Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 320 of 328
Found at i:94848740 original size:14 final size:14
Alignment explanation
Indices: 94848704--94848748 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
94848694 TGCTACTATT
* *
94848704 TTACTATTATATTG
1 TTACTATTTTGTTG
*
94848718 CTACTATTTTGTTG
1 TTACTATTTTGTTG
94848732 TTACTATTTTGTTG
1 TTACTATTTTGTTG
94848746 TTA
1 TTA
94848749 TTGTTTGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (14 bp):
TTACTATTTTGTTG
Found at i:94848824 original size:30 final size:30
Alignment explanation
Indices: 94848784--94848842 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
94848774 TTTTATTGTT
*
94848784 ATTTTTTTATTATTTTA-AAGACATTTGCTA
1 ATTTTGTTATTATTTTAGAA-ACATTTGCTA
94848814 ATTTTGTTATTATTTTAGAAACATTTGCT
1 ATTTTGTTATTATTTTAGAAACATTTGCT
94848843 TGTTAAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.56
Consensus pattern (30 bp):
ATTTTGTTATTATTTTAGAAACATTTGCTA
Found at i:94848963 original size:19 final size:18
Alignment explanation
Indices: 94848923--94848962 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
94848913 GAAATATTTA
*
94848923 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
94848941 TTTTGATGGTTTATA-TAT
1 TTTTGAT-GTTTATAGTAT
94848959 TTTT
1 TTTT
94848963 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:94848994 original size:12 final size:12
Alignment explanation
Indices: 94848964--94848996 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
94848954 TATATTTTTT
94848964 AAAATT-ATATA
1 AAAATTAATATA
94848975 AAAA-TAATATA
1 AAAATTAATATA
94848986 AAAATTAATAT
1 AAAATTAATAT
94848997 GGGCAGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:94850134 original size:14 final size:14
Alignment explanation
Indices: 94850089--94850134 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
94850079 TAAAATTTTA
*
94850089 AAAATATAAAAACT
1 AAAATATATAAACT
* *
94850103 AAAATTAAATAAATT
1 AAAA-TATATAAACT
94850118 AAAATATATAAACT
1 AAAATATATAAACT
94850132 AAA
1 AAA
94850135 CCCATAACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATATATAAACT
Found at i:94853286 original size:9 final size:10
Alignment explanation
Indices: 94853263--94853308 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
94853253 CTTCTACTTC
*
94853263 TTTTTTTGAA
1 TTTTTATGAA
94853273 TTTTTATGAA
1 TTTTTATGAA
94853283 TTTTTTAT-ATA
1 -TTTTTATGA-A
94853294 TTTTT-TGAA
1 TTTTTATGAA
94853303 TTTTTA
1 TTTTTA
94853309 AAAGTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
9 7 0.23
10 16 0.52
11 8 0.26
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (10 bp):
TTTTTATGAA
Found at i:94853316 original size:29 final size:30
Alignment explanation
Indices: 94853264--94853330 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
94853254 TTCTACTTCT
* * *
94853264 TTTTTTGAATTTTTATGAATTTTTTATATA
1 TTTTTTGAATTTTTATAAAGTTTTAATATA
*
94853294 TTTTTTGAATTTTTA-AAAGTTTTAATTTA
1 TTTTTTGAATTTTTATAAAGTTTTAATATA
*
94853323 TTTGTTGA
1 TTTTTTGA
94853331 TGACGCATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (30 bp):
TTTTTTGAATTTTTATAAAGTTTTAATATA
Found at i:94856623 original size:24 final size:22
Alignment explanation
Indices: 94856577--94856649 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 22
94856567 TATAAATTGT
*
94856577 AATATATATTAGTATTAGAATATTA
1 AATA-ATATTA-T-TTAAAATATTA
* *
94856602 ACATAATATTTTTTAATAATATATT
1 A-ATAATATTATTTAA-AATAT-TA
94856627 AATAATATTATTTAAAATTATTA
1 AATAATATTATTTAAAA-TATTA
94856650 TAGTTAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
23 6 0.15
24 22 0.56
25 8 0.21
26 3 0.08
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (22 bp):
AATAATATTATTTAAAATATTA
Found at i:94856813 original size:21 final size:22
Alignment explanation
Indices: 94856781--94856823 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
94856771 ATATTTAATA
94856781 ATATTAAATATTATAATATTTG
1 ATATTAAATATTATAATATTTG
*
94856803 ATATT-AATATTTTAATATTTG
1 ATATTAAATATTATAATATTTG
94856824 TAGAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
ATATTAAATATTATAATATTTG
Found at i:94858537 original size:36 final size:34
Alignment explanation
Indices: 94858451--94858538 Score: 95
Period size: 36 Copynumber: 2.5 Consensus size: 34
94858441 TTTTTTAATT
*
94858451 TTTTTAAAATTTTAAATTAAAAAAATAAAATTAC
1 TTTTTAAAATTTAAAATTAAAAAAATAAAATTAC
* * * *
94858485 TTTTTAAACTCCTTAAAATTATAAAAATTTAATTTAAC
1 TTTTTAAAAT--TTAAAATTA-AAAAAATAAAATT-AC
94858523 TTTTTAAAATTTAAAA
1 TTTTTAAAATTTAAAA
94858539 AAATATAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
34 9 0.20
36 14 0.32
37 10 0.23
38 11 0.25
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (34 bp):
TTTTTAAAATTTAAAATTAAAAAAATAAAATTAC
Found at i:94863050 original size:20 final size:20
Alignment explanation
Indices: 94863013--94863049 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
94863003 ATTAATTAAA
94863013 ATTTTAAAATTAATTTTTAT
1 ATTTTAAAATTAATTTTTAT
*
94863033 ATTTTTAAA-TAATTTTT
1 ATTTTAAAATTAATTTTT
94863050 TGAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTAAAATTAATTTTTAT
Found at i:94863057 original size:19 final size:21
Alignment explanation
Indices: 94863012--94863057 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
94863002 AATTAATTAA
94863012 AATTTTAAAATTAATTTTTAT
1 AATTTTAAAATTAATTTTTAT
*
94863033 -ATTTTTAAA-TAATTTTT-T
1 AATTTTAAAATTAATTTTTAT
94863051 GAATTTT
1 -AATTTT
94863058 TTAGTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 1 0.05
19 8 0.36
20 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
AATTTTAAAATTAATTTTTAT
Found at i:94863211 original size:17 final size:16
Alignment explanation
Indices: 94863189--94863230 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
94863179 ACAAAAATTT
94863189 AAAAATTAAAAGAAACA
1 AAAAATTAAAA-AAACA
*
94863206 AAAAATTAAAAAATCA
1 AAAAATTAAAAAAACA
94863222 AATAAATTA
1 AA-AAATTA
94863231 TTATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAAATTAAAAAAACA
Found at i:94864649 original size:16 final size:16
Alignment explanation
Indices: 94864624--94864655 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
94864614 TTAGTTTATA
*
94864624 ATTAATCATAATTAAC
1 ATTAAGCATAATTAAC
94864640 ATTAAGCATAATTAAC
1 ATTAAGCATAATTAAC
94864656 CAATTTGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTAAGCATAATTAAC
Found at i:94867434 original size:181 final size:181
Alignment explanation
Indices: 94867129--94867497 Score: 594
Period size: 181 Copynumber: 2.0 Consensus size: 181
94867119 TATTTTATGT
* * * * *
94867129 AAATTTGACGGTGGGTGCTCCGACAACAAATGTAGAATTCTATAGCTCGGACCCAGTGGCCGGGT
1 AAATTTGACGGTGGGTGCTCCGACAACAAATATAGAATCCTATAGCTCAGACCCAGTGACCAGGT
* * *
94867194 TGGGCGAGGAGTGCTATAGAATCCCAAATGATTTAAGAATTATTTAAGCTAGGCAACCTCTTGCA
66 TGGGCGAGGAGTGCTACAGAATCCCAAATGATTCAAGAATTATTTAAGCTAGACAACCTCTTGCA
*
94867259 CTGCAATAAAAATTCTCACAAACTCAACTTCCATTGTGGACAATACAATAC
131 CTGCAAGAAAAATTCTCACAAACTCAACTTCCATTGTGGACAATACAATAC
* * *
94867310 AAATTTGACGGTGGGTGCTCCGACAACGAATATAGCATCCTGTAGCTCAGACCCAGTGACCAGGT
1 AAATTTGACGGTGGGTGCTCCGACAACAAATATAGAATCCTATAGCTCAGACCCAGTGACCAGGT
*
94867375 TGGGTGAGGAGTGCTACAGAATCCCAAATGATTCAAGAATTATTTAAGCTAGACAACCTCTTGCA
66 TGGGCGAGGAGTGCTACAGAATCCCAAATGATTCAAGAATTATTTAAGCTAGACAACCTCTTGCA
* *
94867440 CTGCAAGAAAAGTTCTCACAAACTCAACTTCCATTGTGGACAATGCAATAC
131 CTGCAAGAAAAATTCTCACAAACTCAACTTCCATTGTGGACAATACAATAC
*
94867491 AAGTTTG
1 AAATTTG
94867498 TTTCATACTG
Statistics
Matches: 172, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
181 172 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (181 bp):
AAATTTGACGGTGGGTGCTCCGACAACAAATATAGAATCCTATAGCTCAGACCCAGTGACCAGGT
TGGGCGAGGAGTGCTACAGAATCCCAAATGATTCAAGAATTATTTAAGCTAGACAACCTCTTGCA
CTGCAAGAAAAATTCTCACAAACTCAACTTCCATTGTGGACAATACAATAC
Found at i:94868238 original size:21 final size:21
Alignment explanation
Indices: 94868180--94868238 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
94868170 ATGTAATATT
94868180 TTAATAAATAAA-AAA-TTAAA
1 TTAATAAA-AAATAAATTTAAA
*
94868200 TTAATAAAAATTAAATTTAAA
1 TTAATAAAAAATAAATTTAAA
*
94868221 -TAATATAAAAATATATTT
1 TTAATA-AAAAATAAATTT
94868239 CAAAATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 2 0.06
20 16 0.48
21 15 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAATAAAAAATAAATTTAAA
Found at i:94870857 original size:22 final size:23
Alignment explanation
Indices: 94870806--94870858 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
94870796 AATTTACTAT
* *
94870806 TATCATTATTTATTTTTATATTA
1 TATCATAATTTATTATTATATTA
*
94870829 TAT-ATAATTTATTATTATGTTA
1 TATCATAATTTATTATTATATTA
94870851 T-TCATAAT
1 TATCATAAT
94870859 ATTTATACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 22 0.85
23 3 0.12
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
TATCATAATTTATTATTATATTA
Found at i:94870870 original size:24 final size:26
Alignment explanation
Indices: 94870824--94870897 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 26
94870814 TTTATTTTTA
* *
94870824 TATTATATATAATTTATTA-TTATGT
1 TATTATAAATTATTTATTACTTATGT
94870849 TATTCAT-AA-TATTTA-TACTTATG-
1 TATT-ATAAATTATTTATTACTTATGT
94870872 TATTATAAATTATTTATTAC-TATGT
1 TATTATAAATTATTTATTACTTATGT
94870897 T
1 T
94870898 TACCTCTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
22 2 0.05
23 8 0.20
24 20 0.49
25 9 0.22
26 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (26 bp):
TATTATAAATTATTTATTACTTATGT
Found at i:94872139 original size:20 final size:20
Alignment explanation
Indices: 94872114--94872153 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
94872104 TTTCAAAATA
94872114 AAAATAATTTTAAAAATTTT
1 AAAATAATTTTAAAAATTTT
* *
94872134 AAAATATTTTTTAAAATTTT
1 AAAATAATTTTAAAAATTTT
94872154 CTTTTCTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAAATAATTTTAAAAATTTT
Found at i:94875726 original size:19 final size:18
Alignment explanation
Indices: 94875699--94875751 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
94875689 TCTAATATAA
94875699 AAAAT-TAATTAATTATTT
1 AAAATATAATT-ATTATTT
94875717 AAAATATAATTATT-TTT
1 AAAATATAATTATTATTT
94875734 AGTAAATATAATTATTAT
1 A--AAATATAATTATTAT
94875752 ATGTGAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.13
18 8 0.26
19 18 0.58
20 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AAAATATAATTATTATTT
Found at i:94877929 original size:85 final size:86
Alignment explanation
Indices: 94877785--94877955 Score: 256
Period size: 85 Copynumber: 2.0 Consensus size: 86
94877775 CAAACAAGTG
* *
94877785 GTGGCTCGTCCACAAAATCCAGTGACAATTTGTTTAATCTGCAAATATGTTGTGCACTCATAACA
1 GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAATATGTTGTGCACTCACAACA
94877850 AGCGGCAATAACTGCAAATAT
66 AGCGGCAATAACTGCAAATAT
* * *
94877871 GTGGCTCGTCTAC-AAACCCAGTGGCAGTTTGTTTAATCTGC-AATCATGTTGTGCACTCACAAC
1 GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAAT-ATGTTGTGCACTCACAAC
* *
94877934 AAGTGGCAATAATTGCAAATAT
65 AAGCGGCAATAACTGCAAATAT
94877956 TTTTATCTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
84 3 0.04
85 62 0.81
86 12 0.16
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (86 bp):
GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAATATGTTGTGCACTCACAACA
AGCGGCAATAACTGCAAATAT
Found at i:94879842 original size:2 final size:2
Alignment explanation
Indices: 94879835--94879872 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
94879825 TTCAACATAA
94879835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94879873 TAGGAGCTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94879940 original size:29 final size:30
Alignment explanation
Indices: 94879871--94879950 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
94879861 ATATATATAT
*
94879871 ATTAGGAGCTCAATTGATTGTCAACTTTCA
1 ATTAGGAGCTTAATTGATTGTCAACTTTCA
* * *
94879901 ATTAATG-GCTTAATTTATTG-CAATTTTCA
1 ATT-AGGAGCTTAATTGATTGTCAACTTTCA
94879930 ATTAGGAGCTTAATTGATTGT
1 ATTAGGAGCTTAATTGATTGT
94879951 ATTCTTAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
28 2 0.05
29 23 0.56
30 14 0.34
31 2 0.05
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.42
Consensus pattern (30 bp):
ATTAGGAGCTTAATTGATTGTCAACTTTCA
Found at i:94889131 original size:2 final size:2
Alignment explanation
Indices: 94889124--94889154 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
94889114 TGTATCAATA
94889124 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94889155 CCATGATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94893757 original size:23 final size:23
Alignment explanation
Indices: 94893731--94893775 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
94893721 TTAGTATGTG
*
94893731 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
94893754 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
94893776 TTGAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:94895048 original size:39 final size:39
Alignment explanation
Indices: 94894947--94895048 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 39
94894937 TATGGTATTT
* * * *
94894947 AAAATATATATATATATATATATGTATATAATAGTATTTA
1 AAAATATATACATA-ATATATATATATATAATAGCATTAA
* * * *
94894987 AGAATATATACATAAGAAATATATA-ACTAATGGCATTAA
1 AAAATATATACATAATATATATATATA-TAATAGCATTAA
94895026 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
94895049 AAATACCTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
38 1 0.02
39 37 0.74
40 12 0.24
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (39 bp):
AAAATATATACATAATATATATATATATAATAGCATTAA
Found at i:94895281 original size:22 final size:22
Alignment explanation
Indices: 94895229--94895293 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
94895219 ATGTATATAT
*
94895229 AAAGAAAGAAAAAAAAACAAACA
1 AAAG-AAGAAAAAAAAAGAAACA
* ** *
94895252 AAAAAAGAAAAAAAAAGATTCG
1 AAAGAAGAAAAAAAAAGAAACA
**
94895274 AAAGAAGAGGAAAAAAGAAA
1 AAAGAAGAAAAAAAAAGAAA
94895294 AAGATGCAAC
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
22 29 0.91
23 3 0.09
ACGTcount: A:0.77, C:0.05, G:0.15, T:0.03
Consensus pattern (22 bp):
AAAGAAGAAAAAAAAAGAAACA
Found at i:94895602 original size:17 final size:17
Alignment explanation
Indices: 94895564--94895607 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
94895554 TTTTCTTCTT
*
94895564 TTTTTTTTTGGGGTTAG
1 TTTTTTTTTGGGGTAAG
*
94895581 GTTTTTTTTGGGGTAAG
1 TTTTTTTTTGGGGTAAG
94895598 TTTTTCTTTT
1 TTTTT-TTTT
94895608 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.07, C:0.02, G:0.25, T:0.66
Consensus pattern (17 bp):
TTTTTTTTTGGGGTAAG
Found at i:94895617 original size:16 final size:16
Alignment explanation
Indices: 94895598--94895632 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
94895588 TTGGGGTAAG
94895598 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
94895614 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
94895630 TTT
1 TTT
94895633 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:94896463 original size:166 final size:163
Alignment explanation
Indices: 94896271--94896673 Score: 531
Period size: 166 Copynumber: 2.4 Consensus size: 163
94896261 CAGACAACAG
94896271 AAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
** * * * *** *
94896336 TTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGGAGGTTCAACTCAC
66 TTGAAACAGAACTTGAAAAACAGA--TTGAAAATACCTCGACATGTAACCCAAGGCTCAACTCAC
*
94896401 CTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAA
129 ATCTCGCAATATGAGTTG-ATTTTTTTGAAAAAAAA
* *
94896437 AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTT
1 AAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
94896501 TTGAAAACAGAATTTGAAAAACAGATTGAAAATACCTCGACATGTAACCCAAGGCTCAACTCACA
66 TTG-AAACAGAACTTGAAAAACAGATTGAAAATACCTCGACATGTAACCCAAGGCTCAACTCACA
* * *
94896566 TCTCGCAATGTGAGTTGATTTTTTTGAAAAATAC
130 TCTCGCAATATGAGTTGATTTTTTTGAAAAAAAA
* * * * *
94896600 AAATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AAATTG--AAAATAGCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
94896664 TTTTTTGAAA
62 TTTTTTGAAA
94896674 GATAGAAATT
Statistics
Matches: 208, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
163 21 0.10
164 49 0.24
165 51 0.25
166 81 0.39
167 6 0.03
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (163 bp):
AAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTGAAACAGAACTTGAAAAACAGATTGAAAATACCTCGACATGTAACCCAAGGCTCAACTCACAT
CTCGCAATATGAGTTGATTTTTTTGAAAAAAAA
Found at i:94896722 original size:77 final size:74
Alignment explanation
Indices: 94896549--94896891 Score: 356
Period size: 72 Copynumber: 4.6 Consensus size: 74
94896539 GACATGTAAC
* * * *
94896549 CCAAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATACAAATTGAAAAAATA
1 CCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATA
*
94896614 CCTCAGTGTGTGAT
63 CCTCA--GCGTGAT
* * *
94896628 CTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAG
1 C-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATAC
*
94896692 CTCAGCGCATGAG
64 CTCAGCG--TGAT
* *
94896705 CCAAGGGTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCT
1 CCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
*
94896769 CAACGTG-T
66 CAGCGTGAT
** ** * * * *
94896777 CTTGAGGCTCAACTCATTTATCACAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACC
1 C-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACC
94896840 TCAGCGTG-T
65 TCAGCGTGAT
*
94896849 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 -CCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
94896892 TTTTTTTGAA
Statistics
Matches: 224, Mismatches: 31, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
72 63 0.28
73 29 0.13
74 4 0.02
75 23 0.10
76 12 0.05
77 42 0.19
78 3 0.01
79 46 0.21
80 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (74 bp):
CCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
CAGCGTGAT
Found at i:94897035 original size:172 final size:168
Alignment explanation
Indices: 94896747--94897225 Score: 693
Period size: 165 Copynumber: 2.9 Consensus size: 168
94896737 TGATTTTTTG
* * * ** * * *
94896747 AAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTATCACAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
94896810 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
94896874 ATATGAGTTGATTTTTTTTTTTTTTGAAATGCAGAAATTGA
131 ATATGAGTTGA---TTTTTTTTTTTGAAAGGCAAAAATTGA
*
94896915 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
94896980 TGACTTTTTTGACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
94897045 AATATGAGTTGA----TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
* * * *
94897080 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
94897145 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
94897210 AATATGAGTTGATTTT
130 AATATGAGTTGATTTT
94897226 GAAAAAGTAG
Statistics
Matches: 281, Mismatches: 22, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
165 156 0.56
168 27 0.10
169 1 0.00
170 29 0.10
172 68 0.24
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (168 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
Found at i:94897044 original size:74 final size:75
Alignment explanation
Indices: 94896921--94897065 Score: 222
Period size: 74 Copynumber: 1.9 Consensus size: 75
94896911 TTGAAAAATG
*
94896921 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
94896986 TTTTGACAATA
65 TTTTGACAATA
* * *
94896997 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
94897060 TTTTGA
65 TTTTGA
94897066 AAGGCAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
75 1 0.02
76 21 0.33
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAATA
Found at i:94897092 original size:408 final size:386
Alignment explanation
Indices: 94896269--94897231 Score: 984
Period size: 408 Copynumber: 2.4 Consensus size: 386
94896259 CTCAGACAAC
94896269 AGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * * *
94896334 TTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGGAGGTTCAACTC
66 TTTTG-AA---AAC------AG-A-A-ATTGAAAATACCTC-A-ACGTGTCTTGAGGCTCAACTC
* *
94896399 ACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAAAATTGAAAATAGCTCAGCACGTGAGC
116 ACCTCTCGCAATATGAGTTGAA---TTTTG-AAAAAAAAAATTGAAAATACCTCAG-ACGTGACC
* * *
94896464 CAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGAAAAACAGATTG
176 CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAAATTG
** *
94896529 AAAATACCTCGACATGTAACCCAAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAA
241 AAAATACCTCGACATGTAACCCAAGGCTCAACTCACATCTCGCAATACGAGTTGACTTTTTTGAA
* *
94896594 AAATACAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAG
306 AAATACAAATTG-AAAAATACCTCAGCGTGT-ACCTGAAGCTCAACTCACCTCTCGCAATATGAG
94896659 TTGATTTTTTTGAAAGAT
369 TTGATTTTTTTGAAAGAT
* * *
94896677 AGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATATAAGTTGATT
1 AGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
** * *
94896742 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTATCACAATATG
66 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* * * * *
94896807 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAG-CGTGTCCCGAGGCTCAACTCACCTCTC
131 AGTTGAATTTTGAAAAAAAAAATTGAAAATACCTCAGACGTGACCCAAGGCTCAACTCACCTCTC
* *
94896871 GCAATATGAGTTGATTTTTTTTTTTTTTGAAATGCAGAAATTGAAAAATGGAAATTGAAAATACC
196 GCAATATGAGTTGA---------TTTTTGAAA-ACAGAAATTGAAAAA--CAAATTGAAAATACC
* * * ** * * *
94896936 TCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTTG-ACAATAGAA
249 TCGACATGTAACCCAAGGCTCAACTCACATCTCGCAATACGAGTTGACTTTTTTGAAAAATACAA
* *
94897000 ATTG-AAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
314 ATTGAAAAATACCTCAGCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
94897063 TGAAAGGCAAAAATT
379 TGAAA-G-----A-T
* * * * * * *
94897078 GAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCACTCGCAATACG
1 -----A--GAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATG
* * * *
94897142 AGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
58 AGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
94897207 CGCAATATGAGTTG-ATTTTGAAAAA
122 CGCAATATGAGTTGAATTTTGAAAAA
94897232 GTAGAAATTA
Statistics
Matches: 469, Mismatches: 58, Indels: 56
0.80 0.10 0.10
Matches are distributed among these distances:
387 37 0.08
389 21 0.04
390 5 0.01
393 35 0.07
394 46 0.10
395 14 0.03
396 25 0.05
397 14 0.03
398 13 0.03
399 59 0.13
400 1 0.00
401 1 0.00
404 3 0.01
406 1 0.00
407 4 0.01
408 126 0.27
409 64 0.14
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (386 bp):
AGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGAATTTTGAAAAAAAAAATTGAAAATACCTCAGACGTGACCCAAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAAATTGAAAATACCTCGACATGTAAC
CCAAGGCTCAACTCACATCTCGCAATACGAGTTGACTTTTTTGAAAAATACAAATTGAAAAATAC
CTCAGCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGAT
Found at i:94897211 original size:74 final size:75
Alignment explanation
Indices: 94897086--94897225 Score: 219
Period size: 74 Copynumber: 1.9 Consensus size: 75
94897076 TTGAAAAACG
* *
94897086 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
94897151 TTTTGACAACA
65 TTTTGACAACA
* * *
94897162 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
94897226 GAAAAAGTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 37 0.63
76 22 0.37
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:94897414 original size:212 final size:216
Alignment explanation
Indices: 94897025--94897483 Score: 610
Period size: 212 Copynumber: 2.1 Consensus size: 216
94897015 GCGTGTCCTG
* * * *
94897025 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAAACGGAAA
1 AGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTTCTTGAAAGACAAAAATTGAAAAACAGAAA
* * ** **
94897090 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTTTT
65 TTGAAAATACCTCAGCG-GTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATAATTAA
* * * * * *
94897155 GACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
129 AACAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTT
* *
94897220 GATTTTGAAAAAGTAGAAATTAAA
194 GATTTTGAAAAA-CAAAAATTAAA
**
94897244 AGG-TTCAAC-CTACCTCTCGCAATATGAGTTGA-TTCTTGAACA-ACGTAAATTG-AAAACAGA
1 AGGCTT-AACTC-ACCTCTCGCAATATGAGTTGATTTCTTGAA-AGACAAAAATTGAAAAACAGA
* *
94897304 AATTGAAAATACCTCAGC-GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATTA
63 AATTGAAAATACCTCAGCGGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATAATTA
94897367 AAAC-ACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGT
128 AAACAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGT
94897431 TGATTTTGAAAAACAAAAATTAAA
193 TGATTTTGAAAAACAAAAATTAAA
94897455 AGGCTTAACTCACCTCTCGCAATATGAGT
1 AGGCTTAACTCACCTCTCGCAATATGAGT
94897484 CAATTTAAAA
Statistics
Matches: 213, Mismatches: 22, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
211 33 0.15
212 71 0.33
213 4 0.02
214 37 0.17
216 24 0.11
217 14 0.07
218 3 0.01
219 27 0.13
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (216 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTCTTGAAAGACAAAAATTGAAAAACAGAAAT
TGAAAATACCTCAGCGGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATAATTAAAA
CAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
TTTTGAAAAACAAAAATTAAA
Found at i:94897424 original size:72 final size:71
Alignment explanation
Indices: 94897290--94897455 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
94897280 TGAACAACGT
* * * *
94897290 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
94897355 GAGTTG
66 GAGTTG
*
94897361 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
94897426 TGAGTTG
65 TGAGTTG
**
94897433 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
94897456 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:94902675 original size:12 final size:12
Alignment explanation
Indices: 94902655--94902690 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
94902645 TGGGATATGC
*
94902655 AATGTATGAATG
1 AATGCATGAATG
94902667 AATGCATGAATG
1 AATGCATGAATG
94902679 AATGCATGAATG
1 AATGCATGAATG
94902691 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:94904760 original size:39 final size:39
Alignment explanation
Indices: 94904660--94904760 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 39
94904650 TATGGTATTT
* * * *
94904660 AAATATATATATATATATATATGTATATAATAGTATTTAA
1 AAATATATACATA-ATATATATATATATAATAGCATTAAA
* * * *
94904700 GAATATATACATAAGAAATATATA-ACTAATGGCATTAAA
1 AAATATATACATAATATATATATATA-TAATAGCATTAAA
94904739 AAATATATACATAATATATATA
1 AAATATATACATAATATATATA
94904761 AAATACCTAA
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
38 1 0.02
39 37 0.76
40 11 0.22
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (39 bp):
AAATATATACATAATATATATATATATAATAGCATTAAA
Found at i:94905269 original size:13 final size:13
Alignment explanation
Indices: 94905222--94905267 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
94905212 GGTGGCTAGG
94905222 TTTTTTTATCTTT
1 TTTTTTTATCTTT
* **
94905235 TTTTGTTAGGTTT
1 TTTTTTTATCTTT
*
94905248 TTTTTTTTTCTTT
1 TTTTTTTATCTTT
94905261 TTTTTTT
1 TTTTTTT
94905268 TTGGGGTTAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.04, C:0.04, G:0.07, T:0.85
Consensus pattern (13 bp):
TTTTTTTATCTTT
Found at i:94905281 original size:16 final size:16
Alignment explanation
Indices: 94905262--94905298 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
94905252 TTTTTCTTTT
*
94905262 TTTTTTTTGGGGTTAG
1 TTTTTTTTGGGGTAAG
94905278 TTTTTTTTGGGGTAAG
1 TTTTTTTTGGGGTAAG
94905294 TTTTT
1 TTTTT
94905299 CTTTTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.08, C:0.00, G:0.27, T:0.65
Consensus pattern (16 bp):
TTTTTTTTGGGGTAAG
Found at i:94905281 original size:17 final size:17
Alignment explanation
Indices: 94905261--94905303 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
94905251 TTTTTTCTTT
*
94905261 TTTTTTTTTGGGGTTAG
1 TTTTTTTTTGGGGTAAG
94905278 -TTTTTTTTGGGGTAAG
1 TTTTTTTTTGGGGTAAG
94905294 TTTTTCTTTT
1 TTTTT-TTTT
94905304 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 15 0.65
17 4 0.17
18 4 0.17
ACGTcount: A:0.07, C:0.02, G:0.23, T:0.67
Consensus pattern (17 bp):
TTTTTTTTTGGGGTAAG
Found at i:94907071 original size:27 final size:26
Alignment explanation
Indices: 94907035--94907088 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 26
94907025 GTTTCCTTTT
94907035 AAAATTTTCTTAATAAATAGATGTCA
1 AAAATTTTCTTAATAAATAGATGTCA
94907061 AAAAGTTTTCTTAATAAATAGATGTCA
1 AAAA-TTTTCTTAATAAATAGATGTCA
94907088 A
1 A
94907089 TGATTCAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (26 bp):
AAAATTTTCTTAATAAATAGATGTCA
Found at i:94911529 original size:12 final size:12
Alignment explanation
Indices: 94911508--94911554 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
94911498 GTGCTGGCCT
*
94911508 AAATCGCGCCCC
1 AAATCACGCCCC
94911520 AAATCACGCCCC
1 AAATCACGCCCC
*
94911532 -AATGCACGCCTC
1 AAAT-CACGCCCC
*
94911544 ATATCACGCCC
1 AAATCACGCCC
94911555 TATGTGCGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 3 0.10
12 24 0.83
13 2 0.07
ACGTcount: A:0.28, C:0.47, G:0.13, T:0.13
Consensus pattern (12 bp):
AAATCACGCCCC
Found at i:94913190 original size:19 final size:19
Alignment explanation
Indices: 94913166--94913256 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
94913156 ATAATCTTCA
*
94913166 ATGATATGCAAACTTAGAT
1 ATGATATGCAATCTTAGAT
94913185 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
94913204 ATGATAT--AATCTTAGAT
1 ATGATATGCAATCTTAGAT
94913221 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
94913239 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
94913257 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
16 1 0.01
17 15 0.22
18 15 0.22
19 37 0.54
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:94913236 original size:54 final size:53
Alignment explanation
Indices: 94913154--94913256 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 53
94913144 TCATATGGAA
94913154 ATATAATCTTCAATGATATGCAAACTTAGATATGATATGCAATCTTAGATATG
1 ATATAATCTTCAATGATATGCAAACTTAGATATGATATGCAATCTTAGATATG
* *
94913207 ATATAATCTTAGATATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA
1 ATATAATCTT-CA-ATGATATGCAAACTTAGATATGATATGCAATCTTAGA
94913257 AGATATGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
53 10 0.22
54 31 0.67
55 5 0.11
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (53 bp):
ATATAATCTTCAATGATATGCAAACTTAGATATGATATGCAATCTTAGATATG
Found at i:94913237 original size:35 final size:37
Alignment explanation
Indices: 94913166--94913263 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
94913156 ATAATCTTCA
*
94913166 ATGATATGCAAACTTAGATATGATATGCAATCTTAGAT
1 ATGATAT-CAATCTTAGATATGATATGCAATCTTAGAT
94913204 ATGATAT-AATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATATCAATCTTAGATATGATATGCAATCTTAGAT
94913239 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATAT-CAATCTTAGATATGATATG
94913264 ATTTTGTAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 23 0.41
36 17 0.30
37 9 0.16
38 7 0.12
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATATCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:94913570 original size:19 final size:18
Alignment explanation
Indices: 94913546--94913581 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
94913536 TGTTTCCCTG
*
94913546 ATTTTTTTATATATTTTAA
1 ATTTTTTAATA-ATTTTAA
94913565 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
94913582 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTTAATAATTTTAA
Found at i:94921993 original size:220 final size:219
Alignment explanation
Indices: 94921605--94922178 Score: 965
Period size: 220 Copynumber: 2.6 Consensus size: 219
94921595 AAATTTGACT
*
94921605 TTCAGGTGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCTCTGTATTTTCAGAGAACAAAT
1 TTCA-GTGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAAT
*
94921670 CAAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
65 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
94921735 CTTCGGATGTCTTCACATCGAAGTAAATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCA
130 CTTCGGATGTCTTCACATCGAAGTAAATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCA
94921800 GAT-AGAAGACATAGT-AGATTTGGCC
195 GATCA-AAGACATA-TCAGATTTGGCC
94921825 TTCAGATGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAAT
1 TTCAG-TGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAAT
94921890 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
65 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
* *
94921955 CTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCA
130 CTTCGGATGTCTTCACATCGAAGTAAATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCA
*
94922020 GATCAAAGACATATCAGATTTGGCT
195 GATCAAAGACATATCAGATTTGGCC
* * *** *
94922045 TTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGTATCTCTGTACTGTCAGAGAACAAAT
1 TTCA-GTGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAAT
*
94922110 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATC-AGA
65 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTA-A
94922174 CCTTC
129 CCTTC
94922179 ATTGAAGTAG
Statistics
Matches: 337, Mismatches: 12, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
219 3 0.01
220 332 0.99
221 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (219 bp):
TTCAGTGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATC
GAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACC
TTCGGATGTCTTCACATCGAAGTAAATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAG
ATCAAAGACATATCAGATTTGGCC
Found at i:94922238 original size:78 final size:78
Alignment explanation
Indices: 94922120--94922570 Score: 670
Period size: 78 Copynumber: 5.8 Consensus size: 78
94922110 CGAAGAAACA
** * * * *
94922120 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCAGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
94922185 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
94922198 GATTTGGCATATCTGTATTATACGGGGAGCATATCGAAGACACATCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
94922263 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* ** * * *
94922276 GATTTGGCATTTCCATATTCGACTGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
94922341 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
94922354 GATTTGGCATCTCTATATTAGACGGGGAACAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
94922419 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
94922432 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAACAGAT-TGGACCTTTATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
94922496 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
94922510 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
94922571 GTATTTACAT
Statistics
Matches: 333, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
77 1 0.00
78 331 0.99
79 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:94922623 original size:92 final size:92
Alignment explanation
Indices: 94922491--94922819 Score: 288
Period size: 88 Copynumber: 3.7 Consensus size: 92
94922481 TTGGACCTTT
94922491 ATTGAAGCAGATCCAAGAT---GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAT
1 ATTGAAGCAGATCCAAGATGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAT
* * *
94922553 AGCAGATCT-G-ACCTTCATGTATT-TAC
66 AACAAATCTGGCACCTT--TGTATTAGAC
* * *
94922579 ATTGAAGCAGATCCAAGATGACAGATTTGACATCTCTGTATTAGACGGGGAGCAAATCG--GAGA
1 ATTGAAGCAGATCCAAGATG-CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACA
* *
94922642 TAACAAATTTGGCATCTTTGTATTAGAC
65 TAACAAATCTGGCACCTTTGTATTAGAC
* ** * *
94922670 A-TGGAGCAGATTGAAGAAGCAGATTTGGCGTCTCTGTATTAGAC-GGGAGCAGATCGAAG--AT
1 ATTGAAGCAGATCCAAGATGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAT
* * ** *
94922731 AACAGATTTGGCGTCTCTGTATTAGAC
66 AACAAATCTGGCACCTTTGTATTAGAC
** * * * * * * *
94922758 -GGGGAGCAGATCGAAGATAACAGATTTGGCGTTTTTGTATTAGACGGGGAGCAGATCAAAGA
1 ATTGAAGCAGATCCAAGAT-GCAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA
94922820 TAGTAGATAT
Statistics
Matches: 203, Mismatches: 25, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
88 70 0.34
89 46 0.23
90 45 0.22
91 4 0.02
92 38 0.19
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (92 bp):
ATTGAAGCAGATCCAAGATGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAT
AACAAATCTGGCACCTTTGTATTAGAC
Found at i:94922658 original size:45 final size:45
Alignment explanation
Indices: 94922510--94922821 Score: 335
Period size: 45 Copynumber: 6.9 Consensus size: 45
94922500 GATCCAAGAT
* *
94922510 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * ** * * *
94922557 GATCTGACCT-TCATGTATT-TACATTGAAGCAGATCCAAGATGACA
1 GATTTGGCGTCTC-TGTATTAGAC-GGGGAGCAGATCGAAGATAACA
* * * *
94922602 GATTTGACATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * ** * *
94922647 AATTTGGCATCTTTGTATTAGACATGGAGCAGATTGAAGA-AGCA
1 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
94922691 GATTTGGCGTCTCTGTATTAGAC-GGGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
94922735 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
94922780 GATTTGGCGTTTTTGTATTAGACGGGGAGCAGATCAAAGATA
1 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATA
94922822 GTAGATATCG
Statistics
Matches: 221, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
43 14 0.06
44 49 0.22
45 125 0.57
46 8 0.04
47 25 0.11
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (45 bp):
GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:94923201 original size:19 final size:19
Alignment explanation
Indices: 94923177--94923248 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
94923167 ATAATCTTCA
94923177 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
94923196 ATGATAT--AATATTAGAT
1 ATGATATGCAATCTTAGAT
94923213 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
94923231 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
94923249 AGATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.02
17 14 0.29
18 14 0.29
19 19 0.40
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:94923274 original size:22 final size:22
Alignment explanation
Indices: 94923209--94923271 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
94923199 ATATAATATT
94923209 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
94923227 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
94923249 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
94923272 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:94923574 original size:18 final size:19
Alignment explanation
Indices: 94923540--94923575 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
94923530 TTTCCCTGAT
*
94923540 TTTTTTTATATATTTTTAA
1 TTTTTTTATATAATTTTAA
94923559 TTTTTTTA-ATAATTTTA
1 TTTTTTTATATAATTTTA
94923576 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTTTATATAATTTTAA
Found at i:94925900 original size:26 final size:26
Alignment explanation
Indices: 94925871--94925922 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
94925861 AAGGAAACCA
94925871 TTAAGAAATAAGTGCAACATTTATTC
1 TTAAGAAATAAGTGCAACATTTATTC
* *
94925897 TTAAGAAATGAGTGTAACATTTATTC
1 TTAAGAAATAAGTGCAACATTTATTC
94925923 ATGAAACAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (26 bp):
TTAAGAAATAAGTGCAACATTTATTC
Found at i:94927114 original size:27 final size:27
Alignment explanation
Indices: 94927084--94927138 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
94927074 TAAAAGAGAA
94927084 AAAAATAGAGTTATTGTTAATAGATTC
1 AAAAATAGAGTTATTGTTAATAGATTC
94927111 AAAAATAGAGTTATTGTTAATAGATTC
1 AAAAATAGAGTTATTGTTAATAGATTC
94927138 A
1 A
94927139 CTTAGAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.04, G:0.15, T:0.36
Consensus pattern (27 bp):
AAAAATAGAGTTATTGTTAATAGATTC
Found at i:94929865 original size:15 final size:15
Alignment explanation
Indices: 94929842--94929871 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
94929832 CAGAAAAACA
*
94929842 AACATTTAAATAATT
1 AACACTTAAATAATT
94929857 AACACTTAAATAATT
1 AACACTTAAATAATT
94929872 TTACCCAGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (15 bp):
AACACTTAAATAATT
Found at i:94933134 original size:2 final size:2
Alignment explanation
Indices: 94933127--94933153 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
94933117 CAAAAATCTT
94933127 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
94933154 TGCATAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94936167 original size:40 final size:40
Alignment explanation
Indices: 94936111--94936368 Score: 310
Period size: 40 Copynumber: 6.5 Consensus size: 40
94936101 TGGATGATAA
* *
94936111 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-TAT
* * *
94936151 CCGGGCTAAGTTCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
94936191 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
*
94936231 CCGGCCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
* * *
94936271 CCAGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * * *
94936311 CCGAGCTATGTCCCGAAGGCATTCGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
* *
94936351 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
94936369 TACTTGGCTT
Statistics
Matches: 192, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
39 15 0.08
40 176 0.92
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:94936329 original size:120 final size:119
Alignment explanation
Indices: 94936114--94936368 Score: 352
Period size: 120 Copynumber: 2.1 Consensus size: 119
94936104 ATGATAACCG
* * * * *
94936114 GGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTTCCGAAGGCATTTGTGT
1 GGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCAGGCTAAGTCCCGAAGGCATTGGTGC
* * * *
94936179 GAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCC
66 GAGTTACTATATCCGAGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC
*
94936233 GGCCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTA-TATCCAGGCTAAGTCCCGAAGGCATTGG
1 GG-CTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TCCAGGCTAAGTCCCGAAGGCATTGG
*
94936296 TGCGAGTTACTATATCCGAGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC
63 TGCGAGTTACTATATCCGAGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC
* *
94936353 GGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
94936369 TACTTGGCTT
Statistics
Matches: 120, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
119 15 0.12
120 103 0.86
121 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (119 bp):
GGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCAGGCTAAGTCCCGAAGGCATTGGTGC
GAGTTACTATATCCGAGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC
Found at i:94938905 original size:6 final size:6
Alignment explanation
Indices: 94938894--94938925 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
94938884 GGGGGTTAGG
94938894 TTTTTC TTTTTC TTTTT- TTTTTC TTTTT- TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
94938926 GGGTTAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 9 0.36
6 16 0.64
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (6 bp):
TTTTTC
Found at i:94938914 original size:11 final size:11
Alignment explanation
Indices: 94938894--94938925 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
94938884 GGGGGTTAGG
94938894 TTTTTCTTTTTC
1 TTTTT-TTTTTC
94938906 TTTTTTTTTTC
1 TTTTTTTTTTC
94938917 TTTTTTTTT
1 TTTTTTTTT
94938926 GGGTTAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:94938916 original size:17 final size:16
Alignment explanation
Indices: 94938894--94938925 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
94938884 GGGGGTTAGG
94938894 TTTTTCTTTTTCTTTTT
1 TTTTTCTTTTT-TTTTT
94938911 TTTTTCTTTTTTTTT
1 TTTTTCTTTTTTTTT
94938926 GGGTTAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTT
Found at i:94940232 original size:23 final size:23
Alignment explanation
Indices: 94940206--94940252 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
94940196 ATATAATGGC
94940206 ATGCCATAGGATTGTGAGTACTT
1 ATGCCATAGGATTGTGAGTACTT
94940229 ATGCCATAGGATTGTGAGTACTT
1 ATGCCATAGGATTGTGAGTACTT
94940252 A
1 A
94940253 CCTATATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (23 bp):
ATGCCATAGGATTGTGAGTACTT
Found at i:94945008 original size:21 final size:20
Alignment explanation
Indices: 94944974--94945014 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
94944964 TTTGTTATTG
*
94944974 AAATTTATTTCAAATATATA
1 AAATTTATTCCAAATATATA
*
94944994 AAATTATATTCCAAATTTATA
1 AAATT-TATTCCAAATATATA
94945015 TTTCATATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATTTATTCCAAATATATA
Found at i:94945339 original size:31 final size:31
Alignment explanation
Indices: 94945296--94945355 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 31
94945286 AATTTATGTA
94945296 TTAAAAGTTAGATTATATTTT-TTATTTTTTAT
1 TTAAAAGTTAGA-TA-ATTTTATTATTTTTTAT
*
94945328 TTAAAA-TTAGATAATTTTATTCTTTTTT
1 TTAAAAGTTAGATAATTTTATTATTTTTT
94945356 TGTTAGTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 5 0.19
30 10 0.38
31 5 0.19
32 6 0.23
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (31 bp):
TTAAAAGTTAGATAATTTTATTATTTTTTAT
Found at i:94945935 original size:13 final size:14
Alignment explanation
Indices: 94945910--94945938 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
94945900 ACTCTCCTGA
94945910 AACATATAAATTTC
1 AACATATAAATTTC
94945924 AACATA-AAATTTC
1 AACATATAAATTTC
94945937 AA
1 AA
94945939 AGTATATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (14 bp):
AACATATAAATTTC
Found at i:94947137 original size:31 final size:31
Alignment explanation
Indices: 94947069--94947137 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
94947059 AGTTAGTCAT
* * * *
94947069 TAAATTTGACAATTATTCTTATATTGGGACT
1 TAAACTTGACAATTATTCTTATATTAGAACC
* * *
94947100 TGAACTTGAGAATTGTTCTTATATTAGAACC
1 TAAACTTGACAATTATTCTTATATTAGAACC
94947131 TAAACTT
1 TAAACTT
94947138 TAAGATTTTC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (31 bp):
TAAACTTGACAATTATTCTTATATTAGAACC
Found at i:94947847 original size:12 final size:12
Alignment explanation
Indices: 94947816--94947849 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
94947806 TCAAATCCAA
*
94947816 ATATCTAAATTC
1 ATATTTAAATTC
94947828 ATTATTTAAATTC
1 A-TATTTAAATTC
94947841 ATATTTAAA
1 ATATTTAAA
94947850 CTCAATCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTAAATTC
Found at i:94953302 original size:45 final size:45
Alignment explanation
Indices: 94953228--94953513 Score: 246
Period size: 45 Copynumber: 6.4 Consensus size: 45
94953218 TCTTCTAACC
* * * *
94953228 ATGGTCTTATGCATTTCCGAA-GTAGTGCCACAGTATCTTTCAACT
1 ATGGTCTTATTCATTT-CGAATTTAATGCCATAGTATCTTTCAACT
* * *
94953273 ATGGTTTTGA-TCATTATC-AATGTAATGCCATAGTATATTTCAACT
1 ATGGTCTT-ATTCATT-TCGAATTTAATGCCATAGTATCTTTCAACT
* * * *
94953318 ATTGTCTTATTCGTATCGGATTTAATGCCATAGTATCTTTCAACT
1 ATGGTCTTATTCATTTCGAATTTAATGCCATAGTATCTTTCAACT
** * * *
94953363 ATGGTCTTACACATTTCTAGTTTAGTGCCATAGTATCTTTCAACT
1 ATGGTCTTATTCATTTCGAATTTAATGCCATAGTATCTTTCAACT
* * *
94953408 ATAGTCTTATTCATTTTG-ATTTAATGTCATAGTATCTTTCAACT
1 ATGGTCTTATTCATTTCGAATTTAATGCCATAGTATCTTTCAACT
** **
94953452 ATGGTCTT-TCTCATTTCGGGTAAAATGCCAT-GATATCTTTCAA-T
1 ATGGTCTTAT-TCATTTCGAATTTAATGCCATAG-TATCTTTCAACT
94953496 CATGGTCTT-TCTCATTTC
1 -ATGGTCTTAT-TCATTTC
94953514 TCGATCCAAG
Statistics
Matches: 197, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.01
44 44 0.22
45 150 0.76
46 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (45 bp):
ATGGTCTTATTCATTTCGAATTTAATGCCATAGTATCTTTCAACT
Found at i:94953457 original size:89 final size:89
Alignment explanation
Indices: 94953253--94953468 Score: 274
Period size: 90 Copynumber: 2.4 Consensus size: 89
94953243 TCCGAAGTAG
* *
94953253 TGCCACAGTATCTTTCAACTATGGTTTTGA-TCATTATCAATGTAATGCCATAGTATATTTCAAC
1 TGCCATAGTATCTTTCAACTATGGTCTT-ACTCATT-TCAATGTAATGCCATAGTATATTTCAAC
* *
94953317 TATTGTCTTATTCGTATCGGATTTAA
64 TATAGTCTTATTCATATCGGATTTAA
* * * * *
94953343 TGCCATAGTATCTTTCAACTATGGTCTTACACATTTCTAGTTTAGTGCCATAGTATCTTTCAACT
1 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTC-AATGTAATGCCATAGTATATTTCAACT
**
94953408 ATAGTCTTATTCAT-TTTGATTTAA
65 ATAGTCTTATTCATATCGGATTTAA
* *
94953432 TGTCATAGTATCTTTCAACTATGGTCTTTCTCATTTC
1 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTC
94953469 GGGTAAAATG
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
89 45 0.41
90 65 0.59
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.44
Consensus pattern (89 bp):
TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCAATGTAATGCCATAGTATATTTCAACTA
TAGTCTTATTCATATCGGATTTAA
Found at i:94953481 original size:89 final size:90
Alignment explanation
Indices: 94953253--94953494 Score: 260
Period size: 89 Copynumber: 2.7 Consensus size: 90
94953243 TCCGAAGTAG
* * * * *
94953253 TGCCACAGTATCTTTCAACTATGGTTTTGA-TCATTATCAATGT--AATGCCATAGTATATTTCA
1 TGCCATAGTATCTTTCAACTATGGTCTT-ACACATT-TCGA-GTAAAATGCCATAGTATCTTTCA
* *
94953315 ACTATTGTCTTATTCGTATCGGATTTAA
63 ACTATAGTCTTATTCATATCGGATTTAA
* ** *
94953343 TGCCATAGTATCTTTCAACTATGGTCTTACACATTTCTAGTTTAGTGCCATAGTATCTTTCAACT
1 TGCCATAGTATCTTTCAACTATGGTCTTACACATTTCGAGTAAAATGCCATAGTATCTTTCAACT
**
94953408 ATAGTCTTATTCAT-TTTGATTTAA
66 ATAGTCTTATTCATATCGGATTTAA
* * * *
94953432 TGTCATAGTATCTTTCAACTATGGTCTTTCTCATTTCGGGTAAAATGCCAT-GATATCTTTCAA
1 TGCCATAGTATCTTTCAACTATGGTCTTACACATTTCGAGTAAAATGCCATAG-TATCTTTCAA
94953495 TCATGGTCTT
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
88 3 0.02
89 65 0.50
90 62 0.48
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (90 bp):
TGCCATAGTATCTTTCAACTATGGTCTTACACATTTCGAGTAAAATGCCATAGTATCTTTCAACT
ATAGTCTTATTCATATCGGATTTAA
Found at i:94953492 original size:134 final size:135
Alignment explanation
Indices: 94953250--94953514 Score: 315
Period size: 134 Copynumber: 2.0 Consensus size: 135
94953240 ATTTCCGAAG
* *
94953250 TAGTGCCACAGTATCTTTCAACTATGGTTTTGATCATTATCAATGTAATGCCATAGTATATTTCA
1 TAGTGCCACAGTATCTTTCAACTATAGTCTTGATCATTATCAATGTAATGCCATAGTATATTTCA
* * **
94953315 ACTATTGTCTTATTCGTATCGGATTTAATGCCATAGTATCTTTCAA-CTATGGTCTTACACATTT
66 ACTATGGTCTTATTCATATCGGATAAAATGCCATAGTATCTTTCAATC-ATGGTCTTACACATTT
94953379 CTAGTT
130 CTAGTT
* ** * * *
94953385 TAGTGCCATAGTATCTTTCAACTATAGTCTT-ATTCATT-TTGATTTAATGTCATAGTATCTTTC
1 TAGTGCCACAGTATCTTTCAACTATAGTCTTGA-TCATTATCAATGTAATGCCATAGTATATTTC
* * * *
94953448 AACTATGGTCTT-TCTCATTTCGGGTAAAATGCCAT-GATATCTTTCAATCATGGTCTTTCTCAT
65 AACTATGGTCTTAT-TCATATCGGATAAAATGCCATAG-TATCTTTCAATCATGGTCTTACACAT
94953511 TTCT
128 TTCT
94953515 CGATCCAAGG
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
133 2 0.02
134 74 0.67
135 34 0.31
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (135 bp):
TAGTGCCACAGTATCTTTCAACTATAGTCTTGATCATTATCAATGTAATGCCATAGTATATTTCA
ACTATGGTCTTATTCATATCGGATAAAATGCCATAGTATCTTTCAATCATGGTCTTACACATTTC
TAGTT
Found at i:94963594 original size:7 final size:7
Alignment explanation
Indices: 94963567--94963607 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
94963557 AAGTAGGTTG
94963567 TATATTA
1 TATATTA
*
94963574 TAT-TTC
1 TATATTA
94963580 TAATATTA
1 T-ATATTA
94963588 TATATTA
1 TATATTA
94963595 TATATTA
1 TATATTA
94963602 T-TATTA
1 TATATTA
94963608 ATTCATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 8 0.27
7 19 0.63
8 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (7 bp):
TATATTA
Found at i:94963689 original size:62 final size:63
Alignment explanation
Indices: 94963584--94963724 Score: 180
Period size: 62 Copynumber: 2.3 Consensus size: 63
94963574 TATTTCTAAT
* * * *
94963584 ATTATATATTATATATTATTATTAATTCATATTTTAATAATAATTATATTAAGAGTGTTATTAA
1 ATTATATATTATTTATTATTATTAATTCATATTTTAATAATAATTATATTAA-AATATAATTAA
* *
94963648 ATTATATATT-TTTATTGTTATTAAATT-GTA-TTTAATAATAATTATATTAAAATATAATTAA
1 ATTATATATTATTTATTATTATT-AATTCATATTTTAATAATAATTATATTAAAATATAATTAA
*
94963709 ATTATTTATTATTTAT
1 ATTATATATTATTTAT
94963725 ATACAATTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
61 17 0.25
62 25 0.37
63 12 0.18
64 14 0.21
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (63 bp):
ATTATATATTATTTATTATTATTAATTCATATTTTAATAATAATTATATTAAAATATAATTAA
Found at i:94973403 original size:31 final size:33
Alignment explanation
Indices: 94973324--94973403 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 33
94973314 GGTATATATT
* **
94973324 TTTTTAAACAAGTTC-AGATACCAACTAGGTAC
1 TTTTTAGACAAGTTCAAGATACCAACTAAATAC
* *
94973356 TTTTTAGATAAATTCAAG-TACCAACTAAATAC
1 TTTTTAGACAAGTTCAAGATACCAACTAAATAC
94973388 -TTTTAGACAAGTTCAA
1 TTTTTAGACAAGTTCAA
94973404 CGGACAAACT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
31 14 0.35
32 24 0.60
33 2 0.05
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (33 bp):
TTTTTAGACAAGTTCAAGATACCAACTAAATAC
Found at i:94974009 original size:17 final size:16
Alignment explanation
Indices: 94973971--94974009 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
94973961 AATTAGAAAA
*
94973971 AAAATATAAAACATAT
1 AAAATATAAAAAATAT
94973987 AGAAATATAAAAAAGTAT
1 A-AAATATAAAAAA-TAT
94974005 AAAAT
1 AAAAT
94974010 TTTATTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.75
18 4 0.20
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAATATAAAAAATAT
Found at i:94982858 original size:23 final size:22
Alignment explanation
Indices: 94982809--94982859 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
94982799 GAATTGATAG
* *
94982809 TTTAAAATATTTTTATAAAATA
1 TTTAAAATATTTTTAGAAAAGA
* *
94982831 ATTAAAATATGTTTTAGACAAGA
1 TTTAAAATAT-TTTTAGAAAAGA
94982854 TTTAAA
1 TTTAAA
94982860 GTTTTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (22 bp):
TTTAAAATATTTTTAGAAAAGA
Found at i:94983522 original size:31 final size:32
Alignment explanation
Indices: 94983470--94983536 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 32
94983460 AACCTTATGT
94983470 GTTT-TAAACAACTAATGCGTGAGCTTAAAAA
1 GTTTATAAACAACTAATGCGTGAGCTTAAAAA
94983501 GTTTATAAACAACT-ATGCGTGAGCTTAAAAA
1 GTTTATAAACAACTAATGCGTGAGCTTAAAAA
94983532 GTTTA
1 GTTTA
94983537 GTAAGTGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 26 0.74
32 9 0.26
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (32 bp):
GTTTATAAACAACTAATGCGTGAGCTTAAAAA
Found at i:94984235 original size:14 final size:14
Alignment explanation
Indices: 94984216--94984245 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
94984206 AATGAGACTT
94984216 TAAGGATGTTACAA
1 TAAGGATGTTACAA
94984230 TAAGGATGTTACAA
1 TAAGGATGTTACAA
94984244 TA
1 TA
94984246 GTATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (14 bp):
TAAGGATGTTACAA
Found at i:94986038 original size:13 final size:12
Alignment explanation
Indices: 94986022--94986059 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
94986012 AGTGAACAAT
94986022 AGAAATAAGTAAA
1 AGAAATAAG-AAA
94986035 AGAAA-AAGAAA
1 AGAAATAAGAAA
94986046 AGGAAATAAGAAA
1 A-GAAATAAGAAA
94986059 A
1 A
94986060 TCTTTGCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.17
12 7 0.30
13 12 0.52
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (12 bp):
AGAAATAAGAAA
Found at i:94996544 original size:32 final size:30
Alignment explanation
Indices: 94996486--94996545 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
94996476 CAAAAATATT
* **
94996486 ATTTAAAATTAAAAATATTATTTTATTAAA
1 ATTTAAAATTAAAAATATAAAATTATTAAA
94996516 ATTTAAAATTTTAAAAATATAAAATTATTA
1 ATTTAAAA--TTAAAAATATAAAATTATTA
94996546 GTACAAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.32
32 17 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
ATTTAAAATTAAAAATATAAAATTATTAAA
Found at i:94997161 original size:16 final size:16
Alignment explanation
Indices: 94997114--94997162 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
94997104 AAATTTAATT
*
94997114 AAAAAATAAAATTAAC
1 AAAAAATAAAATTATC
94997130 AAAAAATATAAA-TATC
1 AAAAAATA-AAATTATC
*
94997146 AAAAATTAAAATTATC
1 AAAAAATAAAATTATC
94997162 A
1 A
94997163 TTATGCTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATAAAATTATC
Found at i:95002186 original size:6 final size:6
Alignment explanation
Indices: 95002175--95002222 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
95002165 TTACCCAATA
* *
95002175 TTTATT TTTATT TTTATT TTAATATT TTTATT TTTAAT TTAATT TTTA
1 TTTATT TTTATT TTTATT TT--TATT TTTATT TTTATT TTTATT TTTA
95002223 CATTTTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 30 0.83
8 6 0.17
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:95002202 original size:20 final size:20
Alignment explanation
Indices: 95002177--95002221 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
95002167 ACCCAATATT
*
95002177 TATTTTTATTTTTATTTTAA
1 TATTTTTATTTTTAATTTAA
95002197 TATTTTTATTTTTAATTTAA
1 TATTTTTATTTTTAATTTAA
95002217 T-TTTT
1 TATTTT
95002222 ACATTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
TATTTTTATTTTTAATTTAA
Found at i:95002207 original size:26 final size:26
Alignment explanation
Indices: 95002175--95002234 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
95002165 TTACCCAATA
* * *
95002175 TTTATTTTTATTTTTATTTTAATATT
1 TTTATTTTTAATTTAATTTTAACATT
*
95002201 TTTATTTTTAATTTAATTTTTACATT
1 TTTATTTTTAATTTAATTTTAACATT
*
95002227 TTAATTTT
1 TTTATTTT
95002235 CCGTTTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTATTTTTAATTTAATTTTAACATT
Found at i:95002227 original size:20 final size:20
Alignment explanation
Indices: 95002177--95002233 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
95002167 ACCCAATATT
* *
95002177 TATTTTTATTTTTATTTTAA
1 TATTTTCATTTTTAATTTAA
*
95002197 TATTTTTATTTTTAATTTAA
1 TATTTTCATTTTTAATTTAA
95002217 T-TTTTACA-TTTTAATTT
1 TATTTT-CATTTTTAATTT
95002234 TCCGTTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 13 0.38
20 21 0.62
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTTCATTTTTAATTTAA
Found at i:95002231 original size:14 final size:13
Alignment explanation
Indices: 95002178--95002234 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
95002168 CCCAATATTT
*
95002178 ATTTTT-ATTTTT
1 ATTTTTAATTTTA
* *
95002190 ATTTTAATATTTTT
1 ATTTTTA-ATTTTA
95002204 ATTTTTAA-TTTA
1 ATTTTTAATTTTA
95002216 ATTTTTACATTTTA
1 ATTTTTA-ATTTTA
95002230 ATTTT
1 ATTTT
95002235 CCGTTTCTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
12 15 0.39
13 2 0.05
14 21 0.55
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTTAATTTTA
Found at i:95004084 original size:53 final size:53
Alignment explanation
Indices: 95004001--95004193 Score: 187
Period size: 54 Copynumber: 3.6 Consensus size: 53
95003991 AAAGTTTTTA
* * * **
95004001 GGGTTCGGAGGAAATAAAAGTTTTGA-GAGAAAGCAAAAGGGAAAAAAAATTGG
1 GGGTTTGGGGGAAGTAAAAGTTTTGAGGAGAAAGCAAAA-GGAAAAAATTTTGG
* *** *
95004054 GGGTTT-GGGGAAGTAAAAGTTTTGAGGAGAAAGTAAAAGGAAATTTTTTTTAG
1 GGGTTTGGGGGAAGTAAAAGTTTTGAGGAGAAAGCAAAAGGAAA-AAATTTTGG
* *
95004107 GGGTTTGGAGGGAAGTAAAACTTTTGAGG-GAAATCAAAAGGAAAAAAGTTTTGGG
1 GGGTTTGG-GGGAAGTAAAAGTTTTGAGGAGAAAGCAAAAGGAAAAAA-TTTT-GG
* *
95004162 GGGTTTGGGGGAAGTAAAA-TTTTTAGGGGAAA
1 GGGTTTGGGGGAAGTAAAAGTTTTGAGGAGAAA
95004194 AGTAAAAAGA
Statistics
Matches: 115, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
52 22 0.19
53 32 0.28
54 33 0.29
55 28 0.24
ACGTcount: A:0.39, C:0.02, G:0.34, T:0.25
Consensus pattern (53 bp):
GGGTTTGGGGGAAGTAAAAGTTTTGAGGAGAAAGCAAAAGGAAAAAATTTTGG
Found at i:95004192 original size:54 final size:53
Alignment explanation
Indices: 95004052--95004200 Score: 151
Period size: 55 Copynumber: 2.8 Consensus size: 53
95004042 AAAAAAAATT
* * *** *
95004052 GGGGGTTT-GGGGAAGTAAAAGTTTTGAGGAGAAAGTAAAAGGAAATTTTTTTT
1 GGGGGTTTGGGGGAAGTAAAA-TTTTTAGGGGAAAGTAAAAGGAAAAAGTTTTG
* *
95004105 AGGGGTTTGGAGGGAAGTAAAACTTTT-GAGGGAAA-TCAAAAGGAAAAAAGTTTTG
1 GGGGGTTTGG-GGGAAGTAAAATTTTTAG-GGGAAAGT-AAAAGG-AAAAAGTTTTG
95004160 GGGGGTTTGGGGGAAGTAAAATTTTTAGGGGAAAAGTAAAA
1 GGGGGTTTGGGGGAAGTAAAATTTTTAGGGG-AAAGTAAAA
95004201 AGATTGGAGT
Statistics
Matches: 78, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
53 9 0.12
54 33 0.42
55 35 0.45
56 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.35, T:0.27
Consensus pattern (53 bp):
GGGGGTTTGGGGGAAGTAAAATTTTTAGGGGAAAGTAAAAGGAAAAAGTTTTG
Found at i:95005213 original size:25 final size:25
Alignment explanation
Indices: 95005185--95005240 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
95005175 ATAAACTTCC
*
95005185 AAATCAATCAATTATCT-G-AAAATGA
1 AAATCAAT-AATTATATAGCAAAAT-A
*
95005210 AAATCTATAATTATATAGCAAAATA
1 AAATCAATAATTATATAGCAAAATA
95005235 AAATCA
1 AAATCA
95005241 TTGTCGGTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 7 0.27
25 14 0.54
26 5 0.19
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (25 bp):
AAATCAATAATTATATAGCAAAATA
Found at i:95005681 original size:9 final size:9
Alignment explanation
Indices: 95005667--95005693 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
95005657 ATTTTATTTA
95005667 AATAAGTTT
1 AATAAGTTT
95005676 AATAAGTTT
1 AATAAGTTT
95005685 AATAAGTTT
1 AATAAGTTT
95005694 TCACCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (9 bp):
AATAAGTTT
Found at i:95009926 original size:6 final size:6
Alignment explanation
Indices: 95009909--95009951 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
95009899 AAAATAATAT
* *
95009909 ATAGAG AGAGAG ATAGAG ATAGAG AGAGAG ATAGAG ATAGAG A
1 ATAGAG ATAGAG ATAGAG ATAGAG ATAGAG ATAGAG ATAGAG A
95009952 AATCGCATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.37, T:0.12
Consensus pattern (6 bp):
ATAGAG
Found at i:95009932 original size:18 final size:18
Alignment explanation
Indices: 95009909--95009951 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
95009899 AAAATAATAT
95009909 ATAGAGAGAGAGATAGAG
1 ATAGAGAGAGAGATAGAG
95009927 ATAGAGAGAGAGATAGAG
1 ATAGAGAGAGAGATAGAG
95009945 ATAGAGA
1 ATAGAGA
95009952 AATCGCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.37, T:0.12
Consensus pattern (18 bp):
ATAGAGAGAGAGATAGAG
Found at i:95010712 original size:20 final size:19
Alignment explanation
Indices: 95010687--95010749 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
95010677 CAATTTTTTT
95010687 AAAAAATTATAAAAATTTAA
1 AAAAAATTA-AAAAATTTAA
* * *
95010707 AAAAAACTAAAAAGTATAA
1 AAAAAATTAAAAAATTTAA
95010726 AAAGAAAGTTAAAAAA-TTAA
1 AAA-AAA-TTAAAAAATTTAA
95010746 AAAA
1 AAAA
95010750 TTTCTAGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 12 0.34
20 17 0.49
21 6 0.17
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAAAATTAAAAAATTTAA
Found at i:95010862 original size:16 final size:16
Alignment explanation
Indices: 95010843--95010873 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95010833 TTGAAAAAGT
95010843 TTTCAAATATATGTGG
1 TTTCAAATATATGTGG
*
95010859 TTTCAAATTTATGTG
1 TTTCAAATATATGTG
95010874 CTCTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATGTGG
Found at i:95016433 original size:2 final size:2
Alignment explanation
Indices: 95016426--95016454 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
95016416 TATCAGCCAA
95016426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95016455 AGGAGATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95016752 original size:5 final size:5
Alignment explanation
Indices: 95016742--95016767 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
95016732 TCTGTTGAAA
95016742 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
95016768 GAATACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:95028967 original size:31 final size:31
Alignment explanation
Indices: 95028931--95029034 Score: 86
Period size: 31 Copynumber: 3.2 Consensus size: 31
95028921 AATAATTCAC
95028931 AATTAATATAACATTCATAGTATAATTTAAT
1 AATTAATATAACATTCATAGTATAATTTAAT
* * * * *
95028962 AATTAAGTCCCTATAAACA-ACTTACGAATAA-TTCAC
1 AATTAA-----TAT-AACATTCATA-GTATAATTTAAT
95028998 AATTAATATAACATTCATAGTATAATTTAAT
1 AATTAATATAACATTCATAGTATAATTTAAT
95029029 AATTAA
1 AATTAA
95029035 GTCCCTATAT
Statistics
Matches: 54, Mismatches: 10, Indels: 18
0.66 0.12 0.22
Matches are distributed among these distances:
30 9 0.17
31 21 0.39
36 15 0.28
37 9 0.17
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.37
Consensus pattern (31 bp):
AATTAATATAACATTCATAGTATAATTTAAT
Found at i:95029017 original size:67 final size:67
Alignment explanation
Indices: 95028909--95029043 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
95028899 TGGACATATC
95028909 AAACAACTTACGAATAATTCACAATTAATATAACATTCATAGTATAATTTAATAATTAAGTCCCT
1 AAACAACTTACGAATAATTCACAATTAATATAACATTCATAGTATAATTTAATAATTAAGTCCCT
95028974 AT
66 AT
95028976 AAACAACTTACGAATAATTCACAATTAATATAACATTCATAGTATAATTTAATAATTAAGTCCCT
1 AAACAACTTACGAATAATTCACAATTAATATAACATTCATAGTATAATTTAATAATTAAGTCCCT
95029041 AT
66 AT
95029043 A
1 A
95029044 TTGGACTCTC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (67 bp):
AAACAACTTACGAATAATTCACAATTAATATAACATTCATAGTATAATTTAATAATTAAGTCCCT
AT
Found at i:95029434 original size:2 final size:2
Alignment explanation
Indices: 95029427--95029473 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
95029417 TCATTTAACC
*
95029427 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
95029469 CA TA T
1 TA TA T
95029474 GCATGACTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:95030014 original size:29 final size:27
Alignment explanation
Indices: 95029981--95030042 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
95029971 AATCCTCATT
95029981 AACACACCGGTATAAT-ATAGCCTCCCA
1 AACACACCGGTAT-ATCATAGCCTCCCA
*
95030008 AACACACCGGTATATCATATCCTCCCA
1 AACACACCGGTATATCATAGCCTCCCA
*
95030035 AATACACC
1 AACACACC
95030043 AATAAGGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.37, C:0.35, G:0.08, T:0.19
Consensus pattern (27 bp):
AACACACCGGTATATCATAGCCTCCCA
Found at i:95030566 original size:18 final size:17
Alignment explanation
Indices: 95030543--95030576 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
95030533 AATTTTTCTT
*
95030543 CAATTTATTCCTTAATTC
1 CAATTTAATCC-TAATTC
95030561 CAATTTAATCCTAATT
1 CAATTTAATCCTAATT
95030577 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (17 bp):
CAATTTAATCCTAATTC
Found at i:95031447 original size:3 final size:3
Alignment explanation
Indices: 95031439--95031483 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
95031429 TTTTAAATCA
* * *
95031439 AAT AAT AAT AAT AAT AGT AAT AAT ATT AAC AAT AAT AATT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AA
95031484 AATCTAAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:95032229 original size:17 final size:18
Alignment explanation
Indices: 95032204--95032238 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
95032194 TATTTTTTTA
95032204 AATAATTTT-TAAAATAC
1 AATAATTTTATAAAATAC
*
95032221 AATAGTTTTATAAAATAC
1 AATAATTTTATAAAATAC
95032239 TCGAACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (18 bp):
AATAATTTTATAAAATAC
Found at i:95044242 original size:21 final size:21
Alignment explanation
Indices: 95044218--95044258 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
95044208 TAAATGAAAT
95044218 GTTACAGTTATATGGAAAGAG
1 GTTACAGTTATATGGAAAGAG
95044239 GTTACAGTTATATGGAAAGA
1 GTTACAGTTATATGGAAAGA
95044259 CACACTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (21 bp):
GTTACAGTTATATGGAAAGAG
Found at i:95045284 original size:13 final size:13
Alignment explanation
Indices: 95045275--95045306 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
95045265 TATACGAGCT
95045275 TGTGACACGACCG
1 TGTGACACGACCG
95045288 TGTGACACGACCG
1 TGTGACACGACCG
95045301 TGTGAC
1 TGTGAC
95045307 CCTACTCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.31, T:0.19
Consensus pattern (13 bp):
TGTGACACGACCG
Found at i:95046112 original size:18 final size:18
Alignment explanation
Indices: 95046082--95046124 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
95046072 TAGAATTGGG
95046082 TTGA-TAAAATAATTTAA
1 TTGATTAAAATAATTTAA
*
95046099 TTGATTAAATTAATTTAA
1 TTGATTAAAATAATTTAA
*
95046117 TTAATTAA
1 TTGATTAA
95046125 TATTTTGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
TTGATTAAAATAATTTAA
Found at i:95053649 original size:21 final size:21
Alignment explanation
Indices: 95053610--95053664 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
95053600 TTGCACATGG
* *
95053610 CCGTGTGACGGAGGCACAC-A
1 CCGTGTGAAGCAGGCACACGA
*
95053630 CTCGTGTGAAGCAGGGACACGA
1 C-CGTGTGAAGCAGGCACACGA
95053652 CCGTGTGAA-CAGG
1 CCGTGTGAAGCAGG
95053665 TTGTGTAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 5 0.17
21 23 0.77
22 2 0.07
ACGTcount: A:0.25, C:0.25, G:0.36, T:0.13
Consensus pattern (21 bp):
CCGTGTGAAGCAGGCACACGA
Found at i:95054318 original size:21 final size:20
Alignment explanation
Indices: 95054283--95054322 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
95054273 AGAAAGAAAG
95054283 AAAGTAAAAACAATAGAAATA
1 AAAGTAAAAACAATA-AAATA
* *
95054304 AAAGTAATAATAATAAAAT
1 AAAGTAAAAACAATAAAAT
95054323 TAATAACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGTAAAAACAATAAAATA
Found at i:95056102 original size:27 final size:26
Alignment explanation
Indices: 95056071--95056144 Score: 62
Period size: 27 Copynumber: 2.8 Consensus size: 26
95056061 TAGTAAAGTG
95056071 CATAATAAAATAAAATAAAATAAAACA
1 CATAATAAAATAAAATAAAATAAAA-A
* ***
95056098 TATAAGTCCGA-AAAATAAAATAAAAA
1 CATAA-TAAAATAAAATAAAATAAAAA
95056124 CA-AATAACAATAAAAATAAAA
1 CATAATAA-AAT-AAAATAAAA
95056145 GATAGTTTGG
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
24 1 0.03
25 3 0.09
26 2 0.06
27 27 0.77
28 2 0.06
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.18
Consensus pattern (26 bp):
CATAATAAAATAAAATAAAATAAAAA
Found at i:95056137 original size:16 final size:15
Alignment explanation
Indices: 95056110--95056139 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
95056100 TAAGTCCGAA
95056110 AAATAAAATAAAAAC
1 AAATAAAATAAAAAC
95056125 AAATAACAATAAAAA
1 AAATAA-AATAAAAA
95056140 TAAAAGATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (15 bp):
AAATAAAATAAAAAC
Found at i:95063649 original size:21 final size:20
Alignment explanation
Indices: 95063617--95063661 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
95063607 GTCTTAACAG
*
95063617 AACTGCTGATGTGGCAAGTT
1 AACTGCTAATGTGGCAAGTT
*
95063637 AACTAGCTAATGTGGCCAGTT
1 AACT-GCTAATGTGGCAAGTT
95063658 AACT
1 AACT
95063662 TGCCACATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (20 bp):
AACTGCTAATGTGGCAAGTT
Found at i:95063862 original size:73 final size:73
Alignment explanation
Indices: 95063775--95063917 Score: 268
Period size: 73 Copynumber: 2.0 Consensus size: 73
95063765 AGACTGTATG
*
95063775 TCTTTGCTCCATGTCTGAATTCGGGGGCTGCTCAGCCTATTGAAGAGCATTCTCCATTACGTGTA
1 TCTTTGCTCCATGTCTGAATTCGGGGGCTGCTCAGCCTATTGAAGAGCATTCTCCATTACATGTA
95063840 AAGCAGGC
66 AAGCAGGC
*
95063848 TCTTTTCTCCATGTCTGAATTCGGGGGCTGCTCAGCCTATTGAAGAGCATTCTCCATTACATGTA
1 TCTTTGCTCCATGTCTGAATTCGGGGGCTGCTCAGCCTATTGAAGAGCATTCTCCATTACATGTA
95063913 AAGCA
66 AAGCA
95063918 AGCAAAAAGT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (73 bp):
TCTTTGCTCCATGTCTGAATTCGGGGGCTGCTCAGCCTATTGAAGAGCATTCTCCATTACATGTA
AAGCAGGC
Found at i:95064576 original size:3 final size:3
Alignment explanation
Indices: 95064562--95064636 Score: 141
Period size: 3 Copynumber: 25.0 Consensus size: 3
95064552 ATTTAATGAC
*
95064562 TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
95064610 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
95064637 CTGTTAAAGG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:95064757 original size:10 final size:10
Alignment explanation
Indices: 95064742--95064767 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
95064732 GTTCTGTTAA
95064742 GAAACTAACG
1 GAAACTAACG
95064752 GAAACTAACG
1 GAAACTAACG
95064762 GAAACT
1 GAAACT
95064768 GTTATTCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.19, T:0.12
Consensus pattern (10 bp):
GAAACTAACG
Found at i:95064841 original size:30 final size:31
Alignment explanation
Indices: 95064775--95064845 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
95064765 ACTGTTATTC
* *
95064775 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
95064806 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
95064835 GGGTGACTGTT
1 -AGTGACTGTT
95064846 GGTGTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.14
30 15 0.43
31 15 0.43
ACGTcount: A:0.20, C:0.10, G:0.21, T:0.49
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:95075248 original size:18 final size:18
Alignment explanation
Indices: 95075225--95075259 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
95075215 TTAAAAACTG
95075225 TTAAAT-TATAAAATATAA
1 TTAAATATA-AAAATATAA
95075243 TTAAATATAAAAATATA
1 TTAAATATAAAAATATA
95075260 TATATGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAATATAAAAATATAA
Found at i:95079428 original size:12 final size:13
Alignment explanation
Indices: 95079396--95079428 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
95079386 TAAAAGAGAG
95079396 AGAGAGG-AGGAA
1 AGAGAGGAAGGAA
95079408 AGAGAGGAAGGAA
1 AGAGAGGAAGGAA
95079421 AG-GAGGAA
1 AGAGAGGAA
95079429 AGAGAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (13 bp):
AGAGAGGAAGGAA
Done.