Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 10 of 218
Found at i:3788950 original size:30 final size:31
Alignment explanation
Indices: 3788907--3788968 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
3788897 ATTGGGGGGT
* *
3788907 TGGGAAGGGAGTAAAAGTTTTGGGGGGAAAG
1 TGGGAAGGGAGTAAAAGTTTTGAGGGAAAAG
3788938 TGGGAA-GGAGTAAAAGTTTTGAGGGAAAAG
1 TGGGAAGGGAGTAAAAGTTTTGAGGGAAAAG
3788968 T
1 T
3788969 AAAAAAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.44, T:0.21
Consensus pattern (31 bp):
TGGGAAGGGAGTAAAAGTTTTGAGGGAAAAG
Found at i:3789032 original size:9 final size:9
Alignment explanation
Indices: 3789018--3789054 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
3789008 TATAGTTTGA
3789018 TATTCGAAT
1 TATTCGAAT
3789027 TATTCGAAT
1 TATTCGAAT
*
3789036 TATTCGAGT
1 TATTCGAAT
3789045 TATTCGAAT
1 TATTCGAAT
3789054 T
1 T
3789055 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:3789124 original size:18 final size:18
Alignment explanation
Indices: 3789098--3789141 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3789088 AAAAAAATAT
*
3789098 TCGAGTTAATTCGAATAAC
1 TCGA-TTAACTCGAATAAC
3789117 TCGATTAACTCGAATAAC
1 TCGATTAACTCGAATAAC
*
3789135 TCAATTA
1 TCGATTA
3789142 GTTTAACTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (18 bp):
TCGATTAACTCGAATAAC
Found at i:3793331 original size:5 final size:5
Alignment explanation
Indices: 3793321--3793345 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3793311 AACTTAATGC
3793321 ATGTA ATGTA ATGTA ATGTA ATGTA
1 ATGTA ATGTA ATGTA ATGTA ATGTA
3793346 GATGCATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATGTA
Found at i:3796422 original size:500 final size:500
Alignment explanation
Indices: 3795476--3796466 Score: 1784
Period size: 500 Copynumber: 2.0 Consensus size: 500
3795466 GCGTACCAAA
3795476 CTCGGACGGCCGCATTATCTTCCACTTTACCAAGAAACTCCCTTTCCATATTGAGTTCTCTATTT
1 CTCGGACGGCCGCATTATCTTCCACTTTACCAAGAAACTCCCTTTCCATATTGAGTTCTCTATTT
3795541 AAATAATAAACACGAATCAACACCTCTTTTATGATGAGAATGCCATGCAATCACAATCAAGGTAA
66 AAATAATAAACACGAATCAACACCTCTTTTATGATGAGAATGCCATGCAATCACAATCAAGGTAA
3795606 AAGCAAAGCAAGTCAATATAACAATAAACTAAAATTTAAAGTATACAAGGAATAATAATTAAAGC
131 AAGCAAAGCAAGTCAATATAACAATAAACTAAAATTTAAAGTATACAAGGAATAATAATTAAAGC
*
3795671 TACTATTCAGGAAACTACTAGGGTTTGAGGTGGTTCTACCTAGGGTAGGCTCCTAGGGCTCATTA
196 TACTATTCAGGAAACTACTAGGGTTCGAGGTGGTTCTACCTAGGGTAGGCTCCTAGGGCTCATTA
** *
3795736 AATGCGGTTCGGCTCTAAAGCAAAGGTACCCGAACCAGTAAATTCCTTTATCCTCACCCATTATA
261 AATGCGGTTCGGCTCTAAAGCAAAGGTACCCGAACCAACAAATTCCTCTATCCTCACCCATTATA
* * *
3795801 GGCTCATACGGAGTGAGTTCGGTTCAGGGGAATACATTTCCCTATGGCTGCACGGAGATGAAAAT
326 GGCTCATACGGAGCGAGTTCAGTTCAGGGGAATACATTTCCCTATGGCTGCACGAAGATGAAAAT
* * * *
3795866 CTCATGAATACATAGGTACAGATGTATCCTGAAAGCGATCCGCTATCCTGCACGGAGGTGAAAAC
391 CTCATGAAGACATAGGTACAGATGTATCCCGAAAGCGATCCGCTATCCTACACGGAGATGAAAAC
*
3795931 CTCACGAATGAGTAGCTTCTCACTCCCACTTAAAAGGGTGAAAAC
456 CTCACGAAGGAGTAGCTTCTCACTCCCACTTAAAAGGGTGAAAAC
*
3795976 CTCGGACGGCCGCATTATCTTCCACTTTACCAAGAAACTCCCTTTCCATGTTGAGTTCTCTATTT
1 CTCGGACGGCCGCATTATCTTCCACTTTACCAAGAAACTCCCTTTCCATATTGAGTTCTCTATTT
* * *
3796041 AAATAATGAACGCGAATCAACACCTCTTTTATGATGAGAATGTCATGCAATCACAATCAAGGTAA
66 AAATAATAAACACGAATCAACACCTCTTTTATGATGAGAATGCCATGCAATCACAATCAAGGTAA
*
3796106 AAGCAAAGCAAGTCAGTATAACAATAAACTAAAATTTAAAGTATACAAGGAATAATAATTAAAGC
131 AAGCAAAGCAAGTCAATATAACAATAAACTAAAATTTAAAGTATACAAGGAATAATAATTAAAGC
3796171 TACTATTCAGGAAACTACTAGGGTTCGAGGTGGTTCTACCTAGGGTAGGCTCCTAGGGCTCATTA
196 TACTATTCAGGAAACTACTAGGGTTCGAGGTGGTTCTACCTAGGGTAGGCTCCTAGGGCTCATTA
*
3796236 CATGCGGTTCGGCTCTAAAGCAAAGGTACCCGAACCAACAAATTCCTCTATCCTCACCCATTATA
261 AATGCGGTTCGGCTCTAAAGCAAAGGTACCCGAACCAACAAATTCCTCTATCCTCACCCATTATA
*
3796301 GGCTCATACGGAGCGAGTTCAGTTCAGGGGAATACATTTCCCTATGGCTGCACGAATATGAAAAT
326 GGCTCATACGGAGCGAGTTCAGTTCAGGGGAATACATTTCCCTATGGCTGCACGAAGATGAAAAT
**
3796366 CTCATGAAGACATAGGTATGGATGTATCCCGAAAGCGATCCGCTATCCTACACGGAGATGAAAAC
391 CTCATGAAGACATAGGTACAGATGTATCCCGAAAGCGATCCGCTATCCTACACGGAGATGAAAAC
*
3796431 CTCACGAAGGAGTAGCTTCTCACTCTCACTTAAAAG
456 CTCACGAAGGAGTAGCTTCTCACTCCCACTTAAAAG
3796467 AGTGTGACCA
Statistics
Matches: 469, Mismatches: 22, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
500 469 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (500 bp):
CTCGGACGGCCGCATTATCTTCCACTTTACCAAGAAACTCCCTTTCCATATTGAGTTCTCTATTT
AAATAATAAACACGAATCAACACCTCTTTTATGATGAGAATGCCATGCAATCACAATCAAGGTAA
AAGCAAAGCAAGTCAATATAACAATAAACTAAAATTTAAAGTATACAAGGAATAATAATTAAAGC
TACTATTCAGGAAACTACTAGGGTTCGAGGTGGTTCTACCTAGGGTAGGCTCCTAGGGCTCATTA
AATGCGGTTCGGCTCTAAAGCAAAGGTACCCGAACCAACAAATTCCTCTATCCTCACCCATTATA
GGCTCATACGGAGCGAGTTCAGTTCAGGGGAATACATTTCCCTATGGCTGCACGAAGATGAAAAT
CTCATGAAGACATAGGTACAGATGTATCCCGAAAGCGATCCGCTATCCTACACGGAGATGAAAAC
CTCACGAAGGAGTAGCTTCTCACTCCCACTTAAAAGGGTGAAAAC
Found at i:3802073 original size:11 final size:10
Alignment explanation
Indices: 3802053--3802079 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3802043 CACCCATATT
3802053 ATTTTTAAAA
1 ATTTTTAAAA
3802063 ATTTTTAAAA
1 ATTTTTAAAA
3802073 ATTTTTA
1 ATTTTTA
3802080 TATTATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTTTAAAA
Found at i:3803597 original size:18 final size:19
Alignment explanation
Indices: 3803561--3803597 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3803551 TGATTGTCGG
*
3803561 AGGTGAAATGAACACATAT
1 AGGTGAAATCAACACATAT
3803580 AGGTGAAATCAA-ACATAT
1 AGGTGAAATCAACACATAT
3803598 TTCAGGATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (19 bp):
AGGTGAAATCAACACATAT
Found at i:3803850 original size:31 final size:30
Alignment explanation
Indices: 3803815--3803880 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
3803805 TTAATAAAAG
* * *
3803815 TAAAATTGTATTTTGATTTCTTTAAAAATTA
1 TAAAATTGTAATTT-AATCCTTTAAAAATTA
*
3803846 TAAAATTTTAATTTAATCCTTTAAAAATTA
1 TAAAATTGTAATTTAATCCTTTAAAAATTA
3803876 TAAAA
1 TAAAA
3803881 ATATAGACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (30 bp):
TAAAATTGTAATTTAATCCTTTAAAAATTA
Found at i:3804462 original size:22 final size:23
Alignment explanation
Indices: 3804433--3804483 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
3804423 AATTTATTTT
* *
3804433 ATAA-TAAGATGATAT-TTTATA
1 ATAATTAAGATCATATATATATA
3804454 ATAATTAAGATCATATATATATA
1 ATAATTAAGATCATATATATATA
3804477 A-AATTAA
1 ATAATTAA
3804484 TGATAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.15
22 16 0.62
23 6 0.23
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (23 bp):
ATAATTAAGATCATATATATATA
Found at i:3804640 original size:22 final size:23
Alignment explanation
Indices: 3804596--3804649 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
3804586 AATAATTTAA
*
3804596 ATAAATACTCATATTTATATAAT
1 ATAAATATTCATATTTATATAAT
*
3804619 -TAAAATATTCATATTT-TTTAAT
1 AT-AAATATTCATATTTATATAAT
3804641 ATAAATATT
1 ATAAATATT
3804650 TATTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAAATATTCATATTTATATAAT
Found at i:3804645 original size:23 final size:23
Alignment explanation
Indices: 3804590--3804649 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
3804580 GCAAAGAATA
*
3804590 ATTTAA-ATAAATACTCATATTT
1 ATTTAATATAAATATTCATATTT
*
3804612 ATATAAT-TAAAATATTCATATTT
1 ATTTAATAT-AAATATTCATATTT
3804635 -TTTAATATAAATATT
1 ATTTAATATAAATATT
3804650 TATTATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTAATATAAATATTCATATTT
Found at i:3804738 original size:17 final size:17
Alignment explanation
Indices: 3804691--3804741 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
3804681 ACTTTTTAAT
3804691 ATTA-AATAATTTATTA
1 ATTATAATAATTTATTA
*
3804707 A-AATAATAAATTTTATTA
1 ATTATAAT-AA-TTTATTA
3804725 ATTATAATAATTTATTA
1 ATTATAATAATTTATTA
3804742 TGTTATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 1 0.03
16 4 0.14
17 9 0.31
18 10 0.34
19 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATAATAATTTATTA
Found at i:3814959 original size:6 final size:6
Alignment explanation
Indices: 3814948--3814976 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3814938 GAAAATAGAG
3814948 GGAGAA GGAGAA GGAGAA GGAGAA -GAGAA
1 GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA
3814977 TGAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
GGAGAA
Found at i:3838216 original size:23 final size:22
Alignment explanation
Indices: 3838165--3838216 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
3838155 CCTCGTCTTT
*
3838165 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
3838187 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
3838210 TTCTTTT
1 TTCTTTT
3838217 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:3838225 original size:12 final size:12
Alignment explanation
Indices: 3838174--3838228 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
3838164 TTTCTTTTGT
3838174 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
3838187 -TCATTTTC-TC
1 TTCTTTTTCAAC
3838197 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
3838210 TTCTTTTTCAAT
1 TTCTTTTTCAAC
3838222 TTCTTTT
1 TTCTTTT
3838229 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:3838235 original size:17 final size:18
Alignment explanation
Indices: 3838210--3838247 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
3838200 TTTCTTCAAC
* *
3838210 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
3838227 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
3838245 TTC
1 TTC
3838248 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:3840583 original size:4 final size:4
Alignment explanation
Indices: 3840574--3840605 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
3840564 TTAAACTAAG
3840574 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
3840606 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:3842592 original size:17 final size:17
Alignment explanation
Indices: 3842570--3842603 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3842560 AAGGAGGACT
3842570 ATAATAAT-ATAATCATA
1 ATAATAATCAT-ATCATA
3842587 ATAATAATCATATCATA
1 ATAATAATCATATCATA
3842604 GGAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATAATCATATCATA
Found at i:3842829 original size:21 final size:20
Alignment explanation
Indices: 3842796--3842863 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
3842786 TATTGATGAT
3842796 AATAAAATAATAATAAATAA
1 AATAAAATAATAATAAATAA
3842816 AATAAAACTAATAAT-AATAA
1 AATAAAA-TAATAATAAATAA
* * *
3842836 AGGTAAAAAGAAAAATAAA-AA
1 A-AT-AAAATAATAATAAATAA
3842857 AATAAAA
1 AATAAAA
3842864 ATGAATACAC
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.10
20 14 0.35
21 16 0.40
22 6 0.15
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (20 bp):
AATAAAATAATAATAAATAA
Found at i:3842852 original size:24 final size:22
Alignment explanation
Indices: 3842794--3842863 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 22
3842784 TATATTGATG
3842794 ATAATAAAATAATAATAAATAAA
1 ATAA-AAAATAATAATAAATAAA
3842817 ATAAAACTAATAATAATAAAGGTAAA
1 ATAAAA--AATAATAATAAA--TAAA
3842843 A-AGAAAAATAA-AA-AAATAAA
1 ATA-AAAAATAATAATAAATAAA
3842863 A
1 A
3842864 ATGAATACAC
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
20 5 0.12
22 5 0.12
23 6 0.14
24 17 0.40
25 1 0.02
26 8 0.19
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.20
Consensus pattern (22 bp):
ATAAAAAATAATAATAAATAAA
Found at i:3843533 original size:45 final size:45
Alignment explanation
Indices: 3843465--3843674 Score: 237
Period size: 44 Copynumber: 4.7 Consensus size: 45
3843455 GTGGATCCTA
*
3843465 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATAT
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCT
** * * * *
3843510 TTTCTACAGCAACTTCATG-GAGATAAGATTT-ATAGCTTTAATCT
1 GCTCTACTGCAACTTCA-GAGAGATAAGATTTGCTATCTTCAATCT
* * *
3843554 GCTCTACTGCAATTTTAGAGAGATAAGATTTTCTATCTTCAATCT
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCT
* *
3843599 GCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCT
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCT
* * * * *
3843643 ACTCCACTGCCACTTCAGGGAGATAATATTTG
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTG
3843675 TAACTTATAG
Statistics
Matches: 139, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 74 0.53
45 63 0.45
46 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (45 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCT
Found at i:3843621 original size:89 final size:89
Alignment explanation
Indices: 3843465--3843674 Score: 267
Period size: 89 Copynumber: 2.4 Consensus size: 89
3843455 GTGGATCCTA
** * *
3843465 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATATTTTCTACAGCAACTTCATGG
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATATGCTCCACAGCAACTTCAGGG
*
3843530 AGATAAGATTTATAGCTTTAATCT
66 AGATAAGATTTATAGCTTCAATCT
* * * * *
3843554 GCTCTACTGCAATTTTAGAGAGATAAGATTTTCTATCTTCAATCTGCTCCACTGCAACTTCAGGG
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATATGCTCCACAGCAACTTCAGGG
* *
3843619 AGATAAGATTTGTATCTTCAATCT
66 AGATAAGATTTATAGCTTCAATCT
* * * * *
3843643 ACTCCACTGCCACTTCAGGGAGATAATATTTG
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTG
3843675 TAACTTATAG
Statistics
Matches: 101, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
89 101 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (89 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATATGCTCCACAGCAACTTCAGGG
AGATAAGATTTATAGCTTCAATCT
Found at i:3845910 original size:51 final size:50
Alignment explanation
Indices: 3845834--3846106 Score: 447
Period size: 51 Copynumber: 5.4 Consensus size: 50
3845824 TCGGGCTGTT
*
3845834 ACAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTG
1 ACAAGTGACAAGTGATAAGT-GTAGCTTTAGCTACACTTATCTGATCAGTG
*
3845885 ACAAGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGACCAGTG
1 ACAAGTGACAAGTGATAAGT-GTAGCTTTAGCTACACTTATCTGATCAGTG
3845936 ACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTG
1 ACAAGTGACAAGTGATAAGT-GTAGCTTTAGCTACACTTATCTGATCAGTG
* *
3845987 ACAAGTAACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGGG
1 ACAAGTGACAAGTGATAAGTG-TAGCTTTAGCTACACTTATCTGATCAGTG
* *
3846038 ACAAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATTAGGG
1 ACAAGTGACAAGTGATAAGTG-TAGCTTTAGCTACACTTATCTGATCAGTG
3846089 ACAAGTGACAAGTGATAA
1 ACAAGTGACAAGTGATAA
3846107 ATGTGATCCG
Statistics
Matches: 213, Mismatches: 8, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
50 1 0.00
51 212 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (50 bp):
ACAAGTGACAAGTGATAAGTGTAGCTTTAGCTACACTTATCTGATCAGTG
Found at i:3846840 original size:45 final size:45
Alignment explanation
Indices: 3846749--3846846 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
3846739 GGGTAAGGGG
* **
3846749 TGTTACACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAATC
1 TGTTACACTGCAACTTCAGGGAAATAAGATTAGCTATCACTAATC
* * * * *
3846794 TGTTACACTGCAACTTTAGGGAGATAAGATTAGGTTTCACTGATC
1 TGTTACACTGCAACTTCAGGGAAATAAGATTAGCTATCACTAATC
3846839 TGTTACAC
1 TGTTACAC
3846847 CATTCTCTAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (45 bp):
TGTTACACTGCAACTTCAGGGAAATAAGATTAGCTATCACTAATC
Found at i:3848954 original size:15 final size:15
Alignment explanation
Indices: 3848934--3848974 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
3848924 GAGCGCCAGG
*
3848934 TCTTTTTTTTTTTTT
1 TCTTTTTTTTTTATT
*
3848949 TCTTTTCTTTTTATT
1 TCTTTTTTTTTTATT
3848964 TCTATTTTTTT
1 TCT-TTTTTTT
3848975 ACAAGTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (15 bp):
TCTTTTTTTTTTATT
Found at i:3849893 original size:43 final size:43
Alignment explanation
Indices: 3849799--3849879 Score: 139
Period size: 41 Copynumber: 1.9 Consensus size: 43
3849789 TAAACACCAA
*
3849799 AAAAATATTTTAAAAATTAAAAAAATAAAAATAAAAGTATTTT
1 AAAAATATTTTAAAAATTAAAAAAATAAAAATAAAAATATTTT
3849842 AAAAATATTTT-AAAATT-AAAAAATAAAAATAAAAATAT
1 AAAAATATTTTAAAAATTAAAAAAATAAAAATAAAAATAT
3849880 ATATTTATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
41 20 0.54
42 6 0.16
43 11 0.30
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (43 bp):
AAAAATATTTTAAAAATTAAAAAAATAAAAATAAAAATATTTT
Found at i:3860509 original size:16 final size:16
Alignment explanation
Indices: 3860488--3860518 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3860478 TGCCATTTCG
3860488 GAATTTCCTTTTTCAT
1 GAATTTCCTTTTTCAT
3860504 GAATTTCCTTTTTCA
1 GAATTTCCTTTTTCA
3860519 GATAGTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (16 bp):
GAATTTCCTTTTTCAT
Found at i:3863044 original size:25 final size:27
Alignment explanation
Indices: 3863016--3863065 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
3863006 TTTTGAATGT
3863016 GATTA-TAAAAAATAA-TTAAAATAAA
1 GATTATTAAAAAATAATTTAAAATAAA
*
3863041 GATTATTAAAAATTAATTTAAAATA
1 GATTATTAAAAAATAATTTAAAATA
3863066 TGACAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 9 0.41
27 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (27 bp):
GATTATTAAAAAATAATTTAAAATAAA
Found at i:3864419 original size:23 final size:21
Alignment explanation
Indices: 3864384--3864434 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
3864374 TTAGCCTCTC
3864384 CATTTTTACTTTTTTCCATTTT
1 CATTTTTACTTTTTTCCA-TTT
*
3864406 CTATTTTT-CATTTTTTTCATTT
1 C-ATTTTTAC-TTTTTTCCATTT
3864428 CATTTTT
1 CATTTTT
3864435 TTTACGACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.23
22 6 0.23
23 14 0.54
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.71
Consensus pattern (21 bp):
CATTTTTACTTTTTTCCATTT
Found at i:3864938 original size:14 final size:14
Alignment explanation
Indices: 3864919--3864998 Score: 60
Period size: 14 Copynumber: 5.7 Consensus size: 14
3864909 TTTTTGTTTC
*
3864919 TTTTTGTTTTTATT
1 TTTTTGTTTTTCTT
*
3864933 TTTTTGTTCTTGCTT
1 TTTTTGTT-TTTCTT
3864948 TTTGTT-TTTTTCTT
1 TTT-TTGTTTTTCTT
*
3864962 TTTTT-CTTTTCTT
1 TTTTTGTTTTTCTT
*
3864975 TTCTTT-TCTTTCTT
1 TT-TTTGTTTTTCTT
3864989 TCTTTT-TTTT
1 T-TTTTGTTTT
3864999 GGAATTGAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
13 11 0.20
14 32 0.58
15 10 0.18
16 2 0.04
ACGTcount: A:0.01, C:0.11, G:0.05, T:0.82
Consensus pattern (14 bp):
TTTTTGTTTTTCTT
Found at i:3864963 original size:5 final size:5
Alignment explanation
Indices: 3864955--3864998 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 5
3864945 CTTTTTGTTT
3864955 TTTTC -TTT- TTTTC TTTTC TTTTC TTTTC -TTTC -TTTC TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
3864999 GGAATTGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
4 18 0.50
5 18 0.50
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:3864964 original size:41 final size:40
Alignment explanation
Indices: 3864909--3864998 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 40
3864899 CTGGTAGAGG
* *
3864909 TTTTTGTTTCTTTTTGT-TTTTATTTTTTTGTTCTTGCTTTT
1 TTTTT-TTTCTTTTTGTCTTTTATTTTCTT-TTCTTGCTTTC
* * *
3864950 TGTTTTTTTCTTTTTTTCTTTTCTTTTCTTTTCTTTCTTTC
1 T-TTTTTTTCTTTTTGTCTTTTATTTTCTTTTCTTGCTTTC
3864991 TTTTTTTT
1 TTTTTTTT
3864999 GGAATTGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
40 7 0.17
41 21 0.50
42 14 0.33
ACGTcount: A:0.01, C:0.11, G:0.06, T:0.82
Consensus pattern (40 bp):
TTTTTTTTCTTTTTGTCTTTTATTTTCTTTTCTTGCTTTC
Found at i:3864974 original size:31 final size:30
Alignment explanation
Indices: 3864931--3864999 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
3864921 TTTGTTTTTA
* *
3864931 TTTTTTTGTTCTTGCT-TTTTGTTTTTTTCT
1 TTTTTTTGTTCTT-CTCTTTTCTTTCTTTCT
* *
3864961 TTTTTTCTTTTCTTTTCTTTTCTTTCTTTCT
1 TTTTTT-TGTTCTTCTCTTTTCTTTCTTTCT
3864992 TTTTTTTG
1 TTTTTTTG
3865000 GAATTGAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (30 bp):
TTTTTTTGTTCTTCTCTTTTCTTTCTTTCT
Found at i:3864975 original size:27 final size:27
Alignment explanation
Indices: 3864915--3864998 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
3864905 GAGGTTTTTG
3864915 TTTCTTTTTGTTTTTATT-TTTTTGTTC-
1 TTTCTTTTTGTTTTT-TTCTTTTT-TTCT
*
3864942 TTGCTTTTTGTTTTTTTCTTTTTTTCT
1 TTTCTTTTTGTTTTTTTCTTTTTTTCT
*
3864969 TTTCTTTTCT-TTTCTTTCTTTCTTTT-T
1 TTTCTTTT-TGTTTTTTTCTTT-TTTTCT
3864996 TTT
1 TTT
3864999 GGAATTGAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
26 5 0.10
27 40 0.80
28 5 0.10
ACGTcount: A:0.01, C:0.12, G:0.05, T:0.82
Consensus pattern (27 bp):
TTTCTTTTTGTTTTTTTCTTTTTTTCT
Found at i:3864976 original size:18 final size:18
Alignment explanation
Indices: 3864955--3864998 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
3864945 CTTTTTGTTT
3864955 TTTTCTTTT-TTTCTTTTC
1 TTTTCTTTTCTTTC-TTTC
3864973 TTTTCTTTTCTTTCTTTC
1 TTTTCTTTTCTTTCTTTC
3864991 TTTT-TTTT
1 TTTTCTTTT
3864999 GGAATTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.16
18 17 0.68
19 4 0.16
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTCTTTTCTTTCTTTC
Found at i:3864985 original size:23 final size:22
Alignment explanation
Indices: 3864939--3864998 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
3864929 TATTTTTTTG
*
3864939 TTCTTGCTTTTTGTTT-TTTTCT
1 TTCTTTCTTTTT-TTTCTTTTCT
*
3864961 TTTTTTCTTTTCTTTTCTTTTCT
1 TTCTTTCTTTT-TTTTCTTTTCT
3864984 TTCTTTCTTTTTTTT
1 TTCTTTCTTTTTTTT
3864999 GGAATTGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (22 bp):
TTCTTTCTTTTTTTTCTTTTCT
Found at i:3870067 original size:31 final size:29
Alignment explanation
Indices: 3869992--3870067 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 29
3869982 CGCTTTTTGA
3869992 AATAAACATT-AAAAATTTATTTTAAAAAT
1 AATAAA-ATTAAAAAATTTATTTTAAAAAT
*
3870021 AAAAAAATATAAAAAAATTTATTTTAAAAGTAT
1 AATAAAAT-T-AAAAAATTTATTTTAAAA--AT
**
3870054 TTTAAAATTAAAAA
1 AATAAAATTAAAAA
3870068 TAAAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
28 2 0.05
29 6 0.16
31 22 0.58
32 1 0.03
33 7 0.18
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (29 bp):
AATAAAATTAAAAAATTTATTTTAAAAAT
Found at i:3870771 original size:44 final size:45
Alignment explanation
Indices: 3870663--3870909 Score: 155
Period size: 44 Copynumber: 5.7 Consensus size: 45
3870653 ACTTGATGCG
* *
3870663 ATCTACTCTACTGCAACTTTAGAGAGATAAGATCTGGATGTTTTA
1 ATCTACTCTACTGCAACTTCAGGGAGATAAGATCTGGATGTTTTA
* * * *
3870708 ATCCT-CTCCACTGCAACTTCAGGGAGATAGGAT-T-GATTTCTTTT
1 AT-CTACTCTACTGCAACTTCAGGGAGATAAGATCTGGATGT-TTTA
* * * **
3870752 GTCTACTCTACTGCAACTTCAGGCAGATAAGA-CTGTATG---CG
1 ATCTACTCTACTGCAACTTCAGGGAGATAAGATCTGGATGTTTTA
* * *
3870793 ATCTGCTCT-CTGCAACTTCAGAGAGATAAGATAT--ATGGTTTTA
1 ATCTACTCTACTGCAACTTCAGGGAGATAAGATCTGGAT-GTTTTA
** * * * *
3870836 ATCCGCTCCACTGCAACTTCAAGAAGAT-AGAAT-TGGATG---TG
1 ATCTACTCTACTGCAACTTCAGGGAGATAAG-ATCTGGATGTTTTA
* *
3870877 ATCTACTCTACTGTAACTTCAGAGAGATAAGAT
1 ATCTACTCTACTGCAACTTCAGGGAGATAAGAT
3870910 TTGTGGTTTT
Statistics
Matches: 153, Mismatches: 34, Indels: 34
0.69 0.15 0.15
Matches are distributed among these distances:
39 2 0.01
40 21 0.14
41 32 0.21
42 2 0.01
43 16 0.10
44 48 0.31
45 30 0.20
46 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (45 bp):
ATCTACTCTACTGCAACTTCAGGGAGATAAGATCTGGATGTTTTA
Found at i:3870864 original size:84 final size:85
Alignment explanation
Indices: 3870761--3870939 Score: 236
Period size: 85 Copynumber: 2.1 Consensus size: 85
3870751 TGTCTACTCT
* * * *
3870761 ACTGCAACTTCAGGCAGATA-AGACTGTATGCGATCTGCTCT-CTGCAACTTCAGAGAGATAAGA
1 ACTGCAACTTCAAGAAGATAGA-ACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGA
*
3870824 TATATGGTTTTAATCCGCTCC
65 TATATGGTTTTAACCCGCTCC
* * *
3870845 ACTGCAACTTCAAGAAGATAGAATTGGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAAGAAGATAGAACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGAT
* *
3870910 TTGTGGTTTTAACCCGCTCC
66 ATATGGTTTTAACCCGCTCC
*
3870930 ACTACAACTT
1 ACTGCAACTT
3870940 TAGAGAGATA
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
84 33 0.40
85 49 0.60
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (85 bp):
ACTGCAACTTCAAGAAGATAGAACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGAT
ATATGGTTTTAACCCGCTCC
Found at i:3870905 original size:41 final size:43
Alignment explanation
Indices: 3870657--3870910 Score: 129
Period size: 41 Copynumber: 6.0 Consensus size: 43
3870647 GATAAGACTT
* *
3870657 GATGCGATCTACTCTACTGCAACTTTAGAG-AGATA-AGATCTG
1 GATGTGATCTACTCTACTGCAACTTCAGAGAAGATAGAGAT-TG
* * * *
3870699 GATGTTTTAATCCT-CTCCACTGCAACTTCAG-GGAGATAGGATTGATTT
1 GATG---TGAT-CTACTCTACTGCAACTTCAGAGAAGATA-GA--GATTG
** * * *
3870747 CTTTTG-TCTACTCTACTGCAACTTCAG-GCAGATA-AGACTG
1 GATGTGATCTACTCTACTGCAACTTCAGAGAAGATAGAGATTG
* * * *
3870787 TATGCGATCTGCTCT-CTGCAACTTCAGAG-AGATAAGATATATG
1 GATGTGATCTACTCTACTGCAACTTCAGAGAAGAT-AGAGAT-TG
* * * ** *
3870830 GTTTTAATCCGCTCCACTGCAACTTCA-AGAAGATAGA-ATTG
1 GATGTGATCTACTCTACTGCAACTTCAGAGAAGATAGAGATTG
*
3870871 GATGTGATCTACTCTACTGTAACTTCAGAG-AGATA-AGATT
1 GATGTGATCTACTCTACTGCAACTTCAGAGAAGATAGAGATT
3870911 TGTGGTTTTA
Statistics
Matches: 159, Mismatches: 34, Indels: 39
0.69 0.15 0.17
Matches are distributed among these distances:
40 22 0.14
41 39 0.25
42 11 0.07
43 17 0.11
44 39 0.25
45 23 0.14
46 2 0.01
47 1 0.01
48 2 0.01
49 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (43 bp):
GATGTGATCTACTCTACTGCAACTTCAGAGAAGATAGAGATTG
Found at i:3871092 original size:50 final size:50
Alignment explanation
Indices: 3871038--3871597 Score: 341
Period size: 50 Copynumber: 11.2 Consensus size: 50
3871028 TCGGGGAAAC
* * * * *
3871038 AAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCACCAGAGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
** * * * * ** ** * * **
3871088 AAGATTCGTTGTTGTGGCTTCAATCTATTTAACTGTAATGTCGGGGAAAC
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * *
3871138 AAGATTCGCCATCCTAGCTTCAATCTGTTCCACTACACCACCAGGGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * * * ** * * **
3871188 AAGATTCGTCGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAAC
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * *
3871238 AAGATTCGTCGTCGTAGCTTCAATCTGTTTCACTACACCGCTAGAGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * * * * ** * * **
3871288 AAGACTCGCCGTTGTGGCTTCAATTTATTTAACTACAATGTCGGGGAAAC
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* *
3871338 AAGATT--CCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGAGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * * * **** * **
3871386 AAGATTCGTCGTTGTGGCTTCAATCTTTTTAACTACAATATCGGGGAAAC
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * *
3871436 AAGATTCGCCATCGTAGCTTCAATCTGTTCCATTACACCGCCAGGGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * * * ** ** * * **
3871486 AAGATTCGCCATTGTGGCTTCAATCTTTTTAACTGTAATGTCGGGGAAAC
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * * *
3871536 AAGATTCGCCGTCGTAGATTCAATCTATTCCACTACACTGCTAGGGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
*
3871586 AAGATTCACCGT
1 AAGATTCGCCGT
3871598 TGTGGTTTCA
Statistics
Matches: 356, Mismatches: 152, Indels: 4
0.70 0.30 0.01
Matches are distributed among these distances:
48 35 0.10
50 321 0.90
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (50 bp):
AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
Found at i:3871587 original size:298 final size:299
Alignment explanation
Indices: 3871023--3871614 Score: 934
Period size: 298 Copynumber: 2.0 Consensus size: 299
3871013 TGTTTAATTG
3871023 CAATATCGGGGAAACAAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCACCAGAGAAGT
1 CAATATCGGGGAAACAAGATT-ACCATCGTAGCTTCAATCTGTTCCACTACACCACCAGAGAAGT
* ** *
3871088 AAGATTCGTTGTTGTGGCTTCAATCTATTTAACTGTAATGTCGGGGAAACAAGATTCGCCATCCT
65 AAGATTCGTCGTTGTGGCTTCAATCTATTTAACTACAATATCGGGGAAACAAGATTCGCCATCCT
* *
3871153 AGCTTCAATCTGTTCCACTACACCACCAGGGAAGTAAGATTCGTCGTTGTAGCTTCAATCTATTT
130 AGCTTCAATCTGTTCCACTACACCACCAGGGAAGTAAGATTCGCCATTGTAGCTTCAATCTATTT
* * * *
3871218 AACTGCAATGTCGGGGAAACAAGATTCGTCGTCGTAGCTTCAATCTGTTTCACTACACCGCTAGA
195 AACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGATTCAATCTATTCCACTACACCGCTAGA
* *
3871283 GAAGTAAGACTCGCCGTTGTGGCTTCAATTTATTTAACTA
260 GAAGTAAGACTCACCGTTGTGGCTTCAATATATTTAACTA
* * *
3871323 CAATGTCGGGGAAACAAGATT-CCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGAGAAGTA
1 CAATATCGGGGAAACAAGATTACCATCGTAGCTTCAATCTGTTCCACTACACCACCAGAGAAGTA
* *
3871387 AGATTCGTCGTTGTGGCTTCAATCTTTTTAACTACAATATCGGGGAAACAAGATTCGCCATCGTA
66 AGATTCGTCGTTGTGGCTTCAATCTATTTAACTACAATATCGGGGAAACAAGATTCGCCATCCTA
* * * *
3871452 GCTTCAATCTGTTCCATTACACCGCCAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTTA
131 GCTTCAATCTGTTCCACTACACCACCAGGGAAGTAAGATTCGCCATTGTAGCTTCAATCTATTTA
* * *
3871517 ACTGTAATGTCGGGGAAACAAGATTCGCCGTCGTAGATTCAATCTATTCCACTACACTGCTAGGG
196 ACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGATTCAATCTATTCCACTACACCGCTAGAG
* *
3871582 AAGTAAGATTCACCGTTGTGGTTTCAATATATT
261 AAGTAAGACTCACCGTTGTGGCTTCAATATATT
3871615 CCATTGTAAT
Statistics
Matches: 266, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
298 246 0.92
300 20 0.08
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (299 bp):
CAATATCGGGGAAACAAGATTACCATCGTAGCTTCAATCTGTTCCACTACACCACCAGAGAAGTA
AGATTCGTCGTTGTGGCTTCAATCTATTTAACTACAATATCGGGGAAACAAGATTCGCCATCCTA
GCTTCAATCTGTTCCACTACACCACCAGGGAAGTAAGATTCGCCATTGTAGCTTCAATCTATTTA
ACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGATTCAATCTATTCCACTACACCGCTAGAG
AAGTAAGACTCACCGTTGTGGCTTCAATATATTTAACTA
Found at i:3871625 original size:100 final size:100
Alignment explanation
Indices: 3871009--3871614 Score: 847
Period size: 100 Copynumber: 6.1 Consensus size: 100
3870999 TGCCATCTTT
* * * *
3871009 AATCTGTTTAATTGCAATATCGGGGAAACAAGATTCACCATCGTAGCTTCAATCTGTTCCACTAC
1 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTAC
* **
3871074 ACCACCAGAGAAGTAAGATTCGTTGTTGTGGCTTC
66 ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
* *
3871109 AATCTATTTAACTGTAATGTCGGGGAAACAAGATTCGCCATCCTAGCTTCAATCTGTTCCACTAC
1 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTAC
* * * *
3871174 ACCACCAGGGAAGTAAGATTCGTCGTTGTAGCTTC
66 ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
* * *
3871209 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGTCGTCGTAGCTTCAATCTGTTTCACTAC
1 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTAC
* *
3871274 ACCGCTAGAGAAGTAAGACTCGCCGTTGTGGCTTC
66 ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
* * *
3871309 AATTTATTTAACTACAATGTCGGGGAAACAAGATT--CCGTCGTAGCTTCAATCTGTTCCACTAC
1 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTAC
*
3871372 ACCGCCAGAGAAGTAAGATTCGTCGTTGTGGCTTC
66 ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
* * * *
3871407 AATCTTTTTAACTACAATATCGGGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCATTAC
1 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTAC
* *
3871472 ACCGCCAGGGAAGTAAGATTCGCCATTGTGGCTTC
66 ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
* * * * *
3871507 AATCTTTTTAACTGTAATGTCGGGGAAACAAGATTCGCCGTCGTAGATTCAATCTATTCCACTAC
1 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTAC
* * * * *
3871572 ACTGCTAGGGAAGTAAGATTCACCGTTGTGGTTTC
66 ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
*
3871607 AATATATT
1 AATCTATT
3871615 CCATTGTAAT
Statistics
Matches: 455, Mismatches: 49, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
98 90 0.20
100 365 0.80
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (100 bp):
AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTAC
ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
Found at i:3871965 original size:88 final size:88
Alignment explanation
Indices: 3871854--3872149 Score: 425
Period size: 88 Copynumber: 3.4 Consensus size: 88
3871844 TATCTGCCAT
* * *
3871854 TTTTCAACCTACTCCACTACTGCTTAGGGAGACAAGGCT-AGTATCTTCAATCTACTTCGCTGCC
1 TTTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTAAG-GTCTTCGATCTACTTCGCTGCC
*
3871918 AATACAGGAAAACAAGATCTTCTA
65 AATACAGGAAGACAAGATCTTCTA
* * *
3871942 TTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAAGGTCTTCGATCTACTTCACTGCCA
1 TTTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTAAGGTCTTCGATCTACTTCGCTGCCA
*
3872007 ATACAGGAAGACAAGATCTGCTA
66 ATACAGGAAGACAAGATCTTCTA
* * ** *
3872030 TTTTCAACCTACTCCATTACTGCTCAGAGAGACAAGATTGAGGTCTTCGATCTACTTCGCTGCCA
1 TTTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTAAGGTCTTCGATCTACTTCGCTGCCA
*
3872095 ATACATGAAGACAAGAT-TTGCTA
66 ATACAGGAAGACAAGATCTT-CTA
*
3872118 TTTTCAACCTACTCCACTACTGCTTAGGGAGA
1 TTTTCAACCTACTCCACTACTGCTCAGGGAGA
3872150 TCGAATTTAT
Statistics
Matches: 185, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
87 1 0.01
88 182 0.98
89 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (88 bp):
TTTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTAAGGTCTTCGATCTACTTCGCTGCCA
ATACAGGAAGACAAGATCTTCTA
Found at i:3872053 original size:176 final size:172
Alignment explanation
Indices: 3871812--3872150 Score: 468
Period size: 176 Copynumber: 1.9 Consensus size: 172
3871802 TAATACTGGT
* *
3871812 GTCTTCGATCTACTTCACTGCCAGTAAGGCAATATCTGCCATTTTTCAACCTACTCCACTACTGC
1 GTCTTCGATCTACTTCACTGCCAATAAGGCAAGATCTGCCATTTTTCAACCTACTCCACTACTGC
* * *
3871877 TTAGGGAGACAAGGCT-AGTATCTTCAATCTACTTCGCTGCCAATACAGGAAAACAAGATCTT-C
66 TCAGAGAGACAAGACTGAG-ATCTTCAATCTACTTCGCTGCCAATACAGGAAAACAAGAT-TTGC
*
3871940 TATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAAG
129 TATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAAG
* *
3871984 GTCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA-TTTTCAACCTACTCCATT
1 GTCTTCGATCTACTTCACTGCCAATA-A-G--G-CAAGATCTGCCATTTTTCAACCTACTCCACT
* * * * *
3872048 ACTGCTCAGAGAGACAAGATTGAGGTCTTCGATCTACTTCGCTGCCAATACATGAAGACAAGATT
61 ACTGCTCAGAGAGACAAGACTGAGATCTTCAATCTACTTCGCTGCCAATACAGGAAAACAAGATT
*
3872113 TGCTATTTTCAACCTACTCCACTACTGCTTAGGGAGAT
126 TGCTATTTTCAACCTACTCCACTACTGCTCAGGGAGAT
3872151 CGAATTTATG
Statistics
Matches: 146, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
172 25 0.17
173 1 0.01
174 1 0.01
175 2 0.01
176 105 0.72
177 12 0.08
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (172 bp):
GTCTTCGATCTACTTCACTGCCAATAAGGCAAGATCTGCCATTTTTCAACCTACTCCACTACTGC
TCAGAGAGACAAGACTGAGATCTTCAATCTACTTCGCTGCCAATACAGGAAAACAAGATTTGCTA
TTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAAG
Found at i:3875204 original size:22 final size:23
Alignment explanation
Indices: 3875166--3875208 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
3875156 AAAGAATCAT
3875166 AAAAATTATAGACAAAATTTATG
1 AAAAATTATAGACAAAATTTATG
3875189 AAAAAGTTATA-A-AAAATTTA
1 AAAAA-TTATAGACAAAATTTA
3875209 AAATTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
AAAAATTATAGACAAAATTTATG
Found at i:3875367 original size:11 final size:12
Alignment explanation
Indices: 3875346--3875382 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
3875336 TAAATTTAAA
3875346 TTTTTATAACTT
1 TTTTTATAACTT
3875358 TTTTTA-AACTT
1 TTTTTATAACTT
*
3875369 TGTTTATAA-TT
1 TTTTTATAACTT
3875380 TTT
1 TTT
3875383 ATGATTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (12 bp):
TTTTTATAACTT
Found at i:3877092 original size:44 final size:44
Alignment explanation
Indices: 3877033--3877117 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
3877023 CCTCATAGAT
*
3877033 ACGGCACAGGATTCTGCTCAAACAGACTGCGGATGGTGTCATAC
1 ACGGCACAGGATTCTGCTCAAACAGACTGCGGATAGTGTCATAC
* *
3877077 ACGGCACA-GATTTCTGTTCAAACAGGCTGCGGATAGTGTCA
1 ACGGCACAGGA-TTCTGCTCAAACAGACTGCGGATAGTGTCA
3877118 GCTATCGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (44 bp):
ACGGCACAGGATTCTGCTCAAACAGACTGCGGATAGTGTCATAC
Found at i:3877696 original size:18 final size:19
Alignment explanation
Indices: 3877653--3877697 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
3877643 TTTAAAATAT
3877653 AAATTTTGAAATTTTTATA
1 AAATTTTGAAATTTTTATA
* *
3877672 AATATTTTG-ATTTTTTTTA
1 AA-ATTTTGAAATTTTTATA
3877691 AAATTTT
1 AAATTTT
3877698 TGAGAGAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 12 0.52
20 6 0.26
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
AAATTTTGAAATTTTTATA
Found at i:3889046 original size:22 final size:22
Alignment explanation
Indices: 3889021--3889066 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
3889011 TCCCTAACAA
3889021 TCGTTAATGTTGCAAGAACAGT
1 TCGTTAATGTTGCAAGAACAGT
3889043 TCGTTAATGTTGCAAGAACAGT
1 TCGTTAATGTTGCAAGAACAGT
3889065 TC
1 TC
3889067 AAAGCTTTTT
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:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (22 bp):
TCGTTAATGTTGCAAGAACAGT
Found at i:3889853 original size:37 final size:38
Alignment explanation
Indices: 3889785--3889864 Score: 94
Period size: 37 Copynumber: 2.1 Consensus size: 38
3889775 AAATAGTCCC
* * *
3889785 TAAAATTTTAATTTTATAGTTTTTACGATTTAA-TCTT
1 TAAAATTTTAATTTTATAGTTCTTACAATTTAATTCCT
3889822 TAAAATTTTAATTTTTACTA-TTCTT-CAATTTAATTCCT
1 TAAAATTTTAA-TTTTA-TAGTTCTTACAATTTAATTCCT
3889860 TAAAA
1 TAAAA
3889865 ACAGATTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 18 0.49
38 17 0.46
39 2 0.05
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.54
Consensus pattern (38 bp):
TAAAATTTTAATTTTATAGTTCTTACAATTTAATTCCT
Found at i:3890914 original size:21 final size:21
Alignment explanation
Indices: 3890862--3890915 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
3890852 TCTAGTAAAA
*
3890862 TAAATAAATAATTCATGAAGT
1 TAAAAAAATAATTCATGAAGT
* *
3890883 TAAAAATAATAATTC-TTAATT
1 TAAAAA-AATAATTCATGAAGT
3890904 TAAAGAAAATAA
1 TAAA-AAAATAA
3890916 ATGTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (21 bp):
TAAAAAAATAATTCATGAAGT
Found at i:3910946 original size:12 final size:11
Alignment explanation
Indices: 3910920--3910958 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
3910910 TTTTTTAAAA
*
3910920 TTAAAAA-AAT
1 TTAAAAATATT
3910930 TTAAAAAGTATT
1 TTAAAAA-TATT
3910942 TTAAAAATATT
1 TTAAAAATATT
3910953 TTAAAA
1 TTAAAA
3910959 TTAAAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 7 0.27
11 10 0.38
12 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:3910964 original size:17 final size:17
Alignment explanation
Indices: 3910942--3910989 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
3910932 AAAAAGTATT
*
3910942 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
*
3910959 TTAAAACAAATTTAAAAA
1 TTAAAA-ATATTTAAAAA
* *
3910977 ATAAATATATTTA
1 TTAAAAATATTTA
3910990 TTATATCGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:3911595 original size:11 final size:11
Alignment explanation
Indices: 3911579--3911609 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3911569 TCAATTATTT
3911579 TCTCAATTTCC
1 TCTCAATTTCC
*
3911590 TCTCAATTTGC
1 TCTCAATTTCC
3911601 TCTCAATTT
1 TCTCAATTT
3911610 TCTTCCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.29, G:0.03, T:0.48
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:3911629 original size:11 final size:11
Alignment explanation
Indices: 3911565--3911630 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 11
3911555 AAACTAATCA
3911565 TCTCTCAATTATT
1 TCTCTCAA--ATT
3911578 T-TCTC-AATT
1 TCTCTCAAATT
3911587 TCCTCTC-AATT
1 T-CTCTCAAATT
*
3911598 TGCTCTCAATTT
1 T-CTCTCAAATT
3911610 TCT-TCCAAATT
1 TCTCT-CAAATT
3911621 TCTCTCAAAT
1 TCTCTCAAAT
3911631 CCATATTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 4 0.09
10 1 0.02
11 30 0.67
12 9 0.20
13 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:3911666 original size:29 final size:28
Alignment explanation
Indices: 3911617--3911672 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
3911607 TTTTCTTCCA
*
3911617 AATTTCTCTCAAATCCATATTTAATTTT
1 AATTTCTCTCAAATCCATATTAAATTTT
*
3911645 AATTTGCTCTCAATTTCC-TATTAAATTT
1 AATTT-CTCTCAA-ATCCATATTAAATTT
3911673 CTCTTAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 16 0.67
30 3 0.12
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.50
Consensus pattern (28 bp):
AATTTCTCTCAAATCCATATTAAATTTT
Found at i:3913802 original size:21 final size:21
Alignment explanation
Indices: 3913776--3913823 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
3913766 CGAACACCGA
*
3913776 CAACCAG-ATGCCCTATCGGAG
1 CAACCAGAAT-CCCCATCGGAG
*
3913797 CAACCAGAATCCCCGTCGGAG
1 CAACCAGAATCCCCATCGGAG
3913818 CAACCA
1 CAACCA
3913824 CAACCCCCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.31, C:0.38, G:0.21, T:0.10
Consensus pattern (21 bp):
CAACCAGAATCCCCATCGGAG
Found at i:3913831 original size:21 final size:21
Alignment explanation
Indices: 3913791--3913833 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3913781 AGATGCCCTA
* *
3913791 TCGGAGCAACCAGAATCCCCG
1 TCGGAGCAACCACAACCCCCG
3913812 TCGGAGCAACCACAACCCCCG
1 TCGGAGCAACCACAACCCCCG
3913833 T
1 T
3913834 TGGAAGCTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.42, G:0.21, T:0.09
Consensus pattern (21 bp):
TCGGAGCAACCACAACCCCCG
Found at i:3914106 original size:27 final size:27
Alignment explanation
Indices: 3914074--3914157 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
3914064 AAACCCTAAC
3914074 AAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTAACCCTTAACTT
3914101 --AAA----AACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTAACCCTTAACTT
** *
3914122 AAAAACCCTAACTGTAACTCTTAACTT
1 AAAAACCCTAACCCTAACCCTTAACTT
3914149 AAAAACCCT
1 AAAAACCCT
3914158 TAACTTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
21 18 0.38
23 3 0.06
25 3 0.06
27 24 0.50
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.24
Consensus pattern (27 bp):
AAAAACCCTAACCCTAACCCTTAACTT
Found at i:3914109 original size:15 final size:15
Alignment explanation
Indices: 3914110--3914169 Score: 74
Period size: 15 Copynumber: 4.2 Consensus size: 15
3914100 TAAAAACCCT
3914110 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
3914125 AACCC-TAACTGT---
1 AACCCTTAACT-TAAA
*
3914137 AACTCTTAACTTAAA
1 AACCCTTAACTTAAA
3914152 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
3914167 AAC
1 AAC
3914170 ACCAAAACCT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 5 0.13
13 5 0.13
14 5 0.13
15 23 0.61
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.27
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:3914109 original size:21 final size:21
Alignment explanation
Indices: 3914083--3914133 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
3914073 CAAAAACCCT
3914083 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
3914104 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
3914125 AACCCTAAC
1 AACCCTAAC
3914134 TGTAACTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:3914385 original size:19 final size:19
Alignment explanation
Indices: 3914337--3914386 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 19
3914327 ATAATTTGAT
3914337 ATAATTTTACTAACAATTA
1 ATAATTTTACTAACAATTA
*
3914356 ATACA----ATTAACAATTA
1 ATA-ATTTTACTAACAATTA
3914372 ATAATTTTACTAACA
1 ATAATTTTACTAACA
3914387 TTCAGCCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 10
0.67 0.06 0.28
Matches are distributed among these distances:
15 1 0.04
16 13 0.54
19 9 0.38
20 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATTTTACTAACAATTA
Found at i:3914418 original size:104 final size:102
Alignment explanation
Indices: 3914225--3914421 Score: 279
Period size: 104 Copynumber: 1.9 Consensus size: 102
3914215 CTAATATGAT
* ***
3914225 ATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGAGTAACAAAATTTT
1 ATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAACAAAATGCC
3914290 AGATTTTACAAAATATTTTGACTGGTACTAACAATTA
66 AGATTTTACAAAATATTTTGACTGGTACTAACAATTA
* **
3914327 ATAATTTGATATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAACATTCA-
1 ATAATTTGATA-AA-TTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAACA-AAAT
* *
3914391 GCCATATTTTACAAAATGTTTTGACTGGTAC
63 GCCAGATTTTACAAAATATTTTGACTGGTAC
3914422 AAAAAAATAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
102 11 0.13
103 2 0.02
104 69 0.83
105 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.39
Consensus pattern (102 bp):
ATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAACAAAATGCC
AGATTTTACAAAATATTTTGACTGGTACTAACAATTA
Found at i:3917644 original size:125 final size:124
Alignment explanation
Indices: 3917422--3917735 Score: 506
Period size: 125 Copynumber: 2.5 Consensus size: 124
3917412 CCCAAACATT
* *
3917422 CTACTGTAGCAAAAACGCGTCCACGATGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACG-TGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
3917487 TTGAAGTGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAG-AC
65 TTGAAGTGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTC-AGTAC
* *
3917547 CTACTGTAGCAAAAGCACGTCCACGTGTGCGCGATTTCAGAAATTCTTTTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTG-GCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
3917612 TTGAAGCT-TTTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTTCAGTAC
65 TTGAAG-TGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGTAC
* *
3917672 CTACTGTAGCAAAAGCGCGTCTACATGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGT-GGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTG
3917736 TTTTGATTTT
Statistics
Matches: 176, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
124 4 0.02
125 170 0.97
126 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCT
TGAAGTGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGTAC
Found at i:3918022 original size:40 final size:40
Alignment explanation
Indices: 3917951--3918028 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
3917941 AGGAGCGCGC
* *
3917951 TACGTGGCAACAAAACGCGTCCACGTCAGCGCGCTTTGGT
1 TACGTGGCAACAAAACGCATCCACGTAAGCGCGCTTTGGT
* * * *
3917991 TACGTTGCAACAAACCTCATCCTCGTAAGCGCGCTTTG
1 TACGTGGCAACAAAACGCATCCACGTAAGCGCGCTTTG
3918029 TGTACATGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (40 bp):
TACGTGGCAACAAAACGCATCCACGTAAGCGCGCTTTGGT
Found at i:3918418 original size:55 final size:55
Alignment explanation
Indices: 3918338--3918451 Score: 221
Period size: 55 Copynumber: 2.1 Consensus size: 55
3918328 GAAAAGAACA
3918338 ACTTTAATGAATGCTCGAATCCTATTATTATGCATAAATTATGAATTTAGTCTTT
1 ACTTTAATGAATGCTCGAATCCTATTATTATGCATAAATTATGAATTTAGTCTTT
3918393 ACTTTAATGAATGCTCGAATCCTATTATTATGCATAAATTATGAATTTAGTCTTT
1 ACTTTAATGAATGCTCGAATCCTATTATTATGCATAAATTATGAATTTAGTCTTT
3918448 -CTTT
1 ACTTT
3918452 GTAATTTTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 4 0.07
55 55 0.93
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (55 bp):
ACTTTAATGAATGCTCGAATCCTATTATTATGCATAAATTATGAATTTAGTCTTT
Found at i:3920350 original size:3 final size:3
Alignment explanation
Indices: 3920344--3920400 Score: 62
Period size: 3 Copynumber: 18.3 Consensus size: 3
3920334 ATTAAATTGC
*
3920344 ATT ATT ATT ATT -GT ATT ATCT ATT ATTT ATT ATAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT A-TT ATT AT-T ATT ATT ATT ATT
*
3920391 AGT ATT ATT A
1 ATT ATT ATT A
3920401 CTTCCATACG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 1 0.02
3 36 0.78
4 9 0.20
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:3920361 original size:14 final size:15
Alignment explanation
Indices: 3920339--3920384 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
3920329 TTTTGATTAA
*
3920339 ATTGCATTAT-TATT
1 ATTGTATTATATATT
*
3920353 ATTGTATTATCTATT
1 ATTGTATTATATATT
3920368 ATT-TATTATATATT
1 ATTGTATTATATATT
3920382 ATT
1 ATT
3920385 ATTATTAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 22 0.76
15 7 0.24
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (15 bp):
ATTGTATTATATATT
Found at i:3927873 original size:16 final size:16
Alignment explanation
Indices: 3927852--3927885 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3927842 AAGAACATAT
3927852 ATGATTAAAACATTTA
1 ATGATTAAAACATTTA
3927868 ATGATTAAAACATTTA
1 ATGATTAAAACATTTA
3927884 AT
1 AT
3927886 AAATTCTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (16 bp):
ATGATTAAAACATTTA
Found at i:3939132 original size:88 final size:88
Alignment explanation
Indices: 3938983--3939158 Score: 343
Period size: 88 Copynumber: 2.0 Consensus size: 88
3938973 TTGAAACATC
3938983 CCATGCATGTTCATATCAAAAGTAGAGAGCAATGATCAGCAATTATTGCTCAACGCCAATGGTAA
1 CCATGCATGTTCATATCAAAAGTAGAGAGCAATGATCAGCAATTATTGCTCAACGCCAATGGTAA
3939048 CAGAAAATCCGGAAGAAAGCCAT
66 CAGAAAATCCGGAAGAAAGCCAT
*
3939071 CCATGCATGTTCATATCAAAAGTAGAGAGTAATGATCAGCAATTATTGCTCAACGCCAATGGTAA
1 CCATGCATGTTCATATCAAAAGTAGAGAGCAATGATCAGCAATTATTGCTCAACGCCAATGGTAA
3939136 CAGAAAATCCGGAAGAAAGCCAT
66 CAGAAAATCCGGAAGAAAGCCAT
3939159 TACAACCCAA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (88 bp):
CCATGCATGTTCATATCAAAAGTAGAGAGCAATGATCAGCAATTATTGCTCAACGCCAATGGTAA
CAGAAAATCCGGAAGAAAGCCAT
Found at i:3944732 original size:30 final size:30
Alignment explanation
Indices: 3944692--3944759 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
3944682 ACCAAAAAAA
*
3944692 GCCG-TTTTTTTCAAAATTTATCGAAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
* ** *
3944721 GCCGATTTTTTTGATTATTTACCGGAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
3944751 GCC-ATTTTT
1 GCCGATTTTT
3944760 CGCGAAATCG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (30 bp):
GCCGATTTTTTTCAAAATTTACCGAAATGG
Found at i:3944852 original size:40 final size:41
Alignment explanation
Indices: 3944764--3944853 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 41
3944754 ATTTTTCGCG
* * * *
3944764 AAATCGCGTCCACGTCAGCGCGATGTCAGGGTACGTGTCAG
1 AAATCGCGTCCACGTCAGCGCAATGTCAGCGTACGTGACAC
* *
3944805 AACATCGCGTCCACGTCAGCGCAAT-T-TGCTTACGTGGACAC
1 AA-ATCGCGTCCACGTCAGCGCAATGTCAGCGTACGT-GACAC
3944846 AAATCGCG
1 AAATCGCG
3944854 CCTATGAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
40 12 0.29
41 8 0.20
42 21 0.51
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (41 bp):
AAATCGCGTCCACGTCAGCGCAATGTCAGCGTACGTGACAC
Found at i:3952675 original size:17 final size:16
Alignment explanation
Indices: 3952654--3952685 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3952644 TCCGACTGCT
*
3952654 TTTTTTTAGAATTTAA
1 TTTTTTTAAAATTTAA
3952670 TTTTTTTAAAATTTAA
1 TTTTTTTAAAATTTAA
3952686 AATGCAAACC
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:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTTTTAAAATTTAA
Found at i:3954213 original size:22 final size:21
Alignment explanation
Indices: 3954176--3954222 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
3954166 TCAAATTAAC
3954176 TTTATATTAATATTAACAT-AT
1 TTTATATTAATATTAA-ATAAT
3954197 TTTATAATT-ATATTTAAATAAT
1 TTTAT-ATTAATA-TTAAATAAT
3954219 TTTA
1 TTTA
3954223 AATAGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATATTAATATTAAATAAT
Found at i:3959542 original size:19 final size:20
Alignment explanation
Indices: 3959509--3959546 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3959499 TTATTTGCTT
3959509 AAATTATAACATATAATATA
1 AAATTATAACATATAATATA
*
3959529 AAATTATAA-TTATAATAT
1 AAATTATAACATATAATAT
3959547 TAACATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATTATAACATATAATATA
Found at i:3963499 original size:31 final size:31
Alignment explanation
Indices: 3963450--3963515 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
3963440 AGTCTTAATG
** *
3963450 TTTTAATTTGATTCATTTTAGTTCTTGTATT
1 TTTTAATTTGATAAATTTTAGTCCTTGTATT
* *
3963481 TTTTGATTTGATAAATTTTCGTCCTTGTATT
1 TTTTAATTTGATAAATTTTAGTCCTTGTATT
3963512 TTTT
1 TTTT
3963516 CGAATATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.08, G:0.11, T:0.64
Consensus pattern (31 bp):
TTTTAATTTGATAAATTTTAGTCCTTGTATT
Found at i:3964594 original size:27 final size:27
Alignment explanation
Indices: 3964528--3964598 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
3964518 AATGGAGGGC
*
3964528 CTGCCACAGGCGGCACCAATGGTGCCT
1 CTGCCACAGGCGGCACCAATGGTGCCA
* * *
3964555 GTGGCAGAGGCGGCACCAATGGTGCCA
1 CTGCCACAGGCGGCACCAATGGTGCCA
*
3964582 CTGCCACAAGCGGCACC
1 CTGCCACAGGCGGCACC
3964599 CCTATTTGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.21, C:0.35, G:0.32, T:0.11
Consensus pattern (27 bp):
CTGCCACAGGCGGCACCAATGGTGCCA
Found at i:3965460 original size:154 final size:145
Alignment explanation
Indices: 3965329--3965678 Score: 496
Period size: 143 Copynumber: 2.4 Consensus size: 145
3965319 GTAAAATTAA
* *
3965329 AAAATTAAAAAATAGTATATTTTTTAAATGTAATAAAATCCGAGAAAAAAATACGAACATAGGGC
1 AAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACATAGGGC
*
3965394 CGAAATAAGGGTTTTTTTAAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATGTAA
66 CGAAATAAGGGTTTTTTT-AAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAA
*
3965459 TATACTAAAATAATAT
130 TATATTAAAATAATAT
* ** *
3965475 AAAATTAAAAAATAATATATTTTTTAAAAGTAATAAAAT-CGGGGGAAAAATATGAACATAGGGC
1 AAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACATAGGGC
* *
3965539 CGAAATAAGGGTTTTTTTAAAATTTATTT-AAAAACTCATTAAATTAATACATTTCAAATATAAT
66 CGAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAAT
*
3965603 GTATTAAAATAA-A-
131 ATATTAAAATAATAT
* * * * *
3965616 AAAA-TAAAAAAAAGTATATTTTTTAAAAATAATAAAATTC-GAAGAAAAAATACGAACAAAGGG
1 AAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGGGA-AAAAAATACGAACATAGGG
3965679 GGTGCCGCCT
Statistics
Matches: 183, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
140 32 0.17
141 21 0.11
142 1 0.01
143 42 0.23
144 11 0.06
145 39 0.21
146 37 0.20
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.31
Consensus pattern (145 bp):
AAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACATAGGGC
CGAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAAT
ATATTAAAATAATAT
Found at i:3971807 original size:30 final size:31
Alignment explanation
Indices: 3971771--3971838 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
3971761 ATTTTTTTTT
*
3971771 AAAAATTAA-AAAGCATAA-TGAAAATTTTCA
1 AAAAATTAAGAAAACATAACT-AAAATTTTCA
* *
3971801 AAAAATTAAGAAAACTTAACTAAAGTTTTCA
1 AAAAATTAAGAAAACATAACTAAAATTTTCA
3971832 AAAAATT
1 AAAAATT
3971839 TAGAGGGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 9 0.27
31 23 0.70
32 1 0.03
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (31 bp):
AAAAATTAAGAAAACATAACTAAAATTTTCA
Found at i:3983822 original size:18 final size:19
Alignment explanation
Indices: 3983780--3983826 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
3983770 TTTTGTGAAT
* *
3983780 TATATATTTATAAATTATC
1 TATATATTAATAAATTAAC
3983799 TATATATTAAT-AATTAAC
1 TATATATTAATAAATTAAC
*
3983817 TTTATATTAA
1 TATATATTAA
3983827 CCTTTTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATATTAATAAATTAAC
Found at i:3984393 original size:30 final size:31
Alignment explanation
Indices: 3984357--3984424 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
3984347 GTTAGTGATT
3984357 TAATATAAATATATATAATTAT-TATT-TAACA
1 TAATATAAATA-ATATAATTATCT-TTATAACA
* *
3984388 T-ATATAATTAATCTAATTATCTTTATAACA
1 TAATATAAATAATATAATTATCTTTATAACA
3984418 TAATATA
1 TAATATA
3984425 TTTGGGTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 11 0.34
30 15 0.47
31 6 0.19
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (31 bp):
TAATATAAATAATATAATTATCTTTATAACA
Found at i:4003223 original size:94 final size:94
Alignment explanation
Indices: 4002961--4003311 Score: 275
Period size: 94 Copynumber: 3.7 Consensus size: 94
4002951 AAGTAATATC
* * * * * * * * *
4002961 CACTTTGGGGTGTCTACTTTATAACTTTGTAAAATTTAACTGAGTGCATTGAGAGGCTAGTAGTT
1 CACTTTGAGGTGTTTACTTTATAACTTTGTAAAATTTAGCTAAGTGCCTTAAGAGGTTAGCAATT
** *
4003026 TTTCT-GCTATTG-AC-T-TGATG-AATAGTTT
66 TTT-TAGCTA-TGAACGTAACAAGCAAT--TTT
* * * *
4003054 CTACTTT-AGAGTGTTTGCTTTATAACTTTGTAAAATTTAGCTAAGTGCCTTAAAAGGCTAGTAA
1 C-ACTTTGAG-GTGTTTACTTTATAACTTTGTAAAATTTAGCTAAGTGCCTTAAGAGGTTAGCAA
* * * *
4003118 TGTTTTAGCTATGGACTTAGCGAA-CAATTTT
64 TTTTTTAGCTATGAACGTAAC-AAGCAATTTT
* * * * *
4003149 CACTTTGAGGTGTTTACTTTATAACTTTGTAAATTTTAGCTAAGTACCTCAAGTGGTTAACAATT
1 CACTTTGAGGTGTTTACTTTATAACTTTGTAAAATTTAGCTAAGTGCCTTAAGAGGTTAGCAATT
* *
4003214 TTTTTGCTATTAACGTAACAAGCAATTTT
66 TTTTAGCTATGAACGTAACAAGCAATTTT
* * ** **
4003243 CACTTTGGAATGTCTTTTTTTTATAACTTTGTAAAACATAGCTAAGTGCCTTAAGAGGTTAGCAA
1 CACTTT-G-AGGTGTTTACTTTATAACTTTGTAAAATTTAGCTAAGTGCCTTAAGAGGTTAGCAA
4003308 TTTT
64 TTTT
4003312 CTACTATTAA
Statistics
Matches: 207, Mismatches: 39, Indels: 21
0.78 0.15 0.08
Matches are distributed among these distances:
93 7 0.03
94 139 0.67
95 8 0.04
96 49 0.24
97 4 0.02
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (94 bp):
CACTTTGAGGTGTTTACTTTATAACTTTGTAAAATTTAGCTAAGTGCCTTAAGAGGTTAGCAATT
TTTTAGCTATGAACGTAACAAGCAATTTT
Found at i:4019086 original size:21 final size:22
Alignment explanation
Indices: 4019057--4019103 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
4019047 CAGAAGGAGT
*
4019057 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4019079 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4019100 GAGT
1 GAGT
4019104 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:4020104 original size:542 final size:542
Alignment explanation
Indices: 4019082--4020164 Score: 2121
Period size: 542 Copynumber: 2.0 Consensus size: 542
4019072 GCAGGTGGAG
4019082 TGTACTCCGCAGCAGGTGGAGTTTGAGCAGAGTGTGGTAATTCCAGCAGAAGGTACCACTAGTGA
1 TGTACTCCGCAGCAGGTGGAGTTTGAGCAGAGTGTGGTAATTCCAGCAGAAGGTACCACTAGTGA
4019147 TTCTTCATTGGCAGATGCAGAGTCAGATGAGGAAGAGGTTTCTACCCAAGAACCTCAACAGCAAT
66 TTCTTCATTGGCAGATGCAGAGTCAGATGAGGAAGAGGTTTCTACCCAAGAACCTCAACAGCAAT
*
4019212 CAGAGCCAATTGCAGTCAGAAGGTAGAGACGAGAAATTCAGAAACCAGCTCGTTTCACTGACATG
131 CAGAGCCAATTGCAGTCAGAAGGCAGAGACGAGAAATTCAGAAACCAGCTCGTTTCACTGACATG
4019277 GTAGCTTATGCACTTCCAGTTGTTGATAATATTCCATCCACTTACACCGAAGCCATTCAGAGTTT
196 GTAGCTTATGCACTTCCAGTTGTTGATAATATTCCATCCACTTACACCGAAGCCATTCAGAGTTT
4019342 AGAGAATAATAGATGGTTAGGTGCAATGGAAGAGGAAATGCAATCTCTAGAGAAAAACAAGACGT
261 AGAGAATAATAGATGGTTAGGTGCAATGGAAGAGGAAATGCAATCTCTAGAGAAAAACAAGACGT
*
4019407 GGAAGTTGGCACAACTACCAAAAGGGAAGAAGGCGATTGGTTGCAAATGGGTATTTGCAAAGAAA
326 GGAAGTTGGCACAACTACCAAAAGGGAAGAAGGCGATTGGTTGCAAATGAGTATTTGCAAAGAAA
4019472 GAAGGATTTCCCGACAAAGAAGATGTTCGTTACAAGGCAAGGTTAGTGGCTAAAGGCTACGCTCA
391 GAAGGATTTCCCGACAAAGAAGATGTTCGTTACAAGGCAAGGTTAGTGGCTAAAGGCTACGCTCA
4019537 GAAGGAGGGAATTGACTATAATGAGGTATTTTCTCCAGTTGTTAAACATTCCTCCATTAGAATTT
456 GAAGGAGGGAATTGACTATAATGAGGTATTTTCTCCAGTTGTTAAACATTCCTCCATTAGAATTT
4019602 TGTTGGCCTTGGTAGCGCAGTA
521 TGTTGGCCTTGGTAGCGCAGTA
*
4019624 TGTACTCCGCAGCAGGTGGAGTTTGAGCAGAGTGTGGTAATTCCAGCAGAATGTACCACTAGTGA
1 TGTACTCCGCAGCAGGTGGAGTTTGAGCAGAGTGTGGTAATTCCAGCAGAAGGTACCACTAGTGA
4019689 TTCTTCATTGGCAGATGCAGAGTCAGATGAGGAAGAGGTTTCTACCCAAGAACCTCAACAGCAAT
66 TTCTTCATTGGCAGATGCAGAGTCAGATGAGGAAGAGGTTTCTACCCAAGAACCTCAACAGCAAT
4019754 CAGAGCCAATTGCAGTCAGAAGGCAGAGACGAGAAATTCAGAAACCAGCTCGTTTCACTGACATG
131 CAGAGCCAATTGCAGTCAGAAGGCAGAGACGAGAAATTCAGAAACCAGCTCGTTTCACTGACATG
4019819 GTAGCTTATGCACTTCCAGTTGTTGATAATATTCCATCCACTTACACCGAAGCCATTCAGAGTTT
196 GTAGCTTATGCACTTCCAGTTGTTGATAATATTCCATCCACTTACACCGAAGCCATTCAGAGTTT
4019884 AGAGAATAATAGATGGTTAGGTGCAATGGAAGAGGAAATGCAATCTCTAGAGAAAAACAAGACGT
261 AGAGAATAATAGATGGTTAGGTGCAATGGAAGAGGAAATGCAATCTCTAGAGAAAAACAAGACGT
*
4019949 GGAAGTTGGCACAACTACCAAAAGGGAAGAATGCGATTGGTTGCAAATGAGTATTTGCAAAGAAA
326 GGAAGTTGGCACAACTACCAAAAGGGAAGAAGGCGATTGGTTGCAAATGAGTATTTGCAAAGAAA
*
4020014 TAAGGATTTCCCGACAAAGAAGATGTTCGTTACAAGGCAAGGTTAGTGGCTAAAGGCTACGCTCA
391 GAAGGATTTCCCGACAAAGAAGATGTTCGTTACAAGGCAAGGTTAGTGGCTAAAGGCTACGCTCA
4020079 GAAGGAGGGAATTGACTATAATGAGGTATTTTCTCCAGTTGTTAAACATTCCTCCATTAGAATTT
456 GAAGGAGGGAATTGACTATAATGAGGTATTTTCTCCAGTTGTTAAACATTCCTCCATTAGAATTT
4020144 TGTTGGCCTTGGTAGCGCAGT
521 TGTTGGCCTTGGTAGCGCAGT
4020165 TGAATTTGGA
Statistics
Matches: 536, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
542 536 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (542 bp):
TGTACTCCGCAGCAGGTGGAGTTTGAGCAGAGTGTGGTAATTCCAGCAGAAGGTACCACTAGTGA
TTCTTCATTGGCAGATGCAGAGTCAGATGAGGAAGAGGTTTCTACCCAAGAACCTCAACAGCAAT
CAGAGCCAATTGCAGTCAGAAGGCAGAGACGAGAAATTCAGAAACCAGCTCGTTTCACTGACATG
GTAGCTTATGCACTTCCAGTTGTTGATAATATTCCATCCACTTACACCGAAGCCATTCAGAGTTT
AGAGAATAATAGATGGTTAGGTGCAATGGAAGAGGAAATGCAATCTCTAGAGAAAAACAAGACGT
GGAAGTTGGCACAACTACCAAAAGGGAAGAAGGCGATTGGTTGCAAATGAGTATTTGCAAAGAAA
GAAGGATTTCCCGACAAAGAAGATGTTCGTTACAAGGCAAGGTTAGTGGCTAAAGGCTACGCTCA
GAAGGAGGGAATTGACTATAATGAGGTATTTTCTCCAGTTGTTAAACATTCCTCCATTAGAATTT
TGTTGGCCTTGGTAGCGCAGTA
Found at i:4025987 original size:90 final size:90
Alignment explanation
Indices: 4025830--4026102 Score: 474
Period size: 90 Copynumber: 3.0 Consensus size: 90
4025820 TTTAGGGATA
* * *
4025830 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATGTCAAAGGAGATGAATGTGAAGTCTGCA
1 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
* *
4025895 TCATTCAGCAAGGAGAATAGCAACC
66 TCATTCAGCAAGGGGAATAGCAGCC
4025920 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
1 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
* *
4025985 TCATCCAGCAAGGGGAATAGCTGCC
66 TCATTCAGCAAGGGGAATAGCAGCC
*
4026010 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGAGCTCAAAGGAGATAAATGTGAAGTCTACA
1 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
4026075 TCATTCAGCAAGGGGAATAGCAGCC
66 TCATTCAGCAAGGGGAATAGCAGCC
4026100 AAA
1 AAA
4026103 GACCTGGAGA
Statistics
Matches: 173, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 173 1.00
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.16
Consensus pattern (90 bp):
AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
TCATTCAGCAAGGGGAATAGCAGCC
Found at i:4032465 original size:18 final size:20
Alignment explanation
Indices: 4032444--4032485 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
4032434 ATTAAGAAAT
*
4032444 TTTTATAAA-TATTTTG-AA
1 TTTTAAAAATTATTTTGTAA
4032462 TTTTAAAAATTATTTTGTAA
1 TTTTAAAAATTATTTTGTAA
4032482 TTTT
1 TTTT
4032486 TGTTGAGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 7 0.33
20 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTAAAAATTATTTTGTAA
Found at i:4032465 original size:19 final size:21
Alignment explanation
Indices: 4032441--4032486 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
4032431 TAAATTAAGA
*
4032441 AATTTTTATAAA-TATTTTG-
1 AATTTTTAAAAATTATTTTGT
4032460 AA-TTTTAAAAATTATTTTGT
1 AATTTTTAAAAATTATTTTGT
4032480 AATTTTT
1 AATTTTT
4032487 GTTGAGGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.35
19 9 0.39
20 2 0.09
21 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
AATTTTTAAAAATTATTTTGT
Found at i:4045087 original size:165 final size:165
Alignment explanation
Indices: 4044778--4045108 Score: 511
Period size: 165 Copynumber: 2.0 Consensus size: 165
4044768 GCTTGTAATT
4044778 AGTAGCCGTCTTAGCTCAGCCGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTC
1 AGTAGCCGTCTTAGCTCAGCCGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTC
* * *
4044843 CCACAGACGGCGTCGATTTTTGTAACCTCTACTTTTACATTTTTGTTTACAGAAGAGAAGATGGA
66 CCACAGACGGCGTCGAGTTTTGTAACCTCTACTTTTACATTTTTGTTCACAGAAGAGAAGAGGGA
* **
4044908 GAATCCGATGATCCACCACTATGTTACTGTCCATC
131 GAAACCGATGATCCACCACTATACTACTGTCCATC
4044943 AGTAGCCGTCTTAGCTCAGCCGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTC
1 AGTAGCCGTCTTAGCTCAGCCGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTC
* **** *
4045008 CCACAGACGGCGTTGAGTTTTGTTGTTTCTA-TTTTACATTTTTGTTCACCGAAGAGAAGAGGGA
66 CCACAGACGGCGTCGAGTTTTGTAACCTCTACTTTTACATTTTTGTTCACAGAAGAGAAGAGGGA
* * *
4045072 GAACACCGGTGATCCACCGCTATACTACTGTGCATC
131 GAA-ACCGATGATCCACCACTATACTACTGTCCATC
4045108 A
1 A
4045109 TTAATCCGGC
Statistics
Matches: 150, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
164 33 0.22
165 117 0.78
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (165 bp):
AGTAGCCGTCTTAGCTCAGCCGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTC
CCACAGACGGCGTCGAGTTTTGTAACCTCTACTTTTACATTTTTGTTCACAGAAGAGAAGAGGGA
GAAACCGATGATCCACCACTATACTACTGTCCATC
Found at i:4052634 original size:16 final size:16
Alignment explanation
Indices: 4052613--4052646 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4052603 GACTTAAAAG
4052613 TTAAAACTAATTGTTA
1 TTAAAACTAATTGTTA
*
4052629 TTAAAAGTAATTGTTA
1 TTAAAACTAATTGTTA
4052645 TT
1 TT
4052647 GAATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (16 bp):
TTAAAACTAATTGTTA
Found at i:4052747 original size:25 final size:25
Alignment explanation
Indices: 4052717--4052764 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
4052707 AAGATTACTT
4052717 ATTTGAATTTAATTACAAACAATTA
1 ATTTGAATTTAATTACAAACAATTA
4052742 ATTTGAATTTAATTACAAACAAT
1 ATTTGAATTTAATTACAAACAAT
4052765 CAAATCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (25 bp):
ATTTGAATTTAATTACAAACAATTA
Found at i:4052953 original size:13 final size:12
Alignment explanation
Indices: 4052935--4053001 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 12
4052925 AATTTAAAAG
4052935 TTAAAAAATTATA
1 TTAAAAAA-TATA
4052948 TTAAAACAATATAA
1 TTAAAA-AATAT-A
* *
4052962 TTATAACAGTATA
1 TTA-AAAAATATA
4052975 TTAAAACAATATA
1 TTAAAA-AATATA
4052988 TTAAAAAATATA
1 TTAAAAAATATA
4053000 TT
1 TT
4053002 TATAATAGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
12 10 0.22
13 24 0.52
14 10 0.22
15 2 0.04
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (12 bp):
TTAAAAAATATA
Found at i:4053012 original size:39 final size:40
Alignment explanation
Indices: 4052935--4053026 Score: 134
Period size: 39 Copynumber: 2.3 Consensus size: 40
4052925 AATTTAAAAG
4052935 TTAAAA-AATTATATTAAAACAATATAATTATAACAGTATA
1 TTAAAACAA-TATATTAAAACAATATAATTATAACAGTATA
* *
4052975 TTAAAACAATATATTAAAA-AATATATTTATAATAGTATA
1 TTAAAACAATATATTAAAACAATATAATTATAACAGTATA
*
4053014 TTAAAACATTATA
1 TTAAAACAATATA
4053027 GTATAAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 30 0.62
40 16 0.33
41 2 0.04
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (40 bp):
TTAAAACAATATATTAAAACAATATAATTATAACAGTATA
Found at i:4053199 original size:15 final size:15
Alignment explanation
Indices: 4053179--4053212 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4053169 AAACTAAAAT
*
4053179 TTAATGTGTTAGAAA
1 TTAATGTGTTACAAA
4053194 TTAATGTGTTACAAA
1 TTAATGTGTTACAAA
4053209 TTAA
1 TTAA
4053213 ATGTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (15 bp):
TTAATGTGTTACAAA
Found at i:4053266 original size:13 final size:13
Alignment explanation
Indices: 4053248--4053339 Score: 123
Period size: 13 Copynumber: 7.0 Consensus size: 13
4053238 AATTTAAAAG
*
4053248 TTAAAACATTATA
1 TTAAAACAATATA
4053261 TTAAAACAATATAA
1 TTAAAACAATAT-A
* *
4053275 TTATAACAGTATA
1 TTAAAACAATATA
4053288 TTAAAACAATATA
1 TTAAAACAATATA
*
4053301 TTAAAACAATTTA
1 TTAAAACAATATA
4053314 TTAAAA-AAGTATA
1 TTAAAACAA-TATA
4053327 TTAAAACAATATA
1 TTAAAACAATATA
4053340 ACCGAACTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
12 2 0.03
13 54 0.78
14 13 0.19
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.34
Consensus pattern (13 bp):
TTAAAACAATATA
Found at i:4053335 original size:39 final size:40
Alignment explanation
Indices: 4053248--4053339 Score: 141
Period size: 39 Copynumber: 2.3 Consensus size: 40
4053238 AATTTAAAAG
* * *
4053248 TTAAAACATTATATTAAAACAATATAATTATAACAGTATA
1 TTAAAACAATATATTAAAACAATATAATTAAAAAAGTATA
*
4053288 TTAAAACAATATATTAAAACAAT-TTATTAAAAAAGTATA
1 TTAAAACAATATATTAAAACAATATAATTAAAAAAGTATA
4053327 TTAAAACAATATA
1 TTAAAACAATATA
4053340 ACCGAACTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 26 0.54
40 22 0.46
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.34
Consensus pattern (40 bp):
TTAAAACAATATATTAAAACAATATAATTAAAAAAGTATA
Found at i:4054853 original size:18 final size:18
Alignment explanation
Indices: 4054830--4054866 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4054820 TATAGTTTGA
4054830 TATTCGA-TTTATTCGAAT
1 TATTCGAGTTT-TTCGAAT
4054848 TATTCGAGTTTTTCGAAT
1 TATTCGAGTTTTTCGAAT
4054866 T
1 T
4054867 CGAAAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.24, C:0.11, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTCGAGTTTTTCGAAT
Found at i:4055792 original size:21 final size:21
Alignment explanation
Indices: 4055758--4055797 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4055748 TGACCTAATT
*
4055758 AAAATAATTCAAAATTTAAAA
1 AAAATAATTCAAAACTTAAAA
4055779 AAAATAA-TCTAAAACTTAA
1 AAAATAATTC-AAAACTTAA
4055798 CCCCTCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAATAATTCAAAACTTAAAA
Found at i:4075012 original size:4 final size:4
Alignment explanation
Indices: 4075003--4075087 Score: 68
Period size: 4 Copynumber: 19.8 Consensus size: 4
4074993 GGGAAAGGAG
4075003 AAGA AAGA AAGA AAG- AA-A AAGA AAGAA AAGGA AAGGA GAAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAG-A AA-GA AA-GA -AAGA AAGA
4075049 AAGAA AAGTA AAGGA GAAGA AAGA AA-A AAGA AAGGA AAG
1 AAG-A AAG-A AA-GA -AAGA AAGA AAGA AAGA AA-GA AAG
4075088 GAAGGGAGAA
Statistics
Matches: 70, Mismatches: 1, Indels: 20
0.77 0.01 0.22
Matches are distributed among these distances:
3 7 0.10
4 32 0.46
5 25 0.36
6 6 0.09
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (4 bp):
AAGA
Found at i:4075020 original size:34 final size:33
Alignment explanation
Indices: 4074981--4075098 Score: 118
Period size: 34 Copynumber: 3.6 Consensus size: 33
4074971 GTGGATGGAG
*
4074981 AAGAAAAGGAGAGG-GAAAGGAGAAGAAAGAAAGA
1 AAGAAAAGGAAAGGAG-AAGGA-AAGAAAGAAAGA
* *
4075015 AAGAAAAAGAAA-GAAAAGGAAAGGAGAAGAAAGA
1 AAGAAAAGGAAAGGAGAAGGAAA-GA-AAGAAAGA
*
4075049 AAGAAAAGTAAAGGAGAA-GAAAGAAA-AAAGA
1 AAGAAAAGGAAAGGAGAAGGAAAGAAAGAAAGA
* *
4075080 AAGGAAAGGAAGGGAGAAG
1 AAGAAAAGGAAAGGAGAAG
4075099 AAGAAGACCA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 20 0.29
32 4 0.06
33 10 0.14
34 32 0.46
35 4 0.06
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (33 bp):
AAGAAAAGGAAAGGAGAAGGAAAGAAAGAAAGA
Found at i:4075023 original size:10 final size:10
Alignment explanation
Indices: 4075010--4075131 Score: 59
Period size: 10 Copynumber: 11.3 Consensus size: 10
4075000 GAGAAGAAAG
4075010 AAAGAAAGAA
1 AAAGAAAGAA
4075020 AAAGAAAGAA
1 AAAGAAAGAA
*
4075030 AAGGAAAGGAGAA
1 AAAG-AA--AGAA
4075043 GAAAGAAAG-A
1 -AAAGAAAGAA
*
4075053 AAAGTAAAGGA
1 AAAG-AAAGAA
*
4075064 GAAGAAAGAAA
1 AAAGAAAG-AA
4075075 AAAGAAAGGAA
1 AAAGAAA-GAA
**
4075086 AGGAAGGGAGAA
1 A--AAGAAAGAA
*
4075098 GAAG-AAGACCA
1 AAAGAAAGA--A
* *
4075109 AAGGAAGGAA
1 AAAGAAAGAA
4075119 AAAGAAAGAA
1 AAAGAAAGAA
4075129 AAA
1 AAA
4075132 AAGAAGTAAA
Statistics
Matches: 85, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
9 7 0.08
10 37 0.44
11 21 0.25
12 7 0.08
13 10 0.12
14 3 0.04
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.01
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:4075036 original size:24 final size:25
Alignment explanation
Indices: 4075009--4075090 Score: 94
Period size: 26 Copynumber: 3.1 Consensus size: 25
4074999 GGAGAAGAAA
4075009 GAAAGAAAG-AAAAAGAAAGAAAAG
1 GAAAGAAAGAAAAAAGAAAGAAAAG
*
4075033 GAAAGGAGAAGAAAGAAAGAAAAGTAAAG
1 GAAA-GA-AAGAAA-AAAG-AAAGAAAAG
*
4075062 GAGAAGAAAGAAAAAAGAAAGGAAAG
1 GA-AAGAAAGAAAAAAGAAAGAAAAG
4075088 GAA
1 GAA
4075091 GGGAGAAGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
24 4 0.08
25 3 0.06
26 13 0.26
27 6 0.12
28 10 0.20
29 12 0.24
30 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (25 bp):
GAAAGAAAGAAAAAAGAAAGAAAAG
Found at i:4075091 original size:24 final size:25
Alignment explanation
Indices: 4075009--4075134 Score: 86
Period size: 24 Copynumber: 5.0 Consensus size: 25
4074999 GGAGAAGAAA
* *
4075009 GAAAGAAAGAAA-AAGAAAGAAAAG
1 GAAAGGAAGAAAGAAAAAAGAAAAG
4075033 GAAAGG-AG-AAGAAAGAAAGAAAAG
1 GAAAGGAAGAAAGAAA-AAAGAAAAG
*
4075057 TAAAGGAGAAGAAAGAAAAAAG-AAAG
1 GAAA-G-GAAGAAAGAAAAAAGAAAAG
**
4075083 GAAAGGAAGGGAGAAGAAGAAGACCAAAG
1 GAAAGGAAGAAAGAA-AA-AAGA--AAAG
4075112 G-AAGGAA-AAAGAAAGAAA-AAAAG
1 GAAAGGAAGAAAGAAA-AAAGAAAAG
4075135 AAGTAAAGGT
Statistics
Matches: 82, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
22 2 0.02
23 8 0.10
24 25 0.30
25 5 0.06
26 14 0.17
27 11 0.13
28 12 0.15
29 5 0.06
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.01
Consensus pattern (25 bp):
GAAAGGAAGAAAGAAAAAAGAAAAG
Found at i:4075092 original size:4 final size:5
Alignment explanation
Indices: 4074994--4075090 Score: 53
Period size: 5 Copynumber: 19.8 Consensus size: 5
4074984 AAAAGGAGAG
* * *
4074994 GGAAA GGAGAA -GAAA -GAAA -GAAA GAAAA AGAAA GAAAA GGAAA GGAGAA
1 GGAAA GGA-AA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGA-AA
* * * *
4075043 -GAAA -GAAA GAAAA GTAAA GGAGAA -GAAA GAAAAA AGAAA GGAAA GGAA
1 GGAAA GGAAA GGAAA GGAAA GGA-AA GGAAA G-GAAA GGAAA GGAAA GGAA
4075091 GGGAGAAGAA
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
4 18 0.25
5 45 0.62
6 9 0.12
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (5 bp):
GGAAA
Found at i:4075092 original size:9 final size:9
Alignment explanation
Indices: 4074995--4075092 Score: 62
Period size: 10 Copynumber: 10.7 Consensus size: 9
4074985 AAAGGAGAGG
4074995 GAAAGGAGAA
1 GAAAGGA-AA
4075005 GAAA-GAAA
1 GAAAGGAAA
*
4075013 GAAAGAAAAA
1 GAAAG-GAAA
*
4075023 GAAAGAAAA
1 GAAAGGAAA
4075032 GGAAAGGAGAA
1 -GAAAGGA-AA
4075043 GAAA-GAAA
1 GAAAGGAAA
*
4075051 GAAAAGTAAA
1 G-AAAGGAAA
4075061 GGAGAA-GAAA
1 -GA-AAGGAAA
4075071 GAAA--AAA
1 GAAAGGAAA
4075078 GAAAGGAAA
1 GAAAGGAAA
*
4075087 GGAAGG
1 GAAAGG
4075093 GAGAAGAAGA
Statistics
Matches: 73, Mismatches: 5, Indels: 21
0.74 0.05 0.21
Matches are distributed among these distances:
7 7 0.10
8 11 0.15
9 21 0.29
10 29 0.40
11 5 0.07
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (9 bp):
GAAAGGAAA
Found at i:4075124 original size:55 final size:55
Alignment explanation
Indices: 4075010--4075132 Score: 155
Period size: 55 Copynumber: 2.3 Consensus size: 55
4075000 GAGAAGAAAG
4075010 AAAGAAAG-AAAAAGAAAGAAAAGGAAAGGAGAAGAAAGAAAGAAAAGTAAAGGA
1 AAAGAAAGAAAAAAGAAAGAAAAGGAAAGGAGAAGAAAGAAAGAAAAGTAAAGGA
* * * *
4075064 GAAGAAAGAAAAAAGAAAGGAAAGGAAGGGAGAAG-AAG-AAGACCAAAG-GAAGGAA
1 AAAGAAAGAAAAAAGAAAGAAAAGGAAAGGAGAAGAAAGAAAGA--AAAGTAAAGG-A
4075119 AAAGAAAGAAAAAA
1 AAAGAAAGAAAAAA
4075133 AGAAGTAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
53 4 0.07
54 14 0.23
55 42 0.70
ACGTcount: A:0.68, C:0.02, G:0.29, T:0.01
Consensus pattern (55 bp):
AAAGAAAGAAAAAAGAAAGAAAAGGAAAGGAGAAGAAAGAAAGAAAAGTAAAGGA
Found at i:4075651 original size:156 final size:157
Alignment explanation
Indices: 4075447--4076112 Score: 926
Period size: 156 Copynumber: 4.3 Consensus size: 157
4075437 CGAAAGTAAT
* * * *
4075447 AAAATACGA-ACAAAGGGCCGAAATAAGAG-TA-TTTACTAAATATT-TTTAAAAAATAGAATTA
1 AAAATACGAGA-AAAGGGCCGAAATAAGGGTTATTTTTCTAAAT-TTATTTAAAAAACACAATTA
4075508 ATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATAT
64 ATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATAT
*
4075573 TTTTATTGAAAGTAATAAAATCCGGG-AA
129 TTTTATTAAAAGTAATAAAATCCGGGAAA
** * *
4075601 AAAGCACGAGAAAAGGGCCAAAATAAGGGTTATTTTTCTAAATTTATTTAAAAAACAAAATTAAT
1 AAAATACGAGAAAAGGGCCGAAATAAGGGTTATTTTTCTAAATTTATTTAAAAAACACAATTAAT
*
4075666 TAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTT
66 TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATATTT
4075731 TTATTAAAAGTAATAAAATCCGGGAAA
131 TTATTAAAAGTAATAAAATCCGGGAAA
* * ** * *
4075758 AAAATACGAGTAAAGGGCCGAAATAATGGTT-TTTTTAAAAAATTTATTTAAAAAACACACTAAA
1 AAAATACGAGAAAAGGGCCGAAATAAGGGTTATTTTT-CTAAATTTATTTAAAAAACACAATTAA
* *
4075822 TTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATATGAAAATAATATA-T
65 TTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATATT
*
4075886 TTTATTAAAAATAATAAAATCCGGGAAA
130 TTTATTAAAAGTAATAAAATCCGGGAAA
* * * * *
4075914 AAAATACGAGCAAAGAGCCGAAATAAAGGTTATTTTTCTAAATTTATTTAAAAAACACACTGAAT
1 AAAATACGAGAAAAGGGCCGAAATAAGGGTTATTTTTCTAAATTTATTTAAAAAACACAATTAAT
*
4075979 TAATGA-ATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-GAAAATAGTATAT
66 TAAT-ACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-TACGAAAATAATATAT
4076042 TTTT-TT-AAAGTAATAAAATCCGGGAAA
129 TTTTATTAAAAGTAATAAAATCCGGGAAA
* * * *
4076069 AAAATACGA-ACAAAAGTCCGAAATAAGTGTT-TTTTACTAAATTT
1 AAAATACGAGA-AAAGGGCCGAAATAAGGGTTATTTTTCTAAATTT
4076113 TTTTTAAAGT
Statistics
Matches: 463, Mismatches: 38, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
154 35 0.08
155 49 0.11
156 257 0.56
157 122 0.26
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (157 bp):
AAAATACGAGAAAAGGGCCGAAATAAGGGTTATTTTTCTAAATTTATTTAAAAAACACAATTAAT
TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATATTT
TTATTAAAAGTAATAAAATCCGGGAAA
Found at i:4075962 original size:313 final size:311
Alignment explanation
Indices: 4075447--4076103 Score: 950
Period size: 313 Copynumber: 2.1 Consensus size: 311
4075437 CGAAAGTAAT
* * * ** * * * *
4075447 AAAATACGAACAAAGGGCCGAAATAAGAG--TATTTACTAAATATT-TTTAAAAAATAGAATTAA
1 AAAATACGAACAAAAGGCCGAAATAAGTGTTTTTTTAAAAAAT-TTATTTAAAAAACACACTAAA
*
4075509 TTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATATT
65 TTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATATT
* * * * *
4075574 TTTATTGAAAGTAATAAAATCCGGGAAAAAGCACGAGAAAAGGGCCAAAATAAGGGTTATTTTTC
130 TTTATTAAAAATAATAAAATCCGGGAAAAAACACGAGAAAAGAGCCAAAATAAAGGTTATTTTTC
*
4075639 TAAATTTATTTAAAAAACAAAATTAATTAAT-ACATTTCAAACATAATGTACTAAAATAATATAA
195 TAAATTTATTTAAAAAACAAAATGAATTAATGA-ATTTCAAACATAATGTACTAAAATAATATAA
4075703 AATAATAAAA-TACGAAAATAATATATTTTTATTAAAAGTAATAAAATCCGGGAAA
259 AATAATAAAATTA-GAAAATAATATATTTTT-TT-AAAGTAATAAAATCCGGGAAA
** *
4075758 AAAATACGAGTAAAGGGCCGAAATAA-TGGTTTTTTTAAAAAATTTATTTAAAAAACACACTAAA
1 AAAATACGAACAAAAGGCCGAAATAAGT-GTTTTTTTAAAAAATTTATTTAAAAAACACACTAAA
*
4075822 TTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATATGAAAATAATATA-T
65 TTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATATT
* * *
4075886 TTTATTAAAAATAATAAAATCCGGGAAAAAAATACGAGCAAAGAGCCGAAATAAAGGTTATTTTT
130 TTTATTAAAAATAATAAAATCCGGG-AAAAAACACGAGAAAAGAGCCAAAATAAAGGTTATTTTT
* * *
4075951 CTAAATTTATTTAAAAAACACACTGAATTAATGAATTTCAAACATAATGTACTAAAATAATGTAA
194 CTAAATTTATTTAAAAAACAAAATGAATTAATGAATTTCAAACATAATGTACTAAAATAATATAA
*
4076016 AATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAATCCGGGAAA
259 AATAATAAAATTAGAAAATAATATATTTTTTTAAAGTAATAAAATCCGGGAAA
*
4076069 AAAATACGAACAAAAGTCCGAAATAAGTGTTTTTT
1 AAAATACGAACAAAAGGCCGAAATAAGTGTTTTTT
4076104 ACTAAATTTT
Statistics
Matches: 309, Mismatches: 29, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
311 75 0.24
312 29 0.09
313 202 0.65
314 3 0.01
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (311 bp):
AAAATACGAACAAAAGGCCGAAATAAGTGTTTTTTTAAAAAATTTATTTAAAAAACACACTAAAT
TAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATATTT
TTATTAAAAATAATAAAATCCGGGAAAAAACACGAGAAAAGAGCCAAAATAAAGGTTATTTTTCT
AAATTTATTTAAAAAACAAAATGAATTAATGAATTTCAAACATAATGTACTAAAATAATATAAAA
TAATAAAATTAGAAAATAATATATTTTTTTAAAGTAATAAAATCCGGGAAA
Found at i:4081039 original size:40 final size:36
Alignment explanation
Indices: 4080969--4081055 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 36
4080959 ACTAACACAA
** *
4080969 TAACAATAATAATAGTTTTTTACTCAAAATAATATTAAC
1 TAACAATAATAATAGGGTTTTACT--AAA-AATAATAAC
4081008 TAACAATAATAATTAGGGTTTTACTAAAAATAATAAC
1 TAACAATAATAA-TAGGGTTTTACTAAAAATAATAAC
4081045 TAACAATAATA
1 TAACAATAATA
4081056 TAATGTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 19 0.43
38 3 0.07
39 12 0.27
40 10 0.23
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (36 bp):
TAACAATAATAATAGGGTTTTACTAAAAATAATAAC
Found at i:4081054 original size:37 final size:38
Alignment explanation
Indices: 4080969--4081136 Score: 119
Period size: 39 Copynumber: 4.4 Consensus size: 38
4080959 ACTAACACAA
** *
4080969 TAACAATAATAATAGTTTTTTACTCAAAATAATATTAAC
1 TAACAATAATAATAGGGTTTTACT-AAAATAATAATAAC
4081008 TAACAATAATAATTAGGGTTTTACT-AAA-AATAATAAC
1 TAACAATAATAA-TAGGGTTTTACTAAAATAATAATAAC
** *** * *
4081045 TAACAATAAT-ATAATGTAAAAACTAACAATCATACTAAC
1 TAACAATAATAATAGGGT-TTTACTAA-AATAATAATAAC
* * **
4081084 TAA-AATAATATTTAGGGTTTTTACTATAATCCTAATAAC
1 TAACAATAATA-ATAGGG-TTTTACTAAAATAATAATAAC
*
4081123 TAACCATAATAATA
1 TAACAATAATAATA
4081137 ATATTAGTTT
Statistics
Matches: 99, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
35 4 0.04
36 4 0.04
37 19 0.19
38 11 0.11
39 37 0.37
40 23 0.23
41 1 0.01
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (38 bp):
TAACAATAATAATAGGGTTTTACTAAAATAATAATAAC
Found at i:4081087 original size:23 final size:23
Alignment explanation
Indices: 4081042--4081088 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4081032 TAAAAATAAT
*
4081042 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
4081065 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
4081088 A
1 A
4081089 TAATATTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:4083158 original size:3 final size:3
Alignment explanation
Indices: 4083150--4083210 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
4083140 AATATACAAC
4083150 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4083198 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
4083211 GATTTGGACT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4090753 original size:18 final size:19
Alignment explanation
Indices: 4090724--4090771 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
4090714 TTTTTTCTTA
4090724 TTTTAAACAAAAACA-TA-AT
1 TTTTAAA-AAAAA-ATTATAT
4090743 TTTTAAAAAAAAATTATAT
1 TTTTAAAAAAAAATTATAT
4090762 TTTTAAAAAA
1 TTTTAAAAAA
4090772 TAAACTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.04
18 7 0.26
19 19 0.70
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTTAAAAAAAAATTATAT
Found at i:4091171 original size:15 final size:16
Alignment explanation
Indices: 4091140--4091200 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
4091130 ACAATTTTTA
4091140 TATTTTTAAAACATTT
1 TATTTTTAAAACATTT
*
4091156 TATTTTTAAATC-TTT
1 TATTTTTAAAACATTT
* *
4091171 TGAATTTTAAACAGATTT
1 T-ATTTTTAAA-ACATTT
4091189 TATTTTTTAAAA
1 TA-TTTTTAAAA
4091201 TATATAACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
15 4 0.11
16 19 0.53
17 2 0.06
18 11 0.31
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (16 bp):
TATTTTTAAAACATTT
Found at i:4091212 original size:16 final size:16
Alignment explanation
Indices: 4091193--4091223 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4091183 AGATTTTATT
4091193 TTTTAAAATATATAAC
1 TTTTAAAATATATAAC
*
4091209 TTTTAAAATTTATAA
1 TTTTAAAATATATAA
4091224 TCCATTTAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTAAAATATATAAC
Found at i:4100652 original size:11 final size:10
Alignment explanation
Indices: 4100632--4100701 Score: 52
Period size: 10 Copynumber: 6.9 Consensus size: 10
4100622 TGTGTATGAA
4100632 TTATATTTTT
1 TTATATTTTT
*
4100642 TTATAATTTT
1 TTATATTTTT
*
4100652 TTA-ATTTAT
1 TTATATTTTT
* *
4100661 ATATACTTTT
1 TTATATTTTT
* *
4100671 CTAAATTTTT
1 TTATATTTTT
4100681 TTATATATTTAT
1 TTATAT-TTT-T
*
4100693 TTATCTTTT
1 TTATATTTT
4100702 ATAATGTTTC
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
9 6 0.13
10 27 0.60
11 6 0.13
12 6 0.13
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATATTTTT
Found at i:4113247 original size:21 final size:21
Alignment explanation
Indices: 4113197--4113240 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4113187 TTTTTATGTT
* * *
4113197 AAAAGAGATGGAGAAGAGAGG
1 AAAATAGAAGGAGAAGAGAAG
4113218 AAAATAGAAGGAGAAGTAGAAG
1 AAAATAGAAGGAGAAG-AGAAG
4113240 A
1 A
4113241 GAAAGAACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.36, T:0.07
Consensus pattern (21 bp):
AAAATAGAAGGAGAAGAGAAG
Found at i:4115097 original size:22 final size:22
Alignment explanation
Indices: 4115035--4115120 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
4115025 AAATTGCCTT
4115035 TAAAATAGTAGCAAAATTAATAA
1 TAAAATAGTAGCAAAA-TAATAA
* *
4115058 TAAAACA--AG-AACAATAATAT
1 TAAAATAGTAGCAA-AATAATAA
*
4115078 TAAAATAGTAGCAACATAATAA
1 TAAAATAGTAGCAAAATAATAA
* *
4115100 TGAAATGGTAGCAAAATAATA
1 TAAAATAGTAGCAAAATAATA
4115121 GAAAAACAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 13 0.25
21 4 0.08
22 26 0.51
23 8 0.16
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.23
Consensus pattern (22 bp):
TAAAATAGTAGCAAAATAATAA
Found at i:4122271 original size:30 final size:27
Alignment explanation
Indices: 4122229--4122298 Score: 70
Period size: 30 Copynumber: 2.5 Consensus size: 27
4122219 TTAGGTGTTT
4122229 TTTTAATT-AGATTTTCAGTTCAATAAATAC
1 TTTT-ATTGAGATTTTCAGTTCAAT--A-AC
***
4122259 TTTTATTGAGATTTTTTTTTCAATAAC
1 TTTTATTGAGATTTTCAGTTCAATAAC
4122286 TTTTATTGAGATT
1 TTTTATTGAGATT
4122299 AAATATCGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 15 0.42
28 1 0.03
29 3 0.08
30 17 0.47
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (27 bp):
TTTTATTGAGATTTTCAGTTCAATAAC
Found at i:4122675 original size:19 final size:18
Alignment explanation
Indices: 4122628--4122770 Score: 60
Period size: 19 Copynumber: 7.4 Consensus size: 18
4122618 ACATGTGGCA
*
4122628 AAAAATAATAAAAA--AT
1 AAAAATATTAAAAATTAT
* *
4122644 AAAAATCAATAAAAGTTAT
1 AAAAAT-ATTAAAAATTAT
**
4122663 AAAAATGATTAAATTTTAAT
1 AAAAAT-ATTAAAAATT-AT
4122683 AAAAATATTTAAAAATTAT
1 AAAAATA-TTAAAAATTAT
* * *
4122702 AAGAAAAAATTATAAAAATCAC
1 -A-AAAATA-T-TAAAAATTAT
*
4122724 AAAAA-ATTGTAAAATTTTAT
1 AAAAATA-T-TAAAA-ATTAT
4122744 AAAAATCA-TAAAAATTAT
1 AAAAAT-ATTAAAAATTAT
4122762 AAAATATAT
1 AAAA-ATAT
4122771 AGAAATACAG
Statistics
Matches: 99, Mismatches: 15, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
16 6 0.06
17 7 0.07
18 9 0.09
19 33 0.33
20 27 0.27
21 8 0.08
22 9 0.09
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
AAAAATATTAAAAATTAT
Done.