Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 41 of 276
Found at i:12806303 original size:16 final size:16
Alignment explanation
Indices: 12806271--12806335 Score: 69
Period size: 16 Copynumber: 4.0 Consensus size: 16
12806261 TTATTATTTT
*
12806271 ATTTATATAAATAAAAA
1 ATTTAT-TAATTAAAAA
12806288 ATTTATTAATTAAAAA
1 ATTTATTAATTAAAAA
* * *
12806304 ACTTTA-AAATTAATAT
1 A-TTTATTAATTAAAAA
12806320 ATTTATTAATTAAAAA
1 ATTTATTAATTAAAAA
12806336 TAAATAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 4 0.10
16 25 0.64
17 10 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTATTAATTAAAAA
Found at i:12806555 original size:23 final size:24
Alignment explanation
Indices: 12806518--12806566 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
12806508 TAAAATCAAA
*
12806518 TTATTACCTTAATTTTCTATTTTT
1 TTATTACCTTAATTTTCCATTTTT
* *
12806542 TTATTAGC-TAATTTTCCCTTTTT
1 TTATTACCTTAATTTTCCATTTTT
12806565 TT
1 TT
12806567 CTCATTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.18, C:0.14, G:0.02, T:0.65
Consensus pattern (24 bp):
TTATTACCTTAATTTTCCATTTTT
Found at i:12808356 original size:19 final size:19
Alignment explanation
Indices: 12808322--12808358 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12808312 AACACTTAGG
* *
12808322 GGTATTTTGGTCATTTTCA
1 GGTATTTTGATAATTTTCA
12808341 GGTATTTTGATAATTTTC
1 GGTATTTTGATAATTTTC
12808359 TTTTATTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.19, T:0.54
Consensus pattern (19 bp):
GGTATTTTGATAATTTTCA
Found at i:12808700 original size:28 final size:27
Alignment explanation
Indices: 12808654--12808757 Score: 93
Period size: 28 Copynumber: 3.7 Consensus size: 27
12808644 ATATACATGT
* *
12808654 ATATGGCCCACTAAGCCCAATCTCTTTC
1 ATATGG-CCATTAGGCCCAATCTCTTTC
* *
12808682 ATATAGCCTATTAGGCCCAATCATATTT-
1 ATATGGCC-ATTAGGCCCAATC-TCTTTC
* * *
12808710 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGG-CCATTAGGCCC-AATCTCTTTC
12808739 ATATGGCCATTAGGCCCAA
1 ATATGGCCATTAGGCCCAA
12808758 ATCACATTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
27 4 0.07
28 42 0.69
29 15 0.25
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (27 bp):
ATATGGCCATTAGGCCCAATCTCTTTC
Found at i:12808751 original size:56 final size:57
Alignment explanation
Indices: 12808648--12808767 Score: 145
Period size: 56 Copynumber: 2.1 Consensus size: 57
12808638 AAATCCATAT
* * * *
12808648 ACATGTATATGGCCCACTAAGCCCAATCTCTTTCATATAGCCTATTAGGCCC-AATC
1 ACATTTATGTGGCCCACTAAGCCCAATCACATTCATATAGCCTATTAGGCCCAAATC
* * * *
12808704 ATATTTATGTGGCCCATTAGGCCCAAATCACATTCATATGGCC-ATTAGGCCCAAATC
1 ACATTTATGTGGCCCACTAAGCCC-AATCACATTCATATAGCCTATTAGGCCCAAATC
12808761 ACATTTA
1 ACATTTA
12808768 CAGTCATGCT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
56 28 0.53
57 25 0.47
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (57 bp):
ACATTTATGTGGCCCACTAAGCCCAATCACATTCATATAGCCTATTAGGCCCAAATC
Found at i:12808758 original size:28 final size:28
Alignment explanation
Indices: 12808679--12808765 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
12808669 CCCAATCTCT
* *
12808679 TTCATATAGCCTATTAGGCCC-AATCATA
1 TTCATATGGCC-ATTAGGCCCAAATCACA
* *
12808707 TTTATGTGGCCCATTAGGCCCAAATCACA
1 TTCATATGG-CCATTAGGCCCAAATCACA
12808736 TTCATATGGCCATTAGGCCCAAATCACA
1 TTCATATGGCCATTAGGCCCAAATCACA
12808764 TT
1 TT
12808766 TACAGTCATG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
28 36 0.71
29 15 0.29
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (28 bp):
TTCATATGGCCATTAGGCCCAAATCACA
Found at i:12814988 original size:20 final size:20
Alignment explanation
Indices: 12814963--12815006 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
12814953 AAAGAGAGTT
12814963 GTTTTCGTAAATCATCTACA
1 GTTTTCGTAAATCATCTACA
*
12814983 GTTTTCGTAAATCCTCTACA
1 GTTTTCGTAAATCATCTACA
12815003 GTTT
1 GTTT
12815007 AAATATCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (20 bp):
GTTTTCGTAAATCATCTACA
Found at i:12816493 original size:28 final size:28
Alignment explanation
Indices: 12816447--12816515 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
12816437 CACATACCTG
* *
12816447 TATATGG-CCACTATGCCCAATC-TCTT
1 TATATGGCCCATTATGCCCAATCATATT
12816473 TCATATGGCCCATTATGCCCAATCATATT
1 T-ATATGGCCCATTATGCCCAATCATATT
12816502 TATATGGCCCATTA
1 TATATGGCCCATTA
12816516 GGCTTAAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.03
27 6 0.16
28 27 0.71
29 4 0.11
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (28 bp):
TATATGGCCCATTATGCCCAATCATATT
Found at i:12816535 original size:29 final size:28
Alignment explanation
Indices: 12816472--12816558 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
12816462 CCCAATCTCT
* * *
12816472 TTCATATGGCCCATTATGCCCAATCATA
1 TTCATATGGCCCATTAGGCCAAATCACA
* *
12816500 TTTATATGGCCCATTAGGCTTAAATCACA
1 TTCATATGGCCCATTAGGC-CAAATCACA
*
12816529 TTCATAT-GTCCATTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGG-CCAAATCACA
12816557 TT
1 TT
12816559 TATAGTCATA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 36 0.73
29 13 0.27
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (28 bp):
TTCATATGGCCCATTAGGCCAAATCACA
Found at i:12820531 original size:22 final size:22
Alignment explanation
Indices: 12820461--12820533 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
12820451 CAAATCCTAA
* * *
12820461 ACCTTAAAACCTTGAACT-CAG
1 ACCTTAAAACCCTAAACTATAG
* * *
12820482 AACC-TAAAACACTAAACCATAA
1 -ACCTTAAAACCCTAAACTATAG
*
12820504 ATCTTAAAACCCTAAACTATAG
1 ACCTTAAAACCCTAAACTATAG
12820526 ACCTTAAA
1 ACCTTAAA
12820534 CATTAACCTT
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
21 12 0.32
22 26 0.68
ACGTcount: A:0.48, C:0.26, G:0.04, T:0.22
Consensus pattern (22 bp):
ACCTTAAAACCCTAAACTATAG
Found at i:12821673 original size:83 final size:83
Alignment explanation
Indices: 12821517--12821674 Score: 208
Period size: 83 Copynumber: 1.9 Consensus size: 83
12821507 ATTTTATTTT
** * * * * * *
12821517 AGGGGGCTAAAGTGTAATTTTATTATATATTAATTTATAATTTTTTATTTATAAGAAGACTGAAT
1 AGGGGGCTAAAGTGTAATTCAACTACATATTAATTTATAATTTTCTATTTATAAGAAGAATAAAA
*
12821582 TGACAATTTTTCTTTTGG
66 TGAAAATTTTTCTTTTGG
* * *
12821600 AGGGGGTTAAAGTGTAATTCAACTACGTATTAATTTATAATTTTCTATTTATAAGAGGAATAAAA
1 AGGGGGCTAAAGTGTAATTCAACTACATATTAATTTATAATTTTCTATTTATAAGAAGAATAAAA
12821665 TGAAAATTTT
66 TGAAAATTTT
12821675 CATTTTTGGG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
83 63 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (83 bp):
AGGGGGCTAAAGTGTAATTCAACTACATATTAATTTATAATTTTCTATTTATAAGAAGAATAAAA
TGAAAATTTTTCTTTTGG
Found at i:12823371 original size:40 final size:39
Alignment explanation
Indices: 12823273--12823535 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
12823263 TCCTCGTTCA
* * * *
12823273 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
12823312 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
12823351 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
12823391 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
12823431 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
12823471 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
12823512 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
12823536 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:12823495 original size:120 final size:119
Alignment explanation
Indices: 12823273--12823535 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
12823263 TCCTCGTTCA
* * *
12823273 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
12823338 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
12823391 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
12823456 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
12823512 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
12823536 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:12823544 original size:41 final size:41
Alignment explanation
Indices: 12823467--12823544 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
12823457 TTTGTATCTC
* * *
12823467 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
12823508 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
12823545 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:12831266 original size:39 final size:40
Alignment explanation
Indices: 12831221--12831392 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
12831211 GCTCCTCGTT
* * *
12831221 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
12831261 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
12831300 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
12831340 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
12831380 CAAATGCCTTCGG
1 CAAATGCCTTCGG
12831393 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:12831321 original size:40 final size:39
Alignment explanation
Indices: 12831223--12831445 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
12831213 TCCTCGTTCA
* * * *
12831223 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
12831262 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
12831301 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
12831341 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
12831381 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
12831422 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
12831446 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:12831405 original size:80 final size:79
Alignment explanation
Indices: 12831221--12831445 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
12831211 GCTCCTCGTT
* * * * *
12831221 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
12831285 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
12831300 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
12831365 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
12831380 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
12831444 GA
63 GA
12831446 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:12831454 original size:41 final size:41
Alignment explanation
Indices: 12831377--12831454 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
12831367 TTTGTATCTC
* * *
12831377 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
12831418 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
12831455 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:12838581 original size:43 final size:43
Alignment explanation
Indices: 12838518--12838725 Score: 344
Period size: 43 Copynumber: 4.8 Consensus size: 43
12838508 GTTTATTGGA
* *
12838518 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
12838561 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
12838604 AAAAGTGCCGCTAAACGTCAAGGCTTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAACGTCAAGGC-TTTTAGCGGCGTTTGTGGG
* *
12838648 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGCG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
12838691 TAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
12838726 CTTTTTTTAC
Statistics
Matches: 154, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
43 114 0.74
44 40 0.26
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:12838652 original size:87 final size:86
Alignment explanation
Indices: 12838518--12838725 Score: 344
Period size: 87 Copynumber: 2.4 Consensus size: 86
12838508 GTTTATTGGA
* *
12838518 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAG
*
12838583 GCTTTTAGCGGCGTTTGTGGG
66 GCTTTTAGCGGCGTTTGTGCG
* * *
12838604 AAAAGTGCCGCTAAACGTCAAGGCTTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAA
1 AAAAGCGCCGCTAAACGTCAAGGC-TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAA
12838669 GGCTTTTAGCGGCGTTTGTGCG
65 GGCTTTTAGCGGCGTTTGTGCG
*
12838691 TAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
12838726 CTTTTTTTAC
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
86 32 0.28
87 81 0.72
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (86 bp):
AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAG
GCTTTTAGCGGCGTTTGTGCG
Found at i:12838835 original size:31 final size:31
Alignment explanation
Indices: 12838800--12838880 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
12838790 CTTCCTGCAT
* *
12838800 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * *
12838831 TAAAATGCAGCCAAAAACAACAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
12838862 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
12838881 TATTAATTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 27 0.66
33 14 0.34
ACGTcount: A:0.63, C:0.19, G:0.02, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:12839201 original size:11 final size:11
Alignment explanation
Indices: 12839185--12839212 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
12839175 GTCGCCTCTT
12839185 CCTTCGTTCTA
1 CCTTCGTTCTA
12839196 CCTTCGTTCTA
1 CCTTCGTTCTA
12839207 CCTTCG
1 CCTTCG
12839213 CCTCCCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.39, G:0.11, T:0.43
Consensus pattern (11 bp):
CCTTCGTTCTA
Found at i:12839759 original size:33 final size:33
Alignment explanation
Indices: 12839717--12839779 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
12839707 TTCTCAGTTT
* **
12839717 TGAGTTGCAAGAAACCCAACTGAATAAGAGCGG
1 TGAGTTGCAAGAAAACCAACCAAATAAGAGCGG
12839750 TGAGTTGCAAGAAAACCAACCAAATAAGAG
1 TGAGTTGCAAGAAAACCAACCAAATAAGAG
12839780 AGGTTGCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.14
Consensus pattern (33 bp):
TGAGTTGCAAGAAAACCAACCAAATAAGAGCGG
Found at i:12842710 original size:21 final size:21
Alignment explanation
Indices: 12842686--12842731 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
12842676 GCTCGTGCCT
*
12842686 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
12842707 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
12842728 CTGC
1 CTGC
12842732 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:12848393 original size:9 final size:9
Alignment explanation
Indices: 12848379--12848604 Score: 134
Period size: 9 Copynumber: 24.6 Consensus size: 9
12848369 TATTTAAGTA
12848379 TTATGTAAG
1 TTATGTAAG
*
12848388 TTATGTAAT
1 TTATGTAAG
*
12848397 TTATGATATG
1 TTATG-TAAG
* * *
12848407 ATATAT-AT
1 TTATGTAAG
*
12848415 TTATGTAAA
1 TTATGTAAG
* *
12848424 TTATAT-AT
1 TTATGTAAG
*
12848432 TTATCTAAG
1 TTATGTAAG
*
12848441 TTATATAAG
1 TTATGTAAG
12848450 TTATGTAAG
1 TTATGTAAG
*
12848459 TTATGTAAA
1 TTATGTAAG
*
12848468 TTATGATATAAAA
1 TTATG---T-AAG
*
12848481 TATATTTAAG
1 T-TATGTAAG
12848491 TATTATGTAAG
1 --TTATGTAAG
12848502 TTATGTAAG
1 TTATGTAAG
* *
12848511 TTATAT-AT
1 TTATGTAAG
*
12848519 TTATCTAAG
1 TTATGTAAG
*
12848528 TTATATAAG
1 TTATGTAAG
*
12848537 TTATATAAG
1 TTATGTAAG
*
12848546 TTATGTAGG
1 TTATGTAAG
* *
12848555 TTGTATAAG
1 TTATGTAAG
12848564 TTATGTAAG
1 TTATGTAAG
* *
12848573 TTATATATG
1 TTATGTAAG
*
12848582 TTATATAAG
1 TTATGTAAG
*
12848591 TTATGTAAA
1 TTATGTAAG
12848600 TTATG
1 TTATG
12848605 ATATCAAATA
Statistics
Matches: 169, Mismatches: 37, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
8 16 0.09
9 129 0.76
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:12848457 original size:71 final size:69
Alignment explanation
Indices: 12848379--12848635 Score: 242
Period size: 71 Copynumber: 3.8 Consensus size: 69
12848369 TATTTAAGTA
* * * * *
12848379 TTATGTAAGTTATGTAATTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
12848443 ATATAAG
64 ATAT-AG
* *
12848450 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
12848515 ATAT
66 ATAG
* * * * * * * *
12848519 TTATCTAAGTTATAT-AAGT-T-ATAT-AAGT-TATGT-AG-GTTGTATAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
12848577 ATATG
66 ATA-G
* * * *
12848582 TTATATAAGTTATGTAAATTATGATATCAAATATATTTATGTATTATGTAAGTT
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATATAAGTT
12848636 TTTTATTTCA
Statistics
Matches: 151, Mismatches: 26, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
62 23 0.15
63 15 0.10
64 7 0.05
65 4 0.03
66 8 0.05
67 4 0.03
68 7 0.05
69 21 0.14
70 24 0.16
71 38 0.25
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Found at i:12848458 original size:18 final size:18
Alignment explanation
Indices: 12848379--12848604 Score: 152
Period size: 18 Copynumber: 12.3 Consensus size: 18
12848369 TATTTAAGTA
* *
12848379 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
12848397 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
12848415 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
12848432 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
12848450 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
12848468 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
12848491 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
12848511 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
12848528 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
12848546 TTATGTAGGTTGTATAAG
1 TTATGTAAGTTATATAAG
*
12848564 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
12848582 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
12848600 TTATG
1 TTATG
12848605 ATATCAAATA
Statistics
Matches: 165, Mismatches: 33, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
17 37 0.22
18 95 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:12848471 original size:27 final size:27
Alignment explanation
Indices: 12848432--12848604 Score: 150
Period size: 27 Copynumber: 6.2 Consensus size: 27
12848422 AATTATATAT
*
12848432 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
12848459 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
12848491 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
12848519 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
12848546 TTATGTAGGTTGTATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
12848573 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
12848600 TTATG
1 TTATG
12848605 ATATCAAATA
Statistics
Matches: 117, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 22 0.19
27 56 0.48
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.46
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:12848489 original size:114 final size:114
Alignment explanation
Indices: 12848355--12848576 Score: 304
Period size: 114 Copynumber: 1.9 Consensus size: 114
12848345 ACTAGTTATG
* * * *
12848355 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
12848419 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
12848469 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * * *
12848534 AAGTTATATAAGTTATGTAGGTTGTATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
12848577 ATATGTTATA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 72 0.77
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:12848729 original size:15 final size:15
Alignment explanation
Indices: 12848709--12848764 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
12848699 AAGTAGCGGG
12848709 ATTAAATAATATTTA
1 ATTAAATAATATTTA
12848724 ATTAAATAATATTT-
1 ATTAAATAATATTTA
12848738 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
12848753 ATTAAATAATAT
1 ATTAAATAATAT
12848765 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:12848969 original size:24 final size:24
Alignment explanation
Indices: 12848941--12849008 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
12848931 ACTTAAATGG
12848941 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
12848965 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
12848989 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
12849009 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:12851090 original size:134 final size:133
Alignment explanation
Indices: 12850920--12851172 Score: 461
Period size: 134 Copynumber: 1.9 Consensus size: 133
12850910 GAATTCAACA
12850920 ATATAAAACGTAAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTAAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
12850985 TAAGTTGAATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTT
66 TAAGTTGAATAGAAACATG-AAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTT
12851050 TATT
130 TATT
*
12851054 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTAAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
* * *
12851119 TAAGTTGGATAGAAGCATGAAAACAGACCAAAATAACATCTAAATAACCAAAAT
66 TAAGTTGAATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAAT
12851173 GGATCACCAT
Statistics
Matches: 115, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
133 34 0.30
134 81 0.70
ACGTcount: A:0.52, C:0.19, G:0.09, T:0.20
Consensus pattern (133 bp):
ATATAAAACGTAAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGAATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
ATT
Found at i:12854337 original size:14 final size:14
Alignment explanation
Indices: 12854318--12854351 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
12854308 ATTAAACCTG
12854318 CTTAAACCATATAT-
1 CTTAAACCATA-ATC
12854332 CTTAAACCATAATC
1 CTTAAACCATAATC
12854346 CTTAAA
1 CTTAAA
12854352 ATATAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
CTTAAACCATAATC
Found at i:12854579 original size:41 final size:41
Alignment explanation
Indices: 12854516--12854653 Score: 152
Period size: 41 Copynumber: 3.4 Consensus size: 41
12854506 GTTATAGGGT
* ** *
12854516 TTTTAGCGGCATTTTACCTAAAGCGCCGCTAATGCTCTGGG
1 TTTTAGCGGCGTTTTAGATAAAGCGCCGCTAATGCTCTAGG
* * *
12854557 TTTTAGCGGCGCTTTAGGTAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTAGATAAAGCGCCGCTAATGCTCTAGG
* * * *
12854598 TTTTAGCGGCGTTTTAGAAAAAAACGCCGCTAATGCTAT-GT
1 TTTTAGCGGCGTTTTAG-ATAAAGCGCCGCTAATGCTCTAGG
*
12854639 TTTTACCGGCGTTTT
1 TTTTAGCGGCGTTTT
12854654 TTTGGAACGC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 67 0.80
42 17 0.20
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTAGATAAAGCGCCGCTAATGCTCTAGG
Found at i:12859331 original size:17 final size:18
Alignment explanation
Indices: 12859301--12859334 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
12859291 GATATGAGGA
12859301 AATTGAGAAATGATGATG
1 AATTGAGAAATGATGATG
12859319 AATTGAG-AATGATGAT
1 AATTGAGAAATGATGAT
12859335 ATGTGAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.29
Consensus pattern (18 bp):
AATTGAGAAATGATGATG
Found at i:12860944 original size:27 final size:27
Alignment explanation
Indices: 12860906--12860959 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
12860896 GGGAAGGTAG
12860906 AACCTTTGTTGAATTGTAGATATTTAT
1 AACCTTTGTTGAATTGTAGATATTTAT
12860933 AACCTTTGTTGAATTGTAGATATTTAT
1 AACCTTTGTTGAATTGTAGATATTTAT
12860960 CTCAAATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (27 bp):
AACCTTTGTTGAATTGTAGATATTTAT
Found at i:12861407 original size:6 final size:6
Alignment explanation
Indices: 12861389--12861442 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
12861379 GCAAATGGAT
* * * *
12861389 CATTTCC CATTTT CATTTT CATTTT CATTTC CGTTTC CATTTC CATTTC
1 CATTT-C CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
12861438 CATTT
1 CATTT
12861443 TTGAGAAACA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
6 38 0.88
7 5 0.12
ACGTcount: A:0.15, C:0.28, G:0.02, T:0.56
Consensus pattern (6 bp):
CATTTC
Found at i:12864150 original size:20 final size:22
Alignment explanation
Indices: 12864111--12864161 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 22
12864101 GAAAGTAATG
12864111 AAAATT-TATTTTCTTAGAA-T
1 AAAATTCTATTTTCTTAGAATT
12864131 -AAATTCTATTTTC-TAGGAATT
1 AAAATTCTATTTTCTTA-GAATT
12864152 AAAATTCTAT
1 AAAATTCTAT
12864162 CGGTTTCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 7 0.26
20 10 0.37
21 1 0.04
22 9 0.33
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (22 bp):
AAAATTCTATTTTCTTAGAATT
Found at i:12866140 original size:18 final size:19
Alignment explanation
Indices: 12866112--12866156 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
12866102 TGAATTTGTG
12866112 TAAAAAAATAA-ATA-AAA
1 TAAAAAAATAACATAGAAA
*
12866129 TATAAAATATAACATAGAAA
1 TA-AAAAAATAACATAGAAA
12866149 TAAAAAAA
1 TAAAAAAA
12866157 AGGTAATGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 8 0.35
19 8 0.35
20 5 0.22
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
TAAAAAAATAACATAGAAA
Found at i:12882946 original size:7 final size:6
Alignment explanation
Indices: 12882892--12882939 Score: 71
Period size: 6 Copynumber: 7.8 Consensus size: 6
12882882 TTGGCCTCTC
12882892 CTTTTT CTTTTT CTTTTT -TTTTT CTTTTT CATTTTT CATTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C-TTTTT C-TTTTT CTTTT
12882940 CGTTTTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.12
6 22 0.55
7 13 0.32
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:12882947 original size:20 final size:20
Alignment explanation
Indices: 12882893--12882939 Score: 73
Period size: 17 Copynumber: 2.5 Consensus size: 20
12882883 TGGCCTCTCC
12882893 TTTTTCTTTTTC-TTTTT--
1 TTTTTCTTTTTCATTTTTCA
12882910 TTTTTCTTTTTCATTTTTCA
1 TTTTTCTTTTTCATTTTTCA
12882930 TTTTTCTTTT
1 TTTTTCTTTT
12882940 CGTTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.44
18 5 0.19
20 10 0.37
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTCTTTTTCATTTTTCA
Found at i:12883403 original size:11 final size:11
Alignment explanation
Indices: 12883389--12883442 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
12883379 TTTTATTTGG
*
12883389 TTTTTTTGTTT
1 TTTTTTTCTTT
12883400 TTTTTTTCTTT
1 TTTTTTTCTTT
*
12883411 TTATTTTCTCATT
1 TT-TTTT-TCTTT
*
12883424 TTTTTTACTTT
1 TTTTTTTCTTT
12883435 TTTTTTTC
1 TTTTTTTC
12883443 CCCCACTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 22 0.61
12 8 0.22
13 6 0.17
ACGTcount: A:0.06, C:0.09, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:12884796 original size:62 final size:62
Alignment explanation
Indices: 12884692--12884875 Score: 323
Period size: 62 Copynumber: 3.0 Consensus size: 62
12884682 CTAAACTCGA
* * *
12884692 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
12884754 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATAAAATGTAATGTTAATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
12884816 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGAATGAA
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAA
12884876 GAGATACGTG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 116 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:12886999 original size:20 final size:20
Alignment explanation
Indices: 12886976--12887022 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
12886966 AGATACATAT
* *
12886976 ATATATAACAAGACGTATAG
1 ATATATAACAAGACATAAAG
* *
12886996 ATATATAATAAGATATAAAG
1 ATATATAACAAGACATAAAG
12887016 ATATATA
1 ATATATA
12887023 TAAATAGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.04, G:0.11, T:0.30
Consensus pattern (20 bp):
ATATATAACAAGACATAAAG
Found at i:12887429 original size:120 final size:120
Alignment explanation
Indices: 12887216--12887457 Score: 466
Period size: 120 Copynumber: 2.0 Consensus size: 120
12887206 AACTTAGGGG
12887216 GGGCAAAATTAAAAGTAGAAAACACAAAAAGGCTAAATCGTGACGCGCGCAAAAAAAGAAGGGAC
1 GGGCAAAATTAAAAGTAGAAAACACAAAAAGGCTAAATCGTGACGCGCGCAAAAAAAGAAGGGAC
*
12887281 CGAATGGGTAATAAAACCCAAATTCGGACACATGTCTGTCGTTTCAGCCGTCGGT
66 CGAATGGGTAATAAAACCCAAATTCGGACACATGTCTGTCGTTTCAGCCATCGGT
12887336 GGGCAAAATTAAAAGTAGAAAACACAAAAAGGCTAAATCGTGACGCGCGCAAAAAAAGAAGGGAC
1 GGGCAAAATTAAAAGTAGAAAACACAAAAAGGCTAAATCGTGACGCGCGCAAAAAAAGAAGGGAC
*
12887401 TGAATGGGTAATAAAACCCAAATTCGGACACATGTCTGTCGTTTCAGCCATCGGT
66 CGAATGGGTAATAAAACCCAAATTCGGACACATGTCTGTCGTTTCAGCCATCGGT
12887456 GG
1 GG
12887458 ACCAAGGACT
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (120 bp):
GGGCAAAATTAAAAGTAGAAAACACAAAAAGGCTAAATCGTGACGCGCGCAAAAAAAGAAGGGAC
CGAATGGGTAATAAAACCCAAATTCGGACACATGTCTGTCGTTTCAGCCATCGGT
Found at i:12887939 original size:36 final size:36
Alignment explanation
Indices: 12887892--12887962 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
12887882 AAAAACTTCA
12887892 GATCTGACCCTTTCTAACCCCCTAGGCCCGAATCCG
1 GATCTGACCCTTTCTAACCCCCTAGGCCCGAATCCG
*
12887928 GATCTGACCCTTTCTAACCCCCTAGGCCCGGATCC
1 GATCTGACCCTTTCTAACCCCCTAGGCCCGAATCC
12887963 ACTTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.18, C:0.42, G:0.17, T:0.23
Consensus pattern (36 bp):
GATCTGACCCTTTCTAACCCCCTAGGCCCGAATCCG
Found at i:12888398 original size:49 final size:49
Alignment explanation
Indices: 12888326--12888423 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
12888316 TGTTGTCTAC
12888326 TTGTTGCAGGTGGTGGGTACAGTGGAGTAGGTGGGAGTGTCAGACGCGT
1 TTGTTGCAGGTGGTGGGTACAGTGGAGTAGGTGGGAGTGTCAGACGCGT
12888375 TTGTTGCAGGTGGTGGGTACAGTGGAGTAGGTGGGAGTGTCAGACGCGT
1 TTGTTGCAGGTGGTGGGTACAGTGGAGTAGGTGGGAGTGTCAGACGCGT
12888424 GGGGCGTGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.16, C:0.10, G:0.47, T:0.27
Consensus pattern (49 bp):
TTGTTGCAGGTGGTGGGTACAGTGGAGTAGGTGGGAGTGTCAGACGCGT
Found at i:12888895 original size:41 final size:41
Alignment explanation
Indices: 12888850--12888931 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
12888840 CAATAAAGAA
12888850 AAAAAATTGAAGGCCTCAGTTTCAAAATGGCTTCAATGAGG
1 AAAAAATTGAAGGCCTCAGTTTCAAAATGGCTTCAATGAGG
12888891 AAAAAATTGAAGGCCTCAGTTTCAAAATGGCTTCAATGAGG
1 AAAAAATTGAAGGCCTCAGTTTCAAAATGGCTTCAATGAGG
12888932 CTCCTTGCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (41 bp):
AAAAAATTGAAGGCCTCAGTTTCAAAATGGCTTCAATGAGG
Found at i:12890103 original size:74 final size:74
Alignment explanation
Indices: 12889982--12890128 Score: 267
Period size: 74 Copynumber: 2.0 Consensus size: 74
12889972 ATTTTGGTTC
* *
12889982 GTCAGCTATCGGACTCGGGATTATTGAAGTCGAAGTTGCCCACACTATCAAAGCCCCTTTTGGTA
1 GTCAGCTATCGGACTCGGGATGATTGAAGTCGAAGTCGCCCACACTATCAAAGCCCCTTTTGGTA
*
12890047 CACTTTTGT
66 AACTTTTGT
12890056 GTCAGCTATCGGACTCGGGATGATTGAAGTCGAAGTCGCCCACACTATCAAAGCCCCTTTTGGTA
1 GTCAGCTATCGGACTCGGGATGATTGAAGTCGAAGTCGCCCACACTATCAAAGCCCCTTTTGGTA
12890121 AACTTTTG
66 AACTTTTG
12890129 GTTGAACTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (74 bp):
GTCAGCTATCGGACTCGGGATGATTGAAGTCGAAGTCGCCCACACTATCAAAGCCCCTTTTGGTA
AACTTTTGT
Found at i:12891990 original size:40 final size:40
Alignment explanation
Indices: 12891887--12892877 Score: 1842
Period size: 40 Copynumber: 24.8 Consensus size: 40
12891877 CGATTGATAC
* * *
12891887 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-A
* *
12891927 CCGGGCTAAG-CCCGAAGGCATTTGTTCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
12891966 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892006 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892046 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892086 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892126 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892166 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892206 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892246 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892286 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892326 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892366 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892406 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892446 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892486 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892526 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892566 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892606 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892646 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
12892686 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
12892726 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
12892766 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATTA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
12892806 CCGGGCTAAGTCCCGAACGCATTTGTGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
12892846 CCGGGCTAAGTCCCGAAAGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
12892878 AGCTATGTCC
Statistics
Matches: 936, Mismatches: 13, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
39 34 0.04
40 902 0.96
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:12900683 original size:40 final size:40
Alignment explanation
Indices: 12900628--12900834 Score: 328
Period size: 40 Copynumber: 5.2 Consensus size: 40
12900618 GGATGATAAT
12900628 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
12900668 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
12900708 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
12900748 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
12900788 CGGGCTAAGTCCCGAAGACATTTGAGCGAG-TAGCTATGTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
12900828 C-GGCTAA
1 CGGGCTAA
12900835 ATTCCAAAGG
Statistics
Matches: 155, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 7 0.05
40 148 0.95
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:12920233 original size:34 final size:34
Alignment explanation
Indices: 12920189--12920264 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
12920179 CTCAATGTAC
12920189 AAAGATAGATGTTAGAGAATAAAAATAACATAGGG
1 AAAGA-AGATGTTAGAGAATAAAAATAACATAGGG
*
12920224 AAAGAAGATGTTAGAGAATAAAAATAAGATAGGG
1 AAAGAAGATGTTAGAGAATAAAAATAACATAGGG
12920258 AAAGAAG
1 AAAGAAG
12920265 TGAAACTTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 35 0.88
35 5 0.12
ACGTcount: A:0.57, C:0.01, G:0.25, T:0.17
Consensus pattern (34 bp):
AAAGAAGATGTTAGAGAATAAAAATAACATAGGG
Found at i:12924834 original size:47 final size:47
Alignment explanation
Indices: 12924780--12924875 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
12924770 GTTGAATTTA
*
12924780 AAGCTTGTTAAATTTGCTCTTAATACTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATACTTCCAGATAAGTTACTTAGTT
* * *
12924827 AAGCTTGTTAAATTTTCCCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATACTTCCAGATAAGTTACTTAGTT
12924874 AA
1 AA
12924876 AGAAAATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATACTTCCAGATAAGTTACTTAGTT
Found at i:12926198 original size:31 final size:31
Alignment explanation
Indices: 12926147--12926230 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
12926137 TTAGTCTTGA
* *
12926147 CATAT-ACTGGGCCAAAGCCTTTCCATAAAT
1 CATATCACTAGGCCGAAGCCTTTCCATAAAT
* *
12926177 CATATCAGTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTCCATAAAT
*
12926208 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
12926231 ACTATAAACG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 5 0.11
31 42 0.89
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTCCATAAAT
Found at i:12926313 original size:42 final size:42
Alignment explanation
Indices: 12926254--12926345 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
12926244 TGGCCCTTAG
*
12926254 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
12926296 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
12926338 GCCCATTT
1 GCCCATTT
12926346 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:12926507 original size:24 final size:24
Alignment explanation
Indices: 12926480--12926561 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
12926470 GTGGAGGCCT
*
12926480 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTAGGGCAA
*
12926504 AGCCCTTTCTGATAAACTAGGGCAA
1 AGCCCTTT-TAATAAACTAGGGCAA
* ** * *
12926529 AACCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTAGGGCAA
12926554 AGCCCTTT
1 AGCCCTTT
12926562 CAGCACTTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
23 4 0.08
24 8 0.17
25 36 0.75
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTAGGGCAA
Found at i:12926526 original size:25 final size:26
Alignment explanation
Indices: 12926493--12926562 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
12926483 CTCTTTTAAT
12926493 AACTGGGGCAAAGCCCTTTCT-GATA
1 AACTGGGGCAAAGCCCTTTCTCGATA
* * *
12926518 AACTAGGGCAAAACCCTTT-TCGGTA
1 AACTGGGGCAAAGCCCTTTCTCGATA
*
12926543 AACTGGGGCAGAGCCCTTTC
1 AACTGGGGCAAAGCCCTTTC
12926563 AGCACTTCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTCTCGATA
Found at i:12929752 original size:45 final size:45
Alignment explanation
Indices: 12929688--12929891 Score: 288
Period size: 45 Copynumber: 4.6 Consensus size: 45
12929678 CGCACAGTAT
* *
12929688 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGATAC
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
12929733 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCAGGTAAGATAC
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
12929778 TATTTGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * * *
12929823 TATTCGGGCTTTCGAGCCTAGTAGGCTATGATGCCGGTGAAATGA-
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT-AC
12929868 TA-TCGGGC-TTTGAGCCTAGCAGGC
1 TATTCGGGCTTTTGAGCCTAGCAGGC
12929892 GAAATGCTCG
Statistics
Matches: 144, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
43 14 0.10
44 6 0.04
45 123 0.85
46 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:12938701 original size:39 final size:39
Alignment explanation
Indices: 12938647--12938723 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
12938637 CCCGGAAAAC
*
12938647 GAGATTTGAACCTAGAATTAGAGAAAAATCCAAAATTGA
1 GAGATTTGAACCTAGAATGAGAGAAAAATCCAAAATTGA
* *
12938686 GAGATTTGAACCTAGAATGAGAGAAAATTCGAAAATTG
1 GAGATTTGAACCTAGAATGAGAGAAAAATCCAAAATTG
12938724 GGAAAGTTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.23
Consensus pattern (39 bp):
GAGATTTGAACCTAGAATGAGAGAAAAATCCAAAATTGA
Found at i:12939467 original size:67 final size:67
Alignment explanation
Indices: 12939383--12939546 Score: 319
Period size: 67 Copynumber: 2.4 Consensus size: 67
12939373 TACTATGTGT
12939383 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
12939448 GG
66 GG
12939450 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
12939515 GG
66 GG
*
12939517 ACACCATGTAGACAAGAGAGCTACGAGATA
1 ACACCATGTAGACAAGAGAGCTACGGGATA
12939547 AACTGGGTAG
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 96 1.00
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (67 bp):
ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
GG
Found at i:12942433 original size:43 final size:43
Alignment explanation
Indices: 12942378--12942459 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
12942368 CCCGGAAAAC
*
12942378 GAGATTTGAACCTAGAATTAGAGAAAAATCCAAAATTGGAAAT
1 GAGATTTGAACCTAGAATGAGAGAAAAATCCAAAATTGGAAAT
* *
12942421 GAGATTTGAACCTAGAATGAGAGAAAATTCGAAAATTGG
1 GAGATTTGAACCTAGAATGAGAGAAAAATCCAAAATTGG
12942460 GAAAGTTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (43 bp):
GAGATTTGAACCTAGAATGAGAGAAAAATCCAAAATTGGAAAT
Found at i:12943202 original size:67 final size:67
Alignment explanation
Indices: 12943118--12943281 Score: 319
Period size: 67 Copynumber: 2.4 Consensus size: 67
12943108 TACTATGTGT
12943118 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
12943183 GG
66 GG
12943185 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
12943250 GG
66 GG
*
12943252 ACACCATGTAGACAAGAGAGCTACGAGATA
1 ACACCATGTAGACAAGAGAGCTACGGGATA
12943282 AACTGGCTAG
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 96 1.00
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (67 bp):
ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
GG
Found at i:12946962 original size:27 final size:27
Alignment explanation
Indices: 12946928--12947127 Score: 274
Period size: 27 Copynumber: 7.4 Consensus size: 27
12946918 TGGATAAGTT
* *
12946928 GTAGAATTAACGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
12946955 GTAAAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
12946982 GTAGAATTATTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
12947009 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
12947036 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
12947063 GTAGAAATACCAAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
12947090 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
12947117 GTAAAATTACC
1 GTAGAATTACC
12947128 ATTTTGCCCC
Statistics
Matches: 151, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:12947818 original size:27 final size:26
Alignment explanation
Indices: 12947774--12947825 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
12947764 CTCGCTGCAA
*
12947774 TCTGGTGGCCTTGGCACATATATCTGT
1 TCTGGTGACCTTGGCACA-ATATCTGT
* *
12947801 TCTGGTGACTTTGTCACAATATCTG
1 TCTGGTGACCTTGGCACAATATCTG
12947826 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (26 bp):
TCTGGTGACCTTGGCACAATATCTGT
Found at i:12948917 original size:17 final size:17
Alignment explanation
Indices: 12948897--12948948 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 17
12948887 ATCTTTTCCA
12948897 TCTATCTTATTTATTGT
1 TCTATCTTATTTATTGT
12948914 TCTAACTCTTTAATTTATTGT
1 TCT-A-TC-TT-ATTTATTGT
*
12948935 TCTATTTTATTTAT
1 TCTATCTTATTTAT
12948949 ATTAGTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 9 0.30
18 3 0.10
19 3 0.10
20 3 0.10
21 12 0.40
ACGTcount: A:0.21, C:0.12, G:0.04, T:0.63
Consensus pattern (17 bp):
TCTATCTTATTTATTGT
Found at i:12950298 original size:47 final size:47
Alignment explanation
Indices: 12950231--12950350 Score: 120
Period size: 47 Copynumber: 2.6 Consensus size: 47
12950221 GTGAGCCAGT
* * * *
12950231 GTAAAACATGTTTGGGACATGCATCAGCCACAT-TG-CGAGAGCTACT
1 GTAAGACATGTCTGGGACATGCATCAGCCA-ATGAGACGAGAGCTACA
* * *
12950277 GTAAGACCATGTCTGGGACATGGCATC-GGCAGTGAGACGAGAGCTAGA
1 GTAAGA-CATGTCTGGGACAT-GCATCAGCCAATGAGACGAGAGCTACA
*
12950325 GTAAGACATGTCTGAGACATGCATCA
1 GTAAGACATGTCTGGGACATGCATCA
12950351 ACCTCGAGAT
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
46 11 0.18
47 30 0.49
48 20 0.33
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (47 bp):
GTAAGACATGTCTGGGACATGCATCAGCCAATGAGACGAGAGCTACA
Found at i:12950378 original size:46 final size:44
Alignment explanation
Indices: 12950325--12950441 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 44
12950315 GAGAGCTAGA
12950325 GTAAGACATGTCTGAGACATGCATCAACCT-CGAGATGTAAGCCAGT
1 GTAAGACATGTCTGAGACATGCATC-ACCTACGAG-T-TAAGCCAGT
* ** *
12950371 GTAAGACATGTCT-AGGACATGTATCGGCTACGAGTTAAGCTAGT
1 GTAAGACATGTCTGA-GACATGCATCACCTACGAGTTAAGCCAGT
*
12950415 GTAAGACCATGTCTGGGACATGGCATC
1 GTAAGA-CATGTCTGAGACAT-GCATC
12950442 GGTATCCTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
44 14 0.23
45 16 0.27
46 30 0.50
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (44 bp):
GTAAGACATGTCTGAGACATGCATCACCTACGAGTTAAGCCAGT
Found at i:12951344 original size:6 final size:6
Alignment explanation
Indices: 12951308--12951337 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
12951298 TTATTATTAA
12951308 TTATTT TTATTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
12951338 AGTTTTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:12954666 original size:11 final size:11
Alignment explanation
Indices: 12954650--12954681 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
12954640 TTTTATATGA
12954650 TATTTTATTAT
1 TATTTTATTAT
12954661 TATTTTATTAT
1 TATTTTATTAT
12954672 TATTTTATTA
1 TATTTTATTA
12954682 GTATATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:12956281 original size:16 final size:16
Alignment explanation
Indices: 12956260--12956297 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
12956250 GCATATAGAA
12956260 TTTGATTTATGTTAAG
1 TTTGATTTATGTTAAG
12956276 TTTGATTTATGTTAAG
1 TTTGATTTATGTTAAG
12956292 TTTGAT
1 TTTGAT
12956298 ATGAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (16 bp):
TTTGATTTATGTTAAG
Found at i:12959229 original size:20 final size:20
Alignment explanation
Indices: 12959204--12959241 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12959194 AAAAGCATAC
*
12959204 AAAATTTTAAAAATATATTA
1 AAAATTATAAAAATATATTA
*
12959224 AAAATTATAAAATTATAT
1 AAAATTATAAAAATATAT
12959242 AGAATTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTATAAAAATATATTA
Found at i:12959671 original size:18 final size:18
Alignment explanation
Indices: 12959630--12959671 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
12959620 GAGATTATTA
12959630 TATTATAAATTTTATATG
1 TATTATAAATTTTATATG
* *
12959648 TCTTATAATTTTTATGAT-
1 TATTATAAATTTTAT-ATG
12959666 TATTAT
1 TATTAT
12959672 GTTTATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (18 bp):
TATTATAAATTTTATATG
Found at i:12959752 original size:19 final size:19
Alignment explanation
Indices: 12959728--12959811 Score: 62
Period size: 20 Copynumber: 4.3 Consensus size: 19
12959718 ATATTTCTAT
*
12959728 ATTTTTTAA-TTTTTATAA
1 ATTTTTAAATTTTTTATAA
12959746 CATTTTTAAATTTTTTATAA
1 -ATTTTTAAATTTTTTATAA
** * *
12959766 ATTTAAAATATTTTTTTCTAT
1 ATTTTTAA-A-TTTTTTATAA
* *
12959787 ATTTTTAGATTTTCTAATAA
1 ATTTTTAAATTTT-TTATAA
12959807 ATTTT
1 ATTTT
12959812 CTTTTATAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
19 18 0.36
20 19 0.38
21 13 0.26
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (19 bp):
ATTTTTAAATTTTTTATAA
Found at i:12959849 original size:18 final size:17
Alignment explanation
Indices: 12959814--12959862 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
12959804 TAAATTTTCT
12959814 TTTATAA-A-TTTTATA
1 TTTATAATATTTTTATA
12959829 TTTCAT-ATATTTTTATAA
1 TTT-ATAATATTTTTAT-A
*
12959847 TTTTTAATATTTTTAT
1 TTTATAATATTTTTAT
12959863 TGATTAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 4 0.14
16 3 0.11
17 7 0.25
18 14 0.50
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTATAATATTTTTATA
Found at i:12961100 original size:19 final size:20
Alignment explanation
Indices: 12961070--12961134 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
12961060 AAAATATAAA
*
12961070 ATTTAGAATTTTTATAAA-T
1 ATTTTGAATTTTTATAAATT
* *
12961089 ATTTTG-AGTTTTAGAAATT
1 ATTTTGAATTTTTATAAATT
12961108 ATTTTGAATTTTTGA-AAATT
1 ATTTTGAATTTTT-ATAAATT
12961128 ATTTTGA
1 ATTTTGA
12961135 TTCTTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
18 9 0.23
19 12 0.31
20 17 0.44
21 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:12961126 original size:20 final size:20
Alignment explanation
Indices: 12961070--12961134 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 20
12961060 AAAATATAAA
*
12961070 ATTTAGAATTTTT-ATAAA-T
1 ATTTTGAATTTTTGA-AAATT
* *
12961089 ATTTTGAGTTTTAG-AAATT
1 ATTTTGAATTTTTGAAAATT
12961108 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
12961128 ATTTTGA
1 ATTTTGA
12961135 TTCTTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 3 0.08
19 23 0.61
20 12 0.32
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:12962242 original size:11 final size:11
Alignment explanation
Indices: 12962220--12962270 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
12962210 AACTAATCCT
12962220 CTCTCAAATTTC
1 CTCTC-AATTTC
12962232 CTCTCAATTTC
1 CTCTCAATTTC
*
12962243 CTCTTAATTTC
1 CTCTCAATTTC
*
12962254 CTCTCAAGTTC
1 CTCTCAATTTC
12962265 CT-TCAA
1 CTCTCAA
12962271 AAATTCTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
10 4 0.11
11 27 0.75
12 5 0.14
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:12962293 original size:11 final size:11
Alignment explanation
Indices: 12962274--12962315 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
12962264 CCTTCAAAAA
12962274 TTCTCTTAAGT
1 TTCTCTTAAGT
*
12962285 TTTTCTTAAGT
1 TTCTCTTAAGT
*
12962296 TCCTCTTAAGT
1 TTCTCTTAAGT
12962307 TTCTCTTAA
1 TTCTCTTAA
12962316 CTCTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.55
Consensus pattern (11 bp):
TTCTCTTAAGT
Found at i:12962346 original size:24 final size:24
Alignment explanation
Indices: 12962319--12962364 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12962309 CTCTTAACTC
*
12962319 TATTTTTTTAAATAATTTTAAAAA
1 TATTTTTTAAAATAATTTTAAAAA
**
12962343 TATTTTTTAAAATTTTTTTAAA
1 TATTTTTTAAAATAATTTTAAA
12962365 CCGTAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTTTTTAAAATAATTTTAAAAA
Found at i:12962360 original size:12 final size:12
Alignment explanation
Indices: 12962319--12962364 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
12962309 CTCTTAACTC
*
12962319 TATTTTTTTAAA
1 TATTTTTTAAAA
* *
12962331 TAATTTTAAAAA
1 TATTTTTTAAAA
12962343 TATTTTTTAAAA
1 TATTTTTTAAAA
12962355 T-TTTTTTAAA
1 TATTTTTTAAA
12962365 CCGTAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTTTTTAAAA
Found at i:12962992 original size:3 final size:3
Alignment explanation
Indices: 12962986--12963012 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12962976 AAAACAACTT
12962986 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
12963013 GGTCTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12966594 original size:101 final size:99
Alignment explanation
Indices: 12966461--12966692 Score: 297
Period size: 101 Copynumber: 2.3 Consensus size: 99
12966451 CGGTTTTGGG
*
12966461 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTG-TAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT--CATGTGATAGTA
* * *
12966525 CTAAGTGCAGGCTACTATGCGTACTC-GATAGCTTCGA
64 CTAAGTGCAAGCTACTACGCGTAC-CAGATAG-TTAGA
* * *
12966562 TCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTATCTGATGGTTAGGTCATGTGTATAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCATGTG-ATAGTAC
* * *
12966627 TAAGTGCAAGCTACTACGTGTACCAGATTGTTAGG
65 TAAGTGCAAGCTACTACGCGTACCAGATAGTTAGA
* *
12966662 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
12966693 TTCGTACCAG
Statistics
Matches: 115, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
99 6 0.05
100 32 0.28
101 77 0.67
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCATGTGATAGTACT
AAGTGCAAGCTACTACGCGTACCAGATAGTTAGA
Found at i:12966703 original size:50 final size:50
Alignment explanation
Indices: 12966466--12966692 Score: 289
Period size: 50 Copynumber: 4.5 Consensus size: 50
12966456 TTGGGTCACG
12966466 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
* * * * * * *
12966516 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAGCTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG-TTAGGTCGCA
* * * *
12966567 TGTGTAGTACTAAGTGCAGACTACTACGTGTATCTGATGGTTAGGT--CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
*
12966615 TGTGTATAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTG--TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
12966667 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
12966693 TTCGTACCAG
Statistics
Matches: 149, Mismatches: 21, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
48 5 0.03
50 98 0.66
51 40 0.27
52 6 0.04
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
Found at i:12972395 original size:14 final size:15
Alignment explanation
Indices: 12972355--12972395 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
12972345 TATTTAAAAA
12972355 TTATTTTCTGTG--T
1 TTATTTTCTGTGAAT
*
12972368 TTATTTTGTGTGAAT
1 TTATTTTCTGTGAAT
12972383 TTA-TTTCTGTGAA
1 TTATTTTCTGTGAA
12972396 ATTTTCGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 11 0.46
14 9 0.38
15 4 0.17
ACGTcount: A:0.17, C:0.05, G:0.17, T:0.61
Consensus pattern (15 bp):
TTATTTTCTGTGAAT
Found at i:12972935 original size:350 final size:350
Alignment explanation
Indices: 12972294--12972986 Score: 1180
Period size: 350 Copynumber: 2.0 Consensus size: 350
12972284 AGCCTGATCC
* * *
12972294 AGACCCTAATCGGAACGGTGATTTTGAGACCACGAATCTGAGTTAGAAAAATATTTAAAAATTAT
1 AGACCCTAATCAGAACGGTGATTTAGAGACCACGAATCTGAGTCAGAAAAATATTTAAAAATTAT
12972359 TTTCTGTGTTTATTTTGTGTGAATTTATTTCTGTGAAATTTTCGTGATTTAATTTTGTCGTTTAG
66 TTTCTGTGTTTATTTTGTGTGAATTTATTTCTGTGAAATTTTCGTGATTTAATTTTGTCGTTTAG
**
12972424 GTGTTCGATTAAATAAAAGGACTTAATCGTGTAAAATGAAAATTCTGTGGTTTTTCTAAAAAGGG
131 GTGTTCGATTAAATAAAAGGACTTAATCGCATAAAATGAAAATTCTGTGGTTTTTCTAAAAAGGG
*
12972489 CTGAATTGTACTGGGCTTTTTAAATGGAAGCCTTAAAGTTGCAATTAACCCATTAAGAGAATAAG
196 CTAAATTGTACTGGGCTTTTTAAATGGAAGCCTTAAAGTTGCAATTAACCCATTAAGAGAATAAG
12972554 TGGACAGTACTAGGCATATGTTATATGGCTTTGTTATAATATTATTAAGGTTAAATAAGTAATTA
261 TGGACAGTACTAGGCATATGTTATATGGCTTTGTTATAATATTATTAAGGTTAAATAAGTAATTA
12972619 GATAAAATGTTATTATATTTGATTT
326 GATAAAATGTTATTATATTTGATTT
* * * * *
12972644 AGACCCTAATTAGAACGGTGGTTTCAG-GACCACTAATC-GAGTCAGAAAAATATTTAAAATTTT
1 AGACCCTAATCAGAACGGTGATTT-AGAGACCACGAATCTGAGTCAGAAAAATATTTAAAAATTA
*
12972707 TTTTCTGTGTTTATTTTGTGTGAATTTATATT-TGTGAAATTTTTGTGATTTAATTTTGTCGTTT
65 TTTTCTGTGTTTATTTTGTGTGAATTTAT-TTCTGTGAAATTTTCGTGATTTAATTTTGTCGTTT
12972771 AGGTGTTCGATTAAATAAAAGGACTTAATCGCATAAAATGAAAATT-TAGTGGTTTTTTCTAAAA
129 AGGTGTTCGATTAAATAAAAGGACTTAATCGCATAAAATGAAAATTCT-GTGG-TTTTTCTAAAA
*
12972835 AGGGCTAAATTGTACTTGGCTTTTTAAATGGAAGCCTTAAAGTTGCAATTAACCCATTAAGAGAA
192 AGGGCTAAATTGTACTGGGCTTTTTAAATGGAAGCCTTAAAGTTGCAATTAACCCATTAAGAGAA
*
12972900 TAAGTGGA-TGCTACTAGGCATATGTTATATGGCTTTGTTATAATATTATTAAGGTTAAATAAGT
257 TAAGTGGACAG-TACTAGGCATATGTTATATGGCTTTGTTATAATATTATTAAGGTTAAATAAGT
12972964 AATTAGATAAAATGTTATTATAT
321 AATTAGATAAAATGTTATTATAT
12972987 GTTATAATTT
Statistics
Matches: 324, Mismatches: 14, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
348 1 0.00
349 131 0.40
350 191 0.59
351 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (350 bp):
AGACCCTAATCAGAACGGTGATTTAGAGACCACGAATCTGAGTCAGAAAAATATTTAAAAATTAT
TTTCTGTGTTTATTTTGTGTGAATTTATTTCTGTGAAATTTTCGTGATTTAATTTTGTCGTTTAG
GTGTTCGATTAAATAAAAGGACTTAATCGCATAAAATGAAAATTCTGTGGTTTTTCTAAAAAGGG
CTAAATTGTACTGGGCTTTTTAAATGGAAGCCTTAAAGTTGCAATTAACCCATTAAGAGAATAAG
TGGACAGTACTAGGCATATGTTATATGGCTTTGTTATAATATTATTAAGGTTAAATAAGTAATTA
GATAAAATGTTATTATATTTGATTT
Found at i:12977577 original size:14 final size:15
Alignment explanation
Indices: 12977549--12977577 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12977539 CTCTTTCTTG
12977549 GACAAGAATAATCCA
1 GACAAGAATAATCCA
12977564 GACAAGAA-AATCCA
1 GACAAGAATAATCCA
12977578 TATGAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.21, G:0.14, T:0.10
Consensus pattern (15 bp):
GACAAGAATAATCCA
Found at i:12978271 original size:15 final size:15
Alignment explanation
Indices: 12978248--12978296 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
12978238 ACGGAGAAGC
*
12978248 CCAAAATAAAGAAAT
1 CCAAGATAAAGAAAT
*
12978263 CTAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
* *
12978278 CCATGATAACGAAAT
1 CCAAGATAAAGAAAT
12978293 CCAA
1 CCAA
12978297 TTTACAACAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.57, C:0.16, G:0.10, T:0.16
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:12981350 original size:96 final size:96
Alignment explanation
Indices: 12981186--12981365 Score: 254
Period size: 96 Copynumber: 1.9 Consensus size: 96
12981176 TAAATTTCCA
* * * * *
12981186 ATGCCATGTCCCAGATATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAAACATAGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTCCCAAACA
*
12981251 TGGTCTTACTCTAGCTCTCGTAACATTGCCG
66 TGGTCTTACACTAGCTCTCGTAACATTGCCG
* * *
12981282 ATGCCATGTTCCAAACATAGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCCATGTCCCAAAC
1 ATGCCATGTCCCAAACATAGTCTTACACTGGCTCACAT-ATCGAGGCTGATGCCATGTCCCAAAC
*
12981346 ATGGTCTTACACTGGCTCTC
65 ATGGTCTTACACTAGCTCTC
12981366 ATAATGTGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 72 0.99
97 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATAGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTCCCAAACA
TGGTCTTACACTAGCTCTCGTAACATTGCCG
Found at i:12981369 original size:48 final size:48
Alignment explanation
Indices: 12981186--12981373 Score: 225
Period size: 48 Copynumber: 3.9 Consensus size: 48
12981176 TAAATTTCCA
* * * * *
12981186 ATGCCATGTCCCAGATATGGTCTTACACTGGCTCACAT-GTCGAGGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCTG
* * * * ** * *
12981234 ATGCCATGTCCCAGACATGGTCTTACTCTAGCTCTCGTAACATTGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCTG
* *
12981282 ATGCCATGTTCCAAACATAGTCTTACACTGGCTCTCATAATGTGGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCTG
12981330 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTG
12981374 ATCTTACATT
Statistics
Matches: 116, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCTG
Found at i:12981390 original size:25 final size:25
Alignment explanation
Indices: 12981350--12981398 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
12981340 CCAAACATGG
12981350 TCTTACACTGGCTCTCATAATGTGA
1 TCTTACACTGGCTCTCATAATGTGA
* *
12981375 TCTTACATTGGTTCTCATAATGTG
1 TCTTACACTGGCTCTCATAATGTG
12981399 GCCGATGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.41
Consensus pattern (25 bp):
TCTTACACTGGCTCTCATAATGTGA
Found at i:12992369 original size:32 final size:32
Alignment explanation
Indices: 12992328--12992444 Score: 180
Period size: 32 Copynumber: 3.7 Consensus size: 32
12992318 TGATATTGAA
12992328 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
1 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
12992360 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
1 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
* * * * *
12992392 ATAGGCTAAGCCCAACTGATATTGATTTTGAG
1 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
*
12992424 ATGGGCTAGGCCCAATTGATA
1 ATGGGCTAGGCCCAACTGATA
12992445 CTGTGATGGG
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 77 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (32 bp):
ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
Found at i:13009873 original size:39 final size:39
Alignment explanation
Indices: 13009829--13009913 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
13009819 CCTTCTGAGT
*
13009829 TTAGCCGAATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCGAATATAG-TAACTAGCACAAATGCCTTCGGGAC
** *
13009868 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAG-CCGAATATAGTAACTAGCACAAATGCCTTCGGGAC
13009908 TTAGCC
1 TTAGCC
13009914 CGGTTATCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
39 7 0.17
40 33 0.82
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
TTAGCCGAATATAGTAACTAGCACAAATGCCTTCGGGAC
Found at i:13022378 original size:255 final size:255
Alignment explanation
Indices: 13021927--13022432 Score: 1012
Period size: 255 Copynumber: 2.0 Consensus size: 255
13021917 GTGCTGCCAA
13021927 TAGGAGAACAACTTAAACGATGAGATCTTGAGTTTAATCAATGCTGGAAAACAAACAAGAACAGC
1 TAGGAGAACAACTTAAACGATGAGATCTTGAGTTTAATCAATGCTGGAAAACAAACAAGAACAGC
13021992 AAAATATTAGATGAGAAATCGGCACAAGTATAAGCAAAGAAAAGTAAAGAAAGAAATCGAAAACA
66 AAAATATTAGATGAGAAATCGGCACAAGTATAAGCAAAGAAAAGTAAAGAAAGAAATCGAAAACA
13022057 GCAAGAATTAAAGGATAAGTCCTAAAGATCCTTGAAATCCCGAAAGATTTCACAAATCTCTTCAA
131 GCAAGAATTAAAGGATAAGTCCTAAAGATCCTTGAAATCCCGAAAGATTTCACAAATCTCTTCAA
13022122 ACGGCTCTAATCTCCCCTCCAAAGAATATCGATGGCAAGAAGAAGGTTGAAGATGGCTCC
196 ACGGCTCTAATCTCCCCTCCAAAGAATATCGATGGCAAGAAGAAGGTTGAAGATGGCTCC
13022182 TAGGAGAACAACTTAAACGATGAGATCTTGAGTTTAATCAATGCTGGAAAACAAACAAGAACAGC
1 TAGGAGAACAACTTAAACGATGAGATCTTGAGTTTAATCAATGCTGGAAAACAAACAAGAACAGC
13022247 AAAATATTAGATGAGAAATCGGCACAAGTATAAGCAAAGAAAAGTAAAGAAAGAAATCGAAAACA
66 AAAATATTAGATGAGAAATCGGCACAAGTATAAGCAAAGAAAAGTAAAGAAAGAAATCGAAAACA
13022312 GCAAGAATTAAAGGATAAGTCCTAAAGATCCTTGAAATCCCGAAAGATTTCACAAATCTCTTCAA
131 GCAAGAATTAAAGGATAAGTCCTAAAGATCCTTGAAATCCCGAAAGATTTCACAAATCTCTTCAA
13022377 ACGGCTCTAATCTCCCCTCCAAAGAATATCGATGGCAAGAAGAAGGTTGAAGATGG
196 ACGGCTCTAATCTCCCCTCCAAAGAATATCGATGGCAAGAAGAAGGTTGAAGATGG
13022433 TTCCCACAAT
Statistics
Matches: 251, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 251 1.00
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.20
Consensus pattern (255 bp):
TAGGAGAACAACTTAAACGATGAGATCTTGAGTTTAATCAATGCTGGAAAACAAACAAGAACAGC
AAAATATTAGATGAGAAATCGGCACAAGTATAAGCAAAGAAAAGTAAAGAAAGAAATCGAAAACA
GCAAGAATTAAAGGATAAGTCCTAAAGATCCTTGAAATCCCGAAAGATTTCACAAATCTCTTCAA
ACGGCTCTAATCTCCCCTCCAAAGAATATCGATGGCAAGAAGAAGGTTGAAGATGGCTCC
Found at i:13026207 original size:39 final size:39
Alignment explanation
Indices: 13026153--13026289 Score: 145
Period size: 39 Copynumber: 3.5 Consensus size: 39
13026143 AAGCCAAGTA
* *
13026153 CCTTCGGAGTTTAG-CCGGATATAGCT-ACTAGCTCAAATG
1 CCTTCGGA-CTTAGCCCGGATATAG-TAACTAGCACAAATG
* * *
13026192 CCTTCGAAACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCG-GACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
13026232 CCTTCGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
13026271 CCTTCGGGACTTAGCCCGG
1 CCTTC-GGACTTAGCCCGG
13026290 TTATCAATCC
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 42 0.51
40 39 0.48
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCTTCGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:13037127 original size:27 final size:27
Alignment explanation
Indices: 13037097--13037274 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
13037087 ATATTGAGTC
* * * *
13037097 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
13037124 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13037151 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
13037179 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
13037206 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
13037233 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13037260 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13037275 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:13037236 original size:82 final size:81
Alignment explanation
Indices: 13037118--13037273 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
13037108 TGCTATATAA
*
13037118 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
13037183 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
13037200 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
13037264 CACTTAGTGC
65 CACTTAGTGC
13037274 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:13037878 original size:13 final size:13
Alignment explanation
Indices: 13037860--13037884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13037850 TACTAAATTT
13037860 TCATGGATTCAAG
1 TCATGGATTCAAG
13037873 TCATGGATTCAA
1 TCATGGATTCAA
13037885 TATACCATCA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:13039091 original size:27 final size:27
Alignment explanation
Indices: 13039059--13039128 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
13039049 TCAATTTTTG
* *
13039059 AACACTAAACCCTAAAATTAAACAC-AT
1 AACACTAAACCATAAAATAAAAC-CTAT
*
13039086 AACACTAAACCTTAAAATAAAACCTAT
1 AACACTAAACCATAAAATAAAACCTAT
13039113 AACACTAAACCATAAA
1 AACACTAAACCATAAA
13039129 TACAAAATCT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.19
Consensus pattern (27 bp):
AACACTAAACCATAAAATAAAACCTAT
Found at i:13039319 original size:28 final size:28
Alignment explanation
Indices: 13039280--13039333 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
13039270 TGAACACTTA
*
13039280 AAACCATGAACACAAAC-CTTAAACCCT
1 AAACCATAAACACAAACACTTAAACCCT
13039307 AAACTCATAAACACAAACACTTAAACC
1 AAAC-CATAAACACAAACACTTAAACC
13039334 TTTAGACACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.17
28 12 0.50
29 8 0.33
ACGTcount: A:0.52, C:0.31, G:0.02, T:0.15
Consensus pattern (28 bp):
AAACCATAAACACAAACACTTAAACCCT
Found at i:13054447 original size:40 final size:40
Alignment explanation
Indices: 13054392--13054471 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
13054382 TCAAATCCAA
13054392 CAACCCAAAATACCTTATATACATGCCACAAAACTAAATT
1 CAACCCAAAATACCTTATATACATGCCACAAAACTAAATT
13054432 CAACCCAAAATACCTTATATACATGCCACAAAACTAAATT
1 CAACCCAAAATACCTTATATACATGCCACAAAACTAAATT
13054472 AAACGAGTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.23
Consensus pattern (40 bp):
CAACCCAAAATACCTTATATACATGCCACAAAACTAAATT
Found at i:13056402 original size:18 final size:18
Alignment explanation
Indices: 13056358--13056407 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
13056348 ATTTTTATCA
* *
13056358 TATCATTTATATTATTTG
1 TATCATTTGTATTAATTG
*
13056376 TAAT-GTTTGTATTAATTG
1 T-ATCATTTGTATTAATTG
13056394 TATCATTTGTATTA
1 TATCATTTGTATTA
13056408 TTGGTTTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.28, C:0.04, G:0.10, T:0.58
Consensus pattern (18 bp):
TATCATTTGTATTAATTG
Found at i:13061463 original size:34 final size:34
Alignment explanation
Indices: 13061423--13061489 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
13061413 TCAATAAAAT
*
13061423 AGTTGGTGCCATTTTCAAACTGAAAATAAAACAG
1 AGTTGGTGCCATTTTCAAAATGAAAATAAAACAG
13061457 AGTTGGTGCCATTTTCAAAATGAAAATAAAACA
1 AGTTGGTGCCATTTTCAAAATGAAAATAAAACA
13061490 TTCATATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (34 bp):
AGTTGGTGCCATTTTCAAAATGAAAATAAAACAG
Found at i:13062525 original size:24 final size:24
Alignment explanation
Indices: 13062488--13062543 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
13062478 ACCATCAACC
* *
13062488 ACCATCG--GGCCATCGTCGTCGG
1 ACCATCGTTGGCCATCATCGTCGA
13062510 ACCATCGTTGGCCATCATCGTCGA
1 ACCATCGTTGGCCATCATCGTCGA
*
13062534 ACCACCGTTG
1 ACCATCGTTG
13062544 ACTTAGCTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 7 0.24
24 22 0.76
ACGTcount: A:0.18, C:0.36, G:0.25, T:0.21
Consensus pattern (24 bp):
ACCATCGTTGGCCATCATCGTCGA
Found at i:13064052 original size:18 final size:19
Alignment explanation
Indices: 13064029--13064070 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
13064019 GATTTTCTCA
13064029 AAATGGAAATGAAAAT-AG
1 AAATGGAAATGAAAATGAG
*
13064047 AAATGGAATTGAAAATGAG
1 AAATGGAAATGAAAATGAG
13064066 AAATG
1 AAATG
13064071 ATTCATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.24, T:0.19
Consensus pattern (19 bp):
AAATGGAAATGAAAATGAG
Found at i:13066706 original size:13 final size:13
Alignment explanation
Indices: 13066688--13066713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13066678 TAAATATGCC
13066688 TAAGTCAACCTAA
1 TAAGTCAACCTAA
13066701 TAAGTCAACCTAA
1 TAAGTCAACCTAA
13066714 CTTCTGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
TAAGTCAACCTAA
Found at i:13068115 original size:16 final size:16
Alignment explanation
Indices: 13068094--13068124 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13068084 ACTTTATTTA
*
13068094 TTTAGTTAGTTTGATT
1 TTTAGTTAATTTGATT
13068110 TTTAGTTAATTTGAT
1 TTTAGTTAATTTGAT
13068125 AGTCGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.16, T:0.61
Consensus pattern (16 bp):
TTTAGTTAATTTGATT
Found at i:13068636 original size:24 final size:24
Alignment explanation
Indices: 13068603--13068662 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
13068593 AACGATCCAT
*
13068603 TGAAGAAGGTTGAAAAGGATATAAA
1 TGAA-AAGGTCGAAAAGGATATAAA
*
13068628 TGAAAAGGTCGAAAAGGATATCAA
1 TGAAAAGGTCGAAAAGGATATAAA
*
13068652 CGAAAAGGTCG
1 TGAAAAGGTCG
13068663 GTACCTCATC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 28 0.88
25 4 0.12
ACGTcount: A:0.48, C:0.07, G:0.28, T:0.17
Consensus pattern (24 bp):
TGAAAAGGTCGAAAAGGATATAAA
Found at i:13069276 original size:19 final size:19
Alignment explanation
Indices: 13069252--13069290 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
13069242 AGCTTAATGC
13069252 TTATGTTAGTTATTTCATT
1 TTATGTTAGTTATTTCATT
13069271 TTATGTTAGTTATTTCATT
1 TTATGTTAGTTATTTCATT
13069290 T
1 T
13069291 CTTTGTAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (19 bp):
TTATGTTAGTTATTTCATT
Found at i:13070737 original size:23 final size:22
Alignment explanation
Indices: 13070693--13070742 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
13070683 GCTATCTACA
*
13070693 AAATTAAATCTTTAAAACTTAC
1 AAATCAAATCTTTAAAACTTAC
*
13070715 ATAATCAAATCTTCTAAGA-TTAC
1 A-AATCAAATCTT-TAAAACTTAC
13070738 AAATC
1 AAATC
13070743 TTCTAAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 5 0.21
23 15 0.62
24 4 0.17
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATCAAATCTTTAAAACTTAC
Found at i:13070742 original size:17 final size:17
Alignment explanation
Indices: 13070720--13070770 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
13070710 CTTACATAAT
13070720 CAAATCTTCTAAGATTA
1 CAAATCTTCTAAGATTA
*
13070737 CAAATCTTCTAAGATTG
1 CAAATCTTCTAAGATTA
* *
13070754 CATATCTTCGAAGATTA
1 CAAATCTTCTAAGATTA
13070771 TGTCCCATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (17 bp):
CAAATCTTCTAAGATTA
Found at i:13071722 original size:7 final size:7
Alignment explanation
Indices: 13071710--13071740 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
13071700 AATGGTTTAA
13071710 GGCATGT
1 GGCATGT
13071717 GGCATGT
1 GGCATGT
13071724 GGCATGT
1 GGCATGT
13071731 GGCATGT
1 GGCATGT
13071738 GGC
1 GGC
13071741 TAGTTGCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.45, T:0.26
Consensus pattern (7 bp):
GGCATGT
Found at i:13079261 original size:20 final size:20
Alignment explanation
Indices: 13079236--13079285 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
13079226 TGGCTTAAAA
13079236 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
13079256 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
13079273 GTGGTAGTGGATT
1 TTGGTAGTGGATT
13079286 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:13088975 original size:24 final size:24
Alignment explanation
Indices: 13088948--13088999 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13088938 TTAGTAAGTC
*
13088948 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
13088972 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13088996 AAAT
1 AAAT
13089000 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13091738 original size:16 final size:15
Alignment explanation
Indices: 13091699--13091739 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
13091689 TTGTTTTTGG
13091699 ATTATTTTATATTCA
1 ATTATTTTATATTCA
*
13091714 ATTAGTTTTATATTTA
1 ATTA-TTTTATATTCA
13091730 AGTTATTTTA
1 A-TTATTTTA
13091740 AGTTTGCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 16 0.70
17 3 0.13
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (15 bp):
ATTATTTTATATTCA
Found at i:13091818 original size:15 final size:14
Alignment explanation
Indices: 13091795--13091824 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
13091785 AATCTTTATA
13091795 TAATTAAATTAAAT
1 TAATTAAATTAAAT
13091809 TAATTCAAATTAAAT
1 TAATT-AAATTAAAT
13091824 T
1 T
13091825 TCCATTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATTAAATTAAAT
Found at i:13102051 original size:41 final size:41
Alignment explanation
Indices: 13102006--13102109 Score: 113
Period size: 41 Copynumber: 2.6 Consensus size: 41
13101996 AGAATATTGT
* *
13102006 TGAATTGCACATTCGTGCCCTTGTTTGTACTTCGGTGCCCC
1 TGAATTGCACATTCGTGCCCTTGTTTGTACTTCAGTACCCC
* * *
13102047 TGAATTGCACATACGTACCAC-TGTTTGTACTTTAGTACCCC
1 TGAATTGCACATTCGTGCC-CTTGTTTGTACTTCAGTACCCC
* * *
13102088 T-AAATGCACTTTTGTGCCCTTG
1 TGAATTGCACATTCGTGCCCTTG
13102110 ATTACGCTCC
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
39 1 0.02
40 14 0.27
41 35 0.69
42 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (41 bp):
TGAATTGCACATTCGTGCCCTTGTTTGTACTTCAGTACCCC
Found at i:13114840 original size:154 final size:154
Alignment explanation
Indices: 13114609--13114920 Score: 615
Period size: 154 Copynumber: 2.0 Consensus size: 154
13114599 GACATTCATA
13114609 AATTATAAAACTTATCACGATTCACATCACATCAGGTGTTATAAATGGATAAATGAGGTATGTCA
1 AATTATAAAACTTATCACGATTCACATCACATCAGGTGTTATAAATGGATAAATGAGGTATGTCA
13114674 TTTTAATTGCTTTAAGGTGCATTGAAGGGTATATTGGATTGTTTTGAATATAGTTTTATGTTTGA
66 TTTTAATTGCTTTAAGGTGCATTGAAGGGTATATTGGATTGTTTTGAATATAGTTTTATGTTTGA
13114739 ATTTGAATTGTTGATTCAGGTGTC
131 ATTTGAATTGTTGATTCAGGTGTC
13114763 AATTATAAAACTTATCACGATTCACATCACATCAGGTGTTATAAATGGATAAATGAGGTATGTCA
1 AATTATAAAACTTATCACGATTCACATCACATCAGGTGTTATAAATGGATAAATGAGGTATGTCA
13114828 TTTTAATTGCTTTAAGGTGCATTGAAGGGTATATTGGATTGTTTTGAATATAGTTTTATGTTTGA
66 TTTTAATTGCTTTAAGGTGCATTGAAGGGTATATTGGATTGTTTTGAATATAGTTTTATGTTTGA
*
13114893 ATTTGAATTGTTGATTTAGGTGTC
131 ATTTGAATTGTTGATTCAGGTGTC
13114917 AATT
1 AATT
13114921 GTGACATATT
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 157 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (154 bp):
AATTATAAAACTTATCACGATTCACATCACATCAGGTGTTATAAATGGATAAATGAGGTATGTCA
TTTTAATTGCTTTAAGGTGCATTGAAGGGTATATTGGATTGTTTTGAATATAGTTTTATGTTTGA
ATTTGAATTGTTGATTCAGGTGTC
Found at i:13118920 original size:93 final size:93
Alignment explanation
Indices: 13118761--13118933 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
13118751 CGCCCATAAG
* * * *
13118761 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13118826 ACAAGTTCAGATGCCTAGTTACATCTCA
66 ACAAGTTCAGATGCCTAGTTACATCTCA
*
13118854 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
13118919 ACGAGTTCGGATGCC
66 ACAAGTTCAGATGCC
13118934 CAAACATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCAGATGCCTAGTTACATCTCA
Found at i:13118921 original size:46 final size:46
Alignment explanation
Indices: 13118754--13118929 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
13118744 TGTAACCCGC
* * * *
13118754 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * * *
13118800 CCATGAGTGAACTCGGACTCAACTCAACAAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-G--GAC-A-TTCGCAT
*
13118850 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13118893 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
13118930 TGCCCAAACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 2 0.02
46 59 0.56
47 26 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13118948 original size:46 final size:45
Alignment explanation
Indices: 13118805--13118948 Score: 139
Period size: 46 Copynumber: 3.1 Consensus size: 45
13118795 CGCATCCATG
* * *
13118805 AGTGAACTCGGACTCAACTCAACAAGTTCAGATGCCTAGTTACATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATCT
* * * * *
13118852 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCT
*
13118898 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACAT-CT
13118944 AGTGA
1 AGTGA
13118949 CATGTCACTT
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
44 8 0.10
45 1 0.01
46 33 0.43
47 30 0.39
48 1 0.01
49 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCT
Done.