Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 87 of 213
Found at i:23916210 original size:91 final size:91
Alignment explanation
Indices: 23916106--23916312 Score: 389
Period size: 91 Copynumber: 2.3 Consensus size: 91
23916096 ATATAATTTC
23916106 ATAA-AAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
1 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
*
23916170 TGATATATAATTTCATAAAATTCTTG
66 TGATATATAATTTCATAAAATTCTTA
23916196 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
1 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
23916261 TGATATATAATTTCATAAAATTCTTA
66 TGATATATAATTTCATAAAATTCTTA
*
23916287 ATAATAAATATTCTTATATGAATTTA
1 ATAATAAATTTTCTTATATGAATTTA
23916313 CTAAAATCAT
Statistics
Matches: 114, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
90 4 0.04
91 110 0.96
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (91 bp):
ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
TGATATATAATTTCATAAAATTCTTA
Found at i:23916268 original size:44 final size:44
Alignment explanation
Indices: 23916129--23916273 Score: 161
Period size: 44 Copynumber: 3.2 Consensus size: 44
23916119 TATATGAATT
23916129 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
1 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
** * * * *
23916173 TATATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAAT-T
1 TATATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATGA
23916220 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
1 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
23916264 TATATAATTT
1 TATATAATTT
23916274 CATAAAATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.04
44 35 0.44
45 7 0.09
46 7 0.09
47 25 0.31
48 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (44 bp):
TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
Found at i:23920344 original size:23 final size:23
Alignment explanation
Indices: 23920284--23920346 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
23920274 TCTACTCACT
23920284 AACAAATCAATAACAATTTCCAGC
1 AACAAATCAA-AACAATTTCCAGC
*
23920308 AGAC-TATCAAAACAATTTCCAG-
1 A-ACAAATCAAAACAATTTCCAGC
23920330 AACAAATCAAGAACAAT
1 AACAAATCAA-AACAAT
23920347 ATCAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 18 0.53
24 6 0.18
25 2 0.06
ACGTcount: A:0.52, C:0.22, G:0.06, T:0.19
Consensus pattern (23 bp):
AACAAATCAAAACAATTTCCAGC
Found at i:23920355 original size:22 final size:22
Alignment explanation
Indices: 23920313--23920358 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23920303 CCAGCAGACT
* *
23920313 ATCAAAACAATTTCCAGAACAA
1 ATCAAAACAATATCCAAAACAA
23920335 ATCAAGAACAATAT-CAAAACAA
1 ATCAA-AACAATATCCAAAACAA
23920357 AT
1 AT
23920359 GCAACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (22 bp):
ATCAAAACAATATCCAAAACAA
Found at i:23920442 original size:107 final size:107
Alignment explanation
Indices: 23920256--23920485 Score: 424
Period size: 107 Copynumber: 2.1 Consensus size: 107
23920246 ACTATACTTG
* * *
23920256 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAATAACAATTTCCAGCAGACTATCAAAAC
1 CAATTTCCAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAACAGACTATCAAAAC
23920321 AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
66 AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
*
23920363 CAATTTCCAGTTTCATATTCTACTCACTAACAAATCAAGAATAATTTCCAACAGACTATCAAAAC
1 CAATTTCCAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAACAGACTATCAAAAC
23920428 AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
66 AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
23920470 CAATTTCCAGTTTCAT
1 CAATTTCCAGTTTCAT
23920486 TGAAAACAGC
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 119 1.00
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (107 bp):
CAATTTCCAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAACAGACTATCAAAAC
AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
Found at i:23920451 original size:23 final size:21
Alignment explanation
Indices: 23920391--23920453 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 21
23920381 TCTACTCACT
*
23920391 AACAAATCAAGAATAATTTCC
1 AACAAATCAAGAACAATTTCC
23920412 AACAGACTATCAA-AACAATTTCC
1 AACA-A--ATCAAGAACAATTTCC
23920435 AGAACAAATCAAGAACAAT
1 --AACAAATCAAGAACAAT
23920454 ATCAAAACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
21 4 0.11
22 6 0.17
23 15 0.43
24 6 0.17
25 4 0.11
ACGTcount: A:0.54, C:0.21, G:0.06, T:0.19
Consensus pattern (21 bp):
AACAAATCAAGAACAATTTCC
Found at i:23920462 original size:22 final size:22
Alignment explanation
Indices: 23920420--23920465 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23920410 CCAACAGACT
* *
23920420 ATCAAAACAATTTCCAGAACAA
1 ATCAAAACAATATCCAAAACAA
23920442 ATCAAGAACAATAT-CAAAACAA
1 ATCAA-AACAATATCCAAAACAA
23920464 AT
1 AT
23920466 GCAACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (22 bp):
ATCAAAACAATATCCAAAACAA
Found at i:23923103 original size:38 final size:38
Alignment explanation
Indices: 23923025--23923105 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 38
23923015 TATTTAAACC
* *
23923025 TTTTAGGTTACACATAAAAGAAAACAATTGATAGATTT
1 TTTTAGGTTACACATAAAAGAAAACAATTGATAAAATT
** * *
23923063 TTTTA-GTTACACATGTAAGAAAATAATTTATATAAATT
1 TTTTAGGTTACACATAAAAGAAAACAATTGATA-AAATT
23923101 TTTTA
1 TTTTA
23923106 ATTGGGATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
37 23 0.64
38 13 0.36
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (38 bp):
TTTTAGGTTACACATAAAAGAAAACAATTGATAAAATT
Found at i:23932048 original size:45 final size:45
Alignment explanation
Indices: 23931984--23932076 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
23931974 CTTCCAACCT
*
23931984 TAACGACCTTCCAAGTTACTATAAAACAGGGGAAATAAAACAGAG
1 TAACGACCTTCCAAGTTACTATAAAACAGAGGAAATAAAACAGAG
*
23932029 TAACGACCTTCCAAGTTACTATAAAACAGAGGAAATAAAATAGAG
1 TAACGACCTTCCAAGTTACTATAAAACAGAGGAAATAAAACAGAG
23932074 TAA
1 TAA
23932077 GCATTTAATG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.19
Consensus pattern (45 bp):
TAACGACCTTCCAAGTTACTATAAAACAGAGGAAATAAAACAGAG
Found at i:23939516 original size:25 final size:25
Alignment explanation
Indices: 23939301--23939517 Score: 110
Period size: 25 Copynumber: 8.8 Consensus size: 25
23939291 CGAGCATGTA
* **
23939301 ATCGGGAAGCTCTTCCGAGCC-ATGT
1 ATCGGGAAGCTCATGAGAGCCAAT-T
* * ** *
23939326 AACGGGAAGCTCATGTGAGCTGTATA
1 ATCGGGAAGCTCATGAGAGC-CAATT
* *
23939352 AT-GGGAAGCTCTTGCA-AGCCATTT
1 ATCGGGAAGCTCATG-AGAGCCAATT
* * *
23939376 ATCGGGAAACTCAT-ACAAGCC-ATA
1 ATCGGGAAGCTCATGA-GAGCCAATT
* * * *
23939400 AACGGGAAGCTCAAGTGAGCTAAATT
1 ATCGGGAAGCTCATGAGAGC-CAATT
23939426 -T-GGGAAGCTCATGAGAGCCAA-T
1 ATCGGGAAGCTCATGAGAGCCAATT
**
23939448 ATCGGGAAGCTCCGGAGAGCC-ATT
1 ATCGGGAAGCTCATGAGAGCCAATT
* *
23939472 AATCGAGAAGCTTATGAGAGCCAATT
1 -ATCGGGAAGCTCATGAGAGCCAATT
* *
23939498 ATCGGGATGCTCATAAGAGC
1 ATCGGGAAGCTCATGAGAGC
23939518 TGTGGTGTGT
Statistics
Matches: 140, Mismatches: 38, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
22 1 0.01
23 5 0.04
24 50 0.36
25 76 0.54
26 6 0.04
27 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.21
Consensus pattern (25 bp):
ATCGGGAAGCTCATGAGAGCCAATT
Found at i:23942440 original size:18 final size:19
Alignment explanation
Indices: 23942410--23942446 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
23942400 GTAACTACTC
23942410 ATTTTCCCTATTAT-AAAT
1 ATTTTCCCTATTATGAAAT
23942428 ATTTT-CCTCATTATGAAAT
1 ATTTTCCCT-ATTATGAAAT
23942447 TCTTTTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 10 0.59
19 4 0.24
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTTTCCCTATTATGAAAT
Found at i:23954883 original size:20 final size:21
Alignment explanation
Indices: 23954845--23954923 Score: 62
Period size: 21 Copynumber: 4.0 Consensus size: 21
23954835 ATTAATTATT
*
23954845 TATA-AAATTTAATTA--AAA
1 TATATAAATATAATTATTAAA
23954863 TATATAAAT-TATATT-TTAAA
1 TATATAAATATA-ATTATTAAA
*
23954883 TATTTAAATATAATTATTAAA
1 TATATAAATATAATTATTAAA
* *
23954904 TATTTATAAT-TAAATATTAA
1 TATATA-AATATAATTATTAA
23954924 TACAATTATA
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
18 6 0.12
19 7 0.13
20 14 0.27
21 22 0.42
22 3 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATATAAATATAATTATTAAA
Found at i:23954904 original size:33 final size:32
Alignment explanation
Indices: 23954805--23954904 Score: 91
Period size: 33 Copynumber: 3.1 Consensus size: 32
23954795 TATATGAAAT
23954805 ATTA-ATTTTAAATATTTATAAGTAATTAATATT-A
1 ATTATATTTTAAATATTTA-AA-T-A-TAATATTAA
* * *
23954839 ATTAT-TTATAAA-ATTTAATTAAAATATATAA
1 ATTATATTTTAAATATTTAAATATAATAT-TAA
23954870 ATTATATTTTAAATATTTAAATATAATTATTAA
1 ATTATATTTTAAATATTTAAATATAA-TATTAA
23954903 AT
1 AT
23954905 ATTTATAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
29 5 0.09
30 2 0.04
31 7 0.13
32 7 0.13
33 20 0.37
34 13 0.24
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (32 bp):
ATTATATTTTAAATATTTAAATATAATATTAA
Found at i:23955026 original size:21 final size:20
Alignment explanation
Indices: 23954980--23955025 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
23954970 TGCATTATTT
*
23954980 TATTTTAAAATATAATTTAA
1 TATTTTAAAATATAATTCAA
23955000 TATTTTAAATATATAATTC-A
1 TATTTTAAA-ATATAATTCAA
23955020 TATTTT
1 TATTTT
23955026 TTTAAGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTTTAAAATATAATTCAA
Found at i:23957183 original size:16 final size:17
Alignment explanation
Indices: 23957162--23957194 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
23957152 TGTTGTAATG
23957162 TTTCTTTTT-TTTTCCC
1 TTTCTTTTTCTTTTCCC
23957178 TTTCTTTTTCTTTTCCC
1 TTTCTTTTTCTTTTCCC
23957195 ACCAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTCTTTTTCTTTTCCC
Found at i:23959621 original size:12 final size:12
Alignment explanation
Indices: 23959604--23959633 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23959594 CGTATGTATT
*
23959604 TTTAAATTAATA
1 TTTAAATTAAAA
23959616 TTTAAATTAAAA
1 TTTAAATTAAAA
23959628 TTTAAA
1 TTTAAA
23959634 ATAGATACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTTAAATTAAAA
Found at i:23967853 original size:13 final size:14
Alignment explanation
Indices: 23967833--23967873 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
23967823 ATGTGAAGAA
23967833 TATTATTTAAAATT
1 TATTATTTAAAATT
23967847 T-TTATTTTTAAAATT
1 TATTA--TTTAAAATT
23967862 TATTA-TTAAAAT
1 TATTATTTAAAAT
23967874 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTAAAATT
Found at i:23967858 original size:15 final size:17
Alignment explanation
Indices: 23967833--23967869 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
23967823 ATGTGAAGAA
23967833 TATTATTTAAAATTT-T
1 TATTATTTAAAATTTAT
23967849 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
23967865 TATTA
1 TATTA
23967870 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:23968037 original size:5 final size:6
Alignment explanation
Indices: 23968021--23968045 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23968011 TAAATATTTT
23968021 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
23968046 TATTATCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:23968550 original size:23 final size:25
Alignment explanation
Indices: 23968502--23968585 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
23968492 ATCATTAAAT
* *
23968502 TTTAATAGGATTATTATTAAATATAA
1 TTTAATA-AATTAGTATTAAATATAA
23968528 TTTAATAAA-TAGT-TT-AATCATAA
1 TTTAATAAATTAGTATTAAAT-ATAA
*
23968551 TTTAATATAATTATTATTAAATATAA
1 TTTAATA-AATTAGTATTAAATATAA
23968577 TTTAATAAA
1 TTTAATAAA
23968586 AATAAAAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
22 3 0.06
23 13 0.26
24 5 0.10
25 6 0.12
26 20 0.40
27 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (25 bp):
TTTAATAAATTAGTATTAAATATAA
Found at i:23968562 original size:10 final size:10
Alignment explanation
Indices: 23968521--23968583 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
23968511 ATTATTATTA
23968521 AATATAATTT
1 AATATAATTT
*
23968531 AATAAATAGTTT
1 AAT--ATAATTT
23968543 AATCATAATTT
1 AAT-ATAATTT
23968554 AATATAA-TT
1 AATATAATTT
*
23968563 -AT-T-ATTA
1 AATATAATTT
23968570 AATATAATTT
1 AATATAATTT
23968580 AATA
1 AATA
23968584 AAAATAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
6 1 0.02
7 2 0.05
8 4 0.10
9 3 0.07
10 14 0.33
11 9 0.21
12 9 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (10 bp):
AATATAATTT
Found at i:23970250 original size:63 final size:63
Alignment explanation
Indices: 23970179--23970319 Score: 212
Period size: 63 Copynumber: 2.3 Consensus size: 63
23970169 AATACCTCTC
* * *
23970179 ACACGGCCTGGACACACACCCGTGTCCCTGGTCTGTGTGACTCTAATTCCAAAAAAGTGAGTT
1 ACACGGCCTGGACACACACCCGTGTCCCTGGCCTGCGTGACTCTAATTCCAAAAAAGTGAGTA
** * *
23970242 ACACGGCCTGGACACATGCCCGTGTCCTTGGCCTGCGTGACTCTAATTCCAAAATAGTGAGTA
1 ACACGGCCTGGACACACACCCGTGTCCCTGGCCTGCGTGACTCTAATTCCAAAAAAGTGAGTA
23970305 ACACGGCCTGG-CACA
1 ACACGGCCTGGACACA
23970320 TGGTCGTGTA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
62 4 0.06
63 67 0.94
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (63 bp):
ACACGGCCTGGACACACACCCGTGTCCCTGGCCTGCGTGACTCTAATTCCAAAAAAGTGAGTA
Found at i:23977365 original size:12 final size:12
Alignment explanation
Indices: 23977348--23977383 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
23977338 ATTTAGTTTG
23977348 AATTAGATTTTA
1 AATTAGATTTTA
23977360 AATTAGATTTTA
1 AATTAGATTTTA
23977372 AATTAGATTTTA
1 AATTAGATTTTA
23977384 TTTTCTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
AATTAGATTTTA
Found at i:23981490 original size:14 final size:15
Alignment explanation
Indices: 23981473--23981505 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
23981463 GTAAATTGAT
23981473 AATTAAACAAAA-AA
1 AATTAAACAAAACAA
23981487 AATTAAACAAAACAA
1 AATTAAACAAAACAA
23981502 AATT
1 AATT
23981506 TTAGTTGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (15 bp):
AATTAAACAAAACAA
Found at i:23982423 original size:45 final size:44
Alignment explanation
Indices: 23982282--23982432 Score: 180
Period size: 45 Copynumber: 3.4 Consensus size: 44
23982272 AGACCATGAC
* *
23982282 TGAAAGATATCATGGCATTATACCTGAAATGAGA-AAGACCATAGT
1 TGAAAGATATTATGGCATTAAACCTG-AATGA-ATAAGACCATAGT
* * * *
23982327 TGAAAGATACTATGGCATTAAACCAGAA-CAAGTAAGACCCTAGT
1 TGAAAGATATTATGGCATTAAACCTGAATGAA-TAAGACCATAGT
**
23982371 TGAAAGATATTATGGCATTAAATTTGAATGAATTAAGACCATAGT
1 TGAAAGATATTATGGCATTAAACCTGAATGAA-TAAGACCATAGT
23982416 TGAAAGATATTATGGCA
1 TGAAAGATATTATGGCA
23982433 CCACTTCGGG
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 36 0.40
45 52 0.58
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.26
Consensus pattern (44 bp):
TGAAAGATATTATGGCATTAAACCTGAATGAATAAGACCATAGT
Found at i:23990616 original size:50 final size:50
Alignment explanation
Indices: 23990494--23990742 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
23990484 GATAATAACA
* * * ** * *
23990494 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATTTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
23990545 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
23990595 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
23990645 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
23990700 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
23990743 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:23990670 original size:100 final size:104
Alignment explanation
Indices: 23990493--23990742 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
23990483 TGATAATAAC
* *
23990493 ATGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATTTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-TCTCTCGTGATGGTGCCCATGCCATG
* *
23990558 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
23990595 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCGTGAT-GGTGCCCATGCCATG
23990658 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
23990700 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
23990743 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:23990858 original size:13 final size:13
Alignment explanation
Indices: 23990837--23990868 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
23990827 GCTTGGATCA
*
23990837 TCATCAAATAAAT
1 TCATAAAATAAAT
23990850 TCATAAAATAAAT
1 TCATAAAATAAAT
23990863 TCATAA
1 TCATAA
23990869 TTTCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:23991116 original size:30 final size:30
Alignment explanation
Indices: 23991080--23991137 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
23991070 CCTCGACTCT
*
23991080 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
23991110 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
23991138 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:23991770 original size:13 final size:13
Alignment explanation
Indices: 23991699--23991773 Score: 54
Period size: 13 Copynumber: 5.9 Consensus size: 13
23991689 TTTCTTTTGT
23991699 TATATATATATAA
1 TATATATATATAA
23991712 TATAATATAATATAA
1 TAT-ATAT-ATATAA
*
23991727 AATAT-TA-ATAA
1 TATATATATATAA
23991738 TA-ATCAT-TACT--
1 TATAT-ATATA-TAA
*
23991749 TACATATATATAA
1 TATATATATATAA
23991762 TATATATATATA
1 TATATATATATA
23991774 TTAACTAGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 20
0.68 0.04 0.28
Matches are distributed among these distances:
10 2 0.04
11 10 0.20
12 7 0.14
13 16 0.33
14 6 0.12
15 8 0.16
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (13 bp):
TATATATATATAA
Found at i:23993180 original size:56 final size:51
Alignment explanation
Indices: 23993117--23993303 Score: 162
Period size: 50 Copynumber: 3.6 Consensus size: 51
23993107 GAGATCCCAT
* * *
23993117 GTAAGACCCTGTCTGGAACATGGCATTGGCATTATTGAGGTTATGAGAGGTCTCAC
1 GTAAGACCATGTCTGGGACATGGCATTGGCA--ACTGA-G--ATGAGAGGTCTCAC
* * * *
23993173 GTAAGACCATGTTTGGGACATGGCGTTAGC-ACTGAGATGAGAGGTCTCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCAACTGAGATGAGAGGTCTCAC
* * * * ** * *
23993223 GTAAGACCATGTCTGGGACATGGCATGGGC-ACCGATATGAAAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCAACTGAGATGAGAGGTCTCAC
* *
23993273 GTAAGACCATATCTGGGATATGGCATTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
23993304 GTACAGGAAA
Statistics
Matches: 108, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 78 0.72
52 1 0.01
53 4 0.04
56 25 0.23
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (51 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCAACTGAGATGAGAGGTCTCAC
Found at i:23993277 original size:50 final size:49
Alignment explanation
Indices: 23993223--23993345 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 49
23993213 GAGGTCTCCC
*
23993223 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATA-TGAAAAC-TCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCA--G-TACAGAAAACATCCCAT
* * * *
23993273 GTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCAGTACAGAAAACATCCCAT
*
23993322 GTAAGACCATGTCTGGGGCATGGC
1 GTAAGACCATGTCTGGGACATGGC
23993346 TTTGGTATGT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
47 2 0.03
48 6 0.10
49 27 0.43
50 28 0.44
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCAGTACAGAAAACATCCCAT
Found at i:23993337 original size:49 final size:49
Alignment explanation
Indices: 23993223--23993345 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 49
23993213 GAGGTCTCCC
* *
23993223 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAAAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCA-CGACAGGAAAACTCCCAT
* * *
23993273 GTAAGACCATATCTGGGATATGGCATTGGCA-GTACAGG-AAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACG-ACAGGAAAAC-TCCCAT
*
23993322 GTAAGACCATGTCTGGGGCATGGC
1 GTAAGACCATGTCTGGGACATGGC
23993346 TTTGGTATGT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
48 5 0.08
49 30 0.48
50 28 0.44
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACGACAGGAAAACTCCCAT
Found at i:23997033 original size:10 final size:11
Alignment explanation
Indices: 23997018--23997050 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
23997008 GAAAATAGTC
23997018 AAAATTAATA-
1 AAAATTAATAT
23997028 AAAATTAACTAT
1 AAAATTAA-TAT
23997040 AAAATTAATAT
1 AAAATTAATAT
23997051 TTTTAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.38
11 5 0.24
12 8 0.38
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:23997848 original size:28 final size:28
Alignment explanation
Indices: 23997817--23997914 Score: 90
Period size: 28 Copynumber: 3.3 Consensus size: 28
23997807 CTTTCGAGTG
23997817 TCAGTGTGGGCCTTAGCCCAATACAATA
1 TCAGTGTGGGCCTTAGCCCAATACAATA
*
23997845 TCAGTATAGTGCGGGCCTTAGCCCAATATAGA-A
1 TCAG--T-GT--GGGCCTTAGCCCAATACA-ATA
* * **
23997878 ACAGTGTGGGCCTAAGCCCGTTACAATA
1 TCAGTGTGGGCCTTAGCCCAATACAATA
23997906 TCAGTGTGG
1 TCAGTGTGG
23997915 TACAAGTATG
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
27 1 0.02
28 27 0.48
30 3 0.05
31 3 0.05
33 21 0.38
34 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (28 bp):
TCAGTGTGGGCCTTAGCCCAATACAATA
Found at i:23998399 original size:26 final size:26
Alignment explanation
Indices: 23998256--23998396 Score: 167
Period size: 26 Copynumber: 5.4 Consensus size: 26
23998246 AGGGGTATAA
* *
23998256 CGATCATTCTACCCATCGAGGGTATTT
1 CGATAATT-TACCCATCAAGGGTATTT
*
23998283 CGATAATTTACCCATCGAGGGTATTT
1 CGATAATTTACCCATCAAGGGTATTT
* *
23998309 TGGTAATTTACCCATCAAGGGTA-TT
1 CGATAATTTACCCATCAAGGGTATTT
* * *
23998334 CTGGTAATTTACCCATAAAGGGTACTT
1 C-GATAATTTACCCATCAAGGGTATTT
**
23998361 CGATAATTTAGGCATCAAGGGTATTT
1 CGATAATTTACCCATCAAGGGTATTT
23998387 CGATAATTTA
1 CGATAATTTA
23998397 GGCCCATTAC
Statistics
Matches: 101, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
25 2 0.02
26 89 0.88
27 10 0.10
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (26 bp):
CGATAATTTACCCATCAAGGGTATTT
Found at i:24006051 original size:26 final size:26
Alignment explanation
Indices: 24005845--24006048 Score: 257
Period size: 26 Copynumber: 7.8 Consensus size: 26
24005835 ATTGTGCCCT
* *
24005845 TCAAAGGTATTTCGGTAATTTACCCA
1 TCAAGGGTATTTCGATAATTTACCCA
* *
24005871 TCAAGAGTATTTCGATAATTTACACA
1 TCAAGGGTATTTCGATAATTTACCCA
* *
24005897 TCGAGGGTCTTTCGATAATTTACCCA
1 TCAAGGGTATTTCGATAATTTACCCA
*
24005923 TCGAGGGTATTTCGATAATTTACCCA
1 TCAAGGGTATTTCGATAATTTACCCA
* * *
24005949 TCGAGGGTATTTTGGTAATTTACCCA
1 TCAAGGGTATTTCGATAATTTACCCA
*
24005975 TCAAGGGTA-TTCTGGTAATTTACCCA
1 TCAAGGGTATTTC-GATAATTTACCCA
* * **
24006001 TAAAGGGTACTTCGATAATTTAGGCA
1 TCAAGGGTATTTCGATAATTTACCCA
24006027 TCAAGGGTATTTCGATAATTTA
1 TCAAGGGTATTTCGATAATTTA
24006049 GGCCCATTAC
Statistics
Matches: 157, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
25 2 0.01
26 152 0.97
27 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (26 bp):
TCAAGGGTATTTCGATAATTTACCCA
Found at i:24016790 original size:26 final size:26
Alignment explanation
Indices: 24016760--24016811 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
24016750 GTCATCCAAA
*
24016760 CACCAAAACATTAAGAGTTGAAACTT
1 CACCAAAACATTAAGAGCTGAAACTT
24016786 CACCAAAACATTAAGAGCTGAAACTT
1 CACCAAAACATTAAGAGCTGAAACTT
24016812 AGTGTGGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.46, C:0.21, G:0.12, T:0.21
Consensus pattern (26 bp):
CACCAAAACATTAAGAGCTGAAACTT
Found at i:24026548 original size:25 final size:26
Alignment explanation
Indices: 24026514--24026569 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
24026504 TCTTATCCCT
* *
24026514 ATTTTTCCC-TAGCAAAATTTTGACG
1 ATTTTACCCTTAGCAAAATTTTAACG
* *
24026539 ATTTTACCCTTGGTAAAATTTTAACG
1 ATTTTACCCTTAGCAAAATTTTAACG
24026565 ATTTT
1 ATTTT
24026570 GCCCCAAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.45
Consensus pattern (26 bp):
ATTTTACCCTTAGCAAAATTTTAACG
Found at i:24026580 original size:26 final size:26
Alignment explanation
Indices: 24026527--24026585 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
24026517 TTTCCCTAGC
* ***
24026527 AAAATTTTGACGATTTTACCCTTGGT
1 AAAATTTTAACGATTTTACCCCAAGT
*
24026553 AAAATTTTAACGATTTTGCCCCAAGT
1 AAAATTTTAACGATTTTACCCCAAGT
24026579 AAAATTT
1 AAAATTT
24026586 CGAGAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (26 bp):
AAAATTTTAACGATTTTACCCCAAGT
Found at i:24031712 original size:34 final size:35
Alignment explanation
Indices: 24031674--24031741 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
24031664 AATTATTAGA
* *
24031674 AATTTGTTAAAAACCAT-AAAATTTATAAAAAAAT
1 AATTTATTAAAAACCATAAAAATTTAGAAAAAAAT
**
24031708 AATTTATTAATTACCATGAAAAATTTAGAAAAAA
1 AATTTATTAAAAACCAT-AAAAATTTAGAAAAAA
24031742 TCAGTTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 14 0.50
36 14 0.50
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.32
Consensus pattern (35 bp):
AATTTATTAAAAACCATAAAAATTTAGAAAAAAAT
Found at i:24031816 original size:28 final size:29
Alignment explanation
Indices: 24031779--24031835 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
24031769 TTAAAAAACC
*
24031779 ATAAATTTTTATA-AAAAAATTATTTTTT
1 ATAAAGTTTTATAGAAAAAATTATTTTTT
**
24031807 ATAAAGTTTTATAGAAATTATTATTTTTT
1 ATAAAGTTTTATAGAAAAAATTATTTTTT
24031836 CTCATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (29 bp):
ATAAAGTTTTATAGAAAAAATTATTTTTT
Found at i:24034078 original size:15 final size:14
Alignment explanation
Indices: 24034058--24034099 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
24034048 TATAAAGAGG
*
24034058 TTAAATTCCAAAAA
1 TTAAATTCTAAAAA
*
24034072 TTTAAATTATAAAAA
1 -TTAAATTCTAAAAA
24034087 TTAAATTCTAAAA
1 TTAAATTCTAAAA
24034100 CTAAGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (14 bp):
TTAAATTCTAAAAA
Found at i:24034661 original size:19 final size:19
Alignment explanation
Indices: 24034633--24034699 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 19
24034623 AAAATTATTA
24034633 TTTTAGAAAATTTTAAAATT
1 TTTTA-AAAATTTTAAAATT
* *
24034653 TTTTAAAAA-TATATAATT
1 TTTTAAAAATTTTAAAATT
* *
24034671 TTTATAAATATTTT-GAA-T
1 TTT-TAAAAATTTTAAAATT
24034689 TTTTAAAAATT
1 TTTTAAAAATT
24034700 ATTTTGAACT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
17 7 0.18
18 14 0.36
19 11 0.28
20 7 0.18
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (19 bp):
TTTTAAAAATTTTAAAATT
Found at i:24034702 original size:20 final size:19
Alignment explanation
Indices: 24034652--24034713 Score: 74
Period size: 17 Copynumber: 3.3 Consensus size: 19
24034642 ATTTTAAAAT
*
24034652 TTTTTAAAAATA-TAT-AA
1 TTTTTAAAAATATTTTGAA
*
24034669 TTTTTATAAATATTTTGAA
1 TTTTTAAAAATATTTTGAA
24034688 TTTTTAAAAATTATTTTGAA
1 TTTTTAAAAA-TATTTTGAA
24034708 CTTTTT
1 -TTTTT
24034714 TGTAATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 11 0.29
18 2 0.05
19 11 0.29
20 9 0.24
21 5 0.13
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTTTAAAAATATTTTGAA
Found at i:24035500 original size:20 final size:21
Alignment explanation
Indices: 24035467--24035508 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
24035457 ATTTGACCTA
*
24035467 TTTTTAAGTTTATTATATAAT
1 TTTTTAAGTATATTATATAAT
*
24035488 TTTTTAA-TATATTATGTAAT
1 TTTTTAAGTATATTATATAAT
24035508 T
1 T
24035509 CATATCATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTTAAGTATATTATATAAT
Found at i:24039614 original size:20 final size:21
Alignment explanation
Indices: 24039589--24039637 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
24039579 TTATACTTCT
*
24039589 AATATTCATAATAATATA-AA
1 AATATTCACAATAATATATAA
* * *
24039609 AATATTGACAATGATTTATAA
1 AATATTCACAATAATATATAA
24039630 AATATTCA
1 AATATTCA
24039638 ATGTGTCTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (21 bp):
AATATTCACAATAATATATAA
Found at i:24042898 original size:88 final size:88
Alignment explanation
Indices: 24042749--24042924 Score: 289
Period size: 88 Copynumber: 2.0 Consensus size: 88
24042739 GTTTATTCGA
* * * * *
24042749 TGCTAAGTCGTTATGTCCATTGCTTTCGTCATTCCGAGCTCAAAGAAACCAGGGCTTAACTATAG
1 TGCTAAGTCGTTATGTCCAGTGCATTCGTCATTCCGAGCTCAAAGAAACAAGGACATAACTATAG
24042814 ATGGAAACGTGGCGGATATAATT
66 ATGGAAACGTGGCGGATATAATT
* *
24042837 TGCTAAGTCGTTATGTCCGGTGCATTCGTCATTCTGAGCTCAAAGAAACAAGGACATAACTATAG
1 TGCTAAGTCGTTATGTCCAGTGCATTCGTCATTCCGAGCTCAAAGAAACAAGGACATAACTATAG
24042902 ATGGAAACGTGGCGGATATAATT
66 ATGGAAACGTGGCGGATATAATT
24042925 CTTGTTAGTA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (88 bp):
TGCTAAGTCGTTATGTCCAGTGCATTCGTCATTCCGAGCTCAAAGAAACAAGGACATAACTATAG
ATGGAAACGTGGCGGATATAATT
Found at i:24045981 original size:16 final size:15
Alignment explanation
Indices: 24045956--24045988 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
24045946 AAAAAAAAAG
24045956 AAGAAAAGAAGAAGA
1 AAGAAAAGAAGAAGA
24045971 AAGAAAGAGAAGAAGA
1 AAGAAA-AGAAGAAGA
24045987 AA
1 AA
24045989 ATAACTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAGAAAAGAAGAAGA
Found at i:24045983 original size:19 final size:18
Alignment explanation
Indices: 24045952--24045987 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
24045942 AAAAAAAAAA
24045952 AAAGAAGAAAAGAAGAAG
1 AAAGAAGAAAAGAAGAAG
*
24045970 AAAGAAAGAGAAGAAGAA
1 AAAG-AAGAAAAGAAGAA
24045988 AATAACTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAAGAAGAAAAGAAGAAG
Found at i:24047702 original size:19 final size:20
Alignment explanation
Indices: 24047675--24047713 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
24047665 TAGTCAGACT
24047675 AAAAAAATTACAAAA-ATTC
1 AAAAAAATTACAAAATATTC
* *
24047694 AAAATAATTATAAAATATTC
1 AAAAAAATTACAAAATATTC
24047714 TTTTTCCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAAATTACAAAATATTC
Found at i:24047813 original size:32 final size:32
Alignment explanation
Indices: 24047746--24047811 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
24047736 TATTATTCAA
*
24047746 ATATTTAAAATTATATAAAAATTACTAAAATT
1 ATATTGAAAATTATATAAAAATTACTAAAATT
*
24047778 ATATTGAAAATTATATAATAATT-CT-AAATT
1 ATATTGAAAATTATATAAAAATTACTAAAATT
24047808 ATAT
1 ATAT
24047812 ATATATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 9 0.28
31 2 0.06
32 21 0.66
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (32 bp):
ATATTGAAAATTATATAAAAATTACTAAAATT
Found at i:24054070 original size:29 final size:29
Alignment explanation
Indices: 24054024--24054151 Score: 184
Period size: 29 Copynumber: 4.4 Consensus size: 29
24054014 GGTCGTCACC
*
24054024 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* *
24054053 ATCCCTTTTCATATTCGATAGCCAAAACT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* *
24054082 ATCCCTTTTCATATTCGATGGTCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* * *
24054111 ATCCTTTTTCATATTCGATGGCCGAAGAT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
24054140 ATCCCTTTTCAT
1 ATCCCTTTTCAT
24054152 TTTTCGATGA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGCCGAAGCT
Found at i:24056253 original size:41 final size:41
Alignment explanation
Indices: 24056102--24056264 Score: 148
Period size: 43 Copynumber: 3.9 Consensus size: 41
24056092 TACCGTAATA
* * * * * *
24056102 ATGCCATATCCGAGATATGGTCTTACATGTAATCTCGTATCA
1 ATGCAATATCCCAGACATGGTCTTACACG-AATCTCATATCG
* * *
24056144 ATGGCAATAGCCCAGCCATGGTCTTACACGAAATCACATATCG
1 AT-GCAATATCCCAGACATGGTCTTACACG-AATCTCATATCG
* *
24056187 ATGTCAATGTCCCAGACATGGTCTTACACGAAGCCTCATAT-G
1 ATG-CAATATCCCAGACATGGTCTTACACGAA-TCTCATATCG
* *
24056229 ATGCCATATCCCAGATATGGTCTTACACGTAATCTC
1 ATGCAATATCCCAGACATGGTCTTACACG-AATCTC
24056265 GGTAACCCTA
Statistics
Matches: 98, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
41 26 0.27
42 11 0.11
43 61 0.62
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (41 bp):
ATGCAATATCCCAGACATGGTCTTACACGAATCTCATATCG
Found at i:24059491 original size:16 final size:16
Alignment explanation
Indices: 24059470--24059500 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24059460 CAGAACTCCA
24059470 ACAAATTTCAAGAAAT
1 ACAAATTTCAAGAAAT
24059486 ACAAATTTCAAGAAA
1 ACAAATTTCAAGAAA
24059501 AACGAAATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.13, G:0.06, T:0.23
Consensus pattern (16 bp):
ACAAATTTCAAGAAAT
Found at i:24059627 original size:19 final size:20
Alignment explanation
Indices: 24059586--24059629 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
24059576 AAATGGAGAA
*
24059586 AAGAAAAGAAACGTAAAGAG
1 AAGAAAAGAAACCTAAAGAG
*
24059606 AAGAAAAGAAACCT-ACGAG
1 AAGAAAAGAAACCTAAAGAG
24059625 AAGAA
1 AAGAA
24059630 GAAGCAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.64, C:0.09, G:0.23, T:0.05
Consensus pattern (20 bp):
AAGAAAAGAAACCTAAAGAG
Found at i:24060024 original size:19 final size:19
Alignment explanation
Indices: 24059973--24060016 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
24059963 CCAGAAAATG
*
24059973 GAAATCATAAGAAGAAGTA
1 GAAATCATAAGAAGAAGCA
24059992 GAAATCATAAGAAGAAGCA
1 GAAATCATAAGAAGAAGCA
24060011 GAAATC
1 GAAATC
24060017 GATGGAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.57, C:0.09, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAATCATAAGAAGAAGCA
Found at i:24061616 original size:43 final size:43
Alignment explanation
Indices: 24061568--24061649 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
24061558 ATTTCATTTC
*
24061568 TCATCTCATAATCATTTCTCATCTTTGCCATTTCAATATTTTT
1 TCATCTCATAATCATCTCTCATCTTTGCCATTTCAATATTTTT
*
24061611 TCATCTCATATTCATCTCTCATCTTTGCCATTTCAATAT
1 TCATCTCATAATCATCTCTCATCTTTGCCATTTCAATAT
24061650 CAATCACATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.23, C:0.26, G:0.02, T:0.49
Consensus pattern (43 bp):
TCATCTCATAATCATCTCTCATCTTTGCCATTTCAATATTTTT
Found at i:24072082 original size:104 final size:103
Alignment explanation
Indices: 24071783--24072317 Score: 556
Period size: 104 Copynumber: 5.2 Consensus size: 103
24071773 CGATGAACAT
* * * * * *
24071783 AGGTTGTGATCTTAACTCAACTAACCTTTAAACATCAGTTGGGAACATAAGTCCATGAGTTGTTT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAAGCATCAGCTGGGAACATAGGTCCATGAGCTGTTT
* * * *
24071848 CGTAGTTGCGAGCTTAATTTAGCTAACTCAAATAACTAG
66 TGGAGTTGCGAGCTTAACTCAGCTAACTCAAATAACT-G
* * ** * * * *
24071887 GGGTTGCGAGCTTAACTCAACTAACC-TTAAGCATTAGCTAAG-ACTGTAGATCCGTGAGCTATT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAAGCATCAGCTGGGAAC-ATAGGTCCATGAGCTGTT
* * *
24071950 TTGGAGTTGCGAGCTTGATTCAGCTAACTCAAATAAATG
65 TTGGAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTG
* * *
24071989 TAGGTTGCGAGCTTAACTCATCTAATCTTTAAGCATCAGCTGGGAACATAGGTCCACG-GCCTGT
1 -AGGTTGCGAGCTTAACTCAACTAACCTTTAAGCATCAGCTGGGAACATAGGTCCATGAG-CTGT
* * * *
24072053 TTTGGAGTTACAAGCTTAAGTCAGCTAACTCAAATAATTGG
64 TTTGGAGTTGCGAGCTTAACTCAGCTAACTCAAATAACT-G
* * * * * * * * * *
24072094 GGGTTGTGAGCTTAACTTAGCTAACCTTTAAGCATCAGCTTGGAACGTTGGTCCGTGCGCTATTT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAAGCATCAGCTGGGAACATAGGTCCATGAGCTGTTT
* * *
24072159 TGGAGTTGTGAGCTTAACTTAGCTAACTCAAATAATTG
66 TGGAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTG
* * **
24072197 AGGTTGCGAGCTTAACTCAACTAATCTTTAAGCATCAGCTGGGAACATAAGTCTGTGAGCTGTTT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAAGCATCAGCTGGGAACATAGGTCCATGAGCTGTTT
*
24072262 TGGAGTTACGAG-TTCAACTCAGCTAACTCAAATAACTGG
66 TGGAGTTGCGAGCTT-AACTCAGCTAACTCAAATAACT-G
*
24072301 AGGTTGCAAGCTTAACT
1 AGGTTGCGAGCTTAACT
24072318 TAGCTAACTC
Statistics
Matches: 354, Mismatches: 68, Indels: 18
0.80 0.15 0.04
Matches are distributed among these distances:
102 5 0.01
103 164 0.46
104 181 0.51
105 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (103 bp):
AGGTTGCGAGCTTAACTCAACTAACCTTTAAGCATCAGCTGGGAACATAGGTCCATGAGCTGTTT
TGGAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTG
Found at i:24072203 original size:207 final size:207
Alignment explanation
Indices: 24071782--24072325 Score: 702
Period size: 207 Copynumber: 2.6 Consensus size: 207
24071772 TCGATGAACA
* * * * * *
24071782 TAGGTTGTGATCTTAACTCAACTAACCTTTAAACATCAGTTGGGAACATAAGTCCATGAGTTGTT
1 TAGGTTGCGAGCTTAACTCAACTAATCTTTAAGCATCAGCTGGGAACATAAGTCCATGAGCTGTT
* * * * * * * *
24071847 TCGTAGTTGCGAGCTTAATTTAGCTAACTCAAATAACTAGGGGTTGCGAGCTTAACTCAACTAAC
66 TTGGAGTTACGAGCTTAACTCAGCTAACTCAAATAACTGGGGGTTGCGAGCTTAACTTAGCTAAC
* *
24071912 CTTAAGCATTAGCTAAGACTGTAGATCCGTGAGCTATTTTGGAGTTGCGAGCTTGATTCAGCTAA
131 CTTAAGCATCAGCTAAGACTGTAGATCCGTGAGCTATTTTGGAGTTGCGAGCTTAATTCAGCTAA
24071977 CTCAAATAAATG
196 CTCAAATAAATG
* * *
24071989 TAGGTTGCGAGCTTAACTCATCTAATCTTTAAGCATCAGCTGGGAACATAGGTCCACG-GCCTGT
1 TAGGTTGCGAGCTTAACTCAACTAATCTTTAAGCATCAGCTGGGAACATAAGTCCATGAG-CTGT
* * * *
24072053 TTTGGAGTTACAAGCTTAAGTCAGCTAACTCAAATAATTGGGGGTTGTGAGCTTAACTTAGCTAA
65 TTTGGAGTTACGAGCTTAACTCAGCTAACTCAAATAACTGGGGGTTGCGAGCTTAACTTAGCTAA
** * * * *
24072118 CCTTTAAGCATCAGCTTGGAAC-GTTGGTCCGTGCGCTATTTTGGAGTTGTGAGCTTAACTT-AG
130 CC-TTAAGCATCAGCTAAG-ACTGTAGATCCGTGAGCTATTTTGGAGTTGCGAGCTTAA-TTCAG
*
24072181 CTAACTCAAATAATTG
192 CTAACTCAAATAAATG
**
24072197 -AGGTTGCGAGCTTAACTCAACTAATCTTTAAGCATCAGCTGGGAACATAAGTCTGTGAGCTGTT
1 TAGGTTGCGAGCTTAACTCAACTAATCTTTAAGCATCAGCTGGGAACATAAGTCCATGAGCTGTT
* *
24072261 TTGGAGTTACGAG-TTCAACTCAGCTAACTCAAATAACTGGAGGTTGCAAGCTTAACTTAGCTAA
66 TTGGAGTTACGAGCTT-AACTCAGCTAACTCAAATAACTGGGGGTTGCGAGCTTAACTTAGCTAA
24072325 C
130 C
24072326 TCAAATTACT
Statistics
Matches: 291, Mismatches: 40, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
206 3 0.01
207 222 0.76
208 62 0.21
209 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (207 bp):
TAGGTTGCGAGCTTAACTCAACTAATCTTTAAGCATCAGCTGGGAACATAAGTCCATGAGCTGTT
TTGGAGTTACGAGCTTAACTCAGCTAACTCAAATAACTGGGGGTTGCGAGCTTAACTTAGCTAAC
CTTAAGCATCAGCTAAGACTGTAGATCCGTGAGCTATTTTGGAGTTGCGAGCTTAATTCAGCTAA
CTCAAATAAATG
Found at i:24081743 original size:24 final size:24
Alignment explanation
Indices: 24081711--24081762 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
24081701 GATCGATGTC
* *
24081711 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
24081735 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
24081759 AAAT
1 AAAT
24081763 CTTCTAGAAA
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:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:24086743 original size:17 final size:17
Alignment explanation
Indices: 24086723--24086762 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
24086713 AATTAAGAAG
* *
24086723 TCAATCAATTTAAGTTA
1 TCAAACAATTCAAGTTA
24086740 TCAAACAATTCAAGTTA
1 TCAAACAATTCAAGTTA
*
24086757 ACAAAC
1 TCAAAC
24086763 TTGAATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.30
Consensus pattern (17 bp):
TCAAACAATTCAAGTTA
Found at i:24089876 original size:20 final size:20
Alignment explanation
Indices: 24089843--24089989 Score: 107
Period size: 20 Copynumber: 7.3 Consensus size: 20
24089833 GAATCATAGA
24089843 TGCATAACAGGGGCACTGAAG
1 TGCA-AACAGGGGCACTGAAG
* * *
24089864 TGCAGATAGGGGCAC-AAATG
1 TGCAAACAGGGGCACTGAA-G
*
24089884 TGCAAACAGGGGCACTGTAG
1 TGCAAACAGGGGCACTGAAG
** * * *
24089904 TGTGAATAGAGACACTGAAG
1 TGCAAACAGGGGCACTGAAG
* ** *
24089924 TGTATGCAGGGGCACCGAAG
1 TGCAAACAGGGGCACTGAAG
* * *
24089944 TACAAACAGGGGCATTGAAA
1 TGCAAACAGGGGCACTGAAG
* *
24089964 TGCAAACAAGGGCACCGAAG
1 TGCAAACAGGGGCACTGAAG
24089984 TGCAAA
1 TGCAAA
24089990 TCCCGTACAA
Statistics
Matches: 92, Mismatches: 32, Indels: 5
0.71 0.25 0.04
Matches are distributed among these distances:
19 2 0.02
20 85 0.92
21 5 0.05
ACGTcount: A:0.36, C:0.18, G:0.32, T:0.14
Consensus pattern (20 bp):
TGCAAACAGGGGCACTGAAG
Found at i:24096141 original size:362 final size:356
Alignment explanation
Indices: 24095439--24096157 Score: 1307
Period size: 362 Copynumber: 2.0 Consensus size: 356
24095429 TGAACGTACC
24095439 TAATTTATGTTTTTAGTTGACTCGTAGGGACTAATCCAAAATTTTATCTTTTCCCTAATTCACCT
1 TAATTTATGTTTTTAGTTGACTCGTAGGGACTAATCCAAAATTTTATCTTTTCCCTAATTCACCT
24095504 CCGTACAATTCGATACTTGATCTATATAATGATTAAATTCAATATATCAAATTCAGATACATATT
66 CCGTACAATTCGATACTTGATCTATATAATGATTAAATTCAATATATCAAATTCAGATACATATT
24095569 CCAACTCATTATATGCATATGACCCTTAAGTTTTATTATTTATTTACTTTCCCTAAAATTTTACA
131 CCAACTCATTATATGCATATGACCCTTAAGTTTTATTATTTATTTACTTTCCCTAAAATTTTACA
*
24095634 TTTTTCACAATTTAGTCCCTAAACCCAAAATTCCAAAATTCCAAATTTATCAAAATTTCATAATT
196 TTTTTCACAATTTAGTCCATAAA-CC---A--CCAAAATTCCAAATTTATCAAAATTTCATAATT
24095699 TCTCATGTTAACCAAAATTTTACTTATACAACCAAAACCCATAATTATTCTAAATTCACATTAAT
255 TCTCATGTTAACCAAAATTTTACTTATACAACCAAAACCCATAATTATTCTAAATTCACATTAAT
24095764 TCCCTATCAATTTTAATATTTTAACAATTGAGTCCTT
320 TCCCTATCAATTTTAATATTTTAACAATTGAGTCCTT
* *
24095801 TAATTTATGTTTTTCGTTGACTCGTAGGGACTAATCCAAAATTTTCTCTTTTCCCTAATTCACCT
1 TAATTTATGTTTTTAGTTGACTCGTAGGGACTAATCCAAAATTTTATCTTTTCCCTAATTCACCT
*
24095866 CCGTACAATTCGATACTTGATCTATATAATGATTAAATTCAATATATCAAATTTAGATACATATT
66 CCGTACAATTCGATACTTGATCTATATAATGATTAAATTCAATATATCAAATTCAGATACATATT
*
24095931 CCAACTCATTATATGCATATGACCCTTAAGTTTTATTATTTATTTACTTTCCCTAAACTTTTACA
131 CCAACTCATTATATGCATATGACCCTTAAGTTTTATTATTTATTTACTTTCCCTAAAATTTTACA
*
24095996 TTTTTTACAATTTAGTCCATAAA-C-CCAAAATTCCAAATTTATCAAAATTTCATAATTTCTCAT
196 TTTTTCACAATTTAGTCCATAAACCACCAAAATTCCAAATTTATCAAAATTTCATAATTTCTCAT
*
24096059 GTTAACCAAAATTTTACTTATACAACTAAAACCCATAATTATTCTAAATTCACATTAATTCCCTA
261 GTTAACCAAAATTTTACTTATACAACCAAAACCCATAATTATTCTAAATTCACATTAATTCCCTA
24096124 TCAATTTTAATATTTTAACAATTGAGTCCTT
326 TCAATTTTAATATTTTAACAATTGAGTCCTT
24096155 TAA
1 TAA
24096158 CTAAAAACTA
Statistics
Matches: 350, Mismatches: 7, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
354 137 0.39
360 1 0.00
362 212 0.61
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (356 bp):
TAATTTATGTTTTTAGTTGACTCGTAGGGACTAATCCAAAATTTTATCTTTTCCCTAATTCACCT
CCGTACAATTCGATACTTGATCTATATAATGATTAAATTCAATATATCAAATTCAGATACATATT
CCAACTCATTATATGCATATGACCCTTAAGTTTTATTATTTATTTACTTTCCCTAAAATTTTACA
TTTTTCACAATTTAGTCCATAAACCACCAAAATTCCAAATTTATCAAAATTTCATAATTTCTCAT
GTTAACCAAAATTTTACTTATACAACCAAAACCCATAATTATTCTAAATTCACATTAATTCCCTA
TCAATTTTAATATTTTAACAATTGAGTCCTT
Found at i:24097162 original size:19 final size:18
Alignment explanation
Indices: 24097138--24097173 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24097128 GCAAATGAAT
*
24097138 CATTTCTCATTTTCATTTC
1 CATTTCT-ATTTCCATTTC
24097157 CATTTCTATTTCCATTT
1 CATTTCTATTTCCATTT
24097174 TGAGAAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.17, C:0.25, G:0.00, T:0.58
Consensus pattern (18 bp):
CATTTCTATTTCCATTTC
Found at i:24097167 original size:12 final size:12
Alignment explanation
Indices: 24097137--24097174 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
24097127 TGCAAATGAA
24097137 TCATTTCTCATTT
1 TCATTTC-CATTT
24097150 TCATTTCCA-TT
1 TCATTTCCATTT
24097161 TCTATTTCCATTT
1 TC-ATTTCCATTT
24097174 T
1 T
24097175 GAGAAAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.17
12 9 0.39
13 10 0.43
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:24107166 original size:37 final size:37
Alignment explanation
Indices: 24107116--24107218 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
24107106 CAATCACTCG
* *
24107116 TAAGAGTTAATCCACCCGATAACACGTCAGATGCTCA
1 TAAGAGCTAATCCACCCGATAACACGCCAGATGCTCA
24107153 TAAGAGCTAATCCACCCGATAACACGCCAGATGCTCA
1 TAAGAGCTAATCCACCCGATAACACGCCAGATGCTCA
* * * *
24107190 TAAGAGCTAGTCCAACCAAAAACACGCCA
1 TAAGAGCTAATCCACCCGATAACACGCCA
24107219 AAACAGGGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.38, C:0.30, G:0.16, T:0.17
Consensus pattern (37 bp):
TAAGAGCTAATCCACCCGATAACACGCCAGATGCTCA
Found at i:24111927 original size:18 final size:20
Alignment explanation
Indices: 24111904--24111941 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24111894 TAACTTAATA
24111904 ATCT-CATTTTC-TTTCAAC
1 ATCTACATTTTCATTTCAAC
24111922 ATCTCACATTTTCATTTCAA
1 ATCT-ACATTTTCATTTCAA
24111942 GAATCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (20 bp):
ATCTACATTTTCATTTCAAC
Found at i:24115078 original size:27 final size:27
Alignment explanation
Indices: 24115029--24115388 Score: 373
Period size: 27 Copynumber: 13.3 Consensus size: 27
24115019 CCTATCAGTC
*
24115029 ATTTTACCCTATCGAGGGTATTTCGGTA
1 ATTTTACCC-ATCAAGGGTATTTCGGTA
* *
24115057 ATTTTACCCATTAAGGGTATTTCGATA
1 ATTTTACCCATCAAGGGTATTTCGGTA
* *
24115084 ATTTTACCCATCGAGGGTATTTCAGTA
1 ATTTTACCCATCAAGGGTATTTCGGTA
* **
24115111 ATTTTACCCATCAGGGGTATTTCAATA
1 ATTTTACCCATCAAGGGTATTTCGGTA
**
24115138 ATTTTACCCATCAAGGGTATTTTAGTA
1 ATTTTACCCATCAAGGGTATTTCGGTA
* *
24115165 GTTTTACCCATCAAGGGTATTTCAGTA
1 ATTTTACCCATCAAGGGTATTTCGGTA
* ** *
24115192 ATTTTACTCATGGAGGGTATTTTGGTA
1 ATTTTACCCATCAAGGGTATTTCGGTA
* * **
24115219 ATTTTAGCCATCGAGGGTATTTCAATA
1 ATTTTACCCATCAAGGGTATTTCGGTA
* * * *
24115246 ATTTTACCCATGAAAGATATTTCGATA
1 ATTTTACCCATCAAGGGTATTTCGGTA
* * ***
24115273 ATTTTACCCATCGAGGCTATTTTAATA
1 ATTTTACCCATCAAGGGTATTTCGGTA
* *
24115300 ATTTTATCCATCGAA-GGTATTTTGGTA
1 ATTTTACCCATC-AAGGGTATTTCGGTA
*
24115327 ATTTTACCCATC-GGAGGTATTTCGGTA
1 ATTTTACCCATCAAG-GGTATTTCGGTA
*
24115354 ATTTTTACCCATCCAGGGTATTTCGGTA
1 A-TTTTACCCATCAAGGGTATTTCGGTA
24115382 ATTTTAC
1 ATTTTAC
24115389 GACCCAAGCT
Statistics
Matches: 279, Mismatches: 48, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
27 244 0.87
28 34 0.12
29 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (27 bp):
ATTTTACCCATCAAGGGTATTTCGGTA
Found at i:24115112 original size:54 final size:54
Alignment explanation
Indices: 24115029--24115388 Score: 427
Period size: 54 Copynumber: 6.6 Consensus size: 54
24115019 CCTATCAGTC
* *
24115029 ATTTTACCCTATCGAGGGTATTTCGGTAATTTTACCCATTAAGGGTATTTCGATA
1 ATTTTACCC-ATCGAGGGTATTTCGGTAATTTTACCCATCAAGGGTATTTCAATA
* *
24115084 ATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCAGGGGTATTTCAATA
1 ATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCATCAAGGGTATTTCAATA
* ** * *
24115138 ATTTTACCCATCAAGGGTATTTTAGTAGTTTTACCCATCAAGGGTATTTCAGTA
1 ATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCATCAAGGGTATTTCAATA
* * * * *
24115192 ATTTTACTCATGGAGGGTATTTTGGTAATTTTAGCCATCGAGGGTATTTCAATA
1 ATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCATCAAGGGTATTTCAATA
* * * * * *
24115246 ATTTTACCCAT-GAAAGATATTTCGATAATTTTACCCATCGAGGCTATTTTAATA
1 ATTTTACCCATCG-AGGGTATTTCGGTAATTTTACCCATCAAGGGTATTTCAATA
* * * * **
24115300 ATTTTATCCATCGAAGGTATTTTGGTAATTTTACCCATC-GGAGGTATTTCGGTA
1 ATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCATCAAG-GGTATTTCAATA
*
24115354 ATTTTTACCCATCCAGGGTATTTCGGTAATTTTAC
1 A-TTTTACCCATCGAGGGTATTTCGGTAATTTTAC
24115389 GACCCAAGCT
Statistics
Matches: 263, Mismatches: 38, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
53 2 0.01
54 222 0.84
55 39 0.15
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (54 bp):
ATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCATCAAGGGTATTTCAATA
Found at i:24118192 original size:26 final size:25
Alignment explanation
Indices: 24118163--24118233 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
24118153 CAGCAGAGCT
*
24118163 ACCAGTACAGTATATGTGGCAAAGCC
1 ACCAGTACAGTAT-TGTGACAAAGCC
* *
24118189 ACCAGTAACAGAATTGTGACAGAGCC
1 ACCAGT-ACAGTATTGTGACAAAGCC
*
24118215 ACTAGTATCAGTATGTGTG
1 ACCAGTA-CAGTAT-TGTG
24118234 TGGTAGAGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 1 0.03
26 26 0.70
27 10 0.27
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (25 bp):
ACCAGTACAGTATTGTGACAAAGCC
Found at i:24118418 original size:27 final size:27
Alignment explanation
Indices: 24118367--24118757 Score: 452
Period size: 27 Copynumber: 14.4 Consensus size: 27
24118357 AGAACCCTAG
*
24118367 CAGTCATTTTACCCTATCGAGGGTATTT
1 CAGTAATTTTACCC-ATCGAGGGTATTT
* *
24118395 CGGTAATTTTACCCATCGGGGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
24118422 C-GATAATTTTACCCATCGAGGGTATCTT
1 CAG-TAATTTTACCCATCGAGGGTAT-TT
* * *
24118450 -AGTAATTTTACCCATCAAAGCTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
* *
24118476 TAGTAATTTTACCTATCGAGGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
24118503 CAGTAATTTTACCCATCGAGGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
* * * *
24118530 C-GATAATTCTACCAATTGAAGGTATTT
1 CAG-TAATTTTACCCATCGAGGGTATTT
** * *
24118557 TGGTAATTTTACTCATC-AAGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
* * *
24118583 CAGTAATTTTACCTATTGAAGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
* **
24118610 CATTAATTTTACCCATCGATAGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
* *
24118637 CAATAATATTACCCATCGAGGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
24118664 CAGTAATTTTACCCATCGAGGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
24118691 CAGTAATTTTTACCCATCGAGGGTATTT
1 CAGTAA-TTTTACCCATCGAGGGTATTT
24118719 C-GATAATTTTTACCCATCGAGGGTATTT
1 CAG-TAA-TTTTACCCATCGAGGGTATTT
24118747 C-GATAATTTTA
1 CAG-TAATTTTA
24118758 TGAACCAAAC
Statistics
Matches: 316, Mismatches: 38, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
26 25 0.08
27 222 0.70
28 69 0.22
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (27 bp):
CAGTAATTTTACCCATCGAGGGTATTT
Found at i:24119290 original size:13 final size:13
Alignment explanation
Indices: 24119272--24119296 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24119262 GAAGGTGTCG
24119272 ATACTTGAAAAAA
1 ATACTTGAAAAAA
24119285 ATACTTGAAAAA
1 ATACTTGAAAAA
24119297 CGAGAAAGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
ATACTTGAAAAAA
Found at i:24119483 original size:14 final size:16
Alignment explanation
Indices: 24119449--24119485 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
24119439 TTCAACTAGT
24119449 AGAGAAAAGAGAAGGA
1 AGAGAAAAGAGAAGGA
24119465 A-AGAAAA-AGAA-GA
1 AGAGAAAAGAGAAGGA
24119478 AGAGAAAA
1 AGAGAAAA
24119486 TTCGGCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.15
14 10 0.50
15 6 0.30
16 1 0.05
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AGAGAAAAGAGAAGGA
Found at i:24119747 original size:20 final size:20
Alignment explanation
Indices: 24119722--24119767 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
24119712 TCCAAAGCCT
24119722 TCACTTACCCCAAACGGCAC
1 TCACTTACCCCAAACGGCAC
24119742 TCACTTACCCCAAACGGCAC
1 TCACTTACCCCAAACGGCAC
*
24119762 ACACTT
1 TCACTT
24119768 CCCATTCCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.43, G:0.09, T:0.17
Consensus pattern (20 bp):
TCACTTACCCCAAACGGCAC
Found at i:24121109 original size:26 final size:26
Alignment explanation
Indices: 24121080--24121156 Score: 127
Period size: 26 Copynumber: 3.0 Consensus size: 26
24121070 TTGTGGCTGG
*
24121080 TTTGACCAACTGATTCTAGTAATTGA
1 TTTGACCAACTGATTCTAGTAACTGA
24121106 TTTGACCAACTGATTCTAGTAACTGA
1 TTTGACCAACTGATTCTAGTAACTGA
* *
24121132 TTTGACCAACTAATTCTATTAACTG
1 TTTGACCAACTGATTCTAGTAACTG
24121157 TTTATTTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (26 bp):
TTTGACCAACTGATTCTAGTAACTGA
Found at i:24146969 original size:24 final size:24
Alignment explanation
Indices: 24146925--24146970 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
24146915 TCTTTTTTTA
*
24146925 CTTAGTTTTTAATAGTTTTTAACC
1 CTTAGTTTTTAATAGTCTTTAACC
24146949 CTTAGTTTTTAATCA-TCTTTAA
1 CTTAGTTTTTAAT-AGTCTTTAA
24146971 ACCAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (24 bp):
CTTAGTTTTTAATAGTCTTTAACC
Found at i:24150957 original size:17 final size:17
Alignment explanation
Indices: 24150935--24150967 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24150925 ATTAGTGCAC
*
24150935 ATTGTCGTTGCATTTTT
1 ATTGTCATTGCATTTTT
24150952 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
24150968 AATGTTAGAA
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:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:24153569 original size:50 final size:47
Alignment explanation
Indices: 24153495--24153611 Score: 135
Period size: 49 Copynumber: 2.4 Consensus size: 47
24153485 TGTGCCAGGC
*
24153495 CATGTGGTAGGCCGTGCTAAAGACTATTTTAGAATTAGAGTCACACGGG
1 CATGTGTTAGGCCGTG-TAAAGACT-TTTTAGAATTAGAGTCACACGGG
* * ** *
24153544 CATGTGTCTAGGCCGTGTGAGAGACTTTTTGGGTTTTGAGTCACACGGG
1 CATGTGT-TAGGCCGTGT-AAAGACTTTTTAGAATTAGAGTCACACGGG
*
24153593 CATGTGTTAGACCGTGTAA
1 CATGTGTTAGGCCGTGTAA
24153612 GTCTCTATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.02
48 9 0.16
49 33 0.57
50 15 0.26
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (47 bp):
CATGTGTTAGGCCGTGTAAAGACTTTTTAGAATTAGAGTCACACGGG
Found at i:24154086 original size:2 final size:2
Alignment explanation
Indices: 24154079--24154106 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24154069 GCTAAGCCAC
24154079 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24154107 CTGATTCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24154594 original size:20 final size:20
Alignment explanation
Indices: 24154565--24154604 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
24154555 GTCTATTTTA
*
24154565 GACATGATATTATAAAATAG
1 GACATAATATTATAAAATAG
24154585 GACATAATATTATAAAATAG
1 GACATAATATTATAAAATAG
24154605 AAGATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (20 bp):
GACATAATATTATAAAATAG
Found at i:24164865 original size:23 final size:25
Alignment explanation
Indices: 24164838--24164898 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 25
24164828 CACTATTAAC
* *
24164838 TTAATTTAATTATATTATAT-AT-T
1 TTAATTTAATTATATTACATAATAA
* *
24164861 TTAATTTAATCACATTACATAATAA
1 TTAATTTAATTATATTACATAATAA
24164886 TTAATTTAATTAT
1 TTAATTTAATTAT
24164899 CATATTATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 17 0.57
24 2 0.07
25 11 0.37
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (25 bp):
TTAATTTAATTATATTACATAATAA
Found at i:24164896 original size:53 final size:54
Alignment explanation
Indices: 24164832--24164952 Score: 131
Period size: 52 Copynumber: 2.3 Consensus size: 54
24164822 GTGACTCACT
* * ** * *
24164832 ATTAACTTAATTTAATTATATTATATATTTTAAT-TTAATCACATTACATAATA
1 ATTAATTTAATTTAATCATATTATATACCTCAATATTAATCACATCACATAATA
* *
24164885 ATTAATTTAA-TT-ATCATATTATATACCTCACTATTAATCACATCATATAATA
1 ATTAATTTAATTTAATCATATTATATACCTCAATATTAATCACATCACATAATA
24164937 ATTTAATTTAAATTTA
1 A-TTAATTT-AATTTA
24164953 TTTAGGAATC
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
51 15 0.27
52 20 0.36
53 16 0.29
54 2 0.04
55 2 0.04
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (54 bp):
ATTAATTTAATTTAATCATATTATATACCTCAATATTAATCACATCACATAATA
Found at i:24169494 original size:31 final size:31
Alignment explanation
Indices: 24169459--24169523 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
24169449 AAAATAATAA
* *
24169459 TCATTGAACTGTTCGAAAGTTTTTATTTAAG
1 TCATTAAACTATTCGAAAGTTTTTATTTAAG
24169490 TCATTAAACTATTCGAAAGTTTTTATTTAAG
1 TCATTAAACTATTCGAAAGTTTTTATTTAAG
24169521 TCA
1 TCA
24169524 CTGGGACGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (31 bp):
TCATTAAACTATTCGAAAGTTTTTATTTAAG
Found at i:24170117 original size:22 final size:25
Alignment explanation
Indices: 24170071--24170120 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 25
24170061 ATATATATAT
24170071 TTAAAAATTAAAAATACATAAAAAA
1 TTAAAAATTAAAAATACATAAAAAA
*
24170096 TTAAAAA-T-AAAA-ACATATAAAA
1 TTAAAAATTAAAAATACATAAAAAA
24170118 TTA
1 TTA
24170121 GGTTAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 12 0.50
23 4 0.17
24 1 0.04
25 7 0.29
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (25 bp):
TTAAAAATTAAAAATACATAAAAAA
Found at i:24173838 original size:23 final size:23
Alignment explanation
Indices: 24173806--24173851 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
24173796 CTTTACAAAT
24173806 GGGCTAGATGTAGGAGCAGTAGG
1 GGGCTAGATGTAGGAGCAGTAGG
*
24173829 GGGCTGGATGTAGGAGCAGTAGG
1 GGGCTAGATGTAGGAGCAGTAGG
24173852 TACGCGAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.50, T:0.17
Consensus pattern (23 bp):
GGGCTAGATGTAGGAGCAGTAGG
Found at i:24179893 original size:20 final size:20
Alignment explanation
Indices: 24179854--24179893 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24179844 GGAAAGTTTT
*
24179854 GAAAATGAAATCGTCAAAAG
1 GAAAATGAAATCGACAAAAG
24179874 GAAAATGAAAT-GACAGAAAG
1 GAAAATGAAATCGACA-AAAG
24179894 AGGAGAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.57, C:0.07, G:0.23, T:0.12
Consensus pattern (20 bp):
GAAAATGAAATCGACAAAAG
Found at i:24186884 original size:28 final size:27
Alignment explanation
Indices: 24186818--24186887 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
24186808 TAATGGGATT
24186818 AGCACTAAGTGTGCGAGTATAATGTAA
1 AGCACTAAGTGTGCGAGTATAATGTAA
* *
24186845 AGCACTAAGTGTGCGAGTTTGAT-TATTA
1 AGCACTAAGTGTGCGAGTATAATGTA--A
24186873 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
24186888 TACTTATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
26 2 0.05
27 21 0.54
28 16 0.41
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTATAATGTAA
Found at i:24187940 original size:47 final size:47
Alignment explanation
Indices: 24187874--24188208 Score: 379
Period size: 47 Copynumber: 7.1 Consensus size: 47
24187864 CCAAATTTGA
* * *
24187874 TGTCC-ATTTTGAGTATATTGATGTTGTCCATTTTAATGTATAACGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
*
24187920 TGTCCAATTTTGAATGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
* * *
24187967 TGTCCAATTTTGAGTGTACTAATGCTGTCCATTTTAATGTATGATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
*
24188014 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * *
24188061 TGTCCGATTTTGAGTATATTTAAGCTGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
* * * * * *
24188108 TGTCCAATTTTGAGTATATTTAAGCTGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
* ** * ** *
24188155 TCTCC-ATTTTGAGCATATT-ATTGCTGTCCAATTTGTTGAATAATTGC
1 TGTCCAATTTTGAGTGTATTGA-TGCTGTCCATTTTAATGTATAA-TGC
24188202 TGTCCAA
1 TGTCCAA
24188209 AACAGGGTTG
Statistics
Matches: 257, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.00
46 36 0.14
47 219 0.85
48 1 0.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (47 bp):
TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
Found at i:24191603 original size:28 final size:29
Alignment explanation
Indices: 24191519--24191603 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 29
24191509 TTATTTAAGT
*
24191519 TATACATATATATAATATA-ATATAAC--AA
1 TATA-ATAAATATAATATATAT-TAACTAAA
* * *
24191547 TATAATTAATATAATACT-TATTTATTAAA
1 TATAATAAATATAATA-TATATTAACTAAA
24191576 TA-AATAAATATAATATATATTAACTAAA
1 TATAATAAATATAATATATATTAACTAAA
24191604 ATATCTCAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
27 13 0.29
28 28 0.62
29 4 0.09
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (29 bp):
TATAATAAATATAATATATATTAACTAAA
Found at i:24193825 original size:12 final size:11
Alignment explanation
Indices: 24193808--24193850 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
24193798 GATAAGAAGA
24193808 AATAATGAAAAT
1 AATAAT-AAAAT
24193820 AATAATAAAAAT
1 AATAAT-AAAAT
*
24193832 AATAGTACAAAT
1 AATAATA-AAAT
24193844 AATAATA
1 AATAATA
24193851 GGATTAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 1 0.04
12 26 0.96
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:24196456 original size:31 final size:31
Alignment explanation
Indices: 24196415--24196488 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
24196405 AAAAAAGATT
*
24196415 AAGTACCAAATTAAGAATAAGCGTCAAGTTC
1 AAGTACCAAATTAAGAAAAAGCGTCAAGTTC
* * *
24196446 -AGATACCAAATTAGGAAAAAGTGTCAAGTTT
1 AAG-TACCAAATTAAGAAAAAGCGTCAAGTTC
24196477 AAGTACCAAATT
1 AAGTACCAAATT
24196489 GGACTAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 2 0.05
31 33 0.89
32 2 0.05
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (31 bp):
AAGTACCAAATTAAGAAAAAGCGTCAAGTTC
Found at i:24196546 original size:31 final size:30
Alignment explanation
Indices: 24196438--24196546 Score: 91
Period size: 31 Copynumber: 3.6 Consensus size: 30
24196428 AGAATAAGCG
* * *
24196438 TCAAGTTCAGATACCAAATTAGGAAAAAGTG
1 TCAAGTTTAAATACCAAATTAGGAAAAA-TA
*
24196469 TCAAGTTTAAGTACCAAATT-GGACTAAAA-A
1 TCAAGTTTAAATACCAAATTAGGA--AAAATA
*
24196499 --AAGTATAAATACCAAATTAGGAAGAAATA
1 TCAAGTTTAAATACCAAATTAGGAA-AAATA
**
24196528 TCAAGTTTAGGTACCAAAT
1 TCAAGTTTAAATACCAAAT
24196547 GTTATATTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
27 1 0.02
28 19 0.31
29 4 0.06
30 3 0.05
31 31 0.50
32 4 0.06
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.25
Consensus pattern (30 bp):
TCAAGTTTAAATACCAAATTAGGAAAAATA
Found at i:24197165 original size:15 final size:16
Alignment explanation
Indices: 24197137--24197166 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24197127 AGTAGTGGAA
24197137 TTTATGTATATTTTGT
1 TTTATGTATATTTTGT
24197153 TTTATGT-TATTTTG
1 TTTATGTATATTTTG
24197167 GCTTTATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (16 bp):
TTTATGTATATTTTGT
Found at i:24200291 original size:105 final size:101
Alignment explanation
Indices: 24200113--24200372 Score: 276
Period size: 105 Copynumber: 2.6 Consensus size: 101
24200103 AATTGACGGA
* *
24200113 TAAGACCATGGTTGAACCATGGCAATGTTTAAATGTAAGACCATAGCTAGACTATGACATTTTAA
1 TAAGACCATGGTTGAACCATGGCAATGTATAAATGTAAGACCATAGCTAGACTATGACATTCTAA
**
24200178 TGAAAAGACCATAACTGGGTTATGGCATCT-TGAATG
66 TGAAAAGACCATAACTGGGTTATGGCA-CTACAAATG
* * * *
24200214 TAAGACCATGGTTGGACCATGGCAGTATAG-ATACAAGTGTAAGACCATAGCTGGGCTATGGCAT
1 TAAGACCATGGTTGAACCATGGCA--AT-GTATA-AA-TGTAAGACCATAGCTAGACTATGACAT
* *
24200278 TCTATTGATAAGACCATAACTGGGTTATGGCACTACAAATG
61 TCTAATGAAAAGACCATAACTGGGTTATGGCACTACAAATG
** ** * * * *
24200319 TAAGACCATGGCAGGGCCATGGCAA--TACATATGTAAGACCATAGTTGGACTATG
1 TAAGACCATGGTTGAACCATGGCAATGTATAAATGTAAGACCATAGCTAGACTATG
24200373 GCACAAAAAG
Statistics
Matches: 135, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
99 21 0.16
100 1 0.01
101 25 0.19
103 5 0.04
104 5 0.04
105 78 0.58
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (101 bp):
TAAGACCATGGTTGAACCATGGCAATGTATAAATGTAAGACCATAGCTAGACTATGACATTCTAA
TGAAAAGACCATAACTGGGTTATGGCACTACAAATG
Found at i:24200295 original size:33 final size:31
Alignment explanation
Indices: 24200251--24200375 Score: 115
Period size: 33 Copynumber: 3.8 Consensus size: 31
24200241 TAGATACAAG
*
24200251 TGTAAGACCATAGCTGGGCTATGGCATTCTAT
1 TGTAAGACCATAGCTGGGCTATGGCATAC-AT
* * *
24200283 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAGCTGGGCTATGGCA-TAC-AT
* * *
24200317 TGTAAGACCATGGCAGGGCCATGGCAATACAT
1 TGTAAGACCATAGCTGGGCTATGGC-ATACAT
* *
24200349 ATGTAAGACCATAGTTGGACTATGGCA
1 -TGTAAGACCATAGCTGGGCTATGGCA
24200376 CAAAAAGAAC
Statistics
Matches: 73, Mismatches: 16, Indels: 8
0.75 0.16 0.08
Matches are distributed among these distances:
32 4 0.05
33 63 0.86
34 6 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (31 bp):
TGTAAGACCATAGCTGGGCTATGGCATACAT
Found at i:24200373 original size:66 final size:66
Alignment explanation
Indices: 24200245--24200376 Score: 151
Period size: 66 Copynumber: 2.0 Consensus size: 66
24200235 GCAGTATAGA
* * * * **
24200245 TACAAGTGTAAGACCATAGCTGGGCTATGGCATTCTATTGATAAGACCATAACTGGGTTATGGCA
1 TACAAATGTAAGACCATAGCAGGGCCATGGCATACTATTGATAAGACCATAACTGGACTATGGCA
24200310 C
66 C
* **
24200311 TACAAATGTAAGACCATGGCAGGGCCATGGCAATAC-ATATG-TAAGACCATAGTTGGACTATGG
1 TACAAATGTAAGACCATAGCAGGGCCATGGC-ATACTAT-TGATAAGACCATAACTGGACTATGG
24200374 CAC
64 CAC
24200377 AAAAAGAACG
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
66 50 0.91
67 5 0.09
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (66 bp):
TACAAATGTAAGACCATAGCAGGGCCATGGCATACTATTGATAAGACCATAACTGGACTATGGCA
C
Found at i:24211802 original size:56 final size:55
Alignment explanation
Indices: 24211717--24211827 Score: 186
Period size: 56 Copynumber: 2.0 Consensus size: 55
24211707 AAATTATAGA
* *
24211717 TTACAAATTAATTATTCATGAGCAATATTCAAATTAAAAGTGATGATTTATCATC
1 TTACAAATTAATTATTCATAAGCAATATTCAAATTAAAAATGATGATTTATCATC
*
24211772 TTACATAATTAATTATTCATAAGCACTATTCAAATTAAAAATGATGATTTATCATC
1 TTACA-AATTAATTATTCATAAGCAATATTCAAATTAAAAATGATGATTTATCATC
24211828 CAATGGATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 5 0.10
56 47 0.90
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (55 bp):
TTACAAATTAATTATTCATAAGCAATATTCAAATTAAAAATGATGATTTATCATC
Found at i:24212347 original size:29 final size:30
Alignment explanation
Indices: 24212312--24212407 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
24212302 ATTTTTAAAA
* *
24212312 AAAATTACATTTTGACCCCT-AAATTTTTT
1 AAAATTACATTTTGACCCCTAAAATTTCTC
* ** *
24212341 GAAATTACATTTCAACCCTTAAAATTTCTC
1 AAAATTACATTTTGACCCCTAAAATTTCTC
** * *
24212371 AAAATTACATTTTGACCTTTAAACTTTCTT
1 AAAATTACATTTTGACCCCTAAAATTTCTC
24212401 AAAATTA
1 AAAATTA
24212408 TGTTTTGGCC
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
29 16 0.30
30 38 0.70
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.42
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAAATTTCTC
Found at i:24212745 original size:21 final size:20
Alignment explanation
Indices: 24212721--24212772 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
24212711 CAACCAAGAG
24212721 GCAAGAAAAAAGAAAAAACAA
1 GCAAGAAAAAAGAAAAAA-AA
* *
24212742 GCAAGCAAAAAG-AAGAAAA
1 GCAAGAAAAAAGAAAAAAAA
24212761 G-AAGAAAAAAGA
1 GCAAGAAAAAAGA
24212773 GCAAAGAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 9 0.33
19 3 0.11
20 4 0.15
21 11 0.41
ACGTcount: A:0.73, C:0.08, G:0.19, T:0.00
Consensus pattern (20 bp):
GCAAGAAAAAAGAAAAAAAA
Found at i:24212778 original size:17 final size:18
Alignment explanation
Indices: 24212723--24212784 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 18
24212713 ACCAAGAGGC
*
24212723 AAGAAAAAAGAAAAAACAAG
1 AAGAAAAAAG-AAGAA-AAG
*
24212743 CAAGCAAAAAGAAGAAAAG
1 -AAGAAAAAAGAAGAAAAG
*
24212762 AAGAAAAAAG-AGCAAAG
1 AAGAAAAAAGAAGAAAAG
24212779 AAGAAA
1 AAGAAA
24212785 GATAGGGGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 12 0.32
18 9 0.24
19 3 0.08
20 4 0.11
21 9 0.24
ACGTcount: A:0.74, C:0.06, G:0.19, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAGAAGAAAAG
Found at i:24212894 original size:4 final size:4
Alignment explanation
Indices: 24212885--24212959 Score: 75
Period size: 4 Copynumber: 18.8 Consensus size: 4
24212875 GGTTGATCGG
* *
24212885 GAAA GAAA GAAA AAAGA GAAA GAAAA GAGAA GAAC GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAA-A GAAA G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA
*
24212936 G-AA GAAA G-AA CAAA G-AA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAA
24212960 GAAGGAAGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
3 8 0.14
4 40 0.68
5 11 0.19
ACGTcount: A:0.72, C:0.03, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:24212970 original size:7 final size:7
Alignment explanation
Indices: 24212887--24212969 Score: 89
Period size: 7 Copynumber: 11.7 Consensus size: 7
24212877 TTGATCGGGA
24212887 AAGAAAG
1 AAGAAAG
*
24212894 AAAAAAG
1 AAGAAAG
24212901 -AGAAAG
1 AAGAAAG
24212907 AA-AAGAG
1 AAGAA-AG
*
24212914 AAGAACG
1 AAGAAAG
24212921 AAAGAAAG
1 -AAGAAAG
24212929 AAAGAAAG
1 -AAGAAAG
24212937 AAGAAAG
1 AAGAAAG
*
24212944 AACAAAG
1 AAGAAAG
24212951 AAGAAAG
1 AAGAAAG
*
24212958 AAGAAGG
1 AAGAAAG
24212965 AAGAA
1 AAGAA
24212970 GAAAAATAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
6 7 0.11
7 42 0.65
8 16 0.25
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:24213070 original size:21 final size:21
Alignment explanation
Indices: 24213044--24213091 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
24213034 CTCTAAGCCC
* *
24213044 AAAAAAAA-AAGCAAAGCCCA
1 AAAAAAAAGAAACAAAGCACA
*
24213064 AAAAAAAAGAAACAAAGCAGA
1 AAAAAAAAGAAACAAAGCACA
24213085 AAAAAAA
1 AAAAAAA
24213092 GCAACAGGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.77, C:0.12, G:0.10, T:0.00
Consensus pattern (21 bp):
AAAAAAAAGAAACAAAGCACA
Found at i:24213217 original size:14 final size:13
Alignment explanation
Indices: 24213200--24213246 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
24213190 TAGGCCAAAA
24213200 AAAAAAGAGAGGAG
1 AAAAAAGAGA-GAG
*
24213214 AAAAAAGAGAGAA
1 AAAAAAGAGAGAG
* *
24213227 AAAAAAAAGAAAG
1 AAAAAAGAGAGAG
24213240 AAAAAAG
1 AAAAAAG
24213247 GAAAAAAGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAAAGAGAGAG
Found at i:24213252 original size:8 final size:8
Alignment explanation
Indices: 24213239--24213277 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
24213229 AAAAAAGAAA
24213239 GAAAAAAG
1 GAAAAAAG
24213247 GAAAAAAG
1 GAAAAAAG
24213255 GAAAAAA-
1 GAAAAAAG
*
24213262 GACAAAAG
1 GAAAAAAG
24213270 AGAAAAAA
1 -GAAAAAA
24213278 AGGTTCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 6 0.22
8 15 0.56
9 6 0.22
ACGTcount: A:0.77, C:0.03, G:0.21, T:0.00
Consensus pattern (8 bp):
GAAAAAAG
Found at i:24213258 original size:16 final size:16
Alignment explanation
Indices: 24213212--24213277 Score: 73
Period size: 16 Copynumber: 4.1 Consensus size: 16
24213202 AAAAGAGAGG
24213212 AGAAAAAAGAGAGAAAA
1 AGAAAAAAGAGA-AAAA
*
24213229 A-AAAAAGAAAGAAAAA
1 AGAAAAA-AGAGAAAAA
24213245 AGGAAAAAAG-GAAAAA
1 A-GAAAAAAGAGAAAAA
*
24213261 AGACAAAAGAGAAAAA
1 AGAAAAAAGAGAAAAA
24213277 A
1 A
24213278 AGGTTCAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
15 7 0.17
16 24 0.57
17 6 0.14
18 5 0.12
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (16 bp):
AGAAAAAAGAGAAAAA
Found at i:24213637 original size:21 final size:20
Alignment explanation
Indices: 24213596--24213638 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
24213586 GAAAATATTT
* * *
24213596 AAAAAATTTCGTGTTTTCGA
1 AAAAAAATTCCTGTTTCCGA
24213616 AAAAAAATTCCTGTGTTCCGA
1 AAAAAAATTCCTGT-TTCCGA
24213637 AA
1 AA
24213639 TCTTCGTGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (20 bp):
AAAAAAATTCCTGTTTCCGA
Found at i:24213927 original size:23 final size:24
Alignment explanation
Indices: 24213886--24213931 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
24213876 TTTCGTCTTT
24213886 CAAAATTCTCATGTTTTCAAAAAA
1 CAAAATTCTCATGTTTTCAAAAAA
*
24213910 CAAAATTCT-GTGTTTTCAAAAA
1 CAAAATTCTCATGTTTTCAAAAA
24213932 TTTTCGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (24 bp):
CAAAATTCTCATGTTTTCAAAAAA
Found at i:24213945 original size:18 final size:18
Alignment explanation
Indices: 24213919--24214218 Score: 238
Period size: 18 Copynumber: 16.9 Consensus size: 18
24213909 ACAAAATTCT
24213919 GTGTTTTCAAAAATTTTC
1 GTGTTTTCAAAAATTTTC
* **
24213937 GTATTTTCAAAAAAAAATTC
1 GTGTTTTC--AAAAATTTTC
**
24213957 GTG-TTTCAAAAATCCTC
1 GTGTTTTCAAAAATTTTC
***
24213974 GTGTTTTCAAAAATTCAG
1 GTGTTTTCAAAAATTTTC
24213992 GTG-TTTCAAAAATTTTC
1 GTGTTTTCAAAAATTTTC
*
24214009 GTGTTTTCAAAAATTTTT
1 GTGTTTTCAAAAATTTTC
* *
24214027 ATGTTTTCTAAAAATTTCC
1 GTGTTTTC-AAAAATTTTC
*
24214046 GTG-TTTCAAAAATTTTT
1 GTGTTTTCAAAAATTTTC
* *
24214063 GTGTTTTCACAAATTTAC
1 GTGTTTTCAAAAATTTTC
** * * *
24214081 GTGTTTTCAACGACTCTA
1 GTGTTTTCAAAAATTTTC
*
24214099 GTG-TTTCACAAATTTTC
1 GTGTTTTCAAAAATTTTC
* *
24214116 GTGTTTTAAAAAATTTTT
1 GTGTTTTCAAAAATTTTC
* *
24214134 GTGTTTTGAAAAAATTCTC
1 GTGTTTT-CAAAAATTTTC
* *
24214153 ATG-TTTCAAAAATTGTC
1 GTGTTTTCAAAAATTTTC
** *
24214170 GTGTTTAAAAAAAATTT-
1 GTGTTTTCAAAAATTTTC
*
24214187 GTG-TTTCTAAAATTTTC
1 GTGTTTTCAAAAATTTTC
24214204 GTG-TTTCAAAAATTT
1 GTGTTTTCAAAAATTT
24214219 CATTTAAAAA
Statistics
Matches: 218, Mismatches: 54, Indels: 21
0.74 0.18 0.07
Matches are distributed among these distances:
16 9 0.04
17 74 0.34
18 100 0.46
19 25 0.11
20 10 0.05
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (18 bp):
GTGTTTTCAAAAATTTTC
Found at i:24214032 original size:35 final size:35
Alignment explanation
Indices: 24213918--24214218 Score: 232
Period size: 35 Copynumber: 8.5 Consensus size: 35
24213908 AACAAAATTC
* **
24213918 TGTGTTTTCAAAAATTTTCGTATTTTCAAAAAAAAATT
1 TGTG-TTTCAAAAATTTTCGTGTTTTC--AAAAATTTT
* ** **
24213956 CGTGTTTCAAAAATCCTCGTGTTTTCAAAAATTCA
1 TGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTT
*
24213991 GGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTT
1 TGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTT
* *
24214026 TATGTTTTCTAAAAATTTCCGTG-TTTCAAAAATTTT
1 TGTG-TTTC-AAAAATTTTCGTGTTTTCAAAAATTTT
* * ** * *
24214062 TGTGTTTTCACAAATTTACGTGTTTTCAACGACTCT
1 TGTG-TTTCAAAAATTTTCGTGTTTTCAAAAATTTT
* * *
24214098 AGTGTTTCACAAATTTTCGTGTTTTAAAAAATTTT
1 TGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTT
* * * *
24214133 TGTGTTTTGAAAAAATTCTCATG-TTTCAAAAATTGT
1 TGTG-TTT-CAAAAATTTTCGTGTTTTCAAAAATTTT
* * * *
24214169 CGTGTTTAAAAAAAATTT-GTG-TTTCTAAAATTTT
1 TGTGTTT-CAAAAATTTTCGTGTTTTCAAAAATTTT
*
24214203 CGTGTTTCAAAAATTT
1 TGTGTTTCAAAAATTT
24214219 CATTTAAAAA
Statistics
Matches: 212, Mismatches: 46, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
33 7 0.03
34 20 0.09
35 87 0.41
36 54 0.25
37 41 0.19
38 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.46
Consensus pattern (35 bp):
TGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTT
Found at i:24214086 original size:107 final size:107
Alignment explanation
Indices: 24213973--24214175 Score: 275
Period size: 107 Copynumber: 1.9 Consensus size: 107
24213963 CAAAAATCCT
* * **
24213973 CGTGTTTTCAAAAATTC-AGGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTTTATGTTTTCTA
1 CGTGTTTTCAAAAACTCTA-GTGTTTCAAAAATTTTCGTGTTTTAAAAAATTTTTATGTTTTGAA
* * *
24214037 AAAATT-TCCGTGTTTCAAAAATTTTTGTGTTTTCACAAATTTA
65 AAAATTCT-CATGTTTCAAAAATTGTCGTGTTTTCACAAATTTA
** * *
24214080 CGTGTTTTCAACGACTCTAGTGTTTCACAAATTTTCGTGTTTTAAAAAATTTTTGTGTTTTGAAA
1 CGTGTTTTCAAAAACTCTAGTGTTTCAAAAATTTTCGTGTTTTAAAAAATTTTTATGTTTTGAAA
24214145 AAATTCTCATGTTTCAAAAATTGTCGTGTTT
66 AAATTCTCATGTTTCAAAAATTGTCGTGTTT
24214176 AAAAAAAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 81 0.98
108 2 0.02
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (107 bp):
CGTGTTTTCAAAAACTCTAGTGTTTCAAAAATTTTCGTGTTTTAAAAAATTTTTATGTTTTGAAA
AAATTCTCATGTTTCAAAAATTGTCGTGTTTTCACAAATTTA
Found at i:24214179 original size:16 final size:17
Alignment explanation
Indices: 24214143--24214221 Score: 56
Period size: 17 Copynumber: 4.7 Consensus size: 17
24214133 TGTGTTTTGA
24214143 AAAAATTCTCATGTTTC
1 AAAAATTCTCATGTTTC
* * *
24214160 AAAAATTGTCGTGTTTAAA
1 AAAAATTCTCATGTTT--C
*
24214179 AAAAATT-T-GTGTTTC
1 AAAAATTCTCATGTTTC
* * *
24214194 TAAAATTTTCGTGTTTC
1 AAAAATTCTCATGTTTC
24214211 AAAAATT-TCAT
1 AAAAATTCTCAT
24214222 TTAAAAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
15 6 0.12
16 4 0.08
17 33 0.65
18 1 0.02
19 7 0.14
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (17 bp):
AAAAATTCTCATGTTTC
Found at i:24215418 original size:106 final size:106
Alignment explanation
Indices: 24215245--24215444 Score: 355
Period size: 106 Copynumber: 1.9 Consensus size: 106
24215235 ATTGGAAAAC
24215245 CATTAACTTAATATTCATCTGATGCAGCTTAAGGTCAAAATATTCCACTAAAGCCATTATAATCC
1 CATTAACTTAATATTCATCTGATGCAGCTTAAGGTCAAAATATTCCACTAAAGCCATTATAATCC
24215310 TTTCTCTAGTGGACCTTTTTTAATGACATCCATTGATCATA
66 TTTCTCTAGTGGACCTTTTTTAATGACATCCATTGATCATA
* * * * *
24215351 CATTAACTTAATATTCATCTGGTGTAGCTTAATGTCAAAATATTCCACTAAATCCTTTATAATCC
1 CATTAACTTAATATTCATCTGATGCAGCTTAAGGTCAAAATATTCCACTAAAGCCATTATAATCC
24215416 TTTCTCTAGTGGACCTTTTTTAATGACAT
66 TTTCTCTAGTGGACCTTTTTTAATGACAT
24215445 TTGTTCATGA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 89 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (106 bp):
CATTAACTTAATATTCATCTGATGCAGCTTAAGGTCAAAATATTCCACTAAAGCCATTATAATCC
TTTCTCTAGTGGACCTTTTTTAATGACATCCATTGATCATA
Found at i:24219243 original size:17 final size:18
Alignment explanation
Indices: 24219221--24219256 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24219211 AGTGAACGAA
*
24219221 AAATAATCAATA-AATAC
1 AAATAAGCAATACAATAC
24219238 AAATAAGCAATACAATAC
1 AAATAAGCAATACAATAC
24219256 A
1 A
24219257 CATGAGAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.64, C:0.14, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATAAGCAATACAATAC
Found at i:24219665 original size:31 final size:30
Alignment explanation
Indices: 24219628--24219691 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
24219618 ATGTAAAAGC
24219628 TTAAAATAAGCAAAATATTAAAATAGGGTTT
1 TTAAAAT-AGCAAAATATTAAAATAGGGTTT
**
24219659 TTAAAATATTAAAATATTAAAATAGGGTTT
1 TTAAAATAGCAAAATATTAAAATAGGGTTT
24219689 TTA
1 TTA
24219692 CAAGAGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (30 bp):
TTAAAATAGCAAAATATTAAAATAGGGTTT
Found at i:24220108 original size:3 final size:3
Alignment explanation
Indices: 24220100--24220133 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
24220090 TATAAAAAAT
* *
24220100 ATA ATA ATA CTA ATA CTA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24220134 ATTAATATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:24221465 original size:22 final size:22
Alignment explanation
Indices: 24221429--24221497 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
24221419 ACAAATCCCA
*
24221429 TCTCAATTTCATTAAAAAATTC
1 TCTCAATTTCCTTAAAAAATTC
*
24221451 TCTCAAATTCCTTAAAAAATTC
1 TCTCAATTTCCTTAAAAAATTC
**
24221473 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTAAAAAATTC
24221495 TCT
1 TCT
24221498 TAAACTCTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.41
Consensus pattern (22 bp):
TCTCAATTTCCTTAAAAAATTC
Found at i:24221511 original size:52 final size:52
Alignment explanation
Indices: 24221450--24221549 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
24221440 TTAAAAAATT
* * * *
24221450 CTCTCAAATTCCTTAAAAAATTCTCTCAATTTCCTTCCAAAATTCTCTTAAA
1 CTCTCAAATTCCTTAAAAAATCCTCACAATTTCCTTCAAAAAATCTCTTAAA
**
24221502 CTCTCAAATTCCTTCCAAAATCCTCACAATTTCCTTCAAAAAATCTCT
1 CTCTCAAATTCCTTAAAAAATCCTCACAATTTCCTTCAAAAAATCTCT
24221550 CAACTCCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.34, C:0.30, G:0.00, T:0.36
Consensus pattern (52 bp):
CTCTCAAATTCCTTAAAAAATCCTCACAATTTCCTTCAAAAAATCTCTTAAA
Found at i:24221532 original size:21 final size:21
Alignment explanation
Indices: 24221504--24221552 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
24221494 CTCTTAAACT
*
24221504 CTCAAA-TTCCTTCCAAAATC
1 CTCAAATTTCCTTCAAAAATC
24221524 CTCACAATTTCCTTCAAAAAATC
1 CTCA-AATTTCCTTC-AAAAATC
24221547 TCTCAA
1 -CTCAA
24221553 CTCCATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 2 0.08
22 7 0.29
23 7 0.29
24 4 0.17
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.31
Consensus pattern (21 bp):
CTCAAATTTCCTTCAAAAATC
Done.