Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 35 of 349
Found at i:9849292 original size:36 final size:36
Alignment explanation
Indices: 9849252--9849322 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
9849242 TTGTGAACCA
* * *
9849252 TGTTAACTTGGTGAATTATATTATTATTGCGAACTG
1 TGTTAACTTAGTGAATTATATTAATATGGCGAACTG
* * *
9849288 TGTTAATTTAGTGATTTGTATTAATATGGCGAACT
1 TGTTAACTTAGTGAATTATATTAATATGGCGAACT
9849323 ATATTAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (36 bp):
TGTTAACTTAGTGAATTATATTAATATGGCGAACTG
Found at i:9850017 original size:34 final size:34
Alignment explanation
Indices: 9849979--9850076 Score: 119
Period size: 34 Copynumber: 2.9 Consensus size: 34
9849969 TGTGGTGTGA
* *
9849979 ATGAATTATTATATTGAATGAACTGTTA-TATTGT
1 ATGAATTATTATATTGAATGAATTGTTATTA-TGC
*
9850013 ATGAACTATTATATTGAATGAATTGTTATTATGC
1 ATGAATTATTATATTGAATGAATTGTTATTATGC
* *
9850047 ATGAATTGTTAT-TTCATATGAATTGTTATT
1 ATGAATTATTATATTGA-ATGAATTGTTATT
9850077 TTATGCGAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
33 3 0.05
34 51 0.91
35 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (34 bp):
ATGAATTATTATATTGAATGAATTGTTATTATGC
Found at i:9850041 original size:17 final size:17
Alignment explanation
Indices: 9849976--9850075 Score: 105
Period size: 17 Copynumber: 5.9 Consensus size: 17
9849966 TGATGTGGTG
*
9849976 TGAATGAATTATTATAT
1 TGAATGAATTGTTATAT
*
9849993 TGAATGAACTGTTATAT
1 TGAATGAATTGTTATAT
* * *
9850010 TGTATGAACTATTATAT
1 TGAATGAATTGTTATAT
9850027 TGAATGAATTGTTAT-T
1 TGAATGAATTGTTATAT
*
9850043 ATGCATGAATTGTTAT-T
1 -TGAATGAATTGTTATAT
*
9850060 TCATATGAATTGTTAT
1 TGA-ATGAATTGTTAT
9850076 TTTATGCGAA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
16 2 0.03
17 69 0.97
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (17 bp):
TGAATGAATTGTTATAT
Found at i:9853665 original size:19 final size:19
Alignment explanation
Indices: 9853634--9853677 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
9853624 TTTTAGGTTT
*
9853634 TTTGGGCTGGGTT-ATTGG
1 TTTGGGCTGGGTTGATTAG
9853652 TTTGGGCTTGGGTTGATTAG
1 TTTGGGC-TGGGTTGATTAG
9853672 TTTGGG
1 TTTGGG
9853678 TTTATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 6 0.26
20 10 0.43
ACGTcount: A:0.07, C:0.05, G:0.43, T:0.45
Consensus pattern (19 bp):
TTTGGGCTGGGTTGATTAG
Found at i:9855437 original size:96 final size:97
Alignment explanation
Indices: 9855330--9855570 Score: 263
Period size: 96 Copynumber: 2.4 Consensus size: 97
9855320 AATTTTAAGG
* * ** *
9855330 TTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTACT-AATTTT
1 TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA-TAAATTTT
* *
9855394 -AAAAAATTAGATTATGG-TTTAGTGTTTATGGT
65 AAAAAAATTAGATTA-GGATTTAGGGTTTAGGGT
* *
9855426 TTTTAATAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTA
1 TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTT-
9855491 AAAAAAATTAGATTAGGATTTTAGGGTTTAGGGTTTT
65 AAAAAAATTAGATTAGGA-TTTAGGGTTTAGGG---T
*
9855528 AGGGTATTTAAGAAAAAAATCAAATAAATTAGGGTTTGGGGTT
1 ----T-TTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTT
9855571 TAGGGTAACT
Statistics
Matches: 121, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
95 1 0.01
96 55 0.45
97 2 0.02
98 14 0.12
99 12 0.10
102 1 0.01
106 1 0.01
107 35 0.29
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (97 bp):
TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTA
AAAAAATTAGATTAGGATTTAGGGTTTAGGGT
Found at i:9855527 original size:15 final size:15
Alignment explanation
Indices: 9855503--9855532 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9855493 AAAAATTAGA
9855503 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
9855518 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
9855533 ATTTAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:9856026 original size:126 final size:126
Alignment explanation
Indices: 9855615--9856013 Score: 595
Period size: 126 Copynumber: 3.2 Consensus size: 126
9855605 AAAAGCTTCT
* *
9855615 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACATGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
9855680 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTATTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTAATGAAAGAAGCTCCC
** * *
9855741 ATATGAACGCTCTTTTGCTACAGTAATCTCTG-AAAAATAATTTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * * *
9855805 ATAATGGT-AAAAACACTTCAAGCAGGATGCATTTTCAGCAAAATTAATGGAAGAAGCTCTC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTAATGAAAGAAGCTCCC
* * **
9855866 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
9855931 ATAGTGTCAAAAACGCTTCAAGCGGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTAATGAAAGAAGCTCCC
9855992 ACGTGGACGCTCTTTTGCTACA
1 ACGTGGACGCTCTTTTGCTACA
9856014 ATGGTTTCTG
Statistics
Matches: 240, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
125 108 0.45
126 132 0.55
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTAATGAAAGAAGCTCCC
Found at i:9859220 original size:116 final size:116
Alignment explanation
Indices: 9859044--9859773 Score: 1228
Period size: 116 Copynumber: 6.3 Consensus size: 116
9859034 TTTATATTTT
* * * **
9859044 ATTACATGAAATAATATAAAAATATTCAAAATATTACTTTATTTAAAATAATTTTTATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * * *
9859109 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
* *
9859160 ATCACATGAAATAATATAAAAACATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
9859225 AAAATATAAAAGTAAATTACAATTATTTTATTTAAAACAACATTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
*
9859276 ATTACATGAAATAATATAAAAAAATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
9859341 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
*
9859392 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATACTTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
9859457 AAAATAAAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
* *
9859508 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTCCCATTTTTTTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
9859573 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAAAAACATTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
* *
9859624 ATTACATGAAATAATATAAAAGTATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTT-TTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
9859688 TAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
*
9859739 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
9859774 TGTACAAATA
Statistics
Matches: 579, Mismatches: 35, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
115 82 0.14
116 497 0.86
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
Found at i:9859270 original size:50 final size:50
Alignment explanation
Indices: 9859215--9859388 Score: 118
Period size: 54 Copynumber: 3.2 Consensus size: 50
9859205 AAATAATTTC
9859215 CATTTTATTAAAAATATAAAAGTAAATTACAATTATTTTATTTAAAACAA
1 CATTTTATTAAAAATATAAAAGTAAATTACAATTATTTTATTTAAAACAA
* * * *
9859265 CATTTTATCTAATTACATGAAATAATATAAA-AAAATTCAAAATGT-TGCCTTATTTAAAATAA
1 CA--TT-T-T-ATTA-A--AAAT-ATA-AAAGTAAATT-ACAAT-TAT--TTTATTTAAAACAA
*
9859327 TTTCCATTTTATTAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAA
1 ----CATTTTATTAAAAATATAAAAGTAAATTACAATTATTTTATTTAAAACAA
*
9859381 CCTTTTAT
1 CATTTTAT
9859389 CTAATTACAT
Statistics
Matches: 94, Mismatches: 10, Indels: 40
0.65 0.07 0.28
Matches are distributed among these distances:
50 9 0.10
52 2 0.02
53 1 0.01
54 13 0.14
55 5 0.05
56 8 0.09
57 8 0.09
58 8 0.09
59 8 0.09
60 9 0.10
61 5 0.05
62 13 0.14
63 1 0.01
64 2 0.02
66 2 0.02
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (50 bp):
CATTTTATTAAAAATATAAAAGTAAATTACAATTATTTTATTTAAAACAA
Found at i:9860185 original size:16 final size:17
Alignment explanation
Indices: 9860164--9860196 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9860154 CAAAGGAAAC
9860164 ATAT-AAGGGCTAGGAT
1 ATATAAAGGGCTAGGAT
9860180 ATATAAAAGGGCTAGGA
1 ATAT-AAAGGGCTAGGA
9860197 GGCATCATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.42, C:0.06, G:0.30, T:0.21
Consensus pattern (17 bp):
ATATAAAGGGCTAGGAT
Found at i:9860291 original size:30 final size:30
Alignment explanation
Indices: 9860246--9860302 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9860236 TGAACTGTTG
9860246 GGCCCGGTGACTGTGTAGGTC-CTGTTGCTA
1 GGCCCGGTGACTGTGTAGG-CACTGTTGCTA
* *
9860276 GGCCGGGTGATTGTGTAGGCACTGTTG
1 GGCCCGGTGACTGTGTAGGCACTGTTG
9860303 ATGGGCCTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.11, C:0.19, G:0.40, T:0.30
Consensus pattern (30 bp):
GGCCCGGTGACTGTGTAGGCACTGTTGCTA
Found at i:9860817 original size:7 final size:7
Alignment explanation
Indices: 9860807--9860833 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9860797 GTTAAATAAA
9860807 AAATACT
1 AAATACT
9860814 AAATACT
1 AAATACT
9860821 AAATACT
1 AAATACT
9860828 AAATAC
1 AAATAC
9860834 GAACCACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:9860818 original size:14 final size:14
Alignment explanation
Indices: 9860799--9860832 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9860789 AAATATTAGT
9860799 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
9860813 TAAATACTAAATAC
1 TAAATAAAAAATAC
9860827 TAAATA
1 TAAATA
9860833 CGAACCACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:9861955 original size:15 final size:15
Alignment explanation
Indices: 9861935--9861965 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9861925 TTTTTATTTT
9861935 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
9861950 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
9861965 A
1 A
9861966 GCTTTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:9862012 original size:22 final size:22
Alignment explanation
Indices: 9861982--9862025 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9861972 TTGAAAAAAA
**
9861982 TTAACGAGAGTTTTGAGAAGAAT
1 TTAACGAGAAATTTGAG-AGAAT
9862005 TTAA-GAGAAATTTGAGAGAAT
1 TTAACGAGAAATTTGAGAGAAT
9862026 ATTGAAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (22 bp):
TTAACGAGAAATTTGAGAGAAT
Found at i:9867030 original size:28 final size:27
Alignment explanation
Indices: 9866978--9867030 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
9866968 TTTTGAATAG
* *
9866978 TTTTGAATAAAATTAGAATATTTTAAA
1 TTTTGAATAAAATAAGAATAATTTAAA
9867005 TTTT-AATAAAATGAAGAAATAATTTA
1 TTTTGAATAAAAT-AAG-AATAATTTA
9867031 TTTCAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 8 0.36
27 6 0.27
28 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (27 bp):
TTTTGAATAAAATAAGAATAATTTAAA
Found at i:9867181 original size:6 final size:6
Alignment explanation
Indices: 9867170--9867200 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
9867160 CCATAATGAT
9867170 TAATTA TAATTA TAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA TAATTA T
9867201 TTAGATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:9869141 original size:14 final size:14
Alignment explanation
Indices: 9869122--9869151 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9869112 GTTTTATCCT
9869122 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
9869136 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
9869150 TT
1 TT
9869152 GTGAAGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:9882297 original size:22 final size:20
Alignment explanation
Indices: 9882269--9882328 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 20
9882259 GTGTGTGTAG
9882269 GAAAAAACTTAAATTTTTACAT
1 GAAAAAACTT--ATTTTTACAT
*
9882291 GAAAAAACTTGTTTTTACAT
1 GAAAAAACTTATTTTTACAT
*
9882311 GGAAAATAATTTATTTTT
1 -GAAAA-AACTTATTTTT
9882329 TAATTTCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 9 0.27
21 5 0.15
22 19 0.58
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (20 bp):
GAAAAAACTTATTTTTACAT
Found at i:9882588 original size:22 final size:22
Alignment explanation
Indices: 9882508--9882589 Score: 59
Period size: 22 Copynumber: 4.0 Consensus size: 22
9882498 AAAAGAAAAA
* *
9882508 ACTTGAGGTTTTACAAGGAATT
1 ACTTGAGTTTTTACAATGAATT
*
9882530 ACATGAGTTTTTAC-ATGAA--
1 ACTTGAGTTTTTACAATGAATT
* * **
9882549 AATT-A--TTTTCCAGCGAATT
1 ACTTGAGTTTTTACAATGAATT
9882568 ACTTGAGTTTTTACAATGAATT
1 ACTTGAGTTTTTACAATGAATT
9882590 GAGTTGAAAG
Statistics
Matches: 42, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
16 5 0.12
17 3 0.07
18 1 0.02
19 5 0.12
20 1 0.02
21 4 0.10
22 23 0.55
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (22 bp):
ACTTGAGTTTTTACAATGAATT
Found at i:9888045 original size:17 final size:17
Alignment explanation
Indices: 9888005--9888052 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
9887995 CATTGATATG
*
9888005 CATATAATATATATACA
1 CATATAATATATACACA
*
9888022 CACATAATATATACACA
1 CATATAATATATACACA
9888039 -ATTATAATAATATA
1 CA-TATAAT-ATATA
9888053 AAATTAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 20 0.77
18 5 0.19
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (17 bp):
CATATAATATATACACA
Found at i:9890723 original size:15 final size:16
Alignment explanation
Indices: 9890683--9890724 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
9890673 CTCCCCTCTC
**
9890683 TTTAAAATTTTTAAAA
1 TTTAAAATTACTAAAA
*
9890699 TTTTAAATTACTAAAA
1 TTTAAAATTACTAAAA
9890715 -TTAAAATTAC
1 TTTAAAATTAC
9890725 ACTTCGATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAAAATTACTAAAA
Found at i:9896829 original size:7 final size:7
Alignment explanation
Indices: 9896819--9896848 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
9896809 TTCTCTTTTC
9896819 TTTTCTT
1 TTTTCTT
9896826 TTTTCTT
1 TTTTCTT
9896833 TTTTCTT
1 TTTTCTT
*
9896840 TTTTATT
1 TTTTCTT
9896847 TT
1 TT
9896849 CGTCTCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTCTT
Found at i:9903663 original size:18 final size:18
Alignment explanation
Indices: 9903625--9903676 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
9903615 TGGTTCAAGC
* *
9903625 TTTCAATCTCATATCTCAA
1 TTTCAAT-TCACATTTCAA
9903644 TTTCAATTCACATTTCAA
1 TTTCAATTCACATTTCAA
*
9903662 TTCTTAATTC-CATTT
1 TT-TCAATTCACATTT
9903677 TTTTTTCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTCAATTCACATTTCAA
Found at i:9904586 original size:5 final size:5
Alignment explanation
Indices: 9904573--9904608 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
9904563 TCATAATTAC
*
9904573 ATTCC ATTCA ATTCA ATTCA ATTCA ATTCAA ATTCA
1 ATTCA ATTCA ATTCA ATTCA ATTCA ATTC-A ATTCA
9904609 CTTTTCCACT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (5 bp):
ATTCA
Found at i:9910364 original size:11 final size:11
Alignment explanation
Indices: 9910350--9910390 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
9910340 TATTTTCTCC
9910350 CTATTTTGCTA
1 CTATTTTGCTA
*
9910361 CTATTTTACTA
1 CTATTTTGCTA
* *
9910372 TTATGTTGCTA
1 CTATTTTGCTA
9910383 CTATTTTG
1 CTATTTTG
9910391 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:9910461 original size:30 final size:30
Alignment explanation
Indices: 9910427--9910491 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
9910417 ACTTATTTTA
*
9910427 TTGTTAATTTTTTTATTATTTTA-AAGATAT
1 TTGTTAATTTTGTTATTATTTTAGAA-ATAT
9910457 TTGTTAATTTTGTTATTATTTTAGAAATAT
1 TTGTTAATTTTGTTATTATTTTAGAAATAT
9910487 TTGTT
1 TTGTT
9910492 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAATAT
Found at i:9910633 original size:12 final size:12
Alignment explanation
Indices: 9910612--9910645 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9910602 TATATATTTT
*
9910612 AAAATTATATAA
1 AAAATAATATAA
9910624 AAAATAATATAA
1 AAAATAATATAA
*
9910636 AAATTAATAT
1 AAAATAATAT
9910646 GAGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:9913800 original size:32 final size:32
Alignment explanation
Indices: 9913764--9913825 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
9913754 ATTAGAGTAG
9913764 CTAAATTGAGAAAAAAATTAGAGTAACAAAGA
1 CTAAATTGAGAAAAAAATTAGAGTAACAAAGA
9913796 CTAAATTGAGAAAAAAATTAGAGTAACAAA
1 CTAAATTGAGAAAAAAATTAGAGTAACAAA
9913826 AATAGGACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.60, C:0.06, G:0.15, T:0.19
Consensus pattern (32 bp):
CTAAATTGAGAAAAAAATTAGAGTAACAAAGA
Found at i:9918231 original size:7 final size:7
Alignment explanation
Indices: 9918215--9918325 Score: 73
Period size: 7 Copynumber: 15.9 Consensus size: 7
9918205 AGGGTGTAAG
9918215 GGTTTAA
1 GGTTTAA
*
9918222 GGTTTCA
1 GGTTTAA
*
9918229 GGTTTTA
1 GGTTTAA
*
9918236 GGTTTAT
1 GGTTTAA
*
9918243 GGTTTAG
1 GGTTTAA
9918250 GGTTTAA
1 GGTTTAA
**
9918257 ATTTTAA
1 GGTTTAA
*
9918264 GGTTTGA
1 GGTTTAA
* *
9918271 GTTTTGA
1 GGTTTAA
* *
9918278 TGTTTGA
1 GGTTTAA
9918285 GGTTTAA
1 GGTTTAA
9918292 GGTTT-A
1 GGTTTAA
*
9918298 GGCTTCAA
1 GG-TTTAA
9918306 GGTTT-A
1 GGTTTAA
*
9918312 GCCTTTAA
1 G-GTTTAA
9918320 GGTTTA
1 GGTTTA
9918326 GGGTATAAGA
Statistics
Matches: 80, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
6 5 0.06
7 70 0.88
8 5 0.06
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:9918487 original size:7 final size:7
Alignment explanation
Indices: 9918457--9918518 Score: 52
Period size: 7 Copynumber: 8.9 Consensus size: 7
9918447 GCGCATAGAA
*
9918457 TTAGGGA
1 TTAGGGT
*
9918464 TTATGGT
1 TTAGGGT
**
9918471 TTAGAAT
1 TTAGGGT
9918478 TTAGGGT
1 TTAGGGT
*
9918485 TTAAGGT
1 TTAGGGT
9918492 TTAGGGT
1 TTAGGGT
**
9918499 TTAGTCT
1 TTAGGGT
*
9918506 ATAGGGT
1 TTAGGGT
9918513 TTAGGG
1 TTAGGG
9918519 GTAAAATTTG
Statistics
Matches: 40, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.23, C:0.02, G:0.34, T:0.42
Consensus pattern (7 bp):
TTAGGGT
Found at i:9918502 original size:21 final size:21
Alignment explanation
Indices: 9918452--9918495 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9918442 TTAGGGCGCA
*
9918452 TAGAA-TTAGGGATTATGGTT
1 TAGAATTTAGGGATTAAGGTT
*
9918472 TAGAATTTAGGGTTTAAGGTT
1 TAGAATTTAGGGATTAAGGTT
9918493 TAG
1 TAG
9918496 GGTTTAGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (21 bp):
TAGAATTTAGGGATTAAGGTT
Found at i:9918988 original size:83 final size:83
Alignment explanation
Indices: 9918854--9919010 Score: 210
Period size: 83 Copynumber: 1.9 Consensus size: 83
9918844 CGACGCAATG
* * *
9918854 TAAAAAACACCACTAAAAATATGGGAAATTGAATTAAAACACCGTCATTTTAAGTGGCGCAGTAG
1 TAAAAAACACCACTAAAAATATGAGAAATTGAATCAAAACACCATCATTTTAAGTGGCG-AGTAG
*
9918919 TGGACTTAGCGGTGCATAT
65 TGGAATTAGCGGTGCATAT
* * * *
9918938 TAAAAAACACCGC-AAAAATATGAGAAATTGAATCAAAACGA-CATCGTTTTAAGTGTCGGGTAG
1 TAAAAAACACCACTAAAAATATGAGAAATTGAATCAAAAC-ACCATCATTTTAAGTGGCGAGTAG
9919001 TGGAATTAGC
65 TGGAATTAGC
9919011 AGCGCCAGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 13 0.20
83 38 0.59
84 13 0.20
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (83 bp):
TAAAAAACACCACTAAAAATATGAGAAATTGAATCAAAACACCATCATTTTAAGTGGCGAGTAGT
GGAATTAGCGGTGCATAT
Found at i:9919192 original size:84 final size:84
Alignment explanation
Indices: 9919051--9919216 Score: 262
Period size: 84 Copynumber: 2.0 Consensus size: 84
9919041 AGCATTAACA
**
9919051 GCGCTTATTAAAAAACGCTGCTAAAAATACGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGG
1 GCGCTTATTAAAAAACGCCACTAAAAATACGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGG
9919116 CA-GGGTAGTGGAATTAGCG
66 -AGGGGTAGTGGAATTAGCG
* * * *
9919135 GCGCTTATTAAAAAACTCCATTAAAAATATGAGAAATTGAATGAAAATGACGTCGTTTTATGTGG
1 GCGCTTATTAAAAAACGCCACTAAAAATACGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGG
9919200 AGGGGTAGTGGAATTAG
66 AGGGGTAGTGGAATTAG
9919217 TTGTGCTAGG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
83 1 0.01
84 74 0.99
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.27
Consensus pattern (84 bp):
GCGCTTATTAAAAAACGCCACTAAAAATACGAGAAATTGAATGAAAATGACGTCGTTTTAAGTGG
AGGGGTAGTGGAATTAGCG
Found at i:9919738 original size:16 final size:16
Alignment explanation
Indices: 9919717--9919751 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9919707 GGAACGCAGA
* *
9919717 TTTCTGTTGTTAAGGC
1 TTTCTGTTGCTAAGCC
9919733 TTTCTGTTGCTAAGCC
1 TTTCTGTTGCTAAGCC
9919749 TTT
1 TTT
9919752 GATTTGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.20, T:0.51
Consensus pattern (16 bp):
TTTCTGTTGCTAAGCC
Found at i:9921256 original size:16 final size:16
Alignment explanation
Indices: 9921235--9921288 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
9921225 ATATTTACTA
9921235 TTTGGAGTTAAATCTG
1 TTTGGAGTTAAATCTG
*
9921251 TTTGGA-CTAAA--TG
1 TTTGGAGTTAAATCTG
* * *
9921264 ATAGTAGTTAAATCTG
1 TTTGGAGTTAAATCTG
9921280 TTTGGAGTT
1 TTTGGAGTT
9921289 TTATTTTGCT
Statistics
Matches: 27, Mismatches: 8, Indels: 6
0.66 0.20 0.15
Matches are distributed among these distances:
13 5 0.19
14 4 0.15
15 4 0.15
16 14 0.52
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.43
Consensus pattern (16 bp):
TTTGGAGTTAAATCTG
Found at i:9921399 original size:24 final size:24
Alignment explanation
Indices: 9921369--9921417 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
9921359 CTATGTTATA
9921369 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
**
9921393 ATATTTGTGTCTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
9921417 A
1 A
9921418 ATGTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:9922405 original size:40 final size:40
Alignment explanation
Indices: 9922350--9922434 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
9922340 AAATTAAAAT
9922350 TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
1 TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
9922390 TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
1 TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
9922430 TAAAA
1 TAAAA
9922435 AAGTAAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (40 bp):
TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
Found at i:9922482 original size:18 final size:20
Alignment explanation
Indices: 9922445--9922483 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9922435 AAGTAAATTT
9922445 AATTCATAAAAATATATATA
1 AATTCATAAAAATATATATA
*
9922465 AATTCA-AAACATAT-TATA
1 AATTCATAAAAATATATATA
9922483 A
1 A
9922484 CCAAAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTCATAAAAATATATATA
Found at i:9922615 original size:9 final size:9
Alignment explanation
Indices: 9922597--9922673 Score: 93
Period size: 9 Copynumber: 8.6 Consensus size: 9
9922587 GTTTAAATTT
9922597 CATAACTTA
1 CATAACTTA
*
9922606 CATAATTTA
1 CATAACTTA
* *
9922615 CATACCTCA
1 CATAACTTA
*
9922624 CAT-ACATCA
1 CATAAC-TTA
9922633 CATAACTTA
1 CATAACTTA
*
9922642 CATAACTCA
1 CATAACTTA
9922651 CATAACTTA
1 CATAACTTA
9922660 CATAACTTA
1 CATAACTTA
9922669 CATAA
1 CATAA
9922674 TACATAAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
8 1 0.02
9 55 0.95
10 2 0.03
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (9 bp):
CATAACTTA
Found at i:9927010 original size:16 final size:16
Alignment explanation
Indices: 9926989--9927020 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9926979 TTTTAGTAGG
9926989 ATATTTTGGCATTATA
1 ATATTTTGGCATTATA
9927005 ATATTTTGGCATTATA
1 ATATTTTGGCATTATA
9927021 GTAACAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (16 bp):
ATATTTTGGCATTATA
Found at i:9927733 original size:13 final size:14
Alignment explanation
Indices: 9927717--9927745 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9927707 TTTTAAATAT
9927717 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
9927730 TTATAATGGTTTAA
1 TTATAATGGTTTAA
9927744 TT
1 TT
9927746 CGTTGTTAGT
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:9931197 original size:10 final size:10
Alignment explanation
Indices: 9931162--9931203 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
9931152 TTTTTTTAAA
9931162 TTTTA-AATT
1 TTTTATAATT
* *
9931171 TCTTATAAAT
1 TTTTATAATT
*
9931181 TTCTATAATT
1 TTTTATAATT
9931191 TTTTATAATT
1 TTTTATAATT
9931201 TTT
1 TTT
9931204 ATTTAGTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:9944370 original size:15 final size:16
Alignment explanation
Indices: 9944340--9944386 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9944330 TAGATACTTT
9944340 TTTTAAAAATTAATAA
1 TTTTAAAAATTAATAA
*
9944356 TTTTAGAAA-TAATAA
1 TTTTAAAAATTAATAA
*
9944371 ATTTAACAAATGTAAT
1 TTTTAA-AAAT-TAAT
9944387 TCTTCTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 11 0.44
18 4 0.16
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (16 bp):
TTTTAAAAATTAATAA
Found at i:9945295 original size:24 final size:25
Alignment explanation
Indices: 9945242--9945296 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
9945232 TATTAAAACT
*
9945242 AAAT-TATTTTAAAATAAAATTTTT
1 AAATATATTTTAAAATAAAATTTTA
** *
9945266 GTATATATTTTTAAA-AAAATTTTA
1 AAATATATTTTAAAATAAAATTTTA
9945290 AAATATA
1 AAATATA
9945297 AAAACAATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
AAATATATTTTAAAATAAAATTTTA
Found at i:9949096 original size:18 final size:19
Alignment explanation
Indices: 9949073--9949108 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9949063 TTATTTTACC
9949073 TAATTAA-TATAAAAATAA
1 TAATTAATTATAAAAATAA
9949091 TAATTAATTATAAAAATA
1 TAATTAATTATAAAAATA
9949109 GTATGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAATTAATTATAAAAATAA
Found at i:9950610 original size:26 final size:26
Alignment explanation
Indices: 9950572--9950647 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
9950562 ATATGTATAA
* **
9950572 GAAATTTTAAAATAGGTAATATA-GG
1 GAAAGTTTAAAATAAATAATATACGG
*
9950597 CGAAAGTTTGAAATAAATAATATACGG
1 -GAAAGTTTAAAATAAATAATATACGG
*
9950624 GAAAGAGTTTAAAATGAATAATAT
1 G-AA-AGTTTAAAATAAATAATAT
9950648 GTAAAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 20 0.49
27 4 0.10
28 17 0.41
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.29
Consensus pattern (26 bp):
GAAAGTTTAAAATAAATAATATACGG
Found at i:9950669 original size:26 final size:27
Alignment explanation
Indices: 9950631--9950721 Score: 94
Period size: 28 Copynumber: 3.3 Consensus size: 27
9950621 CGGGAAAGAG
*
9950631 TTTAAAATGAATAATATGTAAAAT-AA
1 TTTAAAATAAATAATATGTAAAATGAA
* * *
9950657 TTTAAGATAAATAATATATATAAATGAG
1 TTTAAAATAAATAATATGTA-AAATGAA
* *
9950685 TTTAAAATAAATATTATGTAAAAAGAAA
1 TTTAAAATAAATAATATGTAAAATG-AA
*
9950713 CTTAAAATA
1 TTTAAAATA
9950722 GGTAATATAC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 17 0.33
27 8 0.15
28 27 0.52
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTAAAATAAATAATATGTAAAATGAA
Found at i:9950688 original size:28 final size:27
Alignment explanation
Indices: 9950601--9950707 Score: 92
Period size: 28 Copynumber: 3.9 Consensus size: 27
9950591 TATAGGCGAA
* **
9950601 AGTTTGAAATAAATAATATACGGGAAA-G
1 AGTTTAAAATAAATAATATA--TAAAATG
* *
9950629 AGTTTAAAATGAATAATATGTAAAAT-
1 AGTTTAAAATAAATAATATATAAAATG
* *
9950655 AATTTAAGATAAATAATATATATAAATG
1 AGTTTAAAATAAATAATATATA-AAATG
* *
9950683 AGTTTAAAATAAATATTATGTAAAA
1 AGTTTAAAATAAATAATATATAAAA
9950708 AGAAACTTAA
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
26 21 0.33
27 7 0.11
28 35 0.56
ACGTcount: A:0.54, C:0.01, G:0.12, T:0.33
Consensus pattern (27 bp):
AGTTTAAAATAAATAATATATAAAATG
Found at i:9955083 original size:46 final size:46
Alignment explanation
Indices: 9955037--9955295 Score: 367
Period size: 46 Copynumber: 5.6 Consensus size: 46
9955027 GCTCTCTGAT
** * *
9955037 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
9955083 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
9955129 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
9955175 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
9955221 ATGAAATGAATAAGACCACGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
9955267 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
9955296 CACTATGGTA
Statistics
Matches: 195, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 194 0.99
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:9955190 original size:92 final size:92
Alignment explanation
Indices: 9955033--9955295 Score: 409
Period size: 92 Copynumber: 2.9 Consensus size: 92
9955023 GTGTGCTCTC
** * * * *
9955033 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
9955098 CCATGGTTGAAAGATACCATGGCAACG
66 CCATGGTTGAAAGATACCATGGCAACG
* *
9955125 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
*
9955190 CCATGGTTGAAAGATACCATGGCAGCG
66 CCATGGTTGAAAGATACCATGGCAACG
* * *
9955217 TGACATGAAATGAATAAGACCACGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
*
9955282 CCATAGTTGAAAGA
66 CCATGGTTGAAAGA
9955296 CACTATGGTA
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 156 1.00
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.21
Consensus pattern (92 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
CCATGGTTGAAAGATACCATGGCAACG
Found at i:9957293 original size:10 final size:10
Alignment explanation
Indices: 9957278--9957327 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
9957268 TAAATTTAGG
9957278 ATTTATTTTT
1 ATTTATTTTT
*
9957288 ATTTATCTTT
1 ATTTATTTTT
*
9957298 ATTTA-TCTT
1 ATTTATTTTT
*
9957307 ATTTTATTTGT
1 A-TTTATTTTT
9957318 ATTTATTTTT
1 ATTTATTTTT
9957328 TAGAATTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 3 0.09
10 26 0.81
11 3 0.09
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:9963517 original size:21 final size:21
Alignment explanation
Indices: 9963491--9963579 Score: 90
Period size: 21 Copynumber: 4.0 Consensus size: 21
9963481 GCAACCCAAT
*
9963491 TTTTATTATTCTTTATTATTA
1 TTTTATTATTATTTATTATTA
9963512 TTTTATTATTTATTTATTACTTTA
1 TTTTATTA-TTATTTATTA--TTA
9963536 TTTTATTTTATTATTTATTTATTA
1 TTTTA--TTATTATTTA-TTATTA
*
9963560 CTTTATT-TTATTTTATTATT
1 TTTTATTATTA-TTTATTATT
9963580 TATTACTTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
21 16 0.27
22 15 0.25
24 15 0.25
25 7 0.12
26 6 0.10
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTATTATTATTTATTATTA
Found at i:9963519 original size:8 final size:8
Alignment explanation
Indices: 9963506--9963591 Score: 56
Period size: 8 Copynumber: 10.6 Consensus size: 8
9963496 TTATTCTTTA
9963506 TTATTATT
1 TTATTATT
9963514 TTATTA-T
1 TTATTATT
*
9963521 TTATT-TA
1 TTATTATT
9963528 TTACTTTATT
1 TTA--TTATT
9963538 TTATT-TT
1 TTATTATT
9963545 ATTATT-TAT
1 -TTATTAT-T
9963554 TTATTACTT
1 TTATTA-TT
*
9963563 TATTTTATT
1 T-TATTATT
9963572 TTATTA-T
1 TTATTATT
*
9963579 TTATTACT
1 TTATTATT
9963587 TTATT
1 TTATT
9963592 TTGTTTGGGT
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
7 18 0.28
8 29 0.45
9 8 0.12
10 9 0.14
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.72
Consensus pattern (8 bp):
TTATTATT
Found at i:9963541 original size:29 final size:29
Alignment explanation
Indices: 9963492--9963583 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
9963482 CAACCCAATT
9963492 TTTA-TTATT-CTTTATTATTATTTTATTA
1 TTTATTTATTACTTTATT-TTATTTTATTA
9963520 TTTATTTATTACTTTATTTTATTTTATTA
1 TTTATTTATTACTTTATTTTATTTTATTA
9963549 TTTATTTATTACTTTATTTTATTTTATTA
1 TTTATTTATTACTTTATTTTATTTTATTA
9963578 TTTATT
1 TTTATT
9963584 ACTTTATTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
28 4 0.06
29 51 0.82
30 7 0.11
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (29 bp):
TTTATTTATTACTTTATTTTATTTTATTA
Found at i:9963584 original size:25 final size:25
Alignment explanation
Indices: 9963496--9963593 Score: 121
Period size: 29 Copynumber: 3.9 Consensus size: 25
9963486 CCAATTTTTA
*
9963496 TTATTCTTTATTA--TTATTTTATT
1 TTATTATTTATTACTTTATTTTATT
*
9963519 AT-TTATTTATTACTTTATTTTATTTT
1 TTATTATTTATTACTTTATTTTA--TT
9963545 ATTATTTATTTATTACTTTATTTTATT
1 -TTA-TTATTTATTACTTTATTTTATT
9963572 TTATTATTTATTACTTTATTTT
1 TTATTATTTATTACTTTATTTT
9963594 GTTTGGGTGA
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
22 9 0.14
23 1 0.02
24 8 0.12
25 19 0.29
26 5 0.08
27 3 0.05
29 20 0.31
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (25 bp):
TTATTATTTATTACTTTATTTTATT
Found at i:9964195 original size:19 final size:21
Alignment explanation
Indices: 9964159--9964202 Score: 65
Period size: 19 Copynumber: 2.1 Consensus size: 21
9964149 TTCCTCATTA
9964159 TTTTTGTTGTTTTAGATGCTGT
1 TTTTTGTTG-TTTAGATGCTGT
9964181 TTTTTGTTG-TT-GATGCTGT
1 TTTTTGTTGTTTAGATGCTGT
9964200 TTT
1 TTT
9964203 GGTTGTTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.50
20 2 0.09
22 9 0.41
ACGTcount: A:0.07, C:0.05, G:0.23, T:0.66
Consensus pattern (21 bp):
TTTTTGTTGTTTAGATGCTGT
Found at i:9964207 original size:18 final size:19
Alignment explanation
Indices: 9964173--9964210 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
9964163 TGTTGTTTTA
*
9964173 GATGCTGTTTTTTGTTGTT
1 GATGCTGTTTTTGGTTGTT
9964192 GATGCTG-TTTTGGTTGTT
1 GATGCTGTTTTTGGTTGTT
9964210 G
1 G
9964211 CTGCCCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.05, C:0.05, G:0.32, T:0.58
Consensus pattern (19 bp):
GATGCTGTTTTTGGTTGTT
Found at i:9973881 original size:16 final size:16
Alignment explanation
Indices: 9973860--9973900 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
9973850 TAATAATAAA
9973860 ATATTATAGGCCCAAT
1 ATATTATAGGCCCAAT
*
9973876 ATATTAGATAGGTCCAAT
1 ATATT--ATAGGCCCAAT
9973894 ATATTAT
1 ATATTAT
9973901 GTAAGTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.32
18 15 0.68
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (16 bp):
ATATTATAGGCCCAAT
Found at i:9973892 original size:18 final size:18
Alignment explanation
Indices: 9973865--9973899 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9973855 ATAAAATATT
9973865 ATAGGCCCAATATATTAG
1 ATAGGCCCAATATATTAG
*
9973883 ATAGGTCCAATATATTA
1 ATAGGCCCAATATATTA
9973900 TGTAAGTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (18 bp):
ATAGGCCCAATATATTAG
Found at i:9973908 original size:18 final size:18
Alignment explanation
Indices: 9973871--9973915 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
9973861 TATTATAGGC
*
9973871 CCAATATATTAGATAGGT
1 CCAATATATTAGATAAGT
9973889 CCAATATATTATG-TAAGT
1 CCAATATATTA-GATAAGT
*
9973907 CCAAAATAT
1 CCAATATAT
9973916 AAAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (18 bp):
CCAATATATTAGATAAGT
Found at i:9976109 original size:90 final size:90
Alignment explanation
Indices: 9975942--9976164 Score: 283
Period size: 90 Copynumber: 2.5 Consensus size: 90
9975932 TTAAGTGTGT
* * * **
9975942 AAAAAG-CCCTCAAACTTTTTCAAAAAAATAATAATTAAGCCCCTCATTTTCTTTTGCACTCAAT
1 AAAAAGACCCTCAAACTTTTTC-AAAAAA-AGTAATTAAGCCCTTCATTTTCTCTCCCACTCAAT
*
9976006 TGAGTACTTGAACTTTCAAAATGCATC
64 TGAGTACTTGAACTTTCAAAATGCATA
*
9976033 AAAAAGACCCTCAAACTTCTTCAAAAAAAGTAATTAAGCCCTTGC-TTTT-TCTCCCACTCAATT
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAGTAATTAAGCCCTT-CATTTTCTCTCCCACTCAATT
*
9976096 GGGTACTTGGAACTTTCAAAATGCATA
65 GAGTACTT-GAACTTTCAAAATGCATA
* *
9976123 AAAAAGACCTTCAAAATTTTTC-AAAAAAGTAATTAAGTCCCT
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAGTAATTAAG-CCCT
9976165 GCTCATATTA
Statistics
Matches: 117, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
89 33 0.28
90 57 0.49
91 13 0.11
92 14 0.12
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.31
Consensus pattern (90 bp):
AAAAAGACCCTCAAACTTTTTCAAAAAAAGTAATTAAGCCCTTCATTTTCTCTCCCACTCAATTG
AGTACTTGAACTTTCAAAATGCATA
Found at i:9976200 original size:10 final size:11
Alignment explanation
Indices: 9976174--9976199 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9976164 TGCTCATATT
9976174 AAAAATTAGAA
1 AAAAATTAGAA
9976185 AAAAATTAGAA
1 AAAAATTAGAA
9976196 AAAA
1 AAAA
9976200 TAAAAAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (11 bp):
AAAAATTAGAA
Found at i:9976504 original size:19 final size:19
Alignment explanation
Indices: 9976482--9976534 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
9976472 TTCTTATGCC
*
9976482 TTTATAAAATTTTACAATT
1 TTTATAAATTTTTACAATT
* **
9976501 TTTATATATTTTTTTAATT
1 TTTATAAATTTTTACAATT
9976520 TTTAATAAATTTTTA
1 TTT-ATAAATTTTTA
9976535 ACATATGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATAAATTTTTACAATT
Found at i:9982711 original size:30 final size:30
Alignment explanation
Indices: 9982659--9982717 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
9982649 AATTTTTAAA
**
9982659 ATTTCGGACATCTTAATATCTACTAGTAGT
1 ATTTCGGACATCCCAATATCTACTAGTAGT
* * *
9982689 ATTTTGGACATCCCAATGTCTACTGGTAG
1 ATTTCGGACATCCCAATATCTACTAGTAG
9982718 CATAGAGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (30 bp):
ATTTCGGACATCCCAATATCTACTAGTAGT
Found at i:9985870 original size:42 final size:42
Alignment explanation
Indices: 9985709--9985872 Score: 154
Period size: 42 Copynumber: 3.9 Consensus size: 42
9985699 TACCATACCA
* ** **
9985709 ATGCCATATCCCAGATATCGTCTTACATGGGAG-CTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACAT-CAAGTCTTATATCG
* * * * *
9985751 ATGCCAATAGCTCAGCTATGGTCTTACATGAAGTCTAATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATCAAGTCTTATATCG
* * *
9985794 ATGACATATCCTAGATATGGTCTTACA-CGAAGTCTTATATAG
1 ATGCCATATCCCAGATATGGTCTTACATC-AAGTCTTATATCG
9985836 ATGCCATATCCCAGATATGGTCTTACA-CATAGTCTTA
1 ATGCCATATCCCAGATATGGTCTTACATCA-AGTCTTA
9985873 GTAACCCTAA
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 70 0.69
43 30 0.30
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATCAAGTCTTATATCG
Found at i:9990195 original size:91 final size:91
Alignment explanation
Indices: 9990035--9990211 Score: 300
Period size: 91 Copynumber: 1.9 Consensus size: 91
9990025 TCAAAATATC
* *
9990035 AAAAATGTAACTTTACAGCAATTAAATAATATGAAAACACTTTCTAAAATCTCCATTTAAGATTA
1 AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCCAAAATCTCCATTTAAGATTA
* *
9990100 CATCAATCAAACACATCCAAACAGTA
66 CATCAACCAAAAACATCCAAACAGTA
* *
9990126 AAAAATGTAACTTTACAGCAAATAAATAATGTGAAAACACTTTCCAAAATCTCCATTTAAGATTG
1 AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCCAAAATCTCCATTTAAGATTA
9990191 CATCAACCAAAAACATCCAAA
66 CATCAACCAAAAACATCCAAA
9990212 TAACAGAAGG
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 80 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (91 bp):
AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCCAAAATCTCCATTTAAGATTA
CATCAACCAAAAACATCCAAACAGTA
Found at i:10002707 original size:25 final size:25
Alignment explanation
Indices: 10002673--10002723 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
10002663 AAAAAGACCT
10002673 AAAAAAATTCTACTTTATTTAATTC
1 AAAAAAATTCTACTTTATTTAATTC
10002698 AAAAAAATTCTACTTTATTTAATTC
1 AAAAAAATTCTACTTTATTTAATTC
10002723 A
1 A
10002724 GGTTACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (25 bp):
AAAAAAATTCTACTTTATTTAATTC
Found at i:10003968 original size:20 final size:20
Alignment explanation
Indices: 10003943--10003982 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10003933 AGAAAAAGAT
10003943 GACAAATTTTGTCCATCTTC
1 GACAAATTTTGTCCATCTTC
*
10003963 GACAAATTTTTTCCATCTTC
1 GACAAATTTTGTCCATCTTC
10003983 CACTTTTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.42
Consensus pattern (20 bp):
GACAAATTTTGTCCATCTTC
Found at i:10005063 original size:22 final size:21
Alignment explanation
Indices: 10005037--10005100 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
10005027 TCTATTAATC
10005037 GATTAGCACTTCGATGCTCTCT
1 GATTAGCACTTCGATGC-CTCT
*
10005059 GATTAGCACTTTGATGCCT-T
1 GATTAGCACTTCGATGCCTCT
* * *
10005079 TATTTGCAGTTCGATGCCTCT
1 GATTAGCACTTCGATGCCTCT
10005100 G
1 G
10005101 TACAACACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 16 0.46
21 3 0.09
22 16 0.46
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.39
Consensus pattern (21 bp):
GATTAGCACTTCGATGCCTCT
Found at i:10010943 original size:10 final size:10
Alignment explanation
Indices: 10010928--10010960 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
10010918 ACAAGTAATG
10010928 GACAGCAAAT
1 GACAGCAAAT
10010938 GACAGCAAAT
1 GACAGCAAAT
10010948 GACAGCAAAT
1 GACAGCAAAT
10010958 GAC
1 GAC
10010961 GGTGATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.48, C:0.21, G:0.21, T:0.09
Consensus pattern (10 bp):
GACAGCAAAT
Found at i:10011142 original size:21 final size:20
Alignment explanation
Indices: 10011100--10011141 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10011090 GATACACAAA
10011100 TTGAATCTTCATTTTTTCTT
1 TTGAATCTTCATTTTTTCTT
*
10011120 TTGAATCTGTTATTTTTT-TT
1 TTGAATCT-TCATTTTTTCTT
10011140 TT
1 TT
10011142 TCTAGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (20 bp):
TTGAATCTTCATTTTTTCTT
Found at i:10012078 original size:25 final size:26
Alignment explanation
Indices: 10012050--10012105 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 26
10012040 TTTTGAAATT
* *
10012050 TATTTTTATATCATATTAT-TTTAAC
1 TATTTTTATATAATATTATGTTTAAA
*
10012075 TA--TTTATATAATATTTTGTTTAAA
1 TATTTTTATATAATATTATGTTTAAA
10012099 TATTTTT
1 TATTTTT
10012106 GTGTATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 2 0.08
26 3 0.12
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (26 bp):
TATTTTTATATAATATTATGTTTAAA
Found at i:10012088 original size:23 final size:24
Alignment explanation
Indices: 10012054--10012103 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
10012044 GAAATTTATT
* *
10012054 TTTATATCATATTAT-TTTAACTA
1 TTTATATAATATTATGTTTAAATA
*
10012077 TTTATATAATATTTTGTTTAAATA
1 TTTATATAATATTATGTTTAAATA
10012101 TTT
1 TTT
10012104 TTGTGTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTATATAATATTATGTTTAAATA
Found at i:10020122 original size:23 final size:23
Alignment explanation
Indices: 10020096--10020140 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10020086 TCCATACTTA
*
10020096 ATTTTAAAAAATATATTAAATAG
1 ATTTTAAAAAATAAATTAAATAG
* *
10020119 ATTTTATAAATTAAATTAAATA
1 ATTTTAAAAAATAAATTAAATA
10020141 CTTAATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTTTAAAAAATAAATTAAATAG
Found at i:10038347 original size:19 final size:19
Alignment explanation
Indices: 10038325--10038363 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10038315 TATTATTTTT
10038325 TTATGTATAATTTATCATA
1 TTATGTATAATTTATCATA
* * *
10038344 TTATTTATATTTTATTATA
1 TTATGTATAATTTATCATA
10038363 T
1 T
10038364 ATTTTATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATGTATAATTTATCATA
Found at i:10038351 original size:12 final size:11
Alignment explanation
Indices: 10038324--10038453 Score: 79
Period size: 12 Copynumber: 11.5 Consensus size: 11
10038314 ATATTATTTT
* *
10038324 TTTATGTATAA
1 TTTATATATTA
10038335 TTTATCATATTA
1 TTTAT-ATATTA
*
10038347 TTTATATTTTA
1 TTTATATATTA
*
10038358 TTATATATTTTA
1 TT-TATATATTA
*
10038370 TTTATATATTT
1 TTTATATATTA
10038381 TATTATATATTA
1 T-TTATATATTA
*
10038393 --TATCATTTTA
1 TTTAT-ATATTA
*
10038403 CTATATATATTA
1 -TTTATATATTA
*
10038415 TTCATTATATTA
1 TTTA-TATATTA
*
10038427 TTT-T-TATTC
1 TTTATATATTA
10038436 TATTATATATTA
1 T-TTATATATTA
10038448 TATTAT
1 T-TTAT
10038454 TTTGCTTTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
9 8 0.08
10 8 0.08
11 23 0.24
12 53 0.56
13 3 0.03
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (11 bp):
TTTATATATTA
Found at i:10038370 original size:23 final size:25
Alignment explanation
Indices: 10038349--10038451 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 25
10038339 TCATATTATT
10038349 TATATTTTATTATATATTTTATTTA
1 TATATTTTATTATATATTTTATTTA
10038374 TATATTTTATTATATATTATATCATTTTA
1 TATATTTTATTATATATT-T-T-A-TTTA
*
10038403 CTATATATATTATTCAT-TATATTATTT-
1 -TATAT-T-TTATT-ATATATTTTATTTA
* *
10038430 T-TATTCTATTATATATTATATT
1 TATATTTTATTATATATTTTATT
10038452 ATTTTGCTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
22 2 0.03
23 11 0.17
24 1 0.02
25 21 0.32
26 2 0.03
27 1 0.02
28 4 0.06
29 5 0.08
30 6 0.09
31 2 0.03
32 8 0.12
33 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (25 bp):
TATATTTTATTATATATTTTATTTA
Found at i:10038376 original size:13 final size:12
Alignment explanation
Indices: 10038344--10038453 Score: 90
Period size: 12 Copynumber: 9.6 Consensus size: 12
10038334 ATTTATCATA
10038344 TTATT-TATATT
1 TTATTATATATT
10038355 TTATTATATATT
1 TTATTATATATT
10038367 TTATTTATATATT
1 TTA-TTATATATT
10038380 TTATTATATA--
1 TTATTATATATT
*
10038390 TTA-TAT-CATT
1 TTATTATATATT
* *
10038400 TTACTATATATA
1 TTATTATATATT
*
10038412 TTATTCAT-TATA
1 TTATT-ATATATT
*
10038424 TTATT-TTTATT
1 TTATTATATATT
*
10038435 CTATTATATATT
1 TTATTATATATT
*
10038447 ATATTAT
1 TTATTAT
10038454 TTTGCTTTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
8 1 0.01
9 3 0.04
10 7 0.09
11 15 0.18
12 42 0.51
13 14 0.17
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATTATATATT
Found at i:10038392 original size:32 final size:33
Alignment explanation
Indices: 10038347--10038453 Score: 105
Period size: 33 Copynumber: 3.2 Consensus size: 33
10038337 TATCATATTA
*
10038347 TTTA-TATTTTATTATATATTTTATTTATATAT
1 TTTATTATATTATTATATATTTTATTTATATAT
*
10038379 TTTATTATA-TATTATATCATTTTACTATATATAT
1 TTTATTATATTATTATAT-ATTTTA-TTTATATAT
* *
10038413 TATTCATTATATTATT-TTTATTCTA-TTATATAT
1 T-TT-ATTATATTATTATATATTTTATTTATATAT
*
10038446 TATATTAT
1 TTTATTAT
10038454 TTTGCTTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
31 5 0.08
32 13 0.21
33 17 0.27
34 9 0.14
35 7 0.11
36 8 0.13
37 4 0.06
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (33 bp):
TTTATTATATTATTATATATTTTATTTATATAT
Found at i:10038394 original size:5 final size:5
Alignment explanation
Indices: 10038341--10038453 Score: 58
Period size: 5 Copynumber: 22.4 Consensus size: 5
10038331 ATAATTTATC
* * *
10038341 ATATT AT-TT ATATT TTATT ATA-T ATTTT AT-TT ATA-T ATTTT AT-TAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT-T
* * *
10038387 ATATT ATATC ATTTT ACTATAT ATATT ATTCATT ATATT AT-TT TTATT
1 ATATT ATATT ATATT A-TAT-T ATATT A-T-ATT ATATT ATATT ATATT
*
10038435 CTATTAT ATATT ATATT AT
1 ATA-T-T ATATT ATATT AT
10038454 TTTGCTTTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 26
0.69 0.09 0.21
Matches are distributed among these distances:
4 18 0.21
5 47 0.56
6 10 0.12
7 9 0.11
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.63
Consensus pattern (5 bp):
ATATT
Found at i:10038421 original size:29 final size:32
Alignment explanation
Indices: 10038335--10038450 Score: 86
Period size: 30 Copynumber: 3.7 Consensus size: 32
10038325 TTATGTATAA
10038335 TTTATCATATTATTTATATT-T-TATTATAT-A-T
1 TTTATC-TATTA--TATATTATATATTATATCATT
* *
10038366 TTTATTTATATATTTTATTATATATTATATCA-T
1 TTTATCTAT-TA-TATATTATATATTATATCATT
*
10038399 TTTA-CTA-TATATATTAT-TCATTATATTATT
1 TTTATCTATTATATATTATAT-ATTATATCATT
10038429 TTTATTCTATTATATATTATAT
1 TTTA-TCTATTATATATTATAT
10038451 TATTTTGCTT
Statistics
Matches: 70, Mismatches: 5, Indels: 17
0.76 0.05 0.18
Matches are distributed among these distances:
28 1 0.01
29 15 0.21
30 16 0.23
31 8 0.11
32 13 0.19
33 16 0.23
34 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (32 bp):
TTTATCTATTATATATTATATATTATATCATT
Found at i:10038447 original size:55 final size:57
Alignment explanation
Indices: 10038349--10038456 Score: 150
Period size: 55 Copynumber: 1.9 Consensus size: 57
10038339 TCATATTATT
* * *
10038349 TATATTTTATTATATATTTTATTTATATATTTTATTATATATTATATCATTTTACTA
1 TATATATTATTATATATATTATTTATATATTCTATTATATATTATATCATTTTACTA
*
10038406 TATATATTATTCAT-TATATTATTT-T-TATTCTATTATATATTATATTATTTT
1 TATATATTATT-ATATATATTATTTATATATTCTATTATATATTATATCATTTT
10038457 GCTTTTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 24 0.52
56 1 0.02
57 19 0.41
58 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (57 bp):
TATATATTATTATATATATTATTTATATATTCTATTATATATTATATCATTTTACTA
Found at i:10038754 original size:13 final size:13
Alignment explanation
Indices: 10038721--10038760 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
10038711 TTTTTACCAC
*
10038721 ATTTATTGTATTT
1 ATTTTTTGTATTT
10038734 AGTTTTTTGTATTT
1 A-TTTTTTGTATTT
*
10038748 ATTTTTTATATTT
1 ATTTTTTGTATTT
10038761 TATATGTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (13 bp):
ATTTTTTGTATTT
Found at i:10045932 original size:12 final size:12
Alignment explanation
Indices: 10045915--10045942 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10045905 TTTTAAAGAT
10045915 TTTTCAGAGTAA
1 TTTTCAGAGTAA
10045927 TTTTCAGAGTAA
1 TTTTCAGAGTAA
10045939 TTTT
1 TTTT
10045943 TAGAACACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (12 bp):
TTTTCAGAGTAA
Found at i:10050726 original size:90 final size:90
Alignment explanation
Indices: 10050618--10051304 Score: 1085
Period size: 90 Copynumber: 7.7 Consensus size: 90
10050608 ATCGAGGAAG
* * * *
10050618 CAGATTTGGTGTTTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
* * *
10050683 TTACATCAAATCAGTTCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* *
10050708 CAGATTTGGCATCTCTG---TA-ACGGGGAGCAAATCGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
10050769 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * * * * *
10050794 CAGATTTGGCATCTATGTATTAGACAGGGAGCAGATCGAAGATAATGGATCTGATATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
* *
10050859 TTACATTGAAGCAGATCAAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
*
10050884 CAGATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
10050949 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * *
10050974 TAGATTTGGCGTCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGC
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
10051039 TTACATCGAAGTAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
*
10051064 CAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
* *
10051129 TTGCATCGAAGTAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* *
10051154 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATTTAACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
10051219 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* *
10051244 CAGATTTGGCGTCTCTGTATTAGACGGGGAGTAGATCAAAGATAGTAGATCTGACATTCGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGT
10051305 CTCTGTATTA
Statistics
Matches: 548, Mismatches: 45, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
86 77 0.14
87 2 0.00
89 2 0.00
90 467 0.85
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (90 bp):
CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
TTACATCGAAGCAGATCGAAGATGA
Found at i:10051311 original size:49 final size:49
Alignment explanation
Indices: 10051253--10051623 Score: 226
Period size: 45 Copynumber: 8.1 Consensus size: 49
10051243 ACAGATTTGG
*
10051253 CGTCTCTGTATTAGACGGGGAGTAGATCAAAGATAGTAGATCTGACATT
1 CGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
*
10051302 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATT
1 CGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
* * * * * *
10051351 CG--TGTGT-TTACATC--GAAGCAGATCAAAGAT-GACAGATTTG----G
1 CGTCTCTGTATTAGA-CGGGGAGCAGATCAAAGATAG-TAGATCTGACATT
* *
10051392 CGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGATCTGACATT
1 CGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
* * * * * * *
10051441 CG--TGTGT-TTACATC--GAAGCAGATCGAAGAT-GATAAATTTG----G
1 CGTCTCTGTATTAGA-CGGGGAGCAGATCAAAGATAG-TAGATCTGACATT
* * *
10051482 CGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGTAGATCTAACATT
1 CGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
* * ** * * * *
10051531 CG--TGTGT-TTACATC--AAAGCAGATCGAAGAT-GACAGATTTG---GT
1 CGTCTCTGTATTAGA-CGGGGAGCAGATCAAAGATAG-TAGATCTGACATT
10051573 -GTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
1 CGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
10051621 CGT
1 CGT
10051624 GTGTTTACAT
Statistics
Matches: 239, Mismatches: 47, Indels: 72
0.67 0.13 0.20
Matches are distributed among these distances:
41 5 0.02
42 1 0.00
43 15 0.06
44 15 0.06
45 117 0.49
46 15 0.06
47 15 0.06
48 1 0.00
49 55 0.23
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (49 bp):
CGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
Found at i:10051364 original size:319 final size:319
Alignment explanation
Indices: 10050983--10051623 Score: 1147
Period size: 319 Copynumber: 2.0 Consensus size: 319
10050973 ATAGATTTGG
10050983 CGTCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGCTTACATCGA
1 CGTCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGCTTACATCGA
* * * *
10051048 AGTAGATCGAAGATGACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGA
66 AGCAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGA
* * *
10051113 TCTGACATTCGTGTGTTTGCATCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGA
131 TCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAAATTTGGCGTCTCTGTATTAGA
* * *
10051178 CGGGGAGCAGATCGAAGATAGTAGATTTAACATTCGTGTGTTTACATCGAAGCAGATCGAAGATG
196 CGAGGAGCAGATCGAAGATAGTAGATCTAACATTCGTGTGTTTACATCAAAGCAGATCGAAGATG
*
10051243 ACAGATTTGGCGTCTCTGTATTAGACGGGGAGTAGATCAAAGATAGTAGATCTGACATT
261 ACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
* *
10051302 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
1 CGTCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGCTTACATCGA
10051367 AGCAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGA
66 AGCAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGA
*
10051432 TCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGATAAATTTGGCGTCTCTGTATTAGA
131 TCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAAATTTGGCGTCTCTGTATTAGA
10051497 CGAGGAGCAGATCGAAGATAGTAGATCTAACATTCGTGTGTTTACATCAAAGCAGATCGAAGATG
196 CGAGGAGCAGATCGAAGATAGTAGATCTAACATTCGTGTGTTTACATCAAAGCAGATCGAAGATG
*
10051562 ACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
261 ACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
10051621 CGT
1 CGT
10051624 GTGTTTACAT
Statistics
Matches: 307, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
319 307 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (319 bp):
CGTCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGCTTACATCGA
AGCAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGA
TCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAAATTTGGCGTCTCTGTATTAGA
CGAGGAGCAGATCGAAGATAGTAGATCTAACATTCGTGTGTTTACATCAAAGCAGATCGAAGATG
ACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
Found at i:10051418 original size:90 final size:90
Alignment explanation
Indices: 10051302--10051758 Score: 719
Period size: 90 Copynumber: 5.1 Consensus size: 90
10051292 ATCTGACATT
10051302 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
1 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
*
10051367 AGCAGATCAAAGATGACAGATTTGG
66 AGCAGATCGAAGATGACAGATTTGG
*
10051392 CGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
1 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
* *
10051457 AGCAGATCGAAGATGATAAATTTGG
66 AGCAGATCGAAGATGACAGATTTGG
* * *
10051482 CGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGTAGATCTAACATTCGTGTGTTTACATCAA
1 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
10051547 AGCAGATCGAAGATGACAGATTTGG
66 AGCAGATCGAAGATGACAGATTTGG
* *
10051572 TGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
1 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
*
10051637 AGTAGATCGAAGATGAC-----TGG
66 AGCAGATCGAAGATGACAGATTTGG
* * *
10051657 CGTCTCTGTATTAGACGGGGAGCAAATCGAAGATAGTAGATCTAACATTTGTGTGTTTACATCGA
1 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
*
10051722 AGCAGATCAAAGAT-AGCAGATTTGG
66 AGCAGATCGAAGATGA-CAGATTTGG
* *
10051747 CGTATTTGTATT
1 CGTCTCTGTATT
10051759 TGATAAGGAG
Statistics
Matches: 336, Mismatches: 25, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
84 1 0.00
85 76 0.23
90 259 0.77
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (90 bp):
CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
AGCAGATCGAAGATGACAGATTTGG
Found at i:10053344 original size:12 final size:12
Alignment explanation
Indices: 10053327--10053470 Score: 97
Period size: 12 Copynumber: 12.0 Consensus size: 12
10053317 TATGTAAAAA
10053327 ATTATTATATAT
1 ATTATTATATAT
* *
10053339 ATTATTTTTATTT
1 ATTA-TTATATAT
10053352 ATGTATTATTTATCAT
1 AT-TATTA--TAT-AT
10053368 ATTATT-TATAT
1 ATTATTATATAT
*
10053379 TTTATTATATAT
1 ATTATTATATAT
*
10053391 TTTATT-TATAT
1 ATTATTATATAT
10053402 ATT-TTAT-TAT
1 ATTATTATATAT
10053412 A-TATTATATCAT
1 ATTATTATAT-AT
* *
10053424 TTTACTATATAT
1 ATTATTATATAT
10053436 ATTATTCAT-TAT
1 ATTATT-ATATAT
*
10053448 ATTATT-TTTAT
1 ATTATTATATAT
10053459 -TCTATTATATAT
1 AT-TATTATATAT
10053471 TATATTATTT
Statistics
Matches: 106, Mismatches: 11, Indels: 30
0.72 0.07 0.20
Matches are distributed among these distances:
9 1 0.01
10 12 0.11
11 23 0.22
12 39 0.37
13 19 0.18
14 2 0.02
15 7 0.07
16 3 0.03
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:10053360 original size:17 final size:18
Alignment explanation
Indices: 10053328--10053397 Score: 67
Period size: 19 Copynumber: 4.0 Consensus size: 18
10053318 ATGTAAAAAA
10053328 TTATTATATATATTATTT
1 TTATTATATATATTATTT
*
10053346 TTATT-TATGTATTA--T
1 TTATTATATATATTATTT
*
10053361 TTATCATAT-TATTTATATT
1 TTATTATATATA-TTAT-TT
*
10053380 TTATTATATATTTTATTT
1 TTATTATATATATTATTT
10053398 ATATATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 7 0.17
16 6 0.14
17 8 0.19
18 7 0.17
19 13 0.31
20 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (18 bp):
TTATTATATATATTATTT
Found at i:10053363 original size:15 final size:14
Alignment explanation
Indices: 10053327--10053497 Score: 93
Period size: 12 Copynumber: 12.6 Consensus size: 14
10053317 TATGTAAAAA
10053327 ATTATTATATATATT
1 ATTATT-TATATATT
*
10053342 ATT-TTTATTTATGT
1 ATTATTTATATAT-T
*
10053356 ATTATTTAT-CA-T
1 ATTATTTATATATT
10053368 ATTA-TT-TATATT
1 ATTATTTATATATT
10053380 -TTA-TTATATATT
1 ATTATTTATATATT
10053392 -TTATTTATATATT
1 ATTATTTATATATT
10053405 -TTA-TTATATATT
1 ATTATTTATATATT
10053417 ATATCATTTTACTATATAT
1 AT-T-A-TTTA-TATAT-T
*
10053436 ATTATTCATTATATT
1 ATTATTTA-TATATT
*
10053451 ATT-TTTAT-T-CT
1 ATTATTTATATATT
*
10053462 ATTATATATTATATT
1 ATTATTTA-TATATT
* *
10053477 ATT-TTTCT-TTTT
1 ATTATTTATATATT
10053489 ATTATTTAT
1 ATTATTTAT
10053498 TATGTATAAT
Statistics
Matches: 125, Mismatches: 13, Indels: 38
0.71 0.07 0.22
Matches are distributed among these distances:
10 1 0.01
11 12 0.10
12 34 0.27
13 26 0.21
14 14 0.11
15 17 0.14
16 8 0.06
17 4 0.03
18 6 0.05
19 3 0.02
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (14 bp):
ATTATTTATATATT
Found at i:10053376 original size:23 final size:22
Alignment explanation
Indices: 10053327--10053478 Score: 95
Period size: 23 Copynumber: 6.9 Consensus size: 22
10053317 TATGTAAAAA
10053327 ATTA-TTATATA-TA-TTAT-T
1 ATTATTTATATATTATTTATAT
* *
10053345 TTTATTTATGTATTATTTATCAT
1 ATTATTTATATATTATTTAT-AT
*
10053368 ATTATTTATATTTTATTATATAT
1 ATTATTTATATATTATT-TATAT
* *
10053391 TTTATTTATATATTTTATTATAT
1 ATTATTTATATATTAT-TTATAT
* *
10053414 ATTA--TATCATTTTACTATATAT
1 ATTATTTAT-ATATTA-TTTATAT
*
10053436 ATTATTCATTATATTATTT-T-T
1 ATTATTTA-TATATTATTTATAT
*
10053457 ATTCTATTATATATTATATTAT
1 ATTAT-TTATATATTAT-TTAT
10053479 TTTTCTTTTT
Statistics
Matches: 102, Mismatches: 17, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
18 3 0.03
19 6 0.06
20 2 0.02
21 20 0.20
22 18 0.18
23 42 0.41
24 10 0.10
25 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (22 bp):
ATTATTTATATATTATTTATAT
Found at i:10053416 original size:46 final size:45
Alignment explanation
Indices: 10053344--10053454 Score: 127
Period size: 46 Copynumber: 2.4 Consensus size: 45
10053334 TATATATTAT
* *
10053344 TTTTATTTATGTATTATTTATCATATTATTTAT-ATTTTATTATATA
1 TTTTATTTATATATTATTTATCATATTA--TATCATTTTACTATATA
*
10053390 TTTTATTTATATATTTTATTAT-ATATTATATCATTTTACTATATA
1 TTTTATTTATATATTAT-TTATCATATTATATCATTTTACTATATA
* *
10053435 TATTATTCATTATATTATTT
1 TTTTATTTA-TATATTATTT
10053455 TTATTCTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
44 3 0.05
45 21 0.38
46 28 0.50
47 4 0.07
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (45 bp):
TTTTATTTATATATTATTTATCATATTATATCATTTTACTATATA
Found at i:10053417 original size:32 final size:33
Alignment explanation
Indices: 10053336--10053481 Score: 73
Period size: 31 Copynumber: 4.5 Consensus size: 33
10053326 AATTATTATA
* *
10053336 TATATTATT-TTTA-TTTATGTAT-TA-TTTAT
1 TATATTATTATATATTTTATTTATATATTTTAT
*
10053365 CATATTATT-TATATTTTA-TTATATATTTTAT
1 TATATTATTATATATTTTATTTATATATTTTAT
* *
10053396 T-TATATATT-T-TATTATATATTATATCATTTTAC
1 TATAT-TATTATATATTTTAT-TTATAT-ATTTTAT
* *
10053429 TATATATATTATTCATTATATTATTT-T-TATTCTAT
1 TATAT-TATTA-T-A-TATTTTATTTATATATTTTAT
10053464 TATA-TATTATATTATTTT
1 TATATTATTATA-TATTTT
10053482 TCTTTTTATT
Statistics
Matches: 93, Mismatches: 11, Indels: 24
0.73 0.09 0.19
Matches are distributed among these distances:
29 14 0.15
30 15 0.16
31 17 0.18
32 7 0.08
33 12 0.13
34 8 0.09
35 9 0.10
36 2 0.02
37 1 0.01
38 2 0.02
39 6 0.06
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (33 bp):
TATATTATTATATATTTTATTTATATATTTTAT
Found at i:10053778 original size:13 final size:13
Alignment explanation
Indices: 10053745--10053778 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
10053735 TTTTTACCAC
*
10053745 ATTTATTGTATTT
1 ATTTTTTGTATTT
10053758 AGTTTTTTGTATTT
1 A-TTTTTTGTATTT
10053772 ATTTTTT
1 ATTTTTT
10053779 TTATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (13 bp):
ATTTTTTGTATTT
Found at i:10053780 original size:15 final size:14
Alignment explanation
Indices: 10053750--10053778 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10053740 ACCACATTTA
10053750 TTGTATTTAGTTTT
1 TTGTATTTAGTTTT
10053764 TTGTATTTA-TTTT
1 TTGTATTTAGTTTT
10053777 TT
1 TT
10053779 TTATATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (14 bp):
TTGTATTTAGTTTT
Found at i:10054806 original size:34 final size:34
Alignment explanation
Indices: 10054763--10054861 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 34
10054753 GTAATATGAT
10054763 ATGCTTATAACAAATCAATAC-AGTA-ACAATTAAA
1 ATGCTTATAACAAATCAATACGA-TAGA-AATTAAA
*
10054797 ATGCTTATAACAAATCAATACGATAGAAATTAAT
1 ATGCTTATAACAAATCAATACGATAGAAATTAAA
* * * *
10054831 ATGCTTATGACAGATCAATACTATAGCAATT
1 ATGCTTATAACAAATCAATACGATAGAAATT
10054862 TGGTTGTGTG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
34 56 0.97
35 2 0.03
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.29
Consensus pattern (34 bp):
ATGCTTATAACAAATCAATACGATAGAAATTAAA
Found at i:10059992 original size:21 final size:23
Alignment explanation
Indices: 10059950--10059999 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
10059940 AAAATATTAA
* *
10059950 AATATATAATTTTTATTAATATT
1 AATATATAATATTTAATAATATT
10059973 AATAT-TAATATTTAAT-ATATT
1 AATATATAATATTTAATAATATT
10059994 AATATA
1 AATATA
10060000 AGTATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.42
22 9 0.38
23 5 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATATAATATTTAATAATATT
Found at i:10059993 original size:27 final size:26
Alignment explanation
Indices: 10059966--10060036 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
10059956 TAATTTTTAT
10059966 TAATATTAATATTAATATTTAATATAT
1 TAATATTAATATTAATATTTAAT-TAT
* * *
10059993 TAATA-TAAGTATTAATTTTTTATTTT
1 TAATATTAA-TATTAATATTTAATTAT
* *
10060019 TTATTTTAATATTAATAT
1 TAATATTAATATTAATAT
10060037 AAATTAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
26 16 0.44
27 20 0.56
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (26 bp):
TAATATTAATATTAATATTTAATTAT
Found at i:10060086 original size:63 final size:63
Alignment explanation
Indices: 10059951--10060087 Score: 140
Period size: 63 Copynumber: 2.2 Consensus size: 63
10059941 AAATATTAAA
* *
10059951 ATATATAATTTTTATTAATATTAATATTAATATTTAATATATTAATATAAGTATTAATTTTTT
1 ATATATTATTTTTATTAATATTAATATTAATATTTAATATATTAATATAAGTATTAATTTATT
* * * *
10060014 ATTTTTTATTTTAATATTAATA-TAA-ATTAAATATTATAATATTTTAA-ATAA-T-TTGACTTT
1 ATATATTATTTT--TATTAATATTAATATT-AATATT-TAATATATTAATATAAGTATT-AATTT
10060074 ATT
61 ATT
10060077 ATATATTATTT
1 ATATATTATTT
10060088 AAAATTATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
62 2 0.03
63 28 0.46
64 13 0.21
65 18 0.30
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (63 bp):
ATATATTATTTTTATTAATATTAATATTAATATTTAATATATTAATATAAGTATTAATTTATT
Found at i:10061242 original size:19 final size:20
Alignment explanation
Indices: 10061205--10061255 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
10061195 GCTAATAGTT
* *
10061205 TGATAATTTGATATTTTTTTA
1 TGATTATTT-ATATATTTTTA
10061226 T-ATTATTTATATATTTTTA
1 TGATTATTTATATATTTTTA
10061245 TGATT-TTTATA
1 TGATTATTTATA
10061256 AGTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 17 0.63
20 9 0.33
21 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (20 bp):
TGATTATTTATATATTTTTA
Found at i:10061261 original size:10 final size:9
Alignment explanation
Indices: 10061220--10061408 Score: 54
Period size: 9 Copynumber: 20.7 Consensus size: 9
10061210 ATTTGATATT
10061220 TTTTTAT-A
1 TTTTTATAA
10061228 TTATTTATATA
1 TT-TTTATA-A
*
10061239 TTTTTATGA
1 TTTTTATAA
10061248 TTTTTATAA
1 TTTTTATAA
*
10061257 GTTTTTTTTTAA
1 ---TTTTTATAA
*
10061269 -TTTTAAATA
1 TTTTTATA-A
10061278 TTTGTTATTAA
1 TTT-TTA-TAA
*
10061289 --TTT-GAA
1 TTTTTATAA
*
10061295 TTTTTATTA
1 TTTTTATAA
* *
10061304 TTTATTAGAT
1 TTT-TTATAA
*
10061314 TTTTTAGAA
1 TTTTTATAA
*
10061323 TATTTATAA
1 TTTTTATAA
*
10061332 GTTTTTATGA
1 -TTTTTATAA
10061342 TTTTTATAA
1 TTTTTATAA
* *
10061351 ATTTTA-AG
1 TTTTTATAA
* *
10061359 TTTATAAGAA
1 TTT-TTATAA
*
10061369 TTTTAATAA
1 TTTTTATAA
10061378 -TTTT-TAA
1 TTTTTATAA
*
10061385 TGTTTA-ATA
1 TTTTTATA-A
*
10061394 TTTTTATGA
1 TTTTTATAA
10061403 TTTTTA
1 TTTTTA
10061409 ATTATTTTTT
Statistics
Matches: 132, Mismatches: 28, Indels: 41
0.66 0.14 0.20
Matches are distributed among these distances:
6 2 0.02
7 3 0.02
8 22 0.17
9 65 0.49
10 24 0.18
11 7 0.05
12 9 0.07
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:10061372 original size:26 final size:26
Alignment explanation
Indices: 10061315--10061390 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
10061305 TTATTAGATT
* * * *
10061315 TTTTAGAATATTTATAAGTTTTTATGAT
1 TTTTATAA-ATTT-TAAGTTTATAAGAA
10061343 TTTTATAAATTTTAAGTTTATAAGAA
1 TTTTATAAATTTTAAGTTTATAAGAA
*
10061369 TTTTAATAATTTTTAATGTTTA
1 TTTT-ATAAATTTTAA-GTTTA
10061391 ATATTTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 15 0.37
27 14 0.34
28 12 0.29
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (26 bp):
TTTTATAAATTTTAAGTTTATAAGAA
Found at i:10061420 original size:21 final size:21
Alignment explanation
Indices: 10061394--10061440 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
10061384 ATGTTTAATA
* *
10061394 TTTTTATGA-TTTTTAATTATT
1 TTTTTATAAGTTTTTAA-GATT
10061415 TTTTTATAAGTTTTTAAGATT
1 TTTTTATAAGTTTTTAAGATT
10061436 TTTTT
1 TTTTT
10061441 TACGTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (21 bp):
TTTTTATAAGTTTTTAAGATT
Found at i:10061523 original size:19 final size:19
Alignment explanation
Indices: 10061501--10061583 Score: 57
Period size: 19 Copynumber: 4.4 Consensus size: 19
10061491 GAATTTTAAT
10061501 ATTTTTATAATATTTATAA
1 ATTTTTATAATATTTATAA
* *
10061520 ATTTATATCA-ATTT-TAA
1 ATTTTTATAATATTTATAA
* *
10061537 TTTTTTTTAAATATTTA-ACA
1 ATTTTTAT-AATATTTATA-A
* *
10061557 ATTTTTATGAT-TTTTTAA
1 ATTTTTATAATATTTATAA
10061575 TATTTTTAT
1 -ATTTTTAT
10061584 GAGATAATAT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
17 8 0.17
18 9 0.19
19 24 0.50
20 7 0.15
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (19 bp):
ATTTTTATAATATTTATAA
Found at i:10061533 original size:37 final size:37
Alignment explanation
Indices: 10061448--10061583 Score: 120
Period size: 37 Copynumber: 3.6 Consensus size: 37
10061438 TTTTACGTTA
10061448 TTATA-CAATTTTGAATATGTTTTATTAAT-TTTAT-AAT
1 TTATATCAATTTT-AATAT-TTTTA-TAATATTTATAAAT
* * *
10061485 TGATTTGAATTTTAATATTTTTATAATATTTATAAAT
1 TTATATCAATTTTAATATTTTTATAATATTTATAAAT
*
10061522 TTATATCAATTTTAAT-TTTTTTTAAATATTTA-ACAAT
1 TTATATCAATTTTAATATTTTTAT-AATATTTATA-AAT
* * *
10061559 TTTTATGATTTTTTAATATTTTTAT
1 TTATATCA-ATTTTAATATTTTTAT
10061584 GAGATAATAT
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
35 4 0.05
36 17 0.21
37 41 0.51
38 13 0.16
39 6 0.07
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (37 bp):
TTATATCAATTTTAATATTTTTATAATATTTATAAAT
Found at i:10061547 original size:27 final size:27
Alignment explanation
Indices: 10061517--10061580 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
10061507 ATAATATTTA
* *
10061517 TAAATTTATATCAATTTTAAT-TTTTTT
1 TAAATTT-TAACAATTTTAATGATTTTT
*
10061544 TAAATATTTAACAATTTTTATGATTTTT
1 TAAAT-TTTAACAATTTTAATGATTTTT
10061572 TAATATTTT
1 TAA-ATTTT
10061581 TATGAGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 16 0.52
28 13 0.42
29 2 0.06
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (27 bp):
TAAATTTTAACAATTTTAATGATTTTT
Found at i:10069524 original size:23 final size:22
Alignment explanation
Indices: 10069498--10069550 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
10069488 TAGCTCATTG
*
10069498 GAGCTTACCGATTCAGCTCGAA-A
1 GAGCTTACCG-TTCAACTC-AATA
*
10069521 GAGCTTACTGTTCAACTCAATA
1 GAGCTTACCGTTCAACTCAATA
10069543 GAGCTTAC
1 GAGCTTAC
10069551 TGTTTATCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 16 0.59
23 9 0.33
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (22 bp):
GAGCTTACCGTTCAACTCAATA
Found at i:10069554 original size:22 final size:23
Alignment explanation
Indices: 10069474--10069552 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
10069464 ATAGCTCGTA
* * *
10069474 AGAGCTTACTGTTTTAGCTCATT
1 AGAGCTTACTGATTCAGCTCAAT
* *
10069497 GGAGCTTACCGATTCAGCTCGAA-
1 AGAGCTTACTGATTCAGCTC-AAT
*
10069520 AGAGCTTACTG-TTCAACTCAAT
1 AGAGCTTACTGATTCAGCTCAAT
10069542 AGAGCTTACTG
1 AGAGCTTACTG
10069553 TTTATCAGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.04
22 18 0.39
23 25 0.54
24 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (23 bp):
AGAGCTTACTGATTCAGCTCAAT
Found at i:10080347 original size:10 final size:10
Alignment explanation
Indices: 10080329--10080367 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
10080319 TTAAATTCTA
10080329 AAAGATAAAT
1 AAAGATAAAT
*
10080339 AAGGATAAAT
1 AAAGATAAAT
10080349 AAAGATAAAT
1 AAAGATAAAT
*
10080359 AGAGATAAA
1 AAAGATAAA
10080368 AGCTAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:10081160 original size:14 final size:14
Alignment explanation
Indices: 10081141--10081200 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
10081131 GTATATCATC
10081141 ATTTAAATCCACTA
1 ATTTAAATCCACTA
10081155 ATTTAAATCCAC--
1 ATTTAAATCCACTA
* *
10081167 ATGTGTATAT-CA-TC
1 AT-T-TAAATCCACTA
10081181 ATTTAAATCCACTA
1 ATTTAAATCCACTA
10081195 ATTTAA
1 ATTTAA
10081201 CTCTCATGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
12 6 0.16
13 6 0.16
14 25 0.68
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.38
Consensus pattern (14 bp):
ATTTAAATCCACTA
Found at i:10081172 original size:40 final size:40
Alignment explanation
Indices: 10081121--10081200 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
10081111 AATTAAACTT
10081121 ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
1 ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
10081161 ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
1 ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
10081201 CTCTCATGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (40 bp):
ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
Found at i:10082210 original size:17 final size:18
Alignment explanation
Indices: 10082188--10082221 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10082178 CAAGAATAGT
10082188 AAGCAT-AAAATAGTTTC
1 AAGCATGAAAATAGTTTC
10082205 AAGCATGAAAATAGTTT
1 AAGCATGAAAATAGTTT
10082222 AGCACATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (18 bp):
AAGCATGAAAATAGTTTC
Found at i:10082502 original size:21 final size:21
Alignment explanation
Indices: 10082477--10082518 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10082467 TACTCGTGTA
10082477 ATTTCCTTTCTGAATTTTTTT
1 ATTTCCTTTCTGAATTTTTTT
10082498 ATTTCCTTTCTGAATTTTTTT
1 ATTTCCTTTCTGAATTTTTTT
10082519 CTTTTTGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.05, T:0.67
Consensus pattern (21 bp):
ATTTCCTTTCTGAATTTTTTT
Found at i:10084509 original size:52 final size:51
Alignment explanation
Indices: 10084424--10084555 Score: 180
Period size: 52 Copynumber: 2.6 Consensus size: 51
10084414 ATGTCACTAG
*
10084424 TGACT-CAAGTGTGGTACTATGTGAAGGCTACTTTGTGAAGAAAGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTT
* *
10084475 TG-GTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
*
10084526 TGACTACAACG-GTGGTACTATGTGTAGGCC
1 TGACTACAA-GTGTGGTACTATGTGAAGGCC
10084556 GCCGGGTATC
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
50 1 0.01
51 35 0.49
52 36 0.50
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (51 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
Found at i:10100108 original size:4 final size:4
Alignment explanation
Indices: 10100099--10100165 Score: 125
Period size: 4 Copynumber: 16.8 Consensus size: 4
10100089 TGATAAGGTC
*
10100099 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TATA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
10100147 TACA TACA TACA TACA TAC
1 TACA TACA TACA TACA TAC
10100166 GTAATTTGTG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:10106519 original size:18 final size:18
Alignment explanation
Indices: 10106490--10106582 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
10106480 TACGACCGTT
10106490 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
***
10106508 TACAACACTATTCACGTA
1 TACGGTACTATTCACGTA
*
10106526 TACGGTACTATTTACGTA
1 TACGGTACTATTCACGTA
*
10106544 TATGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
10106562 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
10106580 TAC
1 TAC
10106583 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:10120115 original size:31 final size:31
Alignment explanation
Indices: 10120062--10120156 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 31
10120052 AATCCTAAAA
**
10120062 TTCAGG-TCCCAATATAGGAACAATTACCAAG
1 TTCAGGCT-CCAATATAAAAACAATTACCAAG
* * *
10120093 TTCATGCTCTAATATAAAAACAATTACCTAG
1 TTCAGGCTCCAATATAAAAACAATTACCAAG
* ** *
10120124 GTCAGGCTCCAATATGGAAACAATTACTAAG
1 TTCAGGCTCCAATATAAAAACAATTACCAAG
10120155 TT
1 TT
10120157 AAGCCTTAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
31 49 0.98
32 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (31 bp):
TTCAGGCTCCAATATAAAAACAATTACCAAG
Found at i:10123384 original size:26 final size:26
Alignment explanation
Indices: 10123330--10123383 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
10123320 TTATTATTTT
* *
10123330 AAATATATATAATATAAATTTATATA
1 AAATATATACAATATAAAATTATATA
10123356 AAATATATACAAT-TAAAATTATATA
1 AAATATATACAATATAAAATTATATA
10123381 AAA
1 AAA
10123384 AGCTTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATATATACAATATAAAATTATATA
Done.