Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 69 of 344
Found at i:22374549 original size:11 final size:11
Alignment explanation
Indices: 22374533--22374581 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
22374523 AAAAAACTAT
22374533 TTTTCTTACTG
1 TTTTCTTACTG
22374544 TTTTCTTACT-
1 TTTTCTTACTG
*
22374554 TTTT-TTATTG
1 TTTTCTTACTG
* *
22374564 TTTTCTTGCTA
1 TTTTCTTACTG
22374575 TTTTCTT
1 TTTTCTT
22374582 GTTATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 4 0.12
10 8 0.25
11 20 0.62
ACGTcount: A:0.08, C:0.14, G:0.06, T:0.71
Consensus pattern (11 bp):
TTTTCTTACTG
Found at i:22374565 original size:20 final size:21
Alignment explanation
Indices: 22374532--22374581 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
22374522 AAAAAAACTA
22374532 TTTTTCTTACTGTTTTCTTAC
1 TTTTTCTTACTGTTTTCTTAC
* *
22374553 TTTTT-TTATTGTTTTCTTGC
1 TTTTTCTTACTGTTTTCTTAC
22374573 TATTTTCTT
1 T-TTTTCTT
22374582 GTTATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 14 0.56
21 9 0.36
22 2 0.08
ACGTcount: A:0.08, C:0.14, G:0.06, T:0.72
Consensus pattern (21 bp):
TTTTTCTTACTGTTTTCTTAC
Found at i:22374583 original size:19 final size:20
Alignment explanation
Indices: 22374542--22374584 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
22374532 TTTTTCTTAC
*
22374542 TGTTTTCTTACTTTTTTTAT
1 TGTTTTCTTACTTATTTTAT
* *
22374562 TGTTTTCTTGC-TATTTTCT
1 TGTTTTCTTACTTATTTTAT
22374581 TGTT
1 TGTT
22374585 ATTTTTTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.07, C:0.12, G:0.09, T:0.72
Consensus pattern (20 bp):
TGTTTTCTTACTTATTTTAT
Found at i:22386013 original size:13 final size:13
Alignment explanation
Indices: 22385997--22386049 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
22385987 TTTAAACTAA
*
22385997 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
22386010 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
22386023 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
22386036 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
22386049 A
1 A
22386050 TTGCCAAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 5 0.15
13 24 0.73
14 4 0.12
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:22391819 original size:20 final size:19
Alignment explanation
Indices: 22391796--22391835 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22391786 TTAGTTTTAA
22391796 TTAATCTTAATTAATTAAGT
1 TTAATCTTAA-TAATTAAGT
* *
22391816 TTAATTTTAATAATTTAGT
1 TTAATCTTAATAATTAAGT
22391835 T
1 T
22391836 ATTAATTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
TTAATCTTAATAATTAAGT
Found at i:22392547 original size:5 final size:5
Alignment explanation
Indices: 22392528--22392565 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
22392518 ATAAATAAGA
22392528 ATATT AT-TAT ATATT ATATT ATATT ATA-T ATATT ATAT
1 ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT ATAT
22392566 AAATAGGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 5 0.17
5 24 0.80
6 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:22395625 original size:12 final size:13
Alignment explanation
Indices: 22395604--22395640 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
22395594 ATAAATAAGA
22395604 ATAT-TATTATAT
1 ATATATATTATAT
22395616 AT-TATATTATAT
1 ATATATATTATAT
22395628 -TATATATTATAT
1 ATATATATTATAT
22395640 A
1 A
22395641 AATAGGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.09
12 20 0.91
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATATATATTATAT
Found at i:22406576 original size:22 final size:22
Alignment explanation
Indices: 22406550--22406613 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 22
22406540 GAAATACTAC
22406550 ATATACATGTAAATATATCTCA
1 ATATACATGTAAATATATCTCA
22406572 ATATACATGTAAATATATCTCA
1 ATATACATGTAAATATATCTCA
*
22406594 ATTATATCTATATAAATATA
1 A-TATA-C-ATGTAAATATA
22406614 AGTTTTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
22 23 0.61
23 4 0.11
24 1 0.03
25 10 0.26
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (22 bp):
ATATACATGTAAATATATCTCA
Found at i:22408325 original size:19 final size:19
Alignment explanation
Indices: 22408280--22408326 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
22408270 ATGAATAGTA
22408280 AATTTA-ATATTTTAAAAT
1 AATTTATATATTTTAAAAT
*
22408298 -ATTTAATATTTTTTAAAAT
1 AATTT-ATATATTTTAAAAT
22408317 AATTTATATA
1 AATTTATATA
22408327 AAAATTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 4 0.17
18 1 0.04
19 15 0.62
20 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTTATATATTTTAAAAT
Found at i:22409028 original size:10 final size:10
Alignment explanation
Indices: 22409015--22409110 Score: 60
Period size: 10 Copynumber: 9.9 Consensus size: 10
22409005 AAAAAATTTC
22409015 TATAATTTTT
1 TATAATTTTT
*
22409025 TATAATGTTT
1 TATAATTTTT
*
22409035 T-TAACTTTT
1 TATAATTTTT
22409044 TA-AATAATTTT
1 TATAAT--TTTT
*
22409055 TATAA--TTG
1 TATAATTTTT
*
22409063 TAT-ATTTTA
1 TATAATTTTT
*
22409072 TATAA-ATTT
1 TATAATTTTT
*
22409081 TATACTTTTT
1 TATAATTTTT
22409091 TATAATTTTT
1 TATAATTTTT
*
22409101 AATACATTTT
1 TATA-ATTTT
22409111 ATTTCATTTC
Statistics
Matches: 65, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
7 1 0.02
8 5 0.08
9 20 0.31
10 26 0.40
11 11 0.17
12 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (10 bp):
TATAATTTTT
Found at i:22409059 original size:9 final size:9
Alignment explanation
Indices: 22409009--22409101 Score: 66
Period size: 9 Copynumber: 9.9 Consensus size: 9
22408999 AATAATAAAA
*
22409009 AATTTCTAT
1 AATTTTTAT
22409018 AATTTTTTAT
1 AA-TTTTTAT
22409028 AATGTTTT-T
1 AAT-TTTTAT
22409037 AACTTTTTAAAT
1 AA-TTTTT--AT
22409049 AATTTTTAT
1 AATTTTTAT
*
22409058 AA-TTGTAT
1 AATTTTTAT
22409066 -ATTTTATAT
1 AATTTT-TAT
*
22409075 AAATTTTAT
1 AATTTTTAT
*
22409084 ACTTTTTTAT
1 A-ATTTTTAT
22409094 AATTTTTA
1 AATTTTTA
22409102 ATACATTTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 20
0.71 0.07 0.21
Matches are distributed among these distances:
7 1 0.01
8 7 0.10
9 27 0.40
10 24 0.36
11 5 0.07
12 3 0.04
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:22409084 original size:18 final size:17
Alignment explanation
Indices: 22409050--22409101 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
22409040 TTTTTAAATA
*
22409050 ATTTTTAT-AATTGTAT
1 ATTTTTATAAATTTTAT
22409066 ATTTTATATAAATTTTAT
1 ATTTT-TATAAATTTTAT
*
22409084 ACTTTTTTATAATTTTTA
1 A--TTTTTATAAATTTTA
22409102 ATACATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 5 0.17
17 3 0.10
18 8 0.27
19 10 0.33
20 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTTTTATAAATTTTAT
Found at i:22409188 original size:10 final size:10
Alignment explanation
Indices: 22409173--22409206 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
22409163 TAACATATAA
22409173 ATAATATGTT
1 ATAATATGTT
22409183 ATAATATGTT
1 ATAATATGTT
22409193 ATAATAT-TT
1 ATAATATGTT
22409202 ATAAT
1 ATAAT
22409207 TTTTCTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (10 bp):
ATAATATGTT
Found at i:22414087 original size:23 final size:23
Alignment explanation
Indices: 22414060--22414104 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
22414050 GCTAGATTTT
22414060 TCCTAAACATTATCACTAAATAA
1 TCCTAAACATTATCACTAAATAA
*
22414083 TCCTAAATATTATCACTAAATA
1 TCCTAAACATTATCACTAAATA
22414105 TTATCATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (23 bp):
TCCTAAACATTATCACTAAATAA
Found at i:22414103 original size:13 final size:13
Alignment explanation
Indices: 22414062--22414115 Score: 69
Period size: 13 Copynumber: 4.4 Consensus size: 13
22414052 TAGATTTTTC
*
22414062 CTAAACATTATCA
1 CTAAATATTATCA
22414075 CTAAATA--ATC-
1 CTAAATATTATCA
22414085 CTAAATATTATCA
1 CTAAATATTATCA
22414098 CTAAATATTATCA
1 CTAAATATTATCA
*
22414111 TTAAA
1 CTAAA
22414116 CAATTCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 7 0.19
11 3 0.08
12 3 0.08
13 23 0.64
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:22414695 original size:14 final size:14
Alignment explanation
Indices: 22414676--22414702 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22414666 AATATATACT
22414676 TTTATTTATTTTTA
1 TTTATTTATTTTTA
22414690 TTTATTTATTTTT
1 TTTATTTATTTTT
22414703 TCAAACGTAG
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTATTTTTA
Found at i:22421191 original size:55 final size:55
Alignment explanation
Indices: 22421070--22421197 Score: 141
Period size: 55 Copynumber: 2.3 Consensus size: 55
22421060 TGTGACATGG
* ** *
22421070 CCGTGGTCGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGTGGAAGAA
1 CCGTGGTTGAACCTGTTAAAACAACACGGGCGTGCGACACGCCCGTGTGCAAGAA
* * * * * *
22421125 CCGTGGGTGAACCTGTTAAAACAGCACGGGCGTGTGACACGCTCGTGT-CTAGCAC
1 CCGTGGTTGAACCTGTTAAAACAACACGGGCGTGCGACACGCCCGTGTGCAAG-AA
*
22421180 CCGTGGTTGAACTTGTTA
1 CCGTGGTTGAACCTGTTA
22421198 GATTGACACG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 2 0.03
55 58 0.97
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.19
Consensus pattern (55 bp):
CCGTGGTTGAACCTGTTAAAACAACACGGGCGTGCGACACGCCCGTGTGCAAGAA
Found at i:22425869 original size:96 final size:96
Alignment explanation
Indices: 22425703--22425883 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
22425693 GTGTCCGAGG
** * * * *
22425703 AAGTCTGTCATCGATTGGAACGATAGAGCAGATACGGAGCCCAAGAAGCTTAGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATAGAACAGACAAGGAGCCCAAGAAGCTTAGTTAGAGCAAGGG
22425768 GAAAGCCGAAGCCAAGAGGGAAAAGATAAGC
66 GAAAGCCGAAGCCAAGAGGGAAAAGATAAGC
* * * *
22425799 AAGTCTGTCATCGAAGGGAACGATGGAACAGACAATGAGCCTAAGAAGCTTGGTTAGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATAGAACAGACAAGGAGCCCAAGAAGCTTAGTTAGAGCAAGGG
*
22425864 TAAAGCCGAAGCCAAGAGGG
66 GAAAGCCGAAGCCAAGAGGG
22425884 CTAAGAGGAG
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.37, C:0.17, G:0.32, T:0.14
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAACGATAGAACAGACAAGGAGCCCAAGAAGCTTAGTTAGAGCAAGGG
GAAAGCCGAAGCCAAGAGGGAAAAGATAAGC
Found at i:22436364 original size:5 final size:5
Alignment explanation
Indices: 22436354--22436380 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
22436344 TGAAAAGGAA
22436354 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA
22436381 TTTATTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:22436499 original size:13 final size:13
Alignment explanation
Indices: 22436481--22436524 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
22436471 CTAGATTTTT
22436481 ACTAAATATTATC
1 ACTAAATATTATC
22436494 ACTAAATA--AT-
1 ACTAAATATTATC
*
22436504 TCTAAATATTATC
1 ACTAAATATTATC
22436517 ACTAAATA
1 ACTAAATA
22436525 ATTCAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 2 0.08
13 15 0.58
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (13 bp):
ACTAAATATTATC
Found at i:22436512 original size:23 final size:23
Alignment explanation
Indices: 22436482--22436533 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
22436472 TAGATTTTTA
22436482 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
22436505 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
22436528 CAAAAT
1 CTAAAT
22436534 TTAAAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:22441613 original size:42 final size:42
Alignment explanation
Indices: 22441513--22441616 Score: 100
Period size: 42 Copynumber: 2.5 Consensus size: 42
22441503 TGCTAAATGG
* * * * * **
22441513 AAACCCGTAAGGGTTGAACGGAAGCTCAAAGGAGCTGAATGA
1 AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACAA
** **
22441555 AAACCCACGACAGTTAAACAGAAGCTCAAAAGAGCTAAACAA
1 AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACAA
*
22441597 AAACCCATTAGGGTTAAACA
1 AAACCCATAAGGGTTAAACA
22441617 AAAACTCATA
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.13
Consensus pattern (42 bp):
AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACAA
Found at i:22441633 original size:21 final size:21
Alignment explanation
Indices: 22441585--22441634 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
22441575 GAAGCTCAAA
*
22441585 AGAGCTAAACAAAAACCCATT
1 AGAGTTAAACAAAAACCCATT
* *
22441606 AGGGTTAAACAAAAACTCATAT
1 AGAGTTAAACAAAAACCCAT-T
22441628 A-AGTTAA
1 AGAGTTAA
22441635 CTAAAGCTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.20
Consensus pattern (21 bp):
AGAGTTAAACAAAAACCCATT
Found at i:22467084 original size:52 final size:52
Alignment explanation
Indices: 22467028--22467134 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
22467018 TGAGGGGGTC
*
22467028 AAACAAAAACTCTTTCTTTTTTAAACACTAATTATATATCAAAACAAAAAAA
1 AAACAAAAACTCTTTCTTTTTTAAAAACTAATTATATATCAAAACAAAAAAA
*
22467080 AAACAAAAATTCTTTCTTTTTTAAAAACTAATTATATATCAAAACAAAAAAA
1 AAACAAAAACTCTTTCTTTTTTAAAAACTAATTATATATCAAAACAAAAAAA
22467132 AAA
1 AAA
22467135 TTTAAAATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (52 bp):
AAACAAAAACTCTTTCTTTTTTAAAAACTAATTATATATCAAAACAAAAAAA
Found at i:22477187 original size:19 final size:19
Alignment explanation
Indices: 22477165--22477201 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
22477155 ACCATGCATA
22477165 GCAAACAAGCATATGCACG
1 GCAAACAAGCATATGCACG
22477184 GCAAACAAGCATATGCAC
1 GCAAACAAGCATATGCAC
22477202 ATCACCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.27, G:0.19, T:0.11
Consensus pattern (19 bp):
GCAAACAAGCATATGCACG
Found at i:22478382 original size:39 final size:39
Alignment explanation
Indices: 22478320--22478420 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
22478310 ATCGTGATCT
* * * *
22478320 GAAGCCCGAAGTCTAGCTAAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
22478359 GAAGCCCGAAGGCTAATTGAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
22478398 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
22478421 TCATCAGAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:22478457 original size:21 final size:20
Alignment explanation
Indices: 22478433--22478480 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
22478423 ATCAGAGCTG
22478433 AACTGAAACCCCAAAAGAGTT
1 AACTGAAA-CCCAAAAGAGTT
* * *
22478454 AACTGAAACTCATATGAGTT
1 AACTGAAACCCAAAAGAGTT
22478474 AACTGAA
1 AACTGAA
22478481 GCTCGTAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.21
Consensus pattern (20 bp):
AACTGAAACCCAAAAGAGTT
Found at i:22482896 original size:36 final size:36
Alignment explanation
Indices: 22482839--22482920 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
22482829 CATAGTTTGG
* ** * *
22482839 CAAATTAATACAGTTTGCCATATTTATATAGA-TCAC
1 CAAATTAACACAGTTCACCATAATAATATA-ATTCAC
22482875 CAAATTAACACAGTTCACCATAATAATATAATTCAC
1 CAAATTAACACAGTTCACCATAATAATATAATTCAC
*
22482911 CAAGTTAACA
1 CAAATTAACA
22482921 TGGTTCACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 1 0.03
36 38 0.97
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (36 bp):
CAAATTAACACAGTTCACCATAATAATATAATTCAC
Found at i:22482938 original size:17 final size:18
Alignment explanation
Indices: 22482916--22482953 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
22482906 TTCACCAAGT
* *
22482916 TAACATGGTTCAC-AATA
1 TAACATAGTACACAAATA
22482933 TAACATAGTACACAAATA
1 TAACATAGTACACAAATA
22482951 TAA
1 TAA
22482954 TTAGCTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (18 bp):
TAACATAGTACACAAATA
Found at i:22484822 original size:32 final size:31
Alignment explanation
Indices: 22484757--22484823 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
22484747 ACTTTAAATT
* * *
22484757 ATTAATTCTAATTATTTTAATATTTTATTTA
1 ATTAATTCTAATTATTTTAATATCTAATCTA
22484788 ATTAATTCCTAATTA-TTTAATTATCTAATCTA
1 ATTAATT-CTAATTATTTTAA-TATCTAATCTA
22484820 ATTA
1 ATTA
22484824 CGGTTTTCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.55
Consensus pattern (31 bp):
ATTAATTCTAATTATTTTAATATCTAATCTA
Found at i:22495345 original size:19 final size:19
Alignment explanation
Indices: 22495318--22495356 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22495308 ACTATATATG
*
22495318 TATTATTTTTTTTCTTTTT
1 TATTATTTTCTTTCTTTTT
*
22495337 TATTTTTTTCTTTCTTTTT
1 TATTATTTTCTTTCTTTTT
22495356 T
1 T
22495357 TGATGATTTT
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:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (19 bp):
TATTATTTTCTTTCTTTTT
Found at i:22495357 original size:15 final size:14
Alignment explanation
Indices: 22495323--22495357 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
22495313 ATATGTATTA
22495323 TTTTTTTTCTTTTT
1 TTTTTTTTCTTTTT
*
22495337 TATTTTTTTCTTTCT
1 T-TTTTTTTCTTTTT
22495352 TTTTTT
1 TTTTTT
22495358 GATGATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTCTTTTT
Found at i:22496402 original size:5 final size:5
Alignment explanation
Indices: 22496371--22496419 Score: 64
Period size: 5 Copynumber: 9.4 Consensus size: 5
22496361 ATAAAAATTG
22496371 AAATA AAACTA AAA-A CAAATAA AAATA AAATA AAATA AAATA AAATA
1 AAATA AAA-TA AAATA -AAAT-A AAATA AAATA AAATA AAATA AAATA
22496418 AA
1 AA
22496420 TAGACTCAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.03
5 29 0.73
6 9 0.22
7 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:22498030 original size:13 final size:14
Alignment explanation
Indices: 22498012--22498040 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22498002 AATAAAGCAG
22498012 TAAAAATAA-ATAA
1 TAAAAATAAGATAA
22498025 TAAAAATAAGATAA
1 TAAAAATAAGATAA
22498039 TA
1 TA
22498041 TGAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (14 bp):
TAAAAATAAGATAA
Found at i:22501176 original size:38 final size:38
Alignment explanation
Indices: 22501134--22501221 Score: 122
Period size: 40 Copynumber: 2.3 Consensus size: 38
22501124 GTCCAACCCA
* *
22501134 ACACACCATGTGGGGATAAAATCGACCCACCCATCCCT
1 ACACACCATATGGGGATAAAATCAACCCACCCATCCCT
* *
22501172 ACACACCATATATGGGGATACAATCAACCCATCCATCCCT
1 ACACACC--ATATGGGGATAAAATCAACCCACCCATCCCT
22501212 ACACACCATA
1 ACACACCATA
22501222 AGGTACTGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
38 10 0.23
40 34 0.77
ACGTcount: A:0.35, C:0.36, G:0.11, T:0.17
Consensus pattern (38 bp):
ACACACCATATGGGGATAAAATCAACCCACCCATCCCT
Found at i:22501202 original size:40 final size:40
Alignment explanation
Indices: 22501144--22501221 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
22501134 ACACACCATG
*
22501144 TGGGGATAAAATCGACCCACCCATCCCTACACACCATATA
1 TGGGGATAAAATCAACCCACCCATCCCTACACACCATATA
* *
22501184 TGGGGATACAATCAACCCATCCATCCCTACACACCATA
1 TGGGGATAAAATCAACCCACCCATCCCTACACACCATA
22501222 AGGTACTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.36, G:0.12, T:0.18
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCATCCCTACACACCATATA
Found at i:22504283 original size:18 final size:18
Alignment explanation
Indices: 22504260--22504310 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
22504250 TGGTAGAAGC
22504260 AAACAAAAA-AAAATTAGA
1 AAACAAAAATAAAATTA-A
* *
22504278 AAACAAAAATTAAACTAA
1 AAACAAAAATAAAATTAA
22504296 AAACAAAAATAAAAT
1 AAACAAAAATAAAAT
22504311 GCAATAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.76, C:0.08, G:0.02, T:0.14
Consensus pattern (18 bp):
AAACAAAAATAAAATTAA
Found at i:22504544 original size:28 final size:29
Alignment explanation
Indices: 22504512--22504570 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
22504502 AATTACTATT
22504512 TTTTATTATATAG-CGATAAATTGAGGAA
1 TTTTATTATATAGTCGATAAATTGAGGAA
*
22504540 TTTTATTATCTAGTCGATAAATTGAGGAA
1 TTTTATTATATAGTCGATAAATTGAGGAA
22504569 TT
1 TT
22504571 GTTTTTAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (29 bp):
TTTTATTATATAGTCGATAAATTGAGGAA
Found at i:22508237 original size:34 final size:34
Alignment explanation
Indices: 22508194--22508262 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
22508184 TGGGTGAGGG
22508194 GTGTTACAATTCTCTTGGTTATTATATCAATTTT
1 GTGTTACAATTCTCTTGGTTATTATATCAATTTT
22508228 GTGTTACAATTCTCTTGGTTATTATATCAATTTT
1 GTGTTACAATTCTCTTGGTTATTATATCAATTTT
22508262 G
1 G
22508263 AAAATACTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.12, G:0.13, T:0.52
Consensus pattern (34 bp):
GTGTTACAATTCTCTTGGTTATTATATCAATTTT
Found at i:22508764 original size:27 final size:26
Alignment explanation
Indices: 22508734--22508788 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
22508724 AAAAAAATCG
*
22508734 TTAAAAGT-TAAAAAATTGTAAAAATTA
1 TTAAAAGTGTAAAAAAAT-T-AAAATTA
22508761 TTAAAAGTGTAAAAAAATTAAAATTA
1 TTAAAAGTGTAAAAAAATTAAAATTA
22508787 TT
1 TT
22508789 TTGGAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.35
27 9 0.35
28 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (26 bp):
TTAAAAGTGTAAAAAAATTAAAATTA
Found at i:22508780 original size:17 final size:18
Alignment explanation
Indices: 22508745--22508783 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22508735 TAAAAGTTAA
* *
22508745 AAAATTGTAAAAATTATT
1 AAAAGTGTAAAAATAATT
22508763 AAAAGTGTAAAAA-AATT
1 AAAAGTGTAAAAATAATT
22508780 AAAA
1 AAAA
22508784 TTATTTTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (18 bp):
AAAAGTGTAAAAATAATT
Found at i:22508878 original size:18 final size:19
Alignment explanation
Indices: 22508850--22508897 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
22508840 ACTTACTTAT
*
22508850 TAAAAATATTAAAAAATTG
1 TAAAAATATTAAAAAATTA
*
22508869 TAAAAA-ATTATAAAATTA
1 TAAAAATATTAAAAAATTA
*
22508887 TAAAATTATTA
1 TAAAAATATTA
22508898 TTTTGGGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAAATATTAAAAAATTA
Found at i:22509098 original size:61 final size:56
Alignment explanation
Indices: 22509016--22509128 Score: 138
Period size: 56 Copynumber: 1.9 Consensus size: 56
22509006 GCAATTTTTA
*
22509016 TAATTTTTTTACAAGTTTTTAAAGTTTTTAATAAGTAAGTTCTACAATTTTCTATAAATTT
1 TAATTTTTTTACAAGTTTTT-AA-TATTTAA-AA-TAAGTT-TACAATTTTCTATAAATTT
* *
22509077 TAATTATTTTTCCAA-TTTTTAATATTTAAAATAAGTTTACAATTTTTTATAA
1 TAATT-TTTTTACAAGTTTTTAATATTTAAAATAAGTTTACAATTTTCTATAA
22509129 TATTAAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
56 14 0.29
57 6 0.12
58 2 0.04
59 6 0.12
60 2 0.04
61 10 0.21
62 8 0.17
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.53
Consensus pattern (56 bp):
TAATTTTTTTACAAGTTTTTAATATTTAAAATAAGTTTACAATTTTCTATAAATTT
Found at i:22509142 original size:27 final size:26
Alignment explanation
Indices: 22509058--22509159 Score: 71
Period size: 27 Copynumber: 3.7 Consensus size: 26
22509048 AAGTAAGTTC
* *
22509058 TACAATTTTCTATAAATTTTAATTATTTT
1 TACAATTTTTTAT-AA-TTTAA-AATTTT
* * *
22509087 TCCAATTTTTAAT-ATTTAAAATAAGTT
1 TACAATTTTTTATAATTTAAAAT--TTT
22509114 TACAATTTTTTATAATATTAAAATTTT
1 TACAATTTTTTATAAT-TTAAAATTTT
* * *
22509141 TAAAATATTTTACAATTTA
1 TACAATTTTTTATAATTTA
22509160 TTTTTACATT
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
25 2 0.03
26 8 0.14
27 29 0.50
28 2 0.03
29 17 0.29
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (26 bp):
TACAATTTTTTATAATTTAAAATTTT
Found at i:22512441 original size:56 final size:56
Alignment explanation
Indices: 22512381--22512684 Score: 502
Period size: 56 Copynumber: 5.4 Consensus size: 56
22512371 TCCCAGACAA
* *
22512381 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
*
22512437 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAAC-TATTAAGCGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
* * *
22512492 GGTCTTACTCGTACACATATATTGAAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
* *
22512548 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACATATTAAACAT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
** *
22512604 GGTCTTACTCGCACACATATATCGAAATCACATATTAATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
22512660 GGTCTTACTCGCACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
22512685 TGCCATGGTC
Statistics
Matches: 230, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
55 51 0.22
56 179 0.78
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
Found at i:22512508 original size:111 final size:112
Alignment explanation
Indices: 22512381--22512684 Score: 520
Period size: 111 Copynumber: 2.7 Consensus size: 112
22512371 TCCCAGACAA
*
22512381 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAATGTGGTCTTACT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAATGTGGTCTTACT
* *
22512446 CGCACACATATATCGAAATCACATATCGATGCCAAC-TATTAAGCGT
66 CGCACACATATATCGAAATCACATATCGATGCCAACATATTAAACAT
* *
22512492 GGTCTTACTCGTACACATATATTGAAATCACATATCGATGCCAACGTATTAAATGTGGTCTTACT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAATGTGGTCTTACT
22512557 CGCACACATATATCGAAATCACATATCGATGCCAACATATTAAACAT
66 CGCACACATATATCGAAATCACATATCGATGCCAACATATTAAACAT
** * *
22512604 GGTCTTACTCGCACACATATATCGAAATCACATATTAATGCCAATGTATTAAACGTGGTCTTACT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAATGTGGTCTTACT
22512669 CGCACACATATATCGA
66 CGCACACATATATCGA
22512685 TGCCATGGTC
Statistics
Matches: 181, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
111 98 0.54
112 83 0.46
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (112 bp):
GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAATGTGGTCTTACT
CGCACACATATATCGAAATCACATATCGATGCCAACATATTAAACAT
Found at i:22513537 original size:16 final size:17
Alignment explanation
Indices: 22513516--22513549 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22513506 GAACCCTAAG
22513516 CTTTTTTTCTTAT-TTT
1 CTTTTTTTCTTATATTT
*
22513532 CTTTTTTTTTTATATTT
1 CTTTTTTTCTTATATTT
22513549 C
1 C
22513550 AGTCATGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTTTTTCTTATATTT
Found at i:22514535 original size:5 final size:5
Alignment explanation
Indices: 22514525--22514553 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
22514515 AAAATTTACA
22514525 AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
22514554 TGATGTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:22523819 original size:43 final size:42
Alignment explanation
Indices: 22523757--22523860 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
22523747 AATGCCAACA
* *
22523757 TCCCAGAC-GTGGTCATACATGTAATCAAATATCGATGTC-ACTG
1 TCCCAGACAG-GGTCTTACATGAAATCAAATA-CGATGTCGA-TG
*
22523800 TCCCAGACAGGGTCTTACATGAAATCTAATACGATGTCGATG
1 TCCCAGACAGGGTCTTACATGAAATCAAATACGATGTCGATG
*
22523842 TCCCAGACATGGTCTTACA
1 TCCCAGACAGGGTCTTACA
22523861 CATAAATCTC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
42 27 0.49
43 27 0.49
44 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACATGAAATCAAATACGATGTCGATG
Found at i:22523911 original size:43 final size:42
Alignment explanation
Indices: 22523748--22523911 Score: 136
Period size: 43 Copynumber: 3.8 Consensus size: 42
22523738 AGCTCGTACA
* * * * *
22523748 ATGCCAACATCCCAGACGTGGTCATACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCTAA-ATCG
* *
22523791 ATGTC-ACTGTCCCAGACAG-GGTCTTACATGAAATCT-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCTAAAT-CG
* * * * *
22523833 ATGTCGATGTCCCAGACATGGTCTTACACATAAATCTCAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-GAAATCT-AAATCG
*
22523877 ATGCCAACGTCCCAAACGTGGTCTTACACGAAATC
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATC
22523912 ACATATCGGA
Statistics
Matches: 98, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.29
43 38 0.39
44 27 0.28
45 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCTAAATCG
Found at i:22525691 original size:25 final size:25
Alignment explanation
Indices: 22525649--22525697 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
22525639 TCTAGCACTT
*
22525649 TTGGTATAAGTTAGAAATATTGGTA
1 TTGGTATAAGTTAAAAATATTGGTA
* *
22525674 TTGGTATAATTTAAAAATTTTGGT
1 TTGGTATAAGTTAAAAATATTGGT
22525698 TTGCCAAGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (25 bp):
TTGGTATAAGTTAAAAATATTGGTA
Found at i:22531603 original size:20 final size:20
Alignment explanation
Indices: 22531580--22531617 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22531570 ATAAGTTTTA
22531580 TTTATCATTACAA-TATAATT
1 TTTAT-ATTACAATTATAATT
*
22531600 TTTATATTTCAATTATAA
1 TTTATATTACAATTATAA
22531618 ATTATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTATATTACAATTATAATT
Found at i:22532101 original size:30 final size:30
Alignment explanation
Indices: 22532046--22532103 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
22532036 GTAGATTTTG
* *
22532046 AGTGTCTCTATAAAGATTATCTTTATCAAA
1 AGTGTCCCTATAAAGATTATATTTATCAAA
22532076 AGTGTCCCTATAAAGATT-TAATTTATCA
1 AGTGTCCCTATAAAGATTAT-ATTTATCA
22532104 TGAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (30 bp):
AGTGTCCCTATAAAGATTATATTTATCAAA
Found at i:22540029 original size:25 final size:25
Alignment explanation
Indices: 22540000--22540065 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
22539990 ATTATCATGG
*
22540000 TTTTATCCACAGTTTTATGGTTTTA
1 TTTTATCCACAATTTTATGGTTTTA
*
22540025 TTTTATCTACAATTTTATGGTTTTA
1 TTTTATCCACAATTTTATGGTTTTA
* *
22540050 TTTTGTCCACATTTTT
1 TTTTATCCACAATTTT
22540066 CGTGATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.20, C:0.12, G:0.09, T:0.59
Consensus pattern (25 bp):
TTTTATCCACAATTTTATGGTTTTA
Found at i:22540887 original size:18 final size:18
Alignment explanation
Indices: 22540850--22540900 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
22540840 ATGATATGGG
*
22540850 TGTGAATAT-ATTTCGGT
1 TGTGAATATAATTTTGGT
*
22540867 TGTGAATATAATTTTGTT
1 TGTGAATATAATTTTGGT
*
22540885 TGT-AATGTAGATTTTG
1 TGTGAATATA-ATTTTG
22540901 ATTATAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.25, C:0.02, G:0.22, T:0.51
Consensus pattern (18 bp):
TGTGAATATAATTTTGGT
Found at i:22541241 original size:15 final size:15
Alignment explanation
Indices: 22541191--22541242 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
22541181 ACGGATTCAC
* *
22541191 ATAATTTTGAATTTT
1 ATAATTTTAAATATT
*
22541206 ATAAGTTATAAATATT
1 ATAA-TTTTAAATATT
* *
22541222 TTAATTTTAAATATA
1 ATAATTTTAAATATT
22541237 ATAATT
1 ATAATT
22541243 CATTTTATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (15 bp):
ATAATTTTAAATATT
Found at i:22542608 original size:39 final size:40
Alignment explanation
Indices: 22542565--22542650 Score: 111
Period size: 39 Copynumber: 2.1 Consensus size: 40
22542555 TAAAAACTAT
* * *
22542565 ATATAATAAAATATTAATTATATTAAT-TTGTGTTTTTTA
1 ATATAATAAAACATTAATTATATTAATATAGTGTTCTTTA
* *
22542604 ATATAATAAAACATTTATTATATTTATGATAGTGTTCTTTA
1 ATATAATAAAACATTAATTATATTAAT-ATAGTGTTCTTTA
22542645 ATATAA
1 ATATAA
22542651 ATACTTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 24 0.60
41 16 0.40
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (40 bp):
ATATAATAAAACATTAATTATATTAATATAGTGTTCTTTA
Found at i:22544617 original size:63 final size:63
Alignment explanation
Indices: 22544547--22544671 Score: 250
Period size: 63 Copynumber: 2.0 Consensus size: 63
22544537 ACCAAATACC
22544547 ATAAAATCATATCTCATAAAATCAGGATTTAAATAGGATATTATGTTTCTGATTTTAGGGGAT
1 ATAAAATCATATCTCATAAAATCAGGATTTAAATAGGATATTATGTTTCTGATTTTAGGGGAT
22544610 ATAAAATCATATCTCATAAAATCAGGATTTAAATAGGATATTATGTTTCTGATTTTAGGGGA
1 ATAAAATCATATCTCATAAAATCAGGATTTAAATAGGATATTATGTTTCTGATTTTAGGGGA
22544672 GATGATAAAG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (63 bp):
ATAAAATCATATCTCATAAAATCAGGATTTAAATAGGATATTATGTTTCTGATTTTAGGGGAT
Found at i:22545191 original size:92 final size:92
Alignment explanation
Indices: 22545028--22545210 Score: 312
Period size: 92 Copynumber: 2.0 Consensus size: 92
22545018 ATAGGGTTGT
* *
22545028 GTATATACATTCTCTCAACCTTTTTCTCTCTATTTCTTCACAAATGTATAATGCAATAATGTATA
1 GTATATACATTCTCTCAACCTTTTTCTCTCTATTTCTTCACAAATGTATAATGCAATAAGGCATA
22545093 ACTACTACTTCTAGAGAGATGATAACA
66 ACTACTACTTCTAGAGAGATGATAACA
22545120 GTATATACATTCTCTCAACCTTTTTCTCTCTATTTCTTCACAAATGTATAATGCAATAAGGCATA
1 GTATATACATTCTCTCAACCTTTTTCTCTCTATTTCTTCACAAATGTATAATGCAATAAGGCATA
* * * *
22545185 ATTACTAGTTGTTGAGAGATGATAAC
66 ACTACTACTTCTAGAGAGATGATAAC
22545211 TGTAGTCATC
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (92 bp):
GTATATACATTCTCTCAACCTTTTTCTCTCTATTTCTTCACAAATGTATAATGCAATAAGGCATA
ACTACTACTTCTAGAGAGATGATAACA
Found at i:22554136 original size:2 final size:2
Alignment explanation
Indices: 22554129--22554161 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
22554119 ATTTTTATAA
*
22554129 CT CT CT CT CT CT CT GT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
22554162 ACACACACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.03, T:0.48
Consensus pattern (2 bp):
CT
Found at i:22555709 original size:17 final size:16
Alignment explanation
Indices: 22555687--22555733 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
22555677 TTTTATGTGT
22555687 TTTTTAATTTATTATAA
1 TTTTTAATTT-TTATAA
22555704 TTTTTAAATTTTTATAA
1 TTTTT-AATTTTTATAA
22555721 TTTTATAATTTTT
1 TTTT-TAATTTTT
22555734 TTAAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 22 0.79
18 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTAATTTTTATAA
Found at i:22562067 original size:16 final size:18
Alignment explanation
Indices: 22562048--22562080 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
22562038 TTATAAAGGT
22562048 TAATTAA-G-TAAAATAG
1 TAATTAATGATAAAATAG
22562064 TAATTAATGATAAAATA
1 TAATTAATGATAAAATA
22562081 AATAAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (18 bp):
TAATTAATGATAAAATAG
Found at i:22574573 original size:67 final size:63
Alignment explanation
Indices: 22574458--22574603 Score: 202
Period size: 67 Copynumber: 2.3 Consensus size: 63
22574448 ATATATGATT
* * * *
22574458 GTTGAAATGTAAGATTATTTAGCATATTACTAGGTATATTATACTACCTTCTTCTTTTTTTCATT
1 GTTGGAATGTAAGATTACTTAGCACATTACTAAGTATATTATACTA-C--CTT-TTTTTTTCATT
22574523 TG
62 TG
*
22574525 GTTGGAATGTAAGATTACTTAGCACATTACTAAGTATATTATATTACCTTTTTTTTTCATTTG
1 GTTGGAATGTAAGATTACTTAGCACATTACTAAGTATATTATACTACCTTTTTTTTTCATTTG
*
22574588 GTTAGAATGTAAGATT
1 GTTGGAATGTAAGATT
22574604 TTGCTATTTG
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
63 28 0.38
64 3 0.04
66 1 0.01
67 41 0.56
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (63 bp):
GTTGGAATGTAAGATTACTTAGCACATTACTAAGTATATTATACTACCTTTTTTTTTCATTTG
Found at i:22577637 original size:46 final size:46
Alignment explanation
Indices: 22577587--22577760 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
22577577 TTTGGGCATC
* * *
22577587 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGAT
* * *
22577633 CGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ACG-AT
* * **
22577679 CTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGAT
*
22577726 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22577761 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
45 2 0.02
46 61 0.57
47 25 0.23
48 2 0.02
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGAT
Found at i:22577740 original size:93 final size:93
Alignment explanation
Indices: 22577581--22577752 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
22577571 AGGATGTTTG
* **
22577581 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
22577646 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
22577674 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
22577739 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
22577753 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:22580090 original size:20 final size:18
Alignment explanation
Indices: 22580051--22580090 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
22580041 AAATTTCTGG
*
22580051 AAAATATTTTTCCCTTTA
1 AAAATATTTTTCCCTCTA
22580069 AAAATATATTTTCCCATCTA
1 AAAATAT-TTTTCCC-TCTA
22580089 AA
1 AA
22580091 CTCAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 7 0.37
20 5 0.26
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATATTTTTCCCTCTA
Found at i:22582418 original size:54 final size:54
Alignment explanation
Indices: 22582360--22582526 Score: 119
Period size: 54 Copynumber: 3.1 Consensus size: 54
22582350 AAATATTATT
22582360 TACACTTGCAAATTTTTTATCTGTTTTTACAAATAACAACAAAAGATTAAAAGC
1 TACACTTGCAAATTTTTTATCTGTTTTTACAAATAACAACAAAAGATTAAAAGC
* *** * * *** *** * **
22582414 TACACAAAT-CTGTTTTCTTTATACATGTATTAATTTATATTTA-AAAATATT---ATT
1 TACAC--TTGCAAATTT-TTTAT-C-TGTTTTTACAAATAACAACAAAAGATTAAAAGC
22582468 TACACTTGCAAATTTTTTATCTGTTTTTACAAATAACAACAAAAGATTAAAAGC
1 TACACTTGCAAATTTTTTATCTGTTTTTACAAATAACAACAAAAGATTAAAAGC
22582522 TACAC
1 TACAC
22582527 AAATCTGTTT
Statistics
Matches: 73, Mismatches: 30, Indels: 20
0.59 0.24 0.16
Matches are distributed among these distances:
50 10 0.14
51 8 0.11
52 6 0.08
53 4 0.05
54 17 0.23
55 4 0.05
56 6 0.08
57 8 0.11
58 10 0.14
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.40
Consensus pattern (54 bp):
TACACTTGCAAATTTTTTATCTGTTTTTACAAATAACAACAAAAGATTAAAAGC
Found at i:22582451 original size:108 final size:108
Alignment explanation
Indices: 22582329--22582544 Score: 432
Period size: 108 Copynumber: 2.0 Consensus size: 108
22582319 ATTTTATAAT
22582329 CATGTATTAATTTATATTTAAAAATATTATTTACACTTGCAAATTTTTTATCTGTTTTTACAAAT
1 CATGTATTAATTTATATTTAAAAATATTATTTACACTTGCAAATTTTTTATCTGTTTTTACAAAT
22582394 AACAACAAAAGATTAAAAGCTACACAAATCTGTTTTCTTTATA
66 AACAACAAAAGATTAAAAGCTACACAAATCTGTTTTCTTTATA
22582437 CATGTATTAATTTATATTTAAAAATATTATTTACACTTGCAAATTTTTTATCTGTTTTTACAAAT
1 CATGTATTAATTTATATTTAAAAATATTATTTACACTTGCAAATTTTTTATCTGTTTTTACAAAT
22582502 AACAACAAAAGATTAAAAGCTACACAAATCTGTTTTCTTTATA
66 AACAACAAAAGATTAAAAGCTACACAAATCTGTTTTCTTTATA
22582545 AAAATATAGA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.43
Consensus pattern (108 bp):
CATGTATTAATTTATATTTAAAAATATTATTTACACTTGCAAATTTTTTATCTGTTTTTACAAAT
AACAACAAAAGATTAAAAGCTACACAAATCTGTTTTCTTTATA
Found at i:22584001 original size:22 final size:22
Alignment explanation
Indices: 22583937--22584001 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
22583927 AAAATAGAAA
22583937 CAGAGCATAAT-AGATATAGATG
1 CAGAGCAT-ATCAGATATAGATG
* **
22583959 CAGAGCATATCAAATGCAGATG
1 CAGAGCATATCAGATATAGATG
*
22583981 CAGAGCATATCGGATATAGAT
1 CAGAGCATATCAGATATAGAT
22584002 TCAAAGTTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
21 2 0.06
22 33 0.94
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.22
Consensus pattern (22 bp):
CAGAGCATATCAGATATAGATG
Found at i:22585564 original size:69 final size:69
Alignment explanation
Indices: 22585468--22585660 Score: 264
Period size: 69 Copynumber: 2.8 Consensus size: 69
22585458 AGTTTTCCTC
* * * * *
22585468 ATGGAAAATGCCATACATACATTTCATAACTCAGTATGGAAAATACCATACCTACAG-ATCATAG
1 ATGG-AAATACCATACCTACATATCATAGCTCGGTATGG-AAATACCATACCTACAGTATCATAG
*
22585532 CTCGGT
64 CTCAGT
*
22585538 ATGGAAATACCATACCTACGTATCATAGCTCGGTATGGAAATACCATACCTAC-GTATCATAGCT
1 ATGGAAATACCATACCTACATATCATAGCTCGGTATGGAAATACCATACCTACAGTATCATAGCT
*
22585602 TAGT
66 CAGT
*
22585606 ATGGATAATACCATACCTACATATCATAGCTTGGTATGGAAATACCATACCTACA
1 ATGGA-AATACCATACCTACATATCATAGCTCGGTATGGAAATACCATACCTACA
22585661 TTTCACATTT
Statistics
Matches: 110, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
67 1 0.01
68 31 0.28
69 74 0.67
70 4 0.04
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (69 bp):
ATGGAAATACCATACCTACATATCATAGCTCGGTATGGAAATACCATACCTACAGTATCATAGCT
CAGT
Found at i:22585657 original size:103 final size:104
Alignment explanation
Indices: 22585468--22585659 Score: 296
Period size: 103 Copynumber: 1.9 Consensus size: 104
22585458 AGTTTTCCTC
* *
22585468 ATGGAAAATGCCATACATACATTTCATAACTCAGTATGGAAAATACCATACCTACAGATCATAGC
1 ATGGAAAATACCATACATACATATCATAACTCAGTATGGAAAATACCATACCTACAGATCATAGC
22585533 TCGGTATGGAAATACCATACCTACGTATCATAGCTCGGT
66 TCGGTATGGAAATACCATACCTACGTATCATAGCTCGGT
* * * * * *
22585572 ATGG-AAATACCATACCTACGTATCATAGCTTAGTATGGATAATACCATACCTACATATCATAGC
1 ATGGAAAATACCATACATACATATCATAACTCAGTATGGAAAATACCATACCTACAGATCATAGC
*
22585636 TTGGTATGGAAATACCATACCTAC
66 TCGGTATGGAAATACCATACCTAC
22585660 ATTTCACATT
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
103 75 0.95
104 4 0.05
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (104 bp):
ATGGAAAATACCATACATACATATCATAACTCAGTATGGAAAATACCATACCTACAGATCATAGC
TCGGTATGGAAATACCATACCTACGTATCATAGCTCGGT
Found at i:22585661 original size:34 final size:34
Alignment explanation
Indices: 22585468--22585661 Score: 262
Period size: 34 Copynumber: 5.6 Consensus size: 34
22585458 AGTTTTCCTC
* * * * *
22585468 ATGGAAAATGCCATACATACATTTCATAACTCAGT
1 ATGG-AAATACCATACCTACATATCATAGCTCGGT
*
22585503 ATGGAAAATACCATACCTACAGATCATAGCTCGGT
1 ATGG-AAATACCATACCTACATATCATAGCTCGGT
*
22585538 ATGGAAATACCATACCTACGTATCATAGCTCGGT
1 ATGGAAATACCATACCTACATATCATAGCTCGGT
* **
22585572 ATGGAAATACCATACCTACGTATCATAGCTTAGT
1 ATGGAAATACCATACCTACATATCATAGCTCGGT
*
22585606 ATGGATAATACCATACCTACATATCATAGCTTGGT
1 ATGGA-AATACCATACCTACATATCATAGCTCGGT
22585641 ATGGAAATACCATACCTACAT
1 ATGGAAATACCATACCTACAT
22585662 TTCACATTTT
Statistics
Matches: 146, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
34 81 0.55
35 65 0.45
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (34 bp):
ATGGAAATACCATACCTACATATCATAGCTCGGT
Found at i:22585679 original size:34 final size:34
Alignment explanation
Indices: 22585503--22585680 Score: 151
Period size: 34 Copynumber: 5.2 Consensus size: 34
22585493 ATAACTCAGT
* * * **
22585503 ATGGAAAATACCATACCTACAGATCATAGCTCGGT
1 ATGG-AAATACCATACCTACATATCACAGCTTGCC
* * * **
22585538 ATGGAAATACCATACCTACGTATCATAGCTCGGT
1 ATGGAAATACCATACCTACATATCACAGCTTGCC
* * *
22585572 ATGGAAATACCATACCTACGTATCATAGCTTAG-T
1 ATGGAAATACCATACCTACATATCACAGCTT-GCC
* **
22585606 ATGGATAATACCATACCTACATATCATAGCTTGGT
1 ATGGA-AATACCATACCTACATATCACAGCTTGCC
* **
22585641 ATGGAAATACCATACCTACATTTCACATTTTGCC
1 ATGGAAATACCATACCTACATATCACAGCTTGCC
22585675 ATGGAA
1 ATGGAA
22585681 CAACCATGGT
Statistics
Matches: 130, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
34 94 0.72
35 36 0.28
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (34 bp):
ATGGAAATACCATACCTACATATCACAGCTTGCC
Found at i:22589310 original size:15 final size:16
Alignment explanation
Indices: 22589278--22589312 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
22589268 TATTACATTA
22589278 AAAATATTTAAATTTT
1 AAAATATTTAAATTTT
*
22589294 AAAATATTT-ATTTTT
1 AAAATATTTAAATTTT
22589309 AAAA
1 AAAA
22589313 AGTTTTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAAATATTTAAATTTT
Found at i:22589313 original size:16 final size:17
Alignment explanation
Indices: 22589275--22589313 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
22589265 CTTTATTACA
22589275 TTAAAAATATTTAAATT
1 TTAAAAATATTTAAATT
*
22589292 TT-AAAATATTT-ATTT
1 TTAAAAATATTTAAATT
22589307 TTAAAAA
1 TTAAAAA
22589314 GTTTTAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 13 0.65
17 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAAAATATTTAAATT
Found at i:22596962 original size:34 final size:35
Alignment explanation
Indices: 22596912--22597149 Score: 109
Period size: 34 Copynumber: 6.7 Consensus size: 35
22596902 ACGAAAGAGT
* *
22596912 TTGTGCCCAGTGCTAGTCGGATAAA-TCGACA-AA-
1 TTGTGCCCAGCGCTAGTCGGATAAACTAGA-AGAAG
* *
22596945 TGTGTGCCCAGCACTAGTCAGATAAACTAGAAGAAG
1 T-TGTGCCCAGCGCTAGTCGGATAAACTAGAAGAAG
* *
22596981 TTGCGCCCAGCGCTAGTCGGATAAACTGATGAA-ATAA
1 TTGTGCCCAGCGCTAGTCGGATAAACT-A-GAAGA-AG
* * * * **
22597018 TTAGTGAGCCCAGCTCTAGTTGGATAAACCA-ATGATC
1 TT-GT--GCCCAGCGCTAGTCGGATAAACTAGAAGAAG
** * * *
22597055 TT-TGGCCCAATGCTGGTCAGATAAAC-CGAAGAATG
1 TTGT-GCCCAGCGCTAGTCGGATAAACTAGAAGAA-G
* * *
22597090 TTG-GCCCAACACTAGTCAGATAAACTGACGAA-AA-
1 TTGTGCCCAGCGCTAGTCGGATAAACT-A-GAAGAAG
*
22597124 TTGTACCCAGCGCTAGTCGGATAAAC
1 TTGTGCCCAGCGCTAGTCGGATAAAC
22597150 CGACAATATT
Statistics
Matches: 153, Mismatches: 34, Indels: 34
0.69 0.15 0.15
Matches are distributed among these distances:
33 1 0.01
34 63 0.41
35 49 0.32
36 5 0.03
37 12 0.08
38 2 0.01
39 1 0.01
40 20 0.13
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (35 bp):
TTGTGCCCAGCGCTAGTCGGATAAACTAGAAGAAG
Found at i:22597174 original size:143 final size:144
Alignment explanation
Indices: 22596911--22597192 Score: 344
Period size: 143 Copynumber: 2.0 Consensus size: 144
22596901 TACGAAAGAG
* * * *
22596911 TTTGTGCCCAGTGCTAGTCGGATAAATCGACAAATGTGTGCCCAGCACTAGTCAGATAAACTAGA
1 TTTGTGCCCAATGCTAGTCAGATAAACCGACAAATGTGTGCCCAACACTAGTCAGATAAACTAGA
* * * *
22596976 AGAAGTTGCGCCCAGCGCTAGTCGGATAAACTGATGAAATAATTAGTGAGCCCAGCTCTAGTTGG
66 AGAAGTTGCACCCAGCGCTAGTCGGATAAACCGATCAAATAAATAGTGAGCCCAGCTCTAGTTGG
22597041 ATAAACCAATGATC
131 ATAAACCAATGATC
*
22597055 TTTG-GCCCAATGCTGGTCAGATAAACCGA-AGAATGT-TGGCCCAACACTAGTCAGATAAACTG
1 TTTGTGCCCAATGCTAGTCAGATAAACCGACA-AATGTGT-GCCCAACACTAGTCAGATAAACT-
* *
22597117 ACGAA-AA-TTGTACCCAGCGCTAGTCGGATAAACCGA-CAATATTAAAT-GTGAGCCCAGCTTT
63 A-GAAGAAGTTGCACCCAGCGCTAGTCGGATAAACCGATCAA-A-TAAATAGTGAGCCCAGCTCT
* *
22597178 AGTTGGTTTAACCAA
125 AGTTGGATAAACCAA
22597193 CAAATTGACA
Statistics
Matches: 119, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
142 4 0.03
143 101 0.85
144 11 0.09
145 3 0.03
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (144 bp):
TTTGTGCCCAATGCTAGTCAGATAAACCGACAAATGTGTGCCCAACACTAGTCAGATAAACTAGA
AGAAGTTGCACCCAGCGCTAGTCGGATAAACCGATCAAATAAATAGTGAGCCCAGCTCTAGTTGG
ATAAACCAATGATC
Found at i:22600483 original size:26 final size:25
Alignment explanation
Indices: 22600454--22600505 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
22600444 ACTTTTGCTA
22600454 AGGGACT-TTTGATGAAAATGTGAAAT
1 AGGGACTATTTG-TG-AAATGTGAAAT
22600480 AGGGACTAATTTGTGAAATGTGAAAT
1 AGGGACT-ATTTGTGAAATGTGAAAT
22600506 TTATGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 18 0.75
27 2 0.08
28 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (25 bp):
AGGGACTATTTGTGAAATGTGAAAT
Found at i:22610436 original size:23 final size:23
Alignment explanation
Indices: 22610410--22610529 Score: 181
Period size: 23 Copynumber: 5.3 Consensus size: 23
22610400 ATAAGTGCCA
22610410 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22610433 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
22610456 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
22610478 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
22610500 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22610523 CACTGAT
1 CACTGAT
22610530 CAATAACACT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
22 42 0.46
23 49 0.54
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:22612340 original size:5 final size:5
Alignment explanation
Indices: 22612332--22612390 Score: 118
Period size: 5 Copynumber: 11.8 Consensus size: 5
22612322 AGTAAACTAT
22612332 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
22612382 TATAA TATA
1 TATAA TATA
22612391 TTTATTTATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 54 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:22612527 original size:15 final size:15
Alignment explanation
Indices: 22612508--22612560 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 15
22612498 TTATTTATTT
22612508 TATATTTATAATAATAA
1 TATA-TTATAAT-ATAA
*
22612525 TATAATATAATATAA
1 TATATTATAATATAA
*
22612540 TATATAATAATATAA
1 TATATTATAATATAA
22612555 TATATT
1 TATATT
22612561 TACTTATAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 22 0.69
16 6 0.19
17 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATTATAATATAA
Found at i:22612529 original size:5 final size:5
Alignment explanation
Indices: 22612514--22612558 Score: 65
Period size: 5 Copynumber: 8.8 Consensus size: 5
22612504 ATTTTATATT
22612514 TATAA TAATAA TATAA TATAA TATAA TAT-A TAATAA TATAA TATA
1 TATAA T-ATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATA
22612559 TTTACTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 2 0.05
5 28 0.76
6 7 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:22612591 original size:23 final size:24
Alignment explanation
Indices: 22612508--22612591 Score: 81
Period size: 23 Copynumber: 3.6 Consensus size: 24
22612498 TTATTTATTT
22612508 TATATTTA-TA-ATAATAATATAA
1 TATATTTACTATATAATAATATAA
* *
22612530 TATAATATAATATATAATAATATAA
1 TAT-ATTTACTATATAATAATATAA
22612555 TATATTTACT-TATAAGTAA-ATAA
1 TATATTTACTATATAA-TAATATAA
22612578 TA-A-TTACTAATATA
1 TATATTTACT-ATATA
22612592 TGTATTTAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
21 5 0.09
22 4 0.08
23 19 0.36
24 10 0.19
25 15 0.28
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (24 bp):
TATATTTACTATATAATAATATAA
Found at i:22614715 original size:26 final size:26
Alignment explanation
Indices: 22614686--22614793 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
22614676 TGGTACAAAT
22614686 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
22614712 TGATAATGGATTAGGTAAATATTACA
1 TGATAATGGGTTAGGTAAATGTTCCA
22614738 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
22614764 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22614790 TGAT
1 TGAT
22614794 GGCCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:22616455 original size:27 final size:27
Alignment explanation
Indices: 22616415--22616582 Score: 184
Period size: 27 Copynumber: 6.2 Consensus size: 27
22616405 AGGAAGCGTC
*
22616415 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
22616442 CTGGTGGCTCTGCCAC-ATATATCAGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
22616469 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
22616496 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
22616523 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
22616550 CTGGTGACT-TCGTCACAA-TATCTGTAT
1 CTGGTGGCTCT-GCCACAATTATCTG-AT
22616577 CTGGTG
1 CTGGTG
22616583 ACTTCGTCAC
Statistics
Matches: 124, Mismatches: 11, Indels: 12
0.84 0.07 0.08
Matches are distributed among these distances:
26 11 0.09
27 110 0.89
28 3 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:22616579 original size:81 final size:81
Alignment explanation
Indices: 22616415--22616582 Score: 218
Period size: 81 Copynumber: 2.1 Consensus size: 81
22616405 AGGAAGCGTC
*
22616415 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCAGTTCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCAGTTCTGGTGACTAT
*
22616480 GCCACGATTATCTGAT
66 GCCACGAATATCTGAT
* * *
22616496 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCAGT-TCTGGTGACT
*
22616559 -TCGTCAC-AATATCTGTAT
64 AT-GCCACGAATATCTG-AT
22616577 CTGGTG
1 CTGGTG
22616583 ACTTCGTCAC
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
80 17 0.22
81 60 0.78
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCAGTTCTGGTGACTAT
GCCACGAATATCTGAT
Found at i:22616580 original size:54 final size:53
Alignment explanation
Indices: 22616415--22616600 Score: 234
Period size: 54 Copynumber: 3.5 Consensus size: 53
22616405 AGGAAGCGTC
*
22616415 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCAGTT
1 CTGGTGGCTATGCCACAA-TATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
22616469 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-AATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
22616523 CTGGTGGCTCTGCCACAATATCTGTATCTGGTGACT-TCGTCACA-ATATCTGTAT
1 CTGGTGGCTATGCCACAATATCTG-ATCTGGTGGCTCT-GCCACATATATCTGT-T
* *
22616577 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTAT-GCCACAATATCTG
22616601 GCAGCCTCGC
Statistics
Matches: 119, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
53 17 0.14
54 101 0.85
55 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:22616601 original size:21 final size:24
Alignment explanation
Indices: 22616547--22616597 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 24
22616537 ACAATATCTG
22616547 TATCTGGTGACTTCGTCACAATATCT
1 TATCTGGTGACTTCGTCACAATA--T
22616573 GTATCTGGTGACTTCGTCACAATAT
1 -TATCTGGTGACTTCGTCACAATAT
22616598 CTGGCAGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
27 23 0.96
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (24 bp):
TATCTGGTGACTTCGTCACAATAT
Found at i:22619004 original size:17 final size:17
Alignment explanation
Indices: 22618982--22619016 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
22618972 TTGCACAACC
22618982 TTGATGAAGAAGTTTAT
1 TTGATGAAGAAGTTTAT
22618999 TTGATGAAGAAGTTTAT
1 TTGATGAAGAAGTTTAT
22619016 T
1 T
22619017 AGTTTGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
TTGATGAAGAAGTTTAT
Found at i:22625485 original size:18 final size:18
Alignment explanation
Indices: 22625420--22625479 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
22625410 TGTTACAAAT
22625420 ATTTAAAATAA-ATA-ATA
1 ATTTAAAATAATATAGA-A
*
22625437 TTTTATAAATAA-A-AGAA
1 ATTTA-AAATAATATAGAA
22625454 ATTTAAAATAATATAGAA
1 ATTTAAAATAATATAGAA
22625472 ATTTAAAA
1 ATTTAAAA
22625480 CTATATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 6 0.16
17 11 0.30
18 20 0.54
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
ATTTAAAATAATATAGAA
Found at i:22627033 original size:129 final size:129
Alignment explanation
Indices: 22626803--22627060 Score: 516
Period size: 129 Copynumber: 2.0 Consensus size: 129
22626793 AAAAAAATCT
22626803 TGGATCAAAATAGCTTGCTTGCAAATTCATCAGTGGGAGCTCCTATACGAGAATAGCTGGACTTT
1 TGGATCAAAATAGCTTGCTTGCAAATTCATCAGTGGGAGCTCCTATACGAGAATAGCTGGACTTT
22626868 TTTGAAACATCTCTCAGTTCTGATCATTCTCCATTTTCTCTTTTCTAAACATCACTTTCTTCCC
66 TTTGAAACATCTCTCAGTTCTGATCATTCTCCATTTTCTCTTTTCTAAACATCACTTTCTTCCC
22626932 TGGATCAAAATAGCTTGCTTGCAAATTCATCAGTGGGAGCTCCTATACGAGAATAGCTGGACTTT
1 TGGATCAAAATAGCTTGCTTGCAAATTCATCAGTGGGAGCTCCTATACGAGAATAGCTGGACTTT
22626997 TTTGAAACATCTCTCAGTTCTGATCATTCTCCATTTTCTCTTTTCTAAACATCACTTTCTTCCC
66 TTTGAAACATCTCTCAGTTCTGATCATTCTCCATTTTCTCTTTTCTAAACATCACTTTCTTCCC
22627061 ATCTCCATTC
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (129 bp):
TGGATCAAAATAGCTTGCTTGCAAATTCATCAGTGGGAGCTCCTATACGAGAATAGCTGGACTTT
TTTGAAACATCTCTCAGTTCTGATCATTCTCCATTTTCTCTTTTCTAAACATCACTTTCTTCCC
Found at i:22627386 original size:19 final size:20
Alignment explanation
Indices: 22627341--22627388 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
22627331 TAGATCATAT
22627341 ATATTTTTATCATTTTTAATA
1 ATATTTTTAT-ATTTTTAATA
22627362 AT-TTTTTAT-TTTTTAA-A
1 ATATTTTTATATTTTTAATA
22627379 ATTATTTTTA
1 A-TATTTTTA
22627389 GTAATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.08
18 8 0.32
19 6 0.24
20 7 0.28
21 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
ATATTTTTATATTTTTAATA
Found at i:22628226 original size:39 final size:39
Alignment explanation
Indices: 22628171--22628249 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
22628161 AAGGTGGAAG
* *
22628171 TCAACTTTCTCTCTACACTCAGGAAAATCAAAATTCAAC
1 TCAACTTTCTCCCTACAATCAGGAAAATCAAAATTCAAC
*
22628210 TCAACTTTCTCCCTACAATCGGGAAAATCAAAATTCAAC
1 TCAACTTTCTCCCTACAATCAGGAAAATCAAAATTCAAC
22628249 T
1 T
22628250 TTTAATTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (39 bp):
TCAACTTTCTCCCTACAATCAGGAAAATCAAAATTCAAC
Found at i:22629177 original size:14 final size:15
Alignment explanation
Indices: 22629158--22629188 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22629148 ATTACTTTTC
22629158 AAAAGTG-TTTTGAA
1 AAAAGTGATTTTGAA
22629172 AAAAGTGATTTTGAA
1 AAAAGTGATTTTGAA
22629187 AA
1 AA
22629189 GTACTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (15 bp):
AAAAGTGATTTTGAA
Found at i:22629202 original size:13 final size:13
Alignment explanation
Indices: 22629139--22629203 Score: 62
Period size: 13 Copynumber: 4.9 Consensus size: 13
22629129 TTTAGTATTG
*
22629139 CTTTTGAAAATTA
1 CTTTTGAAAAGTA
*
22629152 CTTTTCAAAAGT-
1 CTTTTGAAAAGTA
*
22629164 GTTTTGAAAAAAGTGA
1 CTTTTG--AAAAGT-A
22629180 -TTTTGAAAAGTA
1 CTTTTGAAAAGTA
22629192 CTTTTGAAAAGT
1 CTTTTGAAAAGT
22629204 TTGTTTTAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.12
13 27 0.63
14 6 0.14
15 5 0.12
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.40
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:22631266 original size:40 final size:40
Alignment explanation
Indices: 22631202--22631280 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
22631192 ATACGATACC
* * *
22631202 ACTTGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCAT
1 ACTTGGTGTGTAAGGCTGGATGGGTCGATTTTATCCCCAT
*
22631242 ACTTGGTGTGTAAGGCTGGGTGGGTCGATTTTATCCCCA
1 ACTTGGTGTGTAAGGCTGGATGGGTCGATTTTATCCCCA
22631281 CATGGTGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.37
Consensus pattern (40 bp):
ACTTGGTGTGTAAGGCTGGATGGGTCGATTTTATCCCCAT
Found at i:22638539 original size:40 final size:40
Alignment explanation
Indices: 22638479--22638554 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
22638469 ATGTGGTACC
* *
22638479 ACTTGGTGTGTAGGGTTGGGTGGGTTGATTTTATCCACAT
1 ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCCACAT
22638519 ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCC
1 ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCC
22638555 CCACATGGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.13, C:0.12, G:0.37, T:0.38
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCCACAT
Found at i:22646612 original size:27 final size:28
Alignment explanation
Indices: 22646575--22646714 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
22646565 AGCATGGCTG
* *
22646575 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
22646601 CCAGATACAGATA-ATTGTGGCAGAGCGA
1 CCAGATACAGATATA-TGTGGCAGAGCCA
22646629 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
22646656 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
22646683 CCAGAT-TAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
22646710 CCAGA
1 CCAGA
22646715 ACGCTTCCTC
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 16 0.16
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:22646634 original size:54 final size:54
Alignment explanation
Indices: 22646575--22646714 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
22646565 AGCATGGCTG
* *
22646575 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATTGTGGCAGAGCGA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATTGTGGCAGAGCCA
* *
22646629 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCAGAGCCA
** * * *
22646683 CCAGATTAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGACAGAGCCACCAGA
22646715 ACGCTTCCTC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 59 0.77
55 18 0.23
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCAGAGCCA
Found at i:22650642 original size:27 final size:28
Alignment explanation
Indices: 22650605--22650744 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
22650595 AGCATGGCTG
* *
22650605 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
22650631 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
22650659 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
22650686 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
22650713 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
22650740 CCAGA
1 CCAGA
22650745 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:22652395 original size:26 final size:26
Alignment explanation
Indices: 22652357--22652414 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
22652347 CATGAAATTC
22652357 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
22652383 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
22652409 TTATCA
1 TTATCA
22652415 ATTTGTACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:22653850 original size:46 final size:46
Alignment explanation
Indices: 22653757--22653963 Score: 172
Period size: 46 Copynumber: 4.5 Consensus size: 46
22653747 GTGCAGTTGC
* * * *
22653757 CATGTCCAAGACATGGTCTTACACT-G-ACACATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-AGGCCAATG
* *
22653802 CATGTCCTAGACATGTCTTACATTGGCT-TACATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCCAATG
* * * * * * *
22653848 CATGTCGCAGAAATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCAATG
* * *
22653894 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCCAATG
*
22653942 CATATCCCAGACATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
22653964 TTAGCACACA
Statistics
Matches: 129, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
44 9 0.07
45 15 0.12
46 56 0.43
47 26 0.20
48 22 0.17
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCAATG
Found at i:22653942 original size:94 final size:92
Alignment explanation
Indices: 22653696--22653973 Score: 255
Period size: 94 Copynumber: 3.0 Consensus size: 92
22653686 CTTAGGGTAT
* * * *
22653696 AATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATGTGTGCAGTTGCCATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTG-GCA-ATG-CATG
22653761 TCCAAGACATGGTCTTACACT-G-ACACATCTC
62 TCC-AGACAT-GTCTTACACTAGCACACATCTC
* * * * *
22653792 -GTAGCCGATG-CATGTCCTAGACAT-GTCTTACATTGGCT-TACAT-CTCGAGGCCAATGCATG
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGG-CAATGCATG
* * * *
22653852 TCGCAGAAATGTCTTACACTAGCTCTCGTCTC
62 TC-CAGACATGTCTTACACTAGCACACATCTC
*
22653884 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTAATGCATATCC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC-AATGCATGT-C
*
22653949 CAGACATGTCTTACATTAGCACACA
64 CAGACATGTCTTACACTAGCACACA
22653974 AATAACCTAA
Statistics
Matches: 144, Mismatches: 24, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
90 10 0.07
91 12 0.08
92 18 0.12
93 20 0.14
94 61 0.42
95 17 0.12
96 6 0.04
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (92 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCAATGCATGTCCA
GACATGTCTTACACTAGCACACATCTC
Found at i:22668606 original size:49 final size:49
Alignment explanation
Indices: 22668534--22668629 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
22668524 GAGGTAGCGA
*
22668534 ATTTTCTTGGTTTTTAGCGATCTCCTCCGTTGTGGTTGAAGTATCGTGG
1 ATTTTCTTGGTTTTTAGCCATCTCCTCCGTTGTGGTTGAAGTATCGTGG
* *
22668583 ATTTTCTTTGTTTTTAGCCATCTCCTCGGTTGTGGTTGAAGTATCGT
1 ATTTTCTTGGTTTTTAGCCATCTCCTCCGTTGTGGTTGAAGTATCGT
22668630 CCTCTAGCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.12, C:0.17, G:0.24, T:0.47
Consensus pattern (49 bp):
ATTTTCTTGGTTTTTAGCCATCTCCTCCGTTGTGGTTGAAGTATCGTGG
Found at i:22671015 original size:48 final size:48
Alignment explanation
Indices: 22670737--22671017 Score: 215
Period size: 48 Copynumber: 5.9 Consensus size: 48
22670727 CATAGGGTAT
*
22670737 AATACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATCTC
** * * * * *
22670787 CGTGCTGATGTCATGTCCCAGACATGGTCTTACACTAG--CACATCTAT
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCT-C
** * * * *
22670834 ACATGTCGATGCCATGTCCTAGACATGGTCTTACAAT-G-ACACATCTC
1 A-ATACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* *
22670881 -ATAGCCGATG-CATGTCCTAGACAT-GTCTTACA-TTGC-CTTACATCTC
1 AATA-CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-CATCTC
* ** * * *
22670927 GAGGCCTAT-ACATGTCCCAGACAT-GTCTTACACTATCTCTCATCTC
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
*
22670973 AATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
22671018 AATGTGGTCG
Statistics
Matches: 185, Mismatches: 32, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 10 0.05
45 16 0.09
46 51 0.28
47 19 0.10
48 55 0.30
50 33 0.18
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (48 bp):
AATACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
Found at i:22671030 original size:48 final size:46
Alignment explanation
Indices: 22670741--22671057 Score: 194
Period size: 46 Copynumber: 6.8 Consensus size: 46
22670731 GGGTATAATA
*
22670741 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-AT--G-G
* * *
22670791 CTGATGTCATGTCCCAGACATGGTCTTACACTAGCACATCTATACAT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TC-ATA-ATGG
* * * *
22670839 TCGATGCCATGTCCTAGACATGGTCTTACAATGACACATCTCAT-A--G
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-A-GC-TCTCATAATGG
* * *
22670885 CCGATG-CATGTCCTAGACAT-GTCTTACA-TTGC-CTTACAT-CTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-CATAAT---GG
* * * *
22670931 CCTAT-ACATGTCCCAGACAT-GTCTTACACTATCTCTCATCTCAAT-A
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA--T-AATGG
*
22670977 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAA--TGG
* *
22671025 TCGATG-CATGTCCCAGAAAT-GTCTTACACTAGC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC
22671058 ACACAAATAA
Statistics
Matches: 213, Mismatches: 30, Indels: 52
0.72 0.10 0.18
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 4 0.02
43 1 0.00
44 8 0.04
45 16 0.08
46 51 0.24
47 32 0.15
48 51 0.24
49 3 0.01
50 38 0.18
51 3 0.01
52 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGG
Found at i:22671036 original size:94 final size:94
Alignment explanation
Indices: 22670742--22671055 Score: 265
Period size: 94 Copynumber: 3.3 Consensus size: 94
22670732 GGTATAATAC
* * * *
22670742 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCTGATGTCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTA--TCTCACATCT-CATACCGATG-CATGTCCCA
* *
22670807 GACATGGTCTTACACTAGCACATCTATACA--T-GT
62 GACATGGTCTTACACTGGCTC-TC-ATA-ATGTGGT
* ** *
22670840 CGATGCCATGTCCTAGACATGGTCTTACA--ATGACACATCTCATAGCCGATGCATGTCCTAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTATCTCACATCTCATA-CCGATGCATGTCCCAGAC
* * * * *
22670903 AT-GTCTTACATTGCCT-TACAT-CTCGAGGC
65 ATGGTCTTACACTGGCTCT-CATAAT-GTGGT
* * *
22670932 CTAT-ACATGTCCCAGACAT-GTCTTACACTATCTCTCATCTCAATACCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTATCTCACATCTC-ATACCGATG-CATGTCCCAGA
22670995 CATGGTCTTACACTGGCTCTCATAATGTGGT
64 CATGGTCTTACACTGGCTCTCATAATGTGGT
*
22671026 CGATG-CATGTCCCAGAAAT-GTCTTACACTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTA
22671056 GCACACAAAT
Statistics
Matches: 173, Mismatches: 29, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
90 11 0.06
91 14 0.08
92 29 0.17
93 31 0.18
94 57 0.33
95 2 0.01
96 1 0.01
98 28 0.16
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTATCTCACATCTCATACCGATGCATGTCCCAGACA
TGGTCTTACACTGGCTCTCATAATGTGGT
Found at i:22680473 original size:19 final size:19
Alignment explanation
Indices: 22680429--22680475 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
22680419 AATTCACACA
*
22680429 AGTAAGCTTATTGAAGCTT
1 AGTAAGTTTATTGAAGCTT
22680448 AGTAAGTTTATTGAAGCTT
1 AGTAAGTTTATTGAAGCTT
22680467 AGTAAGTTT
1 AGTAAGTTT
22680476 GAGGAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (19 bp):
AGTAAGTTTATTGAAGCTT
Found at i:22680749 original size:10 final size:10
Alignment explanation
Indices: 22680734--22680758 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22680724 CTTATAAGAT
22680734 AACTTCTAAA
1 AACTTCTAAA
22680744 AACTTCTAAA
1 AACTTCTAAA
22680754 AACTT
1 AACTT
22680759 AGAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (10 bp):
AACTTCTAAA
Found at i:22681120 original size:11 final size:11
Alignment explanation
Indices: 22681104--22681135 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
22681094 GCATACTAAC
22681104 TTCAAATCAAT
1 TTCAAATCAAT
22681115 TTCAAATCAAT
1 TTCAAATCAAT
22681126 TTCAACATCA
1 TTCAA-ATCA
22681136 GGGGACACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (11 bp):
TTCAAATCAAT
Found at i:22683522 original size:37 final size:37
Alignment explanation
Indices: 22683460--22683573 Score: 147
Period size: 37 Copynumber: 3.1 Consensus size: 37
22683450 AACCAATTGA
* * * * *
22683460 AACACACCAATCGCTCATAAAAGCTAATCCATCCGAT
1 AACACGCCAAACGCTTATAAGAGCTAATCCAACCGAT
* *
22683497 AACACGTCAAACGCTTATAAGAGCTAATCCAACGGAT
1 AACACGCCAAACGCTTATAAGAGCTAATCCAACCGAT
* *
22683534 AACACGCCAAACACTTATAAGAGCTAATCCAACTGAT
1 AACACGCCAAACGCTTATAAGAGCTAATCCAACCGAT
22683571 AAC
1 AAC
22683574 TTGCCAGATC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.42, C:0.28, G:0.11, T:0.18
Consensus pattern (37 bp):
AACACGCCAAACGCTTATAAGAGCTAATCCAACCGAT
Found at i:22688592 original size:21 final size:21
Alignment explanation
Indices: 22688566--22688611 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
22688556 AACATGGCCG
22688566 TGTGGCTAAC-CCACACGCCCA
1 TGTGGCT-ACTCCACACGCCCA
*
22688587 TGTGGCTACTCCACACGCCCG
1 TGTGGCTACTCCACACGCCCA
22688608 TGTG
1 TGTG
22688612 TAGTCCCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.17, C:0.39, G:0.24, T:0.20
Consensus pattern (21 bp):
TGTGGCTACTCCACACGCCCA
Found at i:22689441 original size:5 final size:5
Alignment explanation
Indices: 22689431--22689461 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
22689421 TGAAACATTG
22689431 CATAA CATAA CATAA CATAA CATAA CATAA C
1 CATAA CATAA CATAA CATAA CATAA CATAA C
22689462 CAATTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (5 bp):
CATAA
Found at i:22701045 original size:57 final size:57
Alignment explanation
Indices: 22700951--22701070 Score: 195
Period size: 57 Copynumber: 2.1 Consensus size: 57
22700941 AATATCGTCG
* ** *
22700951 ATAATTATGAAAACAAATATATCTTAATATGTTTGAAATATCCTATTCATTAAGTTC
1 ATAAATATGAAAACAAATATATCTTAATATGGCTGAAATATCCTATTCATTAAGTCC
*
22701008 ATAAATATGAAAACAAATCTATCTTAATATGGCTGAAATATCCTATTCATTAAGTCC
1 ATAAATATGAAAACAAATATATCTTAATATGGCTGAAATATCCTATTCATTAAGTCC
22701065 ATAAAT
1 ATAAAT
22701071 GCAGTCAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.37
Consensus pattern (57 bp):
ATAAATATGAAAACAAATATATCTTAATATGGCTGAAATATCCTATTCATTAAGTCC
Found at i:22704123 original size:43 final size:43
Alignment explanation
Indices: 22704070--22704155 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
22704060 ATGCAATTTC
* * * *
22704070 TATACACTTTGGGAGTGGCTCCCCTAGCTTTGGTAATCACTTT
1 TATACACTTTGGAAATAGCTCCCCTAGCTTTGGCAATCACTTT
*
22704113 TATACTCTTTGGAAATAGCTCCCCTAGCTTTGGCAATCACTTT
1 TATACACTTTGGAAATAGCTCCCCTAGCTTTGGCAATCACTTT
22704156 ATAGCATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (43 bp):
TATACACTTTGGAAATAGCTCCCCTAGCTTTGGCAATCACTTT
Found at i:22704422 original size:38 final size:39
Alignment explanation
Indices: 22704370--22704461 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 39
22704360 CGTTTGAATG
*
22704370 AAAAATGCCACTAAAGAACGAGCATTAGCGGCGCTTTTC
1 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTC
** * *
22704409 AAAAACGCC-CTAAAGATTGAGTATTAGCGGCGCTTTTT
1 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTC
*
22704447 AGAAAACGCCGCTAA
1 A-AAAACGCCACTAA
22704462 TTCTTGATCT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
38 26 0.57
39 16 0.35
40 4 0.09
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (39 bp):
AAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTC
Found at i:22704584 original size:90 final size:92
Alignment explanation
Indices: 22704474--22704652 Score: 344
Period size: 90 Copynumber: 2.0 Consensus size: 92
22704464 CTTGATCTTT
22704474 AACGCCGCAAAAAATTAACACAACATATTGAGCCTTTAGTGGCTTTAGCGGCGC-TTTTTAAAAA
1 AACGCCGCAAAAAATTAACACAACATATTGAGCCTTTAGTGGCTTTAGCGGCGCTTTTTTAAAAA
22704538 -ACCGCTAAAGATCAAGTATTAGCAAA
66 CACCGCTAAAGATCAAGTATTAGCAAA
22704564 AACGCCGCAAAAAATTAACACAACATATTGAGCCTTTAGTGGCTTTAGCGGCGCTTTTTTAAAAA
1 AACGCCGCAAAAAATTAACACAACATATTGAGCCTTTAGTGGCTTTAGCGGCGCTTTTTTAAAAA
22704629 CACCGCTAAAGATCAAGTATTAGC
66 CACCGCTAAAGATCAAGTATTAGC
22704653 GGCGTTTTTA
Statistics
Matches: 87, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
90 54 0.62
91 10 0.11
92 23 0.26
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (92 bp):
AACGCCGCAAAAAATTAACACAACATATTGAGCCTTTAGTGGCTTTAGCGGCGCTTTTTTAAAAA
CACCGCTAAAGATCAAGTATTAGCAAA
Found at i:22704701 original size:40 final size:39
Alignment explanation
Indices: 22704606--22704747 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 39
22704596 CCTTTAGTGG
* *
22704606 CTTTAGCGGCGCTTTTTTAAAAACA-CCGCTAAAG-ATCAA
1 CTTTAGCGGCGC-TTTTTAAAAAAAGCCGCTAATGTA-CAA
* *
22704645 GTATTAGCGGCG-TTTTTAAAAAAAGCCGCTATATGTACAC
1 CT-TTAGCGGCGCTTTTTAAAAAAAGCCGCTA-ATGTACAA
* * * *
22704685 CTTTAGCGGCGCTTTTTAGAAGACGCCGCTAATGCTTA-AT
1 CTTTAGCGGCGCTTTTTAAAAAAAGCCGCTAATG--TACAA
*
22704725 CTTTAGCGGCGTTTTTTAAAAAA
1 CTTTAGCGGCGCTTTTTAAAAAA
22704748 GCCACAAAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
38 11 0.13
39 19 0.23
40 51 0.61
41 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (39 bp):
CTTTAGCGGCGCTTTTTAAAAAAAGCCGCTAATGTACAA
Found at i:22704948 original size:21 final size:21
Alignment explanation
Indices: 22704902--22705054 Score: 69
Period size: 22 Copynumber: 7.1 Consensus size: 21
22704892 TTAATTATCA
* *
22704902 TTATCGTTTAGGGTTTATGGT
1 TTATGGTTAAGGGTTTATGGT
*
22704923 ATATGGTTAAGGGTTTAAT-GT
1 TTATGGTTAAGGGTTT-ATGGT
**** *
22704944 TTATGAGTTACTATTTTAAGGT
1 TTATG-GTTAAGGGTTTATGGT
* * *
22704966 TTATGGATTATGGGTTTAGGGA
1 TTATGG-TTAAGGGTTTATGGT
* * *
22704988 TTATGGTTTATGGATTATGGGT
1 TTATGGTTAAGGGTTTAT-GGT
* *
22705010 TTAGGGATT-ATGGTTTATGGT
1 TTATGG-TTAAGGGTTTATGGT
* *
22705031 TTATGGGTTAATGG-TTAGGGT
1 TTAT-GGTTAAGGGTTTATGGT
22705052 TTA
1 TTA
22705055 AGTTTTAGAG
Statistics
Matches: 99, Mismatches: 25, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
21 45 0.45
22 52 0.53
23 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGGT
Found at i:22704983 original size:15 final size:15
Alignment explanation
Indices: 22704963--22705054 Score: 120
Period size: 15 Copynumber: 6.4 Consensus size: 15
22704953 ACTATTTTAA
22704963 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
22704978 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
22704992 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
22705007 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
*
22705021 GGTTTATGGTTTATG
1 GGTTTATGGATTATG
*
22705036 GGTTAATGG-TTA-G
1 GGTTTATGGATTATG
22705049 GGTTTA
1 GGTTTA
22705055 AGTTTTAGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
13 6 0.09
14 28 0.41
15 34 0.50
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Done.