Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 241 of 290
Found at i:78355776 original size:69 final size:69
Alignment explanation
Indices: 78355703--78355841 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
78355693 CTTTTTTATA
78355703 AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTTGAAGTATCATTTAATAA
1 AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTTGAAGTATCATTTAATAA
78355768 ATAT
66 ATAT
78355772 AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTTGAAGTATCATTTAATAA
1 AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTTGAAGTATCATTTAATAA
78355837 ATAT
66 ATAT
78355841 A
1 A
78355842 TTTATTATAC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (69 bp):
AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTTGAAGTATCATTTAATAA
ATAT
Found at i:78358900 original size:21 final size:21
Alignment explanation
Indices: 78358874--78358914 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
78358864 ATCTGCTCAA
* *
78358874 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
78358895 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
78358915 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:78364492 original size:30 final size:30
Alignment explanation
Indices: 78364456--78364515 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
78364446 TTAGGGATGG
78364456 AAAAACAGGTTAAAAACAGGCAAACTAGAT
1 AAAAACAGGTTAAAAACAGGCAAACTAGAT
78364486 AAAAACAGGTTAAAAACAGGCAAACTAGAT
1 AAAAACAGGTTAAAAACAGGCAAACTAGAT
78364516 TTCTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.17, T:0.13
Consensus pattern (30 bp):
AAAAACAGGTTAAAAACAGGCAAACTAGAT
Found at i:78366448 original size:21 final size:20
Alignment explanation
Indices: 78366424--78366481 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
78366414 ATGAATTCAT
78366424 AAATCATAAATTCCAAAGCTA
1 AAATC-TAAATTCCAAAGCTA
* * *
78366445 AAATTTTAAAATCCAAATCTA
1 AAA-TCTAAATTCCAAAGCTA
*
78366466 AATTCTAAATTCCAAA
1 AAATCTAAATTCCAAA
78366482 TTCCAAACAC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 11 0.37
21 18 0.60
22 1 0.03
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATCTAAATTCCAAAGCTA
Found at i:78366474 original size:20 final size:21
Alignment explanation
Indices: 78366430--78366482 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
78366420 TCATAAATCA
* *
78366430 TAAATTCCAAAGCTAAAATTT
1 TAAATTCCAAATCTAAAATTC
*
78366451 TAAAATCCAAATCT-AAATTC
1 TAAATTCCAAATCTAAAATTC
78366471 TAAATTCCAAAT
1 TAAATTCCAAAT
78366483 TCCAAACACC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (21 bp):
TAAATTCCAAATCTAAAATTC
Found at i:78366889 original size:53 final size:53
Alignment explanation
Indices: 78366810--78366915 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
78366800 AAAGCACAAT
*
78366810 ATATGAATGATACTCATGAGTGTGAGACGCTAATCGTCAATAACATAAACATA
1 ATATGAATGATACTCATGAGTGTGAGACACTAATCGTCAATAACATAAACATA
* *
78366863 ATATGAATGATACTCCTGAGTGTGAGACACTGATCGTCAATAACATAAACATA
1 ATATGAATGATACTCATGAGTGTGAGACACTAATCGTCAATAACATAAACATA
78366916 TCAATAGTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (53 bp):
ATATGAATGATACTCATGAGTGTGAGACACTAATCGTCAATAACATAAACATA
Found at i:78367179 original size:99 final size:99
Alignment explanation
Indices: 78367057--78367254 Score: 360
Period size: 99 Copynumber: 2.0 Consensus size: 99
78367047 GTCACTATTG
* * *
78367057 ATATATTTGAAGTTTCCACAATGTGCCAAGGAAGTTTCCACTTCCAACACTACTATGACAAAACA
1 ATATATCTGAAGTATCCACAATGTGCCAAGGAAGTTTCCACTTCCAACACTACTACGACAAAACA
78367122 AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
66 AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
*
78367156 ATATATCTGAAGTATCCACAATGTGCTAAGGAAGTTTCCACTTCCAACACTACTACGACAAAACA
1 ATATATCTGAAGTATCCACAATGTGCCAAGGAAGTTTCCACTTCCAACACTACTACGACAAAACA
78367221 AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
66 AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
78367255 TGAACAAATC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (99 bp):
ATATATCTGAAGTATCCACAATGTGCCAAGGAAGTTTCCACTTCCAACACTACTACGACAAAACA
AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
Found at i:78368478 original size:19 final size:19
Alignment explanation
Indices: 78368449--78368485 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
78368439 AAATATTTTT
78368449 TAAAAAAATT-ATAAAAAA
1 TAAAAAAATTAATAAAAAA
78368467 TAAAAAATATTAATAAAAA
1 TAAAAAA-ATTAATAAAAA
78368486 CTATGTCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 3 0.18
20 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAAAAAATTAATAAAAAA
Found at i:78380397 original size:17 final size:16
Alignment explanation
Indices: 78380377--78380437 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 16
78380367 TCATGATCCA
78380377 TTTCAATTCAATTTCAT
1 TTTCAATTC-ATTTCAT
78380394 TTTC-ATATCATTCTCA-
1 TTTCAAT-TCATT-TCAT
78380410 TTTCAATTTCATTTCAT
1 TTTCAA-TTCATTTCAT
* *
78380427 GTTCAAATCAT
1 TTTCAATTCAT
78380438 ATATTGCCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
16 16 0.43
17 20 0.54
18 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.02, T:0.51
Consensus pattern (16 bp):
TTTCAATTCATTTCAT
Found at i:78380413 original size:33 final size:33
Alignment explanation
Indices: 78380375--78380437 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
78380365 TTTCATGATC
* *
78380375 CATTTCAA-TTCAATTTCATTTTCATATCATTCT
1 CATTTCAATTTC-ATTTCATGTTCAAATCATTCT
78380408 CATTTCAATTTCATTTCATGTTCAAATCAT
1 CATTTCAATTTCATTTCATGTTCAAATCAT
78380438 ATATTGCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.49
Consensus pattern (33 bp):
CATTTCAATTTCATTTCATGTTCAAATCATTCT
Found at i:78380431 original size:6 final size:5
Alignment explanation
Indices: 78380375--78380431 Score: 51
Period size: 6 Copynumber: 10.4 Consensus size: 5
78380365 TTTCATGATC
* *
78380375 CATTT CAATT CAATTT CATTTT CATAT CATTCT CATTT CAATTT CATTT
1 CATTT CATTT C-ATTT CA-TTT CATTT CATT-T CATTT C-ATTT CATTT
78380424 CATGTT CA
1 CAT-TT CA
78380432 AATCATATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
5 20 0.47
6 23 0.53
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.51
Consensus pattern (5 bp):
CATTT
Found at i:78380646 original size:5 final size:5
Alignment explanation
Indices: 78380636--78380683 Score: 78
Period size: 5 Copynumber: 9.4 Consensus size: 5
78380626 AAAACTCATA
*
78380636 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAC AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
78380684 CTAGTCTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 36 0.90
6 4 0.10
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:78381474 original size:14 final size:15
Alignment explanation
Indices: 78381451--78381479 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
78381441 AATAAAATAT
78381451 TATTACTTATTAAAA
1 TATTACTTATTAAAA
78381466 TATTA-TTATTAAAA
1 TATTACTTATTAAAA
78381480 ATATCATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTACTTATTAAAA
Found at i:78381480 original size:15 final size:17
Alignment explanation
Indices: 78381442--78381483 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
78381432 CTAGTAATTA
78381442 ATAAAATATTATTACTT
1 ATAAAATATTATTACTT
78381459 ATTAAAATATTATTA-TT
1 A-TAAAATATTATTACTT
78381476 A-AAAATAT
1 ATAAAATAT
78381484 CATTTAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.29
17 4 0.17
18 13 0.54
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAAAATATTATTACTT
Found at i:78387501 original size:25 final size:25
Alignment explanation
Indices: 78387473--78387540 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
78387463 GTGATGGAAT
* * *
78387473 CAAAATCATAATCAGAATTAGGTGA
1 CAAAATCAGAATCAGAATCAGGTAA
*
78387498 CAAAATCAGAATCAGTATCAGGTAA
1 CAAAATCAGAATCAGAATCAGGTAA
*
78387523 CAGAATCAGAATCAGAAT
1 CAAAATCAGAATCAGAAT
78387541 GTGAATACAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.21
Consensus pattern (25 bp):
CAAAATCAGAATCAGAATCAGGTAA
Found at i:78387712 original size:27 final size:26
Alignment explanation
Indices: 78387658--78387713 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
78387648 AGCAAGGCTG
* **
78387658 CCAGAACAGATATTGTGACAGATTCA
1 CCAGAACAAATATTGTGACAGAGCCA
*
78387684 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAAATATTGTGACAGAGCCA
78387711 CCA
1 CCA
78387714 AAATAGATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (26 bp):
CCAGAACAAATATTGTGACAGAGCCA
Found at i:78388418 original size:27 final size:27
Alignment explanation
Indices: 78388388--78388724 Score: 251
Period size: 27 Copynumber: 13.0 Consensus size: 27
78388378 GGGGCAAAAT
* *
78388388 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
78388415 GGTAATTCTACCTTATAAAGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
78388442 GGT-A---TACCTTAAAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * *
78388465 GGTAATTCTATCCTATAGGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * *
78388492 AGTAATTCTATCCTATAAGTGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
78388519 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
78388546 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
78388573 GGTAATTCTACCCTAC-A-GG----T-
1 GGTAATTTTACCCTACAAGGGTATTTC
*
78388593 --TAATTTTACCCTATAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
78388618 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
78388645 AGT-ATTTCTACCCTACAATGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
78388672 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
78388699 AGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTTTACCCTACAAGGGTATTT
78388725 TAATAATTTT
Statistics
Matches: 259, Mismatches: 34, Indels: 34
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.05
19 1 0.00
20 2 0.01
21 1 0.00
23 20 0.08
24 2 0.01
25 2 0.01
26 9 0.03
27 204 0.79
28 6 0.02
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:78388460 original size:23 final size:23
Alignment explanation
Indices: 78388423--78388468 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
78388413 TCGGTAATTC
78388423 TACCTTATAAAGGTATTTCGGTA
1 TACCTTATAAAGGTATTTCGGTA
78388446 TACCTTA-AAAGGGTATTTCGGTA
1 TACCTTATAAA-GGTATTTCGGTA
78388469 ATTCTATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (23 bp):
TACCTTATAAAGGTATTTCGGTA
Found at i:78388528 original size:54 final size:54
Alignment explanation
Indices: 78388389--78388724 Score: 338
Period size: 54 Copynumber: 6.5 Consensus size: 54
78388379 GGGCAAAATG
* * * * * * * *
78388389 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTATAAAGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * * * * * *
78388443 GT-A---TACCTTAAAAGGGTATTTCGGTAATTCTATCCTATAGGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * *
78388493 GTAATTCTATCCTATAAGTGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* *
78388547 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC-A-GG----T--
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * *
78388593 -TAATTTTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * *
78388646 GTATTTCTACCCTACAATGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
*
78388700 GTAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTT
78388725 TAATAATTTT
Statistics
Matches: 231, Mismatches: 38, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
45 36 0.16
46 1 0.00
47 2 0.01
48 1 0.00
50 39 0.17
51 2 0.01
52 2 0.01
53 2 0.01
54 146 0.63
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.38
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
Found at i:78388623 original size:99 final size:99
Alignment explanation
Indices: 78388494--78388690 Score: 340
Period size: 99 Copynumber: 2.0 Consensus size: 99
78388484 GGTATCTCAG
* * *
78388494 TAATTCTATCCTATAAGTGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
78388559 TACAAGGGTATTTCGGTAATTCTACCCTACAGGT
66 TACAAGGGTATTTCGGTAATTCTACCCTACAGGT
*
78388593 TAATTTTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
* *
78388658 TACAATGGTATTTCGGTATTTCTACCCTACAGG
66 TACAAGGGTATTTCGGTAATTCTACCCTACAGG
78388691 GGTATTTCAG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (99 bp):
TAATTCTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
TACAAGGGTATTTCGGTAATTCTACCCTACAGGT
Found at i:78388643 original size:126 final size:126
Alignment explanation
Indices: 78388467--78388717 Score: 385
Period size: 126 Copynumber: 2.0 Consensus size: 126
78388457 GGTATTTCGG
* * * * * *
78388467 TAATTCTATCCTATAGGGGTATCTCAGTAATTCTATCCTATAAGTGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTATAAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
*
78388532 TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGT
66 TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGT
* * *
78388593 TAATTTTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTATAAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
* * *
78388658 TACAATGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGG
66 TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGG
78388718 GGTATTTTAA
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (126 bp):
TAATTCTACCCTATAAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGT
Found at i:78388839 original size:80 final size:79
Alignment explanation
Indices: 78388755--78389059 Score: 248
Period size: 80 Copynumber: 3.8 Consensus size: 79
78388745 GGTAAAACGG
* * *
78388755 TAATTTTATAAATTGGGGGTACTTTGGTAATTTTACAAGTCGA-GGTATTTCAG-AAGTTCTATA
1 TAATTTTACAAACTGAGGGTACTTTGGTAATTTTACAA-TCGACGGTATTTCAGTAA-TT-TATA
* *
78388818 AATCAAAGGTGTTTCAA
63 AATCAAAGGTATTTCGA
* * *
78388835 TAATTTTGCAAACTGAGGGTA-TTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTT-TAC
1 TAATTTTACAAACTGAGGGTACTTT-GGTAATTTTAC-AATCGACGGTATTTCAGTAATTTATA-
*
78388898 AATCGACA-GTATTTCGA
63 AATC-AAAGGTATTTCGA
* * * * * *
78388915 TAATTTTACAAA-TCGAGGGTATTTTAGTAATTTTACAATGGACGATATTTCGGTAATTTTACAA
1 TAATTTTACAAACT-GAGGGTACTTTGGTAATTTTACAATCGACGGTATTTCAGTAA-TTTATAA
* * *
78388979 ATC-GAGGATATTTGGG
64 ATCAAAGG-TATTTCGA
* * **
78388995 TAATTTTATAAACTGGGGGTACTTTGGTAATTTTACAA-CGGGGGGTATTTCAGTAATTTGATAA
1 TAATTTTACAAACTGAGGGTACTTTGGTAATTTTACAATC-GACGGTATTTCAGTAATTT-ATAA
78389059 A
64 A
78389060 CTAAAGTATT
Statistics
Matches: 181, Mismatches: 29, Indels: 30
0.75 0.12 0.12
Matches are distributed among these distances:
78 1 0.01
79 26 0.14
80 131 0.72
81 21 0.12
82 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (79 bp):
TAATTTTACAAACTGAGGGTACTTTGGTAATTTTACAATCGACGGTATTTCAGTAATTTATAAAT
CAAAGGTATTTCGA
Found at i:78388922 original size:53 final size:52
Alignment explanation
Indices: 78388755--78389002 Score: 230
Period size: 53 Copynumber: 4.7 Consensus size: 52
78388745 GGTAAAACGG
* * * * *
78388755 TAATTTTATAAATTGGGGGTACTTT-GGTAATTTTACAAGTCGAGGTATTTCAGA
1 TAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTACAA-TCGACGTATTTC-GA
* * * * * * * * * *
78388809 -AGTTCTATAAATCAAAGGTGTTTCAATAATTTTGCAAACTGAGGGTATTTCGA
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATC-GA-CGTATTTCGA
78388862 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGACAGTATTTCGA
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAC-GTATTTCGA
* * *
78388915 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATGGACGATATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGACG-TATTTCGA
* **
78388968 TAATTTTACAAATCGAGGATATTTGGGTAATTTTA
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTA
78389003 TAAACTGGGG
Statistics
Matches: 161, Mismatches: 27, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
52 5 0.03
53 118 0.73
54 38 0.24
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (52 bp):
TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGACGTATTTCGA
Found at i:78388996 original size:27 final size:27
Alignment explanation
Indices: 78388728--78389053 Score: 222
Period size: 27 Copynumber: 12.2 Consensus size: 27
78388718 GGTATTTTAA
** ***
78388728 TAATTTTGTAAATCGAGGGTAAAACGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* * *
78388755 TAATTTTATAAATTGGGGGTACTTT-GG
1 TAATTTTACAAATCGAGGGTA-TTTCGG
* *
78388782 TAATTTTACAAGTCGA-GGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCGG
* * * * * **
78388808 -AAGTTCTATAAATCAAAGGTGTTTCAA
1 TAA-TTTTACAAATCGAGGGTATTTCGG
* *
78388835 TAATTTTGCAAA-CTGAGGGTATTTCGA
1 TAATTTTACAAATC-GAGGGTATTTCGG
*
78388862 TAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCGG
** *
78388889 TAATTTTAC-AATCGACAGTATTTCGA
1 TAATTTTACAAATCGAGGGTATTTCGG
**
78388915 TAATTTTACAAATCGAGGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTCGG
* * *
78388942 TAATTTTAC-AATGGACGATATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* *
78388968 TAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* *
78388995 TAATTTTATAAA-CTGGGGGTACTTT-GG
1 TAATTTTACAAATC-GAGGGTA-TTTCGG
* *
78389022 TAATTTTAC-AA-CGGGGGGTATTTCAG
1 TAATTTTACAAATC-GAGGGTATTTCGG
78389048 TAATTT
1 TAATTT
78389054 GATAAACTAA
Statistics
Matches: 237, Mismatches: 50, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
25 8 0.03
26 76 0.32
27 147 0.62
28 6 0.03
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCGG
Found at i:78390689 original size:17 final size:16
Alignment explanation
Indices: 78390668--78390729 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
78390658 TTCATGATCA
78390668 ATTTCAATTCAATTC-C
1 ATTTCAATTC-ATTCTC
*
78390684 ATTTTCATTTCATTCTC
1 A-TTTCAATTCATTCTC
78390701 ATTTCAATTTCATT-TC
1 ATTTCAA-TTCATTCTC
*
78390717 ATATTCAAATCAT
1 AT-TTCAATTCAT
78390730 ATATTGCCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 18 0.46
17 21 0.54
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTCAATTCATTCTC
Found at i:78391760 original size:17 final size:17
Alignment explanation
Indices: 78391719--78391763 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
78391709 TATAATAGTA
* *
78391719 ATTAATAAAATATTGTT
1 ATTATTAAAATATTATT
78391736 ATTTATTAAAATATTATT
1 A-TTATTAAAATATTATT
78391754 ATTATTAAAA
1 ATTATTAAAA
78391764 ATATCATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
ATTATTAAAATATTATT
Found at i:78391767 original size:18 final size:18
Alignment explanation
Indices: 78391724--78391763 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
78391714 TAGTAATTAA
*
78391724 TAAAATATTGTTATTTAT
1 TAAAATATTATTATTTAT
78391742 TAAAATATTATTA-TTAT
1 TAAAATATTATTATTTAT
78391759 TAAAA
1 TAAAA
78391764 ATATCATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TAAAATATTATTATTTAT
Found at i:78394374 original size:24 final size:23
Alignment explanation
Indices: 78394347--78394399 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
78394337 AAAGAACATC
78394347 AAGAACAATAAGTAAATACAAAAA
1 AAGAACAATAA-TAAATACAAAAA
** *
78394371 AAGAAACTCTAATCAATACAAAAA
1 AAG-AACAATAATAAATACAAAAA
78394395 AAGAA
1 AAGAA
78394400 ACTCTAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.08
24 17 0.68
25 6 0.24
ACGTcount: A:0.68, C:0.11, G:0.08, T:0.13
Consensus pattern (23 bp):
AAGAACAATAATAAATACAAAAA
Found at i:78394400 original size:24 final size:24
Alignment explanation
Indices: 78394361--78394408 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
78394351 ACAATAAGTA
78394361 AATACAAAAAAAGAAACTCTAATC
1 AATACAAAAAAAGAAACTCTAATC
78394385 AATACAAAAAAAGAAACTCTAATC
1 AATACAAAAAAAGAAACTCTAATC
78394409 TAAGGTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.62, C:0.17, G:0.04, T:0.17
Consensus pattern (24 bp):
AATACAAAAAAAGAAACTCTAATC
Found at i:78397164 original size:16 final size:17
Alignment explanation
Indices: 78397133--78397170 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
78397123 TCACCTTTTT
78397133 TTCTATTTACTTTATTC
1 TTCTATTTACTTTATTC
*
78397150 TTCTATTTA-TTTATTT
1 TTCTATTTACTTTATTC
78397166 TTCTA
1 TTCTA
78397171 ATTCACCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.68
Consensus pattern (17 bp):
TTCTATTTACTTTATTC
Found at i:78401958 original size:3 final size:3
Alignment explanation
Indices: 78401950--78401976 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
78401940 AGAAAGAAAC
78401950 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
78401977 TTTATTGCAG
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:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:78402848 original size:29 final size:30
Alignment explanation
Indices: 78402815--78402873 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
78402805 TATGCATGAA
78402815 ATTGCACA-AAA-TCAAAGTTCATGTATAAC
1 ATTGCACATAAACT-AAAGTTCATGTATAAC
*
78402844 ATTGCACATTGAACTAAAGTTCATGTATAA
1 ATTGCACA-TAAACTAAAGTTCATGTATAA
78402874 TTACGAGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.31
31 17 0.65
32 1 0.04
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (30 bp):
ATTGCACATAAACTAAAGTTCATGTATAAC
Found at i:78403522 original size:18 final size:17
Alignment explanation
Indices: 78403493--78403575 Score: 55
Period size: 18 Copynumber: 4.6 Consensus size: 17
78403483 TATCGTTAAT
78403493 ATTTTAAAATATAATATTA
1 ATTTT-AAATATAA-ATTA
*
78403512 ATTTTAAATAT--TTCTA
1 ATTTTAAATATAAAT-TA
*
78403528 AGTATTT-AATATTAATTA
1 A-T-TTTAAATATAAATTA
78403546 ATTATTAAATATAAATTA
1 ATT-TTAAATATAAATTA
*
78403564 TATTCTAAATAT
1 -ATTTTAAATAT
78403576 TTAACTATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 17
0.71 0.05 0.23
Matches are distributed among these distances:
15 1 0.02
16 4 0.08
17 9 0.17
18 29 0.56
19 9 0.17
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (17 bp):
ATTTTAAATATAAATTA
Found at i:78412875 original size:3 final size:3
Alignment explanation
Indices: 78412867--78412895 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
78412857 GGATGTTTTG
78412867 ATT ATT ATT ATT ATT ATT ATT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
78412896 TAGTATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:78417777 original size:27 final size:26
Alignment explanation
Indices: 78417713--78417824 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
78417703 AGCATGGCTG
** *
78417713 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* * *
78417739 CCAGATATAGATAACCGTGGCAGAACCA
1 CCAGA-ACAGATAA-TGTGGCAGAGCCA
78417767 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
78417794 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
78417821 CCAG
1 CCAG
78417825 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.72
28 14 0.20
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:78417805 original size:54 final size:54
Alignment explanation
Indices: 78417713--78417824 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
78417703 AGCATGGCTG
* * *
78417713 CCAGAACAGATAATGTGATAGAGTCACCAGATATAGATAACCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAACCGTGGCAGAACCA
* ** * *
78417767 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAACCGTGGCAGAACCA
78417821 CCAG
1 CCAG
78417825 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAACCGTGGCAGAACCA
Found at i:78419287 original size:24 final size:24
Alignment explanation
Indices: 78419255--78419328 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
78419245 ACACAGTTCA
*
78419255 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTGATCAGCTCCTAAATCCTCT
78419279 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTGATCAGCTCCTAAATCCTCT
*
78419303 CCCTTG-TCAGCTCCTAAATCTTCT
1 CCC-TGATCAGCTCCTAAATCCTCT
78419327 CC
1 CC
78419329 AGACAGACTT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 45 0.96
25 2 0.04
ACGTcount: A:0.20, C:0.42, G:0.07, T:0.31
Consensus pattern (24 bp):
CCCTGATCAGCTCCTAAATCCTCT
Found at i:78420377 original size:19 final size:17
Alignment explanation
Indices: 78420347--78420397 Score: 84
Period size: 17 Copynumber: 2.9 Consensus size: 17
78420337 AAATGAAGGT
78420347 TTTTACAAAGAGAGAATG
1 TTTT-CAAAGAGAGAATG
78420365 TTTTCAAAGAGAGAATG
1 TTTTCAAAGAGAGAATG
*
78420382 TTTTCAAAGGGAGAAT
1 TTTTCAAAGAGAGAAT
78420398 ACTGAACAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 28 0.88
18 4 0.12
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
TTTTCAAAGAGAGAATG
Found at i:78420409 original size:18 final size:18
Alignment explanation
Indices: 78420386--78420421 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
78420376 AGAATGTTTT
78420386 CAAAGGGAGAATACTGAA
1 CAAAGGGAGAATACTGAA
78420404 CAAAGGGAGAATACTGAA
1 CAAAGGGAGAATACTGAA
78420422 AGTAAGATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.28, T:0.11
Consensus pattern (18 bp):
CAAAGGGAGAATACTGAA
Found at i:78420608 original size:8 final size:8
Alignment explanation
Indices: 78420595--78420621 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
78420585 TATTGTGGCT
78420595 TCCACGTA
1 TCCACGTA
78420603 TCCACGTA
1 TCCACGTA
78420611 TCCACGTA
1 TCCACGTA
78420619 TCC
1 TCC
78420622 TGGCATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.41, G:0.11, T:0.26
Consensus pattern (8 bp):
TCCACGTA
Found at i:78425594 original size:26 final size:26
Alignment explanation
Indices: 78425565--78425622 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
78425555 TGGTACAAAT
78425565 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
78425591 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
78425617 TGATAA
1 TGATAA
78425623 GAATTTAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:78430261 original size:40 final size:40
Alignment explanation
Indices: 78430202--78430455 Score: 309
Period size: 40 Copynumber: 6.4 Consensus size: 40
78430192 AAGCCAAGTA
* * * * * *
78430202 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
* *
78430241 CCTTTGGGACATAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* * *
78430281 CCTTCGGGACTTAGCCTGGATATAGTAACTCTCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* *
78430321 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
78430361 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* * *
78430401 CCTTCGGGACTTAGCCCGGA-ACTAGTCA-TTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAATG
78430441 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
78430456 TCGGTTATCA
Statistics
Matches: 189, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 14 0.07
40 175 0.93
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:78431839 original size:72 final size:72
Alignment explanation
Indices: 78431706--78432034 Score: 441
Period size: 72 Copynumber: 4.6 Consensus size: 72
78431696 TTTTATATAC
* * * * * *
78431706 AAAATCAAATATAAACAACTATTGATAAAGCTA-ATTTAGTATAAATAAGTGGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTAAGCATAAATAAGTAGAACATAAATTCA
78431770 ATATCCA
66 ATATCCA
* *
78431777 AAAACCAAACATAAACAATTATTGATAAAACTAGATTAAGCATAAATAAGTAGACCATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTAAGCATAAATAAGTAGAACATAAATTCA
78431842 ATATCCA
66 ATATCCA
* * * * * * *
78431849 AAAATCAAACATAAACAACTGTTGATAAAATTAGATTGCA-CATAAACAAGTATAACTTAAATTC
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATT-AAGCATAAATAAGTAGAACATAAATTC
78431913 AATATCCA
65 AATATCCA
* *
78431921 AAAGCCAAACATAAACAACTGTTGATAAAACTAGATTACA-CATAAATAAGTAGAACATAAATTC
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTA-AGCATAAATAAGTAGAACATAAATTC
78431985 AATATCCA
65 AATATCCA
* *
78431993 AAAACCAAACATTAACAACTATTGATAAAACTAG-TTTAGCAT
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTAAGCAT
78432035 TGTTGTTTAG
Statistics
Matches: 226, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
70 1 0.00
71 34 0.15
72 190 0.84
73 1 0.00
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.25
Consensus pattern (72 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAGATTAAGCATAAATAAGTAGAACATAAATTCA
ATATCCA
Found at i:78432474 original size:21 final size:19
Alignment explanation
Indices: 78432449--78432494 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
78432439 TTTCTTTTTT
78432449 TCATTTCCATAAATGTGAACA
1 TCATTT-CA-AAATGTGAACA
78432470 TCATTT-AAAATGTGAACA
1 TCATTTCAAAATGTGAACA
78432488 TCATTTC
1 TCATTTC
78432495 TCACATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 17 0.71
19 1 0.04
21 6 0.25
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCATTTCAAAATGTGAACA
Found at i:78432482 original size:18 final size:18
Alignment explanation
Indices: 78432459--78432493 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
78432449 TCATTTCCAT
78432459 AAATGTGAACATCATTTA
1 AAATGTGAACATCATTTA
78432477 AAATGTGAACATCATTT
1 AAATGTGAACATCATTT
78432494 CTCACATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (18 bp):
AAATGTGAACATCATTTA
Found at i:78434046 original size:30 final size:31
Alignment explanation
Indices: 78434012--78434074 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
78434002 ATTTATTTTA
*
78434012 TTGTTAA-TTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTATTATTATTTTAGAA-GCAT
78434042 TTGTTAATTTTTATTATTATTTTAGAAGCAT
1 TTGTTAATTTTTATTATTATTTTAGAAGCAT
78434073 TT
1 TT
78434075 TCTTGTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 21 0.70
32 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAGCAT
Found at i:78435479 original size:22 final size:22
Alignment explanation
Indices: 78435427--78435480 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
78435417 ATTGAATCAA
* *
78435427 AGAAAGGAAAATAAGCTTTTGG
1 AGAAAAGAAAATAAGCTTTTGC
* *
78435449 AGAAGAGAAAATGAGCTTTTGC
1 AGAAAAGAAAATAAGCTTTTGC
*
78435471 ATAAAAGAAA
1 AGAAAAGAAA
78435481 GCAGTCGATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.50, C:0.06, G:0.24, T:0.20
Consensus pattern (22 bp):
AGAAAAGAAAATAAGCTTTTGC
Found at i:78438620 original size:24 final size:24
Alignment explanation
Indices: 78438593--78438652 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
78438583 TAAAAGCAAC
* **
78438593 ATAGAATATGTCGTAAAGGCGTTA
1 ATAGAATATGTCCTAAAGGAATTA
*
78438617 ATAGAAT-TCGTCCTAAAGGAATTT
1 ATAGAATAT-GTCCTAAAGGAATTA
78438641 ATAGAATATGTC
1 ATAGAATATGTC
78438653 AAAAAGGCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 28 0.93
25 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (24 bp):
ATAGAATATGTCCTAAAGGAATTA
Found at i:78438683 original size:23 final size:23
Alignment explanation
Indices: 78438659--78438741 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 23
78438649 TGTCAAAAAG
* * *
78438659 GCCAAACAGAATACGCCACGCAG
1 GCCAAACAAAATACGCCACACAA
*
78438682 GCCATACAAAATACGCCACACAA
1 GCCAAACAAAATACGCCACACAA
* *
78438705 GCCAAACAAAATATGCCACAAAA
1 GCCAAACAAAATACGCCACACAA
*
78438728 GCCAAACAGAATAC
1 GCCAAACAAAATAC
78438742 TCCATAAAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.48, C:0.31, G:0.13, T:0.07
Consensus pattern (23 bp):
GCCAAACAAAATACGCCACACAA
Found at i:78441110 original size:40 final size:40
Alignment explanation
Indices: 78441050--78441125 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
78441040 AAAAAAATAT
78441050 ATAATTTTTATATCTATTTAATAGTTTTT-AAATTTTAAAA
1 ATAATTTTTATATCTATTTAA-AGTTTTTAAAATTTTAAAA
* *
78441090 ATAATTTTTATA-CTTTTTTAAATTTTTTAAAATTTT
1 ATAATTTTTATATC-TATTTAAAGTTTTTAAAATTTT
78441126 GAAAGTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 7 0.22
40 25 0.78
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (40 bp):
ATAATTTTTATATCTATTTAAAGTTTTTAAAATTTTAAAA
Found at i:78450768 original size:19 final size:19
Alignment explanation
Indices: 78450744--78450784 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
78450734 ATTTAATCTT
78450744 AATTCTAATAAAATTATAA
1 AATTCTAATAAAATTATAA
* *
78450763 AATTCTCATAAAATTTTAA
1 AATTCTAATAAAATTATAA
78450782 AAT
1 AAT
78450785 ATAAATAAAT
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:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTCTAATAAAATTATAA
Found at i:78455843 original size:17 final size:17
Alignment explanation
Indices: 78455821--78455859 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
78455811 TATTGAGGTT
78455821 AAATATAA-ATATTAATA
1 AAATATAATATA-TAATA
*
78455838 AAATATAATATATATTA
1 AAATATAATATATAATA
78455855 AAATA
1 AAATA
78455860 ATTTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATATATAATA
Found at i:78458400 original size:13 final size:13
Alignment explanation
Indices: 78458384--78458449 Score: 82
Period size: 13 Copynumber: 5.1 Consensus size: 13
78458374 TTTAAACCAA
78458384 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
78458397 ACTTCTT-AAAAGT
1 ACTT-TTCAAAAGC
*
78458410 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
78458423 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
78458436 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
78458449 A
1 A
78458450 TTGCCAAACT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.11
13 36 0.80
14 4 0.09
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:78459593 original size:76 final size:78
Alignment explanation
Indices: 78459513--78459706 Score: 189
Period size: 76 Copynumber: 2.5 Consensus size: 78
78459503 ATATTTTATT
* *
78459513 TAACCCAACTTTTTTTGTATTGCCTTTATCTTCTCATGATTTATCCCAA-CCTCCTTATT-TTAA
1 TAACCCAACTTTTTTTGTATTGCCTTTGTCTTCTCATGATTTATACCAATCCTCCTTATTGTTAA
*
78459576 CAAATATTTGGCC
66 CAAATATTTGACC
* * * ** ** *
78459589 TAACCCAACCTTTTTT-AAGTTGCCTTTGT-TTGCTCTTGATTTATACCAATTTTTTTTTTTGTT
1 TAACCCAACTTTTTTTGTA-TTGCCTTTGTCTT-CTCATGATTTATACCAATCCTCCTTATTGTT
* *
78459652 GACAAATATTTGATC
64 AACAAATATTTGACC
* * *
78459667 TAACCTAACCTTTTTTTGTATTGTCTTTGTCTGCTCATGA
1 TAACCCAA-CTTTTTTTGTATTGCCTTTGTCTTCTCATGA
78459707 ACTATTATTA
Statistics
Matches: 92, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
75 3 0.03
76 39 0.42
77 5 0.05
78 21 0.23
79 22 0.24
80 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (78 bp):
TAACCCAACTTTTTTTGTATTGCCTTTGTCTTCTCATGATTTATACCAATCCTCCTTATTGTTAA
CAAATATTTGACC
Found at i:78462918 original size:39 final size:40
Alignment explanation
Indices: 78462859--78462940 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 40
78462849 GGTTATATAT
* * * * * *
78462859 TATTTTTATAATATTATATGTTATGATTTTTATTAATTTA
1 TATTTTAATAATAATATATGTTAAGAATGTTATTAAATTA
78462899 TATTTTAATAATAAT-TATGTTAAGAATGTTATTAAATTA
1 TATTTTAATAATAATATATGTTAAGAATGTTATTAAATTA
78462938 TAT
1 TAT
78462941 GTTATTTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 23 0.64
40 13 0.36
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (40 bp):
TATTTTAATAATAATATATGTTAAGAATGTTATTAAATTA
Found at i:78462962 original size:59 final size:55
Alignment explanation
Indices: 78462880--78463027 Score: 197
Period size: 59 Copynumber: 2.6 Consensus size: 55
78462870 TATTATATGT
* * *
78462880 TATGATTTTTATTAATTTATATTTTAATAATAATTATGTTAAGAATGTTATTAAATTA
1 TATG-TTTTTATTAAATTATA-TTTAATAATAATTATGTTAA-AATATGATTAAATTA
*
78462938 TATGTTATTTTATTAAATTGTATTTAATTAATAATTATGTTAAAATATGATTAAATTA
1 TATG-T-TTTTATTAAATTATATTTAA-TAATAATTATGTTAAAATATGATTAAATTA
*
78462996 TTTGTTTTTATTAAATTATATTTAATAATAAT
1 TATGTTTTTATTAAATTATATTTAATAATAAT
78463028 CTTATTAAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
55 7 0.09
56 19 0.23
57 1 0.01
58 26 0.32
59 28 0.35
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (55 bp):
TATGTTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTA
Found at i:78469383 original size:42 final size:42
Alignment explanation
Indices: 78469324--78469429 Score: 178
Period size: 42 Copynumber: 2.5 Consensus size: 42
78469314 AAATTAGGTT
78469324 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
1 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
78469366 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
1 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
* *
78469408 TAATAATGATAATAA-TAAAATA
1 TAAT-ATCATAAAAATTAAAATA
78469430 TTAAAATAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
42 53 0.87
43 8 0.13
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (42 bp):
TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
Found at i:78469401 original size:19 final size:19
Alignment explanation
Indices: 78469337--78469402 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
78469327 TATCATAAAA
78469337 ATTAAAATAGGATGAAATG
1 ATTAAAATAGGATGAAATG
** * **
78469356 ATTAACTAAATAATATCATAAAA
1 ATT-A--AAATAGGATGA-AATG
78469379 ATTAAAATAGGATGAAATG
1 ATTAAAATAGGATGAAATG
78469398 ATTAA
1 ATTAA
78469403 CTAAATAATA
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
19 10 0.30
20 9 0.27
22 9 0.27
23 5 0.15
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (19 bp):
ATTAAAATAGGATGAAATG
Found at i:78469958 original size:12 final size:13
Alignment explanation
Indices: 78469934--78469958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78469924 AAGGCTATTG
78469934 TTTTCCTATTTTT
1 TTTTCCTATTTTT
78469947 TTTTCCTATTTT
1 TTTTCCTATTTT
78469959 GGAATTTAAT
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCCTATTTTT
Found at i:78471543 original size:22 final size:21
Alignment explanation
Indices: 78471491--78471544 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
78471481 TTGACCTTTC
*
78471491 CAAGGGATGGGTAGGTATGGG
1 CAAGGGATGGGAAGGTATGGG
* * *
78471512 AAATGTATGGGCAAGGTATGGG
1 CAAGGGATGGG-AAGGTATGGG
78471534 CAAGGGATGGG
1 CAAGGGATGGG
78471545 TATATTCTAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.28, C:0.06, G:0.48, T:0.19
Consensus pattern (21 bp):
CAAGGGATGGGAAGGTATGGG
Found at i:78475613 original size:18 final size:18
Alignment explanation
Indices: 78475590--78475664 Score: 105
Period size: 18 Copynumber: 4.2 Consensus size: 18
78475580 CCCAACTACT
*
78475590 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
78475608 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
78475626 GTATACATAAATAGTACC
1 GTATACGTGAATAGTACC
* *
78475644 GTTTACGTGAATAGCACC
1 GTATACGTGAATAGTACC
78475662 GTA
1 GTA
78475665 AACGGTCGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:78476249 original size:22 final size:22
Alignment explanation
Indices: 78476209--78476250 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
78476199 AGGGATGGTT
* *
78476209 AGGTATGGGAAATGTATGGGCA
1 AGGTATGGGAAAGGGATGGGCA
*
78476231 AGGTATGGGCAAGGGATGGG
1 AGGTATGGGAAAGGGATGGG
78476251 TATATTCTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.48, T:0.19
Consensus pattern (22 bp):
AGGTATGGGAAAGGGATGGGCA
Found at i:78480125 original size:17 final size:17
Alignment explanation
Indices: 78480100--78480137 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
78480090 GTTATGTGAA
78480100 AAATCAAA-TAAAAAATT
1 AAATCAAATTAAAAAA-T
*
78480117 AAATTAAATTAAAAAAT
1 AAATCAAATTAAAAAAT
78480134 AAAT
1 AAAT
78480138 AAGCATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATCAAATTAAAAAAT
Found at i:78480625 original size:29 final size:30
Alignment explanation
Indices: 78480593--78480656 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
78480583 ATAGTTCAAA
*
78480593 TACTACATT-AGATATTT-TCAAAGTACAAG
1 TACTACATTGA-ACATTTATCAAAGTACAAG
* *
78480622 TACTACATTGAACATTTATGAAAGTACATG
1 TACTACATTGAACATTTATCAAAGTACAAG
78480652 TACTA
1 TACTA
78480657 AATGTGATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (30 bp):
TACTACATTGAACATTTATCAAAGTACAAG
Found at i:78488323 original size:14 final size:14
Alignment explanation
Indices: 78488304--78488334 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
78488294 TTATTTTCCT
78488304 AGATTGTTTTATAA
1 AGATTGTTTTATAA
78488318 AGATTGTTTTATAA
1 AGATTGTTTTATAA
78488332 AGA
1 AGA
78488335 ATTACCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (14 bp):
AGATTGTTTTATAA
Found at i:78488630 original size:21 final size:21
Alignment explanation
Indices: 78488600--78488639 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
78488590 GGGCCCAAAT
*
78488600 AATAAATAAAACCCAAAACCA
1 AATAAATAAAACCAAAAACCA
*
78488621 AATAAGTAAAACCAAAAAC
1 AATAAATAAAACCAAAAAC
78488640 ATAAAAAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.20, G:0.03, T:0.10
Consensus pattern (21 bp):
AATAAATAAAACCAAAAACCA
Found at i:78488648 original size:21 final size:22
Alignment explanation
Indices: 78488598--78488648 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
78488588 TGGGGCCCAA
*
78488598 ATAATAAA-TAAAACCCAAAACC
1 ATAA-AAAGTAAAACCCAAAAAC
*
78488620 A-AATAAGTAAAA-CCAAAAAC
1 ATAAAAAGTAAAACCCAAAAAC
78488640 ATAAAAAGT
1 ATAAAAAGT
78488649 CAAGTCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 10 0.42
21 13 0.54
22 1 0.04
ACGTcount: A:0.67, C:0.16, G:0.04, T:0.14
Consensus pattern (22 bp):
ATAAAAAGTAAAACCCAAAAAC
Found at i:78489071 original size:25 final size:25
Alignment explanation
Indices: 78489036--78489095 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
78489026 AAGGTTGCAT
*
78489036 TTTTATTTTGTTTTTATTTT-TTCTAC
1 TTTT-TTTTG-TTTGATTTTCTTCTAC
*
78489062 TTTTTTTTGTTTGATTTTGCTTCTAG
1 TTTTTTTTGTTTGATTTT-CTTCTAC
78489088 TTTTTTTT
1 TTTTTTTT
78489096 AAAAAGAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 8 0.27
25 5 0.17
26 17 0.57
ACGTcount: A:0.08, C:0.07, G:0.08, T:0.77
Consensus pattern (25 bp):
TTTTTTTTGTTTGATTTTCTTCTAC
Found at i:78490003 original size:3 final size:3
Alignment explanation
Indices: 78489997--78490028 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
78489987 TTATTATTAT
78489997 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
78490029 TTATTATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:78490117 original size:14 final size:14
Alignment explanation
Indices: 78490098--78490201 Score: 59
Period size: 14 Copynumber: 6.9 Consensus size: 14
78490088 TTTTCAATTT
*
78490098 TTTTTATTTTTTTG
1 TTTTTATTTTTTTA
*
78490112 TTTTTATTTGTTTA
1 TTTTTATTTTTTTA
78490126 TTTACTTA-TTTTTTA
1 TTT--TTATTTTTTTA
* * *
78490141 TAATTTGTTGTTTTA
1 T-TTTTATTTTTTTA
78490156 TTTTTATTCTATTTCT-
1 TTTTTATT-T-TTT-TA
*
78490172 TTTATTATTTATCTTA
1 TTT-TTATTT-TTTTA
78490188 TTTTTAATTTTTTT
1 TTTTT-ATTTTTTT
78490202 GCTCTTGTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
14 22 0.32
15 20 0.29
16 21 0.30
17 6 0.09
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:78496613 original size:19 final size:19
Alignment explanation
Indices: 78496589--78496627 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
78496579 CATATGAAGT
* *
78496589 AGATTTTCTGGTGATGGAC
1 AGATTTCCTGCTGATGGAC
78496608 AGATTTCCTGCTGATGGAC
1 AGATTTCCTGCTGATGGAC
78496627 A
1 A
78496628 TTAAGCTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (19 bp):
AGATTTCCTGCTGATGGAC
Found at i:78497099 original size:58 final size:58
Alignment explanation
Indices: 78497002--78497117 Score: 160
Period size: 58 Copynumber: 2.0 Consensus size: 58
78496992 TTTTGATGGA
* * * *
78497002 TAAACGAAGAAAAAGTTAGATAAGAAGTAGAAAAGGAGAAGAGCACGATTAAGTGAAG
1 TAAAAGAAGAAAAAGTTAGAGAAGAAGCAGAAAAGGAGAAGAGCACGATTAAGCGAAG
* * * *
78497060 TAAAAGAAGAAAGAGTTGGAGAAGAAGCAGAAAATGAGAAGAGTACGATTAAGCGAAG
1 TAAAAGAAGAAAAAGTTAGAGAAGAAGCAGAAAAGGAGAAGAGCACGATTAAGCGAAG
78497118 AAGAAGTCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.53, C:0.05, G:0.29, T:0.13
Consensus pattern (58 bp):
TAAAAGAAGAAAAAGTTAGAGAAGAAGCAGAAAAGGAGAAGAGCACGATTAAGCGAAG
Found at i:78502339 original size:44 final size:44
Alignment explanation
Indices: 78502276--78502489 Score: 191
Period size: 44 Copynumber: 4.8 Consensus size: 44
78502266 TTAAAGCTAC
* *
78502276 AAATTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTG
1 AAATTATAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTG
* * * * *
78502320 AAATTATAGATCTTATCTCCCTGAAGGTGCAGTGGAGTAGATCG
1 AAATTATAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTG
* * * * * *
78502364 -AATATAGTAAATCTTATCTCTCTAAAGTTG-AGGTAGACCA-GATA
1 AAAT-TA-TAAATCTTATCTCCCTGAAGTTGCA-GTGGAGCAGGTTG
* * *
78502408 AAAGCTATAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTG
1 AAA-TTATAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTG
* * * *
78502453 AAGTTACAAGTCTTATCTCCCGGAAGTTGCAGTGGAG
1 AAATTATAAATCTTATCTCCCTGAAGTTGCAGTGGAG
78502490 TAAATCGAAG
Statistics
Matches: 130, Mismatches: 33, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
43 3 0.02
44 94 0.72
45 33 0.25
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
AAATTATAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTG
Found at i:78502484 original size:133 final size:134
Alignment explanation
Indices: 78502141--78502499 Score: 393
Period size: 140 Copynumber: 2.6 Consensus size: 134
78502131 GACTAAAACC
* * * **
78502141 ATAAACCTTATCTCCCTAAAGTTATAATGGAGCAGGTTGAAACGACAAGTCTTATCTCCCTGAAG
1 ATAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAG
* * * * *
78502206 TTGCAATGGAGCAGA-CTGAAGATAGCGAATCTTATTTCCCTAAAGTTACAGTAGAACAAATTAA
66 TTGCAGTGGAGTAGATC-GAAGATAGCAAATCTTATCTCCCTAAAGTTACAGTAGAACAAATAAA
78502270 AGCTACAA
130 AGCT---A
* *
78502278 ATTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTA-TAGATCTTATCTCCCT
1 A-T--AAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACAAG-TCTTATCTCCCT
* * * * * * *
78502342 GAAGGTGCAGTGGAGTAGATCGAATATAGTAAATCTTATCTCTCTAAAGTTGA-GGTAGACCAGA
62 GAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCCCTAAAGTT-ACAGTAGAACAAA
78502406 TAAAAGCT-
126 TAAAAGCTA
* * * *
78502414 ATAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCGGAAG
1 ATAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAG
*
78502479 TTGCAGTGGAGTAAATCGAAG
66 TTGCAGTGGAGTAGATCGAAG
78502500 CGACAATTTC
Statistics
Matches: 187, Mismatches: 28, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
133 72 0.39
134 2 0.01
135 1 0.01
136 1 0.01
137 1 0.01
138 1 0.01
139 2 0.01
140 105 0.56
141 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (134 bp):
ATAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAG
TTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCCCTAAAGTTACAGTAGAACAAATAAAA
GCTA
Found at i:78502717 original size:21 final size:18
Alignment explanation
Indices: 78502692--78502736 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
78502682 TGGCCGAAAT
78502692 AATAAATAAAACCCAAAACCA
1 AATAAATAAAA-CCAAAA--A
*
78502713 AATAAGTAAAACCAAAAA
1 AATAAATAAAACCAAAAA
78502731 AATAAA
1 AATAAA
78502737 AAGTCCAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 6 0.27
20 6 0.27
21 10 0.45
ACGTcount: A:0.71, C:0.16, G:0.02, T:0.11
Consensus pattern (18 bp):
AATAAATAAAACCAAAAA
Found at i:78503147 original size:14 final size:14
Alignment explanation
Indices: 78503128--78503154 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78503118 TAAAAGTTGA
78503128 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
78503142 ATTTTTATTTTTT
1 ATTTTTATTTTTT
78503155 ACTTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:78503160 original size:14 final size:13
Alignment explanation
Indices: 78503128--78503165 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
78503118 TAAAAGTTGA
78503128 ATTTTTATTTTTTT
1 ATTTTTA-TTTTTT
78503142 ATTTTTATTTTTT
1 ATTTTTATTTTTT
78503155 ACTTTTT-TTTT
1 A-TTTTTATTTT
78503166 CGTTTGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:78503812 original size:23 final size:22
Alignment explanation
Indices: 78503767--78503812 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
78503757 CAACCAATCC
*
78503767 AATTCAACATATTTTCAAGATA
1 AATTCAACATATTTTCAAAATA
78503789 AATTCATACATATTTAT-AAAATA
1 AATTCA-ACATATTT-TCAAAATA
78503812 A
1 A
78503813 TGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (22 bp):
AATTCAACATATTTTCAAAATA
Found at i:78506155 original size:862 final size:858
Alignment explanation
Indices: 78504457--78507131 Score: 3486
Period size: 862 Copynumber: 3.0 Consensus size: 858
78504447 AGAATATTGT
*
78504457 CGGGATTACCAGTCTAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGATT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAAC-ACAATTACTCTAATGAGCTTGGATCTGA-T
* *
78504522 TACCAGTCCAGGCTAAATTCAGACCCTAATTCGGATTACCCGTCTAGGCTAAATCCATTTTCCAC
64 TACCAGTCCAGGCTAAATTCAGACCCTAATTCGGATAACCCGTC-CGGCTAAATCCATTTTCCAC
*
78504587 ATATTCTTCGGGAGGGCTATATTAGGATAGGATCACCCGTCCAGGCTAGATCCTTTTTACCGTCA
128 ATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCAGGCTAGATCCTTTTTACCGTCA
* * * *
78504652 ATTCCTTTTCAGAGATCTATCAAATTTTCCTTTCATTCAACCGGGATTTCTTCCCCTTTTATCAA
193 ATTCCTTTTCACAGATCCATCGAATTTTCCTTTTATTCAACCGGGATTTCTTCCCCTTTTATCAA
78504717 ATATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATCAAAAACATG
258 ATATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATCAAAAACATG
*
78504782 CATTTCAAGCATTTAATAATATAATTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACA
323 CATTTCAAGCATTTAAAAATATAATTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACA
*
78504847 AAAAAAATCTACTAATCCTGAACTTTTTACTTTCCTCGATCTAGCTTCGTATTTGAATCTTCTAG
388 AAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTCT-G
78504912 ATCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATA
452 ATCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATA
*
78504977 ATTCAACTATTTATACTTACCTAATATTTTCAATACAGTACAATACAATAAACATTCATATATCC
517 ATTCAACTATTTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCC
78505042 ATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATG
582 ATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATG
78505107 TACCAATAAATTATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTT
647 TACCAATAAATTATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTT
78505172 TTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGT
712 TTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGT
* * * *
78505237 ACATTTTCGGGTCTGTCAATTCTTATTCATGTGCGTACATTTCCATTTCAGAGAGCACACTCTCG
777 ACA-TTTCCGGTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCCCG
78505302 CGAACCTCAACCTTGCAG
841 CGAACCTCAACCTTGCAG
78505320 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACACAATTACTCTAATGAGCTTGGATCTGACTT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACACAATTACTCTAATGAGCTTGGATCTGA-TT
78505385 ACCAGTCCAGGCTAAATTCAGACCCTAATTCGGATAACCCGTCCGGGCTAAATCCATTTTCCACA
65 ACCAGTCCAGGCTAAATTCAGACCCTAATTCGGATAACCCGTCC-GGCTAAATCCATTTTCCACA
*
78505450 TATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCAA
129 TATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCAGGCTAGATCCTTTTTACCGTCAA
*
78505515 TTTCTTTTCACAGATCCATCGAATTTTCCTTTTATTCAACCGGGATTTCTTCCCCTTTTATCAAA
194 TTCCTTTTCACAGATCCATCGAATTTTCCTTTTATTCAACCGGGATTTCTTCCCCTTTTATCAAA
*
78505580 TATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATAAAAAACATGC
259 TATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATCAAAAACATGC
*
78505645 ATTTCAAGCATTTAAGAATATAATTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACAA
324 ATTTCAAGCATTTAAAAATATAATTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACAA
78505710 AAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTCTGTA
389 AAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTCTG-A
*
78505775 TCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTATCTATAA
453 TCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATAA
*
78505840 TTCAACTATTTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCAA
518 TTCAACTATTTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCCA
78505905 TTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATGT
583 TTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATGT
78505970 ACCAAT-AATATATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTT
648 ACCAATAAAT-TATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTT
78506034 TTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGT
712 TTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGT
78506099 ACATTTCCTGGTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCCCG
777 ACATTTCC-GGTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCCCG
* *
78506164 CTAACCTCAACCGTGCAG
841 CGAACCTCAACCTTGCAG
* * * * *
78506182 CGGGATTACCAATCCAGACTAAATCCCCTGCAATATAA--ACTC--ATAGAG-TATTG-TCGTGA
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACACAATTACTCTAAT-GAGCT-TGGATC-TGA
* * * * * *
78506241 TTACCAGTCTAGGCCAAA-TC---CCCTGCAA--C-GATAA---TTAC-TCT-AAT-GAGCTTGT
63 TTACCAGTCCAGGCTAAATTCAGACCCT--AATTCGGATAACCCGTCCGGCTAAATCCA--TT-T
* * * * * * * * *
78506293 ATCTGACTTA-CCAGTC--CA-GGCTAAATTCA-GATCCTAATTCGAATTACCCGTCCAGGCTAA
123 -TC-CACATATTC-TTCGGGAGGGCTATA-TCAGGA---T-A---GGATCACCCGTCCAGGCTAG
* * *** * * * ** **
78506353 ATCCATTTTTTACATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATC
177 ATCC--TTTTTAC-----CGTC--AATTCCT-TTTC---ACA-GAT---CCAT-C-GAAT-TTTC
* ** * ** * * *
78506418 CTTTTTACCGTCAATTCCTTTTTAAAGATCCATCAAATTTTCCTTTCATTCAACCGGGATTTCTT
222 C-TTTTA--TTCAA--CC------GGGAT--TTC---TTCCCCTTTTA-TCAA-----ATAT-AT
** * * * * * * * *
78506483 CCCCT-TTT-ATCAAATATATCAATGT-TTCATAAATTTCTATATAATGA-ACAT-TCAAATCAT
264 -CAATGTTTCAT-AAAT-T-TCCATATAATGA-ACA-TTC-AAATCAT-ATTCATATCAAA--A-
*** * *
78506543 ATTCATGTCAAAAACATGCATTTCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTT
318 A--CATG-C-ATTTCAAGCATTT-----A---AA-AATATAATTCAAGTTACATGAACTTACCTT
78506608 GATACTTGTTTGTAAACAAAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTT
370 GATACTTGTTTGTAAACAAAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTT
* *
78506673 CGTATTTGAATCTTATGGATCCAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCA
435 CGTATTTGAATCTTCT-GATCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCA
*
78506738 TATGCAACATTCTCTATAATTCAACTATTTATACTTACCTCATATTTTCAATACAATACAATACA
499 TATGCAACATTCTCTATAATTCAACTATTTATACTTACCTAATATTTTCAATACAATACAATACA
78506803 ATAAACATTCATATATCCATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTT
564 ATAAACATTCATATATCCATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTT
78506868 AGTACAAAAATTTCCATGTACCAATAAATTATACCATGATTGATGAGCTCATCAATACCATGATT
629 AGTACAAAAATTTCCATGTACCAATAAATTATACCATGATTGATGAGCTCATCAATACCATGATT
*
78506933 TCTATTTCCTTGTTATTTTTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCA
694 TCCATTTCCTTGTTATTTTTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCA
*
78506998 GAGGTACACTTTTAGTGTACATTTCCGAGTCCGTGAATTCTTATTCATGTGCGCACATTTCCATT
759 GAGGTACACTTTTAGTGTACATTTCCG-GTCCGTCAATTCTTATTCATGTGCGCACATTTCCATT
78507063 TCAGAGAGCACAC-CCCTGCGAACCTCAACCTTGCAG
823 TCAGAGAGCACACTCCC-GCGAACCTCAACCTTGCAG
78507099 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAA
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAA
78507132 TATAAACTCA
Statistics
Matches: 1625, Mismatches: 93, Indels: 134
0.88 0.05 0.07
Matches are distributed among these distances:
846 1 0.00
847 3 0.00
848 12 0.01
849 5 0.00
850 5 0.00
851 7 0.00
852 1 0.00
853 5 0.00
854 5 0.00
855 20 0.01
856 2 0.00
857 9 0.01
858 21 0.01
859 8 0.00
860 4 0.00
861 8 0.00
862 831 0.51
863 33 0.02
864 3 0.00
865 3 0.00
868 2 0.00
869 3 0.00
872 3 0.00
873 1 0.00
874 2 0.00
875 3 0.00
876 5 0.00
878 4 0.00
880 2 0.00
886 3 0.00
888 2 0.00
891 8 0.00
892 4 0.00
897 5 0.00
898 8 0.00
899 5 0.00
900 7 0.00
901 7 0.00
902 8 0.00
903 2 0.00
904 1 0.00
906 4 0.00
907 1 0.00
908 9 0.01
913 1 0.00
916 5 0.00
917 530 0.33
918 4 0.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (858 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACACAATTACTCTAATGAGCTTGGATCTGATTA
CCAGTCCAGGCTAAATTCAGACCCTAATTCGGATAACCCGTCCGGCTAAATCCATTTTCCACATA
TTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCAGGCTAGATCCTTTTTACCGTCAATT
CCTTTTCACAGATCCATCGAATTTTCCTTTTATTCAACCGGGATTTCTTCCCCTTTTATCAAATA
TATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATCAAAAACATGCAT
TTCAAGCATTTAAAAATATAATTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACAAAA
AAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTCTGATCT
AAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATAATTC
AACTATTTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCCATTC
AATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATGTACC
AATAAATTATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTTTTCC
ATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGTACAT
TTCCGGTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCCCGCGAAC
CTCAACCTTGCAG
Found at i:78507130 original size:917 final size:917
Alignment explanation
Indices: 78505320--78507334 Score: 3626
Period size: 917 Copynumber: 2.2 Consensus size: 917
78505310 AACCTTGCAG
78505320 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAAC-ACAATTACTCTAATGAGCTTGGATCTGACT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGACT
* *
78505384 TACCAGTCCAGGCTAAATTCAGACCCTAATTCGGATAACCCGTCCGGGCTAAATCCATTTTCCAC
66 TACCAGTCCAGGCTAAATTCAGACCCTAATTCGAATTACCCGTCCGGGCTAAATCCATTTTCCAC
78505449 ATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCA
131 ATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCA
* * * *
78505514 ATTTCTTTTCACAGATCCATCGAATTTTCCTTTTATTCAACCGGGATTTCTTCCCCTTTTATCAA
196 ATTCCTTTTCAAAGATCCATCAAATTTTCCTTTCATTCAACCGGGATTTCTTCCCCTTTTATCAA
78505579 ATATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATAAAAAACATG
261 ATATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATAAAAAACATG
*
78505644 CATTTCAAGCATTTAAGAATATAATTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACA
326 CATTTCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACA
* *
78505709 AAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTCTGT
391 AAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTATGG
*
78505774 ATCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTATCTATA
456 ATCCAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTATCTATA
78505839 ATTCAACTATTTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCA
521 ATTCAACTATTTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCA
78505904 ATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATG
586 ATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATG
78505969 TACCAATAATATATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTT
651 TACCAATAATATATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTT
78506034 TTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGT
716 TTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGT
78506099 ACATTTCCTGGTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCCCG
781 ACATTTCCTGGTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCCCG
*
78506164 CTAACCTCAACCGTGCAGCGGGATTACCAATCCAGACTAAATCCCCTGCAATATAAACTCATAGA
846 CGAACCTCAACCGTGCAGCGGGATTACCAATCCAGACTAAATCCCCTGCAATATAAACTCATAGA
78506229 GTATTGT
911 GTATTGT
* * * * *
78506236 CGTGATTACCAGTCTAGGCCAAATCCCCTGCAACGATAATTACTCTAATGAGCTTGTATCTGACT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGACT
* * **
78506301 TACCAGTCCAGGCTAAATTCAGATCCTAATTCGAATTACCCGTCCAGGCTAAATCCATTTTTTAC
66 TACCAGTCCAGGCTAAATTCAGACCCTAATTCGAATTACCCGTCCGGGCTAAATCCATTTTCCAC
78506366 ATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCA
131 ATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCA
*
78506431 ATTCCTTTTTAAAGATCCATCAAATTTTCCTTTCATTCAACCGGGATTTCTTCCCCTTTTATCAA
196 ATTCCTTTTCAAAGATCCATCAAATTTTCCTTTCATTCAACCGGGATTTCTTCCCCTTTTATCAA
* * *
78506496 ATATATCAATGTTTCATAAATTTCTATATAATGAACATTCAAATCATATTCATGTCAAAAACATG
261 ATATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATAAAAAACATG
78506561 CATTTCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACA
326 CATTTCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACA
78506626 AAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTATGG
391 AAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTATGG
*
78506691 ATCCAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATA
456 ATCCAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTATCTATA
* *
78506756 ATTCAACTATTTATACTTACCTCATATTTTCAATACAATACAATACAATAAACATTCATATATCC
521 ATTCAACTATTTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCA
78506821 ATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATG
586 ATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATG
*
78506886 TACCAATAA-ATTATACCATGATTGATGAGCTCATCAATACCATGATTTCTATTTCCTTGTTATT
651 TACCAATAATA-TATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATT
78506950 TTTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTG
715 TTTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTG
*
78507015 TACATTTCC-GAGTCCGTGAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACAC-CC
780 TACATTTCCTG-GTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCC
* * *
78507078 CTGCGAACCTCAACCTTGCAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCAT
844 C-GCGAACCTCAACCGTGCAGCGGGATTACCAATCCAGACTAAATCCCCTGCAATATAAACTCAT
78507143 AGAGTATTGT
908 AGAGTATTGT
*
78507153 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGATT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGACT
* *
78507218 TACAAGTCCAGGCTAAATTCAGACCCTAATTC-AGATTACCTGTCCGGGCTAAATCCATTTTCCA
66 TACCAGTCCAGGCTAAATTCAGACCCTAATTCGA-ATTACCCGTCCGGGCTAAATCCATTTTCCA
* *
78507282 CATATTCTTCGGGAGGGCTATATTAGGATAGGATCACCCGTCCAGGCTAGATC
130 CATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATC
78507335 AATTTCTATT
Statistics
Matches: 1048, Mismatches: 46, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
916 37 0.04
917 1011 0.96
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (917 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGACT
TACCAGTCCAGGCTAAATTCAGACCCTAATTCGAATTACCCGTCCGGGCTAAATCCATTTTCCAC
ATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCA
ATTCCTTTTCAAAGATCCATCAAATTTTCCTTTCATTCAACCGGGATTTCTTCCCCTTTTATCAA
ATATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATAAAAAACATG
CATTTCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACA
AAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTATGG
ATCCAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTATCTATA
ATTCAACTATTTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCA
ATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATG
TACCAATAATATATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTT
TTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGT
ACATTTCCTGGTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCCCG
CGAACCTCAACCGTGCAGCGGGATTACCAATCCAGACTAAATCCCCTGCAATATAAACTCATAGA
GTATTGT
Found at i:78508601 original size:3 final size:3
Alignment explanation
Indices: 78508593--78508629 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
78508583 CTCTACTTAT
*
78508593 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
78508630 CATTTTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:78508684 original size:35 final size:35
Alignment explanation
Indices: 78508653--78508720 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
78508643 TTTATTTAAT
*
78508653 ATTTCTTTATTCTTTTATTTATTTGTTTATTTTCA
1 ATTTTTTTATTCTTTTATTTATTTGTTTATTTTCA
* * **
78508688 ATTTTTTTATTTTTTTGTTTATTTACTTATTTT
1 ATTTTTTTATTCTTTTATTTATTTGTTTATTTT
78508721 TTATAATTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (35 bp):
ATTTTTTTATTCTTTTATTTATTTGTTTATTTTCA
Found at i:78508720 original size:27 final size:27
Alignment explanation
Indices: 78508659--78508782 Score: 89
Period size: 27 Copynumber: 4.6 Consensus size: 27
78508649 TAATATTTCT
*
78508659 TTATTCTTTTATTTATTTGTTTATTTTC
1 TTATT-TTTTATTTATTTGTTTATTTAC
* *
78508687 -AATTTTTTTATTTTTTTGTTTATTTAC
1 TTA-TTTTTTATTTATTTGTTTATTTAC
* *
78508714 TTATTTTTTA-TAATTGGTTGT-TTTA-
1 TTATTTTTTATTTATTTGTT-TATTTAC
* *
78508739 TTTTTATTTTATTTCTTT-TATTATTTATC
1 TTATT-TTTTATTTATTTGT-TTATTTA-C
78508768 TTA-TTTTTATTTATT
1 TTATTTTTTATTTATT
78508783 ATTATTTTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
25 4 0.05
26 17 0.23
27 47 0.64
28 4 0.05
29 2 0.03
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (27 bp):
TTATTTTTTATTTATTTGTTTATTTAC
Found at i:78509794 original size:13 final size:13
Alignment explanation
Indices: 78509771--78509821 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
78509761 AGTTCTTCAT
*
78509771 TGCTTTTGAAAAG
1 TGCTTTGGAAAAG
*
78509784 TGCTGTGGAAAAG
1 TGCTTTGGAAAAG
* *
78509797 TGCTTTTGAGAAG
1 TGCTTTGGAAAAG
78509810 TGCTTTGGAAAA
1 TGCTTTGGAAAA
78509822 ATTTAAGTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.33
Consensus pattern (13 bp):
TGCTTTGGAAAAG
Found at i:78509810 original size:26 final size:26
Alignment explanation
Indices: 78509771--78509821 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
78509761 AGTTCTTCAT
78509771 TGCTTTTGAAAAGTGCTGTGGAAAAG
1 TGCTTTTGAAAAGTGCTGTGGAAAAG
* *
78509797 TGCTTTTGAGAAGTGCTTTGGAAAA
1 TGCTTTTGAAAAGTGCTGTGGAAAA
78509822 ATTTAAGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.33
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGCTGTGGAAAAG
Found at i:78520056 original size:22 final size:22
Alignment explanation
Indices: 78520022--78520064 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
78520012 GTTATGTGAA
78520022 AAATTAAATAAAATAAA-AAATT
1 AAATTAAATAAAA-AAACAAATT
78520044 AAATTGAAA-AAAAAAACAAAT
1 AAATT-AAATAAAAAAACAAAT
78520065 AGCTAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.16
22 13 0.68
23 3 0.16
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAATTAAATAAAAAAACAAATT
Found at i:78534679 original size:24 final size:24
Alignment explanation
Indices: 78534629--78534680 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
78534619 TTCTTAGGTC
* **
78534629 AAATAAATTATGCTAATAAATGTT
1 AAATAAATTATACTAATAAATACT
*
78534653 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
78534677 AAAT
1 AAAT
78534681 CTTCTATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:78554854 original size:47 final size:48
Alignment explanation
Indices: 78554735--78554863 Score: 161
Period size: 47 Copynumber: 2.7 Consensus size: 48
78554725 GTGCGATTGA
* * * *
78554735 TACCTTGATTTGGTTATGGGCCATGGTATAGGTATTTCGGAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGAGAGAAGT
* ***
78554783 TACCTTGATTTCGCTACAAGCCATGGTATAGGTACTCCGG-GAGAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGAGAGAAGT
* *
78554830 TGCCTTGATTTGGCTATGGGCCATGGTGTAGGTA
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTA
78554864 GTTATCGATT
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
47 34 0.51
48 33 0.49
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.33
Consensus pattern (48 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGAGAGAAGT
Found at i:78561480 original size:40 final size:40
Alignment explanation
Indices: 78561436--78561529 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
78561426 GCGTTTTAAT
78561436 AAAAAACGCCACTAAAAACGAGCATTACCGGCGCTTCTAC
1 AAAAAACGCCACTAAAAACGAGCATTACCGGCGCTTCTAC
* * * *
78561476 -AAAAACGCCACTAAAAAACGAGCATTAGCTGCGCTTTTAG
1 AAAAAACGCCACT-AAAAACGAGCATTACCGGCGCTTCTAC
*
78561516 AAAAAATGCCACTA
1 AAAAAACGCCACTA
78561530 TAGGTTGACC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 12 0.26
40 24 0.51
41 11 0.23
ACGTcount: A:0.43, C:0.26, G:0.15, T:0.17
Consensus pattern (40 bp):
AAAAAACGCCACTAAAAACGAGCATTACCGGCGCTTCTAC
Found at i:78562078 original size:7 final size:7
Alignment explanation
Indices: 78562068--78562194 Score: 83
Period size: 7 Copynumber: 17.9 Consensus size: 7
78562058 AGTTTAAAAT
78562068 TTAGGGG
1 TTAGGGG
78562075 TTAGGGG
1 TTAGGGG
* **
78562082 TTAAGAA
1 TTAGGGG
78562089 TTAGGGG
1 TTAGGGG
78562096 TTAGGGG
1 TTAGGGG
* * *
78562103 ATAAGGA
1 TTAGGGG
78562110 TTAGGGG
1 TTAGGGG
78562117 TTAGGGG
1 TTAGGGG
**
78562124 TTAAAGG
1 TTAGGGG
* *
78562131 TTAAGAGT
1 TT-AGGGG
** *
78562139 TTATAGT
1 TTAGGGG
78562146 TTAGGGG
1 TTAGGGG
78562153 TTAGGGG
1 TTAGGGG
* * *
78562160 ATAAGGA
1 TTAGGGG
78562167 TTAGGGG
1 TTAGGGG
78562174 TTAGGGG
1 TTAGGGG
*
78562181 TTTAGGGT
1 -TTAGGGG
78562189 TTAGGG
1 TTAGGG
78562195 TTTAAAGACC
Statistics
Matches: 91, Mismatches: 27, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
7 80 0.88
8 11 0.12
ACGTcount: A:0.25, C:0.00, G:0.44, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:78562085 original size:21 final size:21
Alignment explanation
Indices: 78562068--78562127 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
78562058 AGTTTAAAAT
78562068 TTAGGGGTTAGGGGTTAAGAA
1 TTAGGGGTTAGGGGTTAAGAA
* *
78562089 TTAGGGGTTAGGGGATAAGGA
1 TTAGGGGTTAGGGGTTAAGAA
78562110 TTAGGGGTTAGGGGTTAA
1 TTAGGGGTTAGGGGTTAA
78562128 AGGTTAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.27, C:0.00, G:0.45, T:0.28
Consensus pattern (21 bp):
TTAGGGGTTAGGGGTTAAGAA
Found at i:78562198 original size:57 final size:57
Alignment explanation
Indices: 78562067--78562199 Score: 187
Period size: 57 Copynumber: 2.3 Consensus size: 57
78562057 GAGTTTAAAA
* *
78562067 TTTAGGGGTTAGGGGTTAAGAATTAGGGGTTAGGGGATAAGGATTAGGGGTTAGGGG
1 TTTAGGGTTTAGGGTTTAAGAATTAGGGGTTAGGGGATAAGGATTAGGGGTTAGGGG
* * * * *
78562124 TTAAAGGTTAAGAGTTTATAG-TTTAGGGGTTAGGGGATAAGGATTAGGGGTTAGGGG
1 TTTAGGGTTTAGGGTTTA-AGAATTAGGGGTTAGGGGATAAGGATTAGGGGTTAGGGG
78562181 TTTAGGGTTTAGGGTTTAA
1 TTTAGGGTTTAGGGTTTAA
78562200 AGACCGGTGA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
56 1 0.02
57 61 0.95
58 2 0.03
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.32
Consensus pattern (57 bp):
TTTAGGGTTTAGGGTTTAAGAATTAGGGGTTAGGGGATAAGGATTAGGGGTTAGGGG
Found at i:78564590 original size:13 final size:14
Alignment explanation
Indices: 78564574--78564602 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78564564 TTATAAATAT
78564574 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
78564587 TTATAATGGTTTAA
1 TTATAATGGTTTAA
78564601 TT
1 TT
78564603 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:78565064 original size:21 final size:21
Alignment explanation
Indices: 78565011--78565086 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
78565001 ACTTAGAGCG
*
78565011 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
* * *
78565032 GCGGCGGTAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
** * *
78565053 TTGGCAGCAGCGAAGGAGGTA
1 GAGGCAGCAGCGAGGGAGGCA
78565074 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
78565087 TGGTAGCAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.28, C:0.17, G:0.50, T:0.05
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:78565377 original size:31 final size:31
Alignment explanation
Indices: 78565335--78565400 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
78565325 TGTATTTTTT
** *
78565335 ATGCTAAATTTGTTGTTTTTGGTTGCATTTC
1 ATGCTAAATTTGCCGTTTTTGGTTGCATTTA
* *
78565366 ATGCTATATTTGCCGTTTTTGGTTGGATTTA
1 ATGCTAAATTTGCCGTTTTTGGTTGCATTTA
78565397 ATGC
1 ATGC
78565401 AGGAAGGGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.17, C:0.11, G:0.21, T:0.52
Consensus pattern (31 bp):
ATGCTAAATTTGCCGTTTTTGGTTGCATTTA
Found at i:78565496 original size:43 final size:43
Alignment explanation
Indices: 78565449--78565540 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
78565439 ATCAGCCAAA
*
78565449 TTAGCGGCG-TTTGTGAAAAAAGCGCCACTAAAAGTCATGACCT
1 TTAGCGGCGCTTTGTCAAAAAA-CGCCACTAAAAGTCATGACCT
* * * * * *
78565492 TTAGCGGTGCTTTTTCCACAAACGCCGCTAAAAGTCATGACTT
1 TTAGCGGCGCTTTGTCAAAAAACGCCACTAAAAGTCATGACCT
78565535 TTAGCG
1 TTAGCG
78565541 CCGCAAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 33 0.80
44 8 0.20
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (43 bp):
TTAGCGGCGCTTTGTCAAAAAACGCCACTAAAAGTCATGACCT
Found at i:78569129 original size:28 final size:27
Alignment explanation
Indices: 78569074--78569186 Score: 140
Period size: 27 Copynumber: 4.1 Consensus size: 27
78569064 AGCATGGCTG
* *
78569074 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
78569100 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
78569128 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
78569155 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA-TTGTGGCAGAGCCA
78569183 CCAG
1 CCAG
78569187 GAAACTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 8 0.11
27 34 0.45
28 33 0.43
29 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:78569157 original size:55 final size:54
Alignment explanation
Indices: 78569074--78569186 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
78569064 AGCATGGCTG
* *
78569074 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * *
78569128 CCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
78569183 CCAG
1 CCAG
78569187 GAAACTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 18 0.35
55 34 0.65
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:78570514 original size:24 final size:23
Alignment explanation
Indices: 78570487--78570560 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 23
78570477 AGATTTCCTC
*
78570487 CCTTATCTGCTCCTAAATCCTATT
1 CCTTATCAGCTCCTAAATCCTA-T
* *
78570511 CCTTATCAACTCCTAAGTCCTAT
1 CCTTATCAGCTCCTAAATCCTAT
*
78570534 CTCTTATCAAG-TCCTAAATCCTCT
1 C-CTTATC-AGCTCCTAAATCCTAT
78570558 CCT
1 CCT
78570561 GACAGACTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
23 4 0.10
24 37 0.88
25 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.04, T:0.38
Consensus pattern (23 bp):
CCTTATCAGCTCCTAAATCCTAT
Found at i:78576934 original size:28 final size:28
Alignment explanation
Indices: 78576845--78576939 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
78576835 GATAATGTAA
* *
78576845 CAAAGTCACCAGATACAGATAA-TCGTGG
1 CAAAGCCACCAGAT-CAGATAATTTGTGG
* * * * *
78576873 CAGAGCCACCAAAACA-AAAATATGTGG
1 CAAAGCCACCAGATCAGATAATTTGTGG
78576900 CAAAGCCACCAGATCAGATAATTTGTGG
1 CAAAGCCACCAGATCAGATAATTTGTGG
*
78576928 CATAGCCACCAG
1 CAAAGCCACCAG
78576940 GACCCTTCCT
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
26 3 0.06
27 19 0.37
28 30 0.58
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (28 bp):
CAAAGCCACCAGATCAGATAATTTGTGG
Found at i:78578383 original size:24 final size:24
Alignment explanation
Indices: 78578370--78578426 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
78578360 TTATTTGCTG
78578370 CTAAATCCTATCCCTTATCAACTC
1 CTAAATCCTATCCCTTATCAACTC
78578394 CTAAATCCTATCCCTTATCAACTC
1 CTAAATCCTATCCCTTATCAACTC
78578418 CTAAATCCT
1 CTAAATCCT
78578427 CTCCTGACAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (24 bp):
CTAAATCCTATCCCTTATCAACTC
Found at i:78579591 original size:41 final size:43
Alignment explanation
Indices: 78579529--78579628 Score: 145
Period size: 41 Copynumber: 2.4 Consensus size: 43
78579519 ATAAAATTTG
*
78579529 CTAGGC-ATAAAGCCT-AGTATAATACACCGGCACAGAGCCTA
1 CTAGGCAATAAAGCCTGAGTATAATACACCGGCACAAAGCCTA
* *
78579570 CTAGGCAAT-AAGCCTGA-TATAATACACTGGCACAAAGCCTG
1 CTAGGCAATAAAGCCTGAGTATAATACACCGGCACAAAGCCTA
78579611 CTAGGCAATAAAGCCTGA
1 CTAGGCAATAAAGCCTGA
78579629 ATATCACTGA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
41 42 0.79
42 11 0.21
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (43 bp):
CTAGGCAATAAAGCCTGAGTATAATACACCGGCACAAAGCCTA
Found at i:78585985 original size:27 final size:27
Alignment explanation
Indices: 78585955--78586070 Score: 146
Period size: 27 Copynumber: 4.3 Consensus size: 27
78585945 TATTGAAATG
** *
78585955 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
78585982 CCCTTGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
78586009 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
78586036 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
78586063 -CCTCGATT
1 CCCTCGATT
78586071 GTGAAATTAC
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.09
27 72 0.91
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:78586017 original size:54 final size:54
Alignment explanation
Indices: 78585955--78586070 Score: 164
Period size: 54 Copynumber: 2.2 Consensus size: 54
78585945 TATTGAAATG
** * * *
78585955 CCCTCGATTTGTAGAATTACCATTTTACCCT-TGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTACCCTCAG-TTTACAAAATTACCGTTTTA
78586009 CCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTA
78586063 -CCTCGATT
1 CCCTCGATT
78586071 GTGAAATTAC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
53 8 0.14
54 47 0.84
55 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.39
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTA
Found at i:78586113 original size:27 final size:26
Alignment explanation
Indices: 78586074--78586225 Score: 108
Period size: 27 Copynumber: 5.7 Consensus size: 26
78586064 CTCGATTGTG
**
78586074 AAATTACTGAAATATCCCT-GTAGGATA
1 AAATTACCAAAATA-CCCTAGTAGG-TA
* **
78586101 GAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTAGTAGGTA
**
78586128 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCC-TAGTAGGTA
* * **
78586155 AAATTACCGAAATACCACTGGTTTGTA
1 AAATTACCAAAATACC-CTAGTAGGTA
* * **
78586182 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCT-AGTAGGTA
78586209 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
78586226 CTAATTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
26 5 0.05
27 100 0.92
28 4 0.04
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (26 bp):
AAATTACCAAAATACCCTAGTAGGTA
Found at i:78586141 original size:54 final size:52
Alignment explanation
Indices: 78586069--78586251 Score: 161
Period size: 54 Copynumber: 3.4 Consensus size: 52
78586059 TTTACCTCGA
* * * *
78586069 TTGTGAAATTACTGAAATATCCCTGTAG-GATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCGAAATA-CCCT-TAGTG-TAAAATTACCAAAATACCACTAGT
* * *
78586123 TTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTAAAATTACCGAAATACCCTTAG--TGTAAAATTACCAAAATACCACTAGT
* * * *
78586177 TTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCGAAATACCCT-TA-GTGTAAAATTACCAAAATACCACTAGT
** **
78586231 TTACAAAATTACATAAATACC
1 TTGTAAAATTACCGAAATACC
78586252 TTTGACTTTT
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
52 3 0.03
53 4 0.04
54 97 0.92
55 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (52 bp):
TTGTAAAATTACCGAAATACCCTTAGTGTAAAATTACCAAAATACCACTAGT
Found at i:78586231 original size:27 final size:27
Alignment explanation
Indices: 78586102--78586251 Score: 187
Period size: 27 Copynumber: 5.6 Consensus size: 27
78586092 TGTAGGATAG
78586102 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
78586129 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
78586156 AATTACCGAAATACCACTGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
78586183 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
78586210 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
78586237 AATTA-CATAAATACC
1 AATTACCA-AAATACC
78586252 TTTGACTTTT
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
26 5 0.05
27 100 0.92
28 4 0.04
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:78586239 original size:81 final size:81
Alignment explanation
Indices: 78586102--78586251 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 81
78586092 TGTAGGATAG
* * * ** *
78586102 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
78586167 TACCACTGGTTTGTAA
66 TACCACTGGTTTGTAA
* *
78586183 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACATAA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAA
78586247 ATACC
65 ATACC
78586252 TTTGACTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 4 0.07
81 56 0.93
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
TACCACTGGTTTGTAA
Found at i:78586304 original size:27 final size:26
Alignment explanation
Indices: 78586260--78586315 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
78586250 CCTTTGACTT
78586260 TTTAAAAATTATAGAAATACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
78586286 TTTACAAAATTACTA-AAATACCCTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
78586313 TTT
1 TTT
78586316 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.78
28 2 0.07
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:78586399 original size:27 final size:27
Alignment explanation
Indices: 78586356--78586429 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
78586346 AAATGACTAA
*
78586356 AATACCCCTAATA-GGTAAAAAGACCAT
1 AATACCCCT-GTAGGGTAAAAAGACCAT
**
78586383 AA-AGCCCCTGTAGGGTAAAGTGACCAT
1 AATA-CCCCTGTAGGGTAAAAAGACCAT
* *
78586410 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
78586430 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCAT
Found at i:78586433 original size:27 final size:27
Alignment explanation
Indices: 78586369--78586433 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
78586359 ACCCCTAATA
*
78586369 GGTAAAAAGACCATAAAGCCCCTGTAG
1 GGTAAAATGACCATAAAGCCCCTGTAG
* * *
78586396 GGTAAAGTGACCATAATA-CCCTTGTAT
1 GGTAAAATGACCATAA-AGCCCCTGTAG
78586423 GGTAAAATGAC
1 GGTAAAATGAC
78586434 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCATAAAGCCCCTGTAG
Found at i:78586768 original size:42 final size:42
Alignment explanation
Indices: 78586704--78586869 Score: 190
Period size: 42 Copynumber: 4.0 Consensus size: 42
78586694 AATATTCGAC
**
78586704 GATAGCTTCGGCTATACATTGGCACTTAATGTGCGAGATTGA
1 GATAGCTTCGGCTACGCATTGGCACTTAATGTGCGAGATTGA
** *
78586746 GATAGCTTCGGCTACGTTTTGGCACTTAATGTGCGAGATCGA
1 GATAGCTTCGGCTACGCATTGGCACTTAATGTGCGAGATTGA
* * * *
78586788 GATAGCTTCGGCTATGCATTGGCACTTAGTGTG-AATAATTGA
1 GATAGCTTCGGCTACGCATTGGCACTTAATGTGCGA-GATTGA
* * * * *
78586830 GGTAGCTTCGGTTACGTATTGGCACTTAGTGTGTGAGATT
1 GATAGCTTCGGCTACGCATTGGCACTTAATGTGCGAGATT
78586870 TCAGAGTAAC
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.01
42 102 0.98
43 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (42 bp):
GATAGCTTCGGCTACGCATTGGCACTTAATGTGCGAGATTGA
Found at i:78586808 original size:84 final size:85
Alignment explanation
Indices: 78586699--78586868 Score: 236
Period size: 84 Copynumber: 2.0 Consensus size: 85
78586689 ATGGAAATAT
* *
78586699 TCGACGATAGCTTCGGCTATACATTGGCACTTAATGTGCGA-GATTGAGATAGCTTCGGCTACGT
1 TCGACGATAGCTTCGGCTATACATTGGCACTTAATGTG-AATAATTGAGATAGCTTCGGCTACGT
*
78586763 TTTGGCACTTAATGTGCGAGA
65 ATTGGCACTTAATGTGCGAGA
* * * *
78586784 TCGA-GATAGCTTCGGCTATGCATTGGCACTTAGTGTGAATAATTGAGGTAGCTTCGGTTACGTA
1 TCGACGATAGCTTCGGCTATACATTGGCACTTAATGTGAATAATTGAGATAGCTTCGGCTACGTA
* *
78586848 TTGGCACTTAGTGTGTGAGA
66 TTGGCACTTAATGTGCGAGA
78586868 T
1 T
78586869 TTCAGAGTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
83 1 0.01
84 70 0.93
85 4 0.05
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (85 bp):
TCGACGATAGCTTCGGCTATACATTGGCACTTAATGTGAATAATTGAGATAGCTTCGGCTACGTA
TTGGCACTTAATGTGCGAGA
Found at i:78586970 original size:32 final size:32
Alignment explanation
Indices: 78586934--78587000 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
78586924 TGAGTATGAG
* ** *
78586934 ATTGGTATGGGATGGTACAGGTATGTACAGAA
1 ATTGGTATGAGATGGTACAAATATGTACAAAA
*
78586966 ATTGGTATGAGATGGTATAAATATGTACAAAA
1 ATTGGTATGAGATGGTACAAATATGTACAAAA
78586998 ATT
1 ATT
78587001 CAATTAAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.31
Consensus pattern (32 bp):
ATTGGTATGAGATGGTACAAATATGTACAAAA
Found at i:78589518 original size:48 final size:48
Alignment explanation
Indices: 78589451--78589775 Score: 270
Period size: 48 Copynumber: 6.8 Consensus size: 48
78589441 TCAGTACATG
** *
78589451 TGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGA
1 TGAGATCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGA
* *
78589499 TGAGATCCTGTATAAGACCATGTCTGGGACATGGCATCGGCGAT-GATA
1 TGAGATCCTGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATCGAGA
* * * *
78589547 TGTG-TGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-C-ATTA
1 TGAGATCCT-GTGTAAGACCATGTCTGGGACATGGCATC-GGCATCGA-GA
* * *
78589595 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
1 TGAGATCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGA
* * * * *
78589643 CGAG--GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCTCGACG-
1 TGAGATCCT-GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-GA
* * ** * * **
78589690 TGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATTGACATCGTTA
1 TGAGATCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGA
** * *
78589738 TGTTAT-TTCATGTAAGACCATGTCTGGGACATGGCATC
1 TGAGATCCT-GTGTAAGACCATGTCTGGGACATGGCATC
78589776 ATTATGAGAT
Statistics
Matches: 225, Mismatches: 38, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
46 1 0.00
47 42 0.19
48 175 0.78
49 7 0.03
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
TGAGATCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGA
Found at i:78589697 original size:95 final size:95
Alignment explanation
Indices: 78589461--78589726 Score: 324
Period size: 96 Copynumber: 2.8 Consensus size: 95
78589451 TGAGATCCCA
* * * * * *
78589461 TGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGATCCTGTATAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGAG-TGAGAGCCAGTGTAAGACCATGTCTGG
* * *
78589526 GACATGGCATCGGCGATGATATGTGTGCTAG
65 GACATGGCATCGGCGATGAGACGAGTGCTAG
* *
78589557 TGTAAGACCATGTCTGGGACATGGCATC-AGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CCTCGA--GTGAGAGCCAGTGTAAGACCATGTCT
78589620 GGGACATGGCATCGGC-ATTGAGACGAG-GCTAG
63 GGGACATGGCATCGGCGA-TGAGACGAGTGCTAG
* * *
78589652 TGTAAGACCATGTCTAGGACATGGCATCGACCTCGACGTGTGAGCCAATGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGA-GTGAGAGCCAGTGTAAGACCATGTCTGG
78589717 GACATGGCAT
65 GACATGGCAT
78589727 TGACATCGTT
Statistics
Matches: 147, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
95 72 0.49
96 75 0.51
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (95 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGTGAGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGGCGATGAGACGAGTGCTAG
Found at i:78589710 original size:143 final size:143
Alignment explanation
Indices: 78589451--78589775 Score: 388
Period size: 143 Copynumber: 2.3 Consensus size: 143
78589441 TCAGTACATG
* * *
78589451 TGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGATCCTGTATAAGA
1 TGAGATGCCATGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGA-CCTGTATAAGA
* * * * * *
78589516 CCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGG
65 CCATGTCTAGGACATGGCATCGACGATGACATGTGAGCCAATGTAAGACCATGTCTGGGACATGG
*
78589581 CATCAGCCA-CATTA
130 CAT-AGACATCATTA
* * *
78589595 TGAGA-GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAG-GCTAGTGTAAG
1 TGAGATGCCA-TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGACCT-GTATAAG
* *
78589658 ACCATGTCTAGGACATGGCATCGAC-CTCGACGTGTGAGCCAATGTAAGACCATGTCTGGGACAT
64 ACCATGTCTAGGACATGGCATCGACGAT-GACATGTGAGCCAATGTAAGACCATGTCTGGGACAT
* *
78589722 GGCATTGACATCGTTA
128 GGCATAGACATCATTA
** **
78589738 TGTTATTTCATGTAAGACCATGTCTGGGACATGGCATC
1 TGAGATGCCATGTAAGACCATGTCTGGGACATGGCATC
78589776 ATTATGAGAT
Statistics
Matches: 155, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
142 6 0.04
143 103 0.66
144 46 0.30
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (143 bp):
TGAGATGCCATGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGACCTGTATAAGAC
CATGTCTAGGACATGGCATCGACGATGACATGTGAGCCAATGTAAGACCATGTCTGGGACATGGC
ATAGACATCATTA
Found at i:78589795 original size:42 final size:45
Alignment explanation
Indices: 78589699--78589800 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 45
78589689 GTGTGAGCCA
** *
78589699 ATGTAAGACCATGTCTGGGACATGGCATTGACATCGTTATGTTATTTC
1 ATGTAAGACCATGTCTGGGACATGGCATT-ACA-C-TTATGAGATATC
78589747 ATGTAAGACCATGTCTGGGACATGGCA-T-CA-TTATGAGATATC
1 ATGTAAGACCATGTCTGGGACATGGCATTACACTTATGAGATATC
*
78589789 GTGTAAGACCAT
1 ATGTAAGACCAT
78589801 AGCTAGGCTG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
42 20 0.40
45 2 0.04
47 1 0.02
48 27 0.54
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (45 bp):
ATGTAAGACCATGTCTGGGACATGGCATTACACTTATGAGATATC
Found at i:78590682 original size:29 final size:29
Alignment explanation
Indices: 78590649--78590706 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
78590639 ATGTGAATGT
78590649 CTGTTTTCTAAAGAAAATATAATTGTATG
1 CTGTTTTCTAAAGAAAATATAATTGTATG
78590678 CTGTTTTCTAAAGAAAATATAATTGTATG
1 CTGTTTTCTAAAGAAAATATAATTGTATG
78590707 AGTATACGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (29 bp):
CTGTTTTCTAAAGAAAATATAATTGTATG
Found at i:78594048 original size:40 final size:42
Alignment explanation
Indices: 78593956--78594084 Score: 174
Period size: 42 Copynumber: 3.1 Consensus size: 42
78593946 TTAATTTGCA
*
78593956 AGATTGAGATAGCTTCGGCTACATATTGACACTTAGTGTGTG
1 AGATTGAGATAGCTTCGGCTACGTATTGACACTTAGTGTGTG
* * * *
78593998 AGATTGAGATAGCTTCAGCTATGCATTGGCACTTAGTGTGT-
1 AGATTGAGATAGCTTCGGCTACGTATTGACACTTAGTGTGTG
*
78594039 A-ATTGAGATAACTTCGGCTACGTATTGACACTTAGTGT-TCG
1 AGATTGAGATAGCTTCGGCTACGTATTGACACTTAGTGTGT-G
78594080 AGATT
1 AGATT
78594085 TCTGAGTAAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 32 0.43
41 2 0.03
42 39 0.53
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (42 bp):
AGATTGAGATAGCTTCGGCTACGTATTGACACTTAGTGTGTG
Done.