Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold258
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: 5730937
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 25
Found at i:4534966 original size:18 final size:18
Alignment explanation
Indices: 4534943--4534980 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4534933 TCATCCTCGT
4534943 CGTTTCATCTCAATTCCA
1 CGTTTCATCTCAATTCCA
4534961 CGTTTCATCTCAATTCCA
1 CGTTTCATCTCAATTCCA
4534979 CG
1 CG
4534981 GAACATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (18 bp):
CGTTTCATCTCAATTCCA
Found at i:4537877 original size:5 final size:5
Alignment explanation
Indices: 4537869--4537902 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
4537859 AATGAGATGA
* *
4537869 GAAGG GAAGG GAAGG GAAGG GAAAG GAAGA GAAG
1 GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAAG
4537903 ATATACTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (5 bp):
GAAGG
Found at i:4539451 original size:2 final size:2
Alignment explanation
Indices: 4539444--4539489 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
4539434 TTGTATAGAT
*
4539444 TA TA TA TA TA TA TA TA TA T- TC TA -A T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4539483 TA TA TA T
1 TA TA TA T
4539490 TCTTTTAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4541389 original size:15 final size:16
Alignment explanation
Indices: 4541367--4541404 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4541357 TTAACTGTAT
*
4541367 AAATTAAAATATTG-TA
1 AAATAAAAAT-TTGTTA
4541383 AAATAAAAATTTGTTA
1 AAATAAAAATTTGTTA
4541399 AAATAA
1 AAATAA
4541405 TACTGATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
AAATAAAAATTTGTTA
Found at i:4541391 original size:16 final size:15
Alignment explanation
Indices: 4541362--4541404 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
4541352 AAAAATTAAC
*
4541362 TGTATAAATTAAAATAT
1 TGTA-AAATAAAAAT-T
4541379 TGTAAAATAAAAATT
1 TGTAAAATAAAAATT
4541394 TGTTAAAATAA
1 TG-TAAAATAA
4541405 TACTGATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 3 0.12
16 17 0.71
17 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
TGTAAAATAAAAATT
Found at i:4543038 original size:21 final size:21
Alignment explanation
Indices: 4543014--4543076 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
4543004 TTTTTTAATA
4543014 TAAAATTATATAAAAAATTAT
1 TAAAATTATATAAAAAATTAT
*
4543035 TAAAATTAT-TATAAATATTAT
1 TAAAATTATATA-AAAAATTAT
* * *
4543056 TATAATTATATCAAAACTTAT
1 TAAAATTATATAAAAAATTAT
4543077 CGATACTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.06
21 32 0.91
22 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAATTATATAAAAAATTAT
Found at i:4543058 original size:12 final size:11
Alignment explanation
Indices: 4543012--4543060 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 11
4543002 TATTTTTTAA
4543012 TATAAAATTA-
1 TATAAAATTAT
*
4543022 TATAAAA-AAT
1 TATAAAATTAT
4543032 TATTAAAATTAT
1 TA-TAAAATTAT
4543044 TATAAATATTAT
1 TATAAA-ATTAT
4543056 TATAA
1 TATAA
4543061 TTATATCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 1 0.03
10 9 0.27
11 9 0.27
12 14 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATAAAATTAT
Found at i:4543192 original size:21 final size:22
Alignment explanation
Indices: 4543163--4543203 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4543153 CATTTGTGTG
*
4543163 AAATCTTATCAATATTATATAA
1 AAATCTTATCAAAATTATATAA
4543185 AAAT-TTATCAAAATTATAT
1 AAATCTTATCAAAATTATAT
4543204 TAATTATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATCTTATCAAAATTATATAA
Found at i:4543497 original size:38 final size:38
Alignment explanation
Indices: 4543418--4543503 Score: 102
Period size: 38 Copynumber: 2.3 Consensus size: 38
4543408 AATTAAATTA
* *
4543418 GTTGACGGTTAAAAAATTTAATTTAAAATTGACTGACG
1 GTTGACGGTTAAAAAATTCAATTTAAAATTGACTAACG
* * * *
4543456 GTTGACGGTTAGAAAATTCAATTTAGAATT-AGTTAATG
1 GTTGACGGTTAAAAAATTCAATTTAAAATTGA-CTAACG
4543494 GTTGACGGTT
1 GTTGACGGTT
4543504 GGTGACTAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.02
38 40 0.98
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (38 bp):
GTTGACGGTTAAAAAATTCAATTTAAAATTGACTAACG
Found at i:4548097 original size:38 final size:37
Alignment explanation
Indices: 4548055--4548173 Score: 134
Period size: 38 Copynumber: 3.1 Consensus size: 37
4548045 CAAATTGAAT
* *
4548055 TGGCTGGTAGTTAGAGAATTAAATTTGAAATTAGCTGG
1 TGGCTGG-AGTTAGAGAATTCAATTTGAAATTGGCTGG
*
4548093 TGGCT-GACGGTTAGAGAATTCAATTTGAAATTGGCTAG
1 TGGCTGGA--GTTAGAGAATTCAATTTGAAATTGGCTGG
* *
4548131 TGGCT-GACGACTAAAGAATTCAATTTGAAATTGGCTGG
1 TGGCTGGA-G-TTAGAGAATTCAATTTGAAATTGGCTGG
4548169 TGGCT
1 TGGCT
4548174 AGGGAATTCT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
36 1 0.01
37 2 0.03
38 68 0.96
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (37 bp):
TGGCTGGAGTTAGAGAATTCAATTTGAAATTGGCTGG
Found at i:4548939 original size:23 final size:25
Alignment explanation
Indices: 4548883--4548943 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
4548873 TATTTGTATA
*
4548883 ATTTA-ATTAATAATTATATATATT
1 ATTTATATTTATAATTATATATATT
4548907 ATTT-TA-TTATAATTATA-AT-TT
1 ATTTATATTTATAATTATATATATT
*
4548928 TTTTATATTTATAATT
1 ATTTATATTTATAATT
4548944 TTTCATGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 5 0.16
22 4 0.12
23 18 0.56
24 5 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
ATTTATATTTATAATTATATATATT
Found at i:4548946 original size:17 final size:17
Alignment explanation
Indices: 4548896--4548946 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
4548886 TAATTAATAA
* * *
4548896 TTATATATATTATTTTA
1 TTATATTTATAATTTTT
*
4548913 TTATAATTATAATTTTT
1 TTATATTTATAATTTTT
4548930 TTATATTTATAATTTTT
1 TTATATTTATAATTTTT
4548947 CATGAAGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATATTTATAATTTTT
Found at i:4549955 original size:2 final size:2
Alignment explanation
Indices: 4549948--4549981 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4549938 GTAAATAACT
4549948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4549982 GTTGTTATCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4550207 original size:16 final size:16
Alignment explanation
Indices: 4550187--4550247 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 16
4550177 AATTTTATAT
4550187 AATATAAATTATTTTA
1 AATATAAATTATTTTA
* *
4550203 CATATCAAAATTA-TATA
1 AATAT--AAATTATTTTA
* *
4550220 AAAATAAAATATTTTA
1 AATATAAATTATTTTA
4550236 AATAT-AATTATT
1 AATATAAATTATT
4550248 ATTTCATAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
15 11 0.32
16 11 0.32
17 6 0.18
18 6 0.18
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATAAATTATTTTA
Found at i:4550249 original size:33 final size:33
Alignment explanation
Indices: 4550177--4550249 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
4550167 AATAATTTTA
* * *
4550177 AATT-TTATATAATATAAATTATTTTACATATC
1 AATTATTATATAAAATAAAATATTTTAAATATC
*
4550209 AA-AATTATATAAAAATAAAATATTTTAAATAT-
1 AATTATTATAT-AAAATAAAATATTTTAAATATC
4550241 AATTATTAT
1 AATTATTAT
4550250 TTCATAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
32 10 0.30
33 23 0.70
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (33 bp):
AATTATTATATAAAATAAAATATTTTAAATATC
Found at i:4550802 original size:10 final size:11
Alignment explanation
Indices: 4550705--4550814 Score: 70
Period size: 12 Copynumber: 10.0 Consensus size: 11
4550695 AATTATTTTT
4550705 TTTAAATTTAA
1 TTTAAATTTAA
4550716 TTATAAATATTAA
1 TT-TAAAT-TTAA
* * *
4550729 TATAAAATAAA
1 TTTAAATTTAA
* *
4550740 TTTTAATATTAT
1 TTTAAAT-TTAA
4550752 TTTAAA--TAA
1 TTTAAATTTAA
4550761 --TAAATTTAA
1 TTTAAATTTAA
4550770 CTTTTAAA-TTAA
1 --TTTAAATTTAA
*
4550782 TTAAAATTTTAA
1 TTTAAA-TTTAA
4550794 TTT-AATTTAA
1 TTTAAATTTAA
4550804 TTTAAATTTAA
1 TTTAAATTTAA
4550815 ATAAAAAATT
Statistics
Matches: 75, Mismatches: 12, Indels: 24
0.68 0.11 0.22
Matches are distributed among these distances:
7 4 0.05
9 5 0.07
10 13 0.17
11 18 0.24
12 26 0.35
13 9 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:4550805 original size:16 final size:16
Alignment explanation
Indices: 4550763--4550814 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
4550753 TTAAATAATA
*
4550763 AATTTAACTTTTAAATT
1 AATTTAA-TTTTAATTT
*
4550780 AATTAAAATTTTAATTT
1 AATT-TAATTTTAATTT
*
4550797 AATTTAATTTAAATTT
1 AATTTAATTTTAATTT
4550813 AA
1 AA
4550815 ATAAAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 12 0.40
17 16 0.53
18 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTAATTTTAATTT
Found at i:4550813 original size:6 final size:6
Alignment explanation
Indices: 4550705--4550816 Score: 51
Period size: 6 Copynumber: 19.2 Consensus size: 6
4550695 AATTATTTTT
* * * *
4550705 TTTAAA TTT-AA TTATAAA TATT-AA TATAAA -ATAAA TTTTAA TATT-AT
1 TTTAAA TTTAAA TT-TAAA T-TTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
* * * *
4550752 TTTAAA TAATAAA TTTAACT TTTAAA -TT-AA TTAAAA TTTTAA TTT-AA
1 TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
4550799 TTT-AA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA T
4550817 AAAAAATTCA
Statistics
Matches: 82, Mismatches: 12, Indels: 24
0.69 0.10 0.20
Matches are distributed among these distances:
4 2 0.02
5 25 0.30
6 38 0.46
7 16 0.20
8 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:4553206 original size:21 final size:23
Alignment explanation
Indices: 4553165--4553206 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4553155 ATAATTTCTT
*
4553165 TTATATATAATATTTTATTATGA
1 TTATAAATAATATTTTATTATGA
4553188 TTATAAAT-ATATTTT-TTAT
1 TTATAAATAATATTTTATTAT
4553207 ATTTGTAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 7 0.39
23 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATAAATAATATTTTATTATGA
Found at i:4553375 original size:16 final size:15
Alignment explanation
Indices: 4553343--4553376 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
4553333 TAAATACAAA
*
4553343 ATATTTTTAATATTT
1 ATATTTTTAATAATT
4553358 ATATTTTTATATAATT
1 ATATTTTTA-ATAATT
4553374 ATA
1 ATA
4553377 GATATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTTTAATAATT
Found at i:4554003 original size:19 final size:18
Alignment explanation
Indices: 4553970--4554005 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4553960 TATCGTAGCA
4553970 AAATGATAATATATAATT
1 AAATGATAATATATAATT
*
4553988 AAATGATGATTATATAAT
1 AAATGAT-AATATATAAT
4554006 ATACATCATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
AAATGATAATATATAATT
Found at i:4556726 original size:28 final size:30
Alignment explanation
Indices: 4556658--4556728 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 30
4556648 AAATTAAATT
* *
4556658 AAAATTAAAATTTTTATTAATTTAACTGTTA
1 AAAATT-AAATTTATATAAATTTAACTGTTA
*
4556689 AAAATT--ATTTATATAAATTTTA-T-TTA
1 AAAATTAAATTTATATAAATTTAACTGTTA
4556715 AAAATTAAATTTAT
1 AAAATTAAATTTAT
4556729 TTACAGGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
26 9 0.26
27 1 0.03
28 19 0.54
31 6 0.17
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
AAAATTAAATTTATATAAATTTAACTGTTA
Found at i:4559031 original size:32 final size:32
Alignment explanation
Indices: 4558990--4559053 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
4558980 GATTGACTGC
4558990 TGGGAAGTGGAAGTTTTGTTAATATGTGCATT
1 TGGGAAGTGGAAGTTTTGTTAATATGTGCATT
4559022 TGGGAAGTGGAAGTTTTGTTAATATGTGCATT
1 TGGGAAGTGGAAGTTTTGTTAATATGTGCATT
4559054 CATGTTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.03, G:0.31, T:0.41
Consensus pattern (32 bp):
TGGGAAGTGGAAGTTTTGTTAATATGTGCATT
Found at i:4559097 original size:18 final size:18
Alignment explanation
Indices: 4559074--4559113 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
4559064 AGGAAATACT
4559074 TTATCTACTGTTCAGGTC
1 TTATCTACTGTTCAGGTC
4559092 TTATCTACTGTTCAGGTC
1 TTATCTACTGTTCAGGTC
4559110 TTAT
1 TTAT
4559114 AGTACTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.47
Consensus pattern (18 bp):
TTATCTACTGTTCAGGTC
Found at i:4560384 original size:492 final size:492
Alignment explanation
Indices: 4559444--4560436 Score: 1449
Period size: 492 Copynumber: 2.0 Consensus size: 492
4559434 TTAACTTAAA
* ** * *
4559444 AAAGTTATATACATAAATTCTCTTTAAAAGTTAGATTTATTTACCGAGTTGAACTACTCACTTAA
1 AAAGTTATATACATAAATTCTCTTTAAAAGTTAAATTTATTTACAAAGTTGAACTACCCACTCAA
* * * * *
4559509 TCTGATAGATTTGATCTAATCTATATAAGTAGAGCTTTGGCCAATATCTTTAACGATTTGGATCA
66 TCTGATAGATTTGA-CT-ATCTATATAAATAAAGCTTTGACCAATATCTTTAACAATTTAGATCA
* *
4559574 ACACAATTCAAATTATTATTTAATAATAAATATATATTTTTTATTTAAATTTAATTATAAAAATA
129 ACACAATTCAAATTACTATTTAATAATAAAAATATATTTTTTATTTAAATTTAATTATAAAAATA
* * *
4559639 TATAAATATTAATAAATTTTTTTATTAATTTTATACGATGATTCGAGCTTTAAATAGAGTTAAAT
194 TATAAATATTAATAAATTTTTTTATTAATTTTATACAATGATTCGAACTTTAAATAGAGTCAAAT
* * *
4559704 TCAATTTAAAAATAAGTAAAAAATCTAAAATAATTTGAGCCGCTGTACCCATCCATGAACATTAC
259 TCAATTTAAAAATAAGTAAAAAATCTAAAAAAATTTGAACCGATGTACCCATCCATGAACATTAC
* *
4559769 TAATAAAATTTGGAGTGTTTTAAAAATAAAATAAGAAAAAAAATTCTATTTATAACTTACTCATA
324 TAATAAAATTTAGAGTATTTTAAAAATAAAAT---AAAAAAAATTCTATTTATAACTTACTCATA
* * **
4559834 TTTTATTTTTTAATTTCTTTGTTAAAAATAAATTCTTATAAATCTTTAAATTTTTTGACAAAAC-
386 TTCTATTTTTTAATTTCTTTATTAAAAATAAATTCTTATAAATCTTTAAAAATTTTGACAAAACA
4559898 TTAATTTAATTTTTATTTATAAAAATTAAATAACTTAAAAAT
451 TTAATTTAATTTTTATTTATAAAAATTAAATAACTTAAAAAT
* **
4559940 AAAGTTATTTACATAAATTCTCTTTAAAAGTTAAATTTATTTACAAAGTTGAACTACCCACTCGG
1 AAAGTTATATACATAAATTCTCTTTAAAAGTTAAATTTATTTACAAAGTTGAACTACCCACTCAA
* *
4560005 TCTGATAGATTTGA-T-T-TATATAAATAAAGCTTTGATCAATATCTTTAATAATTTAGATCAAC
66 TCTGATAGATTTGACTATCTATATAAATAAAGCTTTGACCAATATCTTTAACAATTTAGATCAAC
*
4560067 ACAATTTAAATTACTATTTAATAATAAAAAATATATTTTTTATTTAAATTTAATTATAAAAATAT
131 ACAATTCAAATTACTATTTAATAAT-AAAAATATATTTTTTATTTAAATTTAATTATAAAAATAT
* * * * *
4560132 ATAAATATTAATAATTTTTTTTATTAATTTTATGCAATGATTCGAATTTTAAGTAGAGTCGAATT
195 ATAAATATTAATAAATTTTTTTATTAATTTTATACAATGATTCGAACTTTAAATAGAGTCAAATT
* * **
4560197 CAATTTAAAAATGAA-TAAAAAATCTAAAAAAATTTGAATCGATGCTTACCTATTTATGAACATT
260 CAATTTAAAAAT-AAGTAAAAAATCTAAAAAAATTTGAACCGATG--TACCCATCCATGAACATT
*
4560261 ACTAATAAAATTTAGAGTATTTTAAAAATAAAAT-AAAAAAATTCTATTTATAACTTACTCTTAT
322 ACTAATAAAATTTAGAGTATTTTAAAAATAAAATAAAAAAAATTCTATTTATAACTTACTCATAT
*
4560325 TCTATTTTTTTAATTTCTTTATTAAAAGTAAATTCTTATAAATCTTTAAAAAATTTTGACAAAAC
387 TCTA-TTTTTTAATTTCTTTATTAAAAATAAATTCTTATAAATCTTT-AAAAATTTTGACAAAAC
4560390 TTAATTAATTTAATTTTTATTTATAAAAATTAAATAACTTAAAAAT
450 ---ATTAATTTAATTTTTATTTATAAAAATTAAATAACTTAAAAAT
4560436 A
1 A
4560437 GACGAAACGA
Statistics
Matches: 446, Mismatches: 41, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
490 32 0.07
491 102 0.23
492 148 0.33
493 2 0.00
494 48 0.11
496 114 0.26
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (492 bp):
AAAGTTATATACATAAATTCTCTTTAAAAGTTAAATTTATTTACAAAGTTGAACTACCCACTCAA
TCTGATAGATTTGACTATCTATATAAATAAAGCTTTGACCAATATCTTTAACAATTTAGATCAAC
ACAATTCAAATTACTATTTAATAATAAAAATATATTTTTTATTTAAATTTAATTATAAAAATATA
TAAATATTAATAAATTTTTTTATTAATTTTATACAATGATTCGAACTTTAAATAGAGTCAAATTC
AATTTAAAAATAAGTAAAAAATCTAAAAAAATTTGAACCGATGTACCCATCCATGAACATTACTA
ATAAAATTTAGAGTATTTTAAAAATAAAATAAAAAAAATTCTATTTATAACTTACTCATATTCTA
TTTTTTAATTTCTTTATTAAAAATAAATTCTTATAAATCTTTAAAAATTTTGACAAAACATTAAT
TTAATTTTTATTTATAAAAATTAAATAACTTAAAAAT
Found at i:4561244 original size:3 final size:3
Alignment explanation
Indices: 4561189--4561226 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4561179 AATGGCTGTC
4561189 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4561227 GATGCGGCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4561391 original size:27 final size:28
Alignment explanation
Indices: 4561361--4561424 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
4561351 ATATTATTTA
4561361 TTTTATATAATTTAT-TAATAAATAATT
1 TTTTATATAATTTATATAATAAATAATT
* * * *
4561388 TTTTATA-ATTTTATATATTAGATACTT
1 TTTTATATAATTTATATAATAAATAATT
4561415 TTTTATATAA
1 TTTTATATAA
4561425 AATTATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.20
27 23 0.77
28 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (28 bp):
TTTTATATAATTTATATAATAAATAATT
Found at i:4561446 original size:9 final size:9
Alignment explanation
Indices: 4561434--4561543 Score: 69
Period size: 9 Copynumber: 10.8 Consensus size: 9
4561424 AAATTATAAA
4561434 AAAATTATT
1 AAAATTATT
4561443 AAAATTATT
1 AAAATTATT
4561452 ATAAA-TATT
1 A-AAATTATT
4561461 ATCATAATTACATT
1 A--A-AATT--ATT
4561475 AAAATTTATT
1 AAAA-TTATT
* *
4561485 GATATTATT
1 AAAATTATT
4561494 ATAAATTTATAT
1 A-AAA-TTAT-T
4561506 AAAATTTATT
1 AAAA-TTATT
4561516 AAAATTATTTT
1 AAAATTA--TT
4561527 AAATATTATT
1 AAA-ATTATT
4561537 AAAATTA
1 AAAATTA
4561544 AATTAAATAT
Statistics
Matches: 83, Mismatches: 5, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
9 27 0.33
10 21 0.25
11 21 0.25
12 10 0.12
14 4 0.05
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (9 bp):
AAAATTATT
Found at i:4561461 original size:21 final size:20
Alignment explanation
Indices: 4561417--4561541 Score: 94
Period size: 21 Copynumber: 6.0 Consensus size: 20
4561407 AGATACTTTT
* *
4561417 TTATATAAAATTATAAAAAAA
1 TTAT-TAAAATTATTAAAATA
4561438 TTATTAAAATTATTATAAATA
1 TTATTAAAATTATTA-AAATA
* *
4561459 TTATCATAATTACATTAAAAT-
1 TTATTAAAATT--ATTAAAATA
* *
4561480 TTATTGATATTATTATAAAT-
1 TTATTAAAATTATTA-AAATA
4561500 TTATATAAAATTTATTAAAATTA
1 TTAT-TAAAA-TTATTAAAA-TA
4561523 TT-TTAAATATTATTAAAAT
1 TTATTAAA-ATTATTAAAAT
4561542 TAAATTAAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 19
0.75 0.09 0.17
Matches are distributed among these distances:
19 4 0.05
20 19 0.22
21 43 0.51
22 13 0.15
23 6 0.07
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (20 bp):
TTATTAAAATTATTAAAATA
Found at i:4561490 original size:30 final size:31
Alignment explanation
Indices: 4561456--4561515 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
4561446 ATTATTATAA
4561456 ATATTATCAT-AATTACAT-TAAAATTTATTG
1 ATATTATCATAAATT-CATATAAAATTTATTG
* *
4561486 ATATTATTATAAATTTATATAAAATTTATT
1 ATATTATCATAAATTCATATAAAATTTATT
4561516 AAAATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (31 bp):
ATATTATCATAAATTCATATAAAATTTATTG
Found at i:4561510 original size:11 final size:10
Alignment explanation
Indices: 4561433--4561542 Score: 73
Period size: 11 Copynumber: 10.6 Consensus size: 10
4561423 AAAATTATAA
*
4561433 AAAAATTATT
1 AAAATTTATT
4561443 AAAA-TTATT
1 AAAATTTATT
*
4561452 ATAAATATTATC
1 A-AAAT-TTATT
* *
4561464 ATAATTACATT
1 AAAATT-TATT
4561475 AAAATTTATT
1 AAAATTTATT
* *
4561485 GATA-TTATT
1 AAAATTTATT
4561494 ATAAATTTATAT
1 A-AAATTTAT-T
4561506 AAAATTTATT
1 AAAATTTATT
4561516 AAAA-TTATTT
1 AAAATTTA-TT
*
4561526 TAAATATTATT
1 AAAAT-TTATT
4561537 AAAATT
1 AAAATT
4561543 AAATTAAATA
Statistics
Matches: 78, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
9 14 0.18
10 26 0.33
11 28 0.36
12 10 0.13
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (10 bp):
AAAATTTATT
Found at i:4561512 original size:31 final size:31
Alignment explanation
Indices: 4561442--4561543 Score: 70
Period size: 31 Copynumber: 3.3 Consensus size: 31
4561432 AAAAAATTAT
* * *
4561442 TAAAATTATTATAAATATTATCATAATTACAT
1 TAAAATTATTATAAATATTATTAAAATT-TAT
**
4561474 TAAAA-T-TTATTGATATTATTATAAATTTAT
1 TAAAATTATTATAAATATTATTA-AAATTTAT
4561504 ATAAAATTTATTA-AAATTATT-TT-AAATATTAT
1 -TAAAA-TTATTATAAA-TATTATTAAAAT-TTAT
4561536 TAAAATTA
1 TAAAATTA
4561544 AATTAAATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
30 17 0.30
31 19 0.34
32 9 0.16
33 4 0.07
34 7 0.12
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (31 bp):
TAAAATTATTATAAATATTATTAAAATTTAT
Found at i:4561542 original size:21 final size:21
Alignment explanation
Indices: 4561472--4561616 Score: 109
Period size: 21 Copynumber: 7.0 Consensus size: 21
4561462 TCATAATTAC
*
4561472 ATTAAAATT-TATT-GATATT
1 ATTAAAATTATATTAAATATT
*
4561491 ATTATAAATTTATATAAAAT-TT
1 ATTA-AAA-TTATATTAAATATT
*
4561513 ATTAAAATTATTTTAAATATT
1 ATTAAAATTATATTAAATATT
* *
4561534 ATTAAAATTAAATTAAATATA
1 ATTAAAATTATATTAAATATT
* * * * * *
4561555 ACTACATTTGTATGAAATGTT
1 ATTAAAATTATATTAAATATT
* * *
4561576 ATTAATATTACA-TAAAAATT
1 ATTAAAATTATATTAAATATT
*
4561596 ATTAAAATTATATTAATTATT
1 ATTAAAATTATATTAAATATT
4561617 TAATTTTATA
Statistics
Matches: 92, Mismatches: 28, Indels: 10
0.71 0.22 0.08
Matches are distributed among these distances:
19 4 0.04
20 27 0.29
21 50 0.54
22 9 0.10
23 2 0.02
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (21 bp):
ATTAAAATTATATTAAATATT
Found at i:4562006 original size:43 final size:42
Alignment explanation
Indices: 4561958--4562039 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
4561948 TCTTAATATA
* * *
4561958 ATTATTGTTTAA-ATTTATATTAAATTTATTTAATTATTTACTG
1 ATTATTGATTAATATTTATA-T-AATTTAATTAATAATTTACTG
4562001 ATTATTGATTAATTATTTATATAATTTAATTAATAATTT
1 ATTATTGATTAA-TATTTATATAATTTAATTAATAATTT
4562040 TTTATATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 26 0.76
44 1 0.03
45 7 0.21
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (42 bp):
ATTATTGATTAATATTTATATAATTTAATTAATAATTTACTG
Found at i:4562073 original size:17 final size:17
Alignment explanation
Indices: 4562053--4562090 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4562043 ATATACAACC
4562053 TTTTATTATGA-TTATAA
1 TTTTATTAT-ATTTATAA
*
4562070 TTTTTTTATATTTATAA
1 TTTTATTATATTTATAA
4562087 TTTT
1 TTTT
4562091 TAATTATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTATTATATTTATAA
Found at i:4563286 original size:16 final size:16
Alignment explanation
Indices: 4563267--4563334 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
4563257 ATAATAATTT
4563267 TAAAATTTTTATAATA
1 TAAAATTTTTATAATA
4563283 T-AAATTATTT-TACATA
1 TAAAATT-TTTATA-ATA
*
4563299 TTAAAA-TTATATAAATA
1 -TAAAATTTTTAT-AATA
4563316 TAAAATATTTTA-AATA
1 TAAAAT-TTTTATAATA
4563332 TAA
1 TAA
4563335 TTATTATATC
Statistics
Matches: 42, Mismatches: 2, Indels: 16
0.70 0.03 0.27
Matches are distributed among these distances:
15 7 0.17
16 21 0.50
17 6 0.14
18 8 0.19
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAAATTTTTATAATA
Found at i:4563343 original size:33 final size:33
Alignment explanation
Indices: 4563245--4563332 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
4563235 GATATTAAAA
** *
4563245 ATAAAT-TAAAATATAAT-AATTTTAAAATT-T
1 ATAAATATAAAATATTTTAAATATTAAAATTAT
* * *
4563275 TTATAATATAAATTATTTTACATATTAAAATTAT
1 ATA-AATATAAAATATTTTAAATATTAAAATTAT
4563309 ATAAATATAAAATATTTTAAATAT
1 ATAAATATAAAATATTTTAAATAT
4563333 AATTATTATA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
30 2 0.04
31 3 0.07
32 8 0.18
33 29 0.64
34 3 0.07
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (33 bp):
ATAAATATAAAATATTTTAAATATTAAAATTAT
Found at i:4563508 original size:77 final size:77
Alignment explanation
Indices: 4563373--4563527 Score: 256
Period size: 77 Copynumber: 2.0 Consensus size: 77
4563363 ACTATTAACA
* *
4563373 TATACATTGGCCGATCTATTGATTTTGTTCACTTGGATTTAGAATTTGAAGCAAGGGGTATATAA
1 TATAAATTGGCAGATCTATTGATTTTGTTCACTTGGATTTAGAATTTGAAGCAAGGGGTATATAA
4563438 TACTTTGACGTT
66 TACTTTGACGTT
* * * *
4563450 TATAAATTGGCAGATCTATTGATTTTGTTCACTTGGGTTTGGAATTTGAAGCAGGGGGTATTTAA
1 TATAAATTGGCAGATCTATTGATTTTGTTCACTTGGATTTAGAATTTGAAGCAAGGGGTATATAA
4563515 TACTTTGACGTT
66 TACTTTGACGTT
4563527 T
1 T
4563528 TACTAGTCAG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (77 bp):
TATAAATTGGCAGATCTATTGATTTTGTTCACTTGGATTTAGAATTTGAAGCAAGGGGTATATAA
TACTTTGACGTT
Found at i:4563645 original size:2 final size:2
Alignment explanation
Indices: 4563640--4563667 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4563630 ATATATATAT
4563640 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4563668 TGTGTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4563960 original size:24 final size:24
Alignment explanation
Indices: 4563911--4563961 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
4563901 TTTAATTATA
*
4563911 AATATTAATATAAAAATAAATTTT
1 AATATTAATATAAAAATAAATATT
* *
4563935 AATATTATTTTAAATAATAAA-ATT
1 AATATTAATATAAA-AATAAATATT
4563959 AAT
1 AAT
4563962 TTTTAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AATATTAATATAAAAATAAATATT
Found at i:4570431 original size:28 final size:24
Alignment explanation
Indices: 4570388--4570445 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
4570378 AATTAAAATT
4570388 AAAATT-TTTATTAATTTAATTGTTA
1 AAAATTATTTATTAATTTAA-T-TTA
*
4570413 AAAATTATTTATATAAATTTTATTTA
1 AAAATTATTTAT-T-AATTTAATTTA
4570439 AAAATTA
1 AAAATTA
4570446 AATTTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.21
26 15 0.52
27 2 0.07
28 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
AAAATTATTTATTAATTTAATTTA
Found at i:4570450 original size:28 final size:30
Alignment explanation
Indices: 4570382--4570452 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 30
4570372 AAATTGAATT
* *
4570382 AAAATTAAAATTTTTATTAATTTAATTGTTA
1 AAAATT-AAATTTATATAAATTTAATTGTTA
*
4570413 AAAATT--ATTTATATAAATTTTA-T-TTA
1 AAAATTAAATTTATATAAATTTAATTGTTA
4570439 AAAATTAAATTTAT
1 AAAATTAAATTTAT
4570453 TTACAGGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
26 9 0.26
27 1 0.03
28 19 0.54
31 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (30 bp):
AAAATTAAATTTATATAAATTTAATTGTTA
Found at i:4573002 original size:2 final size:2
Alignment explanation
Indices: 4572995--4573026 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4572985 GATTTGGGTT
4572995 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4573027 GTGTAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4573227 original size:15 final size:16
Alignment explanation
Indices: 4573207--4573248 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
4573197 ATAAATTTTC
*
4573207 TTAATTTACA-TTAAA
1 TTAATTTAAATTTAAA
4573222 TTAATTTAAATTTAAA
1 TTAATTTAAATTTAAA
4573238 TATAA-TTAAAT
1 T-TAATTTAAAT
4573249 ATTATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 9 0.38
16 12 0.50
17 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATTTAAATTTAAA
Found at i:4575706 original size:2 final size:2
Alignment explanation
Indices: 4575701--4575836 Score: 101
Period size: 2 Copynumber: 77.0 Consensus size: 2
4575691 ATATATGGTG
*
4575701 TA TA TA -A TA GA TA TA TA TA -A TA TA -A TA TA TA -A TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
4575738 -A TA TA TA -A TA TA TA TT TA TA T- TA TA TA TA -A CA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4575775 -A TA TA -A TA -A TA TA TA TA -A TA -A CA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4575811 TA -A TG TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4575837 AAATAACAAA
Statistics
Matches: 108, Mismatches: 8, Indels: 36
0.71 0.05 0.24
Matches are distributed among these distances:
1 18 0.17
2 90 0.83
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (2 bp):
TA
Found at i:4575724 original size:20 final size:20
Alignment explanation
Indices: 4575701--4575834 Score: 124
Period size: 20 Copynumber: 7.0 Consensus size: 20
4575691 ATATATGGTG
*
4575701 TATATAATAGATATATAT-A
1 TATATAATATATATATATAA
4575720 -ATATAATATATA-ATAATAA
1 TATATAATATATATAT-ATAA
* *
4575739 TATATAATATATATTTATAT
1 TATATAATATATATATATAA
*
4575759 TATAT-ATA-ACATA-ATAA
1 TATATAATATATATATATAA
4575776 TATAATAATATATATA-ATAA
1 TAT-ATAATATATATATATAA
*
4575796 CATAT-ATATA-ATATATAA
1 TATATAATATATATATATAA
4575814 TGTATATAATATATATATATA
1 --TATATAATATATATATATA
4575835 TAAAATAACA
Statistics
Matches: 94, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
17 11 0.12
18 27 0.29
19 9 0.10
20 34 0.36
21 6 0.06
22 7 0.07
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (20 bp):
TATATAATATATATATATAA
Found at i:4575733 original size:25 final size:24
Alignment explanation
Indices: 4575701--4575841 Score: 141
Period size: 25 Copynumber: 5.9 Consensus size: 24
4575691 ATATATGGTG
4575701 TATATAATAGATATATATAATATAA
1 TATATAATA-ATATATATAATATAA
4575726 TATATAATAATAATATATAATAT-A
1 TATATAATAAT-ATATATAATATAA
* * *
4575750 TAT-TTATATTATATATAACATAA
1 TATATAATAATATATATAATATAA
4575773 TAATATAATAATATATATAATA-ACA
1 T-ATATAATAATATATATAATATA-A
*
4575798 TATAT-ATAATATATAATGTATATAA
1 TATATAATAATATAT-AT-AATATAA
*
4575823 TATAT-AT-ATATATAAAATA
1 TATATAATAATATATATAATA
4575842 ACAAAAATGT
Statistics
Matches: 99, Mismatches: 9, Indels: 19
0.78 0.07 0.15
Matches are distributed among these distances:
22 13 0.13
23 17 0.17
24 21 0.21
25 47 0.47
26 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (24 bp):
TATATAATAATATATATAATATAA
Found at i:4575801 original size:70 final size:73
Alignment explanation
Indices: 4575702--4575842 Score: 193
Period size: 70 Copynumber: 2.0 Consensus size: 73
4575692 TATATGGTGT
* *
4575702 ATATAATAGATATATATAATATAATATATAATAATAATATATAATATATAT-TTATAT-TATATA
1 ATATAATAGATATATATAATATAACATAT-AT-ATAATATATAATATATATAATATATATATATA
*
4575765 TAACATAATA
64 TAAAATAATA
*
4575775 ATATAATA-ATATATAT-A-ATAACATATATATAATATATAATGTATATAATATATATATATATA
1 ATATAATAGATATATATAATATAACATATATATAATATATAATATATATAATATATATATATATA
4575837 AAATAA
66 AAATAA
4575843 CAAAAATGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
68 17 0.27
69 7 0.11
70 21 0.34
71 1 0.02
72 8 0.13
73 8 0.13
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (73 bp):
ATATAATAGATATATATAATATAACATATATATAATATATAATATATATAATATATATATATATA
AAATAATA
Found at i:4575902 original size:6 final size:7
Alignment explanation
Indices: 4575882--4575907 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4575872 TTTTTATAGG
4575882 TTATTTT
1 TTATTTT
4575889 TTATTTT
1 TTATTTT
4575896 TTATTTT
1 TTATTTT
4575903 TTATT
1 TTATT
4575908 CTTATGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTATTTT
Found at i:4580473 original size:17 final size:17
Alignment explanation
Indices: 4580451--4580485 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4580441 GACAAATGTA
4580451 TGTGGGTATCAGATTTC
1 TGTGGGTATCAGATTTC
4580468 TGTGGGTATCAGATTTC
1 TGTGGGTATCAGATTTC
4580485 T
1 T
4580486 TCTGATACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.29, T:0.43
Consensus pattern (17 bp):
TGTGGGTATCAGATTTC
Found at i:4580625 original size:89 final size:88
Alignment explanation
Indices: 4580468--4580928 Score: 412
Period size: 89 Copynumber: 5.2 Consensus size: 88
4580458 ATCAGATTTC
* * * * *
4580468 TGTGGGTATCAGATT-TCTTCTGATACGACGGAAAATATTTAACTAATGTCTAATAAAATTCTTG
1 TGTGGGTATCAGATTCT-TTCTAACACAAC-GAAAATATTTAACTAATGCCTAATAAAATTCTTA
*
4580532 GAACCCGAAAAATGTGATAGATGTA
64 GAACCCGAAAAATGTGACAGATGTA
* * *
4580557 TGTTGGTATCAGATTCTTTTTTACACAACAGAAAATATTTAACTAATGCCTAATAAAATTCTTAG
1 TGTGGGTATCAGATTCTTTCTAACACAAC-GAAAATATTTAACTAATGCCTAATAAAATTCTTAG
* *
4580622 AACCC-AAAAGATATAACAGATGTA
65 AACCCGAAAA-ATGTGACAGATGTA
* * * *
4580646 TGTGGGTATCAAATT-TCTTCTAACACAACGAAAATATTTGACCAAT-ACTAATAAAATTCTTAG
1 TGTGGGTATCAGATTCT-TTCTAACACAACGAAAATATTTAACTAATGCCTAATAAAATTCTTAG
* * *
4580709 AACCCGAAAGAGGTGACAGATGCA
65 AACCCGAAAAATGTGACAGATGTA
* * * * *
4580733 TGTGGGTATCAGATTCCTTCTGACACAATGAAAAATATTTTACTAATGCCTAATAAAATTCTTGG
1 TGTGGGTATCAGATTCTTTCTAACACAACG-AAAATATTTAACTAATGCCTAATAAAATTCTTAG
* * *
4580798 AACCCGAAAGATGTGACAAATGCA
65 AACCCGAAAAATGTGACAGATGTA
* * * *** ** * * ** *
4580822 TGTAGGTGTCAAATT-TCTTCTGGTATGACGGAAAATATTTGACTAAAGATTAATAAAATTATT-
1 TGTGGGTATCAGATTCT-TTCTAACACAAC-GAAAATATTTAACTAATGCCTAATAAAATTCTTA
* *
4580885 GAAACCCGAAAGATGTGACAGATGCA
64 G-AACCCGAAAAATGTGACAGATGTA
* *
4580911 TGTGGGTATTAAATTCTT
1 TGTGGGTATCAGATTCTT
4580929 CTGATACGAC
Statistics
Matches: 310, Mismatches: 51, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
87 56 0.18
88 38 0.12
89 213 0.69
90 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (88 bp):
TGTGGGTATCAGATTCTTTCTAACACAACGAAAATATTTAACTAATGCCTAATAAAATTCTTAGA
ACCCGAAAAATGTGACAGATGTA
Found at i:4580770 original size:176 final size:175
Alignment explanation
Indices: 4580468--4580949 Score: 563
Period size: 176 Copynumber: 2.7 Consensus size: 175
4580458 ATCAGATTTC
* * * *
4580468 TGTGGGTATCAGATTTCTTCTGATACGACGGAAAATATTTAACTAATGTCTAATAAAATTCTTGG
1 TGTGGGTATCAAATTTCTTCTGATACGACGGAAAATATTTGACAAAT-ACTAATAAAATTCTT-G
* * * * * * * *
4580533 AACCCGAAAAATGTGATAGATGTATGTTGGTATCAGATTCTTTTTTACACAACAGAAAATATTTA
64 AACCCGAAAGATGTGACAGATGCATGTGGGTATCAGATTCCTTCTGACACAAGA-AAAATATTTA
* *
4580598 ACTAATGCCTAATAAAATTCTTAGAACCCAAAAGATATAACAGATGTA
128 ACTAATGCCTAATAAAATTCTTAGAACCCAAAAGATATAACAAATGCA
* * * *
4580646 TGTGGGTATCAAATTTCTTCTAACACAAC-GAAAATATTTGACCAATACTAATAAAATTCTTAGA
1 TGTGGGTATCAAATTTCTTCTGATACGACGGAAAATATTTGACAAATACTAATAAAATTCTT-GA
* *
4580710 ACCCGAAAGAGGTGACAGATGCATGTGGGTATCAGATTCCTTCTGACACAATGAAAAATATTTTA
65 ACCCGAAAGATGTGACAGATGCATGTGGGTATCAGATTCCTTCTGACACAA-GAAAAATATTTAA
* * * *
4580775 CTAATGCCTAATAAAATTCTTGGAACCCGAAAGATGTGACAAATGCA
129 CTAATGCCTAATAAAATTCTTAGAACCCAAAAGATATAACAAATGCA
* * * * * * *
4580822 TGTAGGTGTCAAATTTCTTCTGGTATGACGGAAAATATTTGACTAAAGATTAATAAAATTATTGA
1 TGTGGGTATCAAATTTCTTCTGATACGACGGAAAATATTTGAC-AAATACTAATAAAATTCTTG-
* * * *
4580887 AACCCGAAAGATGTGACAGATGCATGTGGGTATTAAATT-CTTCTGATACGACGAAAAATATTT
64 AACCCGAAAGATGTGACAGATGCATGTGGGTATCAGATTCCTTCTGACAC-AAGAAAAATATTT
4580950 GAAAAATATT
Statistics
Matches: 259, Mismatches: 40, Indels: 11
0.84 0.13 0.04
Matches are distributed among these distances:
176 132 0.51
177 50 0.19
178 77 0.30
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (175 bp):
TGTGGGTATCAAATTTCTTCTGATACGACGGAAAATATTTGACAAATACTAATAAAATTCTTGAA
CCCGAAAGATGTGACAGATGCATGTGGGTATCAGATTCCTTCTGACACAAGAAAAATATTTAACT
AATGCCTAATAAAATTCTTAGAACCCAAAAGATATAACAAATGCA
Found at i:4580947 original size:265 final size:264
Alignment explanation
Indices: 4580468--4580951 Score: 614
Period size: 265 Copynumber: 1.8 Consensus size: 264
4580458 ATCAGATTTC
* * * * *
4580468 TGTGGGTATCAGATTTCTTCTGATACGACGGAAAATATTTAACTAATGTCTAATAAAATTCTTGG
1 TGTGGGTATCAGATTCCTTCTGACACAACGAAAAATATTTAACTAATGCCTAATAAAATTCTTGG
* * * * * **
4580533 AACCCGAAAAATGTGATAGATGTATGTTGGTATCAGATTCTTTTTTACACAACAGAAAATATTTA
66 AACCCGAAAAATGTGACAAATGCATGTAGGTATCAAATTCTTTGGTA-ACAACAGAAAATATTTA
* * * *
4580598 ACTAATGCCTAATAAAATTCTTAGAACCCAAAAGATATAACAGATGTATGTGGGTATCAAATTTC
130 ACTAAAGACTAATAAAATTATTAGAACCCAAAAGATATAACAGATGCATGTGGGTATCAAATTTC
4580663 TTCTAACACAACGAAAATATTTGACCAATACTAATAAAATTCTTAGAACCCGAAAGAGGTGACAG
195 TTCTAACACAACGAAAATATTTGACCAATACTAATAAAATTCTTAGAACCCGAAAGAGGTGACAG
4580728 ATGCA
260 ATGCA
* *
4580733 TGTGGGTATCAGATTCCTTCTGACACAATGAAAAATATTTTACTAATGCCTAATAAAATTCTTGG
1 TGTGGGTATCAGATTCCTTCTGACACAACGAAAAATATTTAACTAATGCCTAATAAAATTCTTGG
* * ** *
4580798 AACCCGAAAGATGTGACAAATGCATGTAGGTGTCAAATTTCTTCTGGT-ATGACGGAAAATATTT
66 AACCCGAAAAATGTGACAAATGCATGTAGGTATCAAA-TTCTT-TGGTAACAACAGAAAATATTT
* * * * * *
4580862 GACTAAAGATTAATAAAATTATT-GAAACCCGAAAGATGTGACAGATGCATGTGGGTATTAAA-T
129 AACTAAAGACTAATAAAATTATTAG-AACCCAAAAGATATAACAGATGCATGTGGGTATCAAATT
* * *
4580925 TCTTCTGATACGACGAAAAATATTTGA
193 TCTTCTAACACAACG-AAAATATTTGA
4580952 AAAATATTAT
Statistics
Matches: 183, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
264 14 0.08
265 162 0.89
266 5 0.03
267 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (264 bp):
TGTGGGTATCAGATTCCTTCTGACACAACGAAAAATATTTAACTAATGCCTAATAAAATTCTTGG
AACCCGAAAAATGTGACAAATGCATGTAGGTATCAAATTCTTTGGTAACAACAGAAAATATTTAA
CTAAAGACTAATAAAATTATTAGAACCCAAAAGATATAACAGATGCATGTGGGTATCAAATTTCT
TCTAACACAACGAAAATATTTGACCAATACTAATAAAATTCTTAGAACCCGAAAGAGGTGACAGA
TGCA
Found at i:4580989 original size:15 final size:14
Alignment explanation
Indices: 4580965--4581004 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
4580955 ATATTATAAA
4580965 ATTAAAAAAAATTG
1 ATTAAAAAAAATTG
4580979 ATTATAAAAAAATTG
1 ATTA-AAAAAAATTG
4580994 A--AAAAAAAATT
1 ATTAAAAAAAATT
4581005 TAACATTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.36
13 1 0.04
14 4 0.16
15 11 0.44
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (14 bp):
ATTAAAAAAAATTG
Found at i:4582346 original size:13 final size:14
Alignment explanation
Indices: 4582318--4582350 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4582308 CTTACTAAAA
*
4582318 ATATATAATTATAG
1 ATATATAATTACAG
4582332 ATATA-AATTACAG
1 ATATATAATTACAG
4582345 ATATAT
1 ATATAT
4582351 TAAATATTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (14 bp):
ATATATAATTACAG
Found at i:4584967 original size:31 final size:31
Alignment explanation
Indices: 4584926--4584988 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
4584916 CAATGTTCAT
4584926 ACTTTGCCTTTCCATGTTTCCCACATGATCA
1 ACTTTGCCTTTCCATGTTTCCCACATGATCA
* *
4584957 ACTTTTCCTTTCCATGTTTCCTACATGATCA
1 ACTTTGCCTTTCCATGTTTCCCACATGATCA
4584988 A
1 A
4584989 ATCCACGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.30, G:0.08, T:0.41
Consensus pattern (31 bp):
ACTTTGCCTTTCCATGTTTCCCACATGATCA
Found at i:4585762 original size:21 final size:21
Alignment explanation
Indices: 4585721--4585817 Score: 58
Period size: 21 Copynumber: 4.5 Consensus size: 21
4585711 TATTTTAGTA
*
4585721 TAAAATTA-TATAAAGAGTTAT
1 TAAAATTATTATAAA-ACTTAT
4585742 TAAAATTATTATAAATA-TTAT
1 TAAAATTATTATAAA-ACTTAT
* * *
4585763 CATAATT-GTATCAAAACTTAT
1 TAAAATTATTAT-AAAACTTAT
* *
4585784 TAATATTATTTTAAAA-TTAT
1 TAAAATTATTATAAAACTTAT
4585804 ATCAAAAATTATTA
1 -T--AAAATTATTA
4585818 AAATTATCTT
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
20 8 0.14
21 33 0.57
22 9 0.16
23 8 0.14
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (21 bp):
TAAAATTATTATAAAACTTAT
Found at i:4585843 original size:42 final size:42
Alignment explanation
Indices: 4585795--4585892 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
4585785 AATATTATTT
* *
4585795 TAAAATTATATCAAAAATTATTAAAATT-ATCTTGAATATTAC
1 TAAAATTATATCAAAAATAACT-AAATTGATCTTGAATATTAC
* * * *
4585837 TAAAATTATATCAAATATAACTAAATTGATGTTGAATGTTAT
1 TAAAATTATATCAAAAATAACTAAATTGATCTTGAATATTAC
*
4585879 TAATATTATATCAA
1 TAAAATTATATCAA
4585893 GAACTGTCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 5 0.10
42 43 0.90
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (42 bp):
TAAAATTATATCAAAAATAACTAAATTGATCTTGAATATTAC
Found at i:4585853 original size:21 final size:21
Alignment explanation
Indices: 4585795--4585861 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
4585785 AATATTATTT
* *
4585795 TAAAATTATATCAAAAATTAT
1 TAAAATTATATCAAATATTAC
* **
4585816 TAAAATTATCTTGAATATTAC
1 TAAAATTATATCAAATATTAC
*
4585837 TAAAATTATATCAAATATAAC
1 TAAAATTATATCAAATATTAC
4585858 TAAA
1 TAAA
4585862 TTGATGTTGA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.37
Consensus pattern (21 bp):
TAAAATTATATCAAATATTAC
Found at i:4589451 original size:1 final size:1
Alignment explanation
Indices: 4589445--4589538 Score: 80
Period size: 1 Copynumber: 94.0 Consensus size: 1
4589435 AAATCTTCAC
* * ** * * *
4589445 TTTTTTTTTTTGTTTTTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** * * *
4589510 CCTTTTTTTTGTTTTGTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4589539 CCAATTGCCA
Statistics
Matches: 73, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.87
Consensus pattern (1 bp):
T
Found at i:4589497 original size:33 final size:33
Alignment explanation
Indices: 4589448--4589537 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
4589438 TCTTCACTTT
4589448 TTTTTTTTG-TTT-TTTTTTTTTTTCTTTTTCC
1 TTTTTTTTGTTTTGTTTTTTTTTTTCTTTTTCC
4589479 TTTTTTTTGTTTTGTTTTTTTTTTTCTTTTTCC
1 TTTTTTTTGTTTTGTTTTTTTTTTTCTTTTTCC
4589512 TTTTTTTTGTTTTGTTTTTTTCTTTT
1 TTTTTTTTGTTTTGTTTTTTT-TTTT
4589538 TCCAATTGCC
Statistics
Matches: 56, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
31 9 0.16
32 3 0.05
33 40 0.71
34 4 0.07
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.87
Consensus pattern (33 bp):
TTTTTTTTGTTTTGTTTTTTTTTTTCTTTTTCC
Found at i:4597610 original size:12 final size:13
Alignment explanation
Indices: 4597589--4597617 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4597579 GTTCTAATAA
4597589 AAAAATAAGAACT
1 AAAAATAAGAACT
4597602 AAAAA-AAGAACT
1 AAAAATAAGAACT
4597614 AAAA
1 AAAA
4597618 CTATTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (13 bp):
AAAAATAAGAACT
Found at i:4597765 original size:24 final size:24
Alignment explanation
Indices: 4597738--4597821 Score: 57
Period size: 30 Copynumber: 3.3 Consensus size: 24
4597728 TAAAATTTTT
*
4597738 AATAATTTAGTATTTAATAATAAA
1 AATAATTTAATATTTAATAATAAA
* *
4597762 AATATATTTTTATTTAAATTTAATTATAAA
1 AATA-A--TTTA---ATATTTAATAATAAA
4597792 AAT-ATATTAATA-TTAATAAT-AA
1 AATAAT-TTAATATTTAATAATAAA
4597814 AATAATTT
1 AATAATTT
4597822 TTTGTTAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 18
0.67 0.07 0.26
Matches are distributed among these distances:
22 7 0.15
23 9 0.19
24 6 0.13
25 1 0.02
26 1 0.02
27 7 0.15
28 1 0.02
30 15 0.32
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (24 bp):
AATAATTTAATATTTAATAATAAA
Found at i:4598521 original size:1 final size:1
Alignment explanation
Indices: 4598517--4598557 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
4598507 TTCTTTGTCG
* * *
4598517 TTTTTTTTTTGTTTGTTTGTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4598558 GAGTTTGATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (1 bp):
T
Found at i:4598525 original size:18 final size:19
Alignment explanation
Indices: 4598504--4598545 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
4598494 GTTGCTTATA
4598504 TTTTTCTTTG-TCGTTTTT
1 TTTTTCTTTGTTCGTTTTT
* *
4598522 TTTTTGTTTGTTTGTTTTT
1 TTTTTCTTTGTTCGTTTTT
4598541 TTTTT
1 TTTTT
4598546 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTGTTCGTTTTT
Found at i:4599189 original size:30 final size:30
Alignment explanation
Indices: 4599153--4599221 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
4599143 ATTATAAATT
* *
4599153 TATATTAAA-GATTATTAAAATTATCTTAAA
1 TATATTAAATG-TTATCAAAATTATATTAAA
*
4599183 TATATTAAATGTTATCAATATTATATTAAA
1 TATATTAAATGTTATCAAAATTATATTAAA
4599213 -ATTATTAAA
1 TA-TATTAAA
4599222 AATAAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.03
30 32 0.94
31 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (30 bp):
TATATTAAATGTTATCAAAATTATATTAAA
Found at i:4599197 original size:21 final size:21
Alignment explanation
Indices: 4599143--4599198 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
4599133 TATTGATACT
*
4599143 ATTA-TAAATTTATATTAAAG
1 ATTATTAAATTTATCTTAAAG
* *
4599163 ATTATTAAAATTATCTTAAAT
1 ATTATTAAATTTATCTTAAAG
4599184 A-TATTAAATGTTATC
1 ATTATTAAAT-TTATC
4599199 AATATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 11 0.37
21 19 0.63
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (21 bp):
ATTATTAAATTTATCTTAAAG
Found at i:4600617 original size:2 final size:2
Alignment explanation
Indices: 4600604--4600652 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
4600594 ATATTAGTTG
*
4600604 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4600646 TA TA TA T
1 TA TA TA T
4600653 TTATTATCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4600856 original size:16 final size:18
Alignment explanation
Indices: 4600830--4600862 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4600820 AAATAATTAA
4600830 AATATTAAAAT-TTTTAT
1 AATATTAAAATATTTTAT
4600847 AATA-TAAAATATTTTA
1 AATATTAAAATATTTTA
4600863 CGTATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATATTAAAATATTTTAT
Found at i:4604250 original size:17 final size:16
Alignment explanation
Indices: 4604221--4604261 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
4604211 GATGAATATT
4604221 TTAAAATTTTTATA-A
1 TTAAAATTTTTATACA
4604236 TATAAAATATTTTATACA
1 T-TAAAAT-TTTTATACA
4604254 TTAAAATT
1 TTAAAATT
4604262 ATATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 7 0.30
17 13 0.57
18 2 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAAATTTTTATACA
Found at i:4604824 original size:105 final size:105
Alignment explanation
Indices: 4604692--4604928 Score: 361
Period size: 105 Copynumber: 2.3 Consensus size: 105
4604682 TTAATTCATA
* * * ** *
4604692 TTAAATTTAATTAAATTTAAAAATAATAAAATATTATTTTTATTTAAATATAATGATCAGTATT-
1 TTAAATTGAATCAAATTTTAATTTAATAAAATATTATTTTTATTTAAATATAATGATCAATATTA
4604756 AAAAATAAATTTTAATATAATTTTGAATAATAAAATTAATT
66 AAAAATAAA-TTTAATATAATTTTGAATAATAAAATTAATT
* *
4604797 TTAAATTGAATCAAATTTTAATTTAATAAAATATTATTTTTATTTAAATTTGATGATCAATATTA
1 TTAAATTGAATCAAATTTTAATTTAATAAAATATTATTTTTATTTAAATATAATGATCAATATTA
*
4604862 AAAAATAAATTTAATATAATTTTGAATAATGAAATTAATT
66 AAAAATAAATTTAATATAATTTTGAATAATAAAATTAATT
4604902 TTCAAATTGAATC-AATTTTAATTTAAT
1 TT-AAATTGAATCAAATTTTAATTTAAT
4604929 TTAACTCAAA
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
105 102 0.84
106 19 0.16
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (105 bp):
TTAAATTGAATCAAATTTTAATTTAATAAAATATTATTTTTATTTAAATATAATGATCAATATTA
AAAAATAAATTTAATATAATTTTGAATAATAAAATTAATT
Found at i:4609280 original size:68 final size:68
Alignment explanation
Indices: 4609201--4609335 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 68
4609191 TTATATTGAT
* * * *
4609201 AATTATAATTTGATAATTTAAACAAAAGGTTAAAAAAT-AAGTTTTATGATTTGAATGTTAATTT
1 AATTATAATTTGATAACTCAAACAAAA-ATAAAAAAATAAAGTTTTATGATTTGAATGTTAATTT
4609265 TTAA
65 TTAA
* * * *
4609269 AATTATGATTTGCTAACTCAAACAAAAATAAAAAAATAAAATTTTTATGATTTGAATGTTAGTTT
1 AATTATAATTTGATAACTCAAACAAAAATAAAAAAAT-AAAGTTTTATGATTTGAATGTTAATTT
4609334 TT
65 TT
4609336 TTGTCAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
67 8 0.14
68 23 0.40
69 26 0.46
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (68 bp):
AATTATAATTTGATAACTCAAACAAAAATAAAAAAATAAAGTTTTATGATTTGAATGTTAATTTT
TAA
Found at i:4611554 original size:50 final size:50
Alignment explanation
Indices: 4611495--4611699 Score: 320
Period size: 50 Copynumber: 4.1 Consensus size: 50
4611485 TATACTTAGA
4611495 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * *
4611545 GTCAACAATTATGGTCATCTCCTTCTATTGTCAAAGGTTGGTAAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
4611595 GTCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTAGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * *
4611645 GTCAACAATTATGGCCACCTCTCTCTTTTGTCAAAGGTTGGTGAAGGATA
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
4611695 GTCAA
1 GTCAA
4611700 TAATGACAAC
Statistics
Matches: 139, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 139 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:4614760 original size:50 final size:50
Alignment explanation
Indices: 4614700--4614958 Score: 358
Period size: 50 Copynumber: 5.2 Consensus size: 50
4614690 TATACTTAGA
4614700 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
4614750 ATCAACAATTATGGTCACCTCCTTCTATTGTCAAATGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
* *
4614800 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTAAAGAATC
1 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
* * ** * * *
4614850 GTCAACAATTATGACCACCTCCCTCTATTGTTTAAGATTGATGGAGAATC
1 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
* * * *
4614900 GTCAACAATTATGGTCACAT-CTCTCTATTGTCAAAGGTTGGTGAAGGATA
1 GTCAACAATTATGGCCACCTCCT-TCTATTGTCAAAGGTTGGTGAAGAATC
4614950 GTCAACAAT
1 GTCAACAAT
4614959 GGCAACAACT
Statistics
Matches: 182, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 1 0.01
50 181 0.99
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:4621430 original size:27 final size:26
Alignment explanation
Indices: 4621348--4621437 Score: 92
Period size: 28 Copynumber: 3.4 Consensus size: 26
4621338 TAGCCACAAA
* * *
4621348 TTTTGACAAATA-AACAAGCCTCCAT
1 TTTTGACAAATACAAAAAACCACCAT
* * *
4621373 ATTTGACAAATCCAAAGGAAACCACTAT
1 TTTTGACAAATACAAA--AAACCACCAT
4621401 TTTTGACAAATACAAAATAACCACCAT
1 TTTTGACAAATACAAAA-AACCACCAT
4621428 TTTTGACAAA
1 TTTTGACAAA
4621438 CAAATAGGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
25 10 0.19
26 3 0.06
27 18 0.35
28 21 0.40
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (26 bp):
TTTTGACAAATACAAAAAACCACCAT
Found at i:4621630 original size:8 final size:8
Alignment explanation
Indices: 4621619--4621645 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
4621609 TATATATATA
4621619 TATATAGT
1 TATATAGT
4621627 TATATAGT
1 TATATAGT
4621635 TATATAGT
1 TATATAGT
4621643 TAT
1 TAT
4621646 CATCTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (8 bp):
TATATAGT
Found at i:4621640 original size:2 final size:2
Alignment explanation
Indices: 4621588--4621624 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4621578 TCTATTAGAA
4621588 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4621625 GTTATATAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4622030 original size:2 final size:2
Alignment explanation
Indices: 4622023--4622049 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4622013 ATTTTGGTTA
4622023 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4622050 ATAATTTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4622461 original size:21 final size:22
Alignment explanation
Indices: 4622435--4622479 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
4622425 AAATAAATAA
* *
4622435 AAAATTTTAATTT-ATATTTTT
1 AAAATTATAATTTGATAATTTT
*
4622456 AAAATTATGATTTGATAATTTT
1 AAAATTATAATTTGATAATTTT
4622478 AA
1 AA
4622480 TAAAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
AAAATTATAATTTGATAATTTT
Found at i:4624111 original size:25 final size:25
Alignment explanation
Indices: 4624083--4624134 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
4624073 TTCGTTGATC
*
4624083 AATTAATAATTTAAATTT-TTTTAAA
1 AATT-ATAATTTAAATTTGATTTAAA
*
4624108 AATTATTATTTAAATTTGATTTAAA
1 AATTATAATTTAAATTTGATTTAAA
4624133 AA
1 AA
4624135 CTTGAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
AATTATAATTTAAATTTGATTTAAA
Found at i:4626061 original size:24 final size:27
Alignment explanation
Indices: 4625988--4626058 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
4625978 AAACAAGCCT
* *
4625988 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
4626016 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
4626043 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
4626059 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:4630635 original size:24 final size:27
Alignment explanation
Indices: 4630562--4630632 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
4630552 AAACAAGCCT
* *
4630562 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
4630590 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
4630617 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
4630633 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:4632953 original size:50 final size:50
Alignment explanation
Indices: 4632859--4633008 Score: 205
Period size: 50 Copynumber: 3.0 Consensus size: 50
4632849 GATTTAGTGG
* * *
4632859 TCTTTACCAACCTTTGACAAATTTA-AGAGAGGTGGCCATAATTATTGACTAT
1 TCTTCACCAACCTTTGAC-AA--TAGAGAGAAGTGACCATAATTATTGACTAT
*
4632911 TCTTCACCAACCTTTGACAATCGAGAGAAGTGACCATAATTATTGACTAT
1 TCTTCACCAACCTTTGACAATAGAGAGAAGTGACCATAATTATTGACTAT
*
4632961 TCTTCACCAACCTTTGACAATAGAGA-AATGTGACCGTAATTATTGACT
1 TCTTCACCAACCTTTGACAATAGAGAGAA-GTGACCATAATTATTGACT
4633009 CAAAGCATCT
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
49 3 0.03
50 68 0.76
51 2 0.02
52 17 0.19
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (50 bp):
TCTTCACCAACCTTTGACAATAGAGAGAAGTGACCATAATTATTGACTAT
Found at i:4637536 original size:50 final size:50
Alignment explanation
Indices: 4637461--4637608 Score: 206
Period size: 50 Copynumber: 3.0 Consensus size: 50
4637451 GATTTGGTGG
* *
4637461 TCTTCACCGATCTTTGACAATCGAGAGAGGTGACCGTAATTGTTGACTAT
1 TCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTAATTGTTGACTAT
*
4637511 TCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCGTAATTGTTGACTAT
1 TCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTAATTGTTGACTAT
* * * * * * *
4637561 TCTTCACCAACTTTTGACAATAGAAAAATGTGATCGTAATTATTGACT
1 TCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTAATTGTTGACT
4637609 CAAAGTATCT
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 87 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (50 bp):
TCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTAATTGTTGACTAT
Found at i:4638586 original size:21 final size:20
Alignment explanation
Indices: 4638552--4638592 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
4638542 TTATTGATAG
*
4638552 AATTATAAATTTATATTAAA
1 AATTATAAAATTATATTAAA
*
4638572 AATTATTAAAATTATCTTAAA
1 AATTA-TAAAATTATATTAAA
4638593 TATATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTATAAAATTATATTAAA
Found at i:4639360 original size:19 final size:17
Alignment explanation
Indices: 4639318--4639382 Score: 75
Period size: 16 Copynumber: 3.9 Consensus size: 17
4639308 ATTTTAATTA
4639318 ATAATTTTTTA-TA-T-
1 ATAATTTTTTATTATTC
*
4639332 ATAATATTTTATTATGATC
1 ATAATTTTTTATTAT--TC
4639351 ATAATTTTTTA-TATTC
1 ATAATTTTTTATTATTC
4639367 ATAATTTTTTATTATT
1 ATAATTTTTTATTATT
4639383 TTATTAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
14 10 0.23
15 2 0.05
16 13 0.30
17 4 0.09
18 4 0.09
19 10 0.23
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (17 bp):
ATAATTTTTTATTATTC
Found at i:4639368 original size:16 final size:16
Alignment explanation
Indices: 4639309--4639378 Score: 74
Period size: 16 Copynumber: 4.4 Consensus size: 16
4639299 TATTTGTATA
*
4639309 TTTTA-ATTAATAATT
1 TTTTATATTCATAATT
*
4639324 TTTTATA-T-ATAATA
1 TTTTATATTCATAATT
4639338 TTTTATTATGATCATAATT
1 TTTTA-TAT--TCATAATT
4639357 TTTTATATTCATAATT
1 TTTTATATTCATAATT
4639373 TTTTAT
1 TTTTAT
4639379 TATTTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
14 10 0.21
15 8 0.17
16 15 0.32
18 4 0.09
19 10 0.21
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (16 bp):
TTTTATATTCATAATT
Found at i:4640585 original size:16 final size:16
Alignment explanation
Indices: 4640558--4640603 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
4640548 AATTATATAA
*
4640558 ATATTTTAAAATTTTT
1 ATATATTAAAATTTTT
4640574 ATA-ATATAAAATATTTT
1 ATATAT-TAAAAT-TTTT
4640591 ATATATTAAAATT
1 ATATATTAAAATT
4640604 ATATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 1 0.04
16 10 0.38
17 13 0.50
18 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATATTAAAATTTTT
Found at i:4640592 original size:17 final size:17
Alignment explanation
Indices: 4640564--4640620 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
4640554 ATAAATATTT
4640564 TAAAAT-TTTTATAATA
1 TAAAATATTTTATAATA
4640580 TAAAATATTTTAT-ATA
1 TAAAATATTTTATAATA
* * *
4640596 TTAAA-ATTATATAAAAA
1 TAAAATATTTTAT-AATA
4640613 TAAAATAT
1 TAAAATAT
4640621 AATTATTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 6 0.18
16 13 0.39
17 12 0.36
18 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATATTTTATAATA
Found at i:4641167 original size:106 final size:106
Alignment explanation
Indices: 4641057--4641272 Score: 389
Period size: 106 Copynumber: 2.0 Consensus size: 106
4641047 AATTTAAAAA
4641057 TAATAAAATATTATTTTTATTTAAATATAATGATCAATATT-AAAAATAAATTTTAATATAATTT
1 TAATAAAATATTATTTTTATTTAAATATAATGATCAATATTAAAAAATAAATTTTAATATAATTT
*
4641121 TGAATAATAAAATTAATTTTTAAATTGAATCAAATTTTAATT
66 TGAATAATAAAATTAATTTTCAAATTGAATC-AATTTTAATT
*
4641163 TAATAAAATATTATTTTTATTTAAATTTAATGATCAATATTAAAAAATAAATTTTAATATAATTT
1 TAATAAAATATTATTTTTATTTAAATATAATGATCAATATTAAAAAATAAATTTTAATATAATTT
*
4641228 TGAATAATGAAATTAATTTTCAAATTGAATCAATTTTAATT
66 TGAATAATAAAATTAATTTTCAAATTGAATCAATTTTAATT
4641269 TAAT
1 TAAT
4641273 TTAACTCAAA
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
106 54 0.51
107 52 0.49
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.46
Consensus pattern (106 bp):
TAATAAAATATTATTTTTATTTAAATATAATGATCAATATTAAAAAATAAATTTTAATATAATTT
TGAATAATAAAATTAATTTTCAAATTGAATCAATTTTAATT
Found at i:4641307 original size:107 final size:107
Alignment explanation
Indices: 4641078--4641301 Score: 281
Period size: 107 Copynumber: 2.1 Consensus size: 107
4641068 TATTTTTATT
* *
4641078 TAAATATAATGATCAATATT-AAAAATAAATTTTAATATAATTTTGAATAATAAAATTAATTTTT
1 TAAAAATAATGATCAATATTAAAAAATAAATTTTAATATAATTTTGAATAATAAAATTAATTTTC
** ** ** **
4641142 AAATTGAATCAAATTTTAATTTAATAAAATATTATTTTTATT
66 AAATTGAATCAAATTTTAATTTAATAAAATAAAAAATAAAAA
** *
4641184 TAAATTTAATGATCAATATTAAAAAATAAATTTTAATATAATTTTGAATAATGAAATTAATTTTC
1 TAAAAATAATGATCAATATTAAAAAATAAATTTTAATATAATTTTGAATAATAAAATTAATTTTC
* *
4641249 AAATTGAATC-AATTTTAATTTAATTTAACTCAAAAAATAAAAA
66 AAATTGAATCAAATTTTAATTTAA-TAAAAT-AAAAAATAAAAA
4641292 TAAAAATAAT
1 TAAAAATAAT
4641302 TTCAATTTAA
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
106 32 0.32
107 56 0.56
108 12 0.12
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (107 bp):
TAAAAATAATGATCAATATTAAAAAATAAATTTTAATATAATTTTGAATAATAAAATTAATTTTC
AAATTGAATCAAATTTTAATTTAATAAAATAAAAAATAAAAA
Found at i:4643503 original size:12 final size:12
Alignment explanation
Indices: 4643488--4643530 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
4643478 TGATCTGATA
4643488 ATTGATTAATTT
1 ATTGATTAATTT
*
4643500 ATTGATAAATTT
1 ATTGATTAATTT
*
4643512 ATTTATATAATTT
1 ATTGAT-TAATTT
4643525 AATTGA
1 -ATTGA
4643531 ATGACTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 16 0.64
13 5 0.20
14 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (12 bp):
ATTGATTAATTT
Found at i:4646433 original size:2 final size:2
Alignment explanation
Indices: 4646426--4646468 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4646416 CATCTATTAG
4646426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4646468 A
1 A
4646469 GTTATCATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4647970 original size:2 final size:2
Alignment explanation
Indices: 4647963--4647998 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4647953 AATTCATGTG
4647963 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4647999 CACACACACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4655241 original size:2 final size:2
Alignment explanation
Indices: 4655234--4655263 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4655224 AATTCCAAAC
*
4655234 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4655264 GAAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4656886 original size:14 final size:14
Alignment explanation
Indices: 4656854--4656884 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
4656844 AACAACACTA
4656854 TTTTAAAAGATAAT
1 TTTTAAAAGATAAT
4656868 TTTTAAAA-ATAAT
1 TTTTAAAAGATAAT
4656881 TTTT
1 TTTT
4656885 TATTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
TTTTAAAAGATAAT
Found at i:4656897 original size:29 final size:30
Alignment explanation
Indices: 4656865--4656923 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
4656855 TTTAAAAGAT
*
4656865 AATTTTTAAAAATAATTTTTTAT-TTTTAA
1 AATTTTTAAAAATAAATTTTTATATTTTAA
4656894 AATTTTTAAAAATAAATTTTTATATTTTAA
1 AATTTTTAAAAATAAATTTTTATATTTTAA
4656924 TGATAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
AATTTTTAAAAATAAATTTTTATATTTTAA
Found at i:4656910 original size:14 final size:14
Alignment explanation
Indices: 4656854--4656915 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
4656844 AACAACACTA
4656854 TTTTAAAAGAT-AAT
1 TTTTAAAA-ATAAAT
*
4656868 TTTTAAAAATAATT
1 TTTTAAAAATAAAT
****
4656882 TTTTATTTTTAAAAT
1 TTTTAAAAAT-AAAT
4656897 TTTTAAAAATAAAT
1 TTTTAAAAATAAAT
4656911 TTTTA
1 TTTTA
4656916 TATTTTAATG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
13 2 0.06
14 25 0.69
15 9 0.25
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TTTTAAAAATAAAT
Found at i:4657955 original size:2 final size:2
Alignment explanation
Indices: 4657948--4657985 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4657938 AAGAGACTTT
4657948 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4657986 AGATAATCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4659279 original size:2 final size:2
Alignment explanation
Indices: 4659272--4659308 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
4659262 AGGTTTTTGA
* *
4659272 AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4659309 CTGGCCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4663420 original size:25 final size:25
Alignment explanation
Indices: 4663384--4663431 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
4663374 GCAATATATA
*
4663384 TCTAATTTTAAGTGTAAATTGCATG
1 TCTAATTATAAGTGTAAATTGCATG
4663409 TCTAATTATAAGTGTAAATTGCA
1 TCTAATTATAAGTGTAAATTGCA
4663432 CTATGTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (25 bp):
TCTAATTATAAGTGTAAATTGCATG
Found at i:4667401 original size:2 final size:2
Alignment explanation
Indices: 4667394--4667419 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4667384 AATTGATCTC
4667394 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4667420 GTATGTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4667424 original size:4 final size:4
Alignment explanation
Indices: 4667417--4667443 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4667407 TATATATATA
4667417 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
4667444 TCGGAACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:4669066 original size:2 final size:2
Alignment explanation
Indices: 4669059--4669088 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4669049 AAAAAGAATG
4669059 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4669089 TTGCAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4678529 original size:2 final size:2
Alignment explanation
Indices: 4678522--4678554 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4678512 TATGCTTTTC
4678522 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
4678555 ACATGTAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:4685762 original size:86 final size:85
Alignment explanation
Indices: 4685613--4685777 Score: 251
Period size: 86 Copynumber: 1.9 Consensus size: 85
4685603 TTTTTTTTTT
** *
4685613 AAATGCTATCATGATGATAAAAAGAAAGCAAATCCTTACGGAATTTCCTTGGGACCTATTCTTAC
1 AAATGCTATCACAATGATAAAAAGAAAGCAAACCCTTACGGAATTTCCTTGGGACCTATTCTTAC
4685678 CTAGGGTTTATGTTAAAAAA
66 CTAGGGTTTATGTTAAAAAA
* * *
4685698 AAATGCTATCACAATGATAAGAAGTAAGCACACCCTTGA-GGAAATTTCCTTGGGACCTATTCTT
1 AAATGCTATCACAATGATAAAAAGAAAGCAAACCCTT-ACGG-AATTTCCTTGGGACCTATTCTT
4685762 ACCTAGGGTTTATGTT
64 ACCTAGGGTTTATGTT
4685778 CTAATTATTA
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
85 33 0.46
86 39 0.54
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (85 bp):
AAATGCTATCACAATGATAAAAAGAAAGCAAACCCTTACGGAATTTCCTTGGGACCTATTCTTAC
CTAGGGTTTATGTTAAAAAA
Found at i:4686934 original size:2 final size:2
Alignment explanation
Indices: 4686921--4686952 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4686911 CATGTTTTAA
*
4686921 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4686953 GTTAGAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4693399 original size:30 final size:30
Alignment explanation
Indices: 4693363--4693420 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
4693353 TGAGCTATAG
4693363 AGTCTTTTATCATCATTAATTAATTAATAC
1 AGTCTTTTATCATCATTAATTAATTAATAC
4693393 AGTCTTTTATCATCATTAATTAATTAAT
1 AGTCTTTTATCATCATTAATTAATTAAT
4693421 CTTATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.48
Consensus pattern (30 bp):
AGTCTTTTATCATCATTAATTAATTAATAC
Found at i:4693736 original size:19 final size:19
Alignment explanation
Indices: 4693712--4693751 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4693702 TTTTATATAT
4693712 TATTAAAATATTAT-TTTTA
1 TATTAAAAT-TTATATTTTA
*
4693731 TATTAATATTTATATTTTA
1 TATTAAAATTTATATTTTA
4693750 TA
1 TA
4693752 ATTTAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTAAAATTTATATTTTA
Found at i:4693740 original size:25 final size:26
Alignment explanation
Indices: 4693695--4693787 Score: 70
Period size: 25 Copynumber: 3.7 Consensus size: 26
4693685 TAAATTTTAT
* *
4693695 TATTATCTTTTATA-TATTATTAAAA
1 TATTATATTTTATATTAATATTAAAA
* *
4693720 TATTAT-TTTTATATTAATATTTATA
1 TATTATATTTTATATTAATATTAAAA
* * *
4693745 TTTTATAATTTA-ATTTAA-ATAAAAA
1 TATTATATTTTATA-TTAATATTAAAA
4693770 TATTAT-TTTTATTATTAA
1 TATTATATTTTA-TATTAA
4693788 ATAATAATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
24 11 0.21
25 33 0.62
26 9 0.17
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTATATTTTATATTAATATTAAAA
Found at i:4694052 original size:23 final size:21
Alignment explanation
Indices: 4694019--4694064 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
4694009 GGTTACCTTT
4694019 TAAAATTATCATAAAGTATTA
1 TAAAATTATCATAAAGTATTA
* *
4694040 TAAATATTAATCATTAATTATTA
1 TAAA-ATT-ATCATAAAGTATTA
4694063 TA
1 TA
4694065 TTTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 3 0.14
23 14 0.67
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAAATTATCATAAAGTATTA
Found at i:4694971 original size:22 final size:22
Alignment explanation
Indices: 4694916--4694971 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
4694906 ATTTAAACTT
* *
4694916 TTAAATT-TAATTTATTTAAAT
1 TTAAATTATAATTTATTAAAAA
* *
4694937 TTAAATAAAAATTT-TTAAAAAA
1 TTAAATTATAATTTATT-AAAAA
4694959 TTAAATTATAATT
1 TTAAATTATAATT
4694972 AATTTAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAATTATAATTTATTAAAAA
Found at i:4697342 original size:2 final size:2
Alignment explanation
Indices: 4697335--4697361 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4697325 TTAATATAGG
4697335 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4697362 AAGATTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4697979 original size:12 final size:12
Alignment explanation
Indices: 4697961--4697995 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
4697951 CATCACTCAG
4697961 AAAAAATAAAAT
1 AAAAAATAAAAT
*
4697973 TAAAAATAAAAT
1 AAAAAATAAAAT
4697985 AAAAAATAAAA
1 AAAAAATAAAA
4697996 AGAAAGGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:4699879 original size:2 final size:2
Alignment explanation
Indices: 4699874--4699898 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4699864 AAAAAAAAAG
4699874 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4699899 TGTGTTTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4703134 original size:25 final size:23
Alignment explanation
Indices: 4703086--4703177 Score: 71
Period size: 23 Copynumber: 3.8 Consensus size: 23
4703076 ATATATTTTT
4703086 TTATAATAATTATA-TTTAAAATA
1 TTAT-ATAATTATATTTTAAAATA
*
4703109 TTATATTAATATATATTTTAATATA
1 TTATA-TAAT-TATATTTTAAAATA
* *
4703134 TTA-ATAATTTATATTATATAAATT
1 TTATATAA-TTATATTTTA-AAATA
*
4703158 TTAATATATTTATATATTTA
1 TT-ATATAATTATAT-TTTA
4703178 TATTATATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
22 1 0.02
23 19 0.35
24 11 0.20
25 18 0.33
26 6 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTATATAATTATATTTTAAAATA
Found at i:4703146 original size:33 final size:33
Alignment explanation
Indices: 4703096--4703194 Score: 121
Period size: 32 Copynumber: 2.9 Consensus size: 33
4703086 TTATAATAAT
4703096 TATATTTAA-AATATTATATTAATATATATTTTAA
1 TATA-TTAATAAT-TTATATTAATATATATTTTAA
*
4703130 TATATTAATAATTTATATT-ATATAAATTTTAA
1 TATATTAATAATTTATATTAATATATATTTTAA
* *
4703162 TATATTTATATATTTATATTATATTTATATTTT
1 TATATTAATA-ATTTATATTA-ATATATATTTT
4703195 TTTATTTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
32 21 0.37
33 20 0.35
34 7 0.12
35 9 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
TATATTAATAATTTATATTAATATATATTTTAA
Found at i:4703159 original size:32 final size:32
Alignment explanation
Indices: 4703096--4703185 Score: 119
Period size: 33 Copynumber: 2.7 Consensus size: 32
4703086 TTATAATAAT
*
4703096 TATATTTAA-AATATTATATTAATATATATTTTAA
1 TATA-TTAATAAT-TTATATT-ATATAAATTTTAA
4703130 TATATTAATAATTTATATTATATAAATTTTAA
1 TATATTAATAATTTATATTATATAAATTTTAA
*
4703162 TATATTTATATATTTATATTATAT
1 TATATTAATA-ATTTATATTATAT
4703186 TTATATTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
32 21 0.40
33 24 0.46
34 7 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TATATTAATAATTTATATTATATAAATTTTAA
Found at i:4703198 original size:38 final size:39
Alignment explanation
Indices: 4703059--4703191 Score: 129
Period size: 41 Copynumber: 3.5 Consensus size: 39
4703049 AACAATCTAT
* * *
4703059 ATATTTATATTATATTTATATATTTTTTTATAATAATTAT
1 ATATTTATATTATATTTATATATATTTTAAT-ATATTTAT
* *
4703099 AT-TTAAAATATTATATTAATATATATTTTAATATA-TTA-
1 ATATT--TATATTATATTTATATATATTTTAATATATTTAT
*
4703137 ATA---AT-TTATA-TTATATAAATTTTAATATATTTAT
1 ATATTTATATTATATTTATATATATTTTAATATATTTAT
4703171 ATATTTATATTATATTTATAT
1 ATATTTATATTATATTTATAT
4703192 TTTTTTATTT
Statistics
Matches: 77, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
32 17 0.22
33 8 0.10
34 5 0.06
37 2 0.03
38 7 0.09
39 11 0.14
40 5 0.06
41 22 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (39 bp):
ATATTTATATTATATTTATATATATTTTAATATATTTAT
Found at i:4703201 original size:33 final size:32
Alignment explanation
Indices: 4703095--4703201 Score: 96
Period size: 33 Copynumber: 3.2 Consensus size: 32
4703085 TTTATAATAA
4703095 TTATATTTAA-AATATTATATTA-ATATATATTT
1 TTATATTTAATAAT-TTATATTATAT-TATATTT
* *
4703127 TAATATATTAATAATTTATATTATA-TAAATTT
1 TTATAT-TTAATAATTTATATTATATTATATTT
4703159 TAATATATTT-ATATATTTATATTATATTTATATTT
1 T--TATATTTAATA-ATTTATATTATA-TTATATTT
*
4703194 TTTTATTT
1 TTATATTT
4703202 TTTTATATTA
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
32 15 0.24
33 32 0.52
34 8 0.13
35 7 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
TTATATTTAATAATTTATATTATATTATATTT
Done.