Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 193 of 211
Found at i:59628696 original size:17 final size:16
Alignment explanation
Indices: 59628661--59628700 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
59628651 ACTATTATCG
*
59628661 TATTTAAATAAAATCA
1 TATTTATATAAAATCA
*
59628677 TATTTATATATAAATTA
1 TATTTATATA-AAATCA
59628694 TATTTAT
1 TATTTAT
59628701 TTAATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTATATAAAATCA
Found at i:59639813 original size:2 final size:2
Alignment explanation
Indices: 59639806--59639835 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59639796 GAGCTTCCAT
59639806 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
59639836 TTACCCTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:59648626 original size:26 final size:26
Alignment explanation
Indices: 59648590--59648654 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
59648580 GAAGCTCCGG
*
59648590 AGAGCCATTAATTAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* *
59648616 AGAGCCTTTAATCAGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
59648642 AGAGCCATATAAT
1 AGAGCCAT-TAAT
59648655 GGGACGCTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:59648663 original size:26 final size:25
Alignment explanation
Indices: 59648590--59648663 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 25
59648580 GAAGCTCCGG
59648590 AGAGCCATTAATTAGGAAGCTCACAA
1 AGAGCCATTAA-TAGGAAGCTCACAA
* *
59648616 AGAGCCTTTAATCAGGAAGCTCACGA
1 AGAGCCATTAAT-AGGAAGCTCACAA
* *
59648642 AGAGCCATATAATGGGACGCTC
1 AGAGCCAT-TAATAGGAAGCTC
59648664 GTAAGAGCTG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.02
26 36 0.88
27 4 0.10
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (25 bp):
AGAGCCATTAATAGGAAGCTCACAA
Found at i:59651710 original size:36 final size:36
Alignment explanation
Indices: 59651641--59651725 Score: 118
Period size: 36 Copynumber: 2.3 Consensus size: 36
59651631 CTACCTTCAT
* *
59651641 CCGATTTGCTTCCTTGTTTCTTTGTTTTTCTTTTCTA
1 CCGATTTGC-TCCTAGTTTATTTGTTTTTCTTTTCTA
*
59651678 TCGATTTGCTCCTAGTTTATTT-TCTTTTCTTTTCTA
1 CCGATTTGCTCCTAGTTTATTTGT-TTTTCTTTTCTA
59651714 CCGATTTGCTCC
1 CCGATTTGCTCC
59651726 CCCCGTTTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 1 0.02
36 34 0.79
37 8 0.19
ACGTcount: A:0.08, C:0.24, G:0.11, T:0.58
Consensus pattern (36 bp):
CCGATTTGCTCCTAGTTTATTTGTTTTTCTTTTCTA
Found at i:59654976 original size:91 final size:91
Alignment explanation
Indices: 59654829--59655036 Score: 308
Period size: 91 Copynumber: 2.3 Consensus size: 91
59654819 TTGATTTTAG
* *
59654829 TAAATTCATATAAGAACATTTTATTATTAAGAATGTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTAT
* * *
59654894 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* * * *
59654921 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTATA
59654986 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
59655012 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
59655037 GTTATAATTA
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 88 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:59654997 original size:44 final size:43
Alignment explanation
Indices: 59654867--59655011 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 43
59654857 AAGAATGTTA
* *
59654867 TGAAATTATATATCATTATTAAATTATATTTAATATTAATTATT
1 TGAAATTATATATAATTATTAAATTATA-TTAATAATAATTATT
* * * *
59654911 TTAAATTGTATA-AATTCATATAAGA-AAAATTATTATCAATAATT-TT
1 TGAAATTATATATAATT-AT-TAA-ATTATATTA--AT-AATAATTATT
*
59654957 ATGAAATTATATATTATTATTAAATTATATGTAATAATAATTATT
1 -TGAAATTATATATAATTATTAAATTATAT-TAATAATAATTATT
*
59655002 TTAAATTATA
1 TGAAATTATA
59655012 CAAATTCATA
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.40
45 10 0.13
46 11 0.14
47 20 0.26
48 3 0.04
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
TGAAATTATATATAATTATTAAATTATATTAATAATAATTATT
Found at i:59655003 original size:47 final size:46
Alignment explanation
Indices: 59654864--59655004 Score: 114
Period size: 47 Copynumber: 3.1 Consensus size: 46
59654854 ATTAAGAATG
* *
59654864 TTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTA-T
1 TTATGAAATTATATATAATTATTAAATTATA-TTAATAATAATTATT
* * * * *
59654910 TT-T-AAATTGTATA-AATTCATATAAGA-AAAATT-ATTATCAATAATT
1 TTATGAAATTATATATAATT-AT-TAA-ATTATATTAATAAT-AATTATT
*
59654955 TTATGAAATTATATATTATTATTAAATTATATGTAATAATAATTATT
1 TTATGAAATTATATATAATTATTAAATTATAT-TAATAATAATTATT
59655002 TTA
1 TTA
59655005 AATTATACAA
Statistics
Matches: 71, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
43 6 0.08
44 17 0.24
45 10 0.14
46 10 0.14
47 21 0.30
48 7 0.10
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (46 bp):
TTATGAAATTATATATAATTATTAAATTATATTAATAATAATTATT
Found at i:59655005 original size:26 final size:28
Alignment explanation
Indices: 59654951--59655011 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
59654941 TATTATCAAT
* *
59654951 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
59654979 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
59655005 AATTATA
1 AATTATA
59655012 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:59655207 original size:16 final size:16
Alignment explanation
Indices: 59655186--59655227 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
59655176 TTATTAAATT
*
59655186 ATATATTTTAATTATA
1 ATATATTTTAATAATA
59655202 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
59655217 AT-TATGTTTAA
1 ATATAT-TTTAA
59655228 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:59655212 original size:15 final size:15
Alignment explanation
Indices: 59655177--59655218 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
59655167 TTAAGAATTT
*
59655177 TATTAAATTAT-ATA
1 TATTTAATTATAATA
59655191 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
59655205 TATTTAATAATAAT
1 TATTTAATTATAAT
59655219 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:59655461 original size:16 final size:16
Alignment explanation
Indices: 59655434--59655485 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
59655424 GATTTGCTAT
59655434 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
59655450 TACACTTTTAATCCAA
1 TACACCTCTAATCCAA
59655466 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
59655482 TACA
1 TACA
59655486 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:59657115 original size:30 final size:31
Alignment explanation
Indices: 59657046--59657126 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 31
59657036 TTGAATAGCC
* * *
59657046 TATATTTTTATAATTTTTAAAAAAATTAAAT
1 TATAATTTTATTATTTTTAAAAAAATTAAAG
* *
59657077 TA-ATATTTTATTATTTTT-AGAAAGTTAAAG
1 TATA-ATTTTATTATTTTTAAAAAAATTAAAG
59657107 TATAATTTTATT-TTTATTAA
1 TATAATTTTATTATTT-TTAA
59657127 TTTAAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
29 3 0.07
30 22 0.54
31 16 0.39
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (31 bp):
TATAATTTTATTATTTTTAAAAAAATTAAAG
Found at i:59657358 original size:16 final size:18
Alignment explanation
Indices: 59657327--59657359 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
59657317 TTATTTTAAC
59657327 TTTTTATTTAAATTTTTG
1 TTTTTATTTAAATTTTTG
59657345 TTTTT-TTT-AATTTTT
1 TTTTTATTTAAATTTTT
59657360 AAATTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTATTTAAATTTTTG
Found at i:59658605 original size:17 final size:16
Alignment explanation
Indices: 59658583--59658638 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
59658573 TTAATTTTTT
*
59658583 AAAATTTTAAAAATATA
1 AAAATTTCAAAAA-ATA
59658600 AAAA-TTCAAAAAAATA
1 AAAATTTC-AAAAAATA
* *
59658616 AAACTATCAAAAAATTA
1 AAAATTTCAAAAAA-TA
59658633 AAAATT
1 AAAATT
59658639 ATTAAAAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATTTCAAAAAATA
Found at i:59658636 original size:18 final size:17
Alignment explanation
Indices: 59658591--59658637 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
59658581 TTAAAATTTT
59658591 AAAAATATAAAAAT-TCA
1 AAAAAT-TAAAAATATCA
* *
59658608 AAAAAATAAAACTATCA
1 AAAAATTAAAAATATCA
59658625 AAAAATTAAAAAT
1 AAAAATTAAAAAT
59658638 TATTAAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATTAAAAATATCA
Found at i:59658679 original size:26 final size:27
Alignment explanation
Indices: 59658623--59658695 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 27
59658613 ATAAAACTAT
59658623 CAAAAAAT-TAAAAATTATTAAAAACA
1 CAAAAAATATAAAAATTATTAAAAACA
* *
59658649 CAAAAAATATAAAAATTATTTAATA-A
1 CAAAAAATATAAAAATTATTAAAAACA
*
59658675 TAAAAAATATAACAATATTAT
1 CAAAAAATATAA-AA-ATTAT
59658696 ATAGTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
26 20 0.49
27 16 0.39
28 5 0.12
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (27 bp):
CAAAAAATATAAAAATTATTAAAAACA
Found at i:59661161 original size:109 final size:111
Alignment explanation
Indices: 59661021--59661293 Score: 329
Period size: 109 Copynumber: 2.4 Consensus size: 111
59661011 GACGCAATTT
* *
59661021 TTTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCTAATGCTCAGGGCTTTAGCGG
1 TTTGAGCTTTCGGGGCTTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
* * * * *
59661086 CG-TTTTCGGTAAAGCG-CAACAAAAGAACCTAAGCCCAACGACTCCG
66 CGATTCT-GGGAAAGCGTC-ACAAAAAAACCTAAGCCCAACAACGCCG
* *
59661132 -TTGAGC-TTCGGGGCTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCCGGGCTTTAGCGG
1 TTTGAGCTTTCGGGGCTTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
*
59661195 CGATTCTGGGAAAGCGTCGCAAAAAAACCTAAGCCCAACAACGCCG
66 CGATTCTGGGAAAGCGTCACAAAAAAACCTAAGCCCAACAACGCCG
* * ** *
59661241 TTTACTGAGCTTTTGTGGCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCAAATG
1 -TT--TGAGCTTTCGGGGCTTTAGCGGCGTTTTTAAG-AAAGCGCCGCTAATG
59661294 GACCTAAGCC
Statistics
Matches: 138, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
109 87 0.63
110 10 0.07
111 1 0.01
113 5 0.04
114 22 0.16
115 13 0.09
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (111 bp):
TTTGAGCTTTCGGGGCTTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
CGATTCTGGGAAAGCGTCACAAAAAAACCTAAGCCCAACAACGCCG
Found at i:59661304 original size:74 final size:73
Alignment explanation
Indices: 59661183--59661348 Score: 206
Period size: 74 Copynumber: 2.3 Consensus size: 73
59661173 CTAATGCTCC
* * *
59661183 GGGCTTTAGCGGCGATTCTGGGAAAGCGTCGCAAAAAAACCTAAGCCCAACAACGCCGTTTACTG
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACAACGCCGTTTACTG
59661248 AGCTTTTG
66 AGCTTTTG
* *** * *
59661256 TGGCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCAAATGGACCTAAGCCCAACGACGCCGTTTTCT
1 GGGCTTTAGCGGCGTTTTTGGG-AAAGCGCCGCAAAAAAACCTAAGCCCAACAACGCCGTTTACT
*
59661321 TAGCTTTTG
65 GAGCTTTTG
** *
59661330 GGGAGTTAGTGGCGTTTTT
1 GGGCTTTAGCGGCGTTTTT
59661349 AATAAAGCGC
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
73 19 0.24
74 59 0.76
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (73 bp):
GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACAACGCCGTTTACTG
AGCTTTTG
Found at i:59663369 original size:52 final size:52
Alignment explanation
Indices: 59663180--59663370 Score: 225
Period size: 52 Copynumber: 3.8 Consensus size: 52
59663170 ATACCGAGGT
* * * *
59663180 CATAGCCCAGCCATGGCCTTATACGG-ATCACATATCACA---CT--GATGC
1 CATAGCCCAGCTATGGTCTTATACGGAAGCACATATCACATTTCTCCGAAGC
* * * *
59663226 CATATCCCAGATATGGTCTTATACAGTAGCACATATCACATTTCTCCGAAGC
1 CATAGCCCAGCTATGGTCTTATACGGAAGCACATATCACATTTCTCCGAAGC
*
59663278 CATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAAGC
1 CATAGCCCAGCTATGGTCTTATACGGAAGCACATATCACATTTCTCCGAAGC
* *
59663330 CATAGCCCAGCTAT-GTCTTATACGGAAATCACATTTCACAT
1 CATAGCCCAGCTATGGTCTTATACGG-AAGCACATATCACAT
59663371 GCTGCCATGG
Statistics
Matches: 123, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
46 21 0.17
47 12 0.10
50 2 0.02
51 11 0.09
52 77 0.63
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (52 bp):
CATAGCCCAGCTATGGTCTTATACGGAAGCACATATCACATTTCTCCGAAGC
Found at i:59665074 original size:14 final size:14
Alignment explanation
Indices: 59665043--59665082 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
59665033 AAGTTTTATA
59665043 GATTATGGAATTAAG
1 GATTATGG-ATTAAG
*
59665058 GATTATGGATTAGG
1 GATTATGGATTAAG
*
59665072 GATTAGGGATT
1 GATTATGGATT
59665083 TTGGTTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (14 bp):
GATTATGGATTAAG
Found at i:59665429 original size:97 final size:95
Alignment explanation
Indices: 59665188--59665478 Score: 325
Period size: 97 Copynumber: 3.0 Consensus size: 95
59665178 AAATTTGATG
* * *
59665188 TCAGGTTAGAGTTTAGGGTTTAGATTAATTAGTGTATTTTAA-TTATATATTAAATAAGGTTTAA
1 TCAGGTTAGGGTTTAGGGTTTAGATTAATTAGTGT-TTTTAATTTATATATTAAATAA-ATTTTA
* *
59665252 GGGTTATAAGTTAGGGGCTAAGGGTTAGGGATTTAGGA
64 GGG------GTTAGGAGTTAAGGGTTAGGGATTTAGGA
* * * * *
59665290 TCAGGTTATGGTTTAAGGTTTATATTAATTAGTATTTTTTAATTTATATAGTAAATAAATTTTAG
1 TCAGGTTAGGGTTTAGGGTTTAGATTAATTAGT-GTTTTTAATTTATATATTAAATAAATTTTAG
* * *
59665355 GGGTTAGGAGTTACGGGTTAGGGATTTGGGG
65 GGGTTAGGAGTTAAGGGTTAGGGATTTAGGA
* *
59665386 TCAAGTTTAGGGTTTAGGGTTTAGATTAATTAGTGTTTGTTAATTTATATATTAAATAAAATTTA
1 TC-AGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTT-TTAATTTATATATTAAATAAATTTTA
*
59665451 GGGGTTAGGAGTTAGGGGTTAGGG-TTTA
64 GGGGTTAGGAGTTAAGGGTTAGGGATTTA
59665479 AGATTTAGAT
Statistics
Matches: 163, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
96 32 0.20
97 74 0.45
102 42 0.26
103 15 0.09
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.42
Consensus pattern (95 bp):
TCAGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTTTTAATTTATATATTAAATAAATTTTAGG
GGTTAGGAGTTAAGGGTTAGGGATTTAGGA
Found at i:59666179 original size:84 final size:81
Alignment explanation
Indices: 59666060--59666302 Score: 209
Period size: 84 Copynumber: 2.9 Consensus size: 81
59666050 TTATGTTTTA
* *** * * *
59666060 AAATTTGTCAAAACGGCGCCGTTTATCTGGAGGAATGAAATATTTTTGTGGCGATTTTGATAAAA
1 AAATTTGTC-AAACGGCGCCGTTTCTCTACTGGAATGAAATATTATAGTGGCGATTTTGAGAAAA
59666125 ACGCCGCAAGGATGTATT
65 ACGCCGCAA-GATGTATT
* * * * * *
59666143 ACAATTTGTCAAAGCGGCGCTGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAA
1 A-AATTTGTCAAA-CGGCGCCGTTTCTCTACTGGAATGAAATATTATAGTGGCGATTTTGAGAAA
* *
59666208 AACGTCGCAAGAGTGAATT
64 AACGCCGCAAGA-TGTATT
* * * * * *
59666227 AATGTTTGCCAATACGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTA-AGA
1 AA-ATTTGTCAA-ACGGCGCCGTTTCTCTACTGGAATGAAATATTATAGTGGCGATTTTGAGA-A
*
59666291 AAACACCGCAAG
63 AAACGCCGCAAG
59666303 TGTGAATTAA
Statistics
Matches: 131, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
83 7 0.05
84 123 0.94
85 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (81 bp):
AAATTTGTCAAACGGCGCCGTTTCTCTACTGGAATGAAATATTATAGTGGCGATTTTGAGAAAAA
CGCCGCAAGATGTATT
Found at i:59666336 original size:84 final size:84
Alignment explanation
Indices: 59666147--59666336 Score: 272
Period size: 84 Copynumber: 2.3 Consensus size: 84
59666137 TGTATTACAA
* * * *
59666147 TTTGTCAAAGCGGCGCTGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACG
1 TTTGTCAATGCGGCGCTGTTTCTCTACTCGAATAAAATCTTATAGTGGCGTTTTTTAAGAAAACA
*
59666212 TCGCAAGAGTGAATTAATG
66 CCGCAAGAGTGAATTAATG
* * * *
59666231 TTTGCCAATACGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACA
1 TTTGTCAATGCGGCGCTGTTTCTCTACTCGAATAAAATCTTATAGTGGCGTTTTTTAAGAAAACA
*
59666296 CCGCAAGTGTGAATTAATG
66 CCGCAAGAGTGAATTAATG
* *
59666315 TTTGTCAATGCGACACTGTTTC
1 TTTGTCAATGCGGCGCTGTTTC
59666337 GCTTCATGAA
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (84 bp):
TTTGTCAATGCGGCGCTGTTTCTCTACTCGAATAAAATCTTATAGTGGCGTTTTTTAAGAAAACA
CCGCAAGAGTGAATTAATG
Found at i:59667987 original size:18 final size:17
Alignment explanation
Indices: 59667959--59668008 Score: 73
Period size: 18 Copynumber: 2.9 Consensus size: 17
59667949 TATATATTAC
59667959 ATTACTTACTTAAATAT
1 ATTACTTACTTAAATAT
*
59667976 GTTACATTACTTAAATAT
1 ATTAC-TTACTTAAATAT
*
59667994 ATTACTTACTAAAAT
1 ATTACTTACTTAAAT
59668009 TTATAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTACTTACTTAAATAT
Found at i:59668002 original size:22 final size:20
Alignment explanation
Indices: 59667950--59668003 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 20
59667940 ATTTTTAAGT
59667950 ATATATTACATTACTTACTTA
1 ATATATTAC-TTACTTACTTA
*
59667971 A-ATA-T-GTTACATTACTTAA
1 ATATATTACTTAC-TTACTT-A
59667990 ATATATTACTTACT
1 ATATATTACTTACT
59668004 AAAATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
17 4 0.15
18 6 0.23
19 3 0.12
20 6 0.23
21 3 0.12
22 4 0.15
ACGTcount: A:0.39, C:0.13, G:0.02, T:0.46
Consensus pattern (20 bp):
ATATATTACTTACTTACTTA
Found at i:59668033 original size:23 final size:22
Alignment explanation
Indices: 59667977--59668036 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 22
59667967 CTTAAATATG
59667977 TTACATTACTT-AAA--TAT-A
1 TTACATTACTTAAAATTTATAA
59667995 TTAC-TTAC-TAAAATTTATAA
1 TTACATTACTTAAAATTTATAA
59668015 TTTACATTACTTAAAATTTATA
1 -TTACATTACTTAAAATTTATA
59668037 TATATATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.03
17 7 0.20
18 4 0.11
19 3 0.09
20 1 0.03
21 4 0.11
22 4 0.11
23 11 0.31
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (22 bp):
TTACATTACTTAAAATTTATAA
Found at i:59668301 original size:12 final size:12
Alignment explanation
Indices: 59668284--59668312 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
59668274 ATACTTACAT
59668284 AACTTATATATA
1 AACTTATATATA
59668296 AACTTATATATA
1 AACTTATATATA
59668308 AACTT
1 AACTT
59668313 GCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
AACTTATATATA
Found at i:59668326 original size:9 final size:9
Alignment explanation
Indices: 59668308--59668632 Score: 120
Period size: 9 Copynumber: 37.4 Consensus size: 9
59668298 CTTATATATA
*
59668308 AACTTGCAT
1 AACTTACAT
59668317 AACTTACAT
1 AACTTACAT
*
59668326 AA-TAACATAAT
1 AACTTAC---AT
59668337 AACTTACAT
1 AACTTACAT
*
59668346 AA--TACAC
1 AACTTACAT
59668353 AACTTACAT
1 AACTTACAT
*
59668362 AACTTAAAT
1 AACTTACAT
59668371 AACTTACAT
1 AACTTACAT
*
59668380 -A-GTACAT
1 AACTTACAT
**
59668387 AACTTTGAT
1 AACTTACAT
*
59668396 AACTAACAT
1 AACTTACAT
* *
59668405 TA--TACAC
1 AACTTACAT
59668412 AACTTACAT
1 AACTTACAT
**
59668421 AACACACACTT
1 AACTTACA--T
*
59668432 AA-ATACAT
1 AACTTACAT
59668440 AACTTACAT
1 AACTTACAT
*
59668449 AA--TACAC
1 AACTTACAT
59668456 AACTTA-ATT
1 AACTTACA-T
*
59668465 AATATTATACAT
1 -A-ACT-TACAT
*
59668477 AACATACAT
1 AACTTACAT
59668486 AA--TACAT
1 AACTTACAT
*
59668493 AA-TACACAT
1 AACT-TACAT
59668502 AACTTACAT
1 AACTTACAT
*
59668511 -A-GTACAT
1 AACTTACAT
*
59668518 AACTAACAT
1 AACTTACAT
* *
59668527 AA--TAAAC
1 AACTTACAT
*
59668534 AACTTACGT
1 AACTTACAT
*
59668543 AACTTAAAT
1 AACTTACAT
59668552 AACTTACAT
1 AACTTACAT
* *
59668561 AGCTTACCT
1 AACTTACAT
59668570 AA--TACAT
1 AACTTACAT
59668577 AACTTACAT
1 AACTTACAT
*
59668586 AACTTATAT
1 AACTTACAT
59668595 AA--TACAT
1 AACTTACAT
* *
59668602 AA-ATATAT
1 AACTTACAT
* *
59668610 ATCATATCAT
1 AACTTA-CAT
59668620 AACTTACAT
1 AACTTACAT
59668629 AACT
1 AACT
59668633 CATTTATAGT
Statistics
Matches: 231, Mismatches: 53, Indels: 64
0.66 0.15 0.18
Matches are distributed among these distances:
7 49 0.21
8 16 0.07
9 136 0.59
10 13 0.06
11 10 0.04
12 6 0.03
13 1 0.00
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:59668358 original size:16 final size:16
Alignment explanation
Indices: 59668337--59668540 Score: 75
Period size: 16 Copynumber: 13.4 Consensus size: 16
59668327 ATAACATAAT
59668337 AACTTACATAATACAC
1 AACTTACATAATACAC
* *
59668353 AACTTACATAACTTAAAT
1 AACTTACATAA--TACAC
* *
59668371 AACTTACATAGTACAT
1 AACTTACATAATACAC
*
59668387 AACTT---TGAT----
1 AACTTACATAATACAC
* *
59668396 AACTAACATTATACAC
1 AACTTACATAATACAC
*
59668412 AACTTACATAACACAC
1 AACTTACATAATACAC
*
59668428 -ACTT--A-AATACAT
1 AACTTACATAATACAC
59668440 AACTTACATAATACAC
1 AACTTACATAATACAC
59668456 AACTTA-AT--TA-A-
1 AACTTACATAATACAC
* * *
59668467 TATTATACATAACATACAT
1 AACT-TACAT-A-ATACAC
59668486 AA--TACATAATACAC
1 AACTTACATAATACAC
* *
59668500 ATAACTTACATAGTACAT
1 --AACTTACATAATACAC
* *
59668518 AACTAACATAATAAAC
1 AACTTACATAATACAC
59668534 AACTTAC
1 AACTTAC
59668541 GTAACTTAAA
Statistics
Matches: 138, Mismatches: 25, Indels: 50
0.65 0.12 0.23
Matches are distributed among these distances:
9 4 0.03
11 2 0.01
12 11 0.08
13 11 0.08
14 5 0.04
15 8 0.06
16 70 0.51
17 2 0.01
18 24 0.17
19 1 0.01
ACGTcount: A:0.50, C:0.20, G:0.01, T:0.29
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:59668365 original size:25 final size:24
Alignment explanation
Indices: 59668309--59668461 Score: 93
Period size: 25 Copynumber: 6.2 Consensus size: 24
59668299 TTATATATAA
*
59668309 ACTTGCATAACTTACATAATA-AC
1 ACTTACATAACTTACATAATACAC
59668332 A--TA-ATAACTTACATAATACAC
1 ACTTACATAACTTACATAATACAC
* *
59668353 AACTTACATAACTTAAATAACTTACAT
1 -ACTTACATAACTTACATAA--TACAC
* **
59668380 A-GTACATAACTTTGATAACTA-AC
1 ACTTACATAACTTACATAA-TACAC
* * *
59668403 ATTATACACAACTTACATAACACAC
1 ACT-TACATAACTTACATAATACAC
59668428 ACTTAAATACATAACTTACATAATACAC
1 AC-T---TACATAACTTACATAATACAC
59668456 AACTTA
1 -ACTTA
59668462 ATTAATATTA
Statistics
Matches: 100, Mismatches: 16, Indels: 26
0.70 0.11 0.18
Matches are distributed among these distances:
20 15 0.15
21 3 0.03
22 1 0.01
23 3 0.03
24 5 0.05
25 44 0.44
26 2 0.02
27 4 0.04
28 21 0.21
29 2 0.02
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (24 bp):
ACTTACATAACTTACATAATACAC
Found at i:59668443 original size:28 final size:29
Alignment explanation
Indices: 59668406--59668462 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
59668396 AACTAACATT
59668406 ATACACAACTTACATAACACAC-ACTTAA
1 ATACACAACTTACATAACACACAACTTAA
* *
59668434 ATACATAACTTACATAATACACAACTTAA
1 ATACACAACTTACATAACACACAACTTAA
59668463 TTAATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (29 bp):
ATACACAACTTACATAACACACAACTTAA
Found at i:59668501 original size:25 final size:25
Alignment explanation
Indices: 59668473--59668528 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
59668463 TTAATATTAT
59668473 ACATAACATACATAATACATAA-TA
1 ACATAACATACATAATACATAACTA
* *
59668497 CACATAACTTACATAGTACATAACTA
1 -ACATAACATACATAATACATAACTA
59668523 ACATAA
1 ACATAA
59668529 TAAACAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.25
Consensus pattern (25 bp):
ACATAACATACATAATACATAACTA
Found at i:59670443 original size:21 final size:21
Alignment explanation
Indices: 59670417--59670466 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
59670407 CTACAACTTA
59670417 AAGCAGAGGCGACAGCGAGGG
1 AAGCAGAGGCGACAGCGAGGG
*
59670438 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGACAGCGAGGG
59670459 AAGCAGAG
1 AAGCAGAG
59670467 CAGAGCAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.18, G:0.48, T:0.00
Consensus pattern (21 bp):
AAGCAGAGGCGACAGCGAGGG
Found at i:59670873 original size:43 final size:43
Alignment explanation
Indices: 59670819--59671044 Score: 276
Period size: 43 Copynumber: 5.3 Consensus size: 43
59670809 CATCAAGCAA
* * * *
59670819 TAGCGGTGTTTGTGAGGGAAACGACGCTAAAGAACATGACATT
1 TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGAACATGACATT
* * *
59670862 TAGCGGCGTTTGTTATAGAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGAACATGACATT
* * * *
59670905 TAGCGGCGTTTGTTATAGAAGCGCCGCTACAGAACATGACCTT
1 TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGAACATGACATT
* *
59670948 TAGCGGCGTTTGTGACAGAGGCGCCGCTAAAGAACATGACCA-T
1 TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGAACATGA-CATT
* * *
59670991 TAGCGGCGTTTGTGGGAAAATCGCCGCTAAAGAACATGATC-TT
1 TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGAACATGA-CATT
59671034 TAGCGGCGTTT
1 TAGCGGCGTTT
59671045 ATAAAAATAA
Statistics
Matches: 162, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
43 161 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGAACATGACATT
Found at i:59674115 original size:21 final size:22
Alignment explanation
Indices: 59674086--59674132 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
59674076 CAGAAGGAGT
*
59674086 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
59674108 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
59674129 GAGT
1 GAGT
59674133 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:59677155 original size:31 final size:30
Alignment explanation
Indices: 59677120--59677196 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 30
59677110 TATTTTATTC
*
59677120 TATAATATTTCATAAAATAAACTTTTTAAAA
1 TATAATATTTCATAAAATAAA-TTATTAAAA
* * * **
59677151 TATAACATTTAATAAATTAAATTATTATCA
1 TATAATATTTCATAAAATAAATTATTAAAA
59677181 TAT-ATATTTCAATAAA
1 TATAATATTTC-ATAAA
59677197 TATTTAATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 5 0.14
30 14 0.38
31 18 0.49
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (30 bp):
TATAATATTTCATAAAATAAATTATTAAAA
Found at i:59683753 original size:9 final size:9
Alignment explanation
Indices: 59683741--59683770 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
59683731 GGTAGAATCG
59683741 AATATTTTT
1 AATATTTTT
59683750 AATATTTTT
1 AATATTTTT
*
59683759 AATTTTTTT
1 AATATTTTT
59683768 AAT
1 AAT
59683771 TGAACTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
AATATTTTT
Found at i:59701250 original size:12 final size:12
Alignment explanation
Indices: 59701235--59701300 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 12
59701225 TCATCGTCGT
*
59701235 CTTCTTCTTCAA
1 CTTCCTCTTCAA
*
59701247 CTTCCTCTTCTA
1 CTTCCTCTTCAA
** **
59701259 CTTCAACTTCTT
1 CTTCCTCTTCAA
* *
59701271 CTTCCACTTCTA
1 CTTCCTCTTCAA
*
59701283 CTTCCTCTTCCA
1 CTTCCTCTTCAA
59701295 CTTCCT
1 CTTCCT
59701301 GTAGTTGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.12, C:0.41, G:0.00, T:0.47
Consensus pattern (12 bp):
CTTCCTCTTCAA
Found at i:59701257 original size:18 final size:18
Alignment explanation
Indices: 59701234--59701298 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
59701224 GTCATCGTCG
*
59701234 TCTTCTTCTTCAACTTCC
1 TCTTCTACTTCAACTTCC
*
59701252 TCTTCTACTTCAACTTCT
1 TCTTCTACTTCAACTTCC
* *
59701270 TCTTCCACTTCTACTTCC
1 TCTTCTACTTCAACTTCC
*
59701288 TCTTCCACTTC
1 TCTTCTACTTC
59701299 CTGTAGTTGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.12, C:0.40, G:0.00, T:0.48
Consensus pattern (18 bp):
TCTTCTACTTCAACTTCC
Found at i:59702009 original size:9 final size:9
Alignment explanation
Indices: 59701983--59702052 Score: 54
Period size: 9 Copynumber: 7.6 Consensus size: 9
59701973 AAATTTTTTT
*
59701983 TAAAAAATA
1 TAAAAATTA
*
59701992 T-AAATTTA
1 TAAAAATTA
59702000 TAAAAATTA
1 TAAAAATTA
59702009 TTATAAAATTA
1 -TA-AAAATTA
*
59702020 TAAAAAGTA
1 TAAAAATTA
*
59702029 TAAAAAATAA
1 T-AAAAATTA
59702039 TAAAACATT-
1 TAAAA-ATTA
59702048 TAAAA
1 TAAAA
59702053 TTTTATAAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 6 0.12
9 23 0.47
10 13 0.27
11 7 0.14
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:59702035 original size:19 final size:20
Alignment explanation
Indices: 59701997--59702043 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
59701987 AAATATAAAT
* *
59701997 TTATAAAAATTATTATAAAA
1 TTATAAAAAGTATTAAAAAA
59702017 TTATAAAAAGTA-TAAAAAA
1 TTATAAAAAGTATTAAAAAA
*
59702036 TAATAAAA
1 TTATAAAA
59702044 CATTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
TTATAAAAAGTATTAAAAAA
Found at i:59702092 original size:20 final size:21
Alignment explanation
Indices: 59702047--59702093 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
59702037 AATAAAACAT
* * *
59702047 TTAAAATTTTATAAACACTCA
1 TTAAAATTCTATAAACAATAA
59702068 TTAAAATTCTATAAA-AATAA
1 TTAAAATTCTATAAACAATAA
59702088 TTAAAA
1 TTAAAA
59702094 ACCATAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (21 bp):
TTAAAATTCTATAAACAATAA
Found at i:59702603 original size:9 final size:9
Alignment explanation
Indices: 59702591--59702745 Score: 64
Period size: 9 Copynumber: 16.6 Consensus size: 9
59702581 TTTAAATATT
59702591 TTTTTATAA
1 TTTTTATAA
*
59702600 TTTTCTACAA
1 TTTT-TATAA
*
59702610 TTTTTATGAT
1 TTTTTAT-AA
*
59702620 TTTTTAAGAA
1 TTTTT-ATAA
* *
59702630 TTGTAATACA
1 TTTTTATA-A
59702640 TTTTT-TAA
1 TTTTTATAA
* *
59702648 TTTTAATTA
1 TTTTTATAA
**
59702657 TTTAAAATAA
1 TTT-TTATAA
*
59702667 GTTTTATTAA
1 TTTTTA-TAA
*
59702677 -TTGTATGATA
1 TTTTTAT-A-A
59702687 TTTTTATAA
1 TTTTTATAA
*
59702696 TTTATTAGAA
1 TTT-TTATAA
*
59702706 TTATTAT-A
1 TTTTTATAA
59702714 TTTTTATAA
1 TTTTTATAA
*
59702723 TATTTATAA
1 TTTTTATAA
**
59702732 GCTTTATAA
1 TTTTTATAA
59702741 TTTTT
1 TTTTT
59702746 TTGAAAATTT
Statistics
Matches: 106, Mismatches: 28, Indels: 24
0.67 0.18 0.15
Matches are distributed among these distances:
8 13 0.12
9 47 0.44
10 40 0.38
11 6 0.06
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:59702738 original size:29 final size:27
Alignment explanation
Indices: 59702684--59702747 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
59702674 TAATTGTATG
* *
59702684 ATATTTTTATAATTTATTAGAATTATT
1 ATATTTTTATAATTTATAAGAATTATA
**
59702711 ATATTTTTATAATATTTATAAGCTTTATA
1 ATATTTTTAT-A-ATTTATAAGAATTATA
*
59702740 ATTTTTTT
1 ATATTTTT
59702748 GAAAATTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 10 0.33
28 1 0.03
29 19 0.63
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (27 bp):
ATATTTTTATAATTTATAAGAATTATA
Found at i:59705876 original size:30 final size:29
Alignment explanation
Indices: 59705831--59705896 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
59705821 GCCATTGATG
* *
59705831 AAAATATAAAAAAAATTTAAAATTATTTTA
1 AAAAAATAAAAAAAA-TTAAAATTAATTTA
* *
59705861 AAAAAATATAAAAAATTGAAATTAATTTA
1 AAAAAATAAAAAAAATTAAAATTAATTTA
59705890 AAAAAAT
1 AAAAAAT
59705897 GAAATTTAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (29 bp):
AAAAAATAAAAAAAATTAAAATTAATTTA
Found at i:59705988 original size:22 final size:22
Alignment explanation
Indices: 59705963--59706009 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
59705953 TGAGAGTTTA
* *
59705963 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTAGAAGAAAATTG
*
59705985 AGAGGATTTTAGAAGAAAATTG
1 AGAGAATTTTAGAAGAAAATTG
59706007 AGA
1 AGA
59706010 TAGGATTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.26
Consensus pattern (22 bp):
AGAGAATTTTAGAAGAAAATTG
Found at i:59716797 original size:11 final size:11
Alignment explanation
Indices: 59716771--59716803 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
59716761 GGTTTGATTC
59716771 AAAAAAATTG-
1 AAAAAAATTGA
*
59716781 ATAAAAATTGA
1 AAAAAAATTGA
59716792 AAAAAAATTGA
1 AAAAAAATTGA
59716803 A
1 A
59716804 TTTCGAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (11 bp):
AAAAAAATTGA
Found at i:59717034 original size:45 final size:45
Alignment explanation
Indices: 59716983--59717071 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
59716973 CAAAAATTAC
* *
59716983 AAAAAAAA-TTCAAAATATTTATAAA-AAAATTAAAATTTATATTTT
1 AAAAAAAACTT-AAAAAATATATAAAGAAAATTAAAATTT-TATTTT
*
59717028 AAAAAAAACTTAAAAAATATATAAAGAAAGTTAAAATTTTATTT
1 AAAAAAAACTTAAAAAATATATAAAGAAAATTAAAATTTTATTT
59717072 GTTTTTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
45 25 0.64
46 14 0.36
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (45 bp):
AAAAAAAACTTAAAAAATATATAAAGAAAATTAAAATTTTATTTT
Found at i:59717048 original size:25 final size:25
Alignment explanation
Indices: 59717000--59717049 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
59716990 ATTCAAAATA
**
59717000 TTTATAAAAAAATTAAAATTTATAT
1 TTTATAAAAAAATTAAAAAATATAT
59717025 TTTA-AAAAAAACTTAAAAAATATAT
1 TTTATAAAAAAA-TTAAAAAATATAT
59717050 AAAGAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
TTTATAAAAAAATTAAAAAATATAT
Found at i:59722089 original size:20 final size:20
Alignment explanation
Indices: 59722066--59722103 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59722056 GATAAAATCA
*
59722066 AGTTAAAATAGTTTCAATTG
1 AGTTAAAACAGTTTCAATTG
*
59722086 AGTTAAAACATTTTCAAT
1 AGTTAAAACAGTTTCAAT
59722104 CATGTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AGTTAAAACAGTTTCAATTG
Found at i:59724810 original size:49 final size:50
Alignment explanation
Indices: 59724719--59724853 Score: 150
Period size: 49 Copynumber: 2.7 Consensus size: 50
59724709 ATGAAACATT
** * *
59724719 AACCCGTGACCACATAACCACTACCAA-CTAAGG-GCCTAAGTTATAGTTG
1 AACCCGTGACCACATAACCACTGTCAATC-GAGGCCCCTAAGTTATAGTTG
59724768 AACCCGTGACCACATAACCACTGTCAATCGAGGCCCCT-AGTTATAGTTG
1 AACCCGTGACCACATAACCACTGTCAATCGAGGCCCCTAAGTTATAGTTG
* * * * *
59724817 AACTCGTGACCGCATAACCGCCGTCAATTGAGAGCCC
1 AACCCGTGACCACATAACCACTGTCAATCGAG-GCCC
59724854 GAGTTGCAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
49 66 0.89
50 8 0.11
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (50 bp):
AACCCGTGACCACATAACCACTGTCAATCGAGGCCCCTAAGTTATAGTTG
Found at i:59730025 original size:49 final size:49
Alignment explanation
Indices: 59729943--59730044 Score: 123
Period size: 49 Copynumber: 2.1 Consensus size: 49
59729933 GCATGAAACA
* * * * *
59729943 TGAACCCGTGACCACATAACCATTGCCAGTTGGGGGCCCGAGTTATAGT
1 TGAACCCGTGAACACATAACCACTACCAATTGGGGCCCCGAGTTATAGT
* * * *
59729992 TGAACCCGTGAACGCATAACCACTATCAATTGGGTCCCCTAGTTATAGT
1 TGAACCCGTGAACACATAACCACTACCAATTGGGGCCCCGAGTTATAGT
59730041 TGAA
1 TGAA
59730045 TCTATGGCTG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (49 bp):
TGAACCCGTGAACACATAACCACTACCAATTGGGGCCCCGAGTTATAGT
Found at i:59744340 original size:23 final size:23
Alignment explanation
Indices: 59744305--59744348 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
59744295 TTCTTCTTAA
*
59744305 AAAAATTATATATATCAAATAAG
1 AAAAATTACATATATCAAATAAG
* *
59744328 AAAATTTACATATATTAAATA
1 AAAAATTACATATATCAAATA
59744349 TTTGAAATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAAATTACATATATCAAATAAG
Found at i:59747091 original size:3 final size:3
Alignment explanation
Indices: 59747073--59747141 Score: 106
Period size: 3 Copynumber: 23.0 Consensus size: 3
59747063 GATCATTGTC
59747073 TAA TAA T-A TACA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
59747118 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
59747142 CAAAGCAGCG
Statistics
Matches: 62, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
2 3 0.05
3 55 0.89
4 4 0.06
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:59747598 original size:21 final size:20
Alignment explanation
Indices: 59747573--59747616 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
59747563 ACCAATTTAC
59747573 ATTAAAAATTAAATTATAGAA
1 ATTAAAAATTAAATT-TAGAA
**
59747594 ATTAAATCTTAAATTTAGAA
1 ATTAAAAATTAAATTTAGAA
59747614 ATT
1 ATT
59747617 TTAAAGGGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (20 bp):
ATTAAAAATTAAATTTAGAA
Found at i:59752107 original size:5 final size:5
Alignment explanation
Indices: 59752099--59752170 Score: 53
Period size: 5 Copynumber: 14.6 Consensus size: 5
59752089 GTTTAAAATA
* *
59752099 TATAT TATAT TATAT T-TACT TA-AT TA-AT AAGTAT GT-TAT TTTAT
1 TATAT TATAT TATAT TATA-T TATAT TATAT TA-TAT -TATAT TATAT
* *
59752143 TATAT AATAT AATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
59752171 TATATATATA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
4 9 0.16
5 45 0.80
6 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:59752160 original size:15 final size:14
Alignment explanation
Indices: 59752140--59752181 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
59752130 TATGTTATTT
59752140 TATTATATAATATAA
1 TATTATAT-ATATAA
*
59752155 TATTATAT-TATAT
1 TATTATATATATAA
59752168 TATTATATATATAA
1 TATTATATATATAA
59752182 AACAAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.50
14 4 0.17
15 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTATATATATAA
Found at i:59753281 original size:25 final size:25
Alignment explanation
Indices: 59753253--59753345 Score: 145
Period size: 25 Copynumber: 3.7 Consensus size: 25
59753243 CTTTAGCGCA
59753253 CTCTCTGATTATTAGCACGTTGGTG
1 CTCTCTGATTATTAGCACGTTGGTG
59753278 CTCTCTGATTATTAGCACGTTGGTG
1 CTCTCTGATTATTAGCACGTTGGTG
*
59753303 CTTTCTGA-TATTTAGCACGTTGGTG
1 CTCTCTGATTA-TTAGCACGTTGGTG
59753328 CTCTCTGATGT-TTAGCAC
1 CTCTCTGAT-TATTAGCAC
59753346 ACCTGGCTCT
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
24 2 0.03
25 60 0.95
27 1 0.02
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (25 bp):
CTCTCTGATTATTAGCACGTTGGTG
Found at i:59758411 original size:29 final size:30
Alignment explanation
Indices: 59758355--59758434 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 30
59758345 ATACCAAAAT
* * *
59758355 TATACATGACATATGATTTAATTTGCAATTG
1 TATACATGAAATTTGATTT-ATGTGCAATTG
*
59758386 TATACATGAAATTTGATTT-TGTGCAATTT
1 TATACATGAAATTTGATTTATGTGCAATTG
59758415 TATACATGAAATTTTGATTT
1 TATACATGAAA-TTTGATTT
59758435 GATCCAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 19 0.43
30 8 0.18
31 17 0.39
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (30 bp):
TATACATGAAATTTGATTTATGTGCAATTG
Found at i:59758443 original size:30 final size:29
Alignment explanation
Indices: 59758380--59758443 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
59758370 ATTTAATTTG
*
59758380 CAATTGTATACATGAAATTTGATTTTGTG
1 CAATTGTATACATGAAATTTGATTTTGTC
*
59758409 CAATTTTATACATGAAATTTTGA-TTTGATC
1 CAATTGTATACATGAAA-TTTGATTTTG-TC
59758439 CAATT
1 CAATT
59758444 CTTGTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (29 bp):
CAATTGTATACATGAAATTTGATTTTGTC
Found at i:59758659 original size:29 final size:30
Alignment explanation
Indices: 59758622--59758688 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
59758612 TTAGAGTTTT
* *
59758622 ATGTGTATAATTG-CATCAAATTAAAGTTC
1 ATGTATATAATTGACATCAAATCAAAGTTC
*
59758651 ATGTATATAATTGCACATTAAATCAAAGTTC
1 ATGTATATAATTG-ACATCAAATCAAAGTTC
59758682 ATGTATA
1 ATGTATA
59758689 ATTTTGAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 12 0.36
31 21 0.64
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (30 bp):
ATGTATATAATTGACATCAAATCAAAGTTC
Found at i:59768419 original size:29 final size:30
Alignment explanation
Indices: 59768370--59768444 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
59768360 ATTATTAAAT
**
59768370 TTAATTTAATACTT-ATTTGATAATATT-TA
1 TTAATTTAATA-TTAAAGTGATAATATTATA
*
59768399 TTAATTTAATATTAAAGTGATTATATTAATA
1 TTAATTTAATATTAAAGTGATAATATT-ATA
59768430 TTAAATTTAAT-TTAA
1 TT-AATTTAATATTAA
59768445 TAATTATCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
28 2 0.05
29 21 0.54
31 8 0.21
32 8 0.21
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (30 bp):
TTAATTTAATATTAAAGTGATAATATTATA
Found at i:59768500 original size:12 final size:12
Alignment explanation
Indices: 59768483--59768528 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
59768473 AATTTAATAG
59768483 ATTTAATATTAA
1 ATTTAATATTAA
59768495 ATTTAATATAATAA
1 ATTTAATAT--TAA
59768509 ATATT-ATATT-A
1 AT-TTAATATTAA
59768520 ATTTAATAT
1 ATTTAATAT
59768529 CTTTTCGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
10 2 0.07
11 7 0.23
12 10 0.33
14 9 0.30
15 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:59768501 original size:26 final size:25
Alignment explanation
Indices: 59768471--59768528 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
59768461 AAATAATCTA
* *
59768471 TTAATTTAATAGAT-TTAATATTAAAT
1 TTAATATAATAAATATT-ATATT-AAT
59768497 TTAATATAATAAATATTATATTAAT
1 TTAATATAATAAATATTATATTAAT
59768522 TTAATAT
1 TTAATAT
59768529 CTTTTCGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 10 0.34
26 17 0.59
27 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TTAATATAATAAATATTATATTAAT
Found at i:59768526 original size:20 final size:21
Alignment explanation
Indices: 59768469--59768527 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
59768459 ATAAATAATC
* * *
59768469 TATT-AATTTAATAGATTTAA
1 TATTAAATTTAATATAATAAA
59768489 TATTAAATTTAATATAATAAA
1 TATTAAATTTAATATAATAAA
* *
59768510 TATTATA-TTAATTTAATA
1 TATTAAATTTAATATAATA
59768528 TCTTTTCGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTAAATTTAATATAATAAA
Found at i:59769417 original size:38 final size:38
Alignment explanation
Indices: 59769374--59769450 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
59769364 CAAAAGTTTA
59769374 ACTTTCTCGTGCTAAAAGAAAGTTGAAAAACAATTGGG
1 ACTTTCTCGTGCTAAAAGAAAGTTGAAAAACAATTGGG
59769412 ACTTTCTCGTGCTAAAAGAAAGTTGAAAAACAATTGGG
1 ACTTTCTCGTGCTAAAAGAAAGTTGAAAAACAATTGGG
59769450 A
1 A
59769451 AAATAAGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (38 bp):
ACTTTCTCGTGCTAAAAGAAAGTTGAAAAACAATTGGG
Found at i:59770257 original size:39 final size:39
Alignment explanation
Indices: 59770214--59770372 Score: 300
Period size: 39 Copynumber: 4.1 Consensus size: 39
59770204 CGCCGGAGCA
*
59770214 GGCGACTGTGTACCGGGTGAAGGGGCTGGGGGTGGCGCG
1 GGCGACTGTGTACCGGGTGAAGGGGCTGGGGCTGGCGCG
*
59770253 GGCGACTGTGTACCGGGTGAAGGGGCTGGGGGTGGCGCG
1 GGCGACTGTGTACCGGGTGAAGGGGCTGGGGCTGGCGCG
59770292 GGCGACTGTGTACCGGGTGAAGGGGCTGGGGCTGGCGCG
1 GGCGACTGTGTACCGGGTGAAGGGGCTGGGGCTGGCGCG
59770331 GGCGACTGTGTACCGGGTGAAGGGGCTGGGGCTGGCGCG
1 GGCGACTGTGTACCGGGTGAAGGGGCTGGGGCTGGCGCG
59770370 GGC
1 GGC
59770373 TGGGGCAAAA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 119 1.00
ACGTcount: A:0.10, C:0.19, G:0.55, T:0.15
Consensus pattern (39 bp):
GGCGACTGTGTACCGGGTGAAGGGGCTGGGGCTGGCGCG
Found at i:59776961 original size:23 final size:23
Alignment explanation
Indices: 59776935--59776978 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
59776925 GCATTTCAAA
*
59776935 TATTTAATATATGTAAATTTTCT
1 TATTTAATATATATAAATTTTCT
* *
59776958 TATTTGATATATATAATTTTT
1 TATTTAATATATATAAATTTT
59776979 TTTAAGAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (23 bp):
TATTTAATATATATAAATTTTCT
Found at i:59777693 original size:22 final size:20
Alignment explanation
Indices: 59777667--59777728 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 20
59777657 TAGATTAGAA
*
59777667 TTTTGTATGAATATTTTAACTT
1 TTTTGTATGAATATTATAA--T
59777689 TTTTGTATGAATATTATAAT
1 TTTTGTATGAATATTATAAT
*
59777709 TTTT-TATGAATATTGTAAT
1 TTTTGTATGAATATTATAAT
59777728 T
1 T
59777729 ATTTTATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 15 0.39
20 5 0.13
22 18 0.47
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (20 bp):
TTTTGTATGAATATTATAAT
Found at i:59777716 original size:19 final size:19
Alignment explanation
Indices: 59777660--59777735 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 19
59777650 TATAGTTTAG
* *
59777660 ATTAGAATTTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
59777679 ATTTTAACTTTTTTGTATGAAT
1 ATTATAA--TTTTT-TATGAAT
59777701 ATTATAATTTTTTATGAAT
1 ATTATAATTTTTTATGAAT
*
59777720 ATTGTAATTATTTTAT
1 ATTATAATT-TTTTAT
59777736 AATTAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
19 20 0.42
20 11 0.23
21 4 0.08
22 13 0.27
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.57
Consensus pattern (19 bp):
ATTATAATTTTTTATGAAT
Found at i:59777826 original size:49 final size:49
Alignment explanation
Indices: 59777762--59778067 Score: 379
Period size: 49 Copynumber: 6.3 Consensus size: 49
59777752 ATAGTTTTGG
*
59777762 ATTAGTAA-TTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAAT
1 ATTA-TAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
* *
59777811 ATTATAATTTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
** * *
59777860 ATTGCAAATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
* * * *
59777909 ATTATATTTTTTTTGTATAAATATTGTAATATTATAATTTTATATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
**
59777958 ATTGCAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
* ** *
59778007 ATTATAA--TGTGGGGAT--ATATTGTAATATTGTAATTTTTTGTATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAA--TTTTGTATGAAT
* *
59778054 ATTGTAATTATTTT
1 ATTATAATTTTTTT
59778068 ATAATTAATT
Statistics
Matches: 218, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
45 17 0.08
47 23 0.11
48 3 0.01
49 175 0.80
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (49 bp):
ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
Found at i:59777887 original size:98 final size:98
Alignment explanation
Indices: 59777768--59778014 Score: 440
Period size: 98 Copynumber: 2.5 Consensus size: 98
59777758 TTGGATTAGT
*
59777768 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
1 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTGTATAAAT
* *
59777833 ATTGTAATATTATAGTTTTGTATGAATATTGCA
66 ATTGTAATATTATAATTTTATATGAATATTGCA
*
59777866 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATATTTTTTTTGTATAAAT
1 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTGTATAAAT
59777931 ATTGTAATATTATAATTTTATATGAATATTGCA
66 ATTGTAATATTATAATTTTATATGAATATTGCA
* *
59777964 ATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTATAAT
1 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAAT
59778015 GTGGGGATAT
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 142 1.00
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.55
Consensus pattern (98 bp):
AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTGTATAAAT
ATTGTAATATTATAATTTTATATGAATATTGCA
Found at i:59778009 original size:19 final size:19
Alignment explanation
Indices: 59777936--59777993 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 19
59777926 TAAATATTGT
* *
59777936 AATATTATAATTTTATATG
1 AATATTGTAATTTTGTATG
*
59777955 AATATTGCAATTTTTTTGTATG
1 AATATTGTAA---TTTTGTATG
*
59777977 AATATTGTAATATTGTA
1 AATATTGTAATTTTGTA
59777994 ATTTTGTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 14 0.45
22 17 0.55
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
AATATTGTAATTTTGTATG
Found at i:59778126 original size:60 final size:60
Alignment explanation
Indices: 59778055--59778176 Score: 154
Period size: 60 Copynumber: 2.0 Consensus size: 60
59778045 TGTATGAATA
* * * * * * * *
59778055 TTGTAATTATTTTATAATTAATTTGTTAGCATTTTGGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTAAAAATTAATTTATTAGCAATTTAGGATTAAGCTATAAATTGTTGTGT
* *
59778115 TTGTAATTATTTAAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTAAAAATTAATTTATTAGCAATTTAGGATTAAGCTATAAATTGTTGTGT
59778175 TT
1 TT
59778177 AGTTTAGTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (60 bp):
TTGTAATTATTTAAAAATTAATTTATTAGCAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:59778264 original size:38 final size:39
Alignment explanation
Indices: 59778210--59778292 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 39
59778200 CATATAAAGT
59778210 TTATAAAAAAACTTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAACTTAAAAATCATTTCATTAAAAGTTTAA
*
59778249 TTATAAAAAAA-TTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAACTTAAAAATCATTTCATTAAAAGTTTAA
59778287 TTATAA
1 TTATAA
59778293 TTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 32 0.74
39 11 0.26
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (39 bp):
TTATAAAAAAACTTAAAAATCATTTCATTAAAAGTTTAA
Found at i:59778370 original size:15 final size:15
Alignment explanation
Indices: 59778329--59778370 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
59778319 GTTAACTCAT
*
59778329 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
59778344 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
59778360 TTAAATTTTAT
1 TTAAATTTTAT
59778371 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:59782840 original size:22 final size:21
Alignment explanation
Indices: 59782801--59782845 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
59782791 TACCTAATTT
*
59782801 TTTTCTTCTTTTCATTCCTTC
1 TTTTCTTCTCTTCATTCCTTC
*
59782822 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCATTCCTTC
59782844 TT
1 TT
59782846 CTTTCTTCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCATTCCTTC
Found at i:59782853 original size:18 final size:17
Alignment explanation
Indices: 59782803--59782854 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 17
59782793 CCTAATTTTT
59782803 TTCTTCTTTTCATTCCTTC
1 TTCTTC-TTTC-TTCCTTC
59782822 TT-TTCTTCTGCTTCCTTCC
1 TTCTTCTT-T-CTTCCTT-C
59782841 TTCTTCTTTCTTCC
1 TTCTTCTTTCTTCC
59782855 GTTTCTGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 2 0.07
18 15 0.52
19 7 0.24
20 5 0.17
ACGTcount: A:0.02, C:0.35, G:0.02, T:0.62
Consensus pattern (17 bp):
TTCTTCTTTCTTCCTTC
Found at i:59783028 original size:26 final size:26
Alignment explanation
Indices: 59782999--59783050 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
59782989 ACTAACCCGG
*
59782999 AAAAGTATAAAATTA-TATTTTATTCA
1 AAAAATAT-AAATTATTATTTTATTCA
*
59783025 AAAAATATATATTATTATTTTATTCA
1 AAAAATATAAATTATTATTTTATTCA
59783051 TTGGCGCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (26 bp):
AAAAATATAAATTATTATTTTATTCA
Found at i:59792151 original size:39 final size:39
Alignment explanation
Indices: 59792097--59792173 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
59792087 AGAGCTGGAT
*
59792097 GAATTTGAACCAGACAAACTTGACCCAGCCTGTTCACAA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
*
59792136 GAATTTGAACCAGACAAATTTGACCCAGCCTGGTCACA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACA
59792174 TGACACCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (39 bp):
GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
Found at i:59795569 original size:50 final size:50
Alignment explanation
Indices: 59795513--59795666 Score: 274
Period size: 50 Copynumber: 3.1 Consensus size: 50
59795503 GAGGGGTTTA
* *
59795513 TTTTCTTTCTACCGGAAGGACATGAGGTAGGCT-AGGGATTGTTGTGGGGT
1 TTTTCTTTCTACTGGAAGGATATGAGGTAGGCTGA-GGATTGTTGTGGGGT
59795563 TTTTCTTTCTACTGGAAGGATATGAGGTAGGCTGAGGATTGTTGTGGGGT
1 TTTTCTTTCTACTGGAAGGATATGAGGTAGGCTGAGGATTGTTGTGGGGT
59795613 TTTTCTTTCTACTGGAAGGATATGAGGTAGGCTGAGGATTGTTGTGGGGT
1 TTTTCTTTCTACTGGAAGGATATGAGGTAGGCTGAGGATTGTTGTGGGGT
59795663 TTTT
1 TTTT
59795667 TTGGCTAAGA
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 100 0.99
51 1 0.01
ACGTcount: A:0.18, C:0.09, G:0.35, T:0.38
Consensus pattern (50 bp):
TTTTCTTTCTACTGGAAGGATATGAGGTAGGCTGAGGATTGTTGTGGGGT
Found at i:59810130 original size:2 final size:2
Alignment explanation
Indices: 59810123--59810153 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59810113 TTTTCCTTGC
59810123 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59810154 TTAGGTTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59823603 original size:2 final size:2
Alignment explanation
Indices: 59823596--59823620 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59823586 ACTATGGTAA
59823596 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
59823621 ACACACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:59826323 original size:27 final size:27
Alignment explanation
Indices: 59826285--59826341 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
59826275 TGACCCCAGC
59826285 AATTAAAGAGCAATATAATAAATAAAT
1 AATTAAAGAGCAATATAATAAATAAAT
* *
59826312 AATTAAAGAGCAATATAATAAGTACAT
1 AATTAAAGAGCAATATAATAAATAAAT
59826339 AAT
1 AAT
59826342 ATCCCATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (27 bp):
AATTAAAGAGCAATATAATAAATAAAT
Found at i:59828220 original size:78 final size:78
Alignment explanation
Indices: 59828090--59828246 Score: 278
Period size: 78 Copynumber: 2.0 Consensus size: 78
59828080 GTGTCCAGTC
* *
59828090 CGTGGATGAACTTGGATATTGGTAAATTGTTGTCATCTCATTCAGTTTGTAGAGGTTAATACCTT
1 CGTGGATGAACTTGGATATTGGTAAATTGTTGTCACCTCATTCAGTTCGTAGAGGTTAATACCTT
*
59828155 TTTTATAAGAAAA
66 TTCTATAAGAAAA
*
59828168 CGTGGATGAACTTGGATATTGGTAATTTGTTGTCACCTCATTCAGTTCGTAGAGGTTAATACCTT
1 CGTGGATGAACTTGGATATTGGTAAATTGTTGTCACCTCATTCAGTTCGTAGAGGTTAATACCTT
59828233 TTCTATAAGAAAA
66 TTCTATAAGAAAA
59828246 C
1 C
59828247 TTTCAAATTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (78 bp):
CGTGGATGAACTTGGATATTGGTAAATTGTTGTCACCTCATTCAGTTCGTAGAGGTTAATACCTT
TTCTATAAGAAAA
Found at i:59830707 original size:6 final size:6
Alignment explanation
Indices: 59830696--59830739 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
59830686 AAGTGGGGTA
59830696 CCTTAG CCTTAG CCTTAG CCTTAG CCTTAG CCTTAG CCTTAG CC
1 CCTTAG CCTTAG CCTTAG CCTTAG CCTTAG CCTTAG CCTTAG CC
59830740 CTCAGCTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.32
Consensus pattern (6 bp):
CCTTAG
Found at i:59832970 original size:17 final size:17
Alignment explanation
Indices: 59832932--59832988 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
59832922 CTCCTCGGTA
**
59832932 TTTTTAAGATTTTAAGG
1 TTTTTAAGGGTTTAAGG
*
59832949 GTTTTAAGGGTTTAAGG
1 TTTTTAAGGGTTTAAGG
*
59832966 TTTTTTAA-GGTTTAGGG
1 -TTTTTAAGGGTTTAAGG
59832983 TTTTTA
1 TTTTTA
59832989 GCCGTTTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 6 0.18
17 22 0.65
18 6 0.18
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (17 bp):
TTTTTAAGGGTTTAAGG
Found at i:59837640 original size:25 final size:25
Alignment explanation
Indices: 59837603--59837699 Score: 79
Period size: 25 Copynumber: 3.9 Consensus size: 25
59837593 ACACACCACA
*
59837603 GCTCTC-TTGAGCTTCCCAATACTTG
1 GCTCTCATT-AGCTTCCCAATATTTG
* **
59837628 GCTCTCATTAGCTTTCTGATATTTG
1 GCTCTCATTAGCTTCCCAATATTTG
* * *
59837653 GCTCACATAAGCTTCACAATATTTG
1 GCTCTCATTAGCTTCCCAATATTTG
* ** *
59837678 GCTCGCAAAAGCTTCCCGATAT
1 GCTCTCATTAGCTTCCCAATAT
59837700 ACAACTCACA
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
25 55 0.96
26 2 0.04
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (25 bp):
GCTCTCATTAGCTTCCCAATATTTG
Found at i:59839843 original size:33 final size:33
Alignment explanation
Indices: 59839804--59839878 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
59839794 CTAAACATTA
59839804 ACAACAAAATAGTAACAATATAA-AAGCAAAATG
1 ACAACAAAATAGTAACAATATAATAA-CAAAATG
* * *
59839837 ATAACAAAATAGTAGCAATATAATAACGAAATG
1 ACAACAAAATAGTAACAATATAATAACAAAATG
59839870 ACAACAAAA
1 ACAACAAAA
59839879 CAACTTATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 35 0.95
34 2 0.05
ACGTcount: A:0.63, C:0.12, G:0.09, T:0.16
Consensus pattern (33 bp):
ACAACAAAATAGTAACAATATAATAACAAAATG
Found at i:59842195 original size:30 final size:31
Alignment explanation
Indices: 59842159--59842227 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
59842149 TGATTTCAAT
*
59842159 TCAGTCACTCAAC-TT-TCGAAAAATAATAAA
1 TCAGTCACT-AACGTTATCGAAAAATAACAAA
* *
59842189 TCAGTCACTAACGTTATCGAAAAGTGACAAA
1 TCAGTCACTAACGTTATCGAAAAATAACAAA
59842220 TCAGTCAC
1 TCAGTCAC
59842228 CTATTAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.32
31 20 0.59
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.25
Consensus pattern (31 bp):
TCAGTCACTAACGTTATCGAAAAATAACAAA
Found at i:59843973 original size:5 final size:5
Alignment explanation
Indices: 59843965--59843994 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
59843955 CCCATTTTGT
59843965 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
59843995 CTAGCAGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:59849789 original size:16 final size:17
Alignment explanation
Indices: 59849743--59849790 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
59849733 TAAATACATA
59849743 AAAATTCATAAAAAATAT
1 AAAATT-ATAAAAAATAT
*
59849761 AAAATTTAGAAAAAATAT
1 AAAA-TTATAAAAAATAT
59849779 -AAATTATAAAAA
1 AAAATTATAAAAA
59849791 TTAAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 8 0.30
17 3 0.11
18 14 0.52
19 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAATTATAAAAAATAT
Found at i:59849800 original size:23 final size:23
Alignment explanation
Indices: 59849770--59849813 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
59849760 TAAAATTTAG
*
59849770 AAAAAATATAAA-TTATAAAAATT
1 AAAAAATA-AAACTTACAAAAATT
59849793 AAAAAATAAAACTTACAAAAA
1 AAAAAATAAAACTTACAAAAA
59849814 AATATGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAAAATAAAACTTACAAAAATT
Found at i:59850079 original size:27 final size:28
Alignment explanation
Indices: 59850022--59850081 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
59850012 TTTTTAATTT
* * * **
59850022 TTATAACATTTTCAATTTTTATATATTA
1 TTATAACATTTTAAAATTTTATAAAAAA
59850050 TTATAA-ATTTTAAAATTTTATAAAAAA
1 TTATAACATTTTAAAATTTTATAAAAAA
59850077 TTATA
1 TTATA
59850082 TTTAACATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (28 bp):
TTATAACATTTTAAAATTTTATAAAAAA
Found at i:59851428 original size:60 final size:60
Alignment explanation
Indices: 59851355--59851473 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
59851345 ATACTAAACT
* *
59851355 AAACACAATAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAAGAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAAGAATTAC
* * *
59851415 AAACACAACAATTTATAACATAATCTTAAATTACTAACAAATTACTTTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAAGAATTA
59851474 TAAAAAACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAAGAATTAC
Found at i:59851637 original size:27 final size:27
Alignment explanation
Indices: 59851599--59851652 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
59851589 AAGGAGGAGA
*
59851599 CAGTGGCACCTA-CTTGTCAAGCGCGAC
1 CAGTGGCACCTATC-TGACAAGCGCGAC
*
59851626 CAGTGGCGCCTATCTGACAAGCGCGAC
1 CAGTGGCACCTATCTGACAAGCGCGAC
59851653 TGGTTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (27 bp):
CAGTGGCACCTATCTGACAAGCGCGAC
Found at i:59851787 original size:23 final size:23
Alignment explanation
Indices: 59851744--59851787 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
59851734 ATAAATTAAT
* *
59851744 AATATTTTATTTAAAGTAAAAAA
1 AATATTTTATATAAAGAAAAAAA
59851767 AATATTTTAATATAAA-AAAAA
1 AATATTTT-ATATAAAGAAAAA
59851788 TGGTTGCGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AATATTTTATATAAAGAAAAAAA
Found at i:59855477 original size:19 final size:18
Alignment explanation
Indices: 59855453--59855494 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
59855443 TATTCTTTAG
*
59855453 AATTTTTTAAAAATATATA
1 AATTTTTTAAAAA-ACATA
59855472 AA-TTTTTAAAAAACATA
1 AATTTTTTAAAAAACATA
59855489 AATTTT
1 AATTTT
59855495 ATTATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTTTTTAAAAAACATA
Found at i:59855479 original size:18 final size:17
Alignment explanation
Indices: 59855456--59855494 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
59855446 TCTTTAGAAT
*
59855456 TTTTTAAAAATATATAAA
1 TTTTTAAAAA-ACATAAA
59855474 TTTTTAAAAAACATAAA
1 TTTTTAAAAAACATAAA
59855491 TTTT
1 TTTT
59855495 ATTATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTTTAAAAAACATAAA
Found at i:59856406 original size:14 final size:14
Alignment explanation
Indices: 59856387--59856417 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
59856377 TAAAGACTAA
59856387 AATGTACTAATAAC
1 AATGTACTAATAAC
59856401 AATGTACTAATAAC
1 AATGTACTAATAAC
59856415 AAT
1 AAT
59856418 TGATATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (14 bp):
AATGTACTAATAAC
Found at i:59862190 original size:49 final size:49
Alignment explanation
Indices: 59862136--59862299 Score: 181
Period size: 49 Copynumber: 3.3 Consensus size: 49
59862126 CGTAATCGGA
*
59862136 AAGCTCATGCGAGCCAATATCGGGAAGCTCCAGAGAGCCATTAATCAAG
1 AAGCTCATGAGAGCCAATATCGGGAAGCTCCAGAGAGCCATTAATCAAG
* * *
59862185 AAGCTCATGAGAGCCAATTATCGGGAAGCTCCGGAGAGCCAATT-ATGAGG
1 AAGCTCATGAGAGCCAA-TATCGGGAAGCTCCAGAGAGCC-ATTAATCAAG
* * **
59862235 AAGCTCAT-ATGAG-CAATAAACGGGAAGCTCAAGAGAGCCATTAATCGGG
1 AAGCTCATGA-GAGCCAAT-ATCGGGAAGCTCCAGAGAGCCATTAATCAAG
* *
59862284 ATGCTCGTGAGAGCCA
1 AAGCTCATGAGAGCCA
59862300 TATAATAGGA
Statistics
Matches: 97, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
48 4 0.04
49 51 0.53
50 39 0.40
51 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.17
Consensus pattern (49 bp):
AAGCTCATGAGAGCCAATATCGGGAAGCTCCAGAGAGCCATTAATCAAG
Found at i:59862262 original size:74 final size:74
Alignment explanation
Indices: 59862184--59862322 Score: 185
Period size: 74 Copynumber: 1.9 Consensus size: 74
59862174 CATTAATCAA
* * *
59862184 GAAGCTCATGAGAGCCAATT-ATCGGGAAGCTCCG-GAGAGCCA-ATTATGAGGAAGCTCATATG
1 GAAGCTCAAGAGAGCC-ATTAATCGGGAAGCT-CGTGAGAGCCATATAAT-AGGAAGCTCATAAG
59862246 AGCAATAAACGG
63 AGCAATAAACGG
* *
59862258 GAAGCTCAAGAGAGCCATTAATCGGGATGCTCGTGAGAGCCATATAATAGGATGCTCATAAGAGC
1 GAAGCTCAAGAGAGCCATTAATCGGGAAGCTCGTGAGAGCCATATAATAGGAAGCTCATAAGAGC
59862323 TAAATAATGG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
73 5 0.09
74 48 0.84
75 4 0.07
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.19
Consensus pattern (74 bp):
GAAGCTCAAGAGAGCCATTAATCGGGAAGCTCGTGAGAGCCATATAATAGGAAGCTCATAAGAGC
AATAAACGG
Found at i:59862300 original size:25 final size:25
Alignment explanation
Indices: 59862128--59862322 Score: 145
Period size: 25 Copynumber: 7.9 Consensus size: 25
59862118 ATTAGAGCCG
* * *
59862128 TAATCGGAAAGCTCATGCGAGCCAA
1 TAATCGGGAAGCTCATGAGAGCCAT
59862153 T-ATCGGGAAGCTCCA-GAGAGCCAT
1 TAATCGGGAAGCT-CATGAGAGCCAT
**
59862177 TAATCAAGAAGCTCATGAGAGCCAAT
1 TAATCGGGAAGCTCATGAGAGCC-AT
**
59862203 T-ATCGGGAAGCTCCGGAGAGCCAAT
1 TAATCGGGAAGCTCATGAGAGCC-AT
*
59862228 T-AT-GAGGAAGCTCAT-ATGAG-CAA
1 TAATCG-GGAAGCTCATGA-GAGCCAT
* *
59862251 TAAACGGGAAGCTCAAGAGAGCCAT
1 TAATCGGGAAGCTCATGAGAGCCAT
* *
59862276 TAATCGGGATGCTCGTGAGAGCCAT
1 TAATCGGGAAGCTCATGAGAGCCAT
* * *
59862301 ATAAT-AGGATGCTCATAAGAGC
1 -TAATCGGGAAGCTCATGAGAGC
59862323 TAAATAATGG
Statistics
Matches: 137, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
23 2 0.01
24 36 0.26
25 92 0.67
26 7 0.05
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (25 bp):
TAATCGGGAAGCTCATGAGAGCCAT
Found at i:59862329 original size:25 final size:25
Alignment explanation
Indices: 59862282--59862339 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
59862272 CCATTAATCG
* * *
59862282 GGATGCTCGTGAGAGCCATATAATA
1 GGATGCTCATAAGAGCCAAATAATA
* *
59862307 GGATGCTCATAAGAGCTAAATAATG
1 GGATGCTCATAAGAGCCAAATAATA
*
59862332 GGACGCTC
1 GGATGCTC
59862340 TTGTGAGCTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (25 bp):
GGATGCTCATAAGAGCCAAATAATA
Found at i:59862347 original size:99 final size:99
Alignment explanation
Indices: 59862156--59862339 Score: 210
Period size: 99 Copynumber: 1.9 Consensus size: 99
59862146 GAGCCAATAT
* * * * *
59862156 CGGGAAGCTCCAGAGAGCCATTAATCAAGAAGCTCATGAGAGCCAATTATCGGGAAGCTCCGGAG
1 CGGGAAGCTCAAGAGAGCCATTAATCAAGAAGCTCATGAGAGCCAATAATCAGGAAGCTCAGAAG
* *
59862221 AGCCAATTATGAGGAAGCTCATATGAGCAATAAA
66 AGCAAATAATGAGGAAGCTCATATGAGCAATAAA
** * * * *
59862255 CGGGAAGCTCAAGAGAGCCATTAATCGGGATGCTCGTGAGAGCCATATAAT-AGGATGCTCATAA
1 CGGGAAGCTCAAGAGAGCCATTAATCAAGAAGCTCATGAGAGCCA-ATAATCAGGAAGCTCAGAA
*
59862319 GAGCTAAATAATG-GGACGCTC
65 GAGC-AAATAATGAGGAAGCTC
59862340 TTGTGAGCTG
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
99 59 0.86
100 10 0.14
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (99 bp):
CGGGAAGCTCAAGAGAGCCATTAATCAAGAAGCTCATGAGAGCCAATAATCAGGAAGCTCAGAAG
AGCAAATAATGAGGAAGCTCATATGAGCAATAAA
Found at i:59881190 original size:15 final size:14
Alignment explanation
Indices: 59881169--59881204 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
59881159 ATAATCCTTA
*
59881169 ATAATTATCTTAAT
1 ATAATTATCCTAAT
59881183 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
59881198 ATAATTA
1 ATAATTA
59881205 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:59881771 original size:4 final size:4
Alignment explanation
Indices: 59881762--59881806 Score: 54
Period size: 4 Copynumber: 10.2 Consensus size: 4
59881752 ATTATATATT
59881762 TTTA TTTA TTTA TTTA TTTA TTTTGA TTTA TTTTGA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA -TTT-A TTTA -TTT-A TTTA TTTA T
59881807 ATTTTTTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 23 0.62
5 12 0.32
6 2 0.05
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:59881771 original size:10 final size:10
Alignment explanation
Indices: 59881753--59881810 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
59881743 AGTCTCCAAA
*
59881753 TTATATATTT
1 TTATTTATTT
59881763 TTATTTATTTAT
1 TTATTTA-TT-T
59881775 TTATTTATTT
1 TTATTTATTT
*
59881785 TGATTTATTT
1 TTATTTATTT
*
59881795 TGATTTATTT
1 TTATTTATTT
*
59881805 ATATTT
1 TTATTT
59881811 TTTATGCTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
10 30 0.71
11 4 0.10
12 8 0.19
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (10 bp):
TTATTTATTT
Found at i:59881775 original size:14 final size:14
Alignment explanation
Indices: 59881753--59881815 Score: 56
Period size: 14 Copynumber: 4.3 Consensus size: 14
59881743 AGTCTCCAAA
*
59881753 TTATATATTTTTAT
1 TTATTTATTTTTAT
59881767 TTATTTATTTATTTATT
1 TTATTTA-TT-TTTA-T
*
59881784 TTGATTTATTTTGAT
1 TT-ATTTATTTTTAT
*
59881799 TTATTTATATTT-T
1 TTATTTATTTTTAT
59881812 TTAT
1 TTAT
59881816 GCTTTAGGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.12
14 14 0.34
15 5 0.12
16 7 0.17
17 5 0.12
18 5 0.12
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TTATTTATTTTTAT
Found at i:59882952 original size:22 final size:21
Alignment explanation
Indices: 59882927--59882986 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
59882917 GCTGATAGAT
* *
59882927 GGTGCTTGGGTGCAGGGATAAG
1 GGTGCTTGGCTGCAGGAAT-AG
*
59882949 GGTGGTTGGCTGCAGGAATAG
1 GGTGCTTGGCTGCAGGAATAG
*
59882970 GGTAGTTTGGCTGCAGG
1 GGT-GCTTGGCTGCAGG
59882987 TATTCTGGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.15
22 28 0.85
ACGTcount: A:0.17, C:0.10, G:0.48, T:0.25
Consensus pattern (21 bp):
GGTGCTTGGCTGCAGGAATAG
Found at i:59889275 original size:15 final size:14
Alignment explanation
Indices: 59889254--59889289 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
59889244 ATAATCCTTA
*
59889254 ATAATTATCTTAAT
1 ATAATTATCCTAAT
59889268 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
59889283 ATAATTA
1 ATAATTA
59889290 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:59905415 original size:17 final size:17
Alignment explanation
Indices: 59905395--59905431 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
59905385 AATTTTTGAA
59905395 TTAGTGAATTATGTGAT
1 TTAGTGAATTATGTGAT
*
59905412 TTAGTGAATTTTGTGAT
1 TTAGTGAATTATGTGAT
59905429 TTA
1 TTA
59905432 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTATGTGAT
Found at i:59906711 original size:46 final size:46
Alignment explanation
Indices: 59906658--59906797 Score: 226
Period size: 46 Copynumber: 3.0 Consensus size: 46
59906648 CCATGGAAAA
*
59906658 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
*
59906704 TTGTGAAAAGTGGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * * *
59906750 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACTATACTAAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
59906796 TT
1 TT
59906798 ATAGCATTGT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 87 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:59908711 original size:28 final size:28
Alignment explanation
Indices: 59908648--59908770 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
59908638 ATATTAAGTC
*
59908648 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
59908675 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
59908703 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
59908731 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
59908760 CGCACACTTAG
1 CGCACACTTAG
59908771 CGCCAATCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.25
28 51 0.57
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59913656 original size:25 final size:25
Alignment explanation
Indices: 59913611--59913661 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
59913601 ACTCTTCTCA
* *
59913611 TCTCTTCACTTCTCTATCATTTTTC
1 TCTCTTCACTTCCCTATCATTGTTC
*
59913636 TCTCTTCATTTCCCT-TCCATTGTTC
1 TCTCTTCACTTCCCTAT-CATTGTTC
59913661 T
1 T
59913662 TCATTCCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.10, C:0.33, G:0.02, T:0.55
Consensus pattern (25 bp):
TCTCTTCACTTCCCTATCATTGTTC
Found at i:59917797 original size:18 final size:17
Alignment explanation
Indices: 59917764--59917802 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
59917754 TTGTATAAAT
59917764 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
59917782 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
59917799 TGTG
1 TGTG
59917803 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:59917920 original size:8 final size:8
Alignment explanation
Indices: 59917907--59917935 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
59917897 CACTAGAGAC
59917907 CAGTGTTA
1 CAGTGTTA
59917915 CAGTGTTA
1 CAGTGTTA
59917923 CAGTGTTA
1 CAGTGTTA
59917931 CAGTG
1 CAGTG
59917936 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:59918049 original size:23 final size:23
Alignment explanation
Indices: 59918022--59918097 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
59918012 AGTGTTATTG
59918022 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
59918045 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
59918068 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
59918091 ATCAGTG
1 ATCAGTG
59918098 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:59925140 original size:18 final size:17
Alignment explanation
Indices: 59925107--59925145 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
59925097 TTGTATAAAT
59925107 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
59925125 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
59925142 TGTG
1 TGTG
59925146 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Done.