Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 21 of 214
Found at i:5936053 original size:15 final size:15
Alignment explanation
Indices: 5936033--5936061 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5936023 GTATTGTTGT
5936033 TTGATAACACGGTGA
1 TTGATAACACGGTGA
5936048 TTGATAACACGGTG
1 TTGATAACACGGTG
5936062 TGTGAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:5938412 original size:23 final size:21
Alignment explanation
Indices: 5938365--5938422 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
5938355 AAAAAAAATC
5938365 ATTTTTA-ATTATTTTCTTTT
1 ATTTTTACATTATTTTCTTTT
5938385 A-TTTTACATTATTTCTCTCTTT
1 ATTTTTACATTATTT-TCT-TTT
5938407 ATTTTT-CTATTATTTT
1 ATTTTTAC-ATTATTTT
5938423 TCATTTCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 5 0.15
20 8 0.24
21 3 0.09
22 6 0.18
23 11 0.33
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTTTACATTATTTTCTTTT
Found at i:5938996 original size:13 final size:13
Alignment explanation
Indices: 5938978--5939003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5938968 AAAATATATT
5938978 TATTTAATTAAAA
1 TATTTAATTAAAA
5938991 TATTTAATTAAAA
1 TATTTAATTAAAA
5939004 ACTTAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTAATTAAAA
Found at i:5940640 original size:69 final size:69
Alignment explanation
Indices: 5940529--5940663 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 69
5940519 TTGGTTTTGC
* * *
5940529 CTTGTGAATTTAGATTTTTCTCAATTCTGGGTTGTTGCCCTTTTAGCTTTGAGGTCTCTCATATG
1 CTTGTGAAATTAGATTTTTCTCAATTCTGGGTTGTTACCCTTTTAGCTGTGAGGTCTCTCATATG
5940594 ATTT
66 ATTT
* * *
5940598 CTTGTGAAATTAGATTTTTCTCAGTTTTGGGTTGTTACCCTTTTTGCTGTGAGGTCTCTCATATG
1 CTTGTGAAATTAGATTTTTCTCAATTCTGGGTTGTTACCCTTTTAGCTGTGAGGTCTCTCATATG
5940663 A
66 A
5940664 CTTTTTGAAG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (69 bp):
CTTGTGAAATTAGATTTTTCTCAATTCTGGGTTGTTACCCTTTTAGCTGTGAGGTCTCTCATATG
ATTT
Found at i:5942682 original size:29 final size:25
Alignment explanation
Indices: 5942627--5942695 Score: 66
Period size: 29 Copynumber: 2.6 Consensus size: 25
5942617 TTGAATGGTT
* *
5942627 TTTATATATATTTTATTTTTTAGAA
1 TTTATATATATTTTATTTTCTAAAA
5942652 TTTATATATATTTCCTATATATTCTAAAA
1 TTTATATATATTT--TAT-T-TTCTAAAA
* *
5942681 TTTATACATTTTTTA
1 TTTATATATATTTTA
5942696 AAAAATGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 13 0.36
27 5 0.14
28 1 0.03
29 17 0.47
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (25 bp):
TTTATATATATTTTATTTTCTAAAA
Found at i:5943630 original size:123 final size:123
Alignment explanation
Indices: 5943411--5943636 Score: 355
Period size: 123 Copynumber: 1.8 Consensus size: 123
5943401 AGGTGCTTGA
* ** *
5943411 GAAATCAAATAGGAAAATGGATGATACATTAGGCAATGTGAAGGAAGATGGGTCATGTAGGAAGA
1 GAAATCAAATAGGAAAATAGATGATACATTAGGCAATGCAAAGGAAGATGGGTCATGTAAGAAGA
** *
5943476 AATTGTAACGACCCGGCTTTTTTCGGTGTCGAAAAATGCGGTTTCGGAACCCCATTTC
66 AATTGTAACGACCCAACTTTTGTCGGTGTCGAAAAATGCGGTTTCGGAACCCCATTTC
5943534 GAAATCAAATAGGAAAATAGATGATAC-TCTAGGCAATGCAAAGGAAGATGGGTCATGTAAGAAG
1 GAAATCAAATAGGAAAATAGATGATACAT-TAGGCAATGCAAAGGAAGATGGGTCATGTAAGAAG
* *
5943598 AAATTGTAATGACCCAACTTTTGTCGGTGTCGAGAAATG
65 AAATTGTAACGACCCAACTTTTGTCGGTGTCGAAAAATG
5943637 TGATTTCAGA
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
122 1 0.01
123 92 0.99
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.24
Consensus pattern (123 bp):
GAAATCAAATAGGAAAATAGATGATACATTAGGCAATGCAAAGGAAGATGGGTCATGTAAGAAGA
AATTGTAACGACCCAACTTTTGTCGGTGTCGAAAAATGCGGTTTCGGAACCCCATTTC
Found at i:5962559 original size:30 final size:30
Alignment explanation
Indices: 5962523--5962581 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
5962513 AAAAAACTCT
*
5962523 CAAATTTTTCCCTAAATTTCTCAAAGCTCA
1 CAAATTTCTCCCTAAATTTCTCAAAGCTCA
**
5962553 CAAATTTCTCTTTAAATTTCTCAAAGCTC
1 CAAATTTCTCCCTAAATTTCTCAAAGCTC
5962582 TCTTTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.39
Consensus pattern (30 bp):
CAAATTTCTCCCTAAATTTCTCAAAGCTCA
Found at i:5964434 original size:18 final size:18
Alignment explanation
Indices: 5964411--5964445 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
5964401 GGTTGGATAA
5964411 GTATCCTAGCACTTATAT
1 GTATCCTAGCACTTATAT
5964429 GTATCCTAGCACTTATA
1 GTATCCTAGCACTTATA
5964446 CATAACCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (18 bp):
GTATCCTAGCACTTATAT
Found at i:5964444 original size:86 final size:83
Alignment explanation
Indices: 5964326--5964481 Score: 215
Period size: 86 Copynumber: 1.8 Consensus size: 83
5964316 GTCAGGTACT
* ** * *
5964326 TATCCTAGCACTTATATGTATCCTAACCCTTATGGGATTCAA-GGAGTTCATCTCCTTGACAACA
1 TATCCTAGCACTTATATGTATCCTAACACTTAT-ACA-T-AACCG-GTGCATCTCCTTGACAACA
5964390 CTCATACCATGGGTTGGATAAG
62 CTCATACCATGGGTTGGATAAG
*
5964412 TATCCTAGCACTTATATGTATCCTAGCACTTATACATAACCGGTGCATCTCCTTGACAACACTCA
1 TATCCTAGCACTTATATGTATCCTAACACTTATACATAACCGGTGCATCTCCTTGACAACACTCA
5964477 TACCA
66 TACCA
5964482 CAACCCCTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
83 29 0.46
84 2 0.03
85 1 0.02
86 31 0.49
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (83 bp):
TATCCTAGCACTTATATGTATCCTAACACTTATACATAACCGGTGCATCTCCTTGACAACACTCA
TACCATGGGTTGGATAAG
Found at i:5965493 original size:27 final size:27
Alignment explanation
Indices: 5965463--5965518 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
5965453 TCTTGCAATA
*
5965463 ACTTTCGGAACCATACATGGCCTCCCT
1 ACTTTCAGAACCATACATGGCCTCCCT
*
5965490 ACTTTCAGAACCATATATGGCCTCCCT
1 ACTTTCAGAACCATACATGGCCTCCCT
5965517 AC
1 AC
5965519 ATTTGGCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.36, G:0.12, T:0.27
Consensus pattern (27 bp):
ACTTTCAGAACCATACATGGCCTCCCT
Found at i:5966709 original size:636 final size:636
Alignment explanation
Indices: 5965490--5967235 Score: 3348
Period size: 636 Copynumber: 2.7 Consensus size: 636
5965480 TGGCCTCCCT
* * * *
5965490 ACTTTCAGAACCATATATGGCCTCCCTACATTTGGCCTTTATAACTCACTACTCGTTTTGGAAAT
1 ACTTTCGGAACCATACATGGCCTCCCTACATTTGGCCTTTATAACTCACTGCTCGTTTTGGGAAT
5965555 AGTGCCGCAAAACGAAAATATGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
66 AGTGCCGCAAAACGAAAATATGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
5965620 TAGAACATAATTTATGCATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
131 TAGAACATAATTTATGCATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
*
5965685 ATGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
196 GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
5965750 CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
261 CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
5965815 ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
326 ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
5965880 AATAGAGATTAAATACCCATGTTGGTTATTTGTCGTCGTTAAATGGTAAATCGATATTGCTCGTA
391 AATAGAGATTAAATACCCATGTTGGTTATTTGTCGTCGTTAAATGGTAAATCGATATTGCTCGTA
5965945 GTAGTTGTACGCAACGTGCCATAGACGCAAGTCCTATTTCTCAGGACACGATATTGCCCGCCGGT
456 GTAGTTGTACGCAACGTGCCATAGACGCAAGTCCTATTTCTCAGGACACGATATTGCCCGCCGGT
* *
5966010 AATACAATGGTTCGGTCTGTCAAAATTCGTCACACGAAACCATAGGTAGTTGCGATTGTGACACG
521 AATACAATGATTCGGTCTGTCAAAATTCATCACACGAAACCATAGGTAGTTGCGATTGTGACACG
*
5966075 CTGTGTGCCTGGTGTTGGCCCGCGCCTTTGCCTTGTTAATTTCTTGCAATA
586 CTGTGTGCATGGTGTTGGCCCGCGCCTTTGCCTTGTTAATTTCTTGCAATA
*
5966126 ATTTTCGGAACCATACATGGCCTCCCTACATTTGGCCTTTATAACTCACTGCTCGTTTTGGGAAT
1 ACTTTCGGAACCATACATGGCCTCCCTACATTTGGCCTTTATAACTCACTGCTCGTTTTGGGAAT
*
5966191 AGTGCCGCAAAACGAAAATATGTCTCTCGCACAACTGAGGTTATTGGCAAATGACGCGTTCCTTT
66 AGTGCCGCAAAACGAAAATATGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
5966256 TAGAACATAATTTATGCATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
131 TAGAACATAATTTATGCATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
5966321 GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
196 GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
5966386 CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
261 CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
5966451 ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
326 ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
5966516 AATAGAGATTAAATACCCATGTTGGTTATTTGTCGTCGTTAAATGGTAAATCGATATTGCTCGTA
391 AATAGAGATTAAATACCCATGTTGGTTATTTGTCGTCGTTAAATGGTAAATCGATATTGCTCGTA
5966581 GTAGTTGTACGCAACGTGCCATAGACGCAAGTCCTATTTCTCAGGACACGATATTGCCCGCCGGT
456 GTAGTTGTACGCAACGTGCCATAGACGCAAGTCCTATTTCTCAGGACACGATATTGCCCGCCGGT
5966646 AATACAATGATTCGGTCTGTCAAAATTCATCACACGAAACCATAGGTAGTTGCGATTGTGACACG
521 AATACAATGATTCGGTCTGTCAAAATTCATCACACGAAACCATAGGTAGTTGCGATTGTGACACG
5966711 CTGTGTGCATGGTGTTGGCCCGCGCCTTTGCCTTGTTAATTTCTTGCAATA
586 CTGTGTGCATGGTGTTGGCCCGCGCCTTTGCCTTGTTAATTTCTTGCAATA
*
5966762 ACTTTCGGAACCATACATGGCCTCCCTACATTTGGCCTTTATAACTCACTGATCGTTTTGGGAAT
1 ACTTTCGGAACCATACATGGCCTCCCTACATTTGGCCTTTATAACTCACTGCTCGTTTTGGGAAT
*
5966827 AGTGCCGCAAAACGAAAATAAGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
66 AGTGCCGCAAAACGAAAATATGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
*
5966892 TAGAACATAATTTATGAATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
131 TAGAACATAATTTATGCATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
*
5966957 GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGAAACTGAA
196 GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
5967022 CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
261 CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
5967087 ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
326 ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
* *
5967152 AATAGAGATTAAATACCCATGTTGGTTATTTGTTGTCGTTAAATGATAAATCGATATTGCTCGTA
391 AATAGAGATTAAATACCCATGTTGGTTATTTGTCGTCGTTAAATGGTAAATCGATATTGCTCGTA
5967217 GTAGTTGTACGCAACGTGC
456 GTAGTTGTACGCAACGTGC
5967236 ATTAGATAAT
Statistics
Matches: 1092, Mismatches: 18, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
636 1092 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (636 bp):
ACTTTCGGAACCATACATGGCCTCCCTACATTTGGCCTTTATAACTCACTGCTCGTTTTGGGAAT
AGTGCCGCAAAACGAAAATATGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
TAGAACATAATTTATGCATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
AATAGAGATTAAATACCCATGTTGGTTATTTGTCGTCGTTAAATGGTAAATCGATATTGCTCGTA
GTAGTTGTACGCAACGTGCCATAGACGCAAGTCCTATTTCTCAGGACACGATATTGCCCGCCGGT
AATACAATGATTCGGTCTGTCAAAATTCATCACACGAAACCATAGGTAGTTGCGATTGTGACACG
CTGTGTGCATGGTGTTGGCCCGCGCCTTTGCCTTGTTAATTTCTTGCAATA
Found at i:5969462 original size:125 final size:126
Alignment explanation
Indices: 5969240--5969495 Score: 372
Period size: 125 Copynumber: 2.0 Consensus size: 126
5969230 GGCCAAACAT
* * * *
5969240 GAACTACTGTAGAAAAAGAGCGTCGACATGGGAGCTTTTTTTAGTAATTTTGCTGACGGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTTAGTAATTTTGCTAACAGTACATC
* * * * *
5969305 TTGCTTGAAGCGTTTTTTACATTATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTCAG
66 CTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAAACGTATTCTCAAAATTATTTTTTCAA
* * *
5969365 GAACTACTGTAGAAAAATAGTGTCCACTTGGGAGCTTTTTTCT-GTAATTTTGCTAACAGTACAT
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTT-TAGTAATTTTGCTAACAGTACAT
*
5969429 CCTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAA
65 CCTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAAACGTATTCTCAAAATTATTTTTTCAA
5969491 GAACT
1 GAACT
5969496 GTAGAAAAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 103 0.89
126 13 0.11
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTTAGTAATTTTGCTAACAGTACATC
CTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAAACGTATTCTCAAAATTATTTTTTCAA
Found at i:5969766 original size:15 final size:15
Alignment explanation
Indices: 5969742--5969780 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
5969732 TTATTTTAAC
* * *
5969742 AAAACTCTAACCCTA
1 AAAACCCTAAACCAA
5969757 AAAACCCTAAACCAA
1 AAAACCCTAAACCAA
5969772 AAAACCCTA
1 AAAACCCTA
5969781 GGGACTAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAACCCTAAACCAA
Found at i:5973357 original size:39 final size:38
Alignment explanation
Indices: 5973287--5973373 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 38
5973277 TCTTTTCTAA
5973287 AAATT-AATTAAATTAAGGTTTAGGGGATTTAAATAAAT
1 AAATTAAATTAAATTAAGGTTTAGGGGATTTAAA-AAAT
* * **
5973325 AAATTAAATTAAATTAGGGTTTAGTGTTTTTAAAAAAT
1 AAATTAAATTAAATTAAGGTTTAGGGGATTTAAAAAAT
**
5973363 TCATTAAATTA
1 AAATTAAATTA
5973374 GTGTTTAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 18 0.43
39 24 0.57
ACGTcount: A:0.46, C:0.01, G:0.13, T:0.40
Consensus pattern (38 bp):
AAATTAAATTAAATTAAGGTTTAGGGGATTTAAAAAAT
Found at i:5973392 original size:32 final size:33
Alignment explanation
Indices: 5973332--5973394 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
5973322 AATAAATTAA
5973332 ATTAAATTAGGGTTTAGTGTTTTTAAAAAATTC
1 ATTAAATTAGGGTTTAGTGTTTTTAAAAAATTC
*
5973365 ATTAAATTAGTGTTTAGT-TTTTTAAAAAAT
1 ATTAAATTAGGGTTTAGTGTTTTTAAAAAAT
5973395 AATATTATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.48
Consensus pattern (33 bp):
ATTAAATTAGGGTTTAGTGTTTTTAAAAAATTC
Found at i:5973712 original size:127 final size:126
Alignment explanation
Indices: 5973456--5973850 Score: 537
Period size: 127 Copynumber: 3.1 Consensus size: 126
5973446 TTTTGTGTTT
* * *
5973456 TTTTTCTACAGTAGTTCTTGAAAAAATAA-TTTGAGAATATGGTTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAACAAATAGTGTCAAAA
* * * * *
5973520 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACATAGACACTT
66 AAGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACGTAGACGCTC
* * *
5973581 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGA-GGTTTCTGAATAACTAGTATCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGG-TTCTGAACAAATAGTGTCAAA
* * * * *
5973645 AAAGCTTCAAGAAAGGGTGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AAAGCTTCAAG-CAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACGTAGACGCTC
*
5973708 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGATGGTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAACAAATAGTGTCAAAA
* * * *
5973773 ACA-TTTCAAGCAGGATGCATTGTCAGCAAAATTGA-TGAAAAAAGCTCAAACGTCGACGCTC
66 A-AGCTTCAAGCAGGATGCACTGTCAGCAAAATT-ACTGAAAAAAGCTCACACGTAGACGCTC
5973834 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
5973851 ATGTTTGGCT
Statistics
Matches: 237, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
125 30 0.13
126 95 0.40
127 109 0.46
128 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAACAAATAGTGTCAAAA
AAGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACGTAGACGCTC
Found at i:5974326 original size:24 final size:23
Alignment explanation
Indices: 5974270--5974326 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
5974260 AAGAACTTCT
*
5974270 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
5974293 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
5974318 ACTTTTATT
1 A-TTTTATT
5974327 TTATTAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:5976863 original size:29 final size:29
Alignment explanation
Indices: 5976831--5976887 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
5976821 GGACGCATTT
* *
5976831 TGCAAAAATTGGTCC-TTTCCGGTAAATAA
1 TGCAAAAATTAGCCCATTTCC-GTAAATAA
*
5976860 TGCAGAAATTAGCCCATTTCCGTAAATA
1 TGCAAAAATTAGCCCATTTCCGTAAATA
5976888 TACTTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (29 bp):
TGCAAAAATTAGCCCATTTCCGTAAATAA
Found at i:5987986 original size:12 final size:13
Alignment explanation
Indices: 5987955--5987983 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5987945 TCAATCCCAC
5987955 AAAAA-AAAAAAG
1 AAAAAGAAAAAAG
5987967 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
5987980 AAAA
1 AAAA
5987984 GAAGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:5990612 original size:44 final size:46
Alignment explanation
Indices: 5990528--5990616 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 46
5990518 TTCGTTGTAA
* *
5990528 TGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGGAT
1 TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGAATGGAT
5990574 TGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGATTGAATGGA
1 TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGAATGGA
5990617 ATAGAGGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 21 0.51
45 3 0.07
46 17 0.41
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGAATGGAT
Found at i:5990617 original size:39 final size:42
Alignment explanation
Indices: 5990526--5990631 Score: 128
Period size: 46 Copynumber: 2.5 Consensus size: 42
5990516 GGTTCGTTGT
* *
5990526 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGA
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGA
5990568 ATGGATTGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGATTG-
1 A---A-TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGA
*
5990611 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
5990632 CATAAGGAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
39 16 0.29
40 2 0.04
42 1 0.02
43 1 0.02
44 15 0.27
45 4 0.07
46 17 0.30
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (42 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGA
Found at i:5990847 original size:26 final size:26
Alignment explanation
Indices: 5990814--5990865 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
5990804 TAATACTATA
5990814 AAATATAATTTAA-AATAATTCTTATT
1 AAATATAATTTAATAA-AATTCTTATT
5990840 AAATATAATTTAATAAAATTCTTATT
1 AAATATAATTTAATAAAATTCTTATT
5990866 CTTATATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
AAATATAATTTAATAAAATTCTTATT
Found at i:5992405 original size:49 final size:49
Alignment explanation
Indices: 5992333--5992436 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
5992323 AAAAAAAAAC
* ** * *
5992333 AAATTAAAATTAAGTTTAATATCATGAATCAAAATGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
*
5992382 AAATTAAAATTGAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
5992431 AAATTA
1 AAATTA
5992437 TAGCACATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
Found at i:5992605 original size:56 final size:56
Alignment explanation
Indices: 5992544--5992658 Score: 212
Period size: 56 Copynumber: 2.1 Consensus size: 56
5992534 AAATTACATA
* *
5992544 TTTCTTTAAAGAATTTTTAGAAGCACTTTCAATCATAATAACAATGAATATTTGTT
1 TTTCTTTAAACAATTTTTACAAGCACTTTCAATCATAATAACAATGAATATTTGTT
5992600 TTTCTTTAAACAATTTTTACAAGCACTTTCAATCATAATAACAATGAATATTTGTT
1 TTTCTTTAAACAATTTTTACAAGCACTTTCAATCATAATAACAATGAATATTTGTT
5992656 TTT
1 TTT
5992659 TAATCAAGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (56 bp):
TTTCTTTAAACAATTTTTACAAGCACTTTCAATCATAATAACAATGAATATTTGTT
Found at i:5992884 original size:24 final size:26
Alignment explanation
Indices: 5992832--5992881 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
5992822 TATATGTAAT
5992832 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
5992859 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
5992882 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:5992916 original size:32 final size:32
Alignment explanation
Indices: 5992875--5992937 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
5992865 TAAAAATATT
5992875 TTTAATTAATGCGTTGTATATGAATATACACA
1 TTTAATTAATGCGTTGTATATGAATATACACA
5992907 TTTAATTAATGCGTTGTATATGAATATACAC
1 TTTAATTAATGCGTTGTATATGAATATACAC
5992938 TAGTGCAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (32 bp):
TTTAATTAATGCGTTGTATATGAATATACACA
Found at i:5993168 original size:25 final size:25
Alignment explanation
Indices: 5993140--5993201 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
5993130 CAATTTACTG
*
5993140 GAATTACAACTATAAAATACCTCTT
1 GAATTGCAACTATAAAATACCTCTT
*
5993165 GAATTGCAACTATAGAATACCTCTT
1 GAATTGCAACTATAAAATACCTCTT
*
5993190 GAAATGCAACTA
1 GAATTGCAACTA
5993202 GAGCTTCAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (25 bp):
GAATTGCAACTATAAAATACCTCTT
Found at i:5993712 original size:10 final size:10
Alignment explanation
Indices: 5993697--5993721 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5993687 ACAGTAAAGG
5993697 AATCACAGTC
1 AATCACAGTC
5993707 AATCACAGTC
1 AATCACAGTC
5993717 AATCA
1 AATCA
5993722 GCCAATCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.20
Consensus pattern (10 bp):
AATCACAGTC
Found at i:6014402 original size:41 final size:39
Alignment explanation
Indices: 6014357--6014449 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
6014347 AAACAGGCTT
*
6014357 TTAGCGGCGTTTGGACAAAAAATGCCACTAAAAATCGAGCA
1 TTAGCGGCGTTT--ACAAAAAACGCCACTAAAAATCGAGCA
** * *
6014398 TTAGCGGCGCTTTACGTAAAACGCCGCTAAAGATCGAGCA
1 TTAGCGGCG-TTTACAAAAAACGCCACTAAAAATCGAGCA
6014438 TTAGCGGCGTTT
1 TTAGCGGCGTTT
6014450 CTAGGAAAGC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.07
40 31 0.67
41 9 0.20
42 3 0.07
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTACAAAAAACGCCACTAAAAATCGAGCA
Found at i:6014465 original size:40 final size:40
Alignment explanation
Indices: 6014384--6014480 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
6014374 AAAAATGCCA
* *
6014384 CTAAAAATCGAGCATTAGCGGCGCTTTACGTAAAACGCCG
1 CTAAAAATCGAGCATTAGCGGCGCTTTACGGAAAACACCG
* * *
6014424 CTAAAGATCGAGCATTAGCGGCGTTTCTA-GGAAAGCACCG
1 CTAAAAATCGAGCATTAGCGGCGCTT-TACGGAAAACACCG
*
6014464 CTAAAAAT-TAGCATTAG
1 CTAAAAATCGAGCATTAG
6014481 AAAAAACGCC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 8 0.16
40 39 0.80
41 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (40 bp):
CTAAAAATCGAGCATTAGCGGCGCTTTACGGAAAACACCG
Found at i:6014617 original size:41 final size:41
Alignment explanation
Indices: 6014530--6014704 Score: 280
Period size: 41 Copynumber: 4.2 Consensus size: 41
6014520 TTGTACCTTA
*
6014530 CAGATCTTTAGCGGCG-TTTTGAAAAAAAGTGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTG--AAAAAGCGCCGCTAATGCT
*
6014572 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT
*
6014613 CAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT
* *
6014654 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATACT
1 CAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT
6014695 CAGATCTTTA
1 CAGATCTTTA
6014705 ATTGAACATT
Statistics
Matches: 125, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
41 104 0.83
42 16 0.13
43 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (41 bp):
CAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT
Found at i:6014668 original size:82 final size:83
Alignment explanation
Indices: 6014530--6014704 Score: 316
Period size: 82 Copynumber: 2.1 Consensus size: 83
6014520 TTGTACCTTA
*
6014530 CAGATCTTTAGCGGCGTTTTGAAAAAAAGTGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGA
1 CAGATCTTTAGCGGCGTTTTGAAAAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGA
*
6014595 GAAAGCGCCGCTAATGCT
66 GAAAGCGCCGCTAATACT
*
6014613 CAGATCTTTAGCGGCGTTTT-TAAAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGA
1 CAGATCTTTAGCGGCGTTTTGAAAAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGA
6014677 GAAAGCGCCGCTAATACT
66 GAAAGCGCCGCTAATACT
6014695 CAGATCTTTA
1 CAGATCTTTA
6014705 ATTGAACATT
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
82 69 0.78
83 20 0.22
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (83 bp):
CAGATCTTTAGCGGCGTTTTGAAAAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGA
GAAAGCGCCGCTAATACT
Found at i:6014994 original size:20 final size:19
Alignment explanation
Indices: 6014971--6015016 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
6014961 TTTTAAAATA
6014971 TTTAATTTAATTATATATGG
1 TTTAATTTAA-TATATATGG
**
6014991 TTTAAGGT-ATATATATGG
1 TTTAATTTAATATATATGG
6015009 -TTAATTTA
1 TTTAATTTA
6015017 GGATTTAGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
17 5 0.24
18 9 0.43
19 1 0.05
20 6 0.29
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (19 bp):
TTTAATTTAATATATATGG
Found at i:6015132 original size:7 final size:7
Alignment explanation
Indices: 6015122--6015149 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
6015112 TAAGGTTTAT
6015122 GGGTTAG
1 GGGTTAG
6015129 GGGTTAG
1 GGGTTAG
6015136 GGGTTAG
1 GGGTTAG
6015143 GGGTTAG
1 GGGTTAG
6015150 AGATTAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.57, T:0.29
Consensus pattern (7 bp):
GGGTTAG
Found at i:6015350 original size:82 final size:82
Alignment explanation
Indices: 6015192--6015352 Score: 261
Period size: 82 Copynumber: 2.0 Consensus size: 82
6015182 TTTAGTGTTA
* *
6015192 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGGG
1 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAGG
6015257 TTAGGGATTTGGGGCCG
66 TTAGGGATTTGGGGCCG
* * *
6015274 GGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGGTTTAGAGG
1 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAGG
6015339 TTAGTGG-TTTGGGG
66 TTAG-GGATTTGGGG
6015353 TTTGGGGTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
82 71 0.97
83 2 0.03
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.45
Consensus pattern (82 bp):
GGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAGG
TTAGGGATTTGGGGCCG
Found at i:6015762 original size:17 final size:16
Alignment explanation
Indices: 6015729--6015762 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6015719 ATATTAGATT
*
6015729 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
6015745 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
6015762 T
1 T
6015763 TGATACGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:6016072 original size:27 final size:26
Alignment explanation
Indices: 6016016--6016075 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
6016006 TTTTACTTTA
****
6016016 AAAAAATCAATTTATAAAAACGCCGC
1 AAAAAATCAATTTATAAAAACAAAAC
*
6016042 AAAAAATCAATTTATAAAAAACAAAAT
1 AAAAAATCAATTTAT-AAAAACAAAAC
6016069 AAAAAAT
1 AAAAAAT
6016076 ACGAACATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.20
Consensus pattern (26 bp):
AAAAAATCAATTTATAAAAACAAAAC
Found at i:6020769 original size:42 final size:42
Alignment explanation
Indices: 6020723--6020888 Score: 161
Period size: 43 Copynumber: 3.9 Consensus size: 42
6020713 TTTGTTATAT
* * **
6020723 AAGCGTCGCTAAAGGTCGTGGCCTTTAATGGCGTTTTTGGGA
1 AAGCGCCGCTAAAGGTTGTGGCCTTTAGCGGCGTTTTTGGGA
* * * **
6020765 AAGCGTCGCTAAAGATTGTGGCCTTTAGCGGCATTTTTTAGA
1 AAGCGCCGCTAAAGGTTGTGGCCTTTAGCGGCGTTTTTGGGA
* * * *
6020807 AATGCGCCGCTAAACGTTATGGTCTTTAGCGGCGTTTGTGGGA
1 AA-GCGCCGCTAAAGGTTGTGGCCTTTAGCGGCGTTTTTGGGA
* * * *
6020850 TAAGCGCCGCTAAAAGTTATGGTCTTTAGCGGCATTTTT
1 -AAGCGCCGCTAAAGGTTGTGGCCTTTAGCGGCGTTTTT
6020889 TGCGGCGCTT
Statistics
Matches: 103, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
42 37 0.36
43 64 0.62
44 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGGTTGTGGCCTTTAGCGGCGTTTTTGGGA
Found at i:6021396 original size:28 final size:28
Alignment explanation
Indices: 6021364--6021452 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
6021354 GTGCCCCCTG
*
6021364 TTTTT-AAGATTTTATAGCTTTGCCACTC
1 TTTTTCAA-ATTTTATAGTTTTGCCACTC
* * * *
6021392 TTTTTCAAATTTTACAATTTTGCCATTA
1 TTTTTCAAATTTTATAGTTTTGCCACTC
*
6021420 TTTTTCAAATTTTATAGTTTTGCCCCTC
1 TTTTTCAAATTTTATAGTTTTGCCACTC
6021448 TTTTT
1 TTTTT
6021453 TATATTTTGC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 48 0.96
29 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (28 bp):
TTTTTCAAATTTTATAGTTTTGCCACTC
Found at i:6021450 original size:56 final size:56
Alignment explanation
Indices: 6021364--6021471 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
6021354 GTGCCCCCTG
6021364 TTTTTAAGATTTTATAGCTTTGCCACTCTTTTTCAAATTTTACAATTTTGCCATTA
1 TTTTTAAGATTTTATAGCTTTGCCACTCTTTTTCAAATTTTACAATTTTGCCATTA
* * * * *
6021420 TTTTTCAA-ATTTTATAGTTTTGCCCCTCTTTTTTATATTTTGCAATTTTGCC
1 TTTTT-AAGATTTTATAGCTTTGCCACTCTTTTTCAAATTTTACAATTTTGCC
6021472 CCTTTCTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 44 0.96
57 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (56 bp):
TTTTTAAGATTTTATAGCTTTGCCACTCTTTTTCAAATTTTACAATTTTGCCATTA
Found at i:6021459 original size:28 final size:28
Alignment explanation
Indices: 6021382--6021497 Score: 126
Period size: 28 Copynumber: 4.1 Consensus size: 28
6021372 ATTTTATAGC
*
6021382 TTTGCCACTCTTTTTCAAATTTTACAAT
1 TTTGCCCCTCTTTTTCAAATTTTACAAT
** * * *
6021410 TTTGCCATTATTTTTCAAATTTTATAGT
1 TTTGCCCCTCTTTTTCAAATTTTACAAT
* * *
6021438 TTTGCCCCTCTTTTTTATATTTTGCAAT
1 TTTGCCCCTCTTTTTCAAATTTTACAAT
6021466 TTTGCCCCT-TTCTTTACAAATTTTACAAT
1 TTTGCCCCTCTT-TTT-CAAATTTTACAAT
6021495 TTT
1 TTT
6021498 ACCTAGAATT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
27 2 0.03
28 56 0.79
29 13 0.18
ACGTcount: A:0.22, C:0.19, G:0.05, T:0.54
Consensus pattern (28 bp):
TTTGCCCCTCTTTTTCAAATTTTACAAT
Found at i:6021791 original size:34 final size:34
Alignment explanation
Indices: 6021764--6021833 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
6021754 TGCTATTGAG
*
6021764 TTGAACTATTATGAGCATATTAATTGCTACTATA
1 TTGAACTATTATAAGCATATTAATTGCTACTATA
* *
6021798 TTGAACTATTATAAGCATATTGATTGCTACCATA
1 TTGAACTATTATAAGCATATTAATTGCTACTATA
6021832 TT
1 TT
6021834 ATTCTGTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.41
Consensus pattern (34 bp):
TTGAACTATTATAAGCATATTAATTGCTACTATA
Found at i:6028914 original size:9 final size:9
Alignment explanation
Indices: 6028870--6029093 Score: 78
Period size: 9 Copynumber: 23.6 Consensus size: 9
6028860 GCATGTGACG
*
6028870 AAAAATGAT
1 AAAAATTAT
*
6028879 AAAAA-AAT
1 AAAAATTAT
*
6028887 AAAAACTAAT
1 AAAAA-TTAT
*
6028897 AAAATTTAT
1 AAAAATTAT
*
6028906 ACAAATTAT
1 AAAAATTAT
6028915 AAAAATTATT
1 AAAAATTA-T
***
6028925 AAGTTTTAAT
1 AAAAATT-AT
*
6028935 AAGAAATATTT
1 AA-AAAT-TAT
*
6028946 AAAAGTTATT
1 AAAAATTA-T
*
6028956 AAAAATTAA
1 AAAAATTAT
*
6028965 AAAAATTGT
1 AAAAATTAT
*
6028974 AAAAAATTGT
1 -AAAAATTAT
**
6028984 AAACGTTTAT
1 AAA-AATTAT
*
6028994 AAAAATAAT
1 AAAAATTAT
6029003 AAAAATTAT
1 AAAAATTAT
*
6029012 AAAATATATAG
1 AAAA-AT-TAT
6029023 AAAAATT-T
1 AAAAATTAT
*
6029031 ATAAAATTTT
1 A-AAAATTAT
* * *
6029041 CTAAAGTCAT
1 -AAAAATTAT
6029051 AAGAAAATTAT
1 -A-AAAATTAT
6029062 AAAAA-TAT
1 AAAAATTAT
*
6029070 AAAAA-AAT
1 AAAAATTAT
6029078 ATAAAATTCAT
1 A-AAAATT-AT
6029089 AAAAA
1 AAAAA
6029094 AATATTGGGT
Statistics
Matches: 159, Mismatches: 38, Indels: 35
0.69 0.16 0.15
Matches are distributed among these distances:
8 19 0.12
9 63 0.40
10 56 0.35
11 20 0.13
12 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6029032 original size:21 final size:20
Alignment explanation
Indices: 6028989--6029037 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
6028979 ATTGTAAACG
*
6028989 TTTATAAAA-ATAATAAAAA
1 TTTATAAAATATAAGAAAAA
6029008 -TTATAAAATATATAGAAAAA
1 TTTATAAAATATA-AGAAAAA
6029028 TTTATAAAAT
1 TTTATAAAAT
6029038 TTTCTAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 6 0.23
21 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
TTTATAAAATATAAGAAAAA
Found at i:6029090 original size:19 final size:19
Alignment explanation
Indices: 6029047--6029098 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
6029037 TTTTCTAAAG
*
6029047 TCATAAGAAAATTATAAAAA
1 TCATAA-AAAAATATAAAAA
*
6029067 T-ATAAAAAAATATAAAAT
1 TCATAAAAAAATATAAAAA
6029085 TCATAAAAAAATAT
1 TCATAAAAAAATAT
6029099 TGGGTGCCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 12 0.41
19 16 0.55
20 1 0.03
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
TCATAAAAAAATATAAAAA
Found at i:6029430 original size:31 final size:31
Alignment explanation
Indices: 6029372--6029430 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
6029362 CCTCTACTTG
* *
6029372 ATTTTATATTTTTTTATAATATTTTTTTACA
1 ATTTTATATTTTTCTATAATATATTTTTACA
*
6029403 ATTTTATATTTTTACTATTATA-ATTTTT
1 ATTTTATATTTTT-CTATAATATATTTTT
6029431 TATTAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 18 0.75
32 6 0.25
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (31 bp):
ATTTTATATTTTTCTATAATATATTTTTACA
Found at i:6029431 original size:16 final size:17
Alignment explanation
Indices: 6029390--6029446 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 17
6029380 TTTTTTTATA
6029390 ATAT-TTTTTTAC-AAT
1 ATATATTTTTTACTAAT
* *
6029405 -TTTATATTTTTACTATT
1 ATATAT-TTTTTACTAAT
*
6029422 ATA-ATTTTTTATTAAT
1 ATATATTTTTTACTAAT
6029438 ATATATTTT
1 ATATATTTT
6029447 ATAATTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
14 2 0.06
15 1 0.03
16 19 0.59
17 9 0.28
18 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATATTTTTTACTAAT
Found at i:6029524 original size:9 final size:9
Alignment explanation
Indices: 6029476--6029538 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 9
6029466 ATAAAAAAAA
6029476 TTATATTTT
1 TTATATTTT
*
6029485 TTATAAATTCT
1 TTAT--ATTTT
6029496 TTACTATTTT
1 TTA-TATTTT
*
6029506 TTGTGA-TTT
1 TTAT-ATTTT
6029515 TTATATTTT
1 TTATATTTT
6029524 TTATATTTT
1 TTATATTTT
6029533 TCTATA
1 T-TATA
6029539 ACTTTATTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
8 1 0.02
9 24 0.55
10 11 0.25
11 7 0.16
12 1 0.02
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (9 bp):
TTATATTTT
Found at i:6032331 original size:263 final size:261
Alignment explanation
Indices: 6031868--6032514 Score: 785
Period size: 263 Copynumber: 2.5 Consensus size: 261
6031858 GTTACATTAG
* * * * * * *
6031868 GTTGGTGTCACAAGTCAATCGGGCATCAATTTGGTTA-GAGAAACTGCAAAAATATCCTTTTGAA
1 GTTGGTGTCACAAGTCAACCGGGCAACAAATCGGTTAGGA-AAATTACAAAAATATCATTTTGAA
* * * * *
6031932 TTTAAAATAATTTATATT-TTTCGAGGGTACTTTAGTTTTTT-TTT-TAAATTAATAAAAATATG
65 TTTAAAATAATTTATATTATTT-GAGAGCACTATAGTTTTTTATTTAAAAAATAATAAAAATATG
* * *
6031994 CACATAGTGAGATTTGATCTCATGCTAATTGCATTAGAAAAACTTTAAATTTACCCTTCAACCAA
129 CACATAGTGAGATTTGAACTCATGCTAATTGCATAAGAAAAACTTTAAATTTACCATTCAACCAA
* *
6032059 AGCTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTT-AAC-CCTTAC
194 AACTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTTAAACTCCTGAC
6032122 CAA
259 CAA
* *
6032125 GTTGGTGTCACAAGTCAACCGGGCAAAAAATCGGTTAGGAAAATTACAAAAATATCTTTTTGAAT
1 GTTGGTGTCACAAGTCAACCGGGCAACAAATCGGTTAGGAAAATTACAAAAATATCATTTTGAAT
* *
6032190 TTAAAATAAGTCATATTATTTGAGAGCACTATAGTCTTTTTATTTAAAAAAAACTAATAAAAATA
66 TTAAAATAATTTATATTATTTGAGAGCACTATAGT-TTTTTATTT--AAAAAA-TAATAAAAATA
* * * * *
6032255 TGCATATGGTGGGATTTGAACTCATG-TCAATTGCATAAGCAAAACTTTAAATTTATCATTCAAC
127 TGCACATAGTGAGATTTGAACTCATGCT-AATTGCATAAGAAAAACTTTAAATTTACCATTCAAC
*
6032319 CAAAATTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTTAAACTCCT
191 CAAAACTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTTAAACTCCT
**
6032384 GACTGA
256 GACCAA
* ** * * * *
6032390 GTTGGTGCCATGAGTCAACCGGACACCAACTCGGTTAGAAAAATTACAAAAATATCATTTTGAAT
1 GTTGGTGTCACAAGTCAACCGGGCAACAAATCGGTTAGGAAAATTACAAAAATATCATTTTGAAT
* * *
6032455 TTCAAATAATTTATATTATTT-A-AGGA-TAT-CTTTTTTATTTTTAAAAAATAATAAAAATAT
66 TTAAAATAATTTATATTATTTGAGAGCACTATAGTTTTTTA--TTTAAAAAATAATAAAAATAT
6032515 CCGTGAGATT
Statistics
Matches: 335, Mismatches: 42, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
257 80 0.24
258 10 0.03
259 15 0.04
260 12 0.04
261 1 0.00
262 10 0.03
263 123 0.37
264 4 0.01
265 80 0.24
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (261 bp):
GTTGGTGTCACAAGTCAACCGGGCAACAAATCGGTTAGGAAAATTACAAAAATATCATTTTGAAT
TTAAAATAATTTATATTATTTGAGAGCACTATAGTTTTTTATTTAAAAAATAATAAAAATATGCA
CATAGTGAGATTTGAACTCATGCTAATTGCATAAGAAAAACTTTAAATTTACCATTCAACCAAAA
CTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTTAAACTCCTGACCA
A
Found at i:6040535 original size:3 final size:3
Alignment explanation
Indices: 6040529--6040583 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
6040519 GGCGACAACA
6040529 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6040577 AAG AAG A
1 AAG AAG A
6040584 CATTGTTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6041959 original size:22 final size:21
Alignment explanation
Indices: 6041927--6041967 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
6041917 TTAAATGCCA
6041927 TTTTTTATTAATTGTCTTTAT
1 TTTTTTATTAATTGTCTTTAT
*
6041948 TTTTTTATTTAATTTTCTTT
1 TTTTTTA-TTAATTGTCTTT
6041968 GTTTCACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTATTAATTGTCTTTAT
Found at i:6043823 original size:27 final size:29
Alignment explanation
Indices: 6043786--6043855 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 29
6043776 AATTTTGAAC
* *
6043786 TTGAGATTTGGGCTATAATTAGTTTA-T-T
1 TTGAG-TTTGGGCTATAATGAGTATATTAT
* *
6043814 TTGAGTTTGGACAATAATGAGTATATTAT
1 TTGAGTTTGGGCTATAATGAGTATATTAT
*
6043843 TTGGGTTTGGGCT
1 TTGAGTTTGGGCT
6043856 TAGTATAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
27 16 0.48
28 6 0.18
29 11 0.33
ACGTcount: A:0.24, C:0.04, G:0.26, T:0.46
Consensus pattern (29 bp):
TTGAGTTTGGGCTATAATGAGTATATTAT
Found at i:6045636 original size:21 final size:21
Alignment explanation
Indices: 6045610--6045649 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6045600 ATAAATAATA
*
6045610 TAATGGTTTTGCCTTTTAACT
1 TAATGGTTTTGACTTTTAACT
6045631 TAATGGTTTTGACTTTTAA
1 TAATGGTTTTGACTTTTAA
6045650 ATTTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.53
Consensus pattern (21 bp):
TAATGGTTTTGACTTTTAACT
Found at i:6047441 original size:3 final size:3
Alignment explanation
Indices: 6047435--6047522 Score: 160
Period size: 3 Copynumber: 29.7 Consensus size: 3
6047425 TGAAGAAGGT
*
6047435 GAA GAA GAA -AA TAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
6047482 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
6047523 CATTTTTTAA
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
2 2 0.02
3 81 0.98
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:6049061 original size:13 final size:13
Alignment explanation
Indices: 6049043--6049068 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6049033 AACGGGTCTT
6049043 TTACAAAAAAATA
1 TTACAAAAAAATA
6049056 TTACAAAAAAATA
1 TTACAAAAAAATA
6049069 AAAAATACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
TTACAAAAAAATA
Found at i:6049331 original size:10 final size:10
Alignment explanation
Indices: 6049316--6049386 Score: 70
Period size: 10 Copynumber: 6.7 Consensus size: 10
6049306 GAGAAGAAAG
6049316 AAAGAAAGAA
1 AAAGAAAGAA
6049326 AAAGAAAGAA
1 AAAGAAAGAA
*
6049336 AAGGAAAGGAGAA
1 AAAG-AA--AGAA
6049349 GAAAGAAAGAA
1 -AAAGAAAGAA
* *
6049360 AAGGAAAGGA
1 AAAGAAAGAA
*
6049370 GAAGAAAGAA
1 AAAGAAAGAA
6049380 AAAGAAA
1 AAAGAAA
6049387 TGAGAAGAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
10 34 0.69
11 6 0.12
13 6 0.12
14 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:6049350 original size:20 final size:20
Alignment explanation
Indices: 6049306--6049422 Score: 103
Period size: 20 Copynumber: 5.6 Consensus size: 20
6049296 AGAGGGACAA
6049306 GAGAAGAAAG-AAA-GAAAG
1 GAGAAGAAAGAAAAGGAAAG
* *
6049324 AAAAAGAAAGAAAAGGAAAGG
1 GAGAAGAAAGAAAAGGAAA-G
6049345 AGAAGAAAGAAAGAAAAGGAAAG
1 -G-AG-AAGAAAGAAAAGGAAAG
* *
6049368 GAGAAGAAAGAAAAAGAAAT
1 GAGAAGAAAGAAAAGGAAAG
*
6049388 GAGAAGAAGAAGAAGAGGAAAG
1 GAGAAG-A-AAGAAAAGGAAAG
*
6049410 GAAGAAAAAAGAA
1 G-AGAAGAAAGAA
6049423 GTACAGGTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
18 8 0.10
19 3 0.04
20 25 0.31
21 9 0.11
22 13 0.16
23 6 0.08
24 16 0.20
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (20 bp):
GAGAAGAAAGAAAAGGAAAG
Found at i:6049353 original size:24 final size:24
Alignment explanation
Indices: 6049322--6049422 Score: 117
Period size: 24 Copynumber: 4.5 Consensus size: 24
6049312 AAAGAAAGAA
6049322 AGAA-AAAGAAAGAAAAGGAAAGG
1 AGAAGAAAGAAAGAAAAGGAAAGG
6049345 AGAAGAAAGAAAGAAAAGGAAAGG
1 AGAAGAAAGAAAGAAAAGGAAAGG
*
6049369 AGAAGAAAG--A-AAAA-GAAATG
1 AGAAGAAAGAAAGAAAAGGAAAGG
*
6049389 AGAAG-AAG-AAGAAGAGGAAAGG
1 AGAAGAAAGAAAGAAAAGGAAAGG
*
6049411 AAGAAAAAAGAA
1 -AGAAGAAAGAA
6049423 GTACAGGTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
19 3 0.04
20 11 0.16
21 7 0.10
22 6 0.09
23 8 0.12
24 31 0.46
25 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (24 bp):
AGAAGAAAGAAAGAAAAGGAAAGG
Found at i:6049394 original size:10 final size:9
Alignment explanation
Indices: 6049304--6049395 Score: 68
Period size: 10 Copynumber: 10.1 Consensus size: 9
6049294 TGAGAGGGAC
6049304 AAGAGAAGA
1 AAGAGAAGA
6049313 AAGA-AAGA
1 AAGAGAAGA
*
6049321 AAGAAAAAGA
1 AAG-AGAAGA
*
6049331 AAGAAAAGGA
1 AAGAGAA-GA
6049341 AAGGAGAAGA
1 AA-GAGAAGA
6049351 AAGA-AAGA
1 AAGAGAAGA
6049359 AA-AG--GA
1 AAGAGAAGA
6049365 AAGGAGAAGA
1 AA-GAGAAGA
*
6049375 AAGAAAAAGA
1 AAG-AGAAGA
6049385 AATGAGAAGA
1 AA-GAGAAGA
6049395 A
1 A
6049396 GAAGAAGAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 21
0.74 0.03 0.23
Matches are distributed among these distances:
6 4 0.06
7 1 0.01
8 15 0.22
9 12 0.17
10 32 0.46
11 5 0.07
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (9 bp):
AAGAGAAGA
Found at i:6051377 original size:40 final size:40
Alignment explanation
Indices: 6051322--6051502 Score: 326
Period size: 40 Copynumber: 4.5 Consensus size: 40
6051312 AGGCTTGTGC
6051322 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
6051362 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
6051402 ATAGCAGGCTTAATGCCGGTGAAATATTCAGATTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
6051442 CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
6051482 CTAGCAGGCTTCATGCCGGTG
1 CTAGCAGGCTTAATGCCGGTG
6051503 TACGGAATCA
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:6057633 original size:40 final size:40
Alignment explanation
Indices: 6057569--6057789 Score: 352
Period size: 40 Copynumber: 5.5 Consensus size: 40
6057559 AGGCTTGTGC
*
6057569 CTAGCAGGCTTAATACCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
6057609 CTACCAGGTTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
6057649 ATAGCAGGCTTAATGCCGGTGAAATATTCAGATTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
6057689 CTAGCAGACTTAATGCCAGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
6057729 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
6057769 CTAGCAGGCTTCATGCTGGTG
1 CTAGCAGGCTTAATGCCGGTG
6057790 TACGGAATCA
Statistics
Matches: 165, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 165 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:6063929 original size:40 final size:40
Alignment explanation
Indices: 6063869--6064086 Score: 382
Period size: 40 Copynumber: 5.5 Consensus size: 40
6063859 AGGCTTGTGC
6063869 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
6063909 CTAGCAGGCTTAATGTCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
6063949 ATAGCAGGCTTAATGCCGGTGAAATATTCAGATTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
6063989 CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
6064029 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
6064069 CTAGCAGGCTTCATGCCG
1 CTAGCAGGCTTAATGCCG
6064087 ATGTACGGAA
Statistics
Matches: 168, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 168 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:6065975 original size:41 final size:41
Alignment explanation
Indices: 6065918--6066000 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
6065908 GAACACCCAG
* *
6065918 AACGTGACCGTCGACCTCCGCGTAGGTATACCCCTAGGACC
1 AACGTGACCATCGACCTCCGCATAGGTATACCCCTAGGACC
6065959 AACGTGACCATCGACCTCCGCATAGGTATACCCCTAGGACC
1 AACGTGACCATCGACCTCCGCATAGGTATACCCCTAGGACC
6066000 A
1 A
6066001 TACCTTGGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.25, C:0.36, G:0.22, T:0.17
Consensus pattern (41 bp):
AACGTGACCATCGACCTCCGCATAGGTATACCCCTAGGACC
Found at i:6073489 original size:3 final size:3
Alignment explanation
Indices: 6073481--6073561 Score: 65
Period size: 3 Copynumber: 26.0 Consensus size: 3
6073471 TTTAGGACTT
* * * *
6073481 TTA TTA TTA TTA TTA TTA TTTC TTCA TTA TT- TTA ATG TTA TTA TCTT
1 TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA TTA T-TA
* *
6073528 TTA TTA TTA TGA TTA TTAA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
6073562 GTTTTATTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
2 2 0.03
3 50 0.82
4 9 0.15
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:6073549 original size:16 final size:16
Alignment explanation
Indices: 6073518--6073561 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
6073508 TATTTTAATG
6073518 TTATTATC-TT-TT-A
1 TTATTATCATTATTAA
*
6073531 TTATTATGATTATTAA
1 TTATTATCATTATTAA
6073547 TTATTATCATTATTA
1 TTATTATCATTATTA
6073562 GTTTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 7 0.27
14 2 0.08
15 2 0.08
16 15 0.58
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (16 bp):
TTATTATCATTATTAA
Found at i:6080173 original size:45 final size:45
Alignment explanation
Indices: 6080063--6080269 Score: 255
Period size: 44 Copynumber: 4.6 Consensus size: 45
6080053 ATGGAGTTGT
* * *
6080063 AGATCTTGCCTTCCTGTACTGACGGCAAAGCAGATCGAAGAAGCC
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGAAGCC
*
6080108 AG-TCTTGCCTTCCTGTACTGACAGCGGAGCAGA-CTAAAGATAG-C
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-AAAGA-AGCC
** *
6080152 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCC
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGAAGCC
* *
6080197 AG-TCTTGCCTTCCTGTACTGACAGCGGAGCAGA-CTAAAGATAG-T
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-AAAGA-AGCC
6080241 AGATCTTGCCTTCCTGTACTGACAGCGAA
1 AGATCTTGCCTTCCTGTACTGACAGCGAA
6080270 ACGGATTGAA
Statistics
Matches: 140, Mismatches: 14, Indels: 16
0.82 0.08 0.09
Matches are distributed among these distances:
43 2 0.01
44 71 0.51
45 66 0.47
46 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (45 bp):
AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGAAGCC
Found at i:6080269 original size:89 final size:89
Alignment explanation
Indices: 6080061--6080269 Score: 382
Period size: 89 Copynumber: 2.3 Consensus size: 89
6080051 CAATGGAGTT
*
6080061 GTAGATCTTGCCTTCCTGTACTGACGGCAAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTAC
1 GTAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTAC
6080126 TGACAGCGGAGCAGACTAAAGATA
66 TGACAGCGGAGCAGACTAAAGATA
* *
6080150 GCAGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTAC
1 GTAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTAC
6080215 TGACAGCGGAGCAGACTAAAGATA
66 TGACAGCGGAGCAGACTAAAGATA
*
6080239 GTAGATCTTGCCTTCCTGTACTGACAGCGAA
1 GTAGATCTTGCCTTCCTGTACTGACGGCGAA
6080270 ACGGATTGAA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 114 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (89 bp):
GTAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTAC
TGACAGCGGAGCAGACTAAAGATA
Found at i:6080282 original size:45 final size:45
Alignment explanation
Indices: 6080063--6080310 Score: 263
Period size: 45 Copynumber: 5.6 Consensus size: 45
6080053 ATGGAGTTGT
* * *
6080063 AGATCTTGCCTTCCTGTACTGACGGCAAAGCAGATCGAAGA-AGCC
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATTGAAGATAG-C
* * *
6080108 AG-TCTTGCCTTCCTGTACTGACAGCGGAGCAGACTAAAGATAGC
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATTGAAGATAGC
** *
6080152 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGA-AGCC
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATTGAAGATAG-C
* * * *
6080197 AG-TCTTGCCTTCCTGTACTGACAGCGGAGCAGACTAAAGATAGT
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATTGAAGATAGC
* * *
6080241 AGATCTTGCCTTCCTGTACTGACAGCGAAACGGATTGAAGATGGC
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATTGAAGATAGC
* * *
6080286 ATATTTTACCTTCCTGTGACT-ACAG
1 AGATCTTGCCTTCCTGT-ACTGACAG
6080311 TAGAGTACAT
Statistics
Matches: 168, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
44 71 0.42
45 94 0.56
46 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (45 bp):
AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATTGAAGATAGC
Found at i:6080390 original size:95 final size:95
Alignment explanation
Indices: 6080277--6080664 Score: 582
Period size: 95 Copynumber: 4.1 Consensus size: 95
6080267 GAAACGGATT
* * * * *
6080277 GAAGATGGCATATTTTACCT-TCCTGTGACTACAGTAGAGTACATTAAAACTGATAACTCTATCT
1 GAAGATGGCAGATTTTACCTCT-CTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCT
6080341 CCCTGATTGGCAGTGGAATAGATTGAAGATC
65 CCCTGATTGGCAGTGGAATAGATTGAAGATC
* * *
6080372 AAAGATGGCAGATTTTACCTCTCTGTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTC
1 GAAGATGGCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTC
* *
6080437 CCTAATTGGCAGTAGAATAGATTGAAGATC
66 CCTGATTGGCAGTGGAATAGATTGAAGATC
* *
6080467 GAAGATGGCAGATTTTACCT-TCCTGTGATTACAGTGGAGTACATTGAAGCCGATAATTCTATCT
1 GAAGATGGCAGATTTTACCTCT-CTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCT
*
6080531 CCCTGGTTGGCAGTGGAATAGATTGAAGATC
65 CCCTGATTGGCAGTGGAATAGATTGAAGATC
* **
6080562 GAAGATGACAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGTTGATAATTCTATCTC
1 GAAGATGGCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTC
*
6080627 CCTGGTTGGCAGTGGAATAGATTGAAGATC
66 CCTGATTGGCAGTGGAATAGATTGAAGATC
*
6080657 GAATATGG
1 GAAGATGG
6080665 TAAATATTAT
Statistics
Matches: 267, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
94 1 0.00
95 264 0.99
96 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (95 bp):
GAAGATGGCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTC
CCTGATTGGCAGTGGAATAGATTGAAGATC
Found at i:6080894 original size:132 final size:132
Alignment explanation
Indices: 6080652--6080920 Score: 380
Period size: 132 Copynumber: 2.0 Consensus size: 132
6080642 AATAGATTGA
* *
6080652 AGATCGAATATGGTAAATATTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAGCCATTAATCAT
1 AGATCGAAAATGGTAAATATTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAACCATTAATCAT
* * *
6080717 ATCCCCTTAAGCAATAGTGGAATAGGTCAAAGATTGCAGAATCTGT-CACTTTAAGCAGTAGTGA
66 ATCCCCTTAAGCAATAGTGGAATAGGTCAAAGACTGCAGAATCTGTCCAC-CTAAGAAGTAGTGA
6080781 AGC
130 AGC
* * * * *
6080784 AGATCGAAAATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCATTAGTCCT
1 AGATCGAAAATGGTAAATATTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAACCATTAATCAT
* * * *
6080849 ATCACCC-TAAGCAGTAGTGGAATAGGTCAAAGACTGTAGATTCTGTCCACCTAAGAAGTAGTGG
66 ATC-CCCTTAAGCAATAGTGGAATAGGTCAAAGACTGCAGAATCTGTCCACCTAAGAAGTAGTGA
6080913 AGC
130 AGC
6080916 AGATC
1 AGATC
6080921 AATAATAACG
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
132 115 0.95
133 6 0.05
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (132 bp):
AGATCGAAAATGGTAAATATTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAACCATTAATCAT
ATCCCCTTAAGCAATAGTGGAATAGGTCAAAGACTGCAGAATCTGTCCACCTAAGAAGTAGTGAA
GC
Found at i:6082251 original size:3 final size:3
Alignment explanation
Indices: 6082243--6082340 Score: 74
Period size: 3 Copynumber: 32.0 Consensus size: 3
6082233 TTTAGCACTT
* * * *
6082243 TTA TTA TTA TTT TTC TTCA TTA TT- TTGA -TG TTA TTA TCTT TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TT-A TTA TTA TTA T-TA TTA TTA
* * * *
6082289 TTA TGA TTA TTA ATA TTA ATA TTA TTA TTA TTA TTAA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
6082335 TTA TTA
1 TTA TTA
6082341 GTTTTATTTG
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.03
3 65 0.88
4 7 0.09
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:6082445 original size:31 final size:31
Alignment explanation
Indices: 6082402--6082470 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
6082392 TTATTTATTC
6082402 TATATATATGTATATATGCATTATGCTTATA
1 TATATATATGTATATATGCATTATGCTTATA
* *
6082433 TATATATCTGTATATATGCATTATGCTTGTA
1 TATATATATGTATATATGCATTATGCTTATA
*
6082464 CATATAT
1 TATATAT
6082471 TTTTATAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (31 bp):
TATATATATGTATATATGCATTATGCTTATA
Found at i:6086376 original size:23 final size:23
Alignment explanation
Indices: 6086340--6086383 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6086330 AAATCTGGTT
*
6086340 ATATATATATATATATGTTTTTC
1 ATATATATATATATATATTTTTC
6086363 ATATACTATA-ATATATATTTT
1 ATATA-TATATATATATATTTT
6086384 CAAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (23 bp):
ATATATATATATATATATTTTTC
Found at i:6090313 original size:25 final size:25
Alignment explanation
Indices: 6090276--6090329 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
6090266 TGGCTGGTGT
*
6090276 GCGGCGGCCAAGAGCAGGCCTAGGG
1 GCGGCGGCCAAGAGCAGACCTAGGG
* * *
6090301 GCGGCGGCTAAGAGTAGACCTAGGT
1 GCGGCGGCCAAGAGCAGACCTAGGG
6090326 GCGG
1 GCGG
6090330 TGCACCTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.46, T:0.09
Consensus pattern (25 bp):
GCGGCGGCCAAGAGCAGACCTAGGG
Found at i:6090389 original size:17 final size:19
Alignment explanation
Indices: 6090361--6090398 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
6090351 CTAAAAAGTT
6090361 TTTAGTTTTGGGCT-AGGG
1 TTTAGTTTTGGGCTGAGGG
6090379 TTTAG-TTTGGGCTGAGGG
1 TTTAGTTTTGGGCTGAGGG
6090397 TT
1 TT
6090399 AATTTTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.11, C:0.05, G:0.39, T:0.45
Consensus pattern (19 bp):
TTTAGTTTTGGGCTGAGGG
Found at i:6090405 original size:18 final size:17
Alignment explanation
Indices: 6090366--6090405 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
6090356 AAGTTTTTAG
*
6090366 TTTTGGGCTAGGGTTTA
1 TTTTGGGCTAGGGTTAA
*
6090383 GTTTGGGCTGAGGGTTAA
1 TTTTGGGCT-AGGGTTAA
6090401 TTTTG
1 TTTTG
6090406 TATTTGGGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.12, C:0.05, G:0.38, T:0.45
Consensus pattern (17 bp):
TTTTGGGCTAGGGTTAA
Found at i:6093265 original size:17 final size:17
Alignment explanation
Indices: 6093243--6093276 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6093233 TTATCACATT
6093243 ATAGTACGATAATGTGG
1 ATAGTACGATAATGTGG
6093260 ATAGTACGATAATGTGG
1 ATAGTACGATAATGTGG
6093277 CATGCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
ATAGTACGATAATGTGG
Found at i:6093857 original size:30 final size:28
Alignment explanation
Indices: 6093765--6093872 Score: 117
Period size: 29 Copynumber: 3.7 Consensus size: 28
6093755 AAAAAAATAT
*
6093765 AAATTACATTTTAACCCCTAAGTTTTCTA
1 AAATTACATTTTAA-CCCTAACTTTTCTA
* ** *
6093794 AAATTACATATTGGCCACTAACTTTTTTA
1 AAATTACATTTTAACC-CTAACTTTTCTA
6093823 AAATTACATTTTAACCCTAAACTTTTCCTA
1 AAATTACATTTTAACCCT-AACTTTT-CTA
* *
6093853 AAATTACAATTTGACCCTAA
1 AAATTACATTTTAACCCTAA
6093873 AGGTTTTACA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
28 4 0.06
29 43 0.66
30 18 0.28
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (28 bp):
AAATTACATTTTAACCCTAACTTTTCTA
Found at i:6093880 original size:58 final size:58
Alignment explanation
Indices: 6093765--6093880 Score: 139
Period size: 58 Copynumber: 2.0 Consensus size: 58
6093755 AAAAAAATAT
* * ***
6093765 AAATTACATTTTAACCCCTAAGTTTTCTAAAATTACATATTGGCCACTAACTTTTTTA
1 AAATTACATTTTAACCCCTAACTTTTCTAAAATTACATATTGACCACTAAAGGTTTTA
6093823 AAATTACATTTTAA-CCCTAAACTTTTCCTAAAATTACA-ATTTGACC-CTAAAGGTTTTA
1 AAATTACATTTTAACCCCT-AACTTTT-CTAAAATTACATA-TTGACCACTAAAGGTTTTA
6093881 CACCCTTTGC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
57 4 0.08
58 30 0.60
59 16 0.32
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (58 bp):
AAATTACATTTTAACCCCTAACTTTTCTAAAATTACATATTGACCACTAAAGGTTTTA
Found at i:6094101 original size:12 final size:12
Alignment explanation
Indices: 6094084--6094117 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6094074 AAAAATGAAG
6094084 AAAGAAAAAAAC
1 AAAGAAAAAAAC
*
6094096 AAAGAAAAAAAT
1 AAAGAAAAAAAC
6094108 AAA-AAAAAAA
1 AAAGAAAAAAA
6094118 GCAGCAGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (12 bp):
AAAGAAAAAAAC
Found at i:6094227 original size:11 final size:11
Alignment explanation
Indices: 6094211--6094247 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
6094201 AATTGACACG
6094211 AAAGAGAAGAA
1 AAAGAGAAGAA
6094222 AAAGAG-AGAA
1 AAAGAGAAGAA
6094232 AGAAGAGAAGAA
1 A-AAGAGAAGAA
6094244 AAAG
1 AAAG
6094248 GGAAATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.21
11 14 0.58
12 5 0.21
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAGAGAAGAA
Found at i:6094344 original size:4 final size:4
Alignment explanation
Indices: 6094330--6094375 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
6094320 AAGGCCGAAG
* *
6094330 GAAA AAAA GAAA GAAA -AAA GAAA -AAA GAAA AAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
6094376 AAATAATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 6 0.17
4 30 0.83
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:6094349 original size:7 final size:7
Alignment explanation
Indices: 6094339--6094378 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
6094329 GGAAAAAAAG
6094339 AAAGAAA
1 AAAGAAA
6094346 AAAGAAA
1 AAAGAAA
6094353 AAAGAAAA
1 AAAG-AAA
6094361 AAAGAAA
1 AAAGAAA
6094368 GAAAGAAA
1 -AAAGAAA
6094376 AAA
1 AAA
6094379 TAATAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:6094843 original size:15 final size:15
Alignment explanation
Indices: 6094823--6094865 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
6094813 CAAGAAAAAG
*
6094823 GAAAAAAAAGTGAAA
1 GAAAAAAAAGAGAAA
*
6094838 GAAAAATAAGAGAAA
1 GAAAAAAAAGAGAAA
*
6094853 AAGAAAAAAAGAG
1 GA-AAAAAAAGAG
6094866 CCCGAGTCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (15 bp):
GAAAAAAAAGAGAAA
Found at i:6094864 original size:16 final size:16
Alignment explanation
Indices: 6094815--6094865 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
6094805 CCAATTTGCA
6094815 AGAAAAAGGAAAAAAA-
1 AGAAAAA-GAAAAAAAG
**
6094831 AGTGAAAGAAAAATAAG
1 AGAAAAAGAAAAA-AAG
6094848 AGAAAAAGAAAAAAAG
1 AGAAAAAGAAAAAAAG
6094864 AG
1 AG
6094866 CCCGAGTCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.21
16 12 0.41
17 11 0.38
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.04
Consensus pattern (16 bp):
AGAAAAAGAAAAAAAG
Found at i:6101851 original size:456 final size:456
Alignment explanation
Indices: 6101000--6102367 Score: 2722
Period size: 456 Copynumber: 3.0 Consensus size: 456
6100990 GCGGACGGTG
6101000 GCGCCGTCGCCAGCGACTGGCGGCCGCCACGGTGGTCTGGCGCAGGAACTTGGCCAGACTTGGGG
1 GCGCCGTCGCCAGCGACTGGCGGCCGCCACGGTGGTCTGGCGCAGGAACTTGGCCAGACTTGGGG
6101065 CTATTGCAGAGAAAAAAGAGAAGGG-TTTTTTTTTTGAGGGGTGTGATGT-AAAAATGAATTTTT
66 CTATTGCAGAGAAAAAAGAGAAGGGTTTTTTTTTTTGAGGGGTGTGATGTAAAAAATGAATTTTT
6101128 TTTAATTTGGTTTAAATAGAACAATAAAACTGCGCCGTTTTGCAAGTGAGGTTCAGGTGCCAAAA
131 TTTAATTTGGTTTAAATAGAACAATAAAACTGCGCCGTTTTGCAAGTGAGGTTCAGGTGCCAAAA
6101193 TGATGTCGTTTTGGCCCTAACCCGGAATCCGACCCGTCTGCCCTTAGGATTCGCGTGTTTCTGCA
196 TGATGTCGTTTTGGCCCTAACCCGGAATCCGACCCGTCTGCCCTTAGGATTCGCGTGTTTCTGCA
6101258 GTGAAGGGGATATTTGTGCGAGGGATCCCTCCGCTTTTGCGTAGTAGCGCAATCTGGTCCCATTT
261 GTGAAGGGGATATTTGTGCGAGGGATCCCTCCGCTTTTGCGTAGTAGCGCAATCTGGTCCCATTT
6101323 GTTTCTTTAATTTTGGCTGCATAATTTTCTATTATTTTTTTTGGTCCACGATGAAACGTTGCGTT
326 GTTTCTTTAATTTTGGCTGCATAATTTTCTATTATTTTTTTTGGTCCACGATGAAACGTTGCGTT
6101388 TTGGAGGGTAGGAAATATTTCCCATTTGGTCCCCCATATTATTCGTGCGTTACATTTTGATCCTT
391 TTGGAGGGTAGGAAATATTTCCCATTTGGTCCCCCATATTATTCGTGCGTTACATTTTGATCCTT
6101453 T
456 T
6101454 GCGCCGTCGCCAGCGACTGGCGGCCGCCACGGTGGTCTGGCGCAGGAACTTGGCCAGACTTGGGG
1 GCGCCGTCGCCAGCGACTGGCGGCCGCCACGGTGGTCTGGCGCAGGAACTTGGCCAGACTTGGGG
6101519 CTATTGCAGAGAAAAAAGAGAAGGGTTTTTTTTTTTGAGGGGTGTGATGTAAAAAATGAATTTTT
66 CTATTGCAGAGAAAAAAGAGAAGGGTTTTTTTTTTTGAGGGGTGTGATGTAAAAAATGAATTTTT
6101584 TTTAATTTGGTTTAAATAGAACAATAAAACTGCGCCGTTTTGCAAGTGAGGTTCAGGTGCCAAAA
131 TTTAATTTGGTTTAAATAGAACAATAAAACTGCGCCGTTTTGCAAGTGAGGTTCAGGTGCCAAAA
6101649 TGATGTCGTTTTGGCCCTAACCCGGAATCCGACCCGTCTGCCCTTAGGATTCGCGTGTTTCTGCA
196 TGATGTCGTTTTGGCCCTAACCCGGAATCCGACCCGTCTGCCCTTAGGATTCGCGTGTTTCTGCA
6101714 GTGAAGGGGATATTTGTGCGAGGGATCCCTCCGCTTTTGCGTAGTAGCGCAATCTGGTCCCATTT
261 GTGAAGGGGATATTTGTGCGAGGGATCCCTCCGCTTTTGCGTAGTAGCGCAATCTGGTCCCATTT
6101779 GTTTCTTTAATTTTGGCTGCATAATTTTCTATTATTTTTTTTGGTCCACGATGAAACGTTGCGTT
326 GTTTCTTTAATTTTGGCTGCATAATTTTCTATTATTTTTTTTGGTCCACGATGAAACGTTGCGTT
6101844 TTGGAGGGTAGGAAATATTTCCCATTTGGTCCCCCATATTATTCGTGCGTTACATTTTGATCCTT
391 TTGGAGGGTAGGAAATATTTCCCATTTGGTCCCCCATATTATTCGTGCGTTACATTTTGATCCTT
6101909 T
456 T
6101910 GCGCCGTCGCCAGCGACTGGCGGCCGCCACGGTGGTCTGGCGCAGGAACTTGGCCAGACTTGGGG
1 GCGCCGTCGCCAGCGACTGGCGGCCGCCACGGTGGTCTGGCGCAGGAACTTGGCCAGACTTGGGG
6101975 CTATTGCAGAGAAAAAAGAGAAGGGTTTTTTTTTTTGAGGGGTGTGATGTAAAAAATGAATTTTT
66 CTATTGCAGAGAAAAAAGAGAAGGGTTTTTTTTTTTGAGGGGTGTGATGTAAAAAATGAATTTTT
6102040 TTTAATTTGGTTTAAATAGAACAATAAAACTGCGCCGTTTTGCAAGTGAGGTTCAGGTGCCAAAA
131 TTTAATTTGGTTTAAATAGAACAATAAAACTGCGCCGTTTTGCAAGTGAGGTTCAGGTGCCAAAA
6102105 TGATGTCGTTTTGGCCCTAACCCGGAATCCGACCCGTCTGCCCTTAGGATTCGCGTGTTTCTGCA
196 TGATGTCGTTTTGGCCCTAACCCGGAATCCGACCCGTCTGCCCTTAGGATTCGCGTGTTTCTGCA
6102170 GTGAAGGGGATATTTGTGCGAGGGATCCCTCCGCTTTTGCGTAGTAGCGCAATCTGGTCCCATTT
261 GTGAAGGGGATATTTGTGCGAGGGATCCCTCCGCTTTTGCGTAGTAGCGCAATCTGGTCCCATTT
6102235 GTTTCTTTAATTTTGGCTGCATAATTTTCTATTATTTTTTTTGGTCCACGATGAAACGTTGCGTT
326 GTTTCTTTAATTTTGGCTGCATAATTTTCTATTATTTTTTTTGGTCCACGATGAAACGTTGCGTT
6102300 TTGGAGGGTAGGAAATATTTCCCATTTGGTCCCCCATATTATTCGTGCGTTACATTTTGATCCTT
391 TTGGAGGGTAGGAAATATTTCCCATTTGGTCCCCCATATTATTCGTGCGTTACATTTTGATCCTT
6102365 T
456 T
6102366 GC
1 GC
6102368 TTTATTTTAT
Statistics
Matches: 912, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
454 90 0.10
455 24 0.03
456 798 0.88
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (456 bp):
GCGCCGTCGCCAGCGACTGGCGGCCGCCACGGTGGTCTGGCGCAGGAACTTGGCCAGACTTGGGG
CTATTGCAGAGAAAAAAGAGAAGGGTTTTTTTTTTTGAGGGGTGTGATGTAAAAAATGAATTTTT
TTTAATTTGGTTTAAATAGAACAATAAAACTGCGCCGTTTTGCAAGTGAGGTTCAGGTGCCAAAA
TGATGTCGTTTTGGCCCTAACCCGGAATCCGACCCGTCTGCCCTTAGGATTCGCGTGTTTCTGCA
GTGAAGGGGATATTTGTGCGAGGGATCCCTCCGCTTTTGCGTAGTAGCGCAATCTGGTCCCATTT
GTTTCTTTAATTTTGGCTGCATAATTTTCTATTATTTTTTTTGGTCCACGATGAAACGTTGCGTT
TTGGAGGGTAGGAAATATTTCCCATTTGGTCCCCCATATTATTCGTGCGTTACATTTTGATCCTT
T
Found at i:6102617 original size:3 final size:3
Alignment explanation
Indices: 6102611--6102658 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
6102601 TTTTATCTTC
6102611 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
6102659 CTACTATGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6106930 original size:50 final size:51
Alignment explanation
Indices: 6106868--6107059 Score: 203
Period size: 50 Copynumber: 3.8 Consensus size: 51
6106858 AACTATTCTC
*
6106868 ATTCGATACACGTAGTAGCCCT-CACATAGTACTACGCACGTGATC-AAACT
1 ATTCGATACACGTAGTAG-CCTGCACATAGTACTACACACGTGATCGAAACT
* * *
6106918 TTTCGATTCACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCT
1 ATTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACT
* * * * * ****
6106969 ATCCGATACGCATAGTAGCCTGCACATAGTACTACACATGCGA-CCTTTC-
1 ATTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACT
* *
6107018 ATTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGT
1 ATT-CGATACACGTAGTAGCCTGCACATAGTACTACACACGT
6107060 TACAATCACT
Statistics
Matches: 117, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 5 0.04
50 72 0.62
51 40 0.34
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
ATTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACT
Found at i:6110041 original size:28 final size:28
Alignment explanation
Indices: 6109978--6110183 Score: 281
Period size: 28 Copynumber: 7.4 Consensus size: 28
6109968 ATAATAAGTC
* *
6109978 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
6110005 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
6110033 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
6110061 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
6110089 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
6110117 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
6110144 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
6110173 CGCACACTTAG
1 CGCACACTTAG
6110184 CGCCAATCTC
Statistics
Matches: 164, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
27 43 0.26
28 108 0.66
29 13 0.08
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:6118233 original size:19 final size:19
Alignment explanation
Indices: 6118209--6118251 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
6118199 ATTGAACATG
6118209 TTGGTATAATAGTGAATAT
1 TTGGTATAATAGTGAATAT
6118228 TTGGTATAATAGTGAATAT
1 TTGGTATAATAGTGAATAT
6118247 TTGGT
1 TTGGT
6118252 GGTTTGCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (19 bp):
TTGGTATAATAGTGAATAT
Found at i:6118492 original size:50 final size:50
Alignment explanation
Indices: 6118292--6118492 Score: 149
Period size: 50 Copynumber: 4.0 Consensus size: 50
6118282 TTATCATTCG
* * * *
6118292 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTAATATCTA
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTC-A
* * * * * *
6118343 ACACATGTAGTAGCCTGGACATAGTACTACACACGTGATCGA--AGCTATGCG
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CT-TTCA
* * * * * * * *
6118394 GTACGCATAGTAG-CTGCACATAGTACTACACATGCGGCCTTTC-GTTTCA
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTTTCA
* *
6118443 ATACACGTAGTAGCCTACACATAGTACTACACATGTGACCATCACTTTCA
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCA
6118493 CTTTCATATA
Statistics
Matches: 111, Mismatches: 31, Indels: 17
0.70 0.19 0.11
Matches are distributed among these distances:
49 15 0.14
50 50 0.45
51 43 0.39
52 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCA
Found at i:6123401 original size:21 final size:21
Alignment explanation
Indices: 6123375--6123416 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6123365 AAAGGCATCC
6123375 TAATGAAATAGCTTCGAACTT
1 TAATGAAATAGCTTCGAACTT
6123396 TAATGAAATAGCTTCGAACTT
1 TAATGAAATAGCTTCGAACTT
6123417 AAAGAACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
TAATGAAATAGCTTCGAACTT
Found at i:6124326 original size:76 final size:75
Alignment explanation
Indices: 6124195--6125254 Score: 1117
Period size: 76 Copynumber: 14.1 Consensus size: 75
6124185 TTCGTCTTTG
* ** *
6124195 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGGTATTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
6124260 TCTATTTTTC
66 TCTATTTTTC
* * * *
6124270 AAAAAATAAACTCATAATCTGAGAAGTGAGTTGAGCCTCAGGTCGCACGCTAAGGTATTTTCAAT
1 -AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAAT
*
6124335 TTCTGTTGTTTTTC
65 TTC---TATTTTTC
* * * * * * *
6124349 AAAAATGAACTTATAATCCGAGAGGTAAGTTGAGCCTCGGGTCACACGCTAAGGTATTTTTAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
** * *
6124414 TCTGCTTATA
66 TCTATTTTTC
* * * ***
6124424 AAAAATTAACTTATAATCCGAGAAGTCAGTTGAGCCTCGGGTCGCATATTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
6124489 TCTATTTTTC
66 TCTATTTTTC
* * * * *
6124499 AAAAATCAACTTATAATCCGAGAGGTGAGTTGAGCCTTGGGTCACACACTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
*
6124564 TCTGTTTTTC
66 TCTATTTTTC
* * * *
6124574 AAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGCGCGCGCTGAGGTATTCTT-AA
1 AAAAATCAACTCATAATCCGAG-AAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATT-TTCAA
* *
6124638 TTTTTGTTTTTC
64 TTTCTATTTTTC
* * * * *
6124650 AAAAATCAATTCATAATCCTAAAAGTGAGTTGAGCCTTGGGTCGCACGCTGGGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
*
6124715 TCTATTTGTC
66 TCTATTTTTC
* * * *
6124725 AAAAATCAATTCATAATCCGAGAAGATGAGTGGAGCCTCGAGTCG-AGCACTGAGGTATTTTCAA
1 AAAAATCAACTCATAATCCGAGAAG-TGAGTTGAGCCTCGGGTCGCA-CGCTGAGGTATTTTCAA
*
6124789 TTTTTATTTTTC
64 TTTCTATTTTTC
* * * *
6124801 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGTCTCAGGTCACACGCTGATGTATTTTTCAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTCAAT
*
6124866 TTCTGTTTTTC
65 TTCTATTTTTC
* * * *
6124877 AAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCGCGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
6124942 TCTATTTTTC
66 TCTATTTTTC
* * * * * * *
6124952 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCCCAGATCACACG-TCGAGGTATTTTTCAA
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCT-GAGGTA-TTTTCAA
6125016 TTTCTATTTTTC
64 TTTCTATTTTTC
* * * * * * * * * * *
6125028 AAAAATAAACTCAAAATCTGAGAGGCGAGTTGAGCCTTGAGTCACATGCCGAGGTATTTTTTAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTCAAT
6125093 TTCTATTTTTC
65 TTCTATTTTTC
* ** * * * * *
6125104 AAAAATCAACTTATAATTTGAGAGGTGAGTTGAGCCACAGGTCGCGCGCTAAGGTATTTT-ATAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCA-AT
*
6125168 TTCT-GTTTTC
65 TTCTATTTTTC
* * * * ** * *
6125178 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGTACGCCAAGGTGTTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
6125243 TCT-TTTTT-
66 TCTATTTTTC
6125251 AAAA
1 AAAA
6125255 TAAAAATAAA
Statistics
Matches: 828, Mismatches: 141, Indels: 33
0.83 0.14 0.03
Matches are distributed among these distances:
73 3 0.00
74 69 0.08
75 316 0.38
76 372 0.45
77 2 0.00
78 59 0.07
79 7 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (75 bp):
AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
TCTATTTTTC
Found at i:6124678 original size:151 final size:150
Alignment explanation
Indices: 6124195--6125221 Score: 1126
Period size: 151 Copynumber: 6.8 Consensus size: 150
6124185 TTCGTCTTTG
** *
6124195 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGGTATTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
* * * * *
6124260 TCTATTTTTCAAAAAATAAACTCATAATCTGAGAAGTGAGTTGAGCCTCAGGTCGCACGCTAAGG
66 TCTATTTTTC-AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCGCGCTGAGG
*
6124325 TATTTTCAATTTCTGTTGTTTTTC
130 TATTTTCAA-TT-T-TTATTTTTC
* * * * * *
6124349 AAAAATGAACTTATAATCCGAGAGGTAAGTTGAGCCTCGGGTCACACGCTAAGGTATTTTTAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
** * * * * * ****
6124414 TCTGCTTATAAAAAATTAACTTATAATCCGAGAAGTCAGTTGAGCCTCGGGTCGCATATTGAGGT
66 TCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCGCGCTGAGGT
*
6124479 ATTTTCAATTTCTATTTTTC
131 ATTTTCAATTTTTATTTTTC
* * * *
6124499 AAAAATCAACTTATAATCCGAGAGGTGAGTTGAGCCTTGGGTCACACACTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
* * * *
6124564 TCTGTTTTTCAAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGCGCGCGCTGAGG
66 TCTATTTTTCAAAAATCAACTCATAATCCGAG-AAGTGAGTTGAGCCTCGGGTCGCGCGCTGAGG
*
6124629 TATTCTT-AATTTTTGTTTTTC
130 TATT-TTCAATTTTTATTTTTC
* * * * * *
6124650 AAAAATCAATTCATAATCCTAAAAGTGAGTTGAGCCTTGGGTCGCACGCTGGGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
* * * * * *
6124715 TCTATTTGTCAAAAATCAATTCATAATCCGAGAAGATGAGTGGAGCCTCGAGTCGAGCACTGAGG
66 TCTATTTTTCAAAAATCAACTCATAATCCGAGAAG-TGAGTTGAGCCTCGGGTCGCGCGCTGAGG
6124780 TATTTTCAATTTTTATTTTTC
130 TATTTTCAATTTTTATTTTTC
* * *
6124801 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGTCTCAGGTCACACGCTGATGTATTTTTCAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TTTTCAAT
* * * *
6124866 TTCTGTTTTTCAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCGCGCTGAGG
65 TTCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCGCGCTGAGG
*
6124931 TATTTTCAATTTCTATTTTTC
130 TATTTTCAATTTTTATTTTTC
* * * * * *
6124952 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCCCAGATCACACG-TCGAGGTATTTTTCAA
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCT-GAGGTA-TTTTCAA
* * * * * * * * ** *
6125016 TTTCTATTTTTCAAAAATAAACTCAAAATCTGAGAGGCGAGTTGAGCCTTGAGTCACATGCCGAG
64 TTTCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCGCGCTGAG
* *
6125081 GTATTTTTTAATTTCTATTTTTC
129 GTA-TTTTCAATTTTTATTTTTC
* ** * * * * * *
6125104 AAAAATCAACTTATAATTTGAGAGGTGAGTTGAGCCACAGGTCGCGCGCTAAGGTATTTT-ATAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCA-AT
* * * *
6125168 TTCT-GTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCG
65 TTCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCG
6125222 TACGCCAAGG
Statistics
Matches: 747, Mismatches: 117, Indels: 22
0.84 0.13 0.02
Matches are distributed among these distances:
150 139 0.19
151 382 0.51
152 109 0.15
153 55 0.07
154 62 0.08
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (150 bp):
AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
TCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCGCGCTGAGGT
ATTTTCAATTTTTATTTTTC
Found at i:6125638 original size:28 final size:30
Alignment explanation
Indices: 6125549--6125672 Score: 148
Period size: 29 Copynumber: 4.3 Consensus size: 30
6125539 AAGAAAATAT
* *
6125549 AAATTACATTTTGACACC-CAACTTTCTTA
1 AAATTACATTTTGACACCTAAACTTTCCTA
* * *
6125578 AAATTACATTTTGACACTTCAACTTCCCTA
1 AAATTACATTTTGACACCTAAACTTTCCTA
*
6125608 AAATTAGATTTTGAC-CCT-AACTTTCCTA
1 AAATTACATTTTGACACCTAAACTTTCCTA
* *
6125636 AAATTACATTTTGAC-CTTAAATTTTCCTA
1 AAATTACATTTTGACACCTAAACTTTCCTA
6125665 AAATTACA
1 AAATTACA
6125673 CATTAACCCC
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
28 25 0.30
29 36 0.43
30 23 0.27
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (30 bp):
AAATTACATTTTGACACCTAAACTTTCCTA
Found at i:6125640 original size:58 final size:58
Alignment explanation
Indices: 6125549--6125672 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 58
6125539 AAGAAAATAT
* *
6125549 AAATTACATTTTGACACCCAACTTTCTTAAAATTACATTTTGACACTTCAACTTCCCTA
1 AAATTACATTTTGACACCCAACTTTCCTAAAATTACATTTTGAC-CTTAAACTTCCCTA
* * * *
6125608 AAATTAGATTTTGAC-CCTAACTTTCCTAAAATTACATTTTGACCTTAAATTTTCCTA
1 AAATTACATTTTGACACCCAACTTTCCTAAAATTACATTTTGACCTTAAACTTCCCTA
6125665 AAATTACA
1 AAATTACA
6125673 CATTAACCCC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 18 0.31
58 26 0.45
59 14 0.24
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (58 bp):
AAATTACATTTTGACACCCAACTTTCCTAAAATTACATTTTGACCTTAAACTTCCCTA
Found at i:6126030 original size:11 final size:11
Alignment explanation
Indices: 6126014--6126049 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
6126004 AATCGGCACG
6126014 AAAGAGAAGAA
1 AAAGAGAAGAA
6126025 AAAGAG-AGAA
1 AAAGAGAAGAA
6126035 AGAAGAGAAGAA
1 A-AAGAGAAGAA
6126047 AAA
1 AAA
6126050 AGGAAAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 5 0.22
11 13 0.57
12 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
AAAGAGAAGAA
Found at i:6126040 original size:22 final size:20
Alignment explanation
Indices: 6126015--6126056 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
6126005 ATCGGCACGA
6126015 AAGAGAAGAAAAAGAGAGAAAG
1 AAGAGAAGAAAAA-AG-GAAAG
6126037 AAGAGAAGAAAAAAGGAAAG
1 AAGAGAAGAAAAAAGGAAAG
6126057 GAGAAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AAGAGAAGAAAAAAGGAAAG
Found at i:6126181 original size:4 final size:4
Alignment explanation
Indices: 6126163--6126244 Score: 89
Period size: 4 Copynumber: 20.5 Consensus size: 4
6126153 AAGGAAAAAG
*
6126163 AGAA AGAAA ACGAA AG-A A-AA AGAA AGAA AGAA AGAGA AGAA A-AG AGAA
1 AGAA AG-AA A-GAA AGAA AGAA AGAA AGAA AGAA AGA-A AGAA AGAA AGAA
* *
6126211 AGAA AGAA AGAA AGAA AGAA AAAA AGAA AAAA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
6126245 TAATAAAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
3 6 0.09
4 49 0.74
5 10 0.15
6 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:6126194 original size:28 final size:28
Alignment explanation
Indices: 6126163--6126232 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
6126153 AAGGAAAAAG
6126163 AGAAAGAAAACG-AAAGAAAAAGAAAGAA
1 AGAAAGAAAA-GAAAAGAAAAAGAAAGAA
* *
6126191 AGAAAGAGAAGAAAAGAGAAAGAAAGAA
1 AGAAAGAAAAGAAAAGAAAAAGAAAGAA
6126219 AGAAAG-AAAGAAAA
1 AGAAAGAAAAGAAAA
6126233 AAAGAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.00
Consensus pattern (28 bp):
AGAAAGAAAAGAAAAGAAAAAGAAAGAA
Found at i:6126233 original size:28 final size:28
Alignment explanation
Indices: 6126175--6126232 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
6126165 AAAGAAAACG
*
6126175 AAAGAAAAAGAAAGAAAGAAAGAGAAGA
1 AAAGAGAAAGAAAGAAAGAAAGAGAAGA
6126203 AAAGAGAAAGAAAGAAAGAAAGA-AAGA
1 AAAGAGAAAGAAAGAAAGAAAGAGAAGA
6126230 AAA
1 AAA
6126233 AAAGAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (28 bp):
AAAGAGAAAGAAAGAAAGAAAGAGAAGA
Found at i:6126598 original size:10 final size:10
Alignment explanation
Indices: 6126579--6126614 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
6126569 AATCTGCAAG
*
6126579 AAAAAGGAAA
1 AAAAAAGAAA
6126589 AAAAAAGAAA
1 AAAAAAGAAA
*
6126599 AAAAGAGAAA
1 AAAAAAGAAA
6126609 AAAAAA
1 AAAAAA
6126615 AGAGCCCGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:6127813 original size:23 final size:25
Alignment explanation
Indices: 6127781--6127826 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
6127771 TCATGTGAAA
6127781 ATATACTCATTCAGCTT-TAATTTC
1 ATATACTCATTCAGCTTCTAATTTC
6127805 ATAT-CTCATTCAGCTTCTAATT
1 ATATACTCATTCAGCTTCTAATT
6127827 CAACTTCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATACTCATTCAGCTTCTAATTTC
Found at i:6128526 original size:45 final size:45
Alignment explanation
Indices: 6128477--6128585 Score: 182
Period size: 46 Copynumber: 2.4 Consensus size: 45
6128467 TTTTTCACGA
6128477 ATACCTACTTTTCACACTCAGTATGGTTTTCTTCACTGAAACACC
1 ATACCTACTTTTCACACTCAGTATGGTTTTCTTCACTGAAACACC
*
6128522 ATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACTGAAATACC
1 ATACCTACTTTTCAC-ACTCAGTATGGTTTTCTTCACTGAAACACC
* *
6128568 ATACTTACGTTTCACACT
1 ATACCTACTTTTCACACT
6128586 TTTCCATGGA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 18 0.30
46 42 0.70
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.37
Consensus pattern (45 bp):
ATACCTACTTTTCACACTCAGTATGGTTTTCTTCACTGAAACACC
Found at i:6141068 original size:20 final size:20
Alignment explanation
Indices: 6141043--6141111 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
6141033 ACTTAACATA
6141043 TAATAAAATTGATAAAAAAT
1 TAATAAAATTGATAAAAAAT
6141063 TAATAAGAA-TGAT-AAAAAT
1 TAATAA-AATTGATAAAAAAT
* * *
6141082 TATTAAATTTTAATAAAAATAT
1 TAATAAA-ATTGATAAAAA-AT
6141104 TAA-AAAAT
1 TAATAAAAT
6141112 AAAAATAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 1 0.03
19 11 0.28
20 14 0.36
21 9 0.23
22 4 0.10
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TAATAAAATTGATAAAAAAT
Found at i:6141111 original size:22 final size:22
Alignment explanation
Indices: 6141086--6141159 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
6141076 AAAAATTATT
*
6141086 AAATTTTAATAAAAATATTAAA
1 AAATTATAATAAAAATATTAAA
* * *
6141108 AAATAAAAATAAAAAACATT-AA
1 AAATTATAAT-AAAAATATTAAA
6141130 AAATTATAA-AAAAATTAGTTAAA
1 AAATTATAATAAAAA-TA-TTAAA
6141153 AAATTAT
1 AAATTAT
6141160 GAATTCTGAC
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
20 5 0.12
21 1 0.02
22 18 0.44
23 17 0.41
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (22 bp):
AAATTATAATAAAAATATTAAA
Found at i:6141114 original size:16 final size:15
Alignment explanation
Indices: 6141093--6141142 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
6141083 ATTAAATTTT
6141093 AATAAAAATATTAAAA
1 AATAAAAATA-TAAAA
6141109 AATAAAAATA-AAAA
1 AATAAAAATATAAAA
6141123 ACATTAAAAATTATAAAA
1 A-A-TAAAAA-TATAAAA
6141141 AA
1 AA
6141143 ATTAGTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.17
15 1 0.03
16 16 0.53
17 3 0.10
18 5 0.17
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (15 bp):
AATAAAAATATAAAA
Found at i:6141128 original size:23 final size:24
Alignment explanation
Indices: 6141096--6141141 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
6141086 AAATTTTAAT
*
6141096 AAAAATATTAAAAA-ATAAAAATA
1 AAAAACATTAAAAATATAAAAATA
6141119 AAAAACATTAAAAATTATAAAAA
1 AAAAACATTAAAAA-TATAAAAA
6141142 AATTAGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
25 7 0.35
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (24 bp):
AAAAACATTAAAAATATAAAAATA
Found at i:6142367 original size:73 final size:73
Alignment explanation
Indices: 6142248--6142395 Score: 233
Period size: 73 Copynumber: 2.0 Consensus size: 73
6142238 GGGTGAGTTT
* *
6142248 TAACACCTTAGATTTTGGGATGAGAAGTTTTGAAGTTTGTAGTTAGGGTCAATAAGTAGGTTTAA
1 TAACACCTCAGAATTTGGGATGAGAAGTTTTGAAGTTTGTAGTTAGGGTCAATAAGTAGGTTTAA
6142313 CAATTAAG
66 CAATTAAG
* * * * *
6142321 TAACACCTCAGAATTTGGGGTTAGAAGTTTTGAGGTTTGTAGTTAGGGTTAATAAGTAGGTTTAG
1 TAACACCTCAGAATTTGGGATGAGAAGTTTTGAAGTTTGTAGTTAGGGTCAATAAGTAGGTTTAA
6142386 CAATTAAG
66 CAATTAAG
6142394 TA
1 TA
6142396 TCTGTTTCAG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.36
Consensus pattern (73 bp):
TAACACCTCAGAATTTGGGATGAGAAGTTTTGAAGTTTGTAGTTAGGGTCAATAAGTAGGTTTAA
CAATTAAG
Found at i:6143075 original size:30 final size:30
Alignment explanation
Indices: 6143029--6143087 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
6143019 GCCACACGGG
6143029 TGTGTACCGCACACGAGCAGTCTACACAGT
1 TGTGTACCGCACACGAGCAGTCTACACAGT
* * *
6143059 TGTGTATCGCATACGAGCGGTCTACACAG
1 TGTGTACCGCACACGAGCAGTCTACACAG
6143088 CCGTGTGTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.22
Consensus pattern (30 bp):
TGTGTACCGCACACGAGCAGTCTACACAGT
Found at i:6145005 original size:15 final size:15
Alignment explanation
Indices: 6144985--6145015 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6144975 ATATAAATAA
6144985 TAAGTTGAGTTATAG
1 TAAGTTGAGTTATAG
6145000 TAAGTTGAGTTATAG
1 TAAGTTGAGTTATAG
6145015 T
1 T
6145016 GATACTTAGA
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:0.00, G:0.26, T:0.42
Consensus pattern (15 bp):
TAAGTTGAGTTATAG
Found at i:6149450 original size:28 final size:27
Alignment explanation
Indices: 6149397--6149488 Score: 80
Period size: 28 Copynumber: 3.3 Consensus size: 27
6149387 TTTAATTAAT
*
6149397 TTTTTAAAATTTTAAAAATATATAAATTA
1 TTTTTAAAA-ATTAAAAATAT-TAAATTA
* *
6149426 TTTTTAAAAATTACAAATCATTAAA-AA
1 TTTTTAAAAATTAAAAAT-ATTAAATTA
*
6149453 TGTTTTAAAAATTATAAAA-ATTATAATTT
1 T-TTTTAAAAATTA-AAAATATTA-AATTA
6149482 TTTTTAA
1 TTTTTAA
6149489 TTTTAAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
27 6 0.12
28 31 0.60
29 15 0.29
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (27 bp):
TTTTTAAAAATTAAAAATATTAAATTA
Found at i:6152626 original size:20 final size:21
Alignment explanation
Indices: 6152587--6152626 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6152577 CTCTGTCCCT
**
6152587 TTTTTCTTTTCTTTTCCTCTC
1 TTTTTCTTTTCTTTAACTCTC
6152608 TTTTTCTTTTC-TTAACTCT
1 TTTTTCTTTTCTTTAACTCT
6152627 AGTCACCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTCTTTTCTTTAACTCTC
Found at i:6159657 original size:3 final size:3
Alignment explanation
Indices: 6159649--6159674 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6159639 CGACGGCAGT
6159649 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
6159675 CATTGTTTAT
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:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6161042 original size:13 final size:13
Alignment explanation
Indices: 6161026--6161069 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
6161016 ATAATTAATT
*
6161026 TATAAAAAAATAA
1 TATAATAAAATAA
*
6161039 TATATTAAAATAA
1 TATAATAAAATAA
6161052 TATAATAAAAT-A
1 TATAATAAAATAA
6161064 TATAAT
1 TATAAT
6161070 TTTAATCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 7 0.25
13 21 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TATAATAAAATAA
Found at i:6161058 original size:18 final size:17
Alignment explanation
Indices: 6161010--6161058 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
6161000 CATTTTATTA
*
6161010 ATAAATATAAT-TAATTT
1 ATAAA-ATAATATAATAT
6161027 ATAAAA-AA-ATAATAT
1 ATAAAATAATATAATAT
6161042 ATTAAAATAATATAATA
1 A-TAAAATAATATAATA
6161059 AAATATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 8 0.30
16 6 0.22
17 7 0.26
18 6 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAAATAATATAATAT
Found at i:6171198 original size:21 final size:21
Alignment explanation
Indices: 6171172--6171211 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6171162 TTTTCTAAAA
*
6171172 TTAAAA-GTCAAAACCATTAAG
1 TTAAAACG-CAAAACAATTAAG
6171193 TTAAAACGCAAAACAATTA
1 TTAAAACGCAAAACAATTA
6171212 TATTATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.23
Consensus pattern (21 bp):
TTAAAACGCAAAACAATTAAG
Found at i:6172207 original size:18 final size:18
Alignment explanation
Indices: 6172162--6172214 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
6172152 ACCGTTTACA
*
6172162 GTACTATTCATGTATACG
1 GTACTATTCACGTATACG
**
6172180 ACACTATTCACGTATACG
1 GTACTATTCACGTATACG
*
6172198 GTACTGTTCACGTATAC
1 GTACTATTCACGTATAC
6172215 AGTAGTTGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (18 bp):
GTACTATTCACGTATACG
Found at i:6178672 original size:63 final size:63
Alignment explanation
Indices: 6178591--6178782 Score: 384
Period size: 63 Copynumber: 3.0 Consensus size: 63
6178581 TTTATCTTAT
6178591 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
1 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
6178654 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
1 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
6178717 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
1 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
6178780 AAT
1 AAT
6178783 ATTGTAATTT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 129 1.00
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (63 bp):
AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
Found at i:6188237 original size:23 final size:26
Alignment explanation
Indices: 6188190--6188238 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
6188180 TCAATCACAA
6188190 TTTCTCACATTTTCAATTCAATAATT
1 TTTCTCACATTTTCAATTCAATAATT
6188216 TTTC-CAC-TTTTCAA-TCAATAATT
1 TTTCTCACATTTTCAATTCAATAATT
6188239 AATCCACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.39
24 7 0.30
25 3 0.13
26 4 0.17
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTCTCACATTTTCAATTCAATAATT
Done.