Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 34 of 144
Found at i:8703829 original size:24 final size:24
Alignment explanation
Indices: 8703802--8703850 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8703792 ATTATCTCCA
8703802 TATTGTACTTTTCAAATTACTTTC
1 TATTGTACTTTTCAAATTACTTTC
8703826 TATTGTACTTTTCAAATTACTTTC
1 TATTGTACTTTTCAAATTACTTTC
8703850 T
1 T
8703851 CATTAGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.55
Consensus pattern (24 bp):
TATTGTACTTTTCAAATTACTTTC
Found at i:8707522 original size:26 final size:26
Alignment explanation
Indices: 8707478--8707565 Score: 106
Period size: 26 Copynumber: 3.4 Consensus size: 26
8707468 GGTAACATGT
* *
8707478 CACAATGG-TTTTTCACAAGATTAGC
1 CACAAAGGCTTTTCCACAAGATTAGC
* *
8707503 CACAAAGGCTTTTCCACAAGAGTAGT
1 CACAAAGGCTTTTCCACAAGATTAGC
* * *
8707529 CACAAGGGCTTTTCCAGAAGATTAAC
1 CACAAAGGCTTTTCCACAAGATTAGC
8707555 CACAAAGGCTT
1 CACAAAGGCTT
8707566 CCCAAGTAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
25 7 0.13
26 45 0.87
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (26 bp):
CACAAAGGCTTTTCCACAAGATTAGC
Found at i:8708442 original size:15 final size:15
Alignment explanation
Indices: 8708422--8708473 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
8708412 TCAATATGAT
8708422 TTGATTCTAATCAAA
1 TTGATTCTAATCAAA
* * ** *
8708437 TTGATTTCGATTTGAT
1 TTGA-TTCTAATCAAA
8708453 TTGATTCTAATCAAA
1 TTGATTCTAATCAAA
8708468 TTGATT
1 TTGATT
8708474 TAAAGATCCT
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.48
Consensus pattern (15 bp):
TTGATTCTAATCAAA
Found at i:8709426 original size:19 final size:18
Alignment explanation
Indices: 8709402--8709437 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
8709392 CAATAGAATT
8709402 AATTTTAATTTTATTTCAG
1 AATTTTAATTTT-TTTCAG
8709421 AATTTTAATTTTTTTCA
1 AATTTTAATTTTTTTCA
8709438 TTATAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (18 bp):
AATTTTAATTTTTTTCAG
Found at i:8711390 original size:30 final size:29
Alignment explanation
Indices: 8711347--8711422 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 29
8711337 ATCACAGAAC
*
8711347 ATGTGGGGAGTGTCTTACAACCACTTGGAA
1 ATGTGGGG-GTGTCTTACAACCACTTGAAA
*
8711377 ATGTGAGGGGTGTCTTACAACCACTTTAAA
1 ATGTG-GGGGTGTCTTACAACCACTTGAAA
8711407 ATGTGGGGGGTGTCTT
1 ATGT-GGGGGTGTCTT
8711423 GCTAACGTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
30 38 0.90
31 4 0.10
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (29 bp):
ATGTGGGGGTGTCTTACAACCACTTGAAA
Found at i:8714642 original size:19 final size:19
Alignment explanation
Indices: 8714615--8714655 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
8714605 CTACTAAAGA
*
8714615 AATAATATCTCTTAATTAG
1 AATAATATCTCCTAATTAG
*
8714634 AATAGTATCTCCTAATTAG
1 AATAATATCTCCTAATTAG
8714653 AAT
1 AAT
8714656 CTCTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (19 bp):
AATAATATCTCCTAATTAG
Found at i:8726340 original size:695 final size:696
Alignment explanation
Indices: 8724321--8726407 Score: 4140
Period size: 696 Copynumber: 3.0 Consensus size: 696
8724311 TATTAAGAGA
8724321 TATATGATGCCTCGACTACATACTACGAGCCCATTTTTTGTATAGCTATGAACTCAAGCTCTTCA
1 TATATGATGCCTCGACTACATACTACGAGCCCATTTTTTGTATAGCTATGAACTCAAGCTCTTCA
8724386 TTTTTTCTTACTGTTCTTGTTTTGTTTGCTTGAGGACAAGAAAAGACTTAAGTGTGGGGGAGTTT
66 TTTTTTCTTACTGTTCTTGTTTTGTTTGCTTGAGGACAAGAAAAGACTTAAGTGTGGGGGAGTTT
8724451 GATCTGTCGGTTTCATATCTAGCAGATTGAACTATTTTTCACACTTGAAGAGCTTGAAATCAAGT
131 GATCTGTCGGTTTCATATCTAGCAGATTGAACTATTTTTCACACTTGAAGAGCTTGAAATCAAGT
8724516 ATTTTTGTTTTGTTTCTTAGGATTTAGTTTAGTTTTCTTTTATTAAATAAATTGTGTACAAAGTG
196 ATTTTTGTTTTGTTTCTTAGGATTTAGTTTAGTTTTCTTTTATTAAATAAATTGTGTACAAAGTG
8724581 CAAAAAAGTGCTTATTGTTGTCTTTGAGGCTGCTTGAGGCCTAAGGATTAGCTAATAAACTTTGT
261 CAAAAAAGTGCTTATTGTTGTCTTTGAGGCTGCTTGAGGCCTAAGGATTAGCTAATAAACTTTGT
8724646 GTGTCTAGGAAATGTTTAGAAGACGAACAAATAGGAGGTTGATCACTATGTCACGACATAGACTG
326 GTGTCTAGGAAATGTTTAGAAGACGAACAAATAGGAGGTTGATCACTATGTCACGACATAGACTG
*
8724711 ATCTGTGTCATAACAAAGGGACCAAAACTGGAGAATGTAAAAACTGTCTCCTACGTCGCGACGTG
391 ATCTGTGTCACAACAAAGGGACCAAAACTGGAGAATGTAAAAACTGTCTCCTACGTCGCGACGTG
8724776 GGCACGACGTGTCGCAACAACACCTAGAAAATTTACCTGAGAGAACACTAACTACTATGTCGCGA
456 GGCACGACGTGTCGCAACAACACCTAGAAAATTTACCTGAGAGAACACTAACTACTATGTCGCGA
8724841 CATAGGACTTGATATGTTAGGACATCGACCCCTGGACACAGATTTCACATTAAATGAAGGGTGTT
521 CATAGGACTTGATATGTTAGGACATCGACCCCTGGACACAGATTTCACATTAAATGAAGGGTGTT
8724906 TTGGTCTTTACAATGCCATTTAAACACGAGGAACGGTAACTGACTTAGGGTTTAGGAGAAACGAC
586 TTGGTCTTTACAATGCCATTTAAACACGAGGAACGGTAACTGACTTAGGGTTTAGGAGAAACGAC
8724971 CATCCAAAGCTATAAATAGGATCTTTAGCATTAGGGTTTTACACAC
651 CATCCAAAGCTATAAATAGGATCTTTAGCATTAGGGTTTTACACAC
8725017 TATATGATGCCTCGACTACATACTACGAGCCCATTTTTTGTATAGCTATGAACTCAAGCTCTTCA
1 TATATGATGCCTCGACTACATACTACGAGCCCATTTTTTGTATAGCTATGAACTCAAGCTCTTCA
8725082 TTTTTTCTTACTGTTCTTGTTTTGTTTGCTTGAGGACAAGAAAAGACTTAAGTGTGGGGGAGTTT
66 TTTTTTCTTACTGTTCTTGTTTTGTTTGCTTGAGGACAAGAAAAGACTTAAGTGTGGGGGAGTTT
8725147 GATCTGTCGGTTTCATATCTAGCAGATTGAACTATTTTTCACACTTGAAGAGCTTGAAATCAAGT
131 GATCTGTCGGTTTCATATCTAGCAGATTGAACTATTTTTCACACTTGAAGAGCTTGAAATCAAGT
8725212 ATTTTTGTTTTGTTTCTTAGGATTTAGTTTAGTTTTCTTTTATTAAATAAATTGTGTACAAAGTG
196 ATTTTTGTTTTGTTTCTTAGGATTTAGTTTAGTTTTCTTTTATTAAATAAATTGTGTACAAAGTG
8725277 CAAAAAAGTGCTTATTGTTGTCTTTGAGGCTGCTTGAGGCCTAAGGATTAGCTAATAAACTTTGT
261 CAAAAAAGTGCTTATTGTTGTCTTTGAGGCTGCTTGAGGCCTAAGGATTAGCTAATAAACTTTGT
8725342 GTGTCTAGGAAATGTTTAGAAGACGAACAAATAGGAGGTTGATCACTATGTCACGACATAGACTG
326 GTGTCTAGGAAATGTTTAGAAGACGAACAAATAGGAGGTTGATCACTATGTCACGACATAGACTG
8725407 ATCTGTGTCACAACAAAGGGACCAAAACTGGAGAATGTAAAAACTGTCTCCTACGTCGCGACGTG
391 ATCTGTGTCACAACAAAGGGACCAAAACTGGAGAATGTAAAAACTGTCTCCTACGTCGCGACGTG
8725472 GGCACGACGTGTCGCAACAACACCTAGAAAATTTACCTGAGAGAACACTAACTACTATGTCGCGA
456 GGCACGACGTGTCGCAACAACACCTAGAAAATTTACCTGAGAGAACACTAACTACTATGTCGCGA
8725537 CATAGGACTTGATATGTTAGGACATCGACCCCTGGACACAGATTTCACATTAAATGAAGGGTGTT
521 CATAGGACTTGATATGTTAGGACATCGACCCCTGGACACAGATTTCACATTAAATGAAGGGTGTT
8725602 TTGGTCTTTACAATGCCATTTAAACACGAGGAACGGTAACTGACTTAGGGTTTAGGAGAAACGAC
586 TTGGTCTTTACAATGCCATTTAAACACGAGGAACGGTAACTGACTTAGGGTTTAGGAGAAACGAC
8725667 CATCCAAAGCTATAAATAGGATCTTTAGCATTAGGGTTTTACACAC
651 CATCCAAAGCTATAAATAGGATCTTTAGCATTAGGGTTTTACACAC
8725713 TATATGATGCCTCGACTACATACTACGAGCCCATTTTTTGTATAGCTATGAACTCAAGCTCTTCA
1 TATATGATGCCTCGACTACATACTACGAGCCCATTTTTTGTATAGCTATGAACTCAAGCTCTTCA
8725778 TTTTTTCTTACTGTTCTTGTTTTGTTTGCTTGAGGACAAGAAAAGACTTAAGTGTGGGGGAGTTT
66 TTTTTTCTTACTGTTCTTGTTTTGTTTGCTTGAGGACAAGAAAAGACTTAAGTGTGGGGGAGTTT
8725843 GATCTGTCGGTTTCATATCTAGCAGATTGAACTA-TTTTCACACTTGAAGAGCTTGAAATCAAGT
131 GATCTGTCGGTTTCATATCTAGCAGATTGAACTATTTTTCACACTTGAAGAGCTTGAAATCAAGT
8725907 ATTTTTGTTTTGTTTCTTAGGATTTAGTTTAGTTTTCTTTTATTAAATAAATTGTGTACAAAGTG
196 ATTTTTGTTTTGTTTCTTAGGATTTAGTTTAGTTTTCTTTTATTAAATAAATTGTGTACAAAGTG
8725972 CAAAAAAGTGCTTATTGTTGTCTTTGAGGCTGCTTGAGGCCTAAGGATTAGCTAATAAACTTTGT
261 CAAAAAAGTGCTTATTGTTGTCTTTGAGGCTGCTTGAGGCCTAAGGATTAGCTAATAAACTTTGT
8726037 GTGTCTAGGAAATGTTTAGAAGACGAACAAATAGGAGGTTGATCACTATGTCACGACATAGACTG
326 GTGTCTAGGAAATGTTTAGAAGACGAACAAATAGGAGGTTGATCACTATGTCACGACATAGACTG
8726102 ATCTGTGTCACAACAAAGGGACCAAAACTGGAGAATGTAAAAACTGTCTCCTACGTCGCGACGTG
391 ATCTGTGTCACAACAAAGGGACCAAAACTGGAGAATGTAAAAACTGTCTCCTACGTCGCGACGTG
8726167 GGCACGACGTGTCGCAACAACACCTAGAAAATTTACCTGAGAGAACACTAACTACTATGTCGCGA
456 GGCACGACGTGTCGCAACAACACCTAGAAAATTTACCTGAGAGAACACTAACTACTATGTCGCGA
8726232 CATAGGACTTGATATGTTAGGACATCGACCCCTGGACACAGATTTCACATTAAATGAAGGGTGTT
521 CATAGGACTTGATATGTTAGGACATCGACCCCTGGACACAGATTTCACATTAAATGAAGGGTGTT
*
8726297 TTGGTCTTTACAATGCCATTTAAACACGAGGAACAGTAACTGACTTAGGGTTTAGGAGAAACGAC
586 TTGGTCTTTACAATGCCATTTAAACACGAGGAACGGTAACTGACTTAGGGTTTAGGAGAAACGAC
*
8726362 CATTCAAAGCTATAAATAGGATCTTTAGCATTAGGGTTTTACACAC
651 CATCCAAAGCTATAAATAGGATCTTTAGCATTAGGGTTTTACACAC
8726408 CATTCAGTAG
Statistics
Matches: 1388, Mismatches: 3, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
695 529 0.38
696 859 0.62
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (696 bp):
TATATGATGCCTCGACTACATACTACGAGCCCATTTTTTGTATAGCTATGAACTCAAGCTCTTCA
TTTTTTCTTACTGTTCTTGTTTTGTTTGCTTGAGGACAAGAAAAGACTTAAGTGTGGGGGAGTTT
GATCTGTCGGTTTCATATCTAGCAGATTGAACTATTTTTCACACTTGAAGAGCTTGAAATCAAGT
ATTTTTGTTTTGTTTCTTAGGATTTAGTTTAGTTTTCTTTTATTAAATAAATTGTGTACAAAGTG
CAAAAAAGTGCTTATTGTTGTCTTTGAGGCTGCTTGAGGCCTAAGGATTAGCTAATAAACTTTGT
GTGTCTAGGAAATGTTTAGAAGACGAACAAATAGGAGGTTGATCACTATGTCACGACATAGACTG
ATCTGTGTCACAACAAAGGGACCAAAACTGGAGAATGTAAAAACTGTCTCCTACGTCGCGACGTG
GGCACGACGTGTCGCAACAACACCTAGAAAATTTACCTGAGAGAACACTAACTACTATGTCGCGA
CATAGGACTTGATATGTTAGGACATCGACCCCTGGACACAGATTTCACATTAAATGAAGGGTGTT
TTGGTCTTTACAATGCCATTTAAACACGAGGAACGGTAACTGACTTAGGGTTTAGGAGAAACGAC
CATCCAAAGCTATAAATAGGATCTTTAGCATTAGGGTTTTACACAC
Found at i:8727763 original size:19 final size:19
Alignment explanation
Indices: 8727739--8727798 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
8727729 TTACTAAGGA
*
8727739 AATAATGTCTCTTAATTAG
1 AATAATATCTCTTAATTAG
*
8727758 AATAATATCTCTTAATTAA
1 AATAATATCTCTTAATTAG
* *
8727777 AATAATATCCCCTAATTAG
1 AATAATATCTCTTAATTAG
8727796 AAT
1 AAT
8727799 TTCTAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.38
Consensus pattern (19 bp):
AATAATATCTCTTAATTAG
Found at i:8729068 original size:81 final size:81
Alignment explanation
Indices: 8728976--8729144 Score: 268
Period size: 81 Copynumber: 2.1 Consensus size: 81
8728966 TGACTCTTCT
*
8728976 TAAAAATGATAAAATTTTAATTTAATCCTTTAAAAATTACACTTTTACTATCGTAAAAATTACAA
1 TAAAAATGATAAAATTTTAATTTAATCCTTTAAAAATGACACTTTTACTATCGTAAAAATTACAA
*
8729041 TTTAATTTTG-CCCCTC
66 TTTAACTTTGACCCC-C
* * *
8729057 TAAAAATGATAAAATTTTAATTTAATCTTTTAAAAATGGCACTTTTACTATCGTAAAAATTATAA
1 TAAAAATGATAAAATTTTAATTTAATCCTTTAAAAATGACACTTTTACTATCGTAAAAATTACAA
8729122 TTTAACTTTGACCCCC
66 TTTAACTTTGACCCCC
8729138 TACAAAA
1 TA-AAAA
8729145 ATTTTCTAGC
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
81 73 0.90
82 8 0.10
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (81 bp):
TAAAAATGATAAAATTTTAATTTAATCCTTTAAAAATGACACTTTTACTATCGTAAAAATTACAA
TTTAACTTTGACCCCC
Found at i:8731353 original size:18 final size:19
Alignment explanation
Indices: 8731312--8731353 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
8731302 TTTTAATTGA
*
8731312 AAAATTAATTTATCTAATT
1 AAAATTAATTAATCTAATT
*
8731331 -TAATTAATTAAT-TAATT
1 AAAATTAATTAATCTAATT
8731348 AAAATT
1 AAAATT
8731354 TATTTTGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAATTAATTAATCTAATT
Found at i:8734632 original size:30 final size:31
Alignment explanation
Indices: 8734598--8734663 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
8734588 ATTTAGACAC
*
8734598 CAAATTAA-AAAA-ATGATCAAATTCAGATAT
1 CAAATTAAGAAAACATG-TCAAATTCAAATAT
*
8734628 CAAATTAAGAAAACGTGTCAAATTCAAATAT
1 CAAATTAAGAAAACATGTCAAATTCAAATAT
8734659 CAAAT
1 CAAAT
8734664 GGTATGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 8 0.25
31 22 0.69
32 2 0.06
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.26
Consensus pattern (31 bp):
CAAATTAAGAAAACATGTCAAATTCAAATAT
Found at i:8750587 original size:46 final size:46
Alignment explanation
Indices: 8750530--8750645 Score: 137
Period size: 46 Copynumber: 2.6 Consensus size: 46
8750520 AAAACGTTAT
* *
8750530 TTGCACAAATAATGTAGGCAAAGAATACGCATGTAGACAAAATAAC
1 TTGCACAAATAATGTAGGCAAAGAATACGCATGCAGAAAAAATAAC
* * * * *
8750576 TTGCACCAATAATGTAGGTAAAGAATCCGTATGCAGAAAAAATGAC
1 TTGCACAAATAATGTAGGCAAAGAATACGCATGCAGAAAAAATAAC
* *
8750622 TTGCATAAA-AA-ATAGGCAAAGAAT
1 TTGCACAAATAATGTAGGCAAAGAAT
8750646 GTGTGCATTT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 11 0.19
45 2 0.03
46 46 0.78
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (46 bp):
TTGCACAAATAATGTAGGCAAAGAATACGCATGCAGAAAAAATAAC
Found at i:8758263 original size:12 final size:12
Alignment explanation
Indices: 8758248--8758361 Score: 60
Period size: 12 Copynumber: 9.8 Consensus size: 12
8758238 GATTTGATGT
8758248 TGTTTTTGGTAC
1 TGTTTTTGGTAC
*
8758260 TGTTTTTGGT-G
1 TGTTTTTGGTAC
** *
8758271 TAG-CCTTGGTGC
1 T-GTTTTTGGTAC
* *
8758283 TATTTTTGGTGC
1 TGTTTTTGGTAC
* * *
8758295 TG-ATTTGATAT
1 TGTTTTTGGTAC
8758306 TGTTTTTGGTGA-
1 TGTTTTTGGT-AC
8758318 TG-TTTTGGTAC
1 TGTTTTTGGTAC
*
8758329 TGTTTTTGGTGC
1 TGTTTTTGGTAC
*
8758341 T-ATTTTGGTAC
1 TGTTTTTGGTAC
*
8758352 TATTTTTGGT
1 TGTTTTTGGT
8758362 GCTATTTTGG
Statistics
Matches: 76, Mismatches: 18, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
10 1 0.01
11 31 0.41
12 43 0.57
13 1 0.01
ACGTcount: A:0.10, C:0.07, G:0.27, T:0.56
Consensus pattern (12 bp):
TGTTTTTGGTAC
Found at i:8758279 original size:23 final size:24
Alignment explanation
Indices: 8758251--8758378 Score: 126
Period size: 23 Copynumber: 5.6 Consensus size: 24
8758241 TTGATGTTGT
8758251 TTTTGGTACTGTTTTTGGTG-TAG
1 TTTTGGTACTGTTTTTGGTGCTAG
** * *
8758274 CCTTGGTGCTATTTTTGGTGCT-G
1 TTTTGGTACTGTTTTTGGTGCTAG
* * * *
8758297 ATTTGATATTGTTTTTGGTGAT-G
1 TTTTGGTACTGTTTTTGGTGCTAG
8758320 TTTTGGTACTGTTTTTGGTGCTA-
1 TTTTGGTACTGTTTTTGGTGCTAG
*
8758343 TTTTGGTACTATTTTTGGTGCTA-
1 TTTTGGTACTGTTTTTGGTGCTAG
8758366 TTTTGG-A-TGTTTT
1 TTTTGGTACTGTTTT
8758379 GTTGTTGTTT
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
21 5 0.06
22 1 0.01
23 79 0.92
24 1 0.01
ACGTcount: A:0.10, C:0.07, G:0.27, T:0.56
Consensus pattern (24 bp):
TTTTGGTACTGTTTTTGGTGCTAG
Found at i:8758366 original size:12 final size:12
Alignment explanation
Indices: 8758276--8758369 Score: 72
Period size: 12 Copynumber: 8.1 Consensus size: 12
8758266 TGGTGTAGCC
8758276 TTGGTGCTATTT
1 TTGGTGCTATTT
8758288 TTGGTGCTGA--T
1 TTGGTGCT-ATTT
* ** *
8758299 TTGATATTGTTT
1 TTGGTGCTATTT
8758311 TTGGTG--ATGTT
1 TTGGTGCTAT-TT
* *
8758322 TTGGTACTGTTT
1 TTGGTGCTATTT
8758334 TTGGTGCTA-TT
1 TTGGTGCTATTT
*
8758345 TTGGTACTATTT
1 TTGGTGCTATTT
8758357 TTGGTGCTATTT
1 TTGGTGCTATTT
8758369 T
1 T
8758370 GGATGTTTTG
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
10 1 0.02
11 23 0.37
12 36 0.58
13 2 0.03
ACGTcount: A:0.11, C:0.06, G:0.26, T:0.57
Consensus pattern (12 bp):
TTGGTGCTATTT
Found at i:8758623 original size:41 final size:40
Alignment explanation
Indices: 8758549--8758626 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
8758539 TTTTATTGTA
8758549 TTTTCAATTTGTATGTTGTTTTACGAATTGTTTTAATATCG
1 TTTTCAATTTGTATGTTGTTTTAC-AATTGTTTTAATATCG
* *
8758590 TTTTTAATTTGTTTGTTGTTTTA-ATATTCGTTTTAAT
1 TTTTCAATTTGTATGTTGTTTTACA-ATT-GTTTTAAT
8758627 GTTTTTAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 1 0.03
40 3 0.09
41 29 0.88
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (40 bp):
TTTTCAATTTGTATGTTGTTTTACAATTGTTTTAATATCG
Found at i:8758836 original size:10 final size:10
Alignment explanation
Indices: 8758821--8758851 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
8758811 ATTTTATTGA
8758821 AGCCTGGCCC
1 AGCCTGGCCC
8758831 AGCCTGGCCC
1 AGCCTGGCCC
8758841 AGCCTGGCCC
1 AGCCTGGCCC
8758851 A
1 A
8758852 ACCCGACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.13, C:0.48, G:0.29, T:0.10
Consensus pattern (10 bp):
AGCCTGGCCC
Found at i:8761482 original size:21 final size:21
Alignment explanation
Indices: 8761424--8761482 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
8761414 CGAAAATCAT
*
8761424 AACCCTAA-ATCATAAATCTTA
1 AACCCTAATAT-ATAAACCTTA
* *
8761445 AACGCTAATATAAAAACCTTA
1 AACCCTAATATATAAACCTTA
8761466 AACCCCTAATAT-TAAAC
1 AA-CCCTAATATATAAAC
8761483 AAAATCAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.25
Consensus pattern (21 bp):
AACCCTAATATATAAACCTTA
Found at i:8762643 original size:43 final size:42
Alignment explanation
Indices: 8762595--8762677 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
8762585 TAATTTTCAT
*
8762595 ATTATTTTATAATGATTTATAAT-ATTTTTTT-ATTTTTTAAATA
1 ATTA-TTTAT-AT-ATTTATAATAATTTTTTTAATTTTATAAATA
* *
8762638 ATTATTTATATTTTTATTATAATTTTTTTAATTTTATAAA
1 ATTATTTATATATTTATAATAATTTTTTTAATTTTATAAA
8762678 ATCTTAGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
40 7 0.20
41 10 0.29
42 14 0.40
43 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (42 bp):
ATTATTTATATATTTATAATAATTTTTTTAATTTTATAAATA
Found at i:8762659 original size:21 final size:20
Alignment explanation
Indices: 8762610--8762676 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
8762600 TTTATAATGA
*
8762610 TTTATAAT-ATTTTTTTATT
1 TTTATAATAATTTTTATATT
8762629 TTT-TAAATAATTATTTATATT
1 TTTAT-AATAATT-TTTATATT
* * *
8762650 TTTATTATAATTTTTTTAAT
1 TTTATAATAATTTTTATATT
8762670 TTTATAA
1 TTTATAA
8762677 AATCTTAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 1 0.03
19 6 0.15
20 15 0.38
21 16 0.41
22 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTATAATAATTTTTATATT
Found at i:8765389 original size:19 final size:19
Alignment explanation
Indices: 8765365--8765408 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
8765355 AGAAAATATG
*
8765365 TGCAAGCGTACACTGTCGA
1 TGCAAGCATACACTGTCGA
*
8765384 TGCAAGTATACACTGTCGA
1 TGCAAGCATACACTGTCGA
8765403 TGCAAG
1 TGCAAG
8765409 TATAGTAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (19 bp):
TGCAAGCATACACTGTCGA
Found at i:8765409 original size:19 final size:19
Alignment explanation
Indices: 8765373--8765412 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
8765363 TGTGCAAGCG
8765373 TACACTGTCGATGCAAGTA
1 TACACTGTCGATGCAAGTA
8765392 TACACTGTCGATGCAAGTA
1 TACACTGTCGATGCAAGTA
8765411 TA
1 TA
8765413 GTAGATAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (19 bp):
TACACTGTCGATGCAAGTA
Found at i:8766618 original size:20 final size:21
Alignment explanation
Indices: 8766580--8766619 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8766570 TAAACCTAGC
*
8766580 ATTACTGAGTTAGAAAATGCA
1 ATTACTAAGTTAGAAAATGCA
8766601 ATTACTAAGTTA-AAAATGC
1 ATTACTAAGTTAGAAAATGC
8766620 TAAAAATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (21 bp):
ATTACTAAGTTAGAAAATGCA
Found at i:8766634 original size:13 final size:13
Alignment explanation
Indices: 8766616--8766640 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8766606 TAAGTTAAAA
8766616 ATGCTAAAAATGC
1 ATGCTAAAAATGC
8766629 ATGCTAAAAATG
1 ATGCTAAAAATG
8766641 ATAAAATGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGCTAAAAATGC
Found at i:8767932 original size:12 final size:13
Alignment explanation
Indices: 8767891--8767943 Score: 56
Period size: 12 Copynumber: 4.1 Consensus size: 13
8767881 ATTCCTTTTT
8767891 TTCTTCTTTC-CC
1 TTCTTCTTTCTCC
* *
8767903 TTCCTCTTCTCATTC
1 TTCTTCTT-TC-TCC
8767918 TTCTTCTTT-TCC
1 TTCTTCTTTCTCC
8767930 TTCTTCTTTCTCC
1 TTCTTCTTTCTCC
8767943 T
1 T
8767944 CATCAGTCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
12 18 0.55
13 6 0.18
14 1 0.03
15 8 0.24
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (13 bp):
TTCTTCTTTCTCC
Found at i:8775416 original size:5 final size:5
Alignment explanation
Indices: 8775408--8775436 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
8775398 AAATTAAATG
8775408 AATCA AATCA AATCA AATCA AATCA AATC
1 AATCA AATCA AATCA AATCA AATCA AATC
8775437 TATAACCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (5 bp):
AATCA
Found at i:8776363 original size:6 final size:7
Alignment explanation
Indices: 8776342--8776367 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8776332 CACAAAATAG
8776342 AACTAAA
1 AACTAAA
8776349 AACTAAA
1 AACTAAA
8776356 AACTAAA
1 AACTAAA
8776363 AACTA
1 AACTA
8776368 CTAAATGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (7 bp):
AACTAAA
Found at i:8779440 original size:17 final size:17
Alignment explanation
Indices: 8779420--8779460 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
8779410 AACTAAACAT
*
8779420 ATTAATAAAATAAATTA
1 ATTAATAAAATAAAATA
8779437 ATT-ATAAAATAAAATA
1 ATTAATAAAATAAAATA
*
8779453 AATAATAA
1 ATTAATAA
8779461 GAAACTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTAATAAAATAAAATA
Found at i:8779448 original size:21 final size:21
Alignment explanation
Indices: 8779423--8779482 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
8779413 TAAACATATT
*
8779423 AATAAAATAAATTAATTATAA
1 AATAAAATAAATTAATTAGAA
*
8779444 AATAAAATAAA-TAATAAGAA
1 AATAAAATAAATTAATTAGAA
*
8779464 ACTAAAA-AAATTAGATTAG
1 AATAAAATAAATTA-ATTAG
8779483 GGTATAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.09
20 15 0.45
21 15 0.45
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (21 bp):
AATAAAATAAATTAATTAGAA
Found at i:8783186 original size:21 final size:20
Alignment explanation
Indices: 8783148--8783186 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
8783138 AGGTAATGTG
*
8783148 GTGAGCTTAACAAGCTCAAT
1 GTGAGCTAAACAAGCTCAAT
*
8783168 GTGAGACTAAACAATCTCA
1 GTGAG-CTAAACAAGCTCA
8783187 TACATAGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (20 bp):
GTGAGCTAAACAAGCTCAAT
Found at i:8783694 original size:43 final size:43
Alignment explanation
Indices: 8783633--8783796 Score: 199
Period size: 43 Copynumber: 3.8 Consensus size: 43
8783623 CTCTCAATCA
*
8783633 ATCACATA-TTATCAATATTAGGAAACAGTGTTCCATTCATTCG
1 ATCACATACTT-TCAATATTAGGAAATAGTGTTCCATTCATTCG
* ** **
8783676 ATCACATAGTTTCAATATTAGGAAATAGTGTTCCACACAACCG
1 ATCACATACTTTCAATATTAGGAAATAGTGTTCCATTCATTCG
*
8783719 ATCACATACTTTCAATATTAGGAAATAATGTTCC-TCTCATTC-
1 ATCACATACTTTCAATATTAGGAAATAGTGTTCCAT-TCATTCG
*
8783761 AGTCACATACTTACAATATTTAGGAAATAGTGTTCC
1 A-TCACATACTTTCAATA-TTAGGAAATAGTGTTCC
8783797 TCTCAATGAC
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 85 0.82
44 18 0.17
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.34
Consensus pattern (43 bp):
ATCACATACTTTCAATATTAGGAAATAGTGTTCCATTCATTCG
Found at i:8783778 original size:86 final size:87
Alignment explanation
Indices: 8783633--8783796 Score: 237
Period size: 86 Copynumber: 1.9 Consensus size: 87
8783623 CTCTCAATCA
* * *
8783633 ATCACATATTATCAATATTAGGAAACAGTGTTCCATTCATTCGATCACATAGTTTCAATA-TTAG
1 ATCACATATTATCAATATTAGGAAACAATGTTCCATTCATTCGATCACATACTTACAATATTTAG
8783697 GAAATAGTGTTCCACACAACCG
66 GAAATAGTGTTCCACACAACCG
*
8783719 ATCACATACTT-TCAATATTAGGAAATAATGTTCC-TCTCATTC-AGTCACATACTTACAATATT
1 ATCACATA-TTATCAATATTAGGAAACAATGTTCCAT-TCATTCGA-TCACATACTTACAATATT
8783781 TAGGAAATAGTGTTCC
63 TAGGAAATAGTGTTCC
8783797 TCTCAATGAC
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
85 2 0.03
86 49 0.70
87 19 0.27
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.34
Consensus pattern (87 bp):
ATCACATATTATCAATATTAGGAAACAATGTTCCATTCATTCGATCACATACTTACAATATTTAG
GAAATAGTGTTCCACACAACCG
Found at i:8785611 original size:21 final size:21
Alignment explanation
Indices: 8785587--8785642 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
8785577 CTAGAGTTTT
*
8785587 TTGTATCGATAGAA-GAGTCAC
1 TTGTATCGGTAGAACGA-TCAC
*
8785608 TTGTATCGGTAGAACTATCAC
1 TTGTATCGGTAGAACGATCAC
8785629 TTGTATCGGTAGAA
1 TTGTATCGGTAGAA
8785643 ATTTGCACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (21 bp):
TTGTATCGGTAGAACGATCAC
Found at i:8791496 original size:18 final size:18
Alignment explanation
Indices: 8791473--8791509 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8791463 CTTTAATGCA
8791473 TGACTTATACTGGTTGTG
1 TGACTTATACTGGTTGTG
8791491 TGACTTATACTGGTTGTG
1 TGACTTATACTGGTTGTG
8791509 T
1 T
8791510 TTGAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.27, T:0.46
Consensus pattern (18 bp):
TGACTTATACTGGTTGTG
Found at i:8796100 original size:22 final size:22
Alignment explanation
Indices: 8796057--8796100 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8796047 AACTAAGTAT
* *
8796057 AAATAGGTTTGATTAAGGTTAA
1 AAATAGGTTTAATTAAGCTTAA
8796079 AAATAGG-TTAATTAAAGCTTAA
1 AAATAGGTTTAATT-AAGCTTAA
8796101 TGATAAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.34
Consensus pattern (22 bp):
AAATAGGTTTAATTAAGCTTAA
Found at i:8804749 original size:17 final size:17
Alignment explanation
Indices: 8804727--8804759 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8804717 TTTGAAAGCA
8804727 TAAAATA-AAAGGTAAAC
1 TAAAATAGAAA-GTAAAC
8804744 TAAAATAGAAAGTAAA
1 TAAAATAGAAAGTAAA
8804760 GGAAACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.67, C:0.03, G:0.12, T:0.18
Consensus pattern (17 bp):
TAAAATAGAAAGTAAAC
Found at i:8805323 original size:14 final size:14
Alignment explanation
Indices: 8805304--8805337 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
8805294 CTTGTTTCAC
8805304 AACTAAAAATTAAA
1 AACTAAAAATTAAA
*
8805318 AACT-AAAATTGAA
1 AACTAAAAATTAAA
8805331 AACTAAA
1 AACTAAA
8805338 GCCTAAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.68, C:0.09, G:0.03, T:0.21
Consensus pattern (14 bp):
AACTAAAAATTAAA
Found at i:8810702 original size:35 final size:34
Alignment explanation
Indices: 8810654--8810722 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
8810644 ATGGGATCTG
* * * *
8810654 TTATACTGTATGTGAGCATATGTTACTATGCAAAC
1 TTATACTGCATGTGAACAAATATTA-TATGCAAAC
*
8810689 TTATGCTGCATGTGAACAAATATTATATGCAAAC
1 TTATACTGCATGTGAACAAATATTATATGCAAAC
8810723 CTTGTTATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 9 0.31
35 20 0.69
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (34 bp):
TTATACTGCATGTGAACAAATATTATATGCAAAC
Found at i:8811260 original size:31 final size:31
Alignment explanation
Indices: 8811222--8811304 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
8811212 ATTCGATAAC
* * *
8811222 CCATCATTGTTGGGCAATCCGAGGTGTTAGG
1 CCATCATTGTCGAGCAATCCGAGGTGGTAGG
* *
8811253 CCATCATTGTCGAGCAATTCGGGGTGGTAGG
1 CCATCATTGTCGAGCAATCCGAGGTGGTAGG
* *
8811284 TCATCATTATCGAGCAATCCG
1 CCATCATTGTCGAGCAATCCG
8811305 TGATGATAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (31 bp):
CCATCATTGTCGAGCAATCCGAGGTGGTAGG
Found at i:8811507 original size:15 final size:15
Alignment explanation
Indices: 8811489--8811524 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8811479 TATTTATCTA
8811489 CGAACTGATTGTATG
1 CGAACTGATTGTATG
*
8811504 CGAACTGGTTGTATG
1 CGAACTGATTGTATG
*
8811519 CAAACT
1 CGAACT
8811525 ATTTATGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (15 bp):
CGAACTGATTGTATG
Found at i:8818588 original size:2 final size:2
Alignment explanation
Indices: 8818581--8818617 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8818571 TAAGATTCCA
8818581 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8818618 TCAGATTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:8822251 original size:2 final size:2
Alignment explanation
Indices: 8822244--8822271 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8822234 AGTACTCTTT
8822244 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8822272 AACCCTCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8824158 original size:2 final size:2
Alignment explanation
Indices: 8824151--8824179 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8824141 CCCCAATTTA
8824151 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8824180 ATCATCCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8824777 original size:6 final size:6
Alignment explanation
Indices: 8824766--8824801 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
8824756 TGAATACAAT
8824766 ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA
1 ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA
8824802 TAATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATTTGA
Found at i:8841457 original size:23 final size:23
Alignment explanation
Indices: 8841431--8841486 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
8841421 AATTAATAAT
*
8841431 AAAATAAATTAAT-TAAACTCCC
1 AAAATAAATTAATCAAAACTCCC
* *
8841453 AAAAATAAAAT-ATCAAAAGTCCC
1 -AAAATAAATTAATCAAAACTCCC
8841476 AAAATAAATTA
1 AAAATAAATTA
8841487 TATTTACAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAATAAATTAATCAAAACTCCC
Found at i:8842680 original size:7 final size:7
Alignment explanation
Indices: 8842668--8842730 Score: 74
Period size: 7 Copynumber: 9.1 Consensus size: 7
8842658 TTTCGAAAAA
8842668 GTCAACG
1 GTCAACG
8842675 GTCAACG
1 GTCAACG
*
8842682 ATCAACG
1 GTCAACG
*
8842689 ATCAACG
1 GTCAACG
* *
8842696 ATCAA-A
1 GTCAACG
8842702 GTCAACG
1 GTCAACG
8842709 GTCAACG
1 GTCAACG
*
8842716 GTCAAAG
1 GTCAACG
8842723 GTCAACG
1 GTCAACG
8842730 G
1 G
8842731 CCGGTCAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
6 4 0.08
7 45 0.92
ACGTcount: A:0.37, C:0.25, G:0.24, T:0.14
Consensus pattern (7 bp):
GTCAACG
Found at i:8842708 original size:34 final size:34
Alignment explanation
Indices: 8842665--8842729 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
8842655 GTTTTTCGAA
*
8842665 AAAGTCAACGGTCAACGATCAACGATCAACGATC
1 AAAGTCAACGGTCAACGATCAAAGATCAACGATC
* *
8842699 AAAGTCAACGGTCAACGGTCAAAGGTCAACG
1 AAAGTCAACGGTCAACGATCAAAGATCAACG
8842730 GCCGGTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.40, C:0.25, G:0.22, T:0.14
Consensus pattern (34 bp):
AAAGTCAACGGTCAACGATCAAAGATCAACGATC
Found at i:8842727 original size:27 final size:27
Alignment explanation
Indices: 8842675--8842727 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
8842665 AAAGTCAACG
*
8842675 GTCAACGATCAACGATCAACGATCAAA
1 GTCAACGATCAACGATCAAAGATCAAA
* * *
8842702 GTCAACGGTCAACGGTCAAAGGTCAA
1 GTCAACGATCAACGATCAAAGATCAA
8842728 CGGCCGGTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (27 bp):
GTCAACGATCAACGATCAAAGATCAAA
Found at i:8848576 original size:23 final size:23
Alignment explanation
Indices: 8848550--8848605 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
8848540 AATTAATAAT
*
8848550 AAAATAAATTA-ATTAAACTCCCA
1 AAAATAAATTAGA-AAAACTCCCA
* *
8848573 AAAATAAAATAGAAAAAGTCCCA
1 AAAATAAATTAGAAAAACTCCCA
8848596 AAAA-AAATTA
1 AAAATAAATTA
8848606 TATTTACAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.18
23 22 0.79
24 1 0.04
ACGTcount: A:0.64, C:0.12, G:0.04, T:0.20
Consensus pattern (23 bp):
AAAATAAATTAGAAAAACTCCCA
Found at i:8849221 original size:13 final size:13
Alignment explanation
Indices: 8849187--8849230 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
8849177 ATTTTTCGAA
*
8849187 AAAGTAAACGGTC
1 AAAGTCAACGGTC
*
8849200 AACAGTCAACGGTT
1 AA-AGTCAACGGTC
8849214 AAAGTCAACGGTC
1 AAAGTCAACGGTC
8849227 AAAG
1 AAAG
8849231 GCCGATCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (13 bp):
AAAGTCAACGGTC
Found at i:8865361 original size:16 final size:16
Alignment explanation
Indices: 8865323--8865360 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8865313 TTGAAAATAT
* *
8865323 TTATATTATATTTTAA
1 TTATTTTATATTGTAA
8865339 TTATTTTATATTGT-A
1 TTATTTTATATTGTAA
8865354 TTATTTT
1 TTATTTT
8865361 TTATAGCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATTTTATATTGTAA
Found at i:8867357 original size:21 final size:21
Alignment explanation
Indices: 8867333--8867387 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 21
8867323 ATTTTTATAC
*
8867333 CTTAATTTCTAATAATTTGGT
1 CTTAATTTCTAATAAATTGGT
8867354 CTTAATTTCTAATAAATTGGT
1 CTTAATTTCTAATAAATTGGT
8867375 CTTTATATTTCTA
1 C-TTA-ATTTCTA
8867388 TAGTGCTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 21 0.68
22 3 0.10
23 7 0.23
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (21 bp):
CTTAATTTCTAATAAATTGGT
Found at i:8869078 original size:13 final size:12
Alignment explanation
Indices: 8869036--8869069 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
8869026 GGTTGATGGC
8869036 AAAAAATAAAAT
1 AAAAAATAAAAT
8869048 AAAATAATAAAACT
1 AAAA-AATAAAA-T
8869062 AAAAAATA
1 AAAAAATA
8869070 CAATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 11 0.55
14 5 0.25
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:8871192 original size:21 final size:21
Alignment explanation
Indices: 8871168--8871210 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8871158 TTTTGGGCTC
8871168 TCTTCCCTCATTGATCTTTGA
1 TCTTCCCTCATTGATCTTTGA
** *
8871189 TCTTTTCTCATTGGTCTTTGA
1 TCTTCCCTCATTGATCTTTGA
8871210 T
1 T
8871211 TTTCATAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.23, G:0.12, T:0.53
Consensus pattern (21 bp):
TCTTCCCTCATTGATCTTTGA
Found at i:8871384 original size:24 final size:23
Alignment explanation
Indices: 8871355--8871416 Score: 97
Period size: 24 Copynumber: 2.7 Consensus size: 23
8871345 TCAATTCAAA
*
8871355 TTTTATTATTTAATTGAAAATATT
1 TTTTATTATTTAATTAAAAATA-T
8871379 TTTTATTATTTAATTAAAAATAT
1 TTTTATTATTTAATTAAAAATAT
*
8871402 TTGTATTATTTAATT
1 TTTTATTATTTAATT
8871417 TGAGAGTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 15 0.42
24 21 0.58
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (23 bp):
TTTTATTATTTAATTAAAAATAT
Found at i:8871574 original size:7 final size:7
Alignment explanation
Indices: 8871562--8871586 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8871552 AGTAAATGGC
8871562 GGAAAAG
1 GGAAAAG
8871569 GGAAAAG
1 GGAAAAG
8871576 GGAAAAG
1 GGAAAAG
8871583 GGAA
1 GGAA
8871587 TAGTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (7 bp):
GGAAAAG
Found at i:8873190 original size:144 final size:142
Alignment explanation
Indices: 8872993--8873278 Score: 545
Period size: 144 Copynumber: 2.0 Consensus size: 142
8872983 GTTTTGAACA
*
8872993 ATAAATTTTATTATCATCATGTTATTAGGCGACATTACCGCTAAAAGTACAACCATCATTCATCA
1 ATAAATTTTATTATCATCATGTTATTAGGCGACATCACCGCTAAAAGTACAACCATCATTCATCA
8873058 ATTATTTCTACTAAGCAAAAAAAAAATATTTCTAATGGGTGTCGTTACCTTAATTGGTGACACCA
66 ATTATTTCTACTAAGC-AAAAAAAAATATTTCTAATGGGTGTCGTTACCTTAATTGGTGACACCA
8873123 ATTTTTTTTTAATT
130 A-TTTTTTTTAATT
8873137 ATAAATTTTATTATCATCATGTTATTAGGCGACATCACCGCTAAAAGTACAACCATCATTCATCA
1 ATAAATTTTATTATCATCATGTTATTAGGCGACATCACCGCTAAAAGTACAACCATCATTCATCA
8873202 ATTATTTCTACTAAGCAAAAAAAAATATTTCTAATGGGTGTCGTTACCTTAATTGGTGACACCAA
66 ATTATTTCTACTAAGCAAAAAAAAATATTTCTAATGGGTGTCGTTACCTTAATTGGTGACACCAA
8873267 TTTTTTTTAATT
131 TTTTTTTTAATT
8873279 CATACCCTCA
Statistics
Matches: 141, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
142 12 0.09
143 49 0.35
144 80 0.57
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (142 bp):
ATAAATTTTATTATCATCATGTTATTAGGCGACATCACCGCTAAAAGTACAACCATCATTCATCA
ATTATTTCTACTAAGCAAAAAAAAATATTTCTAATGGGTGTCGTTACCTTAATTGGTGACACCAA
TTTTTTTTAATT
Found at i:8879790 original size:18 final size:18
Alignment explanation
Indices: 8879753--8879790 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8879743 GCAACTGGAC
**
8879753 CAGATGCGATCACATGAT
1 CAGATGCGATCACAAAAT
8879771 CAGATGCGATCACAAAAT
1 CAGATGCGATCACAAAAT
8879789 CA
1 CA
8879791 AATATAGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (18 bp):
CAGATGCGATCACAAAAT
Found at i:8880289 original size:40 final size:40
Alignment explanation
Indices: 8880232--8880315 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 40
8880222 GAAATAAATG
*
8880232 AAGAGGAGCCACCTGTAGTATGCCCACAATTTGACCAACA
1 AAGAGGAGCCACCTGTAGTATGCCCACAATTCGACCAACA
* *
8880272 AAGAGGAGCCACTTGTAGTATGCCCACAATTCGACCAATA
1 AAGAGGAGCCACCTGTAGTATGCCCACAATTCGACCAACA
8880312 AAGA
1 AAGA
8880316 TGTCGACGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (40 bp):
AAGAGGAGCCACCTGTAGTATGCCCACAATTCGACCAACA
Found at i:8882688 original size:59 final size:59
Alignment explanation
Indices: 8882625--8883056 Score: 618
Period size: 59 Copynumber: 7.4 Consensus size: 59
8882615 TAACTTCCGA
* * *
8882625 GGGTAAAATGGAAATTTTTGGTGAAATCGGGGTTAAAAATGAGATTTTGGAAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAG
** *
8882684 GGGTAAAATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGGATTTTAGAAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAG
* * *
8882743 GGGTAAAATGATAATTTTTGGTAAAATCGGGGTT-AAAATGGGATTTTGGAAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAG
* * *
8882801 GGGTAAAATGGTAATTTTAT-GTAAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTTG
1 GGGTAAAATGGTAATTTT-TGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAG
* * *
8882860 GGCTAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGGATTTTTGAAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAG
* * *
8882918 GGGTAAAATGGTAGTTTTTGGTGAAATCGGGGTTAAAAATGAGATTTTGGAAAGTTCAG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAG
* * * * *
8882977 TGGTCAAATGGTAATTTTTGGTGAAATTGGGGTTAGAAATGGGATTTTGGAAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAG
*
8883036 GGGTCAAATGGTAATTTTTGG
1 GGGTAAAATGGTAATTTTTGG
8883057 ACAGTTCAAG
Statistics
Matches: 335, Mismatches: 34, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
57 1 0.00
58 103 0.31
59 231 0.69
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.34
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAG
Found at i:8882813 original size:117 final size:118
Alignment explanation
Indices: 8882625--8883056 Score: 629
Period size: 117 Copynumber: 3.7 Consensus size: 118
8882615 TAACTTCCGA
*
8882625 GGGTAAAATGGA-AATTTTTGGTGAAATCGGGGTTAAAAATGAGATTTTGGAAAGTTTGGGGGTA
1 GGGTAAAAT-GATAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTA
* *
8882689 AAATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGGATTTTAGAAAGTTTAG
65 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAG
*
8882743 GGGTAAAATGATAATTTTTGGTAAAATCGGGGTT-AAAATGGGATTTTGGAAAGTTTGGGGGTAA
1 GGGTAAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAA
* *
8882807 AATGGTAATTTTAT-GTAAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTTG
66 AATGGTAATTTT-TGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAG
* * * * *
8882860 GGCTAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGGATTTTTGAAAGTTTAGGGGTAA
1 GGGTAAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAA
* * * *
8882924 AATGGTAGTTTTTGGTGAAATCGGGGTTAAAAATGAGATTTTGGAAAGTTCAG
66 AATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAG
* * * * * *
8882977 TGGTCAAATGGTAATTTTTGGTGAAATTGGGGTTAGAAATGGGATTTTGGAAAGTTTGGGGGTCA
1 GGGTAAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAA
8883042 AATGGTAATTTTTGG
66 AATGGTAATTTTTGG
8883057 ACAGTTCAAG
Statistics
Matches: 281, Mismatches: 28, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
116 18 0.06
117 174 0.62
118 89 0.32
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.34
Consensus pattern (118 bp):
GGGTAAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAA
AATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAG
Found at i:8882966 original size:176 final size:175
Alignment explanation
Indices: 8882625--8883053 Score: 653
Period size: 176 Copynumber: 2.4 Consensus size: 175
8882615 TAACTTCCGA
* *
8882625 GGGTAAAATGGAAATTTTTGGTGAAATCGGGGTTAAAAATGAGATTTTGGAAAGTTTGGGGGTAA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAA
8882690 AATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGGATTTTAGAAAGTTTAGGGGTAAAATGAT
66 AATGGTAA-TTTTGGTGAAATCAAGGTTAAAAATGGGATTTTAGAAAGTTTAGGGGTAAAATGAT
* **
8882755 AATTTTTGGTAAAATCGGGGTTAAAATGGGATTTTGGAAAGTTTGG
130 AATTTTTGGTAAAATCGGGGTTAAAATGAGATTTTGGAAAGTTCAG
* * * *
8882801 GGGTAAAATGGTAATTTTAT-GTAAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTTGGGCTA
1 GGGTAAAATGGTAATTTT-TGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTA
* * *
8882865 AAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTTGAAAGTTTAGGGGTAAAATGGT
65 AAATGGTAATTTTGGTGAAATCAAGGTTAAAAATGGGATTTTAGAAAGTTTAGGGGTAAAATGAT
* *
8882930 AGTTTTTGGTGAAATCGGGGTTAAAAATGAGATTTTGGAAAGTTCAG
130 AATTTTTGGTAAAATCGGGGTT-AAAATGAGATTTTGGAAAGTTCAG
* * * * *
8882977 TGGTCAAATGGTAATTTTTGGTGAAATTGGGGTTAGAAATGGGATTTTGGAAAGTTTGGGGGTCA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAA
8883042 AATGGTAATTTT
66 AATGGTAATTTT
8883054 TGGACAGTTC
Statistics
Matches: 227, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
175 74 0.33
176 152 0.67
177 1 0.00
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.34
Consensus pattern (175 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAA
AATGGTAATTTTGGTGAAATCAAGGTTAAAAATGGGATTTTAGAAAGTTTAGGGGTAAAATGATA
ATTTTTGGTAAAATCGGGGTTAAAATGAGATTTTGGAAAGTTCAG
Found at i:8883052 original size:29 final size:30
Alignment explanation
Indices: 8882962--8883062 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 30
8882952 AAAAATGAGA
** *
8882962 TTTTGGAAAGTTCAGTGGTCAAATGGTAAT
1 TTTTGGAAAGTTTGGGGGTCAAATGGTAAT
* * *
8882992 TTTTGGTGAAA--TTGGGGTTAGAAATGG-GA-
1 TTTT-G-GAAAGTTTGGGGGT-CAAATGGTAAT
8883021 TTTTGGAAAGTTTGGGGGTCAAATGGTAAT
1 TTTTGGAAAGTTTGGGGGTCAAATGGTAAT
*
8883051 TTTTGGACAGTT
1 TTTTGGAAAGTT
8883063 CAAGGACCTA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
27 4 0.07
28 7 0.13
29 12 0.22
30 20 0.37
31 7 0.13
32 4 0.07
ACGTcount: A:0.27, C:0.04, G:0.32, T:0.38
Consensus pattern (30 bp):
TTTTGGAAAGTTTGGGGGTCAAATGGTAAT
Found at i:8884922 original size:17 final size:17
Alignment explanation
Indices: 8884900--8884965 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
8884890 CATTTAATTT
8884900 TAAATTTAAATTTATAA
1 TAAATTTAAATTTATAA
8884917 TAAATTTAAATTT-T-A
1 TAAATTTAAATTTATAA
* *
8884932 TGCAAATTTAAATTCAAAA
1 T--AAATTTAAATTTATAA
*
8884951 TAAATCTAAATTTAT
1 TAAATTTAAATTTAT
8884966 CTCACTAGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
15 2 0.05
16 1 0.03
17 35 0.88
19 2 0.05
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (17 bp):
TAAATTTAAATTTATAA
Found at i:8897708 original size:17 final size:17
Alignment explanation
Indices: 8897686--8897722 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8897676 ATACAAATCT
*
8897686 AAATCCATTTCCAACCC
1 AAATCCATTTACAACCC
*
8897703 AAATCCCTTTACAACCC
1 AAATCCATTTACAACCC
8897720 AAA
1 AAA
8897723 CCAAATTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.22
Consensus pattern (17 bp):
AAATCCATTTACAACCC
Found at i:8906113 original size:13 final size:13
Alignment explanation
Indices: 8906084--8906133 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 13
8906074 TCAGTAAATA
8906084 TTTTAAAATATAATT
1 TTTTAAAAT-T-ATT
8906099 TTTT-AAATTATT
1 TTTTAAAATTATT
8906111 TTTTAAAATTA--
1 TTTTAAAATTATT
8906122 TTTTAAAATTAT
1 TTTTAAAATTAT
8906134 AATCATCATC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
11 11 0.33
12 7 0.21
13 7 0.21
14 4 0.12
15 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTTAAAATTATT
Found at i:8906125 original size:11 final size:11
Alignment explanation
Indices: 8906082--8906133 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 11
8906072 CGTCAGTAAA
8906082 TATTTTAAAAT
1 TATTTTAAAAT
*
8906093 ATAATTTTTTAAAT
1 -T-A-TTTTAAAAT
8906107 TATTTTTTAAAAT
1 TA--TTTTAAAAT
8906120 TATTTTAAAAT
1 TATTTTAAAAT
8906131 TAT
1 TAT
8906134 AATCATCATC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
11 12 0.34
12 2 0.06
13 13 0.37
14 8 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTTTAAAAT
Found at i:8907061 original size:25 final size:25
Alignment explanation
Indices: 8907028--8907077 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
8907018 ATTATTTTAT
* *
8907028 TATATAAATA-ATTTTAAAATATTA
1 TATATAAATACACTTAAAAATATTA
8907052 TATATCAAATACACTTAAAAATATTA
1 TATAT-AAATACACTTAAAAATATTA
8907078 AAACAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 5 0.23
26 12 0.55
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (25 bp):
TATATAAATACACTTAAAAATATTA
Found at i:8907085 original size:12 final size:12
Alignment explanation
Indices: 8907070--8907095 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8907060 ATACACTTAA
8907070 AAATATTAAAAC
1 AAATATTAAAAC
8907082 AAATATTAAAAC
1 AAATATTAAAAC
8907094 AA
1 AA
8907096 CAAACAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:8907988 original size:29 final size:28
Alignment explanation
Indices: 8907919--8908017 Score: 119
Period size: 28 Copynumber: 3.4 Consensus size: 28
8907909 ATTAAAATTA
*
8907919 TTTAATAATTTTATTATTTCAAAAAAATAAT
1 TTTAATAA-TTTA-TATTT-TAAAAAATAAT
*
8907950 TTTAATAATTTGATATTTTTAAAAATAA-
1 TTTAATAATTT-ATATTTTAAAAAATAAT
* *
8907978 TTTAAAAAATTATATTTTAAAAAATAAT
1 TTTAATAATTTATATTTTAAAAAATAAT
8908006 TTTAATAATTTA
1 TTTAATAATTTA
8908018 AAATATTTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
27 15 0.25
28 19 0.32
29 8 0.14
30 8 0.14
31 9 0.15
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TTTAATAATTTATATTTTAAAAAATAAT
Found at i:8908015 original size:27 final size:28
Alignment explanation
Indices: 8907940--8908015 Score: 109
Period size: 27 Copynumber: 2.7 Consensus size: 28
8907930 TATTATTTCA
8907940 AAAAAATAATTTTAATAATTTGATATTTT
1 AAAAAATAATTTTAATAA-TTGATATTTT
* * *
8907969 TAAAAATAATTTAAAAAATT-ATATTTT
1 AAAAAATAATTTTAATAATTGATATTTT
8907996 AAAAAATAATTTTAATAATT
1 AAAAAATAATTTTAATAATT
8908016 TAAAATATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 24 0.59
28 2 0.05
29 15 0.37
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (28 bp):
AAAAAATAATTTTAATAATTGATATTTT
Found at i:8908361 original size:22 final size:22
Alignment explanation
Indices: 8908318--8908361 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8908308 AAAATAGTGA
* *
8908318 TTTTGTTTTAAAAAAGAGAATT
1 TTTTATTTTAAAAAAGAAAATT
8908340 TTTTATTTTGAAAAAA-AAAATT
1 TTTTATTTT-AAAAAAGAAAATT
8908362 CCAACCATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (22 bp):
TTTTATTTTAAAAAAGAAAATT
Found at i:8916941 original size:4 final size:4
Alignment explanation
Indices: 8916932--8916974 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
8916922 GTTCCCTAAT
* * *
8916932 TTCA TTCA TTCA TTCC TTCA TTCA TCCA TTCA TTCA CTCA TTC
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTC
8916975 GCTCATTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.21, C:0.33, G:0.00, T:0.47
Consensus pattern (4 bp):
TTCA
Found at i:8917819 original size:18 final size:18
Alignment explanation
Indices: 8917778--8917820 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
8917768 GGTTGTATGG
8917778 TGCTTCTTCTTCCTTCTCT
1 TGCTT-TTCTTCCTTCTCT
8917797 T-CTTTTCTTCCTT-TCT
1 TGCTTTTCTTCCTTCTCT
8917813 ATGCTTTT
1 -TGCTTTT
8917821 TGTCCTTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
18 8 0.36
19 1 0.05
ACGTcount: A:0.02, C:0.30, G:0.05, T:0.63
Consensus pattern (18 bp):
TGCTTTTCTTCCTTCTCT
Found at i:8919919 original size:22 final size:22
Alignment explanation
Indices: 8919894--8919937 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
8919884 AATGAGAAAT
* *
8919894 AAAACAAACTTAAACAAAATTA
1 AAAACAAAATAAAACAAAATTA
* *
8919916 AAAATAAAATAAAATAAAATTA
1 AAAACAAAATAAAACAAAATTA
8919938 CGTAATAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAACAAAATAAAACAAAATTA
Found at i:8924300 original size:21 final size:21
Alignment explanation
Indices: 8924225--8924283 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
8924215 TGAAGAGTGT
8924225 TGTGGTTGCATCCGATTCTAG
1 TGTGGTTGCATCCGATTCTAG
8924246 TGTGGTTGCATCCGATTCTAG
1 TGTGGTTGCATCCGATTCTAG
*
8924267 TGTGGTTGCATCTGATT
1 TGTGGTTGCATCCGATT
8924284 TTGTTGTGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.14, C:0.17, G:0.29, T:0.41
Consensus pattern (21 bp):
TGTGGTTGCATCCGATTCTAG
Found at i:8924307 original size:21 final size:21
Alignment explanation
Indices: 8924267--8924307 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8924257 CCGATTCTAG
* * *
8924267 TGTGGTTGCATCTGATTTTGT
1 TGTGGATGCATCTAAGTTTGT
8924288 TGTGGATGCATCTAAGTTTG
1 TGTGGATGCATCTAAGTTTG
8924308 CTGACTGTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.10, G:0.29, T:0.46
Consensus pattern (21 bp):
TGTGGATGCATCTAAGTTTGT
Found at i:8927463 original size:42 final size:42
Alignment explanation
Indices: 8926888--8927447 Score: 664
Period size: 42 Copynumber: 13.2 Consensus size: 42
8926878 TAGCATTATC
* **
8926888 AGGTCCATTTATTTTTCATTGCATTTAGAGGCCCAACTGTGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGG
* * *
8926930 AGG-CCTATTTA-ATTTCATTACATTTAGAGGCCTAGGTGTGG
1 AGGTCC-ATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGG
* * *
8926971 AGG-CCGATTTACTTTTCATTACATTTAGAAGCCCAAGTGTGG
1 AGGTCC-ATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGG
* *
8927013 AGGTCCATTTACTCTTCATTGCATTTAGAGGCCCAGGTGTAG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGG
* * * *
8927055 AGGTCCATTTACTTTTCATTACATTTATAGACCCAGGTGGGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGG
* * *
8927097 AGGTGCATTTACTTTTCATCGCATTTAGAGGCCCAGGTGTTG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGG
* * *
8927139 AGGTCCATTTACTTTTCATCGCATTTAGAGACACAGGTGTGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGG
* * *
8927181 AGGTCCATTTACTTTTCATTGCATTTAAAAGCCTAGGTGT-G
1 AGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGG
* * * *
8927222 ATTGTCCTTTTACTTTTCATCGCATTTAGAGATAGAGGCCCAAGTGTGG
1 A-GGTCCATTTACTTTTCATTGCA-TT-----TAGAGGCCCAGGTGTGG
* *
8927271 AGGTCCATTTACTTTT-TTGTGCATTTAGAGGCCCAGGTGTTG
1 AGGTCCATTTACTTTTCAT-TGCATTTAGAGGCCCAGGTGTGG
* *
8927313 AGGTCCATTTACTTTTCATCGCATTTAGAGGCTCAGGTGTGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGG
* * *
8927355 AGGTCCATTTACTTTTGATCGCATTTAGAGGCCTAGGTGTGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGG
8927397 AGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGT-G
1 AGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGG
*
8927438 AGGTCTATTT
1 AGGTCCATTT
8927448 GCATTTCTTC
Statistics
Matches: 443, Mismatches: 62, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
41 49 0.11
42 357 0.81
43 5 0.01
47 3 0.01
48 27 0.06
49 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (42 bp):
AGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGG
Found at i:8927826 original size:21 final size:21
Alignment explanation
Indices: 8927802--8927846 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
8927792 ATTTCGAAAT
8927802 AAAAGTTTGGAGTTTTAAGAA
1 AAAAGTTTGGAGTTTTAAGAA
8927823 AAAAGTTTGGAGTTTTAAGAA
1 AAAAGTTTGGAGTTTTAAGAA
8927844 AAA
1 AAA
8927847 TAGTGATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (21 bp):
AAAAGTTTGGAGTTTTAAGAA
Found at i:8928277 original size:50 final size:49
Alignment explanation
Indices: 8928073--8928290 Score: 140
Period size: 50 Copynumber: 4.4 Consensus size: 49
8928063 ATTTTAAAGA
* * *
8928073 AAAAGTTTAAATTTTTAAACAAAGTTTTTATTTTTTTACTATTTCGAAAT
1 AAAAGTTTAGATTTTTAAACAAA-ATTTTATTTTTTTACTATTTCAAAAT
* ** * * * * * *
8928123 AAAAGTTTGGATTTTTAAGTAAAGTAGTGATCTTTTT--T-TTTAAAAAA
1 AAAAGTTTAGATTTTTAAACAAAAT-TTTATTTTTTTACTATTTCAAAAT
*** * *
8928170 AAAAGTTTAGATTTTTAAA-AATAAAAATATGTTTTTTAGGC-ATTTTAAAGGAG
1 AAAAGTTTAGATTTTTAAACAA-AATTTTAT-TTTTTTA--CTATTTCAAA--AT
* *
8928223 AAAAGTTTAAATTTTTAAACAAAATTTTATTTTTTTAACTATTTCGAAAT
1 AAAAGTTTAGATTTTTAAACAAAATTTTATTTTTTT-ACTATTTCAAAAT
*
8928273 AAAAGTTTTGATTTTTAA
1 AAAAGTTTAGATTTTTAA
8928291 GAAAAGTAGT
Statistics
Matches: 125, Mismatches: 30, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
46 4 0.03
47 29 0.23
48 1 0.01
49 1 0.01
50 44 0.35
51 7 0.06
52 12 0.10
53 25 0.20
54 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (49 bp):
AAAAGTTTAGATTTTTAAACAAAATTTTATTTTTTTACTATTTCAAAAT
Found at i:8928286 original size:150 final size:148
Alignment explanation
Indices: 8927823--8928325 Score: 638
Period size: 153 Copynumber: 3.4 Consensus size: 148
8927813 GTTTTAAGAA
* * * ** *
8927823 AAAAGTTTGGAGTTTTAAGAAAAATAGTGATTTTCA-TAAAAAAAAATAAAGTTTAGATTTTTAA
1 AAAAGTTTGGATTTTTAAGAAAAGTAGTGATTTTTATTTTAAAAAAAGAAAGTTTAGATTTTTAA
* * * * * *
8927887 AAATAAAAATATCTTTTTTAGTCATTTTAAATAAAAAGTCTAAATTTTTAAACAAAGTGTTGATT
66 AAATAAAAATATGTTTTTTAGCCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAAT-TTTA-T
*
8927952 TTTTTTAACAATTTCGAAAT
129 TTTTTTAACTATTTCGAAAT
* * * * ** **
8927972 AAAAGTCTGGAGTTTTAAGAAAAATAGTGATTTTCATAATAAAAACAAAAGAAAGTTTTCATTTT
1 AAAAGTTTGGATTTTTAAGAAAAGTAGTGATTTT--TATTTTAAA-AAAAGAAAGTTTAGATTTT
* *
8928037 TAAAAATAAAAATATGTTTTTTATCCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAGTTTTT
63 TAAAAATAAAAATATGTTTTTTAGCCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAA-ATTTT
8928102 ATTTTTTT-ACTATTTCGAAAT
127 ATTTTTTTAACTATTTCGAAAT
* *
8928123 AAAAGTTTGGATTTTTAAGTAAAGTAGTGATCTTTTTTTTTAAAAAAA-AAAGTTTAGATTTTTA
1 AAAAGTTTGGATTTTTAAGAAAAGTAGTGAT-TTTTATTTTAAAAAAAGAAAGTTTAGATTTTTA
*
8928187 AAAATAAAAATATGTTTTTTAGGCATTTTAAAGGAGAAAAGTTTAAATTTTTAAACAAAATTTTA
65 AAAATAAAAATATGTTTTTTAGCCATTTTAAA-GA-AAAAGTTTAAATTTTTAAACAAAATTTTA
8928252 TTTTTTTAACTATTTCGAAAT
128 TTTTTTTAACTATTTCGAAAT
* *
8928273 AAAAGTTTTGATTTTTAAGAAAAGTAGTGA-TTTTATTTT-AAAAAAGAGAGTTT
1 AAAAGTTTGGATTTTTAAGAAAAGTAGTGATTTTTATTTTAAAAAAAGAAAGTTT
8928326 TTTATTTCGA
Statistics
Matches: 314, Mismatches: 30, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
147 6 0.02
148 58 0.18
149 51 0.16
150 69 0.22
151 40 0.13
152 16 0.05
153 73 0.23
154 1 0.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (148 bp):
AAAAGTTTGGATTTTTAAGAAAAGTAGTGATTTTTATTTTAAAAAAAGAAAGTTTAGATTTTTAA
AAATAAAAATATGTTTTTTAGCCATTTTAAAGAAAAAGTTTAAATTTTTAAACAAAATTTTATTT
TTTTAACTATTTCGAAAT
Found at i:8928606 original size:39 final size:38
Alignment explanation
Indices: 8928552--8928646 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 38
8928542 AAGTTGATCA
* * *
8928552 ATCCAACAAGCTTAAAACATAGTAATTTCAATATCCAAT
1 ATCCAACAAACTTAAAACATAATAATTTCAATAT-AAAT
*
8928591 ATCCAACAAACTTAAAACGTAATAATTTCAATATAAAT
1 ATCCAACAAACTTAAAACATAATAATTTCAATATAAAT
*
8928629 ATCCAACCAACATTAAAA
1 ATCCAACAAAC-TTAAAA
8928647 AAAATAACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
38 13 0.26
39 37 0.74
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (38 bp):
ATCCAACAAACTTAAAACATAATAATTTCAATATAAAT
Found at i:8932885 original size:17 final size:17
Alignment explanation
Indices: 8932862--8932992 Score: 163
Period size: 17 Copynumber: 7.4 Consensus size: 17
8932852 CTCAACTCAT
8932862 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
8932879 ATTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
8932896 TTTAAATTTATTTCTAAAA
1 TTTAAATTTATTT-T-AAA
8932915 TTTAAATTTATTTCTAAAA
1 TTTAAATTTATTT-T-AAA
* *
8932934 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
*
8932951 TTTAAATTTACATTTAAA
1 TTTAAATTTA-TTTTAAA
* *
8932969 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
8932986 TTTAAAT
1 TTTAAAT
8932993 AAGTAAAAGT
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
17 51 0.50
18 17 0.17
19 34 0.33
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:8932899 original size:6 final size:6
Alignment explanation
Indices: 8932862--8932992 Score: 96
Period size: 6 Copynumber: 22.2 Consensus size: 6
8932852 CTCAACTCAT
* * * *
8932862 TTTAAA TTT-AT TTTAAA ATTAAA TTT-AT TTTAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
8932907 TTCTAAAA TTTAAA TTT-AT TTCTAAAA TTTAAA TTT-AA TTTAAG TTTAAA
1 TT-T-AAA TTTAAA TTTAAA TT-T-AAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
8932957 TTTACA TTTAAA TTTAAA ATT--A TTATAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA T
8932993 AAGTAAAAGT
Statistics
Matches: 97, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
4 2 0.02
5 20 0.21
6 64 0.66
7 5 0.05
8 6 0.06
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:8934954 original size:59 final size:59
Alignment explanation
Indices: 8934841--8935177 Score: 388
Period size: 59 Copynumber: 5.7 Consensus size: 59
8934831 CATAAATTCT
* * * * * * * *
8934841 ATTTTTAACTCCGAAACTTTCATAAATTCCATTTTTAACTTCGAAACTTTCAAAAATTAC
1 ATTTTTACCCCCG-AACTTCCAAAAATTCCATTTTTGACCTCGAAAATTCCAAAAATTAC
* *
8934901 ATTTTTACCCCCGCACTTCCAAAAATTCTATTTTTGACCTCGAAAATTCCAAAAATTAC
1 ATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCGAAAATTCCAAAAATTAC
** * * * *
8934960 ATTTTTACCCCTAAACTTCCATAAATTCCATTTTTTACCTTGAAAATTCCAAAAAAAATAC
1 ATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCGAAAATTCC--AAAAATTAC
* * * *
8935021 ATTTTTACCCCCGAATTTCCAAAAATTCCATTTTTAACC-CCAAAACTTTCAAAAATTAC
1 ATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCGAAAA-TTCCAAAAATTAC
* * * * *
8935080 ATTTTTACCCTCAAATTTCCAAAAATTCCATTTTTGAACTCGAAACTTCCAAAAATTAC
1 ATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCGAAAATTCCAAAAATTAC
* *
8935139 ATTTTTACCCTCGATCTTCCAAAAATTCCATTTTTGACC
1 ATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACC
8935178 CTGAACCTTT
Statistics
Matches: 235, Mismatches: 38, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
59 171 0.73
60 19 0.08
61 45 0.19
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (59 bp):
ATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCGAAAATTCCAAAAATTAC
Found at i:8935179 original size:30 final size:30
Alignment explanation
Indices: 8934824--8935233 Score: 317
Period size: 30 Copynumber: 13.8 Consensus size: 30
8934814 TCTGTCCCCT
* * * *
8934824 AAACTTTCATAAATTCTATTTTTA-ACTCCG
1 AAACTTCCAAAAATTCCATTTTTACCCT-CG
* * * *
8934854 AAACTTTCATAAATTCCATTTTTAACTTCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
* * *
8934884 AAACTTTCAAAAATTACATTTTTACCCCCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
* *
8934914 -CACTTCCAAAAATTCTATTTTTGA-CCTCG
1 AAACTTCCAAAAATTCCATTTTT-ACCCTCG
* * *
8934943 AAAATTCCAAAAATTACATTTTTACCC-CT
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
* *
8934972 AAACTTCCATAAATTCCATTTTTTA-CCTTG
1 AAACTTCCAAAAATTCCA-TTTTTACCCTCG
* * * *
8935002 AAAATTCCAAAAAAAATACATTTTTACCCCCG
1 AAACTTCC--AAAAATTCCATTTTTACCCTCG
* *
8935034 -AATTTCCAAAAATTCCATTTTTAACCC-CA
1 AAACTTCCAAAAATTCCATTTTT-ACCCTCG
* *
8935063 AAACTTTCAAAAATTACATTTTTACCCTC-
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
* *
8935092 AAATTTCCAAAAATTCCATTTTTGA-ACTCG
1 AAACTTCCAAAAATTCCATTTTT-ACCCTCG
*
8935122 AAACTTCCAAAAATTACATTTTTACCCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
*
8935152 -ATCTTCCAAAAATTCCATTTTTGACCCT-G
1 AAACTTCCAAAAATTCCATTTTT-ACCCTCG
* ** *
8935181 AACCTTTTAAAAATTACCA-TTTTACCCTTG
1 AAACTTCCAAAAATT-CCATTTTTACCCTCG
*
8935211 -GA-TGTCCAAAAATTCCATTTTTA
1 AAACT-TCCAAAAATTCCATTTTTA
8935234 ATCTTGATTT
Statistics
Matches: 307, Mismatches: 52, Indels: 43
0.76 0.13 0.11
Matches are distributed among these distances:
28 4 0.01
29 122 0.40
30 155 0.50
31 16 0.05
32 10 0.03
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (30 bp):
AAACTTCCAAAAATTCCATTTTTACCCTCG
Found at i:8935193 original size:59 final size:59
Alignment explanation
Indices: 8934864--8935232 Score: 374
Period size: 59 Copynumber: 6.2 Consensus size: 59
8934854 AAACTTTCAT
* * * *
8934864 AAATTCCATTTTT-AACTTCGAAACTTTCAAAAATTACATTTTTACCCCCGCACTTCCAA
1 AAATTCCATTTTTGACCCTCGAAACTTTCAAAAATTACATTTTTACCCTCG-ATTTCCAA
* * * ** * *
8934923 AAATTCTATTTTTGA-CCTCGAAAATTCCAAAAATTACATTTTTACCCCTAAACTTCCAT
1 AAATTCCATTTTTGACCCTCGAAACTTTCAAAAATTACATTTTTA-CCCTCGATTTCCAA
* * * * * *
8934982 AAATTCCATTTTTTA-CCTTGAAAATTCCAAAAAAAATACATTTTTACCCCCGAATTTCCAA
1 AAATTCCATTTTTGACCCTCGAAACTTTC--AAAAATTACATTTTTACCCTCG-ATTTCCAA
* * *
8935043 AAATTCCATTTTTAACCC-CAAAACTTTCAAAAATTACATTTTTACCCTCAAATTTCCAA
1 AAATTCCATTTTTGACCCTCGAAACTTTCAAAAATTACATTTTTACCCTC-GATTTCCAA
* *
8935102 AAATTCCATTTTTGA-ACTCGAAACTTCCAAAAATTACATTTTTACCCTCGATCTTCCAA
1 AAATTCCATTTTTGACCCTCGAAACTTTCAAAAATTACATTTTTACCCTCGAT-TTCCAA
* * * *
8935161 AAATTCCATTTTTGACCCT-GAACCTTTTAAAAATTACCA-TTTTACCCTTGGATGTCCAA
1 AAATTCCATTTTTGACCCTCGAAACTTTCAAAAATTA-CATTTTTACCC-TCGATTTCCAA
8935220 AAATTCCATTTTT
1 AAATTCCATTTTT
8935233 AATCTTGATT
Statistics
Matches: 262, Mismatches: 36, Indels: 24
0.81 0.11 0.07
Matches are distributed among these distances:
58 3 0.01
59 201 0.77
60 15 0.06
61 41 0.16
62 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (59 bp):
AAATTCCATTTTTGACCCTCGAAACTTTCAAAAATTACATTTTTACCCTCGATTTCCAA
Found at i:8935326 original size:58 final size:59
Alignment explanation
Indices: 8935023--8935348 Score: 244
Period size: 59 Copynumber: 5.5 Consensus size: 59
8935013 AAAAATACAT
* * * * * *
8935023 TTTTACCCCCGAATTTCCAAAAATTCCATTTTTAACCCCAAAACTTTC-AAAAATTA-CA
1 TTTTACCCTCGAATGTCCAAAAATTCCATTTTTAATCTC-AAATTTTCTCAAAATTACCA
* * *
8935081 TTTTTACCCTCAAATTTCCAAAAATTCCATTTTTGAA-CTCGAAA-CTTC-CAAAAATTA-CA
1 -TTTTACCCTCGAATGTCCAAAAATTCCATTTTT-AATCTC-AAATTTTCTC-AAAATTACCA
* ** * ** *
8935140 TTTTTACCCTCG-ATCTTCCAAAAATTCCATTTTTGACCCTGAACCTTT-TAAAAATTACCA
1 -TTTTACCCTCGAAT-GTCCAAAAATTCCATTTTT-AATCTCAAATTTTCTCAAAATTACCA
* * ** * *
8935200 TTTTACCCTTGGATGTCCAAAAATTCCATTTTTAATCTTGATTTTTCTTAAAATTACCA
1 TTTTACCCTCGAATGTCCAAAAATTCCATTTTTAATCTCAAATTTTCTCAAAATTACCA
* *
8935259 TTTTACCCTCGAATGT-CTAAAATTTCATTTTTAA-CTCAAATTTTCTCAAAATTACCA
1 TTTTACCCTCGAATGTCCAAAAATTCCATTTTTAATCTCAAATTTTCTCAAAATTACCA
*
8935316 TTTTGCCCCTCGAGA-GTCC-AAAATTACCATTTT
1 TTTT-ACCCTCGA-ATGTCCAAAAATT-CCATTTT
8935349 ACCCCCGAGT
Statistics
Matches: 223, Mismatches: 31, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
57 23 0.10
58 43 0.19
59 147 0.66
60 10 0.04
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.39
Consensus pattern (59 bp):
TTTTACCCTCGAATGTCCAAAAATTCCATTTTTAATCTCAAATTTTCTCAAAATTACCA
Found at i:8935367 original size:29 final size:29
Alignment explanation
Indices: 8935305--8935366 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
8935295 CAAATTTTCT
*
8935305 CAAAATTACCATTTTGCCCCTCGAGAGTC
1 CAAAATTACCATTTTACCCCTCGAGAGTC
8935334 CAAAATTACCATTTTACCCC-CGAGTA-TC
1 CAAAATTACCATTTTACCCCTCGAG-AGTC
8935362 CAAAA
1 CAAAA
8935367 AGTCTCATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.26
Consensus pattern (29 bp):
CAAAATTACCATTTTACCCCTCGAGAGTC
Found at i:8946921 original size:51 final size:51
Alignment explanation
Indices: 8946841--8947128 Score: 261
Period size: 51 Copynumber: 5.7 Consensus size: 51
8946831 GAAATATAAC
* *
8946841 GGGAAAGATCTAAGACAGCAACGGCGGATCCAGTACCGCAAAGATACAAAA
1 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACAAAA
* * * *
8946892 GGGAAAGGTCTAAGACCGCAATGGAGGATCCAGTACCACAAAGATACTAAA
1 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACAAAA
* * * * * *
8946943 GGGAAAGGTCTAAG-TCGCAACGGCGGA-CCGTGTACCTC--AGA-AGCATGAA
1 GGGAAAGATCTAAGACCGCAATGGCGGATCC-AGTACCGCAAAGATA-CA-AAA
* * * *
8946992 GGGAAAGATTTAAGACTGCAATGGCAGATCCAGTACCGCAAAAATACAAAA
1 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACAAAA
* * * * * *
8947043 GGGAAAGGTCTAAG-TCGCAATGGCGGA-CCGTGTACCTCAGAAG-CAC-GAA
1 GGGAAAGATCTAAGACCGCAATGGCGGATCC-AGTACCGCA-AAGATACAAAA
*
8947092 GGGAAAGATCTAAGACCGCAATGGCGGATCTAGTACC
1 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACC
8947129 ACGAAGATTT
Statistics
Matches: 188, Mismatches: 37, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
47 1 0.01
48 4 0.02
49 33 0.18
50 67 0.36
51 78 0.41
52 4 0.02
53 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.28, T:0.14
Consensus pattern (51 bp):
GGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACAAAA
Found at i:8947022 original size:100 final size:100
Alignment explanation
Indices: 8946890--8947163 Score: 390
Period size: 100 Copynumber: 2.8 Consensus size: 100
8946880 AAAGATACAA
*
8946890 AAGGGAAAGGTCTAAGACCGCAATGG-AGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCT
1 AAGGGAAAGATCTAAGACCGCAATGGCA-GATCCAGTACCACAAAGATACTAAAGGGAAAGGTCT
*
8946954 AAGTCGCAACGGCGGACCGTGTACCTCAGAAGCATG
65 AAGTCGCAACGGCGGACCGTGTACCTCAGAAGCACG
* * * * *
8946990 AAGGGAAAGATTTAAGACTGCAATGGCAGATCCAGTACCGCAAAAATACAAAAGGGAAAGGTCTA
1 AAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTA
*
8947055 AGTCGCAATGGCGGACCGTGTACCTCAGAAGCACG
66 AGTCGCAACGGCGGACCGTGTACCTCAGAAGCACG
* * * * * *
8947090 AAGGGAAAGATCTAAGACCGCAATGGCGGATCTAGTACCACGAAGAT-TTGAAGGGAAAGGTTTA
1 AAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTA
*
8947154 AGTTGCAACG
66 AGTCGCAACG
8947164 ATGAACCTGG
Statistics
Matches: 152, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
99 21 0.14
100 130 0.86
101 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.16
Consensus pattern (100 bp):
AAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTA
AGTCGCAACGGCGGACCGTGTACCTCAGAAGCACG
Found at i:8947104 original size:49 final size:49
Alignment explanation
Indices: 8946941--8947119 Score: 189
Period size: 50 Copynumber: 3.6 Consensus size: 49
8946931 AAAGATACTA
* * *
8946941 AAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGCATG
1 AAGGGAAAGATCTAAGTCGCAATGGCGGACCGTGTACCTCAGAAGCACG
* * * * * * ** *
8946990 AAGGGAAAGATTTAAGACTGCAATGGCAGATCC-AGTACCGCAAAAATACAA
1 AAGGGAAAGATCTAAGTC-GCAATGGCGGA-CCGTGTACCTCAGAAGCAC-G
*
8947041 AAGGGAAAGGTCTAAGTCGCAATGGCGGACCGTGTACCTCAGAAGCACG
1 AAGGGAAAGATCTAAGTCGCAATGGCGGACCGTGTACCTCAGAAGCACG
*
8947090 AAGGGAAAGATCTAAGACCGCAATGGCGGA
1 AAGGGAAAGATCTAAG-TCGCAATGGCGGA
8947120 TCTAGTACCA
Statistics
Matches: 101, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
49 32 0.32
50 52 0.51
51 17 0.17
ACGTcount: A:0.36, C:0.20, G:0.30, T:0.14
Consensus pattern (49 bp):
AAGGGAAAGATCTAAGTCGCAATGGCGGACCGTGTACCTCAGAAGCACG
Found at i:8947666 original size:6 final size:6
Alignment explanation
Indices: 8947655--8947719 Score: 64
Period size: 6 Copynumber: 11.2 Consensus size: 6
8947645 CTCAACTCAT
* * *
8947655 TTTAAA TTTAAA TTT-AT TTTAAG TTTAAA TTTACA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
8947702 ATT--A TTATAAA TTTAAA T
1 TTTAAA TT-TAAA TTTAAA T
8947720 AAGTAAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
4 2 0.04
5 5 0.10
6 38 0.79
7 3 0.06
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:8947675 original size:17 final size:17
Alignment explanation
Indices: 8947653--8947719 Score: 89
Period size: 17 Copynumber: 3.9 Consensus size: 17
8947643 AACTCAACTC
8947653 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
*
8947670 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
* *
8947687 ACATTTAAATTTAAAATT
1 A-TTTTAAATTTAAATTT
*
8947705 ATTATAAATTTAAAT
1 ATTTTAAATTTAAAT
8947720 AAGTAAAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
17 28 0.67
18 14 0.33
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:8949457 original size:30 final size:29
Alignment explanation
Indices: 8949400--8949714 Score: 259
Period size: 29 Copynumber: 10.7 Consensus size: 29
8949390 CTAAACTGTT
* *
8949400 CAAAAATTATATTTTGT-CCCTTG-AACTTT
1 CAAAAATTACATTTT-TACCC-TGAAACTTC
* *
8949429 CAAAAATTTCTTTTTTGACCCTGAAACTTC
1 CAAAAATTACATTTTT-ACCCTGAAACTTC
* *
8949459 CAGAAATTACATTTTTACTCCCG-AACTTC
1 CAAAAATTACATTTTTAC-CCTGAAACTTC
* * ** *
8949488 TAAAAATTCCATTTTTGACCCCAAAACATC
1 CAAAAATTACATTTTT-ACCCTGAAACTTC
8949518 CAAAAATTACATTTTTACCCCT-AAACTTC
1 CAAAAATTACATTTTTA-CCCTGAAACTTC
* *
8949547 CAAAAATTCCATTTTTAACCCTAAAACTTC
1 CAAAAATTACATTTTT-ACCCTGAAACTTC
*
8949577 CAAAAAATTACATTTTTACCCTTG-AATTTC
1 C-AAAAATTACATTTTTACCC-TGAAACTTC
* **
8949607 CAAAAATTCCATTTTTAACCCCAAAACTTC
1 CAAAAATTACATTTTT-ACCCTGAAACTTC
**
8949637 CAAAAATTACATTTTTACCCCCAAA-TTCC
1 CAAAAATTACATTTTTACCCTGAAACTT-C
* * *
8949666 CTAAAATTCCATTTTTGACCC-CAAACTTC
1 CAAAAATTACATTTTT-ACCCTGAAACTTC
8949695 CAAAAATTACCA-TTTTACCC
1 CAAAAATTA-CATTTTTACCC
8949715 CTAAATGTTT
Statistics
Matches: 238, Mismatches: 31, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
28 7 0.03
29 117 0.49
30 99 0.42
31 15 0.06
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (29 bp):
CAAAAATTACATTTTTACCCTGAAACTTC
Found at i:8949485 original size:59 final size:58
Alignment explanation
Indices: 8949400--8949831 Score: 360
Period size: 59 Copynumber: 7.3 Consensus size: 58
8949390 CTAAACTGTT
* * * * **
8949400 CAAAAATTATATTTTGT-CCCTTGAACTTTCAAAAATTTCTTTTTTGACCCTGAAACTTC
1 CAAAAATTACATTTT-TACCC-CGAACTTTCAAAAATTCCATTTTTGACCCCAAAACTTC
* *
8949459 CAGAAATTACATTTTTACTCCCGAAC-TTCTAAAAATTCCATTTTTGACCCCAAAACATC
1 CAAAAATTACATTTTTAC-CCCGAACTTTC-AAAAATTCCATTTTTGACCCCAAAACTTC
* * * *
8949518 CAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAAACTTC
1 CAAAAATTACATTTTTACCCC-GAACTTTCAAAAATTCCATTTTTGACCCCAAAACTTC
* *
8949577 CAAAAAATTACATTTTTACCCTTGAA-TTTCCAAAAATTCCATTTTTAACCCCAAAACTTC
1 C-AAAAATTACATTTTTACCC-CGAACTTT-CAAAAATTCCATTTTTGACCCCAAAACTTC
* * * *
8949637 CAAAAATTACATTTTTACCCCCAAATTCCCTAAAATTCCATTTTTGACCCC-AAACTTC
1 CAAAAATTACATTTTTACCCCGAACTT-TCAAAAATTCCATTTTTGACCCCAAAACTTC
* * * * * * * *
8949695 CAAAAATTACCA-TTTTACCCCTAAATGTTTAAAAACTCC-TTTTTTAACCCAAACCTTT
1 CAAAAATTA-CATTTTTACCCCGAACT-TTCAAAAATTCCATTTTTGACCCCAAAACTTC
* * * * * * *
8949753 TAAAAATTACCA-GTTTACCCCTGAA-TGTCCAAAAACTCCATTTTTGACCTCAAACCTTT
1 CAAAAATTA-CATTTTTACCCC-GAACT-TTCAAAAATTCCATTTTTGACCCCAAAACTTC
*
8949812 TAAAAATTACCA-TTTTACCC
1 CAAAAATTA-CATTTTTACCC
8949832 TTGGATGTCC
Statistics
Matches: 317, Mismatches: 41, Indels: 30
0.82 0.11 0.08
Matches are distributed among these distances:
57 9 0.03
58 81 0.26
59 172 0.54
60 55 0.17
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (58 bp):
CAAAAATTACATTTTTACCCCGAACTTTCAAAAATTCCATTTTTGACCCCAAAACTTC
Found at i:8949728 original size:29 final size:28
Alignment explanation
Indices: 8949462--8949831 Score: 104
Period size: 29 Copynumber: 12.6 Consensus size: 28
8949452 AAACTTCCAG
* *
8949462 AAATTA-CATTTTTACTCCCGAACTTCTAA
1 AAATTACCA-TTTTAC-CCCAAACTTTTAA
* **
8949491 AAATT-CCATTTTTGACCCCAAAACATCCAA
1 AAATTACCA-TTTT-ACCCC-AAACTTTTAA
**
8949521 AAATTA-CATTTTTACCCCTAAACTTCCAA
1 AAATTACCA-TTTTACCCC-AAACTTTTAA
* **
8949550 AAATT-CCATTTTTAACCCTAAAACTTCCAAA
1 AAATTACCA-TTTT-ACCC-CAAACTT-TTAA
** *
8949581 AAATTA-CATTTTTACCCTTGAA-TTTCCAA
1 AAATTACCA-TTTTACCC-CAAACTTT-TAA
**
8949610 AAATT-CCATTTTTAACCCCAAAACTTCCAA
1 AAATTACCA-TTTT-ACCCC-AAACTTTTAA
*
8949640 AAATTA-CATTTTTACCCCCAAA-TTCCCT-A
1 AAATTACCA-TTTTA-CCCCAAACTT--TTAA
**
8949669 AAATT-CCATTTTTGACCCCAAACTTCCAA
1 AAATTACCA-TTTT-ACCCCAAACTTTTAA
8949698 AAATTACCATTTTACCCCTAAA-TGTTTAA
1 AAATTACCATTTTACCCC-AAACT-TTTAA
* * *
8949727 AAACT-CCTTTTTTAACCCAAACCTTTTAA
1 AAATTACC-ATTTTACCCCAAA-CTTTTAA
* * **
8949756 AAATTACCAGTTTACCCCTGAA-TGTCCAA
1 AAATTACCATTTTACCCC-AAACT-TTTAA
* *
8949785 AAACT-CCATTTTTGACCTCAAACCTTTTAA
1 AAATTACCA-TTTT-ACCCCAAA-CTTTTAA
8949815 AAATTACCATTTTACCC
1 AAATTACCATTTTACCC
8949832 TTGGATGTCC
Statistics
Matches: 269, Mismatches: 36, Indels: 72
0.71 0.10 0.19
Matches are distributed among these distances:
28 18 0.07
29 140 0.52
30 90 0.33
31 21 0.08
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.34
Consensus pattern (28 bp):
AAATTACCATTTTACCCCAAACTTTTAA
Found at i:8949840 original size:59 final size:58
Alignment explanation
Indices: 8949519--8949905 Score: 363
Period size: 59 Copynumber: 6.6 Consensus size: 58
8949509 CAAAACATCC
* * **
8949519 AAAAATTA-CATTTTTACCCCTAAACT-TCCAAAAATTCCATTTTTAACCCTAAAACTTCCA
1 AAAAATTACCA-TTTTACCCCTAAA-TGTCCAAAAACTCCATTTTTAACCC-AAACCTT-TT
* * * * * **
8949579 AAAAATTA-CATTTTTACCCTTGAATTTCCAAAAATTCCATTTTTAACCCCAAAACTTCC
1 AAAAATTACCA-TTTTACCCCTAAATGTCCAAAAACTCCATTTTTAA-CCCAAACCTTTT
* * * * **
8949638 AAAAATTA-CATTTTTACCCCCAAAT-TCCCTAAAATTCCATTTTTGACCCCAAA-CTTCC
1 AAAAATTACCA-TTTTACCCCTAAATGT-CCAAAAACTCCATTTTT-AACCCAAACCTTTT
** *
8949696 AAAAATTACCATTTTACCCCTAAATGTTTAAAAACTCCTTTTTTAACCCAAACCTTTT
1 AAAAATTACCATTTTACCCCTAAATGTCCAAAAACTCCATTTTTAACCCAAACCTTTT
* * *
8949754 AAAAATTACCAGTTTACCCCTGAATGTCCAAAAACTCCATTTTTGACCTCAAACCTTTT
1 AAAAATTACCATTTTACCCCTAAATGTCCAAAAACTCCATTTTTAACC-CAAACCTTTT
* ** *
8949813 AAAAATTACCATTTTACCCTTGGATGTCCAAAAACTCCATTTTTAACCCTGAACCTTTT
1 AAAAATTACCATTTTACCCCTAAATGTCCAAAAACTCCATTTTTAACCC-AAACCTTTT
* * *
8949872 GAAAATTACCATTTTACCCTTAGATGTCCAAAAA
1 AAAAATTACCATTTTACCCCTAAATGTCCAAAAA
8949906 TTCTGTTTTT
Statistics
Matches: 288, Mismatches: 30, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
57 7 0.02
58 85 0.30
59 143 0.50
60 50 0.17
61 3 0.01
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCTAAATGTCCAAAAACTCCATTTTTAACCCAAACCTTTT
Found at i:8949905 original size:29 final size:29
Alignment explanation
Indices: 8949813--8949907 Score: 79
Period size: 29 Copynumber: 3.2 Consensus size: 29
8949803 CAAACCTTTT
*
8949813 AAAAATTACCATTTTACCCTTGGATGTCC
1 AAAAATTACCATTTTACCCTTAGATGTCC
* * **
8949842 AAAAACT-CCATTTTTAACCCTGA-ACCT-TTT
1 AAAAATTACCA-TTTT-ACCCTTAGA--TGTCC
*
8949872 GAAAATTACCATTTTACCCTTAGATGTCC
1 AAAAATTACCATTTTACCCTTAGATGTCC
8949901 AAAAATT
1 AAAAATT
8949908 CTGTTTTTGA
Statistics
Matches: 48, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
28 4 0.08
29 24 0.50
30 16 0.33
31 4 0.08
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCTTAGATGTCC
Found at i:8949915 original size:59 final size:59
Alignment explanation
Indices: 8949489--8950032 Score: 353
Period size: 59 Copynumber: 9.2 Consensus size: 59
8949479 CCGAACTTCT
* * * * ** * *
8949489 AAAAATTCCATTTTTGACCCCAAAACATCCAAAAATTA-CATTTTTACCCCTAAACT-TCC
1 AAAAATTCCATTTTTAACCCTAAACCTTTTAAAAATTACCA-TTTTACCCTTAGA-TGTCC
* ** *
8949548 AAAAATTCCATTTTTAACCCTAAAACTTCCAAAAAATTA-CATTTTTACCCTT-GAATTTCC
1 AAAAATTCCATTTTTAACCCTAAACCTT-TTAAAAATTACCA-TTTTACCCTTAG-ATGTCC
* * ** ** *
8949608 AAAAATTCCATTTTTAACCCCAAAACTTCCAAAAATTA-CATTTTTACCCCCAAAT-TCCC
1 AAAAATTCCATTTTTAACCCTAAACCTTTTAAAAATTACCA-TTTTACCCTTAGATGT-CC
* * * ** * * **
8949667 TAAAATTCCATTTTTGACCCCAAA-CTTCCAAAAATTACCATTTTACCCCTAAATGTTT
1 AAAAATTCCATTTTTAACCCTAAACCTTTTAAAAATTACCATTTTACCCTTAGATGTCC
* * * *
8949725 AAAAACTCCTTTTTTAACCC-AAACCTTTTAAAAATTACCAGTTTACCCCT-GAATGTCC
1 AAAAATTCCATTTTTAACCCTAAACCTTTTAAAAATTACCATTTTACCCTTAG-ATGTCC
* * *
8949783 AAAAACTCCATTTTTGA-CCTCAAACCTTTTAAAAATTACCATTTTACCCTTGGATGTCC
1 AAAAATTCCATTTTTAACCCT-AAACCTTTTAAAAATTACCATTTTACCCTTAGATGTCC
* * *
8949842 AAAAACTCCATTTTTAACCCTGAACCTTTTGAAAATTACCATTTTACCCTTAGATGTCC
1 AAAAATTCCATTTTTAACCCTAAACCTTTTAAAAATTACCATTTTACCCTTAGATGTCC
** * ** * ** * * * *
8949901 AAAAATTCTGTTTTTGATTCT-GATTTTTCTTAAAATTGCCATTTTACCCTCAAATGT-C
1 AAAAATTCCATTTTTAACCCTAAACCTTT-TAAAAATTACCATTTTACCCTTAGATGTCC
* * * * * *
8949959 TAAAATTTCATTTTTAACCCCAAA-TTTTCTCAAAATTACCATTTTACCCCTCGAGA-GTCC
1 AAAAATTCCATTTTTAACCCTAAACCTTT-TAAAAATTACCATTTTA-CCCT-TAGATGTCC
8950019 -AAAATTACCATTTT
1 AAAAATT-CCATTTT
8950033 GCCTCCGGGT
Statistics
Matches: 405, Mismatches: 61, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
57 5 0.01
58 123 0.30
59 212 0.52
60 65 0.16
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAAATTCCATTTTTAACCCTAAACCTTTTAAAAATTACCATTTTACCCTTAGATGTCC
Found at i:8949964 original size:28 final size:27
Alignment explanation
Indices: 8949931--8950008 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 27
8949921 TGATTTTTCT
8949931 TAAAATTGCCATTTTACCCTCAAA-TGTC
1 TAAAATT-CCATTTTACCC-CAAATTGTC
* *
8949959 TAAAATTTCATTTTTAACCCCAAATTTTC
1 TAAAATTCCA-TTTT-ACCCCAAATTGTC
8949988 TCAAAATTACCATTTTACCCC
1 T-AAAATT-CCATTTTACCCC
8950009 TCGAGAGTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
27 2 0.05
28 15 0.36
29 13 0.31
30 10 0.24
31 2 0.05
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (27 bp):
TAAAATTCCATTTTACCCCAAATTGTC
Found at i:8962159 original size:88 final size:88
Alignment explanation
Indices: 8961976--8962164 Score: 240
Period size: 89 Copynumber: 2.1 Consensus size: 88
8961966 CCTAGTTTTT
* ** *
8961976 TTTTTTTGCACTCAATTAGGTACTTGAACTATCAAAATGCATCAAAAAGGAGGTTAAACTTTTTC
1 TTTTTTTGCACTCAATTAAGTACTTGAACTATCAAAATGCATCAAAAAGGACCTCAAACTTTTTC
** *
8962041 AAAAAAAAAATGAAGGCTCTACA
66 AAAAAAAAAATGAAACCCCTACA
*
8962064 TCTTTTTTGCACTCAATTAAGTACTTGAACTTTC-AAATGCATCAAAAA-GACCCTCAAACTTTT
1 T-TTTTTTGCACTCAATTAAGTACTTGAACTATCAAAATGCATCAAAAAGGA-CCTCAAACTTTT
*
8962127 TCAAAAAAAAACAATTAAACCCCTA-A
64 TC-AAAAAAAA-AATGAAACCCCTACA
8962153 TTTTTTTGCACT
1 TTTTTTTGCACT
8962165 TAATAGGGTA
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
87 2 0.02
88 37 0.42
89 40 0.45
90 9 0.10
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (88 bp):
TTTTTTTGCACTCAATTAAGTACTTGAACTATCAAAATGCATCAAAAAGGACCTCAAACTTTTTC
AAAAAAAAAATGAAACCCCTACA
Found at i:8962181 original size:88 final size:88
Alignment explanation
Indices: 8961976--8962181 Score: 240
Period size: 88 Copynumber: 2.3 Consensus size: 88
8961966 CCTAGTTTTT
** *
8961976 TTTTTTTGCACTCAATTAGGTACTTGAACTATCAAAATGCATCAAAAAGGAGGTTAAACTTTTTC
1 TTTTTTTGCACTCAATTAGGTACTTGAACTATCAAAATGCATCAAAAAGGACCTCAAACTTTTTC
** *
8962041 AAAAAAAAAATGAAGGCTCTACA
66 AAAAAAAAAATGAAACCCCTACA
* *
8962064 TCTTTTTTGCACTCAATTAAGTACTTGAACTTTC-AAATGCATCAAAAA-GACCCTCAAACTTTT
1 T-TTTTTTGCACTCAATTAGGTACTTGAACTATCAAAATGCATCAAAAAGGA-CCTCAAACTTTT
*
8962127 TCAAAAAAAAACAATTAAACCCCTA-A
64 TC-AAAAAAAA-AATGAAACCCCTACA
* *
8962153 TTTTTTTGCACTTAA-TAGGGTACCTGAAC
1 TTTTTTTGCACTCAATTA-GGTACTTGAAC
8962182 CACCCTTAAT
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
87 4 0.04
88 48 0.48
89 40 0.40
90 9 0.09
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (88 bp):
TTTTTTTGCACTCAATTAGGTACTTGAACTATCAAAATGCATCAAAAAGGACCTCAAACTTTTTC
AAAAAAAAAATGAAACCCCTACA
Found at i:8962658 original size:39 final size:38
Alignment explanation
Indices: 8962582--8962679 Score: 110
Period size: 38 Copynumber: 2.5 Consensus size: 38
8962572 TTATAAATTT
8962582 ATATTTTTTTATGATTTTTATAAAAAAATTCTAATTTTTA
1 ATATTTTTTTAT-ATTTTTAT-AAAAAATTCTAATTTTTA
* *
8962622 ATATTTTTTTTATATTTTTAT-TAAAATT-TGATATTTTTT
1 ATA-TTTTTTTATATTTTTATAAAAAATTCT-A-ATTTTTA
8962661 ATATTTTTTTATAGTTTTT
1 ATATTTTTTTATA-TTTTT
8962680 TGTCACATGT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
37 1 0.02
38 17 0.33
39 14 0.27
40 11 0.21
41 9 0.17
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (38 bp):
ATATTTTTTTATATTTTTATAAAAAATTCTAATTTTTA
Found at i:8962680 original size:40 final size:39
Alignment explanation
Indices: 8962579--8962680 Score: 104
Period size: 39 Copynumber: 2.6 Consensus size: 39
8962569 ATTTTATAAA
8962579 TTTATATTTTTTTAT-GATTTTTATAAAAAAATTCTAATTT
1 TTTATATTTTTTTATAG-TTTTT-TAAAAAAATTCTAATTT
* **
8962619 TTAATATTTTTTT-TA-TATTTTTATTAAAATT-TGATATTT
1 TTTATATTTTTTTATAGT-TTTTTAAAAAAATTCT-A-ATTT
8962658 TTTATATTTTTTTATAGTTTTTT
1 TTTATATTTTTTTATAGTTTTTT
8962681 GTCACATGTC
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
37 1 0.02
38 10 0.19
39 21 0.40
40 19 0.37
41 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (39 bp):
TTTATATTTTTTTATAGTTTTTTAAAAAAATTCTAATTT
Found at i:8968607 original size:90 final size:88
Alignment explanation
Indices: 8968446--8968686 Score: 314
Period size: 90 Copynumber: 2.8 Consensus size: 88
8968436 GCATAGAAAA
* * * *
8968446 CTCTCAAACGTTTTCAAAAAAAGTAATTAAACCC--T-TTTTTTTACTCTCATTTAGGTACTTGA
1 CTCTCAAACTTTTTCAAAAAAAGTAATTAAACCCTATATTTTTTTGCACTCAATTAGGTACTTGA
8968508 ACTACCAAAATGCATCAAAAAGG
66 ACTACCAAAATGCATCAAAAAGG
* *
8968531 CAT-TCAAACTTTTTCAAAAAAAGCAATTAAGGCCCTATATCTTTTTTGCACTCAATTAGGTACT
1 C-TCTCAAACTTTTTCAAAAAAAGTAATTAA-ACCCTATAT-TTTTTTGCACTCAATTAGGTACT
**
8968595 TGAACTTTCAAAATGCATCAAAAAGG
63 TGAACTACCAAAATGCATCAAAAAGG
*
8968621 CTCTCAAACTTTTTC-AAAAAAGTAATTAAACCCCTA-ATTTTTTTTGCACTCAATTGGGTACTT
1 CTCTCAAACTTTTTCAAAAAAAGTAATTAAA-CCCTATA-TTTTTTTGCACTCAATTAGGTACTT
8968684 GAA
64 GAA
8968687 TCACCCCTAA
Statistics
Matches: 136, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
85 26 0.19
86 4 0.03
88 28 0.21
89 21 0.15
90 57 0.42
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (88 bp):
CTCTCAAACTTTTTCAAAAAAAGTAATTAAACCCTATATTTTTTTGCACTCAATTAGGTACTTGA
ACTACCAAAATGCATCAAAAAGG
Found at i:8969097 original size:19 final size:19
Alignment explanation
Indices: 8969075--8969131 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
8969065 CTTTTTGATG
8969075 CATTTTATGATTTTTATAA
1 CATTTTATGATTTTTATAA
** *
8969094 CATTTTACAATTTTT-TATT
1 CATTTTATGATTTTTATA-A
**
8969113 TTTTTTATGATTTTTATAA
1 CATTTTATGATTTTTATAA
8969132 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
18 2 0.07
19 24 0.86
20 2 0.07
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (19 bp):
CATTTTATGATTTTTATAA
Found at i:8969181 original size:9 final size:9
Alignment explanation
Indices: 8969141--8969173 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
8969131 AAAAAAATTA
8969141 ATTTTTAAT
1 ATTTTTAAT
8969150 ATTTTTAAT
1 ATTTTTAAT
8969159 ATTTTT-AT
1 ATTTTTAAT
8969167 ATTTTTA
1 ATTTTTA
8969174 TAGTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:8970837 original size:89 final size:87
Alignment explanation
Indices: 8970654--8970898 Score: 285
Period size: 89 Copynumber: 2.7 Consensus size: 87
8970644 GCATAGAAAA
* * * ** * *
8970654 CCCTCAAACATTTTCATAAAAAGCAATTAAGCCTCTGTTTTTTTTTTGCATTCAATTAGGTATTT
1 CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCC-C-CTAATTTTTTTGCACTCAATT-GGTACTT
* *
8970719 GAATTATCAAAATGCATCAAAGAGT
63 GAATTATCAAAATGCATCAAAAAGG
* * *
8970744 CCCTCAAACTTTTTCAAAAAAAGCAATAAAGCCCCTACATCTTTTTACACTCAATTGGATACTTG
1 CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTA-ATTTTTTTGCACTCAATTGG-TACTTG
*
8970809 AACTT-TCAAAATGCATTAAAAAGG
64 AA-TTATCAAAATGCATCAAAAAGG
*
8970833 CCCTCAAATTTTTTCAAAAAAAGCAATTAAGCCCCCTAATTTTTTTGCACTCAATTGGGTACTTG
1 CCCTCAAACTTTTTCAAAAAAAGCAATTAAG-CCCCTAATTTTTTTGCACTCAATT-GGTACTTG
8970898 A
64 A
8970899 GTCACCCCTA
Statistics
Matches: 133, Mismatches: 17, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
88 3 0.02
89 90 0.68
90 40 0.30
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (87 bp):
CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTAATTTTTTTGCACTCAATTGGTACTTGAA
TTATCAAAATGCATCAAAAAGG
Found at i:8971331 original size:40 final size:40
Alignment explanation
Indices: 8971280--8971361 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 40
8971270 TTTTGATGCA
* *
8971280 TTTTATAATTTTTA-T-AAAAGTTTACAATTTTTTATAATTT
1 TTTTATAATTTTTATTAAAAAATTT--AATTTTTAATAATTT
*
8971320 TTTTATGATTTTTATTAAAAAATTTAATTTTTAATAATTT
1 TTTTATAATTTTTATTAAAAAATTTAATTTTTAATAATTT
8971360 TT
1 TT
8971362 ATTTTAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 29 0.78
41 1 0.03
42 7 0.19
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (40 bp):
TTTTATAATTTTTATTAAAAAATTTAATTTTTAATAATTT
Found at i:8971701 original size:90 final size:87
Alignment explanation
Indices: 8971532--8971694 Score: 204
Period size: 90 Copynumber: 1.8 Consensus size: 87
8971522 GAAAAAAATC
** *
8971532 AGGGGCTTAATTTTTTTTTGAAAATGTTTGAGGGTCTTTTTATGTATTTTGAAAGTTAAAGCACC
1 AGGGGCTTAATTTTTTTTTGAAAAAATTTGAGGGTCTTTTTATGTATTTTGAAACTTAAAGCACC
8971597 CAATTGAGAGCAAAAGATGGGT
66 CAATTGAGAGCAAAAGATGGGT
* * *
8971619 AGGGGCTTAATTGTTTTTTTTGAAAAAATTTG-GGGTTTTTTTTGATGTATTTT-AGCACTTTAA
1 AGGGGCTTAA-T-TTTTTTTTGAAAAAATTTGAGGG-TCTTTTT-ATGTATTTTGA-AACTTAAA
*
8971682 GTACCCAATTGAG
61 GCACCCAATTGAG
8971695 TACAAAAATA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
87 10 0.16
88 4 0.06
89 24 0.38
90 26 0.41
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.42
Consensus pattern (87 bp):
AGGGGCTTAATTTTTTTTTGAAAAAATTTGAGGGTCTTTTTATGTATTTTGAAACTTAAAGCACC
CAATTGAGAGCAAAAGATGGGT
Found at i:8973173 original size:91 final size:89
Alignment explanation
Indices: 8973057--8973266 Score: 312
Period size: 91 Copynumber: 2.3 Consensus size: 89
8973047 GTCCCTGCTT
* * * *
8973057 TTTTTTTTGTATTCAATTGGGTACTTGCACTATCAAAACGCATCGAAAAGGCCTTCAAACTTTTA
1 TTTTTTTTGCATTCAATTGGGTACTTGAACTACCAAAACGCATCGAAAAGGCCCTCAAACTTTT-
*
8973122 AAAAAAAAAGCAATTAAGCCCTTACA
65 -AAAAAAAAGCAATTAAGCCCCTACA
* * *
8973148 TTTTTTTTGCACTCAATTGGGTACTTGAACTACCAAAACGCATCTAAAAGGCCCTCAAACTTTTT
1 TTTTTTTTGCATTCAATTGGGTACTTGAACTACCAAAACGCATCGAAAAGGCCCTCAAACTTTTA
*
8973213 CAAAAAAGCAATTAAGCCCCTACA
66 AAAAAAAGCAATTAAGCCCCTACA
*
8973237 TCTTTTTTGCATTCAATTGGGTACTTGAAC
1 TTTTTTTTGCATTCAATTGGGTACTTGAAC
8973267 CACCCCTAAT
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
89 50 0.46
91 58 0.54
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (89 bp):
TTTTTTTTGCATTCAATTGGGTACTTGAACTACCAAAACGCATCGAAAAGGCCCTCAAACTTTTA
AAAAAAAGCAATTAAGCCCCTACA
Found at i:8974128 original size:90 final size:89
Alignment explanation
Indices: 8973868--8974129 Score: 257
Period size: 90 Copynumber: 2.9 Consensus size: 89
8973858 TGGCCAAAAA
*
8973868 GTCTTTTTGATGCA-TTTGACAGTTCAAGAACCCAATTGAGTG-AAAAAGAAATCAG-GAGCTTA
1 GTCTTTTTGATGCATTTTGACAGTTCAAGAA-CCAATTGAGTGCAAAAA-AAAGCAGAGA-CTTA
* * *
8973930 ATTGGTTTTTTTTGAAAAAGTTTGATG
63 ATTGCTTTTTTTTAAAAAAGTTTGAGG
* * * *
8973957 GTCTTTTTGATGCATTTTGAAAGTT-AAAACACTCAATTGAGTGCAAAAAAAGGGCA-AGGACAT
1 GTCTTTTTGATGCATTTTGACAGTTCAAGA-AC-CAATTGAGTGCAAAAAAA-AGCAGA-GACTT
* *
8974020 AATTGC-TTATTTGAAAAAAGTTTGAGG
62 AATTGCTTTTTTTTAAAAAAGTTTGAGG
* * * * * *
8974047 GTCTTTTTGATACATTTTGGCATTTCAAGTACCAATTTAGTGCAAAAATAAAGCAGAGACTTAAA
1 GTCTTTTTGATGCATTTTGACAGTTCAAGAACCAATTGAGTGCAAAAA-AAAGCAGAGACTTAAT
8974112 TGCTTTTTTTTTAAAAAA
65 TGC-TTTTTTTTAAAAAA
8974130 ATTGAGGATT
Statistics
Matches: 139, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
89 45 0.32
90 65 0.47
91 27 0.19
92 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (89 bp):
GTCTTTTTGATGCATTTTGACAGTTCAAGAACCAATTGAGTGCAAAAAAAAGCAGAGACTTAATT
GCTTTTTTTTAAAAAAGTTTGAGG
Found at i:8975121 original size:10 final size:10
Alignment explanation
Indices: 8975108--8975153 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
8975098 TTTTGATGCA
8975108 TTTTATAATTT
1 TTTTATAA-TT
**
8975119 TTTTATAAAA
1 TTTTATAATT
*
8975129 TTTTACAATT
1 TTTTATAATT
8975139 TTTTATAATT
1 TTTTATAATT
8975149 TTTTA
1 TTTTA
8975154 CGATTTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:8975140 original size:20 final size:20
Alignment explanation
Indices: 8975107--8975210 Score: 81
Period size: 20 Copynumber: 5.2 Consensus size: 20
8975097 TTTTTGATGC
*
8975107 ATTTTATAATTTTTTTATAAA
1 ATTTTACAA-TTTTTTATAAA
*
8975128 ATTTTACAATTTTTTATAAT
1 ATTTTACAATTTTTTATAAA
* *
8975148 TTTTTACGA-TTTTTATAAAA
1 ATTTTACAATTTTTTAT-AAA
* * *
8975168 AATTT-CTAGTTTTTAATAAA
1 ATTTTAC-AATTTTTTATAAA
8975188 A-TTTAC-ATTTTTTATTAAA
1 ATTTTACAATTTTTTA-TAAA
8975207 ATTT
1 ATTT
8975211 GATATTTCTT
Statistics
Matches: 65, Mismatches: 12, Indels: 13
0.72 0.13 0.14
Matches are distributed among these distances:
18 6 0.09
19 16 0.25
20 29 0.45
21 14 0.22
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTACAATTTTTTATAAA
Found at i:8975199 original size:19 final size:20
Alignment explanation
Indices: 8975109--8975210 Score: 77
Period size: 19 Copynumber: 5.2 Consensus size: 20
8975099 TTTGATGCAT
* *
8975109 TTTATAATTTTTTTATAAAA
1 TTTACAATTTTTTAATAAAA
**
8975129 TTTTACAATTTTTT-ATAATTT
1 -TTTACAATTTTTTAATAA-AA
*
8975150 TTTACGATTTTTATAA-AAAA
1 TTTACAATTTTT-TAATAAAA
* *
8975170 TTT-CTAGTTTTTAATAAAA
1 TTTACAATTTTTTAATAAAA
*
8975189 TTTAC-ATTTTTTATTAAAA
1 TTTACAATTTTTTAATAAAA
8975208 TTT
1 TTT
8975211 GATATTTCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
18 3 0.05
19 28 0.42
20 19 0.29
21 15 0.23
22 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTACAATTTTTTAATAAAA
Found at i:8975222 original size:20 final size:19
Alignment explanation
Indices: 8975184--8975222 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
8975174 TAGTTTTTAA
*
8975184 TAAAATTTACATTTTTTAT
1 TAAAATTTACATTTCTTAT
*
8975203 TAAAATTTGATATTTCTTAT
1 TAAAATTT-ACATTTCTTAT
8975223 ATTTTTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (19 bp):
TAAAATTTACATTTCTTAT
Found at i:8975536 original size:90 final size:89
Alignment explanation
Indices: 8975418--8975609 Score: 208
Period size: 90 Copynumber: 2.1 Consensus size: 89
8975408 TTGTTTTTTT
* * * *
8975418 AAAGTTTGAGCGTTTTTTTTATGCATTTTGAAAGTTAAAGCACCCAATTGAGTGCAAAAA-AAAG
1 AAAGTTTGAGGGTCTTTCTGATGCATTTTGAAAGTTAAAGCA-CCAATTGAGTGCAAAAATAAA-
* *
8975482 GGCAGGGGCTTAATTGCTTTTCTT-AA
64 -GAAAGGGCTTAATTGCTTTTCTTCAA
* ** * * *
8975508 AAAGTTTGAGGGTCTTTCTGATGTATTTTGGCATTTCAAGTACCAATTGAGTGCAAAAATAAAGA
1 AAAGTTTGAGGGTCTTTCTGATGCATTTTGAAAGTTAAAGCACCAATTGAGTGCAAAAATAAAGA
* * *
8975573 AATGGCTTAATTGTTTTTTTTCAA
66 AAGGGCTTAATTGCTTTTCTTCAA
8975597 AAAGTTTGAGGGT
1 AAAGTTTGAGGGT
8975610 TGTTTACACC
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
88 18 0.21
89 32 0.38
90 35 0.41
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.36
Consensus pattern (89 bp):
AAAGTTTGAGGGTCTTTCTGATGCATTTTGAAAGTTAAAGCACCAATTGAGTGCAAAAATAAAGA
AAGGGCTTAATTGCTTTTCTTCAA
Found at i:8979713 original size:23 final size:24
Alignment explanation
Indices: 8979681--8979737 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
8979671 AAACTTTTCT
* *
8979681 TTTAAGTTTAAATTT-AAATTAAG
1 TTTAAATTTAAATTTGAAATTAAA
*
8979704 TTTAAATTT-AATTTGAATTTAAA
1 TTTAAATTTAAATTTGAAATTAAA
*
8979727 TTTAAAATTAA
1 TTTAAATTTAA
8979738 TTAAAAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.18
23 22 0.79
24 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (24 bp):
TTTAAATTTAAATTTGAAATTAAA
Found at i:8979714 original size:12 final size:12
Alignment explanation
Indices: 8979681--8979737 Score: 64
Period size: 11 Copynumber: 4.9 Consensus size: 12
8979671 AAACTTTTCT
*
8979681 TTTAAGTTTAAA
1 TTTAAATTTAAA
*
8979693 TTTAAA-TTAAG
1 TTTAAATTTAAA
8979704 TTTAAATTT-AA
1 TTTAAATTTAAA
*
8979715 TTTGAATTTAAA
1 TTTAAATTTAAA
*
8979727 TTTAAAATTAA
1 TTTAAATTTAA
8979738 TTAAAAAACT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
11 19 0.51
12 18 0.49
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (12 bp):
TTTAAATTTAAA
Done.