
45 35 0.28
46 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (44 bp):
TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
Found at i:11249541 original size:44 final size:44
Alignment explanation
Indices: 11249478--11249690 Score: 277
Period size: 44 Copynumber: 4.8 Consensus size: 44
11249468 CGATGACCCC
* * *
11249478 AATCCTATCTCCCTAGTCAGCAATGGAATAGGTTAAAGATTGTG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* *
11249522 AATCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* * * *
11249566 AATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTGT-
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* *
11249609 AGGTCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGATTGTG
1 A-ATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* *
11249654 AGTCCTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAA
1 AATCCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
11249691 AATAGCAGAT
Statistics
Matches: 147, Mismatches: 19, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
43 1 0.01
44 144 0.98
45 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
Found at i:11250494 original size:12 final size:12
Alignment explanation
Indices: 11250477--11250502 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11250467 AGGATATGCA
11250477 ATCTTAGATATG
1 ATCTTAGATATG
11250489 ATCTTAGATATG
1 ATCTTAGATATG
11250501 AT
1 AT
11250503 ATATGCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:11250525 original size:19 final size:20
Alignment explanation
Indices: 11250489--11250536 Score: 80
Period size: 19 Copynumber: 2.4 Consensus size: 20
11250479 CTTAGATATG
11250489 ATCTTAGATATGATATATGCA
1 ATCTTAGATATGA-ATATGCA
11250510 ATCTTAGATATG-ATATGCA
1 ATCTTAGATATGAATATGCA
11250529 ATCTTAGA
1 ATCTTAGA
11250537 AGATATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (20 bp):
ATCTTAGATATGAATATGCA
Found at i:11250558 original size:23 final size:22
Alignment explanation
Indices: 11250494--11250565 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 22
11250484 ATATGATCTT
11250494 AGATATGATATATGCAATCTT---
1 AGATATG--ATATGCAATCTTAGA
11250515 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
11250537 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
11250560 AGATAT
1 AGATAT
11250566 TAAGTTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.27
21 7 0.16
22 8 0.18
23 18 0.40
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:11250578 original size:3 final size:3
Alignment explanation
Indices: 11250570--11250608 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
11250560 AGATATTAAG
* *
11250570 TTA TTA TTA TTG TTA TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11250609 CTATATATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11250739 original size:33 final size:32
Alignment explanation
Indices: 11250695--11250802 Score: 93
Period size: 33 Copynumber: 3.4 Consensus size: 32
11250685 GCACATATTA
*
11250695 TATATATATATATTATTCTATTTGCATAACTTT
1 TATATACATATATTATTCTATTT-CATAACTTT
*
11250728 TATATACATATA-TATAC-ATTT-AT-A-TTT
1 TATATACATATATTATTCTATTTCATAACTTT
* *
11250755 TATATACATATACATT-TTTTATTTCCTAACTTT
1 TATATACATAT--ATTATTCTATTTCATAACTTT
11250788 TATATGCACATATAT
1 TATAT--ACATATAT
11250803 ATACTTTTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
27 14 0.23
28 1 0.02
29 4 0.07
30 5 0.08
31 5 0.08
32 5 0.08
33 21 0.34
35 6 0.10
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (32 bp):
TATATACATATATTATTCTATTTCATAACTTT
Found at i:11250802 original size:62 final size:62
Alignment explanation
Indices: 11250692--11250817 Score: 175
Period size: 62 Copynumber: 2.0 Consensus size: 62
11250682 AATGCACATA
* *
11250692 TTATATATATATATATTATTCTATTTGCATAACTTTTATATACATATATATACATTTATATT
1 TTATATACATATACATTATTCTATTTGCATAACTTTTATATACATATATATACATTTATATT
* * *
11250754 TTATATACATATACATT-TTTTATTT-CCTAACTTTTATATGCACATATATATACTTTTATATT
1 TTATATACATATACATTATTCTATTTGCATAACTTTTATAT--ACATATATATACATTTATATT
11250816 TT
1 TT
11250818 TTTTACTTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
60 13 0.23
61 7 0.12
62 37 0.65
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (62 bp):
TTATATACATATACATTATTCTATTTGCATAACTTTTATATACATATATATACATTTATATT
Found at i:11250973 original size:30 final size:31
Alignment explanation
Indices: 11250939--11250996 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
11250929 TATTTGTTTA
*
11250939 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAATCTTTTTTATAATC
*
11250969 TATATATATGTATATAATTTTTTTTATA
1 TATATATATGTATATAATCTTTTTTATA
11250997 TATGTACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
TATATATATGTATATAATCTTTTTTATAATC
Found at i:11250989 original size:28 final size:27
Alignment explanation
Indices: 11250937--11251016 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 27
11250927 ATTATTTGTT
*
11250937 TATATATATATGTAATTATCTTTTTTATAA
1 TATATATATATGT-A-TAT-ATTTTTATAA
* * *
11250967 TCTATATATATGTATATAATTTTTTTTA
1 TATATATATATGTATAT-ATTTTTATAA
* *
11250995 TATATGTACATGTATATATTTT
1 TATATATATATGTATATATTTT
11251017 GTACCCTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 5 0.12
28 24 0.57
29 1 0.02
30 12 0.29
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (27 bp):
TATATATATATGTATATATTTTTATAA
Found at i:11251161 original size:4 final size:4
Alignment explanation
Indices: 11251141--11251181 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
11251131 GCTTTGCATG
*
11251141 TTAT TGAT TTA- TT-T TTAT TTAT TTAT TTAT TTAT ATTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TT
11251182 CTATGCCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 4 0.12
4 24 0.75
5 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:11251162 original size:18 final size:18
Alignment explanation
Indices: 11251141--11251177 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11251131 GCTTTGCATG
*
11251141 TTATTGATTTATTTTTAT
1 TTATTGATTTATTTATAT
*
11251159 TTATTTATTTATTTATAT
1 TTATTGATTTATTTATAT
11251177 T
1 T
11251178 ATTTCTATGC
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:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (18 bp):
TTATTGATTTATTTATAT
Found at i:11253915 original size:30 final size:30
Alignment explanation
Indices: 11253879--11253939 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11253869 GTTTAAATAA
11253879 TATGTTACACATTGAGTTTCAAAAACTCAC
1 TATGTTACACATTGAGTTTCAAAAACTCAC
11253909 TATGTTACACATTGAGTTTCAAAAACTCAC
1 TATGTTACACATTGAGTTTCAAAAACTCAC
11253939 T
1 T
11253940 CTCTGAATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (30 bp):
TATGTTACACATTGAGTTTCAAAAACTCAC
Found at i:11254105 original size:17 final size:17
Alignment explanation
Indices: 11254067--11254105 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
11254057 GGCCATTTTG
*
11254067 GGACTGTTTAAATTTTT
1 GGACTGTTTAAATTTCT
*
11254084 AGACTGTTTAAATTTCT
1 GGACTGTTTAAATTTCT
11254101 GGACT
1 GGACT
11254106 TTACATTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (17 bp):
GGACTGTTTAAATTTCT
Found at i:11256588 original size:31 final size:31
Alignment explanation
Indices: 11256524--11256588 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
11256514 AAAAAATTTA
* * *
11256524 TGAACATTTTTATTTTTTAATTTATTTTTTT
1 TGAACATTTTTAATTTTTAAATTATTTTGTT
*
11256555 TGAATATTTTGTAATTTTTAAATTA-TTTGTT
1 TGAACATTTT-TAATTTTTAAATTATTTTGTT
11256586 TGA
1 TGA
11256589 CTCAGTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.26, C:0.02, G:0.08, T:0.65
Consensus pattern (31 bp):
TGAACATTTTTAATTTTTAAATTATTTTGTT
Found at i:11257641 original size:11 final size:11
Alignment explanation
Indices: 11257627--11257652 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11257617 ATTTTTTTAA
11257627 TTTTAAAATAC
1 TTTTAAAATAC
11257638 TTTTAAAATAC
1 TTTTAAAATAC
11257649 TTTT
1 TTTT
11257653 TTTTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:11259660 original size:17 final size:18
Alignment explanation
Indices: 11259634--11259667 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11259624 GGTATCTTTA
*
11259634 TTTTTGCTCTTTTTCTTC
1 TTTTTGCTCTTATTCTTC
11259652 TTTTT-CTCTTATTCTT
1 TTTTTGCTCTTATTCTT
11259668 TTCTACCACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTGCTCTTATTCTTC
Found at i:11260716 original size:20 final size:21
Alignment explanation
Indices: 11260691--11260730 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11260681 ATTTTTATAC
*
11260691 CATAAAT-AATTAAAAATAAT
1 CATAAATAAAATAAAAATAAT
11260711 CATAAATAAAATAAAAATAA
1 CATAAATAAAATAAAAATAA
11260731 AAATTGACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
CATAAATAAAATAAAAATAAT
Found at i:11262027 original size:11 final size:12
Alignment explanation
Indices: 11261980--11262029 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
11261970 CGTTGAATGC
11261980 ATAATTTAAATA
1 ATAATTTAAATA
* *
11261992 ATAATTTTTAGAGA
1 ATAA--TTTAAATA
11262006 ATAATTTAAATA
1 ATAATTTAAATA
11262018 ATAA-TTAAATA
1 ATAATTTAAATA
11262029 A
1 A
11262030 GATTAGCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 8 0.25
12 14 0.44
14 10 0.31
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (12 bp):
ATAATTTAAATA
Found at i:11263130 original size:45 final size:45
Alignment explanation
Indices: 11262802--11264274 Score: 664
Period size: 44 Copynumber: 32.7 Consensus size: 45
11262792 GACTCTTTTT
* * * *
11262802 AATCTGCTCCACTGCAACTTCAGGGAGATAAAAGTT-A-TAACTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTC
* * * * * * * * *
11262846 AATCCGTTCCATTGTAACTTTAGGGAGATAAGAGTT--GTAACTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTC
* * * * * *
11262890 AAT-TGACTCCACTACAACTTCAGGGAGATAATAGTT--GTAACTTC
1 AATCTG-CTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTC
* * * * * * *
11262934 AATCCGCTTTACTGTAACTTTAGGGAGATAAGAGTT--GTAACTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTC
* * * * *
11262978 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTT--GTAACTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTC
** * * * * * * *
11263022 AATCCACTCCACTGTAACTTTAGGGAGATAATAGTT--GTAACTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTC
* * * * * *
11263066 AATATGCTCCACTGCAACTTCAGGGAGAAAAGATTCACCATATTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
* * * * * **
11263111 AATCTACTCTACTGTAACTTTAGGGAAATAAGATT-TGTAGT-TTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTA-TCTTC
* * *
11263155 AATCTGCTCTACTACAAATTTAGAGAGATAAGATTCACTATCTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
* * ** *
11263200 AATCTACTCCACTGCAACTTCAGAGAGATAAGATT-TGTAATTTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACT-ATCTTC
*
11263245 AGTCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
* * ** *
11263290 ATTCTGCTCCACTGCAACTTCAGAGAGATAAGATT-TGTAATTTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACT-ATCTTC
* * *
11263335 AGTCTGCTTTACTGCAACTTCAGAGAGATAAGATTCACTATCTGC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
* * * ** ** *
11263380 ATTCTGCTCCACTGCAACTTCAGTGAGATAAGATTTGC-GGCTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
* *
11263424 AATCTGCTCTACTGCAACTTCA-ATGAGATAAGATTTGTAGCCTGTCTTC
1 AATCTGCTCTACTGCAACTTCAGA-GAGATAAGA-TT-CA--CTATCTTC
* * * *** * *
11263473 AATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTC
* * * * *
11263519 AA-CTTGCTCCACTGCAACTTC-GAGGAGACAAGGTGT-A-TAGCTTT
1 AATC-TGCTCTACTGCAACTTCAGA-GAGATAAGAT-TCACTATCTTC
* * * **
11263563 AATCTGCTTTACTGCAACTTTAGAGAGATAAAATTTGCTATC-TC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
* * *
11263607 TGATCTACTGC-ACTGCAACTTCA-AGAAGATAAGA-TCTA-TAACTTC
1 -AATCTGCT-CTACTGCAACTTCAGAG-AGATAAGATTC-ACTATCTTC
* * * * * *
11263652 AATTTGCTCCATTGCAACTTCAGGGAGATAAGACTT--GTAACTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTC
**
11263696 AATCTGCTCCGCTGCAACTTCAG-GAGGATAAGATTTGC-CATAATGACTTC
1 AATCTGCTCTACTGCAACTTCAGAGA-GATAAGA-TT-CAC-T-AT--CTTC
* * *
11263746 AATC--CATCCCACTGCAACTTCAGGGAGAAAAGATTCACTATCTTC
1 AATCTGC-T-CTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
* * * * **
11263791 AATTTACACCACTGCAACTTCA-AGGAGATAAGATT-TGTAGT-TTC
1 AATCTGCTCTACTGCAACTTCAGA-GAGATAAGATTCACTA-TCTTC
* * * *
11263835 AATCTGCTCTACTGCAATTTTAGAGTGATAAGATTCACTATCTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
* * * * * ** *
11263880 AATCTACTCCACTGCAACTTTAGGGAGATAATATT-TGTAAT-TTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACT-ATCTTC
* * * *
11263924 AAGTCAGCTCTACTGCAATTTCAGAGAGATAAGATTCACTATTTTT
1 AA-TCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
* * * * ** ** *
11263970 ATTCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGC-GGCTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
* * *
11264014 AATTTGCTCCACTGCAACTTCA-AGGAGATAAGATTTGTAGCCTATCTTC
1 AATCTGCTCTACTGCAACTTCAGA-GAGATAAGA-TT-CA--CTATCTTC
* * * *** * *
11264063 AATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTC
* * * *
11264109 AATCTGCTCCACTGCAACTTC-GAGGAGATAAGGTGT-A-TAACTTT
1 AATCTGCTCTACTGCAACTTCAGA-GAGATAAGAT-TCACTATCTTC
** * *
11264153 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTACCTCC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
* * * * *
11264198 GATCTACTCCACTGCAACTTCA-AGAAGATAA-AATCTA-TAACTTC
1 AATCTGCTCTACTGCAACTTCAGAG-AGATAAGATTC-ACTATCTTC
* * *
11264242 AATCTGCTCCACTACAACTTCAGGGAGATAAGA
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA
11264275 CTTGAAACTT
Statistics
Matches: 1126, Mismatches: 229, Indels: 147
0.75 0.15 0.10
Matches are distributed among these distances:
43 8 0.01
44 512 0.45
45 417 0.37
46 74 0.07
47 4 0.00
48 6 0.01
49 75 0.07
50 28 0.02
51 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (45 bp):
AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
Found at i:11263579 original size:183 final size:180
Alignment explanation
Indices: 11262798--11264274 Score: 680
Period size: 179 Copynumber: 8.2 Consensus size: 180
11262788 ACACGACTCT
* * * * * * * *
11262798 TTTTAA-TCTGCTCCACTGCAACTTCAGGGAGATAAAAGTT-A-TAACTTCAATCCGTTCCATTG
1 TTTTAACTCTGCTCCACTGCAACTTCAGAGAGACAAGA-TTCACTAGCTGCAATCTGCTCCACTG
* * * * * * * * *
11262860 TAACTTTAGGGAGATAAGAGTTGTAAC-TTCAAT-TGACTCCACTACAACTTCAGGGAGATAATA
65 CAACTTCAGAGAGATAAGATTTGCAACTTTCAATCTG-CTCTACTGCAACTTCAGAGAGATAAGA
* * * ** * * * *
11262923 GTT--GTAACTTCAATCCGCTTTACTGTAACTTTAGGGAGATAAGAGTTGTAA
129 -TTCACTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAA
* * * * * * * * **
11262974 CTTCAA-TCCGCTCCACTGCAACTTCAGGGAGATAAGAGTT--GTAACTTCAATCCACTCCACTG
1 TTTTAACTCTGCTCCACTGCAACTTCAGAGAGACAAGA-TTCACTAGCTGCAATCTGCTCCACTG
* * * * * * * * * *
11263036 TAACTTTAGGGAGATAATAGTTGTAAC-TTCAATATGCTCCACTGCAACTTCAGGGAGAAAAGAT
65 CAACTTCAGAGAGATAAGATTTGCAACTTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
* * * * * * * * *
11263100 TCACCATATTCAATCTACTCTACTGTAACTTTAGGGAAATAAGATTTGTAG
130 TCACTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAA
* * * * * * * * *
11263151 TTTCAA-TCTGCTCTACTACAAATTTAGAGAGATAAGATTCACTATCTTCAATCTACTCCACTGC
1 TTTTAACTCTGCTCCACTGCAACTTCAGAGAGACAAGATTCACTAGCTGCAATCTGCTCCACTGC
* * *
11263215 AACTTCAGAGAGATAAGATTTGTAATTTTCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATT
66 AACTTCAGAGAGATAAGATTTGCAACTTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATT
*
11263280 CACTATCTTCATTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAA
131 CACTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAA
* * ** * * *
11263330 TTTTCAGTCTGCTTTACTGCAACTTCAGAGAGATAAGATTCACTATCTGCATTCTGCTCCACTGC
1 TTTTAACTCTGCTCCACTGCAACTTCAGAGAGACAAGATTCACTAGCTGCAATCTGCTCCACTGC
* **
11263395 AACTTCAGTGAGATAAGATTTGCGGCTTT-AATCTGCTCTACTGCAACTTCA-ATGAGATAAGAT
66 AACTTCAGAGAGATAAGATTTGCAACTTTCAATCTGCTCTACTGCAACTTCAGA-GAGATAAGA-
* * * * *
11263458 TTGTAGCCTGTCTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTTTAT
129 TT-CA--CTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG--TAA
* ** **
11263515 TTTTAACT-TGCTCCACTGCAACTTC-GAGGAGACAAGGTGT-A-TAGCTTTAATCTGCTTTACT
1 TTTTAACTCTGCTCCACTGCAACTTCAGA-GAGACAAGAT-TCACTAGCTGCAATCTGCTCCACT
* * * * * *
11263576 GCAACTTTAGAGAGATAAAATTTGCTA-TCTCTGATCTACTGC-ACTGCAACTTCA-AGAAGATA
64 GCAACTTCAGAGAGATAAGATTTGCAACTTTC-AATCTGCT-CTACTGCAACTTCAGAG-AGATA
* * * * *
11263638 AGA-TCTA-TAACTTCAATTTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTAA
126 AGATTC-ACTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAA
* * * * *
11263692 CTTCAA-TCTGCTCCGCTGCAACTTCAG-GAGGATAAGATTTGC-CATAATGACTTCAATC--CA
1 TTTTAACTCTGCTCCACTGCAACTTCAGAGA-GACAAGA-TT-CAC-T-A-G-CTGCAATCTGC-
* * ** * * * * *
11263752 TCCCACTGCAACTTCAGGGAGAAAAGATTCACTA-TCTTCAATTTACACCACTGCAACTTCA-AG
58 T-CCACTGCAACTTCAGAGAGATAAGATTTGCAACT-TTCAATCTGCTCTACTGCAACTTCAGA-
** * * * * **
11263815 GAGATAAGATT-TGTAGT-TTCAATCTGCTCTACTGCAATTTTAGAGTGATAAGATTCACT-A
120 GAGATAAGATTCACTA-TCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT-TGTAA
* * * * * ** ** ** * *
11263875 TCTTTAA-TCTACTCCACTGCAACTTTAGGGAGATAATATT-TGTAATTTTAAGTCAGCTCTACT
1 T-TTTAACTCTGCTCCACTGCAACTTCAGAGAGACAAGATTCACTAGCTGCAA-TCTGCTCCACT
* ** * * * * * * *
11263938 GCAATTTCAGAGAGATAAGATTCACTATTTTTATTCTGCTCCACTGCAACTTTAGGGAGATAAGA
64 GCAACTTCAGAGAGATAAGATTTGCAACTTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
** ** * *
11264003 TTTGC-GGCTTTAATTTGCTCCACTGCAACTTCA-AGGAGATAAGATTTGTAGCCTA
129 TTCACTATCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGTA----A
* * * * *** ** **
11264058 TCTTCAA-TCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTTAATCTGCTCCACT
1 T-TTTAACTCTGCTCCACTGCAACTTCAGAGAGACAAGA-TTCACTAGCTGCAATCTGCTCCACT
* * **
11264122 GCAACTTC-GAGGAGATAAGGTGTATAACTTT-AATCTGCTCTACTGCAACTTCAGAGAGATAAG
64 GCAACTTCAGA-GAGATAAGATTTGCAACTTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAG
** * * * * * * *
11264185 ATTTGCTACCTCCGATCTACTCCACTGCAACTTCA-AGAAGATAAAATCTATAA
128 ATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGAG-AGATAAGATTTGTAA
* * * * *
11264238 CTTCAA-TCTGCTCCACTACAACTTCAGGGAGATAAGA
1 TTTTAACTCTGCTCCACTGCAACTTCAGAGAGACAAGA
11264275 CTTGAAACTT
Statistics
Matches: 1041, Mismatches: 197, Indels: 123
0.76 0.14 0.09
Matches are distributed among these distances:
175 2 0.00
176 115 0.11
177 98 0.09
178 49 0.05
179 269 0.26
180 82 0.08
181 5 0.00
182 7 0.01
183 244 0.23
184 149 0.14
185 21 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (180 bp):
TTTTAACTCTGCTCCACTGCAACTTCAGAGAGACAAGATTCACTAGCTGCAATCTGCTCCACTGC
AACTTCAGAGAGATAAGATTTGCAACTTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATT
CACTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAA
Found at i:11263670 original size:228 final size:224
Alignment explanation
Indices: 11262972--11264272 Score: 551
Period size: 228 Copynumber: 5.8 Consensus size: 224
11262962 TAAGAGTTGT
* * * * **
11262972 AACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTA-ACTTCAATCCACTCCACTG
1 AACTTCAATCTGCTCCACTGCAACTTCA-AGAGATAAGATTTGTATTCTTCAATCTGCTCCACTG
* * * * * * * *
11263036 TAACTTTAGGGAGATAATAGTTG--TAACTTCAA-TATGCTCCACTGCAACTTCAGGGAGAAAAG
65 CAACTTCAGGGAGATAAGATTTGACTATCTT-AACTCTGCTCCACTGCAACTTCAGAGAGACAAG
* * * * * * * * * ** * *
11263098 AT-T-CACCATATTCAATCTACTCTACTGTAACTTTAGGGAAATAAGATT-TGTAGT-TTCAATC
129 ATGTATAAC-T-TTCAATCTGCTTTACTGCAACTTCAGAGAGATAAAATTCACTA-TCTGCATTC
* * * * *
11263159 TGCTCTACTACAAATTTAG-AGAGATAAGAT-TCAC
191 TACTCCACTGCAACTTCAGTA-AGATAAGATCT-AC
* * * *
11263193 TATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAATT-TTCAGTCTGCTCTAC
1 -AACTTCAATCTGCTCCACTGCAACTTCA-AGAGATAAGATTTGT-ATTCTTCAATCTGCTCCAC
* * * * *
11263257 TGCAACTTCAGAGAGATAAGA-TTCACTATCTTCATTCTGCTCCACTGCAACTTCAGAGAGATAA
63 TGCAACTTCAGGGAGATAAGATTTGACTATCTTAACTCTGCTCCACTGCAACTTCAGAGAGACAA
* * * * * *
11263321 GATTTGTAATTTTCAGTCTGCTTTACTGCAACTTCAGAGAGATAAGATTCACTATCTGCATTCTG
128 GATGTATAACTTTCAATCTGCTTTACTGCAACTTCAGAGAGATAAAATTCACTATCTGCATTCTA
* * *
11263386 CTCCACTGCAACTTCAGTGAGATAAGATTTGC
193 CTCCACTGCAACTTCAGTAAGATAAGATCTAC
** * *
11263418 GGCTTTAATCTGCTCTACTGCAACTTCAATGAGATAAGATTTGTAGCCTGTCTTCAATCTGCTCC
1 AACTTCAATCTGCTCCACTGCAACTTCAA-GAGATAAGATTTGTA---T-TCTTCAATCTGCTCC
* ** *
11263483 ACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTTAACT-TGCTCCACTGCAACTTC-GAGGAG
61 ACTGCAACTTCAGGGAGATAAGATTTGACTA-TCTTAACTCTGCTCCACTGCAACTTCAGA-GAG
* * * **
11263546 ACAAGGTGTATAGCTTT-AATCTGCTTTACTGCAACTTTAGAGAGATAAAATTTGCTATCT-C-T
124 ACAAGATGTATAACTTTCAATCTGCTTTACTGCAACTTCAGAGAGATAAAATTCACTATCTGCAT
* *
11263608 GATCTACTGCACTGCAACTTCAAG-AAGATAAGATCTAT
189 --TCTACTCCACTGCAACTTC-AGTAAGATAAGATCTAC
* * * * * *
11263646 AACTTCAATTTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTA-ACTTCAATCTGCTCCGCTG
1 AACTTCAATCTGCTCCACTGCAACTTCA-AGAGATAAGATTTGTATTCTTCAATCTGCTCCACTG
* *
11263710 CAACTTCA-GGAGGATAAGATTTGCCATAATGACTTCAA-TC--CATCCCACTGCAACTTCAGGG
65 CAACTTCAGGGA-GATAAGATTTGAC-T-AT--CTT-AACTCTGC-T-CCACTGCAACTTCAGAG
* * * * *** * **
11263771 AGAAAAGAT-TCACTATC-TTCAATTTACACCACTGCAACTTCA-AGGAGATAAGATT-TGTAGT
122 AGACAAGATGT-A-TAACTTTCAATCTGCTTTACTGCAACTTCAGA-GAGATAAAATTCACTA-T
* * * * * * *
11263832 -TTCAATCTGCTCTACTGCAATTTTAG-AGTGATAAGAT-TCAC
183 CTGCATTCTACTCCACTGCAACTTCAGTA-AGATAAGATCT-AC
* * * * * * * *
11263873 TATCTTTAATCTACTCCACTGCAACTTTAGGGAGATAATATTTGTAATT-TT-AAGTCAGCTCTA
1 -AACTTCAATCTGCTCCACTGCAACTTCA-AGAGATAAGATTTGT-ATTCTTCAA-TCTGCTCCA
* * * * * * * * *
11263936 CTGCAATTTCAGAGAGATAAGA-TTCACTATTTTTATTCTGCTCCACTGCAACTTTAGGGAGATA
62 CTGCAACTTCAGGGAGATAAGATTTGACTATCTTAACTCTGCTCCACTGCAACTTCAGAGAGACA
* **** * ** * * *
11264000 AGATTTGCGGCTTT-AATTTGCTCCACTGCAACTTCA-AGGAGATAAGATTTGTAGCCTATCTTC
127 AGATGTATAACTTTCAATCTGCTTTACTGCAACTTCAGA-GAGATAA-AATT-CA--CTATCTGC
* * * ** * **
11264063 AATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTTT
187 ATTCTACTCCACTGCAACTTCAGTAAGATAAGA--TCTAC
** * * * * * *
11264103 ATTTTTAATCTGCTCCACTGCAACTTCGAGGAGATAAG--GTGTATAACTTTAATCTGCTCTACT
1 AACTTCAATCTGCTCCACTGCAACTTC-AAGAGATAAGATTTGTAT-TCTTCAATCTGCTCCACT
* * ** * *
11264166 GCAACTTCAGAGAGATAAGATTTG-CTACCTCCGA-TCTACTCCACTGCAACTTCA-AGAAGATA
64 GCAACTTCAGGGAGATAAGATTTGACTATCT-TAACTCTGCTCCACTGCAACTTCAGAG-AGACA
* * ** * *
11264228 AAATCTATAAC-TTCAATCTGCTCCACTACAACTTCAGGGAGATAA
127 AGATGTATAACTTTCAATCTGCTTTACTGCAACTTCAGAGAGATAA
11264273 GACTTGAAAC
Statistics
Matches: 839, Mismatches: 168, Indels: 138
0.73 0.15 0.12
Matches are distributed among these distances:
222 44 0.05
223 98 0.12
224 137 0.16
225 38 0.05
226 18 0.02
227 63 0.08
228 331 0.39
229 100 0.12
230 9 0.01
231 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (224 bp):
AACTTCAATCTGCTCCACTGCAACTTCAAGAGATAAGATTTGTATTCTTCAATCTGCTCCACTGC
AACTTCAGGGAGATAAGATTTGACTATCTTAACTCTGCTCCACTGCAACTTCAGAGAGACAAGAT
GTATAACTTTCAATCTGCTTTACTGCAACTTCAGAGAGATAAAATTCACTATCTGCATTCTACTC
CACTGCAACTTCAGTAAGATAAGATCTAC
Found at i:11263726 original size:88 final size:89
Alignment explanation
Indices: 11262802--11264319 Score: 937
Period size: 89 Copynumber: 16.9 Consensus size: 89
11262792 GACTCTTTTT
* * * * *
11262802 AATCTGCTCCACTGCAACTTCAGG-GAGATAAAAGTTA-TAACTTCAATCCGTTCCATTGTAACT
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGA-TTACTAACTTCAATCTGCTCCACTGCAACT
* *
11262865 TTAGGGAGATAAGAGTTGTAACTTC
65 TCAGGGAGATAAGATTTGTAACTTC
* * * * ** *
11262890 AAT-TGACTCCACTACAACTTCAGG-GAGATAATAGTT-GTAACTTCAATCCGCTTTACTGTAAC
1 AATCTG-CTCCACTGCAACTTCAGGAGAGATAAGA-TTACTAACTTCAATCTGCTCCACTGCAAC
* *
11262952 TTTAGGGAGATAAGAGTTGTAACTTC
64 TTCAGGGAGATAAGATTTGTAACTTC
* * ** *
11262978 AATCCGCTCCACTGCAACTTCAGG-GAGATAAGAGTT-GTAACTTCAATCCACTCCACTGTAACT
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGA-TTACTAACTTCAATCTGCTCCACTGCAACT
* * *
11263041 TTAGGGAGATAATAGTTGTAACTTC
65 TCAGGGAGATAAGATTTGTAACTTC
* * * * * *
11263066 AATATGCTCCACTGCAACTTCAGG-GAGAAAAGATTCACCATA-TTCAATCTACTCTACTGTAAC
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGATT-ACTA-ACTTCAATCTGCTCCACTGCAAC
* * **
11263129 TTTAGGGAAATAAGATTTGTAGTTTC
64 TTCAGGGAGATAAGATTTGTAACTTC
* * * * * *
11263155 AATCTGCTCTACTACAAATTTA-GAGAGATAAGATTCACTATCTTCAATCTACTCCACTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGATT-ACTAACTTCAATCTGCTCCACTGCAACT
* *
11263219 TCAGAGAGATAAGATTTGTAATTTTC
65 TCAGGGAGATAAGATTTGTAA-CTTC
* * * *
11263245 AGTCTGCTCTACTGCAACTTCA-GAGAGATAAGATTCACTATCTTCATTCTGCTCCACTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGATT-ACTAACTTCAATCTGCTCCACTGCAACT
* *
11263309 TCAGAGAGATAAGATTTGTAATTTTC
65 TCAGGGAGATAAGATTTGTAA-CTTC
* ** * * *
11263335 AGTCTGCTTTACTGCAACTTCA-GAGAGATAAGATTCACTATCTGCATTCTGCTCCACTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGATT-ACTAACTTCAATCTGCTCCACTGCAACT
* *** *
11263399 TCAGTGAGATAAGATTTGCGGCTTT
65 TCAGGGAGATAAGATTTGTAACTTC
* **
11263424 AATCTGCTCTACTGCAACTTCA--ATGAGATAAGATTTGTAGCCTGTCTTCAATCTGCTCCACTG
1 AATCTGCTCCACTGCAACTTCAGGA-GAGATAAGA--T-TA--CTAACTTCAATCTGCTCCACTG
* ** *
11263487 CAATTTCAGGGAGATAAGATTTGTTTATTTTT
60 CAACTTCAGGGAGATAAGATTTG--TAACTTC
* * * * **
11263519 AA-CTTGCTCCACTGCAACTTC--GAGGAGACAAGGTGTA-TAGCTTTAATCTGCTTTACTGCAA
1 AATC-TGCTCCACTGCAACTTCAGGA-GAGATAAGAT-TACTAACTTCAATCTGCTCCACTGCAA
* * * *
11263580 CTTTAGAGAGATAAAATTTGCTATC-TC
63 CTTCAGGGAGATAAGATTTG-TAACTTC
* * * * * *
11263607 TGATCTACTGCACTGCAACTTCAAGA-AGATAAGATCTA-TAACTTCAATTTGCTCCATTGCAAC
1 -AATCTGCTCCACTGCAACTTCAGGAGAGATAAGAT-TACTAACTTCAATCTGCTCCACTGCAAC
*
11263670 TTCAGGGAGATAAGACTTGTAACTTC
64 TTCAGGGAGATAAGATTTGTAACTTC
* *
11263696 AATCTGCTCCGCTGCAACTTCAGGAG-GATAAGATTTGCCATAATGACTTCAATC--CATCCCAC
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGA-TT-AC-T-A--ACTTCAATCTGC-T-CCAC
* ** *
11263758 TGCAACTTCAGGGAGAAAAGATTCACTATCTTC
58 TGCAACTTCAGGGAGATAAGATT-TGTAACTTC
* * * * ** ** * *
11263791 AATTTACACCACTGCAACTTCAAG-GAGATAAGATTTGTAGTTTCAATCTGCTCTACTGCAATTT
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTACTAACTTCAATCTGCTCCACTGCAACTT
* * * ** * *
11263855 TAGAGTGATAAGATTCACTATCTTT
66 CAGGGAGATAAGATT-TGTAACTTC
* * * ** * * * * *
11263880 AATCTACTCCACTGCAACTTTAGG-GAGATAATATTTGTAATTTTAAGTCAGCTCTACTGCAATT
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTACTAACTTCAA-TCTGCTCCACTGCAACT
* ** ** *
11263944 TCAGAGAGATAAGATTCACTATTTTT
65 TCAGGGAGATAAGATT-TGTAACTTC
* * * ** * *
11263970 ATTCTGCTCCACTGCAACTTTAGG-GAGATAAGATTTGC-GGCTTTAATTTGCTCCACTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGA-TTACTAACTTCAATCTGCTCCACTGCAACT
*
11264033 TCAAGGAGATAAGATTTGTAGCCTATCTTC
65 TCAGGGAGATAAGATTTGTA----A-CTTC
* ** ** *
11264063 AATCTGCTCCACTGCAATTTCAGG-GAGATAAGATTTGTTTATTTTTAATCTGCTCCACTGCAAC
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGA-TT-ACTAACTTCAATCTGCTCCACTGCAAC
* * * *
11264127 TTC-GAGGAGATAAGGTGTATAACTTT
64 TTCAG-GGAGATAAGATTTGTAACTTC
* * * * * *
11264153 AATCTGCTCTACTGCAACTTCA-GAGAGATAAGATTTGCTACCTCCGATCTACTCCACTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGA-TTACTAACTTCAATCTGCTCCACTGCAACT
* * * * *
11264217 TCAAGAAGATAAAATCTATAACTTC
65 TCAGGGAGATAAGATTTGTAACTTC
* * ** *
11264242 AATCTGCTCCACTACAACTTCAGG-GAGATAAGACTTGA--AACTTCAATCTACTCTGCTGTAAC
1 AATCTGCTCCACTGCAACTTCAGGAGAGATAAGA-TT-ACTAACTTCAATCTGCTCCACTGCAAC
*
11264304 TTTAGGG-GATAAGATT
64 TTCAGGGAGATAAGATT
11264320 CGCCATAATG
Statistics
Matches: 1177, Mismatches: 201, Indels: 105
0.79 0.14 0.07
Matches are distributed among these distances:
87 11 0.01
88 245 0.21
89 379 0.32
90 315 0.27
91 10 0.01
92 4 0.00
93 80 0.07
94 36 0.03
95 97 0.08
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (89 bp):
AATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTACTAACTTCAATCTGCTCCACTGCAACTT
CAGGGAGATAAGATTTGTAACTTC
Found at i:11263822 original size:139 final size:138
Alignment explanation
Indices: 11263617--11263869 Score: 330
Period size: 139 Copynumber: 1.8 Consensus size: 138
11263607 TGATCTACTG
* * * * *
11263617 CACTGCAACTTCAAGAAGATAAGATCTATAACTTCAATTTGCTCCATTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAAGAAGAAAAGATCTATAACTTCAATTTACACCACTGCAACTTCAAGGAGATA
*
11263682 AGACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAGGAG-GATAAGATTTGCCATAATGACTTC
66 AGACTTGTAACTTCAATCTGCTCCACTGCAACTTCA-GAGTGATAAGATTTGCCATAATGACTTC
11263746 AATCCATCC
130 AATCCATCC
* * *
11263755 CACTGCAACTTCAGGGAGAAAAGAT-TCACTATCTTCAATTTACACCACTGCAACTTCAAGGAGA
1 CACTGCAACTTCAAGAAGAAAAGATCT-A-TAACTTCAATTTACACCACTGCAACTTCAAGGAGA
* ** * * *
11263819 TAAGATTTGTAGTTTCAATCTGCTCTACTGCAATTTTAGAGTGATAAGATT
64 TAAGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGAGTGATAAGATT
11263870 CACTATCTTT
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
137 1 0.01
138 26 0.27
139 70 0.72
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (138 bp):
CACTGCAACTTCAAGAAGAAAAGATCTATAACTTCAATTTACACCACTGCAACTTCAAGGAGATA
AGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGAGTGATAAGATTTGCCATAATGACTTCA
ATCCATCC
Found at i:11263918 original size:590 final size:590
Alignment explanation
Indices: 11263179--11264330 Score: 1851
Period size: 590 Copynumber: 2.0 Consensus size: 590
11263169 CAAATTTAGA
* * *
11263179 GAGATAAGATTCACTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAATTTT
1 GAGAAAAGATTCACTATCTTCAATCTACACCACTGCAACTTCAGAGAGATAAGATTTGTAAGTTT
* * *
11263244 CAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTCATTCTGCTCCACTGCAACT
66 CAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTCAATCTACTCCACTGCAACT
* * *
11263309 TCAGAGAGATAAGATTTGTAATTTTCAGTCTGCTTTACTGCAACTTCAGAGAGATAAGATTCACT
131 TCAGAGAGATAAGATTTGTAATTTTAAGTCAGCTCTACTGCAACTTCAGAGAGATAAGATTCACT
* *
11263374 ATCTGCATTCTGCTCCACTGCAACTTCAGTGAGATAAGATTTGCGGCTTTAATCTGCTCTACTGC
196 ATCTGCATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCGGCTTTAATCTGCTCCACTGC
* *
11263439 AACTTCAATGAGATAAGATTTGTAGCCTGTCTTCAATCTGCTCCACTGCAATTTCAGGGAGATAA
261 AACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCTCCACTGCAATTTCAGGGAGATAA
*
11263504 GATTTGTTTATTTTTAA-CTTGCTCCACTGCAACTTCGAGGAGACAAGGTGTATAGCTTTAATCT
326 GATTTGTTTATTTTTAATC-TGCTCCACTGCAACTTCGAGGAGACAAGGTGTATAACTTTAATCT
* * * * *
11263568 GCTTTACTGCAACTTTAGAGAGATAAAATTTGCTATCTCTGATCTACTGCACTGCAACTTCAAGA
390 GCTCTACTGCAACTTCAGAGAGATAAAATTTGCTACCTCCGATCTACTCCACTGCAACTTCAAGA
* * * * *
11263633 AGATAAGATCTATAACTTCAATTTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA
455 AGATAAAATCTATAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGAAACTTCAA
* *
11263698 TCTGCTCCGCTGCAACTTCAGGAGGATAAGATTTGCCATAATGACTTCAATCCATCCCACTGCAA
520 TCTACTCCGCTGCAACTTCAGG-GGATAAGATTCGCCATAATGACTTCAATCCATCCCACTGCAA
11263763 CTTCAGG
584 CTTCAGG
*
11263770 GAGAAAAGATTCACTATCTTCAATTTACACCACTGCAACTTCA-AGGAGATAAGATTTGT-AGTT
1 GAGAAAAGATTCACTATCTTCAATCTACACCACTGCAACTTCAGA-GAGATAAGATTTGTAAGTT
* * * *
11263833 TCAATCTGCTCTACTGCAATTTTAGAGTGATAAGATTCACTATCTTTAATCTACTCCACTGCAAC
65 TCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTCAATCTACTCCACTGCAAC
* * * *
11263898 TTTAGGGAGATAATATTTGTAATTTTAAGTCAGCTCTACTGCAATTTCAGAGAGATAAGATTCAC
130 TTCAGAGAGATAAGATTTGTAATTTTAAGTCAGCTCTACTGCAACTTCAGAGAGATAAGATTCAC
* ** * *
11263963 TATTTTTATTCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCGGCTTTAATTTGCTCCACTG
195 TATCTGCATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCGGCTTTAATCTGCTCCACTG
11264028 CAACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCTCCACTGCAATTTCAGGGAGATA
260 CAACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCTCCACTGCAATTTCAGGGAGATA
*
11264093 AGATTTGTTTATTTTTAATCTGCTCCACTGCAACTTCGAGGAGATAAGGTGTATAACTTTAATCT
325 AGATTTGTTTATTTTTAATCTGCTCCACTGCAACTTCGAGGAGACAAGGTGTATAACTTTAATCT
*
11264158 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTACCTCCGATCTACTCCACTGCAACTTCAAGA
390 GCTCTACTGCAACTTCAGAGAGATAAAATTTGCTACCTCCGATCTACTCCACTGCAACTTCAAGA
11264223 AGATAAAATCTATAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGAAACTTCAA
455 AGATAAAATCTATAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGAAACTTCAA
* * *
11264288 TCTACTCTGCTGTAACTTTAGGGGATAAGATTCGCCATAATGA
520 TCTACTCCGCTGCAACTTCAGGGGATAAGATTCGCCATAATGA
11264331 ATTAGGTAAT
Statistics
Matches: 514, Mismatches: 45, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
589 20 0.04
590 439 0.85
591 55 0.11
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (590 bp):
GAGAAAAGATTCACTATCTTCAATCTACACCACTGCAACTTCAGAGAGATAAGATTTGTAAGTTT
CAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTCAATCTACTCCACTGCAACT
TCAGAGAGATAAGATTTGTAATTTTAAGTCAGCTCTACTGCAACTTCAGAGAGATAAGATTCACT
ATCTGCATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCGGCTTTAATCTGCTCCACTGC
AACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCTCCACTGCAATTTCAGGGAGATAA
GATTTGTTTATTTTTAATCTGCTCCACTGCAACTTCGAGGAGACAAGGTGTATAACTTTAATCTG
CTCTACTGCAACTTCAGAGAGATAAAATTTGCTACCTCCGATCTACTCCACTGCAACTTCAAGAA
GATAAAATCTATAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGAAACTTCAAT
CTACTCCGCTGCAACTTCAGGGGATAAGATTCGCCATAATGACTTCAATCCATCCCACTGCAACT
TCAGG
Found at i:11266657 original size:192 final size:192
Alignment explanation
Indices: 11266330--11266694 Score: 640
Period size: 192 Copynumber: 1.9 Consensus size: 192
11266320 TCACATATAA
* *
11266330 GTGAGCACTCACAATCCTATGGCATTCCAACTATATCCAATGGTTCCAAAAATTCACAATGCCAA
1 GTGAGCACTCACAATCCTATGGCATGCCAACTATATCCAATAGTTCCAAAAATTCACAATGCCAA
* * *
11266395 CATAACGCAGTAATACACATGTACAGGTCACGTCATTTTAGGCTCACAATTTTTAATAGAGCTCA
66 CATAACACAATAATACACATGTACAGGTCACGTCATTTTAGGCTCACAAATTTTAATAGAGCTCA
* *
11266460 CAGTACCACAACACGTCATAGAATAGCTTGCAAAGCATTAAGCGCCCTATCACATTACATAG
131 CAGTACCACAACACGTCATAGAACAACTTGCAAAGCATTAAGCGCCCTATCACATTACATAG
*
11266522 GTGAGCACTCATAATCCTATGGCATGCCAACTATATCCAATAGTTCCAAAAATTCACAATGCCAA
1 GTGAGCACTCACAATCCTATGGCATGCCAACTATATCCAATAGTTCCAAAAATTCACAATGCCAA
* *
11266587 CATATCACAATAATACACATTTACAGGTCACGTCATTTTAGGCTCACAAATTTTAATAGAGCTCA
66 CATAACACAATAATACACATGTACAGGTCACGTCATTTTAGGCTCACAAATTTTAATAGAGCTCA
11266652 CAGTACCACAACACGTCATAGAACAACTTGCAAAGCATTAAGC
131 CAGTACCACAACACGTCATAGAACAACTTGCAAAGCATTAAGC
11266695 TCGCATAAAC
Statistics
Matches: 163, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
192 163 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (192 bp):
GTGAGCACTCACAATCCTATGGCATGCCAACTATATCCAATAGTTCCAAAAATTCACAATGCCAA
CATAACACAATAATACACATGTACAGGTCACGTCATTTTAGGCTCACAAATTTTAATAGAGCTCA
CAGTACCACAACACGTCATAGAACAACTTGCAAAGCATTAAGCGCCCTATCACATTACATAG
Found at i:11273456 original size:15 final size:16
Alignment explanation
Indices: 11273433--11273475 Score: 70
Period size: 15 Copynumber: 2.7 Consensus size: 16
11273423 ACAAAAATAT
11273433 TTATAAATAATAAAAA
1 TTATAAATAATAAAAA
11273449 TT-TAAATAATAAAAA
1 TTATAAATAATAAAAA
11273464 TTAATAAATAAT
1 TT-ATAAATAAT
11273476 TCATAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.60
16 2 0.08
17 8 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTATAAATAATAAAAA
Found at i:11275622 original size:18 final size:18
Alignment explanation
Indices: 11275599--11275637 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11275589 ACCTCTTCCA
11275599 TAAAACCCCTTAAGGG-TT
1 TAAAACCCCTT-AGGGATT
11275617 TAAAACCCCTTAGGGATT
1 TAAAACCCCTTAGGGATT
11275635 TAA
1 TAA
11275638 CTTCAACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (18 bp):
TAAAACCCCTTAGGGATT
Found at i:11282117 original size:20 final size:20
Alignment explanation
Indices: 11282092--11282142 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
11282082 TATGAACCAC
*
11282092 TCCATTTACTTACTTATCAT
1 TCCATTTACTTAATTATCAT
* *
11282112 TCCATTTATTTAATTTTCAT
1 TCCATTTACTTAATTATCAT
*
11282132 TTCA-TTACTTA
1 TCCATTTACTTA
11282143 GCATAAACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (20 bp):
TCCATTTACTTAATTATCAT
Found at i:11285430 original size:15 final size:15
Alignment explanation
Indices: 11285410--11285440 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11285400 TTACATCATT
11285410 TCTTCTATGAGAAAC
1 TCTTCTATGAGAAAC
11285425 TCTTCTATGAGAAAC
1 TCTTCTATGAGAAAC
11285440 T
1 T
11285441 AGACTCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (15 bp):
TCTTCTATGAGAAAC
Found at i:11285983 original size:27 final size:28
Alignment explanation
Indices: 11285922--11285981 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
11285912 GGTAGAGTGG
* *
11285922 GAAAAGAAAAATCCAGAAGGCGAAGGGT
1 GAAAAGAAAAATCAAGAAGACGAAGGGT
*
11285950 GAAAAGAAAAATCAAGAAGATGAAGGGT
1 GAAAAGAAAAATCAAGAAGACGAAGGGT
11285978 GAAA
1 GAAA
11285982 GAGAGCAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.55, C:0.07, G:0.30, T:0.08
Consensus pattern (28 bp):
GAAAAGAAAAATCAAGAAGACGAAGGGT
Found at i:11289027 original size:24 final size:24
Alignment explanation
Indices: 11289000--11289049 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
11288990 TAGCAGTTAT
11289000 TATTGGAGAAACTGTTAGATCAGC
1 TATTGGAGAAACTGTTAGATCAGC
11289024 TATTGGAGAAACTGTTAGATCAGC
1 TATTGGAGAAACTGTTAGATCAGC
11289048 TA
1 TA
11289050 AGGCTCTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (24 bp):
TATTGGAGAAACTGTTAGATCAGC
Found at i:11291799 original size:3 final size:3
Alignment explanation
Indices: 11291791--11291831 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11291781 AGAAAGTGTA
11291791 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11291832 AATGAAATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11292777 original size:49 final size:49
Alignment explanation
Indices: 11292701--11292846 Score: 168
Period size: 49 Copynumber: 3.0 Consensus size: 49
11292691 CTTCGTTTTC
* *
11292701 TCGATGCCATAGTCCAACTATGGTCTTACACGTAATCACATAACACATA
1 TCGATGCCATAGTCCAACTATGATCTTACACGAAATCACATAACACATA
* **
11292750 TCGATGCCATAGTCCAACTATGATCTTACACGAAATCACATATCATTTA
1 TCGATGCCATAGTCCAACTATGATCTTACACGAAATCACATAACACATA
* * * * * *
11292799 CCGATGCCATAG-CCTAGCAATGGTCTTATACGAAAATCACATATCACA
1 TCGATGCCATAGTCC-AACTATGATCTTACACG-AAATCACATAACACA
11292847 AGTTGTCATG
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
48 2 0.02
49 68 0.82
50 13 0.16
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (49 bp):
TCGATGCCATAGTCCAACTATGATCTTACACGAAATCACATAACACATA
Found at i:11294408 original size:23 final size:23
Alignment explanation
Indices: 11294374--11294494 Score: 118
Period size: 23 Copynumber: 5.3 Consensus size: 23
11294364 TAAGTGCCAT
11294374 ACTGATATGTAGTCGAAGCTACC
1 ACTGATATGTAGTCGAAGCTACC
* * *
11294397 ACTGATACGTAGCCGTAGCTACC
1 ACTGATATGTAGTCGAAGCTACC
*
11294420 ACTGAAATGTAG-CTGAAGCTACC
1 ACTGATATGTAGTC-GAAGCTACC
* *
11294443 ACTGATATGTATTCGTAGCTACC
1 ACTGATATGTAGTCGAAGCTACC
** * * * *
11294466 ACAAAAATGCAGCCAAAGCTACC
1 ACTGATATGTAGTCGAAGCTACC
11294489 ACTGAT
1 ACTGAT
11294495 CAATAACACT
Statistics
Matches: 76, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
22 1 0.01
23 74 0.97
24 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (23 bp):
ACTGATATGTAGTCGAAGCTACC
Found at i:11294441 original size:46 final size:46
Alignment explanation
Indices: 11294374--11294494 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 46
11294364 TAAGTGCCAT
*
11294374 ACTGATATGTAG-TCGAAGCTACCACTGATACGTAGCCGTAGCTACC
1 ACTGAAATGTAGCT-GAAGCTACCACTGATACGTAGCCGTAGCTACC
* **
11294420 ACTGAAATGTAGCTGAAGCTACCACTGATATGTATTCGTAGCTACC
1 ACTGAAATGTAGCTGAAGCTACCACTGATACGTAGCCGTAGCTACC
** * **
11294466 ACAAAAATGCAGCCAAAGCTACCACTGAT
1 ACTGAAATGTAGCTGAAGCTACCACTGAT
11294495 CAATAACACT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
46 64 0.98
47 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (46 bp):
ACTGAAATGTAGCTGAAGCTACCACTGATACGTAGCCGTAGCTACC
Found at i:11307347 original size:29 final size:31
Alignment explanation
Indices: 11307276--11307352 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
11307266 TTAACGGCTC
* *
11307276 AGTGACTAAAATGTTACAATACGATAACGTA
1 AGTGACTAAAATGTAACAATACGATAACATA
* *
11307307 AGTGACTAAAATGTAACATTTC-A-AACATA
1 AGTGACTAAAATGTAACAATACGATAACATA
11307336 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
11307353 CTAAGGTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (31 bp):
AGTGACTAAAATGTAACAATACGATAACATA
Found at i:11318240 original size:3 final size:3
Alignment explanation
Indices: 11318232--11318294 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
11318222 ACAGAAGAGG
11318232 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11318280 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
11318295 ATATGTGTGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11329713 original size:47 final size:46
Alignment explanation
Indices: 11329576--11329721 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 46
11329566 TGGTTAAATG
* *
11329576 TATAAATTATATATCATTATTAAATTATATTTAATATTAATTA-TT
1 TATAAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
* * **
11329621 T-TAAATTATATA-AATTCATATAAGA--AAATTT-ATTATCAAGAATTT
1 TATAAATTATATATAATT-AT-TAA-ATTATATTTAATAAT-AATTATTT
*
11329666 TATGAAATTATATATTATTATTAAATTATATTTAATAATAATTA-TT
1 TAT-AAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
11329712 T-TAAATTATA
1 TATAAATTATA
11329722 CAAATTCATA
Statistics
Matches: 79, Mismatches: 11, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
43 6 0.08
44 29 0.37
45 9 0.11
46 8 0.10
47 20 0.25
48 7 0.09
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (46 bp):
TATAAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
Found at i:11329734 original size:91 final size:91
Alignment explanation
Indices: 11329579--11329746 Score: 309
Period size: 91 Copynumber: 1.8 Consensus size: 91
11329569 TTAAATGTAT
* *
11329579 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
11329644 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
*
11329670 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
11329735 GAAAATTTATTA
66 GAAAATTTATTA
11329747 GTTATAATTA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 74 1.00
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:11329880 original size:37 final size:35
Alignment explanation
Indices: 11329839--11330008 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
11329829 TAGTATCATA
*
11329839 TATTATGATTTTAGTAAATTCATATAAGAATATTGAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* * *
11329876 TATTAAGAATTTTATTAAATTATAT---ATTTTAAT
1 TATTATG-ATTTTAGTAAATTATATAAAATATTAAT
* * * *
11329909 TATGAT-ATATTTAATAATAATTATGTTAAATTATCT-A-
1 TATTATGAT-TTTAGT-A-AATTAT-ATAAAATAT-TAAT
*
11329946 TATTATGATTTGAGTAAATTCATATAAGAATATTAAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* *
11329983 TATTAAGAATTTTATTAAATTATATA
1 TATTATG-ATTTTAGTAAATTATATA
11330009 TTTTAATTAT
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 2 0.02
32 5 0.05
33 11 0.11
34 6 0.06
35 9 0.09
36 8 0.08
37 30 0.30
38 28 0.28
39 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (35 bp):
TATTATGATTTTAGTAAATTATATAAAATATTAAT
Found at i:11329922 original size:222 final size:226
Alignment explanation
Indices: 11329631--11330037 Score: 553
Period size: 222 Copynumber: 1.8 Consensus size: 226
11329621 TTAAATTATA
*
11329631 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTGATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
* * *
11329696 TTTAATAATAATTATTTTAAATTATAC-AAATTCAT-A-TAAGAAAATT-TATTAG-TTA-TAAT
66 TTTAATAATAATTATGTTAAATTAT-CTAAATT-ATGATTAAGAAAATTATATAAGAATATTAAT
* *
11329755 TATTTTA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTTATTTCAAA
129 TA-TTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTTATTTCAAA
11329819 TTATATTTTATAGTATCATATATTATGATTTTAG
193 TTATATTTTATAGTATCATATATTATGATTTTAG
* * * *
11329853 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT-TTAATTATGA-TA
1 TAAATTCATATAAGAAAATTGATTATCAAGAATTTTATGAAATTATATATTATT-ATTA-AATTA
* * *
11329916 TATTTAATAATAATTATGTTAAATTATCTATATTATGATTTGAGTAAATTCATATAAGAATATTA
64 TATTTAATAATAATTATGTTAAATTATCTAAATTATGA-TTAAGAAAATT-ATATAAGAATATTA
* *
11329981 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATT
127 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATT
11330038 ATGTTTAAAT
Statistics
Matches: 159, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
221 5 0.03
222 84 0.53
223 1 0.01
224 8 0.05
226 5 0.03
227 5 0.03
228 51 0.32
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (226 bp):
TAAATTCATATAAGAAAATTGATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
TTTAATAATAATTATGTTAAATTATCTAAATTATGATTAAGAAAATTATATAAGAATATTAATTA
TTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTTATTTCAAATTA
TATTTTATAGTATCATATATTATGATTTTAG
Found at i:11329956 original size:107 final size:109
Alignment explanation
Indices: 11329832--11330047 Score: 391
Period size: 107 Copynumber: 2.0 Consensus size: 109
11329822 TATTTTATAG
* *
11329832 TATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
11329897 ATATATTTTAATTATGATATATTTAATAATAATTATG-TTAAAT
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
11329940 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
11330004 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
11330048 ATGATTAAAT
Statistics
Matches: 104, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
107 94 0.90
108 10 0.10
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (109 bp):
TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
Found at i:11330025 original size:16 final size:16
Alignment explanation
Indices: 11330004--11330045 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11329994 TTATTAAATT
*
11330004 ATATATTTTAATTATA
1 ATATATTTTAATAATA
11330020 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
11330035 AT-TATGTTTAA
1 ATATAT-TTTAA
11330046 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:11330030 original size:15 final size:15
Alignment explanation
Indices: 11329995--11330036 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11329985 TTAAGAATTT
*
11329995 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11330009 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11330023 TATTTAATAATAAT
1 TATTTAATTATAAT
11330037 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:11330270 original size:45 final size:44
Alignment explanation
Indices: 11330190--11330279 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
11330180 ACCTCTATTC
11330190 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* *
11330234 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
11330279 C
1 C
11330280 GCCTCTATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.38
45 25 0.60
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:11330280 original size:16 final size:16
Alignment explanation
Indices: 11330259--11330291 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11330249 TTGATTTGCT
11330259 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
11330275 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
11330291 A
1 A
11330292 ATACAGTGAA
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:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:11331811 original size:16 final size:19
Alignment explanation
Indices: 11331763--11331818 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
11331753 TTTAGTCATA
11331763 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
11331783 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTAATATAT
11331801 TAATAAATTATTTAATAT
1 TAATAAATTA-TTAATAT
11331819 TTCAATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 8 0.26
19 1 0.03
20 6 0.19
21 4 0.13
22 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:11331870 original size:15 final size:15
Alignment explanation
Indices: 11331828--11331870 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
11331818 TTTCAATTAT
11331828 ATTTT-AATAATAAA
1 ATTTTAAATAATAAA
*
11331842 TTTTTAAA-AATAAA
1 ATTTTAAATAATAAA
*
11331856 ATTTTAAATATTAAA
1 ATTTTAAATAATAAA
11331871 TATTAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTTTAAATAATAAA
Found at i:11331893 original size:15 final size:15
Alignment explanation
Indices: 11331826--11331931 Score: 72
Period size: 15 Copynumber: 6.5 Consensus size: 15
11331816 TATTTCAATT
11331826 ATATTTTAATAATAA
1 ATATTTTAATAATAA
*
11331841 AT-TTTTAAAAATAA
1 ATATTTTAATAATAA
11331855 A-ATTTTAAATATTAAATATTA
1 ATATTTT--A-A-T-AATA--A
11331876 ATATTTTAATAATAA
1 ATATTTTAATAATAA
*
11331891 ATATTTATTGCAATTATAA
1 ATA-TT-TT--AATAATAA
*
11331910 ATATATTAATAATAA
1 ATATTTTAATAATAA
11331925 ATATTTT
1 ATATTTT
11331932 GTAGTATAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 26
0.69 0.06 0.25
Matches are distributed among these distances:
14 16 0.22
15 19 0.26
16 3 0.04
17 9 0.12
18 2 0.03
19 15 0.21
20 1 0.01
21 2 0.03
22 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (15 bp):
ATATTTTAATAATAA
Found at i:11335019 original size:25 final size:25
Alignment explanation
Indices: 11334969--11335019 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
11334959 AGTTCTTGTA
**
11334969 TTTTTATTTTTAAGATTTTAGTTTT
1 TTTTTATTTTTAAGATTTTAAATTT
11334994 TTTTTATTTTTTAA-ATTTTAAATTT
1 TTTTTA-TTTTTAAGATTTTAAATTT
11335019 T
1 T
11335020 AAATATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (25 bp):
TTTTTATTTTTAAGATTTTAAATTT
Found at i:11336996 original size:16 final size:16
Alignment explanation
Indices: 11336960--11336999 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
11336950 GAATTACATT
*
11336960 TTAATTATATTATTATA
1 TTAATT-TATAATTATA
*
11336977 TTAATTTATAATTTTA
1 TTAATTTATAATTATA
11336993 TTAATTT
1 TTAATTT
11337000 TAAAAAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTTATAATTATA
Found at i:11344336 original size:18 final size:17
Alignment explanation
Indices: 11344313--11344347 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
11344303 GAATAGATTT
11344313 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
11344331 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
11344348 ACCCTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:11345191 original size:18 final size:17
Alignment explanation
Indices: 11345160--11345194 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
11345150 GATTTAGGGT
11345160 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
11345177 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
11345195 AAATCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:11347500 original size:120 final size:121
Alignment explanation
Indices: 11347213--11347551 Score: 466
Period size: 120 Copynumber: 2.8 Consensus size: 121
11347203 ATCGAGGTGG
* * * * *
11347213 TTACATGTTTGAATAATCTTTTAGCTTTCAAGATAAGTTCCATCTTAAAATGTTATGCTTGTGAG
1 TTACATGTTTGAACAATC-TTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAG
11347278 TTTGCTTCTCTGCCTGTGCTTCTTGTTCAGTATCTCCTTACACTAAAATTGAGGCGA
65 TTTGCTTCTCTGCCTGTGCTTCTTGTTCAGTATCTCCTTACACTAAAATTGAGGCGA
* * * *
11347335 TTACATGTTTGAACAATCTTTAGCTTTTGAGATATGTTCGATTTTAAAATGTTATGCGTGCGAGT
1 TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAGT
* ** * * * *
11347400 TTGCATCTCTGCCAATGCTTCTTGTTC-GTATTTGCTTACTCTAGAATTGA-GCTGA
66 TTGCTTCTCTGCCTGTGCTTCTTGTTCAGTATCTCCTTACACTAAAATTGAGGC-GA
* * * *
11347455 TTACATGTTTGAACAATCTTTAGCTTTCGAGGTAAGTTTGGTTTTAAAATGTTATTCATGTGAGT
1 TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAGT
11347520 TTGCTTCTCTGCCTGTGCTTCTTGTTCAGTAT
66 TTGCTTCTCTGCCTGTGCTTCTTGTTCAGTAT
11347552 AGAATGCTAT
Statistics
Matches: 189, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
119 2 0.01
120 102 0.54
121 68 0.36
122 17 0.09
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (121 bp):
TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAGT
TTGCTTCTCTGCCTGTGCTTCTTGTTCAGTATCTCCTTACACTAAAATTGAGGCGA
Found at i:11359869 original size:18 final size:18
Alignment explanation
Indices: 11359841--11359875 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11359831 TAATACTCTT
11359841 TTTACCTTTTAATCAAAAA
1 TTTACCTTTTAAT-AAAAA
11359860 TTTA-CTTTTAATAAAA
1 TTTACCTTTTAATAAAA
11359876 TTGCACCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTACCTTTTAATAAAAA
Found at i:11366452 original size:14 final size:14
Alignment explanation
Indices: 11366417--11366443 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11366407 CAGTTGTTTG
11366417 ATTATATTTTAATT
1 ATTATATTTTAATT
11366431 ATTATATTTTAAT
1 ATTATATTTTAAT
11366444 GTTATTATTA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTATATTTTAATT
Found at i:11366772 original size:31 final size:28
Alignment explanation
Indices: 11366729--11366803 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
11366719 TGAAAAGCTA
*
11366729 TTATTTGGGCACTTTCAAAAAAGTTTAACCC
1 TTATTTGAGCACTTT--AAAAAGTTTAA-CC
* *
11366760 TTATTTGAGCACTTTGAAAAGTTTAACT
1 TTATTTGAGCACTTTAAAAAGTTTAACC
*
11366788 TTCATTTGAACACTTT
1 TT-ATTTGAGCACTTT
11366804 TGAAAAGGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 3 0.08
29 22 0.56
31 14 0.36
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (28 bp):
TTATTTGAGCACTTTAAAAAGTTTAACC
Found at i:11366794 original size:29 final size:30
Alignment explanation
Indices: 11366747--11366843 Score: 92
Period size: 29 Copynumber: 3.2 Consensus size: 30
11366737 GCACTTTCAA
*
11366747 AAAAGTTTAACCCTTATTTGAGCAC-TTTG
1 AAAAGTTTAACCCTTATTTGAACACTTTTG
*
11366776 AAAAGTTTAA-CTTTCATTTGAACACTTTTG
1 AAAAGTTTAACCCTT-ATTTGAACACTTTTG
* ** *
11366806 AAAAGGTTAAGCCCGGATTTTGAA-ATTTTTG
1 AAAAGTTTAA-CCCTTA-TTTGAACACTTTTG
11366837 AAAAGTT
1 AAAAGTT
11366844 GGGTCCCAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
28 3 0.05
29 19 0.35
30 13 0.24
31 13 0.24
32 7 0.13
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (30 bp):
AAAAGTTTAACCCTTATTTGAACACTTTTG
Found at i:11370566 original size:14 final size:13
Alignment explanation
Indices: 11370547--11370589 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
11370537 ATTTAAAGTG
*
11370547 TTAAGTTTAATAT
1 TTAAGTTTAAAAT
11370560 TTAAAGTCTTAAAAT
1 TT-AAGT-TTAAAAT
*
11370575 TTGAGTTTAAAAT
1 TTAAGTTTAAAAT
11370588 TT
1 TT
11370590 TAGTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 11 0.42
14 7 0.27
15 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (13 bp):
TTAAGTTTAAAAT
Found at i:11375118 original size:31 final size:31
Alignment explanation
Indices: 11375077--11375145 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
11375067 AAAAAAGCCC
*
11375077 AGTGACTTAAATAAAAACTTTCAAATAATTT
1 AGTGACTTAAATAAAAACTTTCAAATAATTA
* *
11375108 AGTGATTTAAATGAAAACTTTCAAATAATTA
1 AGTGACTTAAATAAAAACTTTCAAATAATTA
11375139 AGTGACT
1 AGTGACT
11375146 ATTTTGTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTCAAATAATTA
Found at i:11391184 original size:17 final size:17
Alignment explanation
Indices: 11391162--11391194 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11391152 CCTGGTCCCC
11391162 TACTTTAATCATTATTT
1 TACTTTAATCATTATTT
*
11391179 TACTTTGATCATTATT
1 TACTTTAATCATTATT
11391195 GTTATAATCA
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:0.27, C:0.12, G:0.03, T:0.58
Consensus pattern (17 bp):
TACTTTAATCATTATTT
Found at i:11391676 original size:3 final size:3
Alignment explanation
Indices: 11391668--11391693 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11391658 GATTCATTTT
11391668 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
11391694 TTGAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11393752 original size:6 final size:7
Alignment explanation
Indices: 11393735--11393759 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11393725 AAATATTCTA
11393735 AAAAAAT
1 AAAAAAT
11393742 AAAAAAT
1 AAAAAAT
11393749 AAAAAAT
1 AAAAAAT
11393756 AAAA
1 AAAA
11393760 TAGGGAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:11409229 original size:9 final size:9
Alignment explanation
Indices: 11409217--11409241 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11409207 TTTGTAATAA
11409217 TTTTAATGG
1 TTTTAATGG
11409226 TTTTAATGG
1 TTTTAATGG
11409235 TTTTAAT
1 TTTTAAT
11409242 TTTGAAAAAT
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:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (9 bp):
TTTTAATGG
Done.