Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 16 of 318
Found at i:6081703 original size:155 final size:155
Alignment explanation
Indices: 6081421--6081719 Score: 598
Period size: 155 Copynumber: 1.9 Consensus size: 155
6081411 CACAACAATT
6081421 ACAATAACATTGATTGAATCATCACCTGATGTTATATTGTGAAATTTCTGTAAATGGTAAAAGAT
1 ACAATAACATTGATTGAATCATCACCTGATGTTATATTGTGAAATTTCTGTAAATGGTAAAAGAT
6081486 ATTAAATATGCAATCAAATGGCTTTCTTACTATATTTTAATCTTAATTTTAAAAATATCATAATA
66 ATTAAATATGCAATCAAATGGCTTTCTTACTATATTTTAATCTTAATTTTAAAAATATCATAATA
6081551 AATTCATCGTAAATTAAAAAAAAGG
131 AATTCATCGTAAATTAAAAAAAAGG
6081576 ACAATAACATTGATTGAATCATCACCTGATGTTATATTGTGAAATTTCTGTAAATGGTAAAAGAT
1 ACAATAACATTGATTGAATCATCACCTGATGTTATATTGTGAAATTTCTGTAAATGGTAAAAGAT
6081641 ATTAAATATGCAATCAAATGGCTTTCTTACTATATTTTAATCTTAATTTTAAAAATATCATAATA
66 ATTAAATATGCAATCAAATGGCTTTCTTACTATATTTTAATCTTAATTTTAAAAATATCATAATA
6081706 AATTCATCGTAAAT
131 AATTCATCGTAAAT
6081720 AAGTGTGAGA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 144 1.00
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (155 bp):
ACAATAACATTGATTGAATCATCACCTGATGTTATATTGTGAAATTTCTGTAAATGGTAAAAGAT
ATTAAATATGCAATCAAATGGCTTTCTTACTATATTTTAATCTTAATTTTAAAAATATCATAATA
AATTCATCGTAAATTAAAAAAAAGG
Found at i:6083681 original size:27 final size:27
Alignment explanation
Indices: 6083627--6083681 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
6083617 TGGGCCCCAC
* **
6083627 CACAACCATTTGCGCCTCTGAGGTAGG
1 CACAACCATTTGCGCCTCAGAGAAAGG
*
6083654 CACAATCATTTGCGCCTCAGAGAAAGG
1 CACAACCATTTGCGCCTCAGAGAAAGG
6083681 C
1 C
6083682 TCGATTAGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (27 bp):
CACAACCATTTGCGCCTCAGAGAAAGG
Found at i:6087207 original size:42 final size:42
Alignment explanation
Indices: 6087160--6087242 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
6087150 TCTACAGGGA
6087160 GAGGCATATTGAAATATTAGTAGTCTATTTGTAGTATCATTG
1 GAGGCATATTGAAATATTAGTAGTCTATTTGTAGTATCATTG
* *
6087202 GAGGCATATTGAAATCTTAGTAGTCTGTTTGTAGTATCATT
1 GAGGCATATTGAAATATTAGTAGTCTATTTGTAGTATCATT
6087243 AGATTATTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (42 bp):
GAGGCATATTGAAATATTAGTAGTCTATTTGTAGTATCATTG
Found at i:6088164 original size:82 final size:82
Alignment explanation
Indices: 6088025--6088188 Score: 319
Period size: 82 Copynumber: 2.0 Consensus size: 82
6088015 CTGGTGCCCT
*
6088025 ATTTGCAAAGCATCAGCAGAACCCACCCAGTCTTGTTCGCCTACTTCATATTTGAGTTGAATTTG
1 ATTTGCAAAGCATCAGCAGAACCCACCCAGTCTTGTTCGCCTACTTCATATTCGAGTTGAATTTG
6088090 ACAAAAAGGAAGCAAGA
66 ACAAAAAGGAAGCAAGA
6088107 ATTTGCAAAGCATCAGCAGAACCCACCCAGTCTTGTTCGCCTACTTCATATTCGAGTTGAATTTG
1 ATTTGCAAAGCATCAGCAGAACCCACCCAGTCTTGTTCGCCTACTTCATATTCGAGTTGAATTTG
6088172 ACAAAAAGGAAGCAAGA
66 ACAAAAAGGAAGCAAGA
6088189 GACCGAGTTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (82 bp):
ATTTGCAAAGCATCAGCAGAACCCACCCAGTCTTGTTCGCCTACTTCATATTCGAGTTGAATTTG
ACAAAAAGGAAGCAAGA
Found at i:6104045 original size:5 final size:5
Alignment explanation
Indices: 6104035--6104064 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
6104025 GTAGAAGTAG
6104035 AGTGA AGTGA AGTGA AGTGA AGTGA AGTGA
1 AGTGA AGTGA AGTGA AGTGA AGTGA AGTGA
6104065 TGGGTATCCG
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:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (5 bp):
AGTGA
Found at i:6124016 original size:12 final size:12
Alignment explanation
Indices: 6123999--6124034 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
6123989 ATAGTCGTAG
6123999 TCATCATAATCA
1 TCATCATAATCA
*
6124011 TCATCATAACCA
1 TCATCATAATCA
6124023 TCATCATAATCA
1 TCATCATAATCA
6124035 ATTCCATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.31
Consensus pattern (12 bp):
TCATCATAATCA
Found at i:6125946 original size:22 final size:22
Alignment explanation
Indices: 6125921--6125968 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6125911 TTTAATTAAA
*
6125921 AATTCTATT-TTTTCATATTTTT
1 AATTCAATTATTTTCATA-TTTT
*
6125943 AATTCAATTATTTTTATATTTT
1 AATTCAATTATTTTCATATTTT
6125965 AATT
1 AATT
6125969 TCCTATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (22 bp):
AATTCAATTATTTTCATATTTT
Found at i:6127014 original size:30 final size:30
Alignment explanation
Indices: 6126980--6127037 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
6126970 ATATCACAAT
6126980 TTAACTCGATACCAACTAAATAAACTAAAG
1 TTAACTCGATACCAACTAAATAAACTAAAG
6127010 TTAACTCGATACCAACTAAATAAACTAA
1 TTAACTCGATACCAACTAAATAAACTAA
6127038 GTATTGACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (30 bp):
TTAACTCGATACCAACTAAATAAACTAAAG
Found at i:6128705 original size:6 final size:6
Alignment explanation
Indices: 6128694--6128726 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
6128684 TAGCACTAGT
*
6128694 CCTCAA CCTCAA CCTCAA CCTCAA CCTTAA CCT
1 CCTCAA CCTCAA CCTCAA CCTCAA CCTCAA CCT
6128727 GAGGATTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.21
Consensus pattern (6 bp):
CCTCAA
Found at i:6130108 original size:25 final size:24
Alignment explanation
Indices: 6130079--6130125 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
6130069 GCTATTTTGG
6130079 TTTGCAATGACTGTAGGGAGCATTT
1 TTTGCAATGACTGTAGGG-GCATTT
6130104 TTTGCAATGACTGTAGGGGCAT
1 TTTGCAATGACTGTAGGGGCAT
6130126 CCTCAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (24 bp):
TTTGCAATGACTGTAGGGGCATTT
Found at i:6136406 original size:20 final size:22
Alignment explanation
Indices: 6136370--6136409 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
6136360 CTATTAATTT
6136370 TTTATATTTTTTAAATTTAGAC
1 TTTATATTTTTTAAATTTAGAC
6136392 TTTATA-TTTTT-AATTTAG
1 TTTATATTTTTTAAATTTAG
6136410 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (22 bp):
TTTATATTTTTTAAATTTAGAC
Found at i:6139214 original size:21 final size:18
Alignment explanation
Indices: 6139166--6139201 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6139156 TAATATTAAA
6139166 AAATAAAATAATTATTTT
1 AAATAAAATAATTATTTT
6139184 AAATAAAATAATTATTTT
1 AAATAAAATAATTATTTT
6139202 TATATGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATAAAATAATTATTTT
Found at i:6139407 original size:19 final size:20
Alignment explanation
Indices: 6139365--6139407 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6139355 TATTACACAT
*
6139365 ATAAA-AATTATATTTACTA
1 ATAAATAATAATATTTACTA
6139384 A-AAATAATAATATTTA-TA
1 ATAAATAATAATATTTACTA
6139402 ATAAAT
1 ATAAAT
6139408 TATTTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAATAATAATATTTACTA
Found at i:6143426 original size:5 final size:6
Alignment explanation
Indices: 6143411--6143451 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
6143401 AATTATATGT
*
6143411 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
6143452 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:6147292 original size:3 final size:3
Alignment explanation
Indices: 6147284--6147311 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6147274 ATTTCTTTTA
6147284 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6147312 TACCACTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6149522 original size:18 final size:18
Alignment explanation
Indices: 6149476--6149524 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
6149466 TAACTTATCC
*
6149476 ATTTTTTTTAAAAAGAAT
1 ATTTTATTTAAAAAGAAT
* *
6149494 ATCTCTA-TTAAAAATAAT
1 AT-TTTATTTAAAAAGAAT
6149512 ATTTTATTTAAAA
1 ATTTTATTTAAAA
6149525 GGAACTACCA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 3 0.12
18 20 0.80
19 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTTTATTTAAAAAGAAT
Found at i:6151398 original size:12 final size:12
Alignment explanation
Indices: 6151381--6151409 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6151371 ATATTTCCAG
6151381 TTTTTTTTTCAA
1 TTTTTTTTTCAA
6151393 TTTTTTTTTCAA
1 TTTTTTTTTCAA
6151405 TTTTT
1 TTTTT
6151410 CTTAATTTTT
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:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:6161173 original size:20 final size:20
Alignment explanation
Indices: 6161148--6161186 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6161138 CATTTTGGTT
6161148 CTGATGCAAGATGTTTCGAC
1 CTGATGCAAGATGTTTCGAC
6161168 CTGATGCAAGATGTTTCGA
1 CTGATGCAAGATGTTTCGA
6161187 AATCTCAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
CTGATGCAAGATGTTTCGAC
Found at i:6163001 original size:15 final size:15
Alignment explanation
Indices: 6162966--6163017 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
6162956 TTAAGAATTT
*
6162966 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6162980 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6162994 TATTTAATAATAAT-
1 TATTTAATTATAATA
6163008 TATGTTAATT
1 TAT-TTAATT
6163018 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6163051 original size:120 final size:120
Alignment explanation
Indices: 6162904--6163133 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
6162894 TTTGAGTAAA
6162904 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
6162969 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
6163024 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
6163089 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
6163134 TAAATATGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:6163099 original size:61 final size:61
Alignment explanation
Indices: 6162914--6163101 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
6162904 TTATAGTATC
6162914 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
6162975 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
6163034 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
6163095 ATATATT
1 ATATATT
6163102 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 26 0.27
61 36 0.37
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:6163116 original size:16 final size:16
Alignment explanation
Indices: 6163095--6163136 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6163085 TTATTAAATT
*
6163095 ATATATTTTAATTATA
1 ATATATTTTAATAATA
6163111 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
6163126 AT-TATGTTTAA
1 ATATAT-TTTAA
6163137 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:6163121 original size:15 final size:15
Alignment explanation
Indices: 6163086--6163127 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6163076 TTAAGAATTT
*
6163086 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6163100 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6163114 TATTTAATAATAAT
1 TATTTAATTATAAT
6163128 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:6163362 original size:45 final size:43
Alignment explanation
Indices: 6163262--6163371 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
6163252 TTTTCCATTA
6163262 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
6163301 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
6163346 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
6163372 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:6163373 original size:16 final size:16
Alignment explanation
Indices: 6163352--6163419 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
6163342 GATTTGCTAT
*
6163352 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
6163368 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
6163384 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6163400 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6163416 TACA
1 TACA
6163420 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:6163595 original size:14 final size:14
Alignment explanation
Indices: 6163578--6163608 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6163568 ATAATATAGT
6163578 ATAATGAATAAAGA
1 ATAATGAATAAAGA
*
6163592 ATAATGAGTAAAGA
1 ATAATGAATAAAGA
6163606 ATA
1 ATA
6163609 GAAAAGTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (14 bp):
ATAATGAATAAAGA
Found at i:6163642 original size:4 final size:4
Alignment explanation
Indices: 6163633--6163711 Score: 70
Period size: 4 Copynumber: 19.2 Consensus size: 4
6163623 AGCAAACGTG
* * * * **
6163633 AGAA AGAA AGAA AGAA AGAA AGAT AGAA AGACT A-AC AGAG AGCAA ACGTG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA-A AGAA AGAA AG-AA A-GAA
6163683 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
6163712 TAAATAAATA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
3 1 0.02
4 55 0.90
5 4 0.07
6 1 0.02
ACGTcount: A:0.66, C:0.05, G:0.25, T:0.04
Consensus pattern (4 bp):
AGAA
Found at i:6163671 original size:50 final size:50
Alignment explanation
Indices: 6163617--6163711 Score: 181
Period size: 50 Copynumber: 1.9 Consensus size: 50
6163607 TAGAAAAGTT
*
6163617 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGATAGAAAGACTA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGACTA
6163667 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGAAAGAAA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGAAAGAAA
6163712 TAAATAAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.62, C:0.07, G:0.26, T:0.04
Consensus pattern (50 bp):
ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGACTA
Found at i:6167385 original size:17 final size:17
Alignment explanation
Indices: 6167363--6167396 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6167353 ATCCACTAAT
*
6167363 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
6167380 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
6167397 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:6172024 original size:17 final size:17
Alignment explanation
Indices: 6172002--6172035 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6171992 ATCCACTAAT
*
6172002 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
6172019 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
6172036 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:6172956 original size:3 final size:3
Alignment explanation
Indices: 6172950--6172979 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6172940 TTTCGTGGCC
6172950 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6172980 TCAATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6178469 original size:5 final size:5
Alignment explanation
Indices: 6178461--6178487 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
6178451 AGATTGGATT
6178461 GATCA GATCA GATCA GATCA GATCA GA
1 GATCA GATCA GATCA GATCA GATCA GA
6178488 GTAAGTGTAG
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:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (5 bp):
GATCA
Found at i:6191072 original size:16 final size:16
Alignment explanation
Indices: 6191051--6191082 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6191041 TCAAGCCATG
*
6191051 CAAATATATTGTCAGA
1 CAAATATATTGACAGA
6191067 CAAATATATTGACAGA
1 CAAATATATTGACAGA
6191083 TTTTGCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (16 bp):
CAAATATATTGACAGA
Found at i:6195673 original size:64 final size:64
Alignment explanation
Indices: 6195601--6195724 Score: 203
Period size: 64 Copynumber: 1.9 Consensus size: 64
6195591 TATCTGTTTC
* ** *
6195601 GAATGATGAAAAGGTTTAAATGTTCCAATATTGTTTGGGATGAGTGGAGCTATGTTGCTCCTGG
1 GAATGATGAAAAGGTTTAAATGTTCCAATATTGTTGGGGATGAGAAGAACTATGTTGCTCCTGG
*
6195665 GAATGATGAAAAGGTTTAAATGTTTCAATATTGTTGGGGATGAGAAGAACTATGTTGCTC
1 GAATGATGAAAAGGTTTAAATGTTCCAATATTGTTGGGGATGAGAAGAACTATGTTGCTC
6195725 TGACTCTTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (64 bp):
GAATGATGAAAAGGTTTAAATGTTCCAATATTGTTGGGGATGAGAAGAACTATGTTGCTCCTGG
Found at i:6202151 original size:30 final size:30
Alignment explanation
Indices: 6202115--6202175 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
6202105 TAGGTTGTCA
6202115 ACAGTAAAAACTAGGTGATGTACAACTTTG
1 ACAGTAAAAACTAGGTGATGTACAACTTTG
6202145 ACAGTAAAAACTAGGTGATGTACAACTTTG
1 ACAGTAAAAACTAGGTGATGTACAACTTTG
6202175 A
1 A
6202176 GAAACTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (30 bp):
ACAGTAAAAACTAGGTGATGTACAACTTTG
Found at i:6203739 original size:18 final size:19
Alignment explanation
Indices: 6203716--6203760 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
6203706 AATGCCTGGA
*
6203716 TTTTCTTTTCTTTTCT-CT
1 TTTTCTTTCCTTTTCTACT
*
6203734 TTTTCTATCCTTTTCTACT
1 TTTTCTTTCCTTTTCTACT
6203753 TTCTTCTT
1 TT-TTCTT
6203761 CTGTTTGGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 14 0.64
19 4 0.18
20 4 0.18
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTCTTTCCTTTTCTACT
Found at i:6204562 original size:10 final size:10
Alignment explanation
Indices: 6204547--6204572 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6204537 AATATACAAA
6204547 ATATATACAT
1 ATATATACAT
6204557 ATATATACAT
1 ATATATACAT
6204567 ATATAT
1 ATATAT
6204573 TTTGCGGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATATACAT
Found at i:6211967 original size:17 final size:17
Alignment explanation
Indices: 6211945--6211978 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6211935 ATTGAAATGC
6211945 CCTTTTGCTCAAGTTTG
1 CCTTTTGCTCAAGTTTG
6211962 CCTTTTGCTCAAGTTTG
1 CCTTTTGCTCAAGTTTG
6211979 ACTTCGCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.47
Consensus pattern (17 bp):
CCTTTTGCTCAAGTTTG
Found at i:6232258 original size:9 final size:9
Alignment explanation
Indices: 6232244--6232269 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6232234 AAATAGTTTG
6232244 AGTTATTCA
1 AGTTATTCA
6232253 AGTTATTCA
1 AGTTATTCA
6232262 AGTTATTC
1 AGTTATTC
6232270 GAATTAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (9 bp):
AGTTATTCA
Found at i:6233473 original size:49 final size:49
Alignment explanation
Indices: 6233384--6233523 Score: 119
Period size: 47 Copynumber: 2.8 Consensus size: 49
6233374 TATTTTTTGT
* ** *
6233384 ATTA-TTAAATTTAATT-ATTTAAATACATTTATTAATTATCATTAATTTTACA
1 ATTATTTAAATATAATTAATTTTTATAC-TTT-TTAA-TATCATT-ATATT-CA
* *
6233436 ATTAATTTAAAT-TAATTACTTTTTATA-TTTTT-ATATCATTATATTGA
1 ATT-ATTTAAATATAATTAATTTTTATACTTTTTAATATCATTATATTCA
* *
6233483 ATTATTTAAATATTATTAATTTTTTTACTTTTTAATATCAT
1 ATTATTTAAATATAATTAATTTTTATACTTTTTAATATCAT
6233524 ATTTAAAAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
46 8 0.11
47 16 0.22
48 9 0.12
49 14 0.19
50 1 0.01
51 2 0.03
52 6 0.08
53 6 0.08
54 12 0.16
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (49 bp):
ATTATTTAAATATAATTAATTTTTATACTTTTTAATATCATTATATTCA
Found at i:6235989 original size:34 final size:35
Alignment explanation
Indices: 6235934--6236000 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
6235924 CAAACACCAG
*
6235934 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
6235969 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
6236001 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:6236667 original size:35 final size:35
Alignment explanation
Indices: 6236618--6236689 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
6236608 ATATTTTATC
*
6236618 TCACTATTACCATTACATTTGAAT-TCAAATACATA
1 TCACTATTACCATTACATTTAAATCT-AAATACATA
*
6236653 TCACTATTATCATTACATTTAAATCTAAATACATA
1 TCACTATTACCATTACATTTAAATCTAAATACATA
6236688 TC
1 TC
6236690 TCACTGTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 33 0.97
36 1 0.03
ACGTcount: A:0.40, C:0.19, G:0.01, T:0.39
Consensus pattern (35 bp):
TCACTATTACCATTACATTTAAATCTAAATACATA
Found at i:6238227 original size:25 final size:26
Alignment explanation
Indices: 6238160--6238227 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 26
6238150 ATTTTTCTCG
6238160 AAAAATTATAAGT-AAAATCATAATCAA
1 AAAAATTATAA-TCAAAAT-ATAATCAA
* * *
6238187 AATAATTACAACCAAAAT-TAAT-ATA
1 AAAAATTATAATCAAAATATAATCA-A
6238212 AAAAATTATAATCAAA
1 AAAAATTATAATCAAA
6238228 TTGATAATTG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
24 1 0.03
25 18 0.55
27 14 0.42
ACGTcount: A:0.63, C:0.09, G:0.01, T:0.26
Consensus pattern (26 bp):
AAAAATTATAATCAAAATATAATCAA
Found at i:6238376 original size:9 final size:9
Alignment explanation
Indices: 6238362--6238387 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6238352 GATGAGATAT
6238362 TTAAAATAA
1 TTAAAATAA
6238371 TTAAAATAA
1 TTAAAATAA
6238380 TTAAAATA
1 TTAAAATA
6238388 TATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TTAAAATAA
Found at i:6240076 original size:16 final size:16
Alignment explanation
Indices: 6240052--6240085 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6240042 TATAAAATTT
*
6240052 TATTGTTTTCATTTTA
1 TATTATTTTCATTTTA
*
6240068 TATTATTTTTATTTTA
1 TATTATTTTCATTTTA
6240084 TA
1 TA
6240086 GTGACTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (16 bp):
TATTATTTTCATTTTA
Found at i:6240721 original size:18 final size:19
Alignment explanation
Indices: 6240685--6240721 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6240675 ATTTATTAAA
6240685 GAATATTTTATATAATTGAC
1 GAATATTTTATAT-ATTGAC
6240705 GAATATTTTATAT-TTGA
1 GAATATTTTATATATTGA
6240722 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.49
Consensus pattern (19 bp):
GAATATTTTATATATTGAC
Found at i:6253984 original size:35 final size:35
Alignment explanation
Indices: 6253941--6254007 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
6253931 ATTACTGTCA
* *
6253941 TATGTAATTCTTGTTAATTTGTGAAAATTAAAATG
1 TATGTAATTCTTATTAATTTGTGAAAAATAAAATG
6253976 TATGTAATTCTTATTAATTTGTGAAAAATAAA
1 TATGTAATTCTTATTAATTTGTGAAAAATAAA
6254008 TTTTAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (35 bp):
TATGTAATTCTTATTAATTTGTGAAAAATAAAATG
Found at i:6254253 original size:21 final size:20
Alignment explanation
Indices: 6254225--6254269 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
6254215 ATTTTAACAG
6254225 AACTGCTGATGTGGCAAGTT
1 AACTGCTGATGTGGCAAGTT
*
6254245 AACTAGCTGATGTGGCCAGTT
1 AACT-GCTGATGTGGCAAGTT
6254266 AACT
1 AACT
6254270 TGCCACATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (20 bp):
AACTGCTGATGTGGCAAGTT
Found at i:6255927 original size:46 final size:45
Alignment explanation
Indices: 6255877--6256052 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
6255867 TGTTTGGGCA
6255877 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
6255923 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
6255970 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
6256016 CCCGAGCTCGTTGAGTTGAGTCCGAGATCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6256053 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:6256032 original size:93 final size:93
Alignment explanation
Indices: 6255873--6256041 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
6255863 AGGATGTTTG
* *
6255873 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
6255938 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
6255966 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
6256031 TTGAGTCCGAG
66 TTGAGTCCGAG
6256042 ATCGCTTATG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:6259062 original size:21 final size:20
Alignment explanation
Indices: 6259036--6259080 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
6259026 CTACGTGACA
6259036 AGTTAACTGGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
* *
6259056 TAGTTAACTTGCTACATCAGC
1 -AGTTAACTGGCCACATCAGC
6259077 AGTT
1 AGTT
6259081 CTGTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:6259176 original size:30 final size:31
Alignment explanation
Indices: 6259111--6259176 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
6259101 ACTATTAATC
* *
6259111 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
6259142 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
6259171 GAGTGA
1 -AGTGA
6259177 TTGAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.16
30 11 0.35
31 15 0.48
ACGTcount: A:0.23, C:0.09, G:0.20, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:6269971 original size:24 final size:24
Alignment explanation
Indices: 6269939--6269986 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
6269929 TCTTTAAGGT
*
6269939 GGCATTAGGTCCATCATGGATGGA
1 GGCATTAGGTCCACCATGGATGGA
6269963 GGCATTAGGTCCACCATGGATGGA
1 GGCATTAGGTCCACCATGGATGGA
6269987 CATTCCTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (24 bp):
GGCATTAGGTCCACCATGGATGGA
Found at i:6276117 original size:22 final size:22
Alignment explanation
Indices: 6276092--6276137 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6276082 TTCATTTTAG
6276092 TTGCCCAAAACTTTTAAGGCGC
1 TTGCCCAAAACTTTTAAGGCGC
6276114 TTGCCCAAAACTTTTAAGGCGC
1 TTGCCCAAAACTTTTAAGGCGC
6276136 TT
1 TT
6276138 TCATTTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
TTGCCCAAAACTTTTAAGGCGC
Found at i:6281686 original size:20 final size:21
Alignment explanation
Indices: 6281652--6281690 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6281642 TATTTGAAAT
6281652 TTGAAAAATAAAATTTCAATA
1 TTGAAAAATAAAATTTCAATA
*
6281673 TTGAAAAA-ATAATTTCAA
1 TTGAAAAATAAAATTTCAA
6281691 CAATGGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
TTGAAAAATAAAATTTCAATA
Found at i:6286205 original size:29 final size:28
Alignment explanation
Indices: 6286172--6286226 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
6286162 CTCTCACAAC
6286172 TAAAATTAAAAAAATATATATATAATTTT
1 TAAAATTAAAAAAATATATA-ATAATTTT
* * *
6286201 TAAAATTCAAAATATTTATAATAATT
1 TAAAATTAAAAAAATATATAATAATT
6286227 CCAGAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAAATTAAAAAAATATATAATAATTTT
Found at i:6291504 original size:17 final size:17
Alignment explanation
Indices: 6291482--6291517 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
6291472 GGTTGATACT
6291482 CATATAATAAATTTATG
1 CATATAATAAATTTATG
6291499 CATATAATAAATTTATG
1 CATATAATAAATTTATG
6291516 CA
1 CA
6291518 CCAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (17 bp):
CATATAATAAATTTATG
Found at i:6300848 original size:35 final size:35
Alignment explanation
Indices: 6300793--6300867 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
6300783 GTGTGAGTGC
** *
6300793 GGTCCATAACAAGTGTTGTCCTAAGTCCTTAAAGT
1 GGTCCATAACAAGTAATGTCCTAAGTCCTAAAAGT
* * *
6300828 GGTCCATAACGAGTAATGTCCTAATTCGTAAAAGT
1 GGTCCATAACAAGTAATGTCCTAAGTCCTAAAAGT
6300863 GGTCC
1 GGTCC
6300868 GTAATTGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (35 bp):
GGTCCATAACAAGTAATGTCCTAAGTCCTAAAAGT
Found at i:6303710 original size:24 final size:24
Alignment explanation
Indices: 6303683--6303735 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
6303673 CTCAAATTTT
*
6303683 TTAAA-AAACAAAACAAAATAAATA
1 TTAAATAAACAAAA-AAAATAAACA
* *
6303707 TTAAATTAACAAAAAATATAAACA
1 TTAAATAAACAAAAAAAATAAACA
6303731 TTAAA
1 TTAAA
6303736 GATTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.23
Consensus pattern (24 bp):
TTAAATAAACAAAAAAAATAAACA
Found at i:6307881 original size:16 final size:15
Alignment explanation
Indices: 6307860--6307892 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
6307850 GTAGCTTTTC
6307860 ATGAATTATAATAATT
1 ATGAATTATAA-AATT
6307876 ATGAATTATAAAATT
1 ATGAATTATAAAATT
6307891 AT
1 AT
6307893 TTCAACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATGAATTATAAAATT
Found at i:6309615 original size:18 final size:18
Alignment explanation
Indices: 6309567--6309616 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 18
6309557 TAAAAGATTA
*
6309567 ATATATTTTTTAAACTATT
1 ATATAATTTTTAAA-TATT
*
6309586 ATGTAA--TTTAAATATT
1 ATATAATTTTTAAATATT
6309602 ATATAATTTTTAAAT
1 ATATAATTTTTAAAT
6309617 GTAATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 9 0.35
17 6 0.23
18 7 0.27
19 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
ATATAATTTTTAAATATT
Found at i:6312616 original size:16 final size:16
Alignment explanation
Indices: 6312597--6312631 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6312587 TTATATATTT
*
6312597 TTTAAATATTTATGTA
1 TTTAAATATTTATGAA
*
6312613 TTTATATATTTATGAA
1 TTTAAATATTTATGAA
6312629 TTT
1 TTT
6312632 TTTTAGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (16 bp):
TTTAAATATTTATGAA
Found at i:6312843 original size:24 final size:24
Alignment explanation
Indices: 6312816--6312894 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 24
6312806 TTAAAAAAAA
6312816 TATAATTGAGTGATAAAAAAATTT
1 TATAATTGAGTGATAAAAAAATTT
* *
6312840 TATAATTGAATGATGAATTTAAAATATATA
1 TATAATTGAGTGAT-AA---AAAA-AT-TT
*
6312870 TATAATTAAGTGATAAAAAGAATTT
1 TATAATTGAGTGATAAAAA-AATTT
6312895 CCATGGGTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
24 13 0.30
25 3 0.07
26 5 0.12
27 1 0.02
28 4 0.09
29 4 0.09
30 13 0.30
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (24 bp):
TATAATTGAGTGATAAAAAAATTT
Found at i:6312873 original size:54 final size:52
Alignment explanation
Indices: 6312791--6312894 Score: 138
Period size: 54 Copynumber: 2.0 Consensus size: 52
6312781 CAATCTCTAT
* *
6312791 TAATTGGATGATAAATTAAAAAAAATATAATTGAGTGATAAAAA-AATTTTA
1 TAATTGAATGATAAATTAAAAAAAATATAATTAAGTGATAAAAAGAATTTTA
* *
6312842 TAATTGAATGATGAATTTAAAATATATATATAATTAAGTGATAAAAAGAATTT
1 TAATTGAATGAT-AAATTAAAA-A-AAATATAATTAAGTGATAAAAAGAATTT
6312895 CCATGGGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
51 11 0.24
52 8 0.18
53 1 0.02
54 20 0.44
55 5 0.11
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.36
Consensus pattern (52 bp):
TAATTGAATGATAAATTAAAAAAAATATAATTAAGTGATAAAAAGAATTTTA
Found at i:6332937 original size:28 final size:30
Alignment explanation
Indices: 6332880--6332937 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
6332870 TCTACAATTG
6332880 AAGTAAAATTATGACCAAAAATTTGTGTTT
1 AAGTAAAATTATGACCAAAAATTTGTGTTT
6332910 AAGTAAAATTATGA-CAAAAA-TTGTGTTT
1 AAGTAAAATTATGACCAAAAATTTGTGTTT
6332938 GTCAGTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 8 0.29
29 6 0.21
30 14 0.50
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (30 bp):
AAGTAAAATTATGACCAAAAATTTGTGTTT
Found at i:6334100 original size:33 final size:33
Alignment explanation
Indices: 6334063--6334127 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
6334053 ATTTGTATAT
*
6334063 ATATTT-TAAATTTATTATTATATTTTTTTGAAA
1 ATATTTATAAATTTATTA-TATATTTCTTTGAAA
* *
6334096 ATATTTATATATTTTTTATATATTTCTTTGAA
1 ATATTTATAAATTTATTATATATTTCTTTGAA
6334128 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 19 0.68
34 9 0.32
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (33 bp):
ATATTTATAAATTTATTATATATTTCTTTGAAA
Found at i:6335889 original size:18 final size:18
Alignment explanation
Indices: 6335862--6335911 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
6335852 TATACTTTTC
* *
6335862 TAATAATTTTAATAGTTT
1 TAATATTTTTAATAATTT
6335880 TAATATTTTTAAATAATTT
1 TAATATTTTT-AATAATTT
* *
6335899 TCATTTTTTTAAT
1 TAATATTTTTAAT
6335912 TTTTTCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TAATATTTTTAATAATTT
Found at i:6335908 original size:28 final size:28
Alignment explanation
Indices: 6335857--6335921 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
6335847 ATTTTTATAC
*
6335857 TTTTCTAATAATTTTAATAGTTTTAATAT
1 TTTTCAAATAATTTTAATAGTTTTAAT-T
* **
6335886 TTTT-AAATAATTTTCATTTTTTTAATT
1 TTTTCAAATAATTTTAATAGTTTTAATT
6335913 TTTTCAAAT
1 TTTTCAAAT
6335922 TTTAAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 5 0.16
28 22 0.71
29 4 0.13
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTCAAATAATTTTAATAGTTTTAATT
Found at i:6344062 original size:8 final size:7
Alignment explanation
Indices: 6344034--6344059 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6344024 TTATTACACC
6344034 TTTTTAT
1 TTTTTAT
6344041 TTTTTAT
1 TTTTTAT
6344048 TTTTTAT
1 TTTTTAT
6344055 TTTTT
1 TTTTT
6344060 TATCTTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:6344231 original size:76 final size:76
Alignment explanation
Indices: 6344079--6344357 Score: 389
Period size: 76 Copynumber: 3.6 Consensus size: 76
6344069 GGGAAGGATA
* * * * *
6344079 AAAAATTGTTATTAAGATTATCATTTATTACACTTATCTATTTTTTAACTTCAATTGGGGAGGAA
1 AAAAA-TGTTATTAGGATTACCATTTATTACACTTAT-T-TTTTTTAACTTTAATTAGGAAGGAA
6344144 ATGACTTTTTATAG
63 ATGACTTTTTATAG
*
6344158 AAAAATGTTATTAGGATTACCATTTATTACGCTTATTTTTTTTAACTTTAATTAGGAAGGAAATG
1 AAAAATGTTATTAGGATTACCATTTATTACACTTATTTTTTTTAACTTTAATTAGGAAGGAAATG
6344223 ACTTTTTATAG
66 ACTTTTTATAG
* *
6344234 AAAAATATTATTAGGATTACCATTTATTACACTTATTTATTTTTTTTAACTTTAATTCGGAAGGA
1 AAAAATGTTATTAGGATTACCATTTATTACAC----TTATTTTTTTTAACTTTAATTAGGAAGGA
*
6344299 AATTACTTTTTATAG
62 AATGACTTTTTATAG
*
6344314 AAAAATGTTACTAGGATTACCATTTATTACACTT-TTTTTATTTA
1 AAAAATGTTATTAGGATTACCATTTATTACACTTATTTTT-TTTA
6344358 TTTTCTAACT
Statistics
Matches: 183, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
75 5 0.03
76 72 0.39
77 1 0.01
78 28 0.15
79 5 0.03
80 72 0.39
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (76 bp):
AAAAATGTTATTAGGATTACCATTTATTACACTTATTTTTTTTAACTTTAATTAGGAAGGAAATG
ACTTTTTATAG
Found at i:6344315 original size:80 final size:80
Alignment explanation
Indices: 6344079--6344373 Score: 404
Period size: 80 Copynumber: 3.7 Consensus size: 80
6344069 GGGAAGGATA
* * * * * *
6344079 AAAAATTGTTATTAAGATTATCATTTATTACACTTATCTA--TTTTTTAACTTCAATTGGGGAGG
1 AAAAA-TGTTATTAGGATTACCATTTATTACACTTATTTATTTTTTTTAACTTTAATTAGGAAGG
6344142 AAATGACTTTTTATAG
65 AAATGACTTTTTATAG
*
6344158 AAAAATGTTATTAGGATTACCATTTATTACGC----TTATTTTTTTTAACTTTAATTAGGAAGGA
1 AAAAATGTTATTAGGATTACCATTTATTACACTTATTTATTTTTTTTAACTTTAATTAGGAAGGA
6344219 AATGACTTTTTATAG
66 AATGACTTTTTATAG
* *
6344234 AAAAATATTATTAGGATTACCATTTATTACACTTATTTATTTTTTTTAACTTTAATTCGGAAGGA
1 AAAAATGTTATTAGGATTACCATTTATTACACTTATTTATTTTTTTTAACTTTAATTAGGAAGGA
*
6344299 AATTACTTTTTATAG
66 AATGACTTTTTATAG
* *
6344314 AAAAATGTTACTAGGATTACCATTTATTACACTTTTTTTATTTATTTTCTAACTTTAATT
1 AAAAATGTTATTAGGATTACCATTTATTACAC-TTATTTATTT-TTTT-TAACTTTAATT
6344374 TACTTTTTTT
Statistics
Matches: 193, Mismatches: 14, Indels: 14
0.87 0.06 0.06
Matches are distributed among these distances:
74 2 0.01
76 66 0.34
78 24 0.12
79 5 0.03
80 72 0.37
81 9 0.05
82 4 0.02
83 11 0.06
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (80 bp):
AAAAATGTTATTAGGATTACCATTTATTACACTTATTTATTTTTTTTAACTTTAATTAGGAAGGA
AATGACTTTTTATAG
Found at i:6347138 original size:49 final size:49
Alignment explanation
Indices: 6347066--6347165 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
6347056 TCTGCAAAGC
6347066 CAAGCGATTATTCATCTCCGGGTTTTTCTTTTCAGAAAATGGGGATTCT
1 CAAGCGATTATTCATCTCCGGGTTTTTCTTTTCAGAAAATGGGGATTCT
6347115 CAAGCGATTATTCATCTCCGGGTTTTTCTTTTCAGAAAATGGGGATTCT
1 CAAGCGATTATTCATCTCCGGGTTTTTCTTTTCAGAAAATGGGGATTCT
6347164 CA
1 CA
6347166 GTTGGACGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (49 bp):
CAAGCGATTATTCATCTCCGGGTTTTTCTTTTCAGAAAATGGGGATTCT
Found at i:6347556 original size:52 final size:52
Alignment explanation
Indices: 6347478--6347592 Score: 178
Period size: 52 Copynumber: 2.2 Consensus size: 52
6347468 ATGCTTACGT
* *
6347478 CTATCAAAGCTCTATTGCGTTACAATGAATCAAACATA-CTGTTATTATTTCA
1 CTATCAAAGCTCTATTACATTACAATGAATCAAACA-AGCTGTTATTATTTCA
*
6347530 CTATCAAGGCTCTATTACATTACAATGAATCAAACAAGCTGTTATTATTTCA
1 CTATCAAAGCTCTATTACATTACAATGAATCAAACAAGCTGTTATTATTTCA
*
6347582 CTGTCAAAGCT
1 CTATCAAAGCT
6347593 TAATGTATGA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 1 0.02
52 56 0.98
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (52 bp):
CTATCAAAGCTCTATTACATTACAATGAATCAAACAAGCTGTTATTATTTCA
Found at i:6349835 original size:3 final size:3
Alignment explanation
Indices: 6349827--6349855 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6349817 AATGAGCAAT
6349827 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
6349856 CGAATGAGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6350730 original size:6 final size:6
Alignment explanation
Indices: 6350719--6350752 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6350709 AGAAAAGAGT
* *
6350719 GTAGTA GTAGTA GTAGTC GTAGTC GTAGTC GTAG
1 GTAGTC GTAGTC GTAGTC GTAGTC GTAGTC GTAG
6350753 GCCTCACTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.24, C:0.09, G:0.35, T:0.32
Consensus pattern (6 bp):
GTAGTC
Found at i:6351134 original size:11 final size:11
Alignment explanation
Indices: 6351113--6351145 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6351103 TTCAATCCTT
6351113 TCAAA-TTCTC
1 TCAAATTTCTC
6351123 TCAAATTTCTC
1 TCAAATTTCTC
*
6351134 TCAAATTCCTC
1 TCAAATTTCTC
6351145 T
1 T
6351146 TAAAGTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.42
Consensus pattern (11 bp):
TCAAATTTCTC
Found at i:6351154 original size:22 final size:21
Alignment explanation
Indices: 6351113--6351154 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
6351103 TTCAATCCTT
*
6351113 TCAAATTCTCTCAAATTTCTC
1 TCAAATTCTCTCAAAGTTCTC
*
6351134 TCAAATTCCTCTTAAAGTTCT
1 TCAAATT-CTCTCAAAGTTCT
6351155 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.26, G:0.02, T:0.43
Consensus pattern (21 bp):
TCAAATTCTCTCAAAGTTCTC
Found at i:6360557 original size:78 final size:78
Alignment explanation
Indices: 6360424--6360582 Score: 291
Period size: 78 Copynumber: 2.0 Consensus size: 78
6360414 CCATAGGGAA
*
6360424 GTAAGACTCTTTTGATCCAAAACTTACCAAACCTCTTTAACCGTAAGACTTTCTATACAATCATA
1 GTAAGACTCTTTTGATCCAAAACTTACCAAACCTCTTTAACCGTAAGACTCTCTATACAATCATA
*
6360489 CTTTTACCACTGT
66 CTTTCACCACTGT
*
6360502 GTAAGACTCTTTTGATCCAAAACTTACCAAACCTCTTTAACCGTAAGACTCTCTATACGATCATA
1 GTAAGACTCTTTTGATCCAAAACTTACCAAACCTCTTTAACCGTAAGACTCTCTATACAATCATA
6360567 CTTTCACCACTGT
66 CTTTCACCACTGT
6360580 GTA
1 GTA
6360583 GACAAATGGT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.33
Consensus pattern (78 bp):
GTAAGACTCTTTTGATCCAAAACTTACCAAACCTCTTTAACCGTAAGACTCTCTATACAATCATA
CTTTCACCACTGT
Found at i:6365165 original size:2 final size:2
Alignment explanation
Indices: 6365158--6365192 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6365148 AATAGAAAGA
6365158 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6365193 AAGGCTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6388019 original size:23 final size:24
Alignment explanation
Indices: 6387996--6388056 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
6387986 AAGAATTTTA
6387996 AAAATTCAAAAAAAAAT-A-CATT
1 AAAATTCAAAAAAAAATGAGCATT
* *
6388018 AAATTTAAAAAAAAAAATGAGCATTT
1 AAAATT-CAAAAAAAAATGAGCA-TT
*
6388044 AAAATACAAAAAA
1 AAAATTCAAAAAA
6388057 GAAAAAGCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
22 5 0.17
23 10 0.33
24 1 0.03
25 8 0.27
26 6 0.20
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.21
Consensus pattern (24 bp):
AAAATTCAAAAAAAAATGAGCATT
Found at i:6388435 original size:16 final size:16
Alignment explanation
Indices: 6388414--6388449 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6388404 TTACGTGTGA
*
6388414 ATTTTTATATACCAAT
1 ATTTTTATATAACAAT
*
6388430 ATTTTTATTTAACAAT
1 ATTTTTATATAACAAT
6388446 ATTT
1 ATTT
6388450 AACTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTTATATAACAAT
Found at i:6388917 original size:17 final size:16
Alignment explanation
Indices: 6388887--6388920 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6388877 ATTAGATTAA
6388887 TATTATTGAATAAAAT
1 TATTATTGAATAAAAT
*
6388903 TATTCATTGAGTAAAAT
1 TATT-ATTGAATAAAAT
6388920 T
1 T
6388921 TATTGATCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (16 bp):
TATTATTGAATAAAAT
Found at i:6399820 original size:13 final size:13
Alignment explanation
Indices: 6399802--6399826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6399792 TTAACTAAAT
6399802 GATTCTATTAATC
1 GATTCTATTAATC
6399815 GATTCTATTAAT
1 GATTCTATTAAT
6399827 TATTTCATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (13 bp):
GATTCTATTAATC
Found at i:6412495 original size:20 final size:20
Alignment explanation
Indices: 6412470--6412529 Score: 120
Period size: 20 Copynumber: 3.0 Consensus size: 20
6412460 CTCACCAATA
6412470 ACGGTCTTGTTCCAAGGCTT
1 ACGGTCTTGTTCCAAGGCTT
6412490 ACGGTCTTGTTCCAAGGCTT
1 ACGGTCTTGTTCCAAGGCTT
6412510 ACGGTCTTGTTCCAAGGCTT
1 ACGGTCTTGTTCCAAGGCTT
6412530 TAAGACAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (20 bp):
ACGGTCTTGTTCCAAGGCTT
Found at i:6414209 original size:17 final size:18
Alignment explanation
Indices: 6414179--6414215 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6414169 ATGATTCAAG
*
6414179 AATTATAAATTTTTAAAT
1 AATTATAAAATTTTAAAT
6414197 AATT-TAAAATTTTAAAT
1 AATTATAAAATTTTAAAT
6414214 AA
1 AA
6414216 AAAATTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTATAAAATTTTAAAT
Found at i:6415378 original size:20 final size:20
Alignment explanation
Indices: 6415350--6415387 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6415340 GACAATTTGT
* *
6415350 TAGATATATTGGTAAATCCA
1 TAGAAATATTAGTAAATCCA
6415370 TAGAAATATTAGTAAATC
1 TAGAAATATTAGTAAATC
6415388 GTCAAATATT
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:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (20 bp):
TAGAAATATTAGTAAATCCA
Found at i:6415404 original size:20 final size:20
Alignment explanation
Indices: 6415358--6415426 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
6415348 GTTAGATATA
* *
6415358 TTGGTAAATCCAT-AGAAATA
1 TTGGTAAATCC-TCAAAAATT
* * *
6415378 TTAGTAAATCGTCAAATATT
1 TTGGTAAATCCTCAAAAATT
* *
6415398 TTGGTAATTCCTTAAAAATT
1 TTGGTAAATCCTCAAAAATT
6415418 TTGGTAAAT
1 TTGGTAAAT
6415427 GGTAAATCAT
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
19 1 0.03
20 36 0.97
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (20 bp):
TTGGTAAATCCTCAAAAATT
Found at i:6415429 original size:27 final size:27
Alignment explanation
Indices: 6415399--6415452 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
6415389 TCAAATATTT
* *
6415399 TGGTAATTCCTTAAAAATTTTGGTAAA
1 TGGTAAATCATTAAAAATTTTGGTAAA
* *
6415426 TGGTAAATCATTAGATATTTTGGTAAA
1 TGGTAAATCATTAAAAATTTTGGTAAA
6415453 GTCAGAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.41
Consensus pattern (27 bp):
TGGTAAATCATTAAAAATTTTGGTAAA
Found at i:6415697 original size:20 final size:20
Alignment explanation
Indices: 6415674--6415748 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
6415664 TAAACTATTG
* **
6415674 GATATATAGGTAAATTGTTA
1 GATATATTGGTAAATCCTTA
*
6415694 GATATTTTGGTAAATCCTTA
1 GATATATTGGTAAATCCTTA
* *
6415714 GAGATATTGGTAAAGTCTCATA
1 GATATATTGGTAAA-TC-CTTA
6415736 -A-ATATTGGTAAAT
1 GATATATTGGTAAAT
6415749 TGACGGAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.02
20 39 0.85
21 3 0.07
22 3 0.07
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (20 bp):
GATATATTGGTAAATCCTTA
Found at i:6415746 original size:60 final size:60
Alignment explanation
Indices: 6415677--6415789 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 60
6415667 ACTATTGGAT
** * *
6415677 ATATAGGTAAATTGTTAGATATTTTGGTAAATCCTTAGAGATATTGGTAAAGTCTCATAA
1 ATATAGGTAAATTGACAGAAATTTTGGTAAATCCTTAGAGATATTGATAAAGTCTCATAA
* * * * *
6415737 ATATTGGTAAATTGACGGAAATTTTGGTAAATCGTTAGATATTTTGATAAAGT
1 ATATAGGTAAATTGACAGAAATTTTGGTAAATCCTTAGAGATATTGATAAAGT
6415790 GATAGAAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.39
Consensus pattern (60 bp):
ATATAGGTAAATTGACAGAAATTTTGGTAAATCCTTAGAGATATTGATAAAGTCTCATAA
Found at i:6415780 original size:20 final size:20
Alignment explanation
Indices: 6415682--6415930 Score: 80
Period size: 20 Copynumber: 12.3 Consensus size: 20
6415672 TGGATATATA
* *
6415682 GGTAAATTGTTAGATATTTT
1 GGTAAATCGTTAGAAATTTT
* * *
6415702 GGTAAATCCTTAGAGATATT
1 GGTAAATCGTTAGAAATTTT
* * *
6415722 GGTAAAGTC-TCATAAATATT
1 GGTAAA-TCGTTAGAAATTTT
* ***
6415742 GGTAAATTGACGGAAATTTT
1 GGTAAATCGTTAGAAATTTT
*
6415762 GGTAAATCGTTAGATATTTT
1 GGTAAATCGTTAGAAATTTT
* * *
6415782 GATAAAGT-GATAGAAACTTT
1 GGTAAA-TCGTTAGAAATTTT
* * *
6415802 GGT-AATTGTTA-ATA-CTT
1 GGTAAATCGTTAGAAATTTT
** *
6415819 GGTATGGT-GTTTAGAAAATTT
1 GGTA-AATCG-TTAGAAATTTT
* *
6415840 GGAAATATTGGTAAGTAGAAATTTT
1 GGTAA-A-TCGT---TAGAAATTTT
* * *
6415865 GGTAGATCGTTAGATATATT
1 GGTAAATCGTTAGAAATTTT
* * *
6415885 GGTAAGTTC-TTAAAAATATT
1 GGTAA-ATCGTTAGAAATTTT
*
6415905 GGTAAATCGTTAGATATTTT
1 GGTAAATCGTTAGAAATTTT
6415925 GGTAAA
1 GGTAAA
6415931 GTTGAGGAAC
Statistics
Matches: 166, Mismatches: 46, Indels: 34
0.67 0.19 0.14
Matches are distributed among these distances:
17 5 0.03
18 4 0.02
19 12 0.07
20 116 0.70
21 10 0.06
22 2 0.01
23 4 0.02
24 1 0.01
25 12 0.07
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.39
Consensus pattern (20 bp):
GGTAAATCGTTAGAAATTTT
Found at i:6415891 original size:36 final size:37
Alignment explanation
Indices: 6415844--6415929 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 37
6415834 AAATTTGGAA
* * *
6415844 ATATTGGTAAG-TAGAAATTTTGGTAGATCGTTAGAT
1 ATATTGGTAAGTTAAAAATATTGGTAAATCGTTAGAT
6415880 ATATTGGTAAGTTCTTAAAAATATTGGTAAATCGTTAGAT
1 ATATTGGTAAG---TTAAAAATATTGGTAAATCGTTAGAT
*
6415920 ATTTTGGTAA
1 ATATTGGTAA
6415930 AGTTGAGGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 11 0.26
40 31 0.74
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (37 bp):
ATATTGGTAAGTTAAAAATATTGGTAAATCGTTAGAT
Found at i:6416029 original size:40 final size:39
Alignment explanation
Indices: 6415985--6416061 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 39
6415975 GAAAATTTGA
*
6415985 AAATATTGGTAAAATC-TTAGAAATTTTGGTAAAGTCTTAT
1 AAATATTGGTAAAA-CAATAGAAATTTTGGTAAA-TCTTAT
6416025 AAATATTGGTAAAACAATAGAAATTTTGGTAAATCTT
1 AAATATTGGTAAAACAATAGAAATTTTGGTAAATCTT
6416062 TAGAAATCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
39 5 0.14
40 30 0.86
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (39 bp):
AAATATTGGTAAAACAATAGAAATTTTGGTAAATCTTAT
Found at i:6416158 original size:20 final size:20
Alignment explanation
Indices: 6415985--6416159 Score: 106
Period size: 20 Copynumber: 8.8 Consensus size: 20
6415975 GAAAATTTGA
*
6415985 AAATATTGGTAAAATC-TTAG
1 AAATTTTGGT-AAATCTTTAG
*
6416005 AAATTTTGGTAAAGTC-TTAT
1 AAATTTTGGTAAA-TCTTTAG
* * **
6416025 AAATATTGGTAAAACAATAG
1 AAATTTTGGTAAATCTTTAG
6416045 AAATTTTGGTAAATCTTTAG
1 AAATTTTGGTAAATCTTTAG
** *
6416065 AAATCCTGATAAAT-TGTTAG
1 AAATTTTGGTAAATCT-TTAG
** * **
6416085 TTATATTGGTGAAAT-GATAG
1 AAATTTTGGT-AAATCTTTAG
* *
6416105 AAATTTTGGTAACTCATTAG
1 AAATTTTGGTAAATCTTTAG
* **
6416125 ATATTTAAGTAAATCTTTAG
1 AAATTTTGGTAAATCTTTAG
*
6416145 AAATTTCGGTAAATC
1 AAATTTTGGTAAATC
6416160 GTTAAATATT
Statistics
Matches: 116, Mismatches: 34, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
19 8 0.07
20 104 0.90
21 4 0.03
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.38
Consensus pattern (20 bp):
AAATTTTGGTAAATCTTTAG
Found at i:6416333 original size:20 final size:20
Alignment explanation
Indices: 6416310--6416444 Score: 101
Period size: 20 Copynumber: 6.8 Consensus size: 20
6416300 GATAAAATGA
*
6416310 TAGAAATTTTAATAAATCGT
1 TAGAAATTTTGATAAATCGT
* * *
6416330 TAGATATTTTGTTAAATCCT
1 TAGAAATTTTGATAAATCGT
* * * **
6416350 TAGAAATGTTGGTAAAACAA
1 TAGAAATTTTGATAAATCGT
6416370 TAGAAATTTTGATAAATCGT
1 TAGAAATTTTGATAAATCGT
* * *
6416390 TAGATATATTGATAAATAGT
1 TAGAAATTTTGATAAATCGT
** * * *
6416410 TAGATGTATTGGTAAATCCT
1 TAGAAATTTTGATAAATCGT
6416430 TA-AATATTTTGATAA
1 TAGAA-ATTTTGATAA
6416445 GACCATTGAA
Statistics
Matches: 88, Mismatches: 26, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
19 1 0.01
20 87 0.99
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (20 bp):
TAGAAATTTTGATAAATCGT
Found at i:6416444 original size:60 final size:60
Alignment explanation
Indices: 6416294--6416425 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 60
6416284 AAGTCTCCTT
* ** * * * *
6416294 AATATTGATAAAATGATAGAAATTTTAATAAATCGTTAGATATTTTGTTAAATCCTTAGA
1 AATATTGGTAAAACAATAGAAATTTTGATAAATCGTTAGATATATTGATAAATACTTAGA
* *
6416354 AATGTTGGTAAAACAATAGAAATTTTGATAAATCGTTAGATATATTGATAAATAGTTAGA
1 AATATTGGTAAAACAATAGAAATTTTGATAAATCGTTAGATATATTGATAAATACTTAGA
**
6416414 TGTATTGGTAAA
1 AATATTGGTAAA
6416426 TCCTTAAATA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (60 bp):
AATATTGGTAAAACAATAGAAATTTTGATAAATCGTTAGATATATTGATAAATACTTAGA
Found at i:6417995 original size:14 final size:15
Alignment explanation
Indices: 6417966--6417999 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
6417956 CATTTTCATT
6417966 TTCTTCTCCTTATTC
1 TTCTTCTCCTTATTC
6417981 TTCTTCTCC-TATTC
1 TTCTTCTCCTTATTC
6417995 TTCTT
1 TTCTT
6418000 ATTATTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.06, C:0.32, G:0.00, T:0.62
Consensus pattern (15 bp):
TTCTTCTCCTTATTC
Found at i:6420736 original size:131 final size:132
Alignment explanation
Indices: 6420409--6420929 Score: 638
Period size: 132 Copynumber: 4.0 Consensus size: 132
6420399 TTTAGAGAGT
* *
6420409 ATGAGTGAAATTCTAAAGGAATCTTCGATCATTTTG-GACAAAC-AGGAAATCGCAACCCAGCAC
1 ATGAGTGAAATTCTAAAGGGACCTTCGATCATTTTGAG-CAAACGA-GAAATCGCAACCCAGCAC
* * * * * * ** * * *
6420472 GATAGGGCACGATTCCCCGAATTGTCATACATCGAATATTACCCTCGTTTTGAAGAGTTTTTAGA
64 GTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAGA
*
6420537 AAAC
129 AGAC
* * * *
6420541 ATAAGTGAAATTCAAAAGGGACTTTCGATCATTTTGAACAAACGAGAAATCGCAACCCAGCACGT
1 ATGAGTGAAATTCTAAAGGGACCTTCGATCATTTTGAGCAAACGAGAAATCGCAACCCAGCACGT
*
6420606 TAAGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCG-TTTAAAGAATTTTTA-AAG
66 TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAGAA-
6420669 GAC
130 GAC
* * * * * *
6420672 ATGGGTGAAATTCTAAAGGGACCTTCAATTACTTTGAGCAAACGAGAAATTGCAACCCAACACGT
1 ATGAGTGAAATTCTAAAGGGACCTTCGATCATTTTGAGCAAACGAGAAATCGCAACCCAGCACGT
* *
6420737 TAGGGCACGATTCCGCGAATTGCCAAATATCGAATATCGCCTTCGTTTTAAAGGATTTTTAGAAG
66 TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAGAAG
6420802 AC
131 AC
* * ** * * * *
6420804 ATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAACCGATAAATTGCAACCCAGCACGT
1 ATGAGTGAAATTCTAAAGGGACCTTCGATCATTTTGAGCAAACGAGAAATCGCAACCCAGCACGT
* *
6420869 TAGGGCACGATTTCGCGAATTGCCAAATATCAAATC-TCGCCTTCGTTTTAAAGAATTTTTA
66 TAGGGCACGATTCCGCGAATTGCCAAATATCGAA-CATCGCCTTCGTTTTAAAGAATTTTTA
6420930 AACGAATAAT
Statistics
Matches: 337, Mismatches: 46, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
130 2 0.01
131 113 0.34
132 219 0.65
133 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (132 bp):
ATGAGTGAAATTCTAAAGGGACCTTCGATCATTTTGAGCAAACGAGAAATCGCAACCCAGCACGT
TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAGAAG
AC
Found at i:6420880 original size:263 final size:264
Alignment explanation
Indices: 6420413--6420931 Score: 690
Period size: 263 Copynumber: 2.0 Consensus size: 264
6420403 GAGAGTATGA
* * * *
6420413 GTGAAATTCTAAAGGAATCTTCGATCATTTTGGACAAACAGGAAATCGCAACCCAGCACGATAGG
1 GTGAAATTCTAAAGGAACCTTCAATCACTTTGGACAAACAGGAAATCGCAACCCAACACGATAGG
* * * *
6420478 GCACGATTCCCCGAATTGTCATACATCGAATATTACCCTCGTTTTGAAGAGTTTTTAGAAAACAT
66 GCACGATTCCCCGAATTGCCAAACATCGAATATCACCCTCGTTTTAAAGAGTTTTTAGAAAACAT
6420543 AAGTGAAATTCAAAAGGGACTTTCGATCATTTTGAACAAACGAGAAATCGCAACCCAGCACGTTA
131 AAGTGAAATTCAAAAGGGACTTTCGATCATTTTGAACAAACGAGAAATCGCAACCCAGCACGTTA
*
6420608 AGGCACGATTCCGCGAATTGCCAAATATCGAA-CATCGCCTTCG-TTTAAAGAATTTTTAAAGGA
196 AGGCACGATTCCGCGAATTGCCAAATATCAAATC-TCGCCTTCGTTTTAAAGAATTTTTAAAGGA
6420671 CATGG
260 CATGG
* * * *
6420676 GTGAAATTCTAAAGGGACCTTCAATTACTTT-GAGCAAAC-GAGAAATTGCAACCCAACACGTTA
1 GTGAAATTCTAAAGGAACCTTCAATCACTTTGGA-CAAACAG-GAAATCGCAACCCAACACGATA
* * * * *
6420739 GGGCACGATTCCGCGAATTGCCAAATATCGAATATCGCCTTCGTTTTAAAG-GATTTTTAGAAGA
64 GGGCACGATTCCCCGAATTGCCAAACATCGAATATCACCCTCGTTTTAAAGAG-TTTTTAGAAAA
* *** * * * * *
6420803 CATGAGTGAAATTTTGAAGGGA-TATTCGATTATTTTGAGCAACCGATAAATTGCAACCCAGCAC
128 CATAAGTGAAATTCAAAAGGGACT-TTCGATCATTTTGAACAAACGAGAAATCGCAACCCAGCAC
* *
6420867 GTTAGGGCACGATTTCGCGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAA
192 GTTAAGGCACGATTCCGCGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAA
6420932 CGAATAATTA
Statistics
Matches: 221, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
262 5 0.02
263 198 0.90
264 18 0.08
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (264 bp):
GTGAAATTCTAAAGGAACCTTCAATCACTTTGGACAAACAGGAAATCGCAACCCAACACGATAGG
GCACGATTCCCCGAATTGCCAAACATCGAATATCACCCTCGTTTTAAAGAGTTTTTAGAAAACAT
AAGTGAAATTCAAAAGGGACTTTCGATCATTTTGAACAAACGAGAAATCGCAACCCAGCACGTTA
AGGCACGATTCCGCGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAAGGAC
ATGG
Found at i:6423073 original size:24 final size:23
Alignment explanation
Indices: 6423046--6423130 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 23
6423036 CGAGCTAAAT
*
6423046 TTTAGCTCAACTTCAGCTTAGGAG
1 TTTAGCTCAGC-TCAGCTTAGGAG
6423070 TTTAGCCTCAGCTCAGCTTAGGAG
1 TTTAG-CTCAGCTCAGCTTAGGAG
*
6423094 TTTAGCATCAGCTCAGCTTAAGAG
1 TTTAGC-TCAGCTCAGCTTAGGAG
6423118 TTTAGCCTCAGCT
1 TTTAG-CTCAGCT
6423131 TAGACACGAA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
23 1 0.02
24 49 0.88
25 6 0.11
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (23 bp):
TTTAGCTCAGCTCAGCTTAGGAG
Found at i:6438699 original size:3 final size:3
Alignment explanation
Indices: 6438691--6438721 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
6438681 GTAGGGAAGC
*
6438691 TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6438722 TAATTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:6438947 original size:13 final size:13
Alignment explanation
Indices: 6438929--6438953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6438919 AATAACTGTT
6438929 TTTGGTTATATTA
1 TTTGGTTATATTA
6438942 TTTGGTTATATT
1 TTTGGTTATATT
6438954 TATGAAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (13 bp):
TTTGGTTATATTA
Found at i:6448457 original size:23 final size:23
Alignment explanation
Indices: 6448427--6448479 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
6448417 GGAGGTGTTT
6448427 GGCAATGGATCAAAACATTAAGG
1 GGCAATGGATCAAAACATTAAGG
6448450 GGCAATGGATCAAAACATTAAGG
1 GGCAATGGATCAAAACATTAAGG
*
6448473 GACAATG
1 GGCAATG
6448480 ACGATGAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.17
Consensus pattern (23 bp):
GGCAATGGATCAAAACATTAAGG
Found at i:6451957 original size:15 final size:15
Alignment explanation
Indices: 6451939--6451968 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6451929 CTCCTTACTA
*
6451939 TTACAATTCACCACC
1 TTACAAGTCACCACC
6451954 TTACAAGTCACCACC
1 TTACAAGTCACCACC
6451969 GCCGCCTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.40, G:0.03, T:0.23
Consensus pattern (15 bp):
TTACAAGTCACCACC
Found at i:6452046 original size:48 final size:48
Alignment explanation
Indices: 6451988--6452607 Score: 524
Period size: 48 Copynumber: 12.9 Consensus size: 48
6451978 ACCTAGTCCT
* *
6451988 CCACCACCTTACTACTACAAGTCTCCACCTCCACCATCTCCTTCACCA
1 CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCTTCACCA
* * * * * * * *
6452036 CCTCCTCCTTACTATTACAAATCACCACCACCCCCTTCACCTAGTCCCCA
1 CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCT--TCACCA
* *
6452086 CCA--T-CATACTACTACAACTCACCACCTCCACCATCTCCTTCACCA
1 CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCTTCACCA
* * * * *
6452131 CCTCCTCCTTACTACTACAAATCACCACCACCACCCTCACCTAGTC-CC-
1 CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCT--TCACCA
* *
6452179 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTTCACCA
1 CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCTTCACCA
* * * * * *
6452227 CCCCCTCCTTACTATTACAAGTCTCCACCCCCACCCTCACCTAGTC-CC-
1 CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCT--TCACCA
* *
6452275 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTTCACCA
1 CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCTTCACCA
* * * * * * *
6452323 CCTCCTCCTTACTATTACAAGTCTCCACCCCCGCCCTCACCTAGTC-CC-
1 CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCT--TCACCA
* * * *
6452371 CCACCACCATACTACTACAAGTCACCACCTCCACCGTCTCCCTCACCA
1 CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCTTCACCA
* * * * *
6452419 CCTCCTCCTTACTACTACAAATCACCACCACCACCCTCACCTAGTC-CC-
1 CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCT--TCACCA
* * *
6452467 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCA
1 CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCTTCACCA
* * * * * *** *
6452515 CCTCCTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCT
1 CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCTTCACCA
* * *
6452563 CCACCACCATACTACTACAAGTCTCCAGTACCTCCACCATCTCCT
1 CCACCTCCTTACTACTACAAGTCACC---ACCTCCACCATCTCCT
6452608 AGTCCCCCAC
Statistics
Matches: 445, Mismatches: 103, Indels: 45
0.75 0.17 0.08
Matches are distributed among these distances:
45 7 0.02
46 8 0.02
47 37 0.08
48 357 0.80
49 8 0.02
50 15 0.03
51 13 0.03
ACGTcount: A:0.25, C:0.51, G:0.03, T:0.21
Consensus pattern (48 bp):
CCACCTCCTTACTACTACAAGTCACCACCTCCACCATCTCCTTCACCA
Found at i:6452061 original size:96 final size:96
Alignment explanation
Indices: 6451954--6452607 Score: 1024
Period size: 96 Copynumber: 6.8 Consensus size: 96
6451944 ATTCACCACC
* * * * * * *
6451954 TTACAAGTCACCACCGCCGCCTTCACCTAGTCCTCCACCACCTTACTACTACAAGTCTCCACCTC
1 TTACAAATCACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTC
6452019 CACCATCTCCTTCACCACCTCCTCCTTACTA
66 CACCATCTCCTTCACCACCTCCTCCTTACTA
* *
6452050 TTACAAATCACCACCACC-CCCTTCACCTAGT-CCCCACCATCATACTACTACAACTCACCACCT
1 TTACAAATCACCACCACCACCC-TCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCT
6452113 CCACCATCTCCTTCACCACCTCCTCCTTACTA
65 CCACCATCTCCTTCACCACCTCCTCCTTACTA
*
6452145 CTACAAATCACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTC
1 TTACAAATCACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTC
*
6452210 CACCATCTCCTTCACCACCCCCTCCTTACTA
66 CACCATCTCCTTCACCACCTCCTCCTTACTA
* * *
6452241 TTACAAGTCTCCACCCCCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTC
1 TTACAAATCACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTC
6452306 CACCATCTCCTTCACCACCTCCTCCTTACTA
66 CACCATCTCCTTCACCACCTCCTCCTTACTA
* * * *
6452337 TTACAAGTCTCCACCCCCGCCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTC
1 TTACAAATCACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTC
* *
6452402 CACCGTCTCCCTCACCACCTCCTCCTTACTA
66 CACCATCTCCTTCACCACCTCCTCCTTACTA
*
6452433 CTACAAATCACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTC
1 TTACAAATCACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTC
*
6452498 CACCATCTCCCTCACCACCTCCTCCTTACTA
66 CACCATCTCCTTCACCACCTCCTCCTTACTA
* * * *
6452529 CTACAAATCACCACCACCACCTTCACCTAGTCCTCCACCACCATACTACTACAAGTCTCCAGTAC
1 TTACAAATCACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACC---AC
6452594 CTCCACCATCTCCT
63 CTCCACCATCTCCT
6452608 AGTCCCCCAC
Statistics
Matches: 522, Mismatches: 30, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
95 87 0.17
96 420 0.80
99 15 0.03
ACGTcount: A:0.25, C:0.50, G:0.03, T:0.21
Consensus pattern (96 bp):
TTACAAATCACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTC
CACCATCTCCTTCACCACCTCCTCCTTACTA
Found at i:6452638 original size:21 final size:21
Alignment explanation
Indices: 6452596--6452663 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
6452586 TCCAGTACCT
6452596 CCACCATCTCCTAGTC-CC-CCA
1 CCACCATCTCC-A-TCACCACCA
*
6452617 CCACCATCTCCCTCACCACCA
1 CCACCATCTCCATCACCACCA
* * * *
6452638 CCTCCTTCTCCATCACCCCCG
1 CCACCATCTCCATCACCACCA
6452659 CCACC
1 CCACC
6452664 TTACTATTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 34 0.89
ACGTcount: A:0.18, C:0.62, G:0.03, T:0.18
Consensus pattern (21 bp):
CCACCATCTCCATCACCACCA
Found at i:6452665 original size:21 final size:21
Alignment explanation
Indices: 6452611--6452665 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
6452601 ATCTCCTAGT
* *
6452611 CCCCCACCACCATCTCCCTCA
1 CCCCCACCACCTTCTCCATCA
* *
6452632 CCACCACCTCCTTCTCCATCA
1 CCCCCACCACCTTCTCCATCA
*
6452653 CCCCCGCCACCTT
1 CCCCCACCACCTT
6452666 ACTATTATAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.64, G:0.02, T:0.18
Consensus pattern (21 bp):
CCCCCACCACCTTCTCCATCA
Found at i:6454432 original size:31 final size:30
Alignment explanation
Indices: 6454388--6454445 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
6454378 ATTATTTATT
6454388 TATTTGAAAG-TTTTAGTTTAAGTCATTGAAC
1 TATTTGAAAGTTTTTA-TTT-AGTCATTGAAC
* *
6454419 TATTTTAACGTTTTTATTTAGTCATTG
1 TATTTGAAAGTTTTTATTTAGTCATTG
6454446 GGTTATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.33
31 11 0.46
32 5 0.21
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (30 bp):
TATTTGAAAGTTTTTATTTAGTCATTGAAC
Found at i:6464215 original size:5 final size:5
Alignment explanation
Indices: 6464205--6464230 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6464195 ATTGAAATAC
6464205 ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA A
6464231 ACGTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:6469086 original size:18 final size:18
Alignment explanation
Indices: 6469063--6469100 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6469053 AAATTGAACA
* *
6469063 AATGCCTGCAAACCGGTT
1 AATGCCCGCAAACCGATT
6469081 AATGCCCGCAAACCGATT
1 AATGCCCGCAAACCGATT
6469099 AA
1 AA
6469101 ACCCAAGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.18
Consensus pattern (18 bp):
AATGCCCGCAAACCGATT
Found at i:6471230 original size:42 final size:42
Alignment explanation
Indices: 6471171--6471282 Score: 152
Period size: 42 Copynumber: 2.7 Consensus size: 42
6471161 CGTTTCCTCG
* *
6471171 ATGCCATAGTCCAACTATGGTCTTACACATCTTCACATAATA
1 ATGCCATAGCCCAACTATGGTCTTACACATATTCACATAATA
* * *
6471213 ATGCCATAGCCCAACTATGATCTTACATATATTCACATATTA
1 ATGCCATAGCCCAACTATGGTCTTACACATATTCACATAATA
* * *
6471255 ATGCCATAACCCAGCTATAGTCTTACAC
1 ATGCCATAGCCCAACTATGGTCTTACAC
6471283 GTAATCATAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATTCACATAATA
Found at i:6471292 original size:50 final size:49
Alignment explanation
Indices: 6471245--6471428 Score: 219
Period size: 50 Copynumber: 3.7 Consensus size: 49
6471235 TTACATATAT
** * *
6471245 TCACATATTAATGCCATAACCCAGCTATAGTCTTACACGTAATCATAT-A
1 TCACATATCGATGCCATAGCCCAGCTATAGTCTTACACG-AATCACATAA
* * *
6471294 TCACGTATTGATGCCATAGCCCAGCTATCA-TCTTATACGAGATCACATAA
1 TCACATATCGATGCCATAGCCCAGCTAT-AGTCTTACACGA-ATCACATAA
* * *
6471344 TCACATACCGATGCCATAGCCCAGCTATGGTCTTACATAGAATCACATAA
1 TCACATATCGATGCCATAGCCCAGCTATAGTCTTACA-CGAATCACATAA
*
6471394 TCACATATCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATATCGATGCCATAGCCCAGCTATAGTCTTA
6471429 TACACATAAT
Statistics
Matches: 118, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 39 0.33
50 76 0.64
51 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.28
Consensus pattern (49 bp):
TCACATATCGATGCCATAGCCCAGCTATAGTCTTACACGAATCACATAA
Found at i:6474463 original size:18 final size:17
Alignment explanation
Indices: 6474430--6474468 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
6474420 TTGTATAAAT
6474430 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
6474448 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
6474465 TGTG
1 TGTG
6474469 GAAGGAAAGT
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:6474721 original size:23 final size:23
Alignment explanation
Indices: 6474694--6474791 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
6474684 AGTGTTATTG
6474694 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
6474717 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
6474740 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
6474762 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
6474785 ATCAGTG
1 ATCAGTG
6474792 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:6474760 original size:45 final size:45
Alignment explanation
Indices: 6474696--6474784 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
6474686 TGTTATTGAT
* *
6474696 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
6474741 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
6474785 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:6481835 original size:18 final size:17
Alignment explanation
Indices: 6481802--6481840 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
6481792 TTGTATAAAT
6481802 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
6481820 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
6481837 TGTG
1 TGTG
6481841 GAAGGAAAGT
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:6482093 original size:23 final size:23
Alignment explanation
Indices: 6482066--6482163 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
6482056 AGTGTTATTG
6482066 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
6482089 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
6482112 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
6482134 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
6482157 ATCAGTG
1 ATCAGTG
6482164 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:6482132 original size:45 final size:45
Alignment explanation
Indices: 6482068--6482156 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
6482058 TGTTATTGAT
* *
6482068 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
6482113 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
6482157 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:6485000 original size:31 final size:32
Alignment explanation
Indices: 6484960--6485019 Score: 113
Period size: 31 Copynumber: 1.9 Consensus size: 32
6484950 TTAATTTCCG
6484960 ATATCTCATTTGTAACCTTTTTACTTATTATC
1 ATATCTCATTTGTAACCTTTTTACTTATTATC
6484992 ATAT-TCATTTGTAACCTTTTTACTTATT
1 ATATCTCATTTGTAACCTTTTTACTTATT
6485020 TCACAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.25, C:0.17, G:0.03, T:0.55
Consensus pattern (32 bp):
ATATCTCATTTGTAACCTTTTTACTTATTATC
Done.