Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 94 of 145
Found at i:31446697 original size:18 final size:19
Alignment explanation
Indices: 31446674--31446712 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
31446664 CCAAATTTCC
*
31446674 AACCTTAAACTC-TAAAAA
1 AACCTTAAACCCTTAAAAA
*
31446692 AACCTTGAACCCTTAAAAA
1 AACCTTAAACCCTTAAAAA
31446711 AA
1 AA
31446713 GGTCGAGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.21
Consensus pattern (19 bp):
AACCTTAAACCCTTAAAAA
Found at i:31449650 original size:18 final size:18
Alignment explanation
Indices: 31449624--31449681 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
31449614 AATTTCTTTA
*
31449624 TATACTTTTTGAAATTTT
1 TATAATTTTTGAAATTTT
* * *
31449642 TATAATTTTTTAAA-ATA
1 TATAATTTTTGAAATTTT
*
31449659 TATAAATTTTG--ATTTT
1 TATAATTTTTGAAATTTT
31449675 TATAATT
1 TATAATT
31449682 ATTTTTAATT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
15 1 0.03
16 7 0.23
17 10 0.33
18 12 0.40
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (18 bp):
TATAATTTTTGAAATTTT
Found at i:31449692 original size:19 final size:19
Alignment explanation
Indices: 31449629--31449735 Score: 74
Period size: 19 Copynumber: 5.3 Consensus size: 19
31449619 CTTTATATAC
* *
31449629 TTTTTGAAATT-TTTATAA
1 TTTTTAAAATTATTTTTAA
*
31449647 TTTTTTAAAATATATAAATTTTGA
1 -TTTTTAAAAT-TAT---TTTTAA
*
31449671 TTTTTATAATTATTTTTAA
1 TTTTTAAAATTATTTTTAA
*
31449690 -TTTTAAACATTATTTTGAA
1 TTTTTAAA-ATTATTTTTAA
*
31449709 TTTTAGAAAATTATTTTGTAA
1 TTTT-TAAAATTATTTT-TAA
31449730 TTTTTA
1 TTTTTA
31449736 TTGAGAGAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
18 6 0.09
19 24 0.35
20 13 0.19
21 10 0.14
22 3 0.04
23 9 0.13
24 4 0.06
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTAAAATTATTTTTAA
Found at i:31449723 original size:20 final size:19
Alignment explanation
Indices: 31449664--31449733 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
31449654 AAATATATAA
* *
31449664 ATTTTG-ATTTTTATAATT
1 ATTTTGAATTTTAAAAATT
* *
31449682 ATTTTTAATTTTAAACATT
1 ATTTTGAATTTTAAAAATT
31449701 ATTTTGAATTTTAGAAAATT
1 ATTTTGAATTTTA-AAAATT
31449721 ATTTTGTAATTTT
1 ATTTTG-AATTTT
31449734 TATTGAGAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 5 0.12
19 21 0.49
20 11 0.26
21 6 0.14
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:31451857 original size:23 final size:23
Alignment explanation
Indices: 31451827--31451884 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
31451817 GCAATAGGAG
*
31451827 ACTTTTGTTACTAGTACTCTGGT
1 ACTTTTGTTACTAGTACTCTAGT
* *
31451850 ACTTTTGTTATTAGTACTTTAGT
1 ACTTTTGTTACTAGTACTCTAGT
*
31451873 ACTTATGTTACT
1 ACTTTTGTTACT
31451885 GGCACTTCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (23 bp):
ACTTTTGTTACTAGTACTCTAGT
Found at i:31458870 original size:210 final size:209
Alignment explanation
Indices: 31458498--31459337 Score: 1605
Period size: 210 Copynumber: 4.0 Consensus size: 209
31458488 GAAAAAAGGT
31458498 ACGTT-AAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAG
1 ACGTTAAAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAG
31458562 TAATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAAT
66 TAATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAAT
31458627 TCTTCATATAATCATGCATTAAAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTATG
131 TCTTCATATAATCATGCATT-AAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTATG
31458692 TAAATATAATTTCAA
195 TAAATATAATTTCAA
31458707 ACGTTAAAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAG
1 ACGTTAAAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAG
31458772 TAATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAAT
66 TAATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAAT
31458837 TCTTCATATAATCATGCTGCATT-AAAA-TTATGCCTACAAACGCTTCTTACTAACAATTTGCTA
131 TCTTCATATAATCA---TGCATTAAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTA
31458900 TGTAAATATAATTTCAA
193 TGTAAATATAATTTCAA
31458917 ACGTTAAAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAG
1 ACGTTAAAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAG
31458982 TAATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAAT
66 TAATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAAT
31459047 TCTTCATATAATCATGCATTAAAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTATG
131 TCTTCATATAATCATGCATT-AAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTATG
31459112 TAAATATAATTTCAA
195 TAAATATAATTTCAA
31459127 ACGTTAAAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAG
1 ACGTTAAAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAG
31459192 TAATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAAT
66 TAATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAAT
31459257 TCTTCATATAATCATGCATTAAAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTATG
131 TCTTCATATAATCATGCATT-AAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTATG
31459322 TAAATATAATTTCAA
195 TAAATATAATTTCAA
31459337 A
1 A
31459338 ATTTTATATC
Statistics
Matches: 624, Mismatches: 0, Indels: 13
0.98 0.00 0.02
Matches are distributed among these distances:
207 6 0.01
209 9 0.01
210 599 0.96
211 4 0.01
213 6 0.01
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (209 bp):
ACGTTAAAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAG
TAATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAAT
TCTTCATATAATCATGCATTAAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTATGT
AAATATAATTTCAA
Found at i:31460316 original size:15 final size:15
Alignment explanation
Indices: 31460296--31460324 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31460286 TGACCCATAC
31460296 CCCTTTAAAAAGAAT
1 CCCTTTAAAAAGAAT
31460311 CCCTTTAAAAAGAA
1 CCCTTTAAAAAGAA
31460325 GCAATGTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
CCCTTTAAAAAGAAT
Found at i:31469573 original size:138 final size:138
Alignment explanation
Indices: 31469316--31469577 Score: 402
Period size: 138 Copynumber: 1.9 Consensus size: 138
31469306 TTTATTAAAT
31469316 ATTTTGATGTTTGACTAGTTAATTAAAGAAAATGACTAAATCGTAAAAACTGCAAAAGTTAATCG
1 ATTTTGATGTTTGACTAGTTAATTAAAGAAAATGACTAAATCGTAAAAACTGCAAAAGTTAATCG
* *
31469381 CTATGGGCTAATAAGAGTTAATGTCGAAAATATGACTAAATTCATAAAGTGTCAAAGTTAATTTG
66 CTATAGGCTAATAAGAGTTAATGTCGAAAATATGACTAAATTCATAAAGGGTCAAAGTTAATTTG
31469446 GTTTGTTA
131 GTTTGTTA
* * * *
31469454 ATTTTGATGTTTGGCTAGTTAATTAAAGAAAATGACTAAATCGTCAAAATTGTAAAAGTTAATCG
1 ATTTTGATGTTTGACTAGTTAATTAAAGAAAATGACTAAATCGTAAAAACTGCAAAAGTTAATCG
* * * *
31469519 CTATAGGCTAATAAGAGTTAATTTTGAAAAT-TAGACTAATTTGGA-AAAGGGTCAAAGTT
66 CTATAGGCTAATAAGAGTTAATGTCGAAAATAT-GACTAAATT-CATAAAGGGTCAAAGTT
31469578 GTGAGTTTTT
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
137 1 0.01
138 110 0.98
139 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (138 bp):
ATTTTGATGTTTGACTAGTTAATTAAAGAAAATGACTAAATCGTAAAAACTGCAAAAGTTAATCG
CTATAGGCTAATAAGAGTTAATGTCGAAAATATGACTAAATTCATAAAGGGTCAAAGTTAATTTG
GTTTGTTA
Found at i:31480951 original size:19 final size:19
Alignment explanation
Indices: 31480927--31480973 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
31480917 AAATACTTAT
31480927 AATTTACATAACCAAAACC
1 AATTTACATAACCAAAACC
*
31480946 AATTTACATAACCAAAACT
1 AATTTACATAACCAAAACC
*
31480965 TATTTACAT
1 AATTTACAT
31480974 GCCACTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTTACATAACCAAAACC
Found at i:31482935 original size:26 final size:26
Alignment explanation
Indices: 31482869--31482935 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
31482859 CATCCCGACC
* *
31482869 CACAGCTTGTGTGAACAGGCTCATTT
1 CACAGCTCGTGTGAGCAGGCTCATTT
*
31482895 CAAAGCTCGTGTGAGCAGGCTCATTT
1 CACAGCTCGTGTGAGCAGGCTCATTT
31482921 CACAGCTCGTGTGAG
1 CACAGCTCGTGTGAG
31482936 GAAAAATGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGGCTCATTT
Found at i:31491039 original size:18 final size:18
Alignment explanation
Indices: 31491016--31491080 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
31491006 CTTTATGTAT
31491016 TTTTTTAAATTTTTATAA
1 TTTTTTAAATTTTTATAA
* *
31491034 TTTTTTAAA-ATATATAA
1 TTTTTTAAATTTTTATAA
* *
31491051 -ATTTT-GATTTTTATAA
1 TTTTTTAAATTTTTATAA
*
31491067 TTATTTTGAATTTT
1 TT-TTTTAAATTTT
31491081 AGAAAATTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
15 1 0.03
16 10 0.29
17 6 0.17
18 13 0.37
19 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTTTAAATTTTTATAA
Found at i:31491081 original size:18 final size:18
Alignment explanation
Indices: 31491026--31491101 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 18
31491016 TTTTTTAAAT
*
31491026 TTTTATAATT-TTTTAAA
1 TTTTATAATTATTTTGAA
* * *
31491043 ATATATAA--ATTTTGAT
1 TTTTATAATTATTTTGAA
31491059 TTTTATAATTATTTTGAA
1 TTTTATAATTATTTTGAA
*
31491077 TTTTAGAAAATTATTTTGTAA
1 TTTT--ATAATTATTTTG-AA
31491098 TTTT
1 TTTT
31491102 TATTGAGAGA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
16 11 0.24
17 6 0.13
18 11 0.24
20 11 0.24
21 6 0.13
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTATAATTATTTTGAA
Found at i:31492791 original size:39 final size:41
Alignment explanation
Indices: 31492746--31492882 Score: 128
Period size: 40 Copynumber: 3.5 Consensus size: 41
31492736 GGCGTTTGAA
31492746 TAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGC-TATC
1 TAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTTATC
* * * *
31492786 TAAAAAACGCCACTAAAGATCGAGT-ATTAGCGGCGCTTTTC
1 TAAAAAACGCCGCTAAAAATC-AATCATTAGCGGCGCTTATC
* * *
31492827 T-AAAAACGCCGTTAAAAAT-GAGCATTAGCGGCG-TT-T-
1 TAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTTATC
31492863 TAAAAAAAGCGCCGC-AAAAA
1 T-AAAAAA-CGCCGCTAAAAA
31492883 CCTAAACCTA
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 12 0.15
39 15 0.19
40 45 0.56
41 6 0.08
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.20
Consensus pattern (41 bp):
TAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTTATC
Found at i:31493117 original size:41 final size:41
Alignment explanation
Indices: 31492922--31493116 Score: 318
Period size: 41 Copynumber: 4.8 Consensus size: 41
31492912 TTTTTAGGGA
31492922 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
31492963 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
* * * * *
31493004 TTTAGCGGCATTTTTGATGAAGCGCCACTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
* * *
31493045 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAAGCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
31493086 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAA
31493117 AAGCATTTTA
Statistics
Matches: 144, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 144 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
Found at i:31493422 original size:15 final size:14
Alignment explanation
Indices: 31493402--31493435 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
31493392 AGGGTTTTTA
31493402 GTTTAGGGAGTATGG
1 GTTTAGGGAGTAT-G
*
31493417 GTTTAGGGATTATG
1 GTTTAGGGAGTATG
31493431 GTTTA
1 GTTTA
31493436 AGGATTGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (14 bp):
GTTTAGGGAGTATG
Found at i:31493435 original size:14 final size:14
Alignment explanation
Indices: 31493388--31493441 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
31493378 TATCACTATA
* * *
31493388 GTTTAGGGTTTTTA
1 GTTTAGGGATTATG
*
31493402 GTTTAGGGAGTATGG
1 GTTTAGGGATTAT-G
31493417 GTTTAGGGATTATG
1 GTTTAGGGATTATG
*
31493431 GTTTAAGGATT
1 GTTTAGGGATT
31493442 GGGATTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.44
Consensus pattern (14 bp):
GTTTAGGGATTATG
Found at i:31493464 original size:7 final size:7
Alignment explanation
Indices: 31493454--31493512 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
31493444 GATTTAATGT
31493454 TTAGGGG
1 TTAGGGG
31493461 TTAGAGGG
1 TTAG-GGG
31493469 TTAGGGG
1 TTAGGGG
31493476 TTTAGGGG
1 -TTAGGGG
*
31493484 TTAGATGTG
1 TTAG--GGG
31493493 TTAGGGG
1 TTAGGGG
* *
31493500 TTAAGAG
1 TTAGGGG
31493507 TTAGGG
1 TTAGGG
31493513 ATTCAGAGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 22 0.52
8 14 0.33
9 6 0.14
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:31493474 original size:15 final size:15
Alignment explanation
Indices: 31493454--31493502 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
31493444 GATTTAATGT
31493454 TTAGGGG-TTAGAGGG
1 TTAGGGGTTTAG-GGG
31493469 TTAGGGGTTTAGGGG
1 TTAGGGGTTTAGGGG
**
31493484 TTAGATGTGTTAGGGG
1 TTAGGGGT-TTAGGGG
31493500 TTA
1 TTA
31493503 AGAGTTAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 16 0.53
16 14 0.47
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.35
Consensus pattern (15 bp):
TTAGGGGTTTAGGGG
Found at i:31493482 original size:23 final size:24
Alignment explanation
Indices: 31493452--31493501 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
31493442 GGGATTTAAT
31493452 GTTTAGGGGTTAGA-GGGTTAGGG
1 GTTTAGGGGTTAGATGGGTTAGGG
*
31493475 GTTTAGGGGTTAGATGTGTTAGGG
1 GTTTAGGGGTTAGATGGGTTAGGG
31493499 GTT
1 GTT
31493502 AAGAGTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (24 bp):
GTTTAGGGGTTAGATGGGTTAGGG
Found at i:31493509 original size:23 final size:23
Alignment explanation
Indices: 31493460--31493510 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
31493450 ATGTTTAGGG
* *
31493460 GTTAGAGGGTTAGGGGTTTAGGG
1 GTTAGAGGGTTAGGGGTTTAAGA
*
31493483 GTTAGATGTGTTAGGGG-TTAAGA
1 GTTAGA-GGGTTAGGGGTTTAAGA
31493506 GTTAG
1 GTTAG
31493511 GGATTCAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (23 bp):
GTTAGAGGGTTAGGGGTTTAAGA
Found at i:31493705 original size:15 final size:15
Alignment explanation
Indices: 31493685--31493716 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31493675 TATTTTAAGG
31493685 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
31493700 TTTAGGGATTATGGA
1 TTTAGGGAGTATGGA
31493715 TT
1 TT
31493717 AGCGATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:31493723 original size:14 final size:15
Alignment explanation
Indices: 31493694--31493731 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
31493684 GTTTAGGGAG
*
31493694 TATGGATTTAGGGAT
1 TATGGATTTAGCGAT
31493709 TATGGA-TTAGCGAT
1 TATGGATTTAGCGAT
31493723 TATGG-TTTA
1 TATGGATTTA
31493732 AGGGTTGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGCGAT
Found at i:31493750 original size:21 final size:22
Alignment explanation
Indices: 31493678--31493767 Score: 60
Period size: 21 Copynumber: 4.2 Consensus size: 22
31493668 GAGTTTATAT
* *
31493678 TTTAAGGTTT-AGGGAGTATGGA
1 TTTAAGGTTTAAGGG-TTAGGGA
* * * * *
31493700 TTTAGGGATTATGGATTAGCGA
1 TTTAAGGTTTAAGGGTTAGGGA
*
31493722 -TTATGGTTTAAGGGTT-GGGA
1 TTTAAGGTTTAAGGGTTAGGGA
* *
31493742 TTTAAGGTTTAGGGGTTAGGGG
1 TTTAAGGTTTAAGGGTTAGGGA
31493764 TTTA
1 TTTA
31493768 GGGATTAGAT
Statistics
Matches: 50, Mismatches: 15, Indels: 6
0.70 0.21 0.08
Matches are distributed among these distances:
20 3 0.06
21 26 0.52
22 19 0.38
23 2 0.04
ACGTcount: A:0.23, C:0.01, G:0.37, T:0.39
Consensus pattern (22 bp):
TTTAAGGTTTAAGGGTTAGGGA
Found at i:31493775 original size:22 final size:22
Alignment explanation
Indices: 31493733--31493790 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
31493723 TATGGTTTAA
* *
31493733 GGGTT-GGGATTTAAGGTTTAG
1 GGGTTAGGGGTTTAAGGATTAG
*
31493754 GGGTTAGGGGTTTAGGGATTAG
1 GGGTTAGGGGTTTAAGGATTAG
**
31493776 ATGTTA-GGGTTTAAG
1 GGGTTAGGGGTTTAAG
31493791 AGTTAGAGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (22 bp):
GGGTTAGGGGTTTAAGGATTAG
Found at i:31494242 original size:19 final size:18
Alignment explanation
Indices: 31494213--31494266 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
31494203 GGACCAAATT
*
31494213 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAATTAAA
* *
31494231 ATACAAAAATAAAAATGAA
1 ATA-AAAAATAAAATTAAA
31494250 ATAAAAACACTAAAATT
1 ATAAAAA-A-TAAAATT
31494267 TTTAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAATTAAA
Found at i:31497107 original size:42 final size:42
Alignment explanation
Indices: 31496989--31497133 Score: 157
Period size: 42 Copynumber: 3.4 Consensus size: 42
31496979 ATGATATGTT
* * * *
31496989 TTTAGCGGCGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGAGA-AAGCGTCGCTAAAGGTCATGGTC
* * * *
31497031 TATAGCGGCGTTTGAGATAAAAAGCGTCGCTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTG--AGAAAGCGTCGCTAAAGGTCATGGTC
* * *
31497075 TTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCATGGTA
1 TTTAGCGGCGTTTGTGAGAAAGCGTCGCTAAAGGTCATGGTC
31497117 TTTAGCGGCGTTTGTGA
1 TTTAGCGGCGTTTGTGA
31497134 ATAGGGGACT
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
42 50 0.60
43 15 0.18
44 19 0.23
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGAGAAAGCGTCGCTAAAGGTCATGGTC
Found at i:31498040 original size:50 final size:50
Alignment explanation
Indices: 31497962--31498098 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 50
31497952 AATAATAACA
* * **
31497962 TGCCAAAGCCATGTCCCTGACATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *** *
31498012 TGCCCATGCCATGTCCCAGACATTGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
31498062 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
31498099 TCTCATTCCC
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:31502320 original size:13 final size:13
Alignment explanation
Indices: 31502302--31502335 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
31502292 TAATGTCCAA
31502302 CTCATGAGCTAAT
1 CTCATGAGCTAAT
31502315 CTCATGAGCTAAT
1 CTCATGAGCTAAT
31502328 CTCATGAG
1 CTCATGAG
31502336 GTTGTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (13 bp):
CTCATGAGCTAAT
Found at i:31502944 original size:25 final size:25
Alignment explanation
Indices: 31502905--31502954 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
31502895 GTTCATAATG
*
31502905 ATAACTTAATAAAATTAATCCTAAC
1 ATAACTTAACAAAATTAATCCTAAC
*
31502930 ATAACTTAACCAAATTAATCCTAAC
1 ATAACTTAACAAAATTAATCCTAAC
31502955 CAATCCCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAACTTAACAAAATTAATCCTAAC
Found at i:31505983 original size:15 final size:15
Alignment explanation
Indices: 31505963--31505991 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31505953 AGAACCTTTC
31505963 CCCTTTAAAAAGAAT
1 CCCTTTAAAAAGAAT
31505978 CCCTTTAAAAAGAA
1 CCCTTTAAAAAGAA
31505992 GTAATGTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
CCCTTTAAAAAGAAT
Found at i:31511588 original size:39 final size:39
Alignment explanation
Indices: 31511496--31511594 Score: 112
Period size: 39 Copynumber: 2.6 Consensus size: 39
31511486 AAAATCCTTG
*
31511496 TTATAATTATTGTAATTATAA-TTCAAGATCGAATATTA
1 TTATAATTATTGTAATTATAATTTCAAGATCAAATATTA
* *** *
31511534 TTATAATT-TCTGTAATTGTAATTTTTTGATCAAATTTTA
1 TTATAATTAT-TGTAATTATAATTTCAAGATCAAATATTA
*
31511573 TTATAATTATGGTAATTATAAT
1 TTATAATTATTGTAATTATAAT
31511595 ATTTCGTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 1 0.02
38 18 0.36
39 30 0.60
40 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAATTTCAAGATCAAATATTA
Found at i:31517478 original size:23 final size:23
Alignment explanation
Indices: 31517452--31517573 Score: 154
Period size: 23 Copynumber: 5.3 Consensus size: 23
31517442 ATAAGTGCCA
31517452 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
31517475 CACTGATACGTGGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
31517498 CACTGAAATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
*
31517521 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * * *
31517544 CACTTAAACGTAGACGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
31517567 CACTGAT
1 CACTGAT
31517574 CAATAACACT
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 81 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:31517522 original size:46 final size:46
Alignment explanation
Indices: 31517452--31517573 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
31517442 ATAAGTGCCA
* *
31517452 CACTGATATGTAGCCGAAGCTACCACTGATACGTGGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* *
31517498 CACTGAAATGTAGCCGAAGTTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* * *
31517544 CACTTAAACGTAGACGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
31517574 CAATAACACT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
Found at i:31517822 original size:18 final size:17
Alignment explanation
Indices: 31517796--31517834 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
31517786 ATTTTCCTTC
31517796 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
31517813 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
31517831 CACA
1 CACA
31517835 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:31525026 original size:30 final size:30
Alignment explanation
Indices: 31524992--31525052 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
31524982 CCTGAGCCTT
* *
31524992 ATACAATAGCAGTGTGTGGGCCATAGCCCA
1 ATACAATAACAGAGTGTGGGCCATAGCCCA
* *
31525022 ATACAGTAACAGAGTGTGGGCCTTAGCCCA
1 ATACAATAACAGAGTGTGGGCCATAGCCCA
31525052 A
1 A
31525053 AACAGTAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (30 bp):
ATACAATAACAGAGTGTGGGCCATAGCCCA
Found at i:31525179 original size:26 final size:26
Alignment explanation
Indices: 31525132--31525231 Score: 128
Period size: 26 Copynumber: 3.8 Consensus size: 26
31525122 AACACACCAA
* *
31525132 TATCACAGCAAAGCTGCCAGTATCAG
1 TATCGCAGCAAAGCTACCAGTATCAG
* * *
31525158 TAACGCAGCAAAGCTACTAGTAACAG
1 TATCGCAGCAAAGCTACCAGTATCAG
* * *
31525184 TATCGCAACAAAGCTGCCAATATCAG
1 TATCGCAGCAAAGCTACCAGTATCAG
31525210 TATCGCAGCAAAGCTACCAGTA
1 TATCGCAGCAAAGCTACCAGTA
31525232 ACATTATTTG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAGTATCAG
Found at i:31525505 original size:54 final size:54
Alignment explanation
Indices: 31525433--31525623 Score: 199
Period size: 54 Copynumber: 3.6 Consensus size: 54
31525423 TATAATGGTC
* *
31525433 ATTTTA-CCTCTCGGGGGTATTTTGGTAATTCTAACCTTCGAGGGTATTTCGATA
1 ATTTTACCCT-TCGAGGGTATTTCGGTAATTCTAACCTTCGAGGGTATTTCGATA
* * * * *
31525487 GTATTACCTTTCGAGGGTATTTCAGAAATTCT-ACCTTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTCTAACC-TTCGAGGGTATTTCGATA
* * * * * * * *
31525541 ATTTTACCCATAGAGGG-CTTTCGGTAATTTTATCCTTTGAAGATATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTCTAACCTTCGAGGGTATTTCGATA
*
31525594 ATTTTACCCTTCGAGGGTATTTTGGTAATT
1 ATTTTACCCTTCGAGGGTATTTCGGTAATT
31525624 TTACCCACGA
Statistics
Matches: 109, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
53 43 0.39
54 64 0.59
55 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (54 bp):
ATTTTACCCTTCGAGGGTATTTCGGTAATTCTAACCTTCGAGGGTATTTCGATA
Found at i:31525624 original size:27 final size:27
Alignment explanation
Indices: 31525433--31525629 Score: 173
Period size: 27 Copynumber: 7.3 Consensus size: 27
31525423 TATAATGGTC
* *
31525433 ATTTTA-CCTCTCGGGGGTATTTTGGTA
1 ATTTTACCCT-TCGAGGGTATTTCGGTA
* * *
31525460 ATTCTAACCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * * * *
31525487 GTATTACCTTTCGAGGGTATTTCAGAA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
31525514 ATTCTACCTTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
31525541 ATTTTACCCATAGAGGG-CTTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * * * *
31525567 ATTTTATCCTTTGAAGATATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
31525594 ATTTTACCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
31525621 ATTTTACCC
1 ATTTTACCC
31525630 ACGAATCGCA
Statistics
Matches: 131, Mismatches: 37, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
26 19 0.15
27 109 0.83
28 3 0.02
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:31529561 original size:16 final size:15
Alignment explanation
Indices: 31529534--31529567 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
31529524 ATAACTAGTA
*
31529534 TATAATTATATTTAT
1 TATAATTATATTAAT
31529549 TATAATATATATTAAT
1 TATAAT-TATATTAAT
31529565 TAT
1 TAT
31529568 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:31530871 original size:38 final size:37
Alignment explanation
Indices: 31530821--31530896 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 37
31530811 GGACAGTTTC
31530821 AAAAAAAGATATTCACACTTGTCGCAGAAAATATTTG
1 AAAAAAAGATATTCACACTTGTCGCAGAAAATATTTG
*
31530858 AAAAAAACGATATTCACACTTGTCGTAGAAAATATTTG
1 AAAAAAA-GATATTCACACTTGTCGCAGAAAATATTTG
31530896 A
1 A
31530897 CACCATTACC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 7 0.19
38 30 0.81
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (37 bp):
AAAAAAAGATATTCACACTTGTCGCAGAAAATATTTG
Found at i:31533368 original size:27 final size:27
Alignment explanation
Indices: 31533324--31533420 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 27
31533314 TTATCCTATA
* *
31533324 GGGGTATTTTGGTCATTTTACCTTTCG
1 GGGGTATTTCGATCATTTTACCTTTCG
* *
31533351 GGGGTATTTCGATAATTTTACCCTTT-T
1 GGGGTATTTCGATCATTTTA-CCTTTCG
** * *
31533378 AAGGTATTTC-A-GATTTTACCCTTCG
1 GGGGTATTTCGATCATTTTACCTTTCG
*
31533403 GGGGTAATTCGATCATTT
1 GGGGTATTTCGATCATTT
31533421 AAAAATCCTT
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
24 4 0.08
25 13 0.25
26 2 0.04
27 29 0.55
28 5 0.09
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (27 bp):
GGGGTATTTCGATCATTTTACCTTTCG
Found at i:31534957 original size:25 final size:25
Alignment explanation
Indices: 31534920--31534973 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
31534910 TGAACCTCTG
* *
31534920 ACCTTCTTACCACACCTGTGACGCC
1 ACCTCCTTACCACACCTATGACGCC
* *
31534945 ACCTCCTTGCCACACCTATGTCGCC
1 ACCTCCTTACCACACCTATGACGCC
31534970 ACCT
1 ACCT
31534974 TGCCACTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.46, G:0.11, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTATGACGCC
Found at i:31576160 original size:13 final size:13
Alignment explanation
Indices: 31576144--31576172 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
31576134 GTTAAAAAGG
31576144 GTATGCAAAATGT
1 GTATGCAAAATGT
31576157 GTATGCAAAATGT
1 GTATGCAAAATGT
31576170 GTA
1 GTA
31576173 AATTTTCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (13 bp):
GTATGCAAAATGT
Found at i:31580291 original size:43 final size:43
Alignment explanation
Indices: 31580170--31580294 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
31580160 CGTTCCACCA
* * *
31580170 AAACCATGTGCAACTT-GAAATAGGATCACACAGTCATGTCGCC
1 AAACCATGTGCCA-TTCGAAATAGGATCACACGGTCGTGTCGCC
* *
31580213 AAACTATGTGCCATACGAAATAGGATCACACGGTCGTGTCGCC
1 AAACCATGTGCCATTCGAAATAGGATCACACGGTCGTGTCGCC
* * *
31580256 AAACCATGTGCCATTCAAAATAGGGTCACATGGTCGTGT
1 AAACCATGTGCCATTCGAAATAGGATCACACGGTCGTGT
31580295 AACAACAGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (43 bp):
AAACCATGTGCCATTCGAAATAGGATCACACGGTCGTGTCGCC
Found at i:31587349 original size:23 final size:23
Alignment explanation
Indices: 31587320--31587367 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
31587310 ACTTTTCATA
31587320 TTCACTCTTCATACTT-AAGTCTC
1 TTCACTCTTCATA-TTCAAGTCTC
31587343 TTCACTCTTCATATTCAAGTCTC
1 TTCACTCTTCATATTCAAGTCTC
31587366 TT
1 TT
31587368 TACATTTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.21, C:0.29, G:0.04, T:0.46
Consensus pattern (23 bp):
TTCACTCTTCATATTCAAGTCTC
Found at i:31588478 original size:21 final size:20
Alignment explanation
Indices: 31588452--31588496 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
31588442 GGGATGATTG
31588452 CTTCAACCCGTACAAAGTTTT
1 CTTCAACCCGTA-AAAGTTTT
** *
31588473 CTTCAACTTGTAAAATTTTT
1 CTTCAACCCGTAAAAGTTTT
31588493 CTTC
1 CTTC
31588497 TTCTCCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (20 bp):
CTTCAACCCGTAAAAGTTTT
Found at i:31594886 original size:19 final size:19
Alignment explanation
Indices: 31594861--31594913 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
31594851 AAAATTTTTC
31594861 ATTTTTTTAAATTTATT-T-
1 ATTTTTTTAAATTT-TTATA
31594879 ATTTTTTTGAAATTTTTATA
1 ATTTTTTT-AAATTTTTATA
*
31594899 ATTTTTTTGAATTTT
1 ATTTTTTTAAATTTT
31594914 AAAGATTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 10 0.32
19 13 0.42
20 8 0.26
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (19 bp):
ATTTTTTTAAATTTTTATA
Found at i:31594896 original size:17 final size:16
Alignment explanation
Indices: 31594852--31594897 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 16
31594842 TTATTCTAGA
31594852 AAATTTTTCATTTTTTT
1 AAATTTTT-ATTTTTTT
31594869 AAATTTATTTATTTTTTT
1 AAA-TT-TTTATTTTTTT
31594887 GAAATTTTTAT
1 -AAATTTTTAT
31594898 AATTTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.31
18 12 0.46
19 6 0.23
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
AAATTTTTATTTTTTT
Found at i:31595863 original size:9 final size:9
Alignment explanation
Indices: 31595849--31595879 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
31595839 GTTAAACGAA
31595849 TCGAGTTAT
1 TCGAGTTAT
*
31595858 TCGAGTTAA
1 TCGAGTTAT
31595867 TCGAGTTAT
1 TCGAGTTAT
31595876 TCGA
1 TCGA
31595880 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:31595959 original size:9 final size:9
Alignment explanation
Indices: 31595932--31595968 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
31595922 TTGAGTTTCG
31595932 AATTCGAAT
1 AATTCGAAT
* *
31595941 AACTCAAAT
1 AATTCGAAT
31595950 AATTCGAAT
1 AATTCGAAT
31595959 AATTCGAAT
1 AATTCGAAT
31595968 A
1 A
31595969 TCACACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:31598513 original size:11 final size:11
Alignment explanation
Indices: 31598497--31598521 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31598487 AGAGAAATTT
31598497 AAATAAAAATA
1 AAATAAAAATA
31598508 AAATAAAAATA
1 AAATAAAAATA
31598519 AAA
1 AAA
31598522 AGAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:31601199 original size:15 final size:15
Alignment explanation
Indices: 31601179--31601207 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31601169 CATGTAGAAA
31601179 TTAAATTAAACTAAG
1 TTAAATTAAACTAAG
31601194 TTAAATTAAACTAA
1 TTAAATTAAACTAA
31601208 TGGAATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (15 bp):
TTAAATTAAACTAAG
Found at i:31602435 original size:42 final size:41
Alignment explanation
Indices: 31602389--31602469 Score: 126
Period size: 42 Copynumber: 2.0 Consensus size: 41
31602379 ATTGTAAATC
* *
31602389 CAACAACCCATGTTTATCTTCTCCTCTTTTTAAATTCTTTAT
1 CAACAACCCAAGATTATCTTCTCCT-TTTTTAAATTCTTTAT
*
31602431 CAACAACTCAAGATTATCTTCTCCTTTTTTAAATTCTTT
1 CAACAACCCAAGATTATCTTCTCCTTTTTTAAATTCTTT
31602470 TTTTCTAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 14 0.39
42 22 0.61
ACGTcount: A:0.26, C:0.25, G:0.02, T:0.47
Consensus pattern (41 bp):
CAACAACCCAAGATTATCTTCTCCTTTTTTAAATTCTTTAT
Found at i:31613309 original size:148 final size:146
Alignment explanation
Indices: 31613086--31613385 Score: 449
Period size: 148 Copynumber: 2.0 Consensus size: 146
31613076 AAAACTTTTG
* *
31613086 TTTTTTTTTAAAAGGAGAGTTTTGATTTTTAAAATAAAAATCTATTTTTTAGTCATTTTAAAGGA
1 TTTTTTTTTAAAAGGAGAGTTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATTTTAAAGGA
* * *
31613151 AAGATTAAAATTTTAAAATAAAGTTTTGAGTTTTTTCAACTATTTCGAAATAAAATTTTTGATCT
66 AAGATTAAAATTTTAAAATAAAGTTTTAAGTTTTTTCAACTATGTCGAAATAAAAGTTTTGATCT
31613216 TTATGAAAAGTAGTGA
131 TTATGAAAAGTAGTGA
** * *
31613232 TTTTTTTTTAAAA-GAGAAGTTTAGATTTTTTAAAAATGTAAATATGTTTTTTAGTCATTTTGAA
1 TTTTTTTTTAAAAGGAG-AGTTTAGA-TTTTT-AAAATAAAAATATATTTTTTAGTCATTTTAAA
* * * *
31613296 TGAAAGTTTAAAATTTTTAAATAAAGTTTTAATTTTTTTCAACTATGTCGAAATAAAAGTTTTGA
63 GGAAAGATTAAAATTTTAAAATAAAGTTTTAAGTTTTTTCAACTATGTCGAAATAAAAGTTTTGA
31613361 TCTTTATGAAAAGTAGTGA
128 TCTTTATGAAAAGTAGTGA
31613380 TTTTTT
1 TTTTTT
31613386 AAAAGAAGAA
Statistics
Matches: 138, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
145 3 0.02
146 20 0.14
147 5 0.04
148 110 0.80
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (146 bp):
TTTTTTTTTAAAAGGAGAGTTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATTTTAAAGGA
AAGATTAAAATTTTAAAATAAAGTTTTAAGTTTTTTCAACTATGTCGAAATAAAAGTTTTGATCT
TTATGAAAAGTAGTGA
Found at i:31614726 original size:27 final size:27
Alignment explanation
Indices: 31614678--31614959 Score: 134
Period size: 27 Copynumber: 10.5 Consensus size: 27
31614668 TCGATATCTG
*
31614678 GACCGAAATACCCCCAAAGGGTAAAAT
1 GACCGAAATACCCCCAATGGGTAAAAT
* * *
31614705 GACCGAAATATCCTCGATGGGTAAAAT
1 GACCGAAATACCCCCAATGGGTAAAAT
* * * *
31614732 GACCAAAATACCCTCGATGCGTAAAAT
1 GACCGAAATACCCCCAATGGGTAAAAT
* * * *
31614759 AACTGAAA-AGCCCCAATAGGATAAAAT
1 GACCGAAATACCCCCAAT-GGGTAAAAT
* *
31614786 GACCGAAATACCCCC-GTAGGGTAGAAT
1 GACCGAAATACCCCCAAT-GGGTAAAAT
* *
31614813 -ACCGAAACAGCCCC-ATAGGGTAAAAT
1 GACCGAAATACCCCCAAT-GGGTAAAAT
* * * ** *
31614839 CATCGTAATA-CCCCTGTAGGGCAAAAT
1 GACCGAAATACCCCCAAT-GGGTAAAAT
* **
31614866 GACCGTAATA-CCCCTGTAGGGTAAAAT
1 GACCGAAATACCCCCAAT-GGGTAAAAT
* *
31614893 GACC-ATAAT-GCCCCTATAGGGTAAAAT
1 GACCGA-AATACCCCCAAT-GGGTAAAAT
** *
31614920 GACCTTAATA-TCCC-ATAGGGTAAAAT
1 GACCGAAATACCCCCAAT-GGGTAAAAT
* *
31614946 GACTGTAATACCCC
1 GACCGAAATACCCC
31614960 TGTAGGGTAA
Statistics
Matches: 206, Mismatches: 40, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
26 52 0.25
27 149 0.72
28 5 0.02
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (27 bp):
GACCGAAATACCCCCAATGGGTAAAAT
Found at i:31614849 original size:53 final size:53
Alignment explanation
Indices: 31614695--31615163 Score: 360
Period size: 54 Copynumber: 8.7 Consensus size: 53
31614685 ATACCCCCAA
* * * **
31614695 AGGGTAAAATGACCGAAATATCCTCGAT-GGGTAAAATGACCAAAATA-CCCTCG-
1 AGGGTAAAATGACCGTAA-AGCC-CCATAGGGTAAAATGACCGTAATACCCCT-GT
* * * * * * *
31614748 ATGCGTAAAATAACTGAAAAGCCCCAATAGGATAAAATGACCGAAATACCCCCGT
1 A-GGGTAAAATGACCGTAAAGCCCC-ATAGGGTAAAATGACCGTAATACCCCTGT
* * * *
31614803 AGGGTAGAAT-ACCGAAACAGCCCCATAGGGTAAAATCATCGTAATACCCCTGT
1 AGGGTAAAATGACCGTAA-AGCCCCATAGGGTAAAATGACCGTAATACCCCTGT
* * * * *
31614856 AGGGCAAAATGACCGTAATA-CCCCTGTAGGGTAAAATGACCATAATGCCCCTAT
1 AGGGTAAAATGACCGTAA-AGCCCC-ATAGGGTAAAATGACCGTAATACCCCTGT
* * *
31614910 AGGGTAAAATGACCTTAATA-TCCCATAGGGTAAAATGACTGTAATACCCCTGT
1 AGGGTAAAATGACCGTAA-AGCCCCATAGGGTAAAATGACCGTAATACCCCTGT
* * * * *
31614963 AGGGTAAAATAACTGTAATGCCCTATAGGGTAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAAAGCCCCATAGGGTAAAATGACCGTAATACCCCTGT
* * * ** * * * *
31615016 AGGATAAAATAACCGTAATGCCCTTGTAGGGTAAAATAACCATAATGCCCTTGT
1 AGGGTAAAATGACCGTAAAGCCC-CATAGGGTAAAATGACCGTAATACCCCTGT
* * * * *
31615070 AGGGTAAAATGATCGTACCA-CCCCTGTAGGGTAAAATGACCGTAATGCCCTTGT
1 AGGGTAAAATGACCGTA-AAGCCCC-ATAGGGTAAAATGACCGTAATACCCCTGT
*
31615124 AGGGTAAAATGATCGTAATA-CCCCTATAGGGTAAAATGAC
1 AGGGTAAAATGACCGTAA-AGCCCC-ATAGGGTAAAATGAC
31615164 ATTAATGCCC
Statistics
Matches: 343, Mismatches: 60, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.00
53 137 0.40
54 201 0.59
55 4 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (53 bp):
AGGGTAAAATGACCGTAAAGCCCCATAGGGTAAAATGACCGTAATACCCCTGT
Found at i:31614885 original size:80 final size:80
Alignment explanation
Indices: 31614678--31615163 Score: 412
Period size: 80 Copynumber: 6.0 Consensus size: 80
31614668 TCGATATCTG
* * * * * * *
31614678 GACCGAAATACCCCCAAAGGGTAAAATGACCGAAATA-TCCTCG-ATGGGTAAAATGACCAAAAT
1 GACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCT-GTA-GGGTAAAATAACCGAAAT
* *
31614741 ACCCTCGAT-GCGTAAAAT
64 GCCC-C-ATAGGGTAAAAT
* * * * * * * * *
31614759 AACTG-AAAAGCCCCAATAGGATAAAATGACCGAAATACCCCCGTAGGGTAGAAT-ACCGAAACA
1 GACCGTAATA-CCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGAAA-T
31614822 GCCCCATAGGGTAAAAT
64 GCCCCATAGGGTAAAAT
* * * * *
31614839 CATCGTAATACCCCTGTAGGGCAAAATGACCGTAATACCCCTGTAGGGTAAAATGACC-ATAATG
1 GACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGA-AATG
31614903 CCCCTATAGGGTAAAAT
65 CCCC-ATAGGGTAAAAT
* * * * *
31614920 GACCTTAATATCCC-ATAGGGTAAAATGACTGTAATACCCCTGTAGGGTAAAATAACTGTAATGC
1 GACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGAAATGC
*
31614984 CCTATAGGGTAAAAT
66 CCCATAGGGTAAAAT
* * * *
31614999 GACCGTAATACCCCTATAGGATAAAATAACCGTAATGCCCTTGTAGGGTAAAATAACC-ATAATG
1 GACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGA-AATG
**
31615063 CCCTTGTAGGGTAAAAT
65 CCC-CATAGGGTAAAAT
* ** * * * * * * *
31615080 GATCGTACCACCCCTGTAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGATCGTAATAC
1 GACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGAAATGC
31615145 CCCTATAGGGTAAAAT
66 CCC-ATAGGGTAAAAT
31615161 GAC
1 GAC
31615164 ATTAATGCCC
Statistics
Matches: 331, Mismatches: 59, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
79 26 0.08
80 152 0.46
81 150 0.45
82 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (80 bp):
GACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGAAATGC
CCCATAGGGTAAAAT
Found at i:31615169 original size:27 final size:27
Alignment explanation
Indices: 31614775--31615163 Score: 408
Period size: 27 Copynumber: 14.5 Consensus size: 27
31614765 AAAGCCCCAA
* * *
31614775 TAGGATAAAATGACCGAAATACCCCCG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * * *
31614802 TAGGGTAGAAT-ACCGAAACAGCCCC-A
1 TAGGGTAAAATGACCGTAATA-CCCCTG
* *
31614828 TAGGGTAAAATCATCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
*
31614855 TAGGGCAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * *
31614882 TAGGGTAAAATGACCATAATGCCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTG
* * *
31614909 TAGGGTAAAATGACCTTAATATCCC-A
1 TAGGGTAAAATGACCGTAATACCCCTG
*
31614935 TAGGGTAAAATGACTGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * * *
31614962 TAGGGTAAAATAACTGTAAT-GCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTG
*
31614988 TAGGGTAAAATGACCGTAATACCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTG
* * * *
31615015 TAGGATAAAATAACCGTAATGCCCTTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * * *
31615042 TAGGGTAAAATAACCATAATGCCCTTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* **
31615069 TAGGGTAAAATGATCGTACCACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* *
31615096 TAGGGTAAAATGACCGTAATGCCCTTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* *
31615123 TAGGGTAAAATGATCGTAATACCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTG
31615150 TAGGGTAAAATGAC
1 TAGGGTAAAATGAC
31615164 ATTAATGCCC
Statistics
Matches: 304, Mismatches: 53, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
26 67 0.22
27 237 0.78
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCCTG
Found at i:31615266 original size:24 final size:24
Alignment explanation
Indices: 31615233--31615291 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
31615223 TCTGTGGTTA
* *
31615233 AATGACTGATTTGTCTGTG-TTTGG
1 AATGACTGATTTATCTATGATTT-G
*
31615257 TATGACTGATTTATCTATGATTTG
1 AATGACTGATTTATCTATGATTTG
31615281 AATGACTGATT
1 AATGACTGATT
31615292 CTGAGCATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.46
Consensus pattern (24 bp):
AATGACTGATTTATCTATGATTTG
Found at i:31615507 original size:32 final size:32
Alignment explanation
Indices: 31615463--31615699 Score: 221
Period size: 32 Copynumber: 7.4 Consensus size: 32
31615453 GCTGAGATGC
31615463 TACTGATGGCTTTGTGCCGATCATAGTACTGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* *
31615495 TACTGATAGCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* * *
31615527 TATTGATGGCTTTGTACCGATCATATTTCACTGT
1 TACTGATGGCTTTGTGCCGATCATA-GT-ACTGT
* * *
31615561 TACTGATGGCTGTGTGTCGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACTGT
** *
31615593 TACTGATGGCTTTGTGCTAATCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCGATCATAG-TACTGT
* * *
31615625 TACTGATGGCTGTGTGCTGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACTGT
* * * * *
31615657 TACTAATGGATTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
*
31615688 TACTTATGGCTT
1 TACTGATGGCTT
31615700 GTAGCCATTC
Statistics
Matches: 168, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
31 11 0.07
32 129 0.77
33 3 0.02
34 25 0.15
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACTGT
Found at i:31615547 original size:64 final size:64
Alignment explanation
Indices: 31615461--31615698 Score: 248
Period size: 64 Copynumber: 3.7 Consensus size: 64
31615451 TTGCTGAGAT
* *
31615461 GCTACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATAGCTTTGTGCCGATCATAGT-ACC
1 GCTACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATGGCTGTGTGCCGATCATA-TCACC
* * * * *
31615525 GTTATTGATGGCTTTGTACCGATCATATTTCACTGTTACTGATGGCTGTGTGTCGATCATATCAC
1 GCTACTGATGGCTTTGTGCCGATCATA-GT-ACTGTTACTGATGGCTGTGTGCCGATCATATCAC
*
31615590 T
64 C
** * * *
31615591 GCTACTGATGGCTTTGTGCTAATCAT-GTTACCGTTACTGATGGCTGTGTGCTGATCATATCACT
1 GCTACTGATGGCTTTGTGCCGATCATAG-TACTGTTACTGATGGCTGTGTGCCGATCATATCACC
* * * * * *
31615655 GCTACTAATGGATTTGTGCCAATCACATTACTG-TACTTATGGCT
1 GCTACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATGGCT
31615699 TGTAGCCATT
Statistics
Matches: 145, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
63 10 0.07
64 82 0.57
65 3 0.02
66 50 0.34
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (64 bp):
GCTACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATGGCTGTGTGCCGATCATATCACC
Found at i:31615632 original size:98 final size:98
Alignment explanation
Indices: 31615463--31615650 Score: 254
Period size: 98 Copynumber: 1.9 Consensus size: 98
31615453 GCTGAGATGC
* * *
31615463 TACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATAGCTTTGTGCCGATCATAGTACCGTT
1 TACTGATGGCTGTGTGCCGATCATAGTACTGCTACTGATAGCTTTGTGCCAATCATAGTACCGTT
* *
31615528 ATTGATGGCTTTGTACCGATCATATTTCACTGT
66 ACTGATGGCTGTGTACCGATCATATTTCACTGT
* * *
31615561 TACTGATGGCTGTGTGTCGATCATA-TCACTGCTACTGATGGCTTTGTGCTAATCAT-GTTACCG
1 TACTGATGGCTGTGTGCCGATCATAGT-ACTGCTACTGATAGCTTTGTGCCAATCATAG-TACCG
* *
31615624 TTACTGATGGCTGTGTGCTGATCATAT
64 TTACTGATGGCTGTGTACCGATCATAT
31615651 CACTGCTACT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
97 2 0.03
98 76 0.97
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (98 bp):
TACTGATGGCTGTGTGCCGATCATAGTACTGCTACTGATAGCTTTGTGCCAATCATAGTACCGTT
ACTGATGGCTGTGTACCGATCATATTTCACTGT
Found at i:31616372 original size:10 final size:10
Alignment explanation
Indices: 31616357--31616381 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31616347 ATAGATAAGT
31616357 AAAATCTACC
1 AAAATCTACC
31616367 AAAATCTACC
1 AAAATCTACC
31616377 AAAAT
1 AAAAT
31616382 GTGGGATGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATCTACC
Found at i:31621832 original size:93 final size:93
Alignment explanation
Indices: 31621673--31621880 Score: 389
Period size: 93 Copynumber: 2.2 Consensus size: 93
31621663 TTGATGTTGT
* *
31621673 GTTTTAGATTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCCTTATATGGTTGAAAATA
1 GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCCTTATATAGTTGAAAATA
31621738 TCAGGCGAGCATGAAAATGAGTTTTAGA
66 TCAGGCGAGCATGAAAATGAGTTTTAGA
*
31621766 GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCTTTATATAGTTGAAAATA
1 GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCCTTATATAGTTGAAAATA
31621831 TCAGGCGAGCATGAAAATGAGTTTTAGA
66 TCAGGCGAGCATGAAAATGAGTTTTAGA
31621859 GTTTTAGAGTTTGAAGGTAATT
1 GTTTTAGAGTTTGAAGGTAATT
31621881 TGCATACAAT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 112 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (93 bp):
GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCCTTATATAGTTGAAAATA
TCAGGCGAGCATGAAAATGAGTTTTAGA
Found at i:31629653 original size:19 final size:15
Alignment explanation
Indices: 31629611--31629643 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
31629601 CTATTCTTTT
31629611 CAGGTTGAAAATTAA
1 CAGGTTGAAAATTAA
31629626 CAGGTTGAAAATTAA
1 CAGGTTGAAAATTAA
31629641 CAG
1 CAG
31629644 CTTGGTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.24
Consensus pattern (15 bp):
CAGGTTGAAAATTAA
Found at i:31637857 original size:27 final size:27
Alignment explanation
Indices: 31637819--31638197 Score: 360
Period size: 27 Copynumber: 14.1 Consensus size: 27
31637809 TCGATATTTG
31637819 GACCGAAATACCCCCGAAGGGTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
*
31637846 GACCGAAATACCCCCGATGGGTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* * *
31637873 GACCAAAATACTCTCGAAGGGTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
*
31637900 GACCGAAATA-CCCCTAATGGGTAAAAT
1 GACCGAAATACCCCCGAA-GGGTAAAAT
* * * *
31637927 GACCGACATACCCTCGATGGATAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* * *
31637954 GATCGAAATACCCTCGATGGGTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* * *
31637981 GACCGAAATACCCTCGATGGCTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* ** *
31638008 AATTGAAATACCCCCGAAGAGTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* * *
31638035 GATCGAAATACCCTCGATGGGTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* *
31638062 GACCGAAATACCCTCGAAGGGT-TAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* *
31638088 GA-CGAAAATACCCTCGATAAGGTAAAAT
1 GACCG-AAATACCCCCGA-AGGGTAAAAT
*
31638116 GACCGAAATACCCCC-ATAGGGTAGAAT
1 GACCGAAATACCCCCGA-AGGGTAAAAT
*
31638143 -ACTGAAAT-CCCCTC-ATAGGGTAAAAT
1 GACCGAAATACCCC-CGA-AGGGTAAAAT
* * *
31638169 AACC-ATAATACCCCTGTAGGGTAAAAT
1 GACCGA-AATACCCCCGAAGGGTAAAAT
31638196 GA
1 GA
31638198 TCGTAATGCC
Statistics
Matches: 296, Mismatches: 45, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
25 6 0.02
26 41 0.14
27 225 0.76
28 22 0.07
29 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (27 bp):
GACCGAAATACCCCCGAAGGGTAAAAT
Found at i:31637906 original size:54 final size:54
Alignment explanation
Indices: 31637819--31638197 Score: 403
Period size: 54 Copynumber: 7.0 Consensus size: 54
31637809 TCGATATTTG
*
31637819 GACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
1 GACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
* * **
31637873 GACCAAAATACTCTCGAAGGGTAAAATGACCGAAATACCCCTAATGGGTAAAAT
1 GACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
* * * * *
31637927 GACCGACATACCCTCGATGGATAAAATGATCGAAATACCCTCGATGGGTAAAAT
1 GACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
* * * ** * *
31637981 GACCGAAATACCCTCGATGGCTAAAATAATTGAAATACCCCCGAAGAGTAAAAT
1 GACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
* * * * *
31638035 GATCGAAATACCCTCGATGGGTAAAATGACCGAAATACCCTCGAAGGGT-TAAT
1 GACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
* *
31638088 GA-CGAAAATACCCTCGATAAGGTAAAATGACCGAAATACCCCC-ATAGGGTAGAAT
1 GACCG-AAATACCCTCGA-AGGGTAAAATGACCGAAATACCCCCGAT-GGGTAAAAT
* * * *
31638143 -ACTGAAATCCCCTC-ATAGGGTAAAATAACC-ATAATACCCCTG-TAGGGTAAAAT
1 GACCGAAATACCCTCGA-AGGGTAAAATGACCGA-AATACCCCCGAT-GGGTAAAAT
31638196 GA
1 GA
31638198 TCGTAATGCC
Statistics
Matches: 277, Mismatches: 40, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
52 3 0.01
53 50 0.18
54 220 0.79
55 4 0.01
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (54 bp):
GACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
Found at i:31638460 original size:27 final size:26
Alignment explanation
Indices: 31638430--31638495 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
31638420 ATTACCAGTG
*
31638430 GCTTGGCTACATATACTATTACTGGCA
1 GCTTGGCTAC-GATACTATTACTGGCA
* *
31638457 GCTTTGCTACGATACTATTGCTGGCA
1 GCTTGGCTACGATACTATTACTGGCA
* *
31638483 GCTTTGCTGCGAT
1 GCTTGGCTACGAT
31638496 GCTACTGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
26 26 0.74
27 9 0.26
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
GCTTGGCTACGATACTATTACTGGCA
Found at i:31638480 original size:26 final size:26
Alignment explanation
Indices: 31638442--31638495 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
31638432 TTGGCTACAT
31638442 ATACTATTACTGGCAGCTTTGCTACG
1 ATACTATTACTGGCAGCTTTGCTACG
* *
31638468 ATACTATTGCTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTACG
31638494 AT
1 AT
31638496 GCTACTGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTACG
Found at i:31638507 original size:26 final size:26
Alignment explanation
Indices: 31638452--31638507 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
31638442 ATACTATTAC
* *
31638452 TGGCAGCTTTGCTACGATACTATTGC
1 TGGCAGCTTTGCTACGATACTACTGA
* *
31638478 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAGCTTTGCTACGATACTACTGA
31638504 TGGC
1 TGGC
31638508 TTTGTACCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.16, C:0.23, G:0.29, T:0.32
Consensus pattern (26 bp):
TGGCAGCTTTGCTACGATACTACTGA
Found at i:31638544 original size:32 final size:32
Alignment explanation
Indices: 31638498--31638766 Score: 233
Period size: 32 Copynumber: 8.4 Consensus size: 32
31638488 GCTGCGATGC
31638498 TACTGATGGCTTTGTACCGATCATAGTACTGT
1 TACTGATGGCTTTGTACCGATCATAGTACTGT
* * *
31638530 TATTGATGGTTTTGTACCGATCATAGTACAGT
1 TACTGATGGCTTTGTACCGATCATAGTACTGT
* * *
31638562 TACTAATGGCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTTTGTACCGATCATAGTACTGT
* * * *
31638594 TACTGATGGTTTTGTGCCGATCATATTTCACTAT
1 TACTGATGGCTTTGTACCGATCATA-GT-ACTGT
* ** **
31638628 TACTGATGGCTGTGTGTCGATCATA-TCACTAC
1 TACTGATGGCTTTGTACCGATCATAGT-ACTGT
*
31638660 TACTGATGGCTTTGTACCGATCAT-GTTACCGT
1 TACTGATGGCTTTGTACCGATCATAG-TACTGT
* * *
31638692 TACTGATGG-TTGTGTCCCAATCATA-TCACTGC
1 TACTGATGGCTT-TGTACCGATCATAGT-ACTGT
* * * *
31638724 TACTGATGGCTTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTACCGATCATAGTACTGT
*
31638755 TACTTATGGCTT
1 TACTGATGGCTT
31638767 GTAGCCATTC
Statistics
Matches: 198, Mismatches: 30, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
31 14 0.07
32 154 0.78
33 5 0.03
34 25 0.13
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTACCGATCATAGTACTGT
Found at i:31638673 original size:98 final size:96
Alignment explanation
Indices: 31638562--31638739 Score: 250
Period size: 98 Copynumber: 1.8 Consensus size: 96
31638552 ATAGTACAGT
* * * *
31638562 TACTAATGGCTTTGTGCCGATCATAG-TACCGTTACTGATGGTTTTGTGCCGATCATATTTCACT
1 TACTAATGGCTTTGTACCGATCAT-GTTACCGTTACTGATGGTTGTGTCCCAATCATA--TCACT
*
31638626 ATTACTGATGGCTGTGTGTCGATCATATCACTAC
63 ACTACTGATGGCTGTGTGTCGATCATATCACTAC
* *
31638660 TACTGATGGCTTTGTACCGATCATGTTACCGTTACTGATGGTTGTGTCCCAATCATATCACTGCT
1 TACTAATGGCTTTGTACCGATCATGTTACCGTTACTGATGGTTGTGTCCCAATCATATCACTACT
*
31638725 ACTGATGGCTTTGTG
66 ACTGATGGCTGTGTG
31638740 CCAATCACAT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
96 20 0.28
97 1 0.01
98 50 0.70
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (96 bp):
TACTAATGGCTTTGTACCGATCATGTTACCGTTACTGATGGTTGTGTCCCAATCATATCACTACT
ACTGATGGCTGTGTGTCGATCATATCACTAC
Found at i:31638731 original size:130 final size:130
Alignment explanation
Indices: 31638498--31638746 Score: 299
Period size: 130 Copynumber: 1.9 Consensus size: 130
31638488 GCTGCGATGC
* ** * *
31638498 TACTGATGGCTTTGTACCGATCATAGTACTGTTATTGATGGTTTTGTACCGATCATAGTACAGTT
1 TACTGATGGCTGTGTACCGATCATAGTACTACTACTGATGGCTTTGTACCGATCATAGTACAGTT
* * * * *
31638563 ACTAATGGCTTTGTGCCGATCATAGTACCGTTACTGATGGTTTTGTGCCGATCATATTTCACTAT
66 ACTAATGGCTTTGTCCCAATCATAGTACCGCTACTGATGGCTTTGTGCCAATCATATTTCACTAT
** *
31638628 TACTGATGGCTGTGTGTCGATCATA-TCACTACTACTGATGGCTTTGTACCGATCAT-GTTACCG
1 TACTGATGGCTGTGTACCGATCATAGT-ACTACTACTGATGGCTTTGTACCGATCATAG-TACAG
* *
31638691 TTACTGATGG-TTGTGTCCCAATCATA-TCACTGCTACTGATGGCTTTGTGCCAATCA
64 TTACTAATGGCTT-TGTCCCAATCATAGT-ACCGCTACTGATGGCTTTGTGCCAATCA
31638747 CATTACTGTA
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
129 5 0.05
130 95 0.95
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (130 bp):
TACTGATGGCTGTGTACCGATCATAGTACTACTACTGATGGCTTTGTACCGATCATAGTACAGTT
ACTAATGGCTTTGTCCCAATCATAGTACCGCTACTGATGGCTTTGTGCCAATCATATTTCACTAT
Found at i:31638783 original size:22 final size:21
Alignment explanation
Indices: 31638758--31638822 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
31638748 ATTACTGTAC
31638758 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
** * *
31638780 TTATACCTTATAGCTATCCTGT
1 TTATGGCTT-TAGCCATTCTGT
*
31638802 TTACGGCTCTTAGCCATTCTG
1 TTATGGCT-TTAGCCATTCTG
31638823 ACTACTGGCA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:31639017 original size:28 final size:28
Alignment explanation
Indices: 31638984--31639037 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
31638974 CATACTGATA
* *
31638984 CTGTATCGGGCTTAGGCTCACACTGTTT
1 CTGTATCGGGCTAAGGCCCACACTGTTT
*
31639012 CTGTATTGGGCTAAGGCCCACACTGT
1 CTGTATCGGGCTAAGGCCCACACTGT
31639038 ACTATTACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.31
Consensus pattern (28 bp):
CTGTATCGGGCTAAGGCCCACACTGTTT
Found at i:31643962 original size:40 final size:39
Alignment explanation
Indices: 31643916--31644186 Score: 222
Period size: 40 Copynumber: 6.8 Consensus size: 39
31643906 AGGGGGATCG
*
31643916 AAGTACAAATAGGGGCATGTATGTGCAATCAAGGGTACC
1 AAGTACAAATAGGGGCACGTATGTGCAATCAAGGGTACC
* * * * *
31643955 GACGTACAAACAGGGGCACATATGTGCAAT-TAGGCATACC
1 -AAGTACAAATAGGGGCACGTATGTGCAATCAAGG-GTACC
* * *
31643995 ATAGTACAAATAAGGGTACGTATGTGCAATCAAGGGTATC
1 A-AGTACAAATAGGGGCACGTATGTGCAATCAAGGGTACC
* **
31644035 AACGTACAAACAGGGGCACGTATGTGCAATCAAGCATACC
1 AA-GTACAAATAGGGGCACGTATGTGCAATCAAGGGTACC
* * * * ** ** * *
31644075 ATAGTATAAATAAGGGTATGCCTGCACAA-CCAGAGGTACTG
1 A-AGTACAAATAGGGGCACGTATGTGCAATCAAG-GGTAC-C
* * *
31644116 AAGTACAAACAAGGGCACATATGTGCAATCAAGGGTACC
1 AAGTACAAATAGGGGCACGTATGTGCAATCAAGGGTACC
*
31644155 AAAGTAAAAATAGGGGCACGTATGTGCAATCA
1 -AAGTACAAATAGGGGCACGTATGTGCAATCA
31644187 TCAATAATTA
Statistics
Matches: 174, Mismatches: 48, Indels: 18
0.73 0.20 0.08
Matches are distributed among these distances:
39 8 0.05
40 158 0.91
41 8 0.05
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (39 bp):
AAGTACAAATAGGGGCACGTATGTGCAATCAAGGGTACC
Found at i:31644018 original size:80 final size:80
Alignment explanation
Indices: 31643917--31644186 Score: 294
Period size: 80 Copynumber: 3.4 Consensus size: 80
31643907 GGGGGATCGA
* *
31643917 AGTACAAATAGGGGCATGTATGTGCAATCAAGGGTACCGACGTACAAACAGGGGCACATATGTGC
1 AGTACAAATAAGGGCACGTATGTGCAATCAAGGGTACCGACGTACAAACAGGGGCACATATGTGC
*
31643982 AATTAGGCATACCAT
66 AATAAGGCATACCAT
* * * *
31643997 AGTACAAATAAGGGTACGTATGTGCAATCAAGGGTATCAACGTACAAACAGGGGCACGTATGTGC
1 AGTACAAATAAGGGCACGTATGTGCAATCAAGGGTACCGACGTACAAACAGGGGCACATATGTGC
31644062 AATCAA-GCATACCAT
66 AAT-AAGGCATACCAT
* * * ** ** * * * *
31644077 AGTATAAATAAGGGTATGCCTGCACAA-CCAGAGGTACTGAAGTACAAACAAGGGCACATATGTG
1 AGTACAAATAAGGGCACGTATGTGCAATCAAG-GGTACCGACGTACAAACAGGGGCACATATGTG
* *
31644141 CAATCAAGG-GTACCAA
65 CAAT-AAGGCATACCAT
* *
31644157 AGTAAAAATAGGGGCACGTATGTGCAATCA
1 AGTACAAATAAGGGCACGTATGTGCAATCA
31644187 TCAATAATTA
Statistics
Matches: 155, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
79 3 0.02
80 149 0.96
81 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (80 bp):
AGTACAAATAAGGGCACGTATGTGCAATCAAGGGTACCGACGTACAAACAGGGGCACATATGTGC
AATAAGGCATACCAT
Found at i:31644031 original size:20 final size:20
Alignment explanation
Indices: 31644006--31644068 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
31643996 TAGTACAAAT
31644006 AAGGGTACGTATGTGCAATC
1 AAGGGTACGTATGTGCAATC
* * * *
31644026 AAGGGTATC-AACGTACAAAC
1 AAGGGTA-CGTATGTGCAATC
* *
31644046 AGGGGCACGTATGTGCAATC
1 AAGGGTACGTATGTGCAATC
31644066 AAG
1 AAG
31644069 CATACCATAG
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (20 bp):
AAGGGTACGTATGTGCAATC
Found at i:31650287 original size:119 final size:120
Alignment explanation
Indices: 31650141--31650379 Score: 462
Period size: 119 Copynumber: 2.0 Consensus size: 120
31650131 CTAATACACA
31650141 TTTCTTCTTCATTTGGCACTATATTACGGGCACACTTGTTTAACTATACAAATTCTTGTTCATAC
1 TTTCTTCTTCATTTGGCACTATATTACGGGCACACTTGTTTAACTATACAAATTCTTGTTCATAC
31650206 TCAACTAGAAACTGATTCCCCTATTTTAATTCAAGAAATTCTTTCTTTTTCTTGT
66 TCAACTAGAAACTGATTCCCCTATTTTAATTCAAGAAATTCTTTCTTTTTCTTGT
31650261 TTTCTTCTTC-TTTGGCACTATATTACGGGCACACTTGTTTAACTATACAAATTCTTGTTCATAC
1 TTTCTTCTTCATTTGGCACTATATTACGGGCACACTTGTTTAACTATACAAATTCTTGTTCATAC
*
31650325 TCAACTAGAAACTGATTCCCCTATTTTAATTCCAGAAATTCTTTCTTTTTCTTGT
66 TCAACTAGAAACTGATTCCCCTATTTTAATTCAAGAAATTCTTTCTTTTTCTTGT
31650380 CAATAAACAA
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
119 108 0.92
120 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.44
Consensus pattern (120 bp):
TTTCTTCTTCATTTGGCACTATATTACGGGCACACTTGTTTAACTATACAAATTCTTGTTCATAC
TCAACTAGAAACTGATTCCCCTATTTTAATTCAAGAAATTCTTTCTTTTTCTTGT
Found at i:31652374 original size:40 final size:40
Alignment explanation
Indices: 31652234--31652374 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
31652224 AGGGTTACAG
* ** ** * **
31652234 AGTATAAACAAGGGCACGTAACTGCATTCAAAGGTACTGA
1 AGTACAAACAAGGGCACGTATGTGCAACCAAGGGTACCAA
* * *
31652274 AGTACAAAC-AGGAGCATGTATGTGCAATCAAGGGTACCGA
1 AGTACAAACAAGG-GCACGTATGTGCAACCAAGGGTACCAA
* * *
31652314 AGTACAAATAGGGGCACGTATGTGCAACCAGGGGTACCAA
1 AGTACAAACAAGGGCACGTATGTGCAACCAAGGGTACCAA
*
31652354 AGTACAAACAAGGGAACGTAT
1 AGTACAAACAAGGGCACGTAT
31652375 ATACAGTCAT
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 78 0.94
41 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.17
Consensus pattern (40 bp):
AGTACAAACAAGGGCACGTATGTGCAACCAAGGGTACCAA
Found at i:31654982 original size:28 final size:28
Alignment explanation
Indices: 31654934--31655023 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
31654924 CATTGTACTA
* *
31654934 TTACTGTTTTGGGCTAGGGCCCACACTG
1 TTACTGTATTGGGCTAAGGCCCACACTG
31654962 TTTA-TGTATTGGGCTAAGGCCCACACTG
1 -TTACTGTATTGGGCTAAGGCCCACACTG
* *
31654990 TTACTGTATCGGGCTAAGGCCCACATTG
1 TTACTGTATTGGGCTAAGGCCCACACTG
31655018 -TACTGT
1 TTACTGT
31655024 TACTGAATAG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 9 0.16
28 44 0.79
29 3 0.05
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTG
Found at i:31655023 original size:33 final size:32
Alignment explanation
Indices: 31654923--31655045 Score: 100
Period size: 28 Copynumber: 4.0 Consensus size: 32
31654913 TTGCATTACG
* * *
31654923 ACATTGTACTATTACTGTTTTGGGCTAGGGCCC
1 ACATTG-ACTGTTACTGTATTGGGCTAAGGCCC
*
31654956 ACACTG--T-TTA-TGTATTGGGCTAAGGCCC
1 ACATTGACTGTTACTGTATTGGGCTAAGGCCC
*
31654984 AC----ACTGTTACTGTATCGGGCTAAGGCCC
1 ACATTGACTGTTACTGTATTGGGCTAAGGCCC
* * *
31655012 ACATTGTACTGTTACTGAATAGGGCTCAGGCCC
1 ACATTG-ACTGTTACTGTATTGGGCTAAGGCCC
31655045 A
1 A
31655046 GGTTGTTACT
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
26 1 0.01
27 3 0.04
28 37 0.50
29 3 0.04
30 1 0.01
33 29 0.39
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (32 bp):
ACATTGACTGTTACTGTATTGGGCTAAGGCCC
Found at i:31658416 original size:40 final size:40
Alignment explanation
Indices: 31658276--31658416 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
31658266 AGGGTTACAG
* ** ** * **
31658276 AGTATAAACAAGGGCACGTAACTGCATTCAAAGGTACTGA
1 AGTACAAACAAGGGCACGTATGTGCAACCAAGGGTACCAA
* * *
31658316 AGTACAAAC-AGGAGCATGTATGTGCAATCAAGGGTACCGA
1 AGTACAAACAAGG-GCACGTATGTGCAACCAAGGGTACCAA
* * *
31658356 AGTACAAATAGGGGCACGTATGTGCAACCAGGGGTACCAA
1 AGTACAAACAAGGGCACGTATGTGCAACCAAGGGTACCAA
*
31658396 AGTACAAACAAGGGAACGTAT
1 AGTACAAACAAGGGCACGTAT
31658417 ATACAGTCAT
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 78 0.94
41 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.17
Consensus pattern (40 bp):
AGTACAAACAAGGGCACGTATGTGCAACCAAGGGTACCAA
Found at i:31661024 original size:28 final size:28
Alignment explanation
Indices: 31660976--31661065 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
31660966 CATTGTACTA
* *
31660976 TTACTGTTTTGGGCTAGGGCCCACACTG
1 TTACTGTATTGGGCTAAGGCCCACACTG
31661004 TTTA-TGTATTGGGCTAAGGCCCACACTG
1 -TTACTGTATTGGGCTAAGGCCCACACTG
* *
31661032 TTACTGTATCGGGCTAAGGCCCACATTG
1 TTACTGTATTGGGCTAAGGCCCACACTG
31661060 -TACTGT
1 TTACTGT
31661066 TACTGAATAG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 9 0.16
28 44 0.79
29 3 0.05
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTG
Found at i:31661065 original size:33 final size:32
Alignment explanation
Indices: 31660965--31661087 Score: 100
Period size: 28 Copynumber: 4.0 Consensus size: 32
31660955 TTGCATTACG
* * *
31660965 ACATTGTACTATTACTGTTTTGGGCTAGGGCCC
1 ACATTG-ACTGTTACTGTATTGGGCTAAGGCCC
*
31660998 ACACTG--T-TTA-TGTATTGGGCTAAGGCCC
1 ACATTGACTGTTACTGTATTGGGCTAAGGCCC
*
31661026 AC----ACTGTTACTGTATCGGGCTAAGGCCC
1 ACATTGACTGTTACTGTATTGGGCTAAGGCCC
* * *
31661054 ACATTGTACTGTTACTGAATAGGGCTCAGGCCC
1 ACATTG-ACTGTTACTGTATTGGGCTAAGGCCC
31661087 A
1 A
31661088 GGTTGTTACT
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
26 1 0.01
27 3 0.04
28 37 0.50
29 3 0.04
30 1 0.01
33 29 0.39
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (32 bp):
ACATTGACTGTTACTGTATTGGGCTAAGGCCC
Found at i:31663379 original size:53 final size:54
Alignment explanation
Indices: 31663241--31663382 Score: 187
Period size: 53 Copynumber: 2.6 Consensus size: 54
31663231 GAGAGGTCAA
* * *
31663241 AAAATAACCGAATTACCCCCGAAAGGGTAAAATGACCGAATTACCCTCGAAAGGT
1 AAAATGACTGAATTACCCCC-AAAGGGTAAAATGACCAAATTACCCTCGAAAGGT
* *
31663296 AAAATGACTGAATTACCCCCAAAGGTTAAAATGACCAAATTACCC-CGAAGGGT
1 AAAATGACTGAATTACCCCCAAAGGGTAAAATGACCAAATTACCCTCGAAAGGT
* ***
31663349 AAAATGACTGAATTACTCTTTAAGGGTAAAATGA
1 AAAATGACTGAATTACCCCCAAAGGGTAAAATGA
31663383 TTGTTATACC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 36 0.47
54 23 0.30
55 18 0.23
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (54 bp):
AAAATGACTGAATTACCCCCAAAGGGTAAAATGACCAAATTACCCTCGAAAGGT
Found at i:31663381 original size:27 final size:27
Alignment explanation
Indices: 31663241--31663382 Score: 160
Period size: 27 Copynumber: 5.3 Consensus size: 27
31663231 GAGAGGTCAA
*
31663241 AAAATAACCGAATTACCCCCGAAAGGGT
1 AAAATGACCGAATTACCCCCG-AAGGGT
* *
31663269 AAAATGACCGAATTACCCTCGAAAGGT
1 AAAATGACCGAATTACCCCCGAAGGGT
* * *
31663296 AAAATGACTGAATTACCCCCAAAGGTT
1 AAAATGACCGAATTACCCCCGAAGGGT
*
31663323 AAAATGACCAAATTA-CCCCGAAGGGT
1 AAAATGACCGAATTACCCCCGAAGGGT
* * ***
31663349 AAAATGACTGAATTACTCTTTAAGGGT
1 AAAATGACCGAATTACCCCCGAAGGGT
31663376 AAAATGA
1 AAAATGA
31663383 TTGTTATACC
Statistics
Matches: 95, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
26 22 0.23
27 54 0.57
28 19 0.20
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
AAAATGACCGAATTACCCCCGAAGGGT
Found at i:31663393 original size:80 final size:82
Alignment explanation
Indices: 31663241--31663408 Score: 200
Period size: 80 Copynumber: 2.1 Consensus size: 82
31663231 GAGAGGTCAA
* *
31663241 AAAATAACCGAATTACCCCCGAAAGGGTAAAATGACCGAATTACCCTCGAAAGGTAAAATGACTG
1 AAAATGACCAAATTACCCCCGAAAGGGTAAAATGACCGAATTACCCTCGAAAGGTAAAATGACTG
31663306 AATTACCCCCAAAG-GTT
66 AATTA-CCCCAAAGAGTT
* * ** * *
31663323 AAAATGACCAAATTA-CCCCG-AAGGGTAAAATGACTGAATTACTCTTTAAGGGTAAAATGATTG
1 AAAATGACCAAATTACCCCCGAAAGGGTAAAATGACCGAATTACCCTCGAAAGGTAAAATGACTG
*
31663386 -TTATACCCCAAAGAGTT
66 AAT-TACCCCAAAGAGTT
*
31663403 GAAATG
1 AAAATG
31663409 TATGTATGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 9 0.12
80 47 0.64
81 5 0.07
82 13 0.18
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (82 bp):
AAAATGACCAAATTACCCCCGAAAGGGTAAAATGACCGAATTACCCTCGAAAGGTAAAATGACTG
AATTACCCCAAAGAGTT
Found at i:31663587 original size:26 final size:27
Alignment explanation
Indices: 31663530--31663595 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
31663520 ATAGAGGAAG
*
31663530 TATACTG-TACTGGTGGCTTTGCCACA
1 TATACTGTTACTGGTAGCTTTGCCACA
**
31663556 TATACTGTTACTGGTAGCTTTGCTGCA
1 TATACTGTTACTGGTAGCTTTGCCACA
*
31663583 T-TACTATTACTGG
1 TATACTGTTACTGG
31663596 AAACTTTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 18 0.51
27 17 0.49
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (27 bp):
TATACTGTTACTGGTAGCTTTGCCACA
Found at i:31663757 original size:28 final size:29
Alignment explanation
Indices: 31663726--31663802 Score: 113
Period size: 28 Copynumber: 2.7 Consensus size: 29
31663716 TGTTACTATT
*
31663726 TTGGGCTAGGGCCCACACTGTTTA-TGTA
1 TTGGGCTAAGGCCCACACTGTTTACTGTA
*
31663754 TTGGGCTAAGGCCTACACTG-TTACTGTA
1 TTGGGCTAAGGCCCACACTGTTTACTGTA
*
31663782 TCGGGCTAAGGCCCACACTGT
1 TTGGGCTAAGGCCCACACTGT
31663803 ACTGTTACTG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 3 0.07
28 40 0.93
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (29 bp):
TTGGGCTAAGGCCCACACTGTTTACTGTA
Found at i:31663835 original size:33 final size:34
Alignment explanation
Indices: 31663770--31663840 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
31663760 TAAGGCCTAC
* *
31663770 ACTGTTACTGTATCGGGCTAAGGCCCACACTG-T
1 ACTGTTACTGAATAGGGCTAAGGCCCACACTGTT
* * *
31663803 ACTGTTACTGAATAGGGCTCAGGCCTAGACTGTT
1 ACTGTTACTGAATAGGGCTAAGGCCCACACTGTT
31663837 ACTG
1 ACTG
31663841 CATGTTGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (34 bp):
ACTGTTACTGAATAGGGCTAAGGCCCACACTGTT
Found at i:31675593 original size:29 final size:27
Alignment explanation
Indices: 31675544--31675627 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
31675534 TGACCATGCA
* *
31675544 CCACCATTTTAAAGATTTTACAATTTTG
1 CCACTATTTTTAA-ATTTTACAATTTTG
* *
31675572 CCACTGTATTTTTAAATTTTACAGTTCTG
1 CCAC--TATTTTTAAATTTTACAATTTTG
*
31675601 CCACTATTTTCTAGATTTTACAATTTT
1 CCACTATTTT-TAAATTTTACAATTTT
31675628 ACCATTGGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 6 0.13
28 17 0.37
29 16 0.35
30 7 0.15
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.48
Consensus pattern (27 bp):
CCACTATTTTTAAATTTTACAATTTTG
Found at i:31688614 original size:56 final size:50
Alignment explanation
Indices: 31688518--31688762 Score: 312
Period size: 50 Copynumber: 4.8 Consensus size: 50
31688508 ATTTGGGTAA
*
31688518 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-C-GAG---ATG
* *
31688574 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
31688624 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
31688674 AGAGGTCCCCTGTAAGACCATGTATGGGACATGGCA-TGAGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG-GCACCGAGATG
** * *
31688724 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG
31688763 NAAGTGAACG
Statistics
Matches: 171, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
49 2 0.01
50 123 0.72
51 2 0.01
53 3 0.02
54 1 0.01
55 1 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:31699650 original size:18 final size:18
Alignment explanation
Indices: 31699623--31699657 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31699613 GGGCAGTGTG
*
31699623 GGAGTGAATTTAGGGATA
1 GGAGTGAATTAAGGGATA
*
31699641 GGAGTTAATTAAGGGAT
1 GGAGTGAATTAAGGGAT
31699658 TTAAGGGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (18 bp):
GGAGTGAATTAAGGGATA
Found at i:31700974 original size:27 final size:27
Alignment explanation
Indices: 31700914--31700986 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
31700904 CCCAAACTGA
31700914 TATAAAATGACTGTTATGCCCCCCACGT
1 TATAAAATGACTGTTATG-CCCCCACGT
** * *
31700942 GGTAAAATGACTGTTATGCCCCTATGT
1 TATAAAATGACTGTTATGCCCCCACGT
*
31700969 TATAAAATGATTG-TATGC
1 TATAAAATGACTGTTATGC
31700987 TCTATGTATG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 5 0.13
27 17 0.45
28 16 0.42
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (27 bp):
TATAAAATGACTGTTATGCCCCCACGT
Found at i:31704332 original size:27 final size:27
Alignment explanation
Indices: 31704302--31704356 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
31704292 GAATAAAAAG
* *
31704302 AATATTTTATGCATTTCCAATGCATTA
1 AATATTTAATCCATTTCCAATGCATTA
31704329 AATATTTAATCCATTTCCAATGCATTA
1 AATATTTAATCCATTTCCAATGCATTA
31704356 A
1 A
31704357 TTTCATGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.42
Consensus pattern (27 bp):
AATATTTAATCCATTTCCAATGCATTA
Found at i:31704872 original size:6 final size:6
Alignment explanation
Indices: 31704842--31704866 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
31704832 AATTAAAAGT
31704842 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
31704867 ACAAAATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:31706164 original size:21 final size:21
Alignment explanation
Indices: 31706126--31706166 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31706116 GTAGGAATTA
*
31706126 ATTTAATTTTTTTGAATTAAT
1 ATTTAATTTTTGTGAATTAAT
31706147 ATTTAATTTATTGT-AATTAA
1 ATTTAATTT-TTGTGAATTAA
31706167 ATAAATGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTAATTTTTGTGAATTAAT
Found at i:31712220 original size:30 final size:29
Alignment explanation
Indices: 31712174--31712301 Score: 168
Period size: 30 Copynumber: 4.3 Consensus size: 29
31712164 TTTAATTTTT
* *
31712174 TTACATTTTGACCCCTAATCTTTTCTAAAA
1 TTACATTTTAACCCCTAAAC-TTTCTAAAA
*
31712204 TTACCTTTTAACCCCTAAACTTTCTCAAAA
1 TTACATTTTAACCCCTAAACTTTCT-AAAA
*
31712234 TTACATTTTAACCCTTAAACTTTTCT-AAA
1 TTACATTTTAACCCCTAAAC-TTTCTAAAA
31712263 TTACATTTTAACCCCTAAACTTTCTAAAAA
1 TTACATTTTAACCCCTAAACTTTCT-AAAA
*
31712293 TTATATTTT
1 TTACATTTT
31712302 GACCTTGACA
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
28 5 0.06
29 27 0.31
30 50 0.57
31 5 0.06
ACGTcount: A:0.34, C:0.23, G:0.01, T:0.43
Consensus pattern (29 bp):
TTACATTTTAACCCCTAAACTTTCTAAAA
Found at i:31712279 original size:59 final size:60
Alignment explanation
Indices: 31712174--31712301 Score: 195
Period size: 59 Copynumber: 2.1 Consensus size: 60
31712164 TTTAATTTTT
* * * *
31712174 TTACATTTTGACCCCTAATCTTTTCTAAAATTACCTTTTAACCCCTAAACTTTCTCAAAA
1 TTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTCTAAAAA
*
31712234 TTACATTTTAACCCTTAAACTTTTCT-AAATTACATTTTAACCCCTAAACTTTCTAAAAA
1 TTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTCTAAAAA
*
31712293 TTATATTTT
1 TTACATTTT
31712302 GACCTTGACA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
59 39 0.63
60 23 0.37
ACGTcount: A:0.34, C:0.23, G:0.01, T:0.43
Consensus pattern (60 bp):
TTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTCTAAAAA
Found at i:31712847 original size:4 final size:4
Alignment explanation
Indices: 31712838--31712909 Score: 70
Period size: 4 Copynumber: 19.5 Consensus size: 4
31712828 ATCAGGGAGG
31712838 AAGA AAGA AA-A GAAGA AAGA AA-A AAG- AAGA AA-A AGAGA AAGA AAG-
1 AAGA AAGA AAGA -AAGA AAGA AAGA AAGA AAGA AAGA A-AGA AAGA AAGA
31712883 AAGA AAG- AAG- AAG- AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
31712910 AAGGAAAAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
3 21 0.35
4 36 0.60
5 3 0.05
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:31712858 original size:7 final size:7
Alignment explanation
Indices: 31712837--31712922 Score: 87
Period size: 7 Copynumber: 13.0 Consensus size: 7
31712827 GATCAGGGAG
31712837 GAAGAAA
1 GAAGAAA
31712844 G-A-AAA
1 GAAGAAA
31712849 GAAGAAA
1 GAAGAAA
*
31712856 GAAAAAA
1 GAAGAAA
31712863 GAAGAAA
1 GAAGAAA
*
31712870 -AAGAGA
1 GAAGAAA
31712876 -AAGAAA
1 GAAGAAA
31712882 GAAGAAA
1 GAAGAAA
31712889 GAAG-AA
1 GAAGAAA
31712895 GAAGAAA
1 GAAGAAA
31712902 GAAAGAAA
1 G-AAGAAA
31712910 -AAGGAAA
1 GAA-GAAA
31712917 -AAGAAA
1 GAAGAAA
31712923 AATAAAAAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
5 4 0.06
6 24 0.35
7 35 0.51
8 6 0.09
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
GAAGAAA
Found at i:31712896 original size:17 final size:17
Alignment explanation
Indices: 31712837--31712922 Score: 81
Period size: 17 Copynumber: 5.0 Consensus size: 17
31712827 GATCAGGGAG
31712837 GAAGAAAGAAAAGAAGAAA
1 GAAGAAAG--AAGAAGAAA
*
31712856 GAAAAAAGAAGAA-AAA
1 GAAGAAAGAAGAAGAAA
31712872 G-AGAAAGAAAGAAGAAA
1 GAAGAAAG-AAGAAGAAA
31712889 GAAG-AAGAAGAAAGAAA
1 GAAGAAAGAAG-AAGAAA
*
31712906 GAA-AAAGGAAAAAGAAA
1 GAAGAAA-GAAGAAGAAA
31712923 AATAAAAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
15 5 0.09
16 12 0.21
17 29 0.50
18 5 0.09
19 7 0.12
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
GAAGAAAGAAGAAGAAA
Found at i:31712924 original size:7 final size:7
Alignment explanation
Indices: 31712841--31712939 Score: 69
Period size: 7 Copynumber: 13.4 Consensus size: 7
31712831 AGGGAGGAAG
31712841 AAAGAAA
1 AAAGAAA
31712848 AGAAGAAA
1 A-AAGAAA
31712856 GAAA-AAA
1 -AAAGAAA
*
31712863 GAAGAAA
1 AAAGAAA
31712870 AAGAGAAA
1 AA-AGAAA
*
31712878 GAAAGAAG
1 -AAAGAAA
31712886 AAAGAAGA
1 AAAGAA-A
31712894 AGAAGAAA
1 A-AAGAAA
31712902 GAAAG-AA
1 -AAAGAAA
*
31712909 AAAGGAA
1 AAAGAAA
31712916 AAAGAAA
1 AAAGAAA
31712923 AATA-AAA
1 AA-AGAAA
*
31712930 AAATAAA
1 AAAGAAA
31712937 AAA
1 AAA
31712940 ATAAAATTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
6 7 0.09
7 37 0.49
8 23 0.30
9 9 0.12
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (7 bp):
AAAGAAA
Found at i:31712945 original size:7 final size:8
Alignment explanation
Indices: 31712920--31712945 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
31712910 AAGGAAAAAG
31712920 AAAAATAA
1 AAAAATAA
31712928 AAAAATAA
1 AAAAATAA
31712936 AAAAATAA
1 AAAAATAA
31712944 AA
1 AA
31712946 TTTTTTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:31713173 original size:21 final size:23
Alignment explanation
Indices: 31713147--31713191 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
31713137 CAGCAGGCCC
31713147 CAGGCCCA-CCAGCA-GCACCAG
1 CAGGCCCACCCAGCACGCACCAG
*
31713168 CAGGCCCACCCCGCACGCACCAG
1 CAGGCCCACCCAGCACGCACCAG
31713191 C
1 C
31713192 CCAACAGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.24, C:0.53, G:0.22, T:0.00
Consensus pattern (23 bp):
CAGGCCCACCCAGCACGCACCAG
Found at i:31713593 original size:18 final size:19
Alignment explanation
Indices: 31713567--31713616 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
31713557 AATCTCATGA
31713567 TTTCAAAAAAATTTC-TATC
1 TTTC-AAAAAATTTCGTATC
** *
31713586 TTTCAAAATTTTTCGTGTC
1 TTTCAAAAAATTTCGTATC
31713605 -TTCAAAAAATTT
1 TTTCAAAAAATTT
31713617 TTTTCGTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (19 bp):
TTTCAAAAAATTTCGTATC
Found at i:31713615 original size:20 final size:19
Alignment explanation
Indices: 31713590--31713653 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
31713580 TCTATCTTTC
31713590 AAAATTTTTCGTGTCTTCAA
1 AAAATTTTTCGTGT-TTCAA
31713610 AAAATTTTTTTCGTGTTTCAA
1 AAAA--TTTTTCGTGTTTCAA
* *
31713631 AAAATTATTCATGTTTTCAA
1 AAAATTTTTCGTG-TTTCAA
31713651 AAA
1 AAA
31713654 TAAGGCAGCG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 7 0.18
20 13 0.33
21 9 0.23
22 10 0.26
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (19 bp):
AAAATTTTTCGTGTTTCAA
Found at i:31713629 original size:21 final size:22
Alignment explanation
Indices: 31713594--31713636 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
31713584 TCTTTCAAAA
31713594 TTTTTCGTGTCTTCAAAAAATT
1 TTTTTCGTGTCTTCAAAAAATT
31713616 TTTTTCGTGT-TTCAAAAAATT
1 TTTTTCGTGTCTTCAAAAAATT
31713637 ATTCATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (22 bp):
TTTTTCGTGTCTTCAAAAAATT
Found at i:31713653 original size:21 final size:21
Alignment explanation
Indices: 31713590--31713653 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
31713580 TCTATCTTTC
*
31713590 AAAATTTTTCGTGTCTTCAAA
1 AAAATTTTTCGTGTTTTCAAA
*
31713611 AAATTTTTTTCGTG-TTTC-AA
1 AAA-ATTTTTCGTGTTTTCAAA
* *
31713631 AAAATTATTCATGTTTTCAAA
1 AAAATTTTTCGTGTTTTCAAA
31713652 AA
1 AA
31713654 TAAGGCAGCG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 7 0.20
20 9 0.26
21 10 0.29
22 9 0.26
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (21 bp):
AAAATTTTTCGTGTTTTCAAA
Found at i:31713792 original size:18 final size:18
Alignment explanation
Indices: 31713771--31714049 Score: 149
Period size: 17 Copynumber: 15.9 Consensus size: 18
31713761 TTTGTGTAAA
31713771 AAAAATTTCTCGTGTTTC
1 AAAAATTTCTCGTGTTTC
*
31713789 AAAAATTT-TCGTGTTTT
1 AAAAATTTCTCGTGTTTC
*
31713806 AAAAAATTCTCGTGTTTTC
1 AAAAATTTCTCGTG-TTTC
*
31713825 AAAAATTTC-AGTGTTTC
1 AAAAATTTCTCGTGTTTC
*
31713842 AAAAA-TTCCCGTGTTT-
1 AAAAATTTCTCGTGTTTC
*
31713858 AAAAATTTAT-GTGTTTTC
1 AAAAATTTCTCGTG-TTTC
*
31713876 AAAAATTT-TCGTATTTTC
1 AAAAATTTCTCGT-GTTTC
**** * *
31713894 AAAAAAAAATTGTGTTTT
1 AAAAATTTCTCGTGTTTC
* * *
31713912 AAAAA-TCCACGTGTTTTT
1 AAAAATTTCTCGTG-TTTC
*
31713930 AAAAATTT-TGGTGTTTC
1 AAAAATTTCTCGTGTTTC
* *
31713947 AAAAATCT-TCGTGTTTTT
1 AAAAATTTCTCGTG-TTTC
*
31713965 AAAAA-TTC-CGGTGATTC
1 AAAAATTTCTC-GTGTTTC
*
31713982 --AAATTTTTCGTGTTTTC
1 AAAAATTTCTCGTG-TTTC
* *
31713999 TAAAAATTT-TTGTGCTTC
1 -AAAAATTTCTCGTGTTTC
* *
31714017 AAAAAATT-TCGTTTTTC
1 AAAAATTTCTCGTGTTTC
*
31714034 ACAAATTTC-CGTGTTT
1 AAAAATTTCTCGTGTTT
31714050 TCAATGACTC
Statistics
Matches: 199, Mismatches: 41, Indels: 43
0.70 0.14 0.15
Matches are distributed among these distances:
15 3 0.02
16 16 0.08
17 86 0.43
18 69 0.35
19 19 0.10
20 6 0.03
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (18 bp):
AAAAATTTCTCGTGTTTC
Found at i:31713800 original size:17 final size:17
Alignment explanation
Indices: 31713771--31714049 Score: 174
Period size: 18 Copynumber: 15.9 Consensus size: 17
31713761 TTTGTGTAAA
31713771 AAAAATTTCTCGTGTTTC
1 AAAAATTT-TCGTGTTTC
*
31713789 AAAAATTTTCGTGTTTTA
1 AAAAATTTTCGTG-TTTC
*
31713807 AAAAATTCTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
31713825 AAAAA-TTTCAGTGTTTC
1 AAAAATTTTC-GTGTTTC
**
31713842 AAAAATTCCCGTGTTT-
1 AAAAATTTTCGTGTTTC
31713858 AAAAATTTAT-GTGTTTTC
1 AAAAATTT-TCGTG-TTTC
*
31713876 AAAAATTTTCGTATTTTC
1 AAAAATTTTCGT-GTTTC
** *
31713894 AAAAAAAAATT-GTGTTTT
1 --AAAAATTTTCGTGTTTC
*** *
31713912 AAAAATCCACGTGTTTTT
1 AAAAATTTTCGTG-TTTC
*
31713930 AAAAATTTTGGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
31713947 AAAAATCTTCGTGTTTTT
1 AAAAATTTTCGTG-TTTC
* *
31713965 AAAAA-TTCCGGTGATTC
1 AAAAATTTTC-GTGTTTC
*
31713982 -AAATTTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* *
31713999 TAAAAATTTTTGTGCTTC
1 -AAAAATTTTCGTGTTTC
* *
31714017 AAAAAATTTCGTTTTTC
1 AAAAATTTTCGTGTTTC
* *
31714034 ACAAATTTCCGTGTTT
1 AAAAATTTTCGTGTTT
31714050 TCAATGACTC
Statistics
Matches: 200, Mismatches: 43, Indels: 37
0.71 0.15 0.13
Matches are distributed among these distances:
16 21 0.10
17 79 0.40
18 81 0.41
19 12 0.06
20 7 0.04
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:31713817 original size:35 final size:36
Alignment explanation
Indices: 31713770--31714050 Score: 178
Period size: 35 Copynumber: 8.0 Consensus size: 36
31713760 GTTTGTGTAA
31713770 AAAAAATTTCTCGTG-TTTCAAAAATTTTCGTGTTTT
1 AAAAAA-TTCTCGTGTTTTCAAAAATTTTCGTGTTTT
31713806 AAAAAATTCTCGTGTTTTCAAAAA-TTTCAGTG-TTT
1 AAAAAATTCTCGTGTTTTCAAAAATTTTC-GTGTTTT
* *
31713841 CAAAAATTCCCGTG-TTT-AAAAATTTAT-GTGTTTT
1 AAAAAATTCTCGTGTTTTCAAAAATTT-TCGTGTTTT
* * * **
31713875 CAAAAATTTTCGTATTTTCAAAAAAAAATT-GTGTTTT
1 AAAAAATTCTCGTGTTTTC--AAAAATTTTCGTGTTTT
* * * *
31713912 -AAAAATCCACGTGTTTTTAAAAATTTTGGTG-TTT
1 AAAAAATTCTCGTGTTTTCAAAAATTTTCGTGTTTT
* * * *
31713946 CAAAAA-TCTTCGTGTTTTTAAAAA-TTCCG-GTGATT
1 AAAAAATTC-TCGTGTTTTCAAAAATTTTCGTGT-TTT
* * * * * *
31713981 -CAAATTTTTCGTGTTTTCTAAAAATTTTTGTGCTTC
1 AAAAAATTCTCGTGTTTTC-AAAAATTTTCGTGTTTT
* *
31714017 AAAAAATT-TCGT-TTTTCACAAATTTCCGTGTTTT
1 AAAAAATTCTCGTGTTTTCAAAAATTTTCGTGTTTT
31714051 CAATGACTCT
Statistics
Matches: 191, Mismatches: 35, Indels: 40
0.72 0.13 0.15
Matches are distributed among these distances:
33 9 0.05
34 57 0.30
35 66 0.35
36 39 0.20
37 14 0.07
38 6 0.03
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (36 bp):
AAAAAATTCTCGTGTTTTCAAAAATTTTCGTGTTTT
Found at i:31714039 original size:16 final size:18
Alignment explanation
Indices: 31714020--31714052 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
31714010 GTGCTTCAAA
31714020 AAATTT-CGT-TTTTCAC
1 AAATTTCCGTGTTTTCAC
31714036 AAATTTCCGTGTTTTCA
1 AAATTTCCGTGTTTTCA
31714053 ATGACTCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (18 bp):
AAATTTCCGTGTTTTCAC
Found at i:31714128 original size:17 final size:17
Alignment explanation
Indices: 31714108--31714176 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 17
31714098 TTGTTTTTTG
31714108 AAAAATTCTCGTGTTTC
1 AAAAATTCTCGTGTTTC
*
31714125 AAAAATTCTCGTGTTTTTAAA
1 AAAAATTCTCGTG--TTT--C
31714146 AAAAATT-TCGTGTTTC
1 AAAAATTCTCGTGTTTC
* *
31714162 TAAAATTTTCGTGTT
1 AAAAATTCTCGTGTT
31714177 CGAAGATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
16 6 0.14
17 20 0.45
18 3 0.07
19 3 0.07
20 5 0.11
21 7 0.16
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTC
Found at i:31714147 original size:35 final size:34
Alignment explanation
Indices: 31714102--31714176 Score: 87
Period size: 37 Copynumber: 2.1 Consensus size: 34
31714092 AAAAAATTGT
31714102 TTTTTGAAAAATTCTCGTGTTTCAAAAATTCTCGTG
1 TTTTT-AAAAATT-TCGTGTTTCAAAAATTCTCGTG
* *
31714138 TTTTTAAAAAAAATTTCGTGTTTCTAAAATTTTCGTG
1 TTTTT---AAAAATTTCGTGTTTCAAAAATTCTCGTG
31714175 TT
1 TT
31714177 CGAAGATTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 5 0.15
37 22 0.65
38 7 0.21
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (34 bp):
TTTTTAAAAATTTCGTGTTTCAAAAATTCTCGTG
Found at i:31714165 original size:20 final size:21
Alignment explanation
Indices: 31714108--31714166 Score: 74
Period size: 17 Copynumber: 3.0 Consensus size: 21
31714098 TTGTTTTTTG
31714108 AAAAATTCTCGTGTTTC----
1 AAAAATTCTCGTGTTTCTAAA
*
31714125 AAAAATTCTCGTGTTTTTAAA
1 AAAAATTCTCGTGTTTCTAAA
31714146 AAAAATT-TCGTGTTTCTAAA
1 AAAAATTCTCGTGTTTCTAAA
31714166 A
1 A
31714167 TTTTCGTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 16 0.44
20 13 0.36
21 7 0.19
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
AAAAATTCTCGTGTTTCTAAA
Found at i:31714221 original size:54 final size:53
Alignment explanation
Indices: 31714085--31714230 Score: 142
Period size: 54 Copynumber: 2.7 Consensus size: 53
31714075 TGTCATGTTT
*
31714085 TTTTTAAAAAAAA-TT-GT-TTTTTGAAAAATTCTCGTGTTTCAAAAATTCTCGTG
1 TTTTTAAAAAAAATTTCGTGTTTCT--AAAATTCTCGTG-TTCAAAAATTCTCGTG
* * *
31714138 TTTTTAAAAAAAATTTCGTGTTTCTAAAATTTTCGTGTTCGAAGATT-TCGT-
1 TTTTTAAAAAAAATTTCGTGTTTCTAAAATTCTCGTGTTCAAAAATTCTCGTG
*
31714189 TTTTTAAAAAATATATATATTGTGTTTC-AAAATTCTCGTGTT
1 TTTTTAAAAAA-A-AT-T-TCGTGTTTCTAAAATTCTCGTGTT
31714231 TTCAAAACAA
Statistics
Matches: 80, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
51 11 0.14
52 5 0.06
53 23 0.29
54 27 0.34
55 10 0.12
56 4 0.05
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (53 bp):
TTTTTAAAAAAAATTTCGTGTTTCTAAAATTCTCGTGTTCAAAAATTCTCGTG
Found at i:31721043 original size:158 final size:152
Alignment explanation
Indices: 31720591--31721088 Score: 530
Period size: 158 Copynumber: 3.3 Consensus size: 152
31720581 NNNNNNNNNN
* * * **
31720591 ATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGCCACGCTGAGGTATTTTTAATTTCGGTC
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCAAGGTATTTTTAATTTC--TC
* * * ** * * *
31720656 T-TTTTT-TAAAATCAACTCATAAT-ATAGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-TT
64 TGTTTTTCAAAAATAAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT
* ****
31720717 TTT--AATTTATGTCTTTTTTTTAA
129 TTTCAAATTTCTGT-TTTTCAAAAA
* * ** *
31720740 ATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTTTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCAAGGTATTTTTAATTTC-TCT
* * *
31720804 TTTTTTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTT
65 GTTTTTCAAAAATAAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTT
*
31720869 TTTAAATTTCTGTTTTTCATAAAAAAAA
130 TTCAAATTTCTGTTTTTC-----AAAAA
* *
31720897 ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTGGGTCACGCCAAGGTATTTTTCAA-TTC-CT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCAAGGTATTTTT-AATTTCTCT
* *
31720960 GTTTTTCAAAAATCAACTCATACTGCGAGGGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATT
65 GTTTTTCAAAAATAAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATT
31721025 CTTTTCAAA-TTCTGTTTTTCAAAAA
128 -TTTTCAAATTTCTGTTTTTCAAAAA
31721050 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
31721089 GAACGCCGAG
Statistics
Matches: 303, Mismatches: 30, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
147 2 0.01
148 49 0.16
149 29 0.10
150 32 0.11
151 5 0.02
152 4 0.01
153 50 0.17
156 46 0.15
157 15 0.05
158 62 0.20
159 9 0.03
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (152 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCAAGGTATTTTTAATTTCTCTG
TTTTTCAAAAATAAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTTT
TCAAATTTCTGTTTTTCAAAAA
Found at i:31721105 original size:79 final size:73
Alignment explanation
Indices: 31720591--31721088 Score: 496
Period size: 74 Copynumber: 6.5 Consensus size: 73
31720581 NNNNNNNNNN
* * * *
31720591 ATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGCCACGCTGAGGTATTTTTAATTTCGGTC
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAAATTC--TG
**
31720656 TTTTTTTAAA
64 TTTTTCAAAA
** * * *
31720666 ATCAACTCATAAT-ATAGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTC
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAAATTCTG--
***
31720730 TTTTTTTTAA
64 TTTTTCAAAA
* *
31720740 ATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTTTT
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAAATTC---T
*
31720804 TTTTTTCAAAA
63 GTTTTTCAAAA
* * *
31720815 ATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTTAAATTTCT
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTTAAA-TTCT
31720880 GTTTTTCATAAAAAAAA
63 GTTTTTC------AAAA
* * * ** *
31720897 ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTGGGTCACGCCAAGGTATTTTTCAATTCCTGT
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAAATT-CTGT
31720962 TTTTCAAAA
65 TTTTCAAAA
* * * *
31720971 ATCAACTCATACTGCGAGGGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTCTTTTCAAATT
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTA-T-TTTT-AAATT
31721036 CTGTTTTTCAAAAA
61 CTGTTTTTC-AAAA
*
31721050 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
31721089 GAACGCCGAG
Statistics
Matches: 364, Mismatches: 36, Indels: 44
0.82 0.08 0.10
Matches are distributed among these distances:
72 1 0.00
74 145 0.40
75 32 0.09
76 50 0.14
77 3 0.01
78 20 0.05
79 49 0.13
80 16 0.04
82 48 0.13
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (73 bp):
ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAAATTCTGTT
TTTCAAAA
Done.