Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 166 of 205
Found at i:49412983 original size:13 final size:13
Alignment explanation
Indices: 49412953--49412977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49412943 CTAAATCATA
49412953 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
49412966 ATTTTAGTAAAA
1 ATTTTAGTAAAA
49412978 ACTTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:49417566 original size:79 final size:79
Alignment explanation
Indices: 49417430--49417591 Score: 306
Period size: 79 Copynumber: 2.1 Consensus size: 79
49417420 GGAGAAGTTG
*
49417430 TTATATTTTGCCTATAAATATGCATCACTTATGGATGTGTGATGCAACTTTTGTGAGTGCTTGTG
1 TTATATTTTGCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTGTGAGTGCTTGTG
49417495 CTACATTTTACTCA
66 CTACATTTTACTCA
*
49417509 TTATATTTTGCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTTTGAGTGCTTGTG
1 TTATATTTTGCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTGTGAGTGCTTGTG
49417574 CTACATTTTACTCA
66 CTACATTTTACTCA
49417588 TTAT
1 TTAT
49417592 TTGCTTGTGT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.44
Consensus pattern (79 bp):
TTATATTTTGCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTGTGAGTGCTTGTG
CTACATTTTACTCA
Found at i:49417937 original size:18 final size:18
Alignment explanation
Indices: 49417894--49417930 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49417884 TAAAATGCTT
*
49417894 TTTCAA-TATTTTTATTA
1 TTTCAATTAATTTTATTA
49417911 TTTCAATTAATTTTATTA
1 TTTCAATTAATTTTATTA
49417929 TT
1 TT
49417931 CGAATTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTCAATTAATTTTATTA
Found at i:49424526 original size:17 final size:17
Alignment explanation
Indices: 49424494--49424681 Score: 131
Period size: 17 Copynumber: 10.9 Consensus size: 17
49424484 GCACAATAAT
*
49424494 AATTGTTTGAAAACACGTA
1 AATT-TTTG-AAACACGAA
*
49424513 AATTTGTGAAACACGAGA
1 AATTTTTGAAACACGA-A
* *
49424531 ATTTTTTGAAAACATGAA
1 AATTTTTG-AAACACGAA
49424549 AATTTTTGAAACACGAA
1 AATTTTTGAAACACGAA
49424566 AATTTTTGAAACAC-ATGA
1 AATTTTTGAAACACGA--A
*
49424584 ATTTTTTGAAAACACGAA
1 AATTTTTG-AAACACGAA
* *
49424602 AATTTTTTAAACACAGGA
1 AATTTTTGAAACAC-GAA
49424620 AA-TTTT-----ACGAA
1 AATTTTTGAAACACGAA
* * *
49424631 GAGTTTTGAAACACCG-G
1 AATTTTTGAAACA-CGAA
49424648 AATTTTTGAAAACACGAA
1 AATTTTTG-AAACACGAA
*
49424666 GATTTTTGAAACACGA
1 AATTTTTGAAACACGA
49424682 TTTTTTTTAA
Statistics
Matches: 135, Mismatches: 18, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
11 3 0.02
12 6 0.04
16 1 0.01
17 56 0.41
18 51 0.38
19 17 0.13
20 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (17 bp):
AATTTTTGAAACACGAA
Found at i:49424544 original size:36 final size:35
Alignment explanation
Indices: 49424494--49424625 Score: 126
Period size: 36 Copynumber: 3.7 Consensus size: 35
49424484 GCACAATAAT
* *
49424494 AATTGTTTGAAAACACGTAAATTTGTGAAACACGA
1 AATTTTTTGAAAACACGTAAATTTTTGAAACACGA
* *
49424529 GAATTTTTTGAAAACATGAAAATTTTTGAAACACGA
1 -AATTTTTTGAAAACACGTAAATTTTTGAAACACGA
* * *
49424565 AAATTTTTG-AAACACATGAATTTTTTGAAAACACGAA
1 AATTTTTTGAAAACACGT-AAATTTTTG-AAACACG-A
*
49424602 AATTTTTT--AAACACAGGAAATTTT
1 AATTTTTTGAAAACAC-GTAAATTTT
49424626 ACGAAGAGTT
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
34 5 0.06
35 16 0.20
36 50 0.63
37 8 0.10
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (35 bp):
AATTTTTTGAAAACACGTAAATTTTTGAAACACGA
Found at i:49424576 original size:53 final size:53
Alignment explanation
Indices: 49424494--49424625 Score: 176
Period size: 53 Copynumber: 2.4 Consensus size: 53
49424484 GCACAATAAT
* * *
49424494 AATTGTTTGAAAACACGTAAATTTGTGAAACACGA-GAATTTTTTGAAAACATGAA
1 AATT-TTTG-AAACACGAAAATTTTTGAAACAC-ATGAATTTTTTGAAAACACGAA
49424549 AATTTTTGAAACACGAAAATTTTTGAAACACATGAATTTTTTGAAAACACGAA
1 AATTTTTGAAACACGAAAATTTTTGAAACACATGAATTTTTTGAAAACACGAA
* *
49424602 AATTTTTTAAACACAGGAAATTTT
1 AATTTTTGAAACAC-GAAAATTTT
49424626 ACGAAGAGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
52 1 0.01
53 53 0.76
54 12 0.17
55 4 0.06
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (53 bp):
AATTTTTGAAACACGAAAATTTTTGAAACACATGAATTTTTTGAAAACACGAA
Found at i:49424662 original size:18 final size:18
Alignment explanation
Indices: 49424626--49424734 Score: 89
Period size: 18 Copynumber: 6.2 Consensus size: 18
49424616 AGGAAATTTT
*
49424626 ACGAAGAGTTTTG-AAAC
1 ACGAAGATTTTTGAAAAC
*
49424643 ACCGGA-ATTTTTGAAAAC
1 A-CGAAGATTTTTGAAAAC
49424661 ACGAAGATTTTTG-AAAC
1 ACGAAGATTTTTGAAAAC
*** *
49424678 ACGATTTTTTTTAAAAAC
1 ACGAAGATTTTTGAAAAC
* * *
49424696 AAGAAAATTTGTGAAAAC
1 ACGAAGATTTTTGAAAAC
* *
49424714 ATGAAGATTTGTGAAAAC
1 ACGAAGATTTTTGAAAAC
49424732 ACG
1 ACG
49424735 GAATTTTTTT
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
17 23 0.32
18 49 0.68
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
ACGAAGATTTTTGAAAAC
Found at i:49424907 original size:20 final size:20
Alignment explanation
Indices: 49424882--49424920 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49424872 CGTGATTCTA
*
49424882 TTAAAACACGAGAATTTTTT
1 TTAAAACACGAAAATTTTTT
*
49424902 TTAAAACATGAAAATTTTT
1 TTAAAACACGAAAATTTTT
49424921 GAATATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (20 bp):
TTAAAACACGAAAATTTTTT
Found at i:49425246 original size:7 final size:7
Alignment explanation
Indices: 49425234--49425301 Score: 66
Period size: 7 Copynumber: 9.7 Consensus size: 7
49425224 CTTGGGCCCC
49425234 TTTTTCT
1 TTTTTCT
49425241 TTTTTCT
1 TTTTTCT
*
49425248 TTCTTCT
1 TTTTTCT
*
49425255 TTTTTAT
1 TTTTTCT
*
49425262 TTTTTAT
1 TTTTTCT
49425269 TTTTT-T
1 TTTTTCT
*
49425275 TCTCTTCT
1 T-TTTTCT
49425283 TTTTTCT
1 TTTTTCT
**
49425290 TTCCTCT
1 TTTTTCT
49425297 TTTTT
1 TTTTT
49425302 TGGGCCTTCT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
6 2 0.04
7 46 0.92
8 2 0.04
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:49425273 original size:28 final size:28
Alignment explanation
Indices: 49425234--49425287 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
49425224 CTTGGGCCCC
*
49425234 TTTTTCTTTTTTCTT-TCTTCTTTTTTAT
1 TTTTTATTTTTT-TTCTCTTCTTTTTTAT
49425262 TTTTTATTTTTTTTCTCTTCTTTTTT
1 TTTTTATTTTTTTTCTCTTCTTTTTT
49425288 CTTTCCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (28 bp):
TTTTTATTTTTTTTCTCTTCTTTTTTAT
Found at i:49425644 original size:8 final size:8
Alignment explanation
Indices: 49425631--49425658 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
49425621 TTATTTTTAC
49425631 TTTTATTT
1 TTTTATTT
49425639 TTTTATTT
1 TTTTATTT
49425647 TTTTATTT
1 TTTTATTT
49425655 TTTT
1 TTTT
49425659 CCTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:49425664 original size:16 final size:16
Alignment explanation
Indices: 49425631--49425709 Score: 61
Period size: 16 Copynumber: 4.8 Consensus size: 16
49425621 TTATTTTTAC
**
49425631 TTTTATTTTTTTATTT
1 TTTTATTTTTTTCCTT
49425647 TTTTATTTTTTTCCTT
1 TTTTATTTTTTTCCTT
**
49425663 TTTT-TTCTTTCCCCTT
1 TTTTATT-TTTTTCCTT
* *
49425679 TTTTCTTTTCTTCTCTT
1 TTTTATTTTTTTC-CTT
49425696 CTTTTATTCTTTTT
1 -TTTTATT-TTTTT
49425710 TCTTCTCCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
15 2 0.04
16 32 0.65
17 5 0.10
18 6 0.12
19 4 0.08
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTTTCCTT
Found at i:49425846 original size:21 final size:21
Alignment explanation
Indices: 49425822--49425865 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
49425812 CTCTCTGTCC
*
49425822 TTCTTCTTT-GCTGCTTTTTTT
1 TTCTT-TTTGGCTGCTATTTTT
*
49425843 TTCTTTTTGGTTGCTATTTTT
1 TTCTTTTTGGCTGCTATTTTT
49425864 TT
1 TT
49425866 GTTGATTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.02, C:0.14, G:0.11, T:0.73
Consensus pattern (21 bp):
TTCTTTTTGGCTGCTATTTTT
Found at i:49425878 original size:22 final size:23
Alignment explanation
Indices: 49425828--49425900 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 23
49425818 GTCCTTCTTC
* *
49425828 TTTGC-TGCTTTTTTTTTCTT--
1 TTTGCTTGCTATTTTTTTGTTGA
*
49425848 TTTGGTTGCTATTTTTTTGTTGA
1 TTTGCTTGCTATTTTTTTGTTGA
* *
49425871 TTT-CTTGCTGTTTTTTTGTTGC
1 TTTGCTTGCTATTTTTTTGTTGA
49425893 TTTGCTTG
1 TTTGCTTG
49425901 TTTGGGTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 4 0.09
21 13 0.30
22 19 0.44
23 7 0.16
ACGTcount: A:0.03, C:0.11, G:0.18, T:0.68
Consensus pattern (23 bp):
TTTGCTTGCTATTTTTTTGTTGA
Found at i:49426482 original size:30 final size:29
Alignment explanation
Indices: 49426384--49426489 Score: 83
Period size: 30 Copynumber: 3.6 Consensus size: 29
49426374 TAAAAAATAC
* * * *
49426384 GGGCCAAAATGTAATTTCTAGAAAGTTTA
1 GGGCTAAAATATAATTTTTAAAAAGTTTA
**
49426413 GGGGCTTGAATATAA--TTTACAAAA-TATTA
1 -GGGCTAAAATATAATTTTTA-AAAAGT-TTA
*
49426442 GGGGTCAAAATATAATTTTTAAAAAGTTTA
1 GGGCT-AAAATATAATTTTTAAAAAGTTTA
49426472 GGAGCTAAAATATAATTT
1 GG-GCTAAAATATAATTT
49426490 CTATTTTTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
28 8 0.14
29 13 0.22
30 31 0.53
31 7 0.12
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.34
Consensus pattern (29 bp):
GGGCTAAAATATAATTTTTAAAAAGTTTA
Found at i:49427110 original size:75 final size:76
Alignment explanation
Indices: 49426829--49427605 Score: 937
Period size: 76 Copynumber: 10.2 Consensus size: 76
49426819 ATATTTTTTA
* * ** * * * ** * *
49426829 TTTGAAAAACAGAAATCGAAA-ATAGCTTAGTATGCGACCTGAAACTCAACTCACCTCTCGGATT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
49426893 ATGAGTTGATT
66 ATGAGTTGATT
* * ** * *
49426904 TTTGAAAAACAAAAATTGAAAAATACCTCGGTGTGTGACCCGAGGCTCAACTCACCTCTCGTATT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
49426969 ATGTGTTGATT
66 ATGAGTTGATT
* *
49426980 TTTGAGAAAAAAAATAGAAATT-AAAGATGCCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
1 TTT--G---AAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
*
49427044 GCAAAATGAGTTGATT
61 GCAATATGAGTTGATT
* * * * *
49427060 TTTAAAAAACAGAAATT-AAAGATACATTGGTATGTGATCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
49427124 ATAAGTTGATT
66 ATGAGTTGATT
* * *
49427135 TTTAAAAAAATAGAAATT-AAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTT-GAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
49427199 TATGAGTTGATTT
65 TATGAGTTGA-TT
*
49427212 TTTGAAAAACAGAAATTGAAA-ATACCTCAGCA--TGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
49427274 ATGAGTTAATTTT
66 ATGAGTTGA--TT
*
49427287 TTTGAAAAACAGAAATTGAAA-ATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
49427349 ATGAGTTGATT
66 ATGAGTTGATT
* * * * * * *
49427360 TTTTAGAAACATAAATTGAAAAATACCTCGGCGTGTGACCCAAGGCTCAACTCACCTCTCGCATT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
49427425 ATGAGTTGATT
66 ATGAGTTGATT
* * * *
49427436 TTTGAAAAACATAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTTGTAAT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
49427501 ATGAGTTGATTTT
66 ATGAGTTGA--TT
* *
49427514 TTTGAAAAATAGAAATTG-AAGAATACCTCGGCATATGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTGAAAG-ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
*
49427578 TATGAGCTGATTT
65 TATGAGTTGA-TT
49427591 TTTGAAAAACAGAAA
1 TTTGAAAAACAGAAA
49427606 AAGAAATGGT
Statistics
Matches: 622, Mismatches: 63, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
73 20 0.03
74 47 0.08
75 157 0.25
76 240 0.39
77 27 0.04
78 67 0.11
80 53 0.09
81 11 0.02
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (76 bp):
TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATT
Found at i:49427350 original size:225 final size:226
Alignment explanation
Indices: 49426873--49427606 Score: 955
Period size: 225 Copynumber: 3.2 Consensus size: 226
49426863 CGACCTGAAA
* *
49426873 CTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACA-AAAATTGAAAAATACCTCGGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAAACATAAAATTGAAAAATACCTCGGTG
* * * *
49426937 TGTGACCCGAGGCTCAACTCACCTCTCGTATTATGTGTTGATTTTTGAGAAAAAAAATAGAAATT
65 TGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT-TG---AAAAACAGAAATT
* * *
49427002 -AAAGATGCCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAAATGAGTTGA--TTTTTA
126 GAAA-ATACCTCGGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * * *
49427064 AAAAACAGAAATT-AAAGATACATTGGTATGTGATCCGAGG
189 AAAAACAGAAATTGAAA-ATACCTCGG--CGTGACCCGAGG
* * * *
49427104 CTCAACTCACCTCTCGCAATATAAGTTGATTTTTAAAAAAATAGAAATT-AAAGATACCTCGGTA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACATA-AAATTGAAAAATACCTCGGTG
*
49427168 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAA
65 TGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAA
* *
49427233 ATACCTCAGCA-TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAAAC
130 ATACCTCGGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
*
49427297 AGAAATTGAAAATACCTCAGCGTGACCCGAGG
195 AGAAATTGAAAATACCTCGGCGTGACCCGAGG
* *
49427329 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAGAAACAT-AAATTGAAAAATACCTCGGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTAAAAACATAAAATTGAAAAATACCTCGGTG
* *
49427393 TGTGACCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAACATAAATTGAAA
65 TGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTG-AA
* *
49427457 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTTGTAATATGAGTTGATTTTTTTGAAAA
129 AATACCTCGGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
* *
49427522 ATAGAAATTGAAGAATACCTCGGCATATGACCCGAGG
193 ACAGAAATTGAA-AATACCTCGGC--GTGACCCGAGG
* *
49427559 CTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAAAAACAGAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-AAAAACATAAAA
49427607 AGAAATGGTC
Statistics
Matches: 447, Mismatches: 40, Indels: 31
0.86 0.08 0.06
Matches are distributed among these distances:
224 24 0.05
225 139 0.31
226 11 0.02
227 104 0.23
228 16 0.04
230 51 0.11
231 94 0.21
232 8 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (226 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACATAAAATTGAAAAATACCTCGGTGT
GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAA
TACCTCGGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA
GAAATTGAAAATACCTCGGCGTGACCCGAGG
Found at i:49429375 original size:103 final size:104
Alignment explanation
Indices: 49429131--49429396 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
49429121 GTTGTACATA
** *
49429131 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
49429196 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
49429235 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
49429299 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
49429338 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
49429397 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:49436867 original size:103 final size:104
Alignment explanation
Indices: 49436623--49436888 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
49436613 GTTGTACATA
** *
49436623 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
49436688 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
49436727 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
49436792 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
49436830 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
49436889 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:49449711 original size:18 final size:17
Alignment explanation
Indices: 49449633--49449864 Score: 171
Period size: 18 Copynumber: 13.1 Consensus size: 17
49449623 GCACAATAAT
*
49449633 AATTGTTTGAAAACACGTA
1 AATT-TTTG-AAACACGAA
*
49449652 AATTTGTGAAACACGAGA
1 AATTTTTGAAACACGA-A
* * *
49449670 ATTTTTTAAAAACGCGAA
1 AATTTTT-GAAACACGAA
*
49449688 AATTTTTGAAACACAAA
1 AATTTTTGAAACACGAA
* *
49449705 AATTTTTGAAACA-TAGG
1 AATTTTTGAAACACGA-A
49449722 AATTTTTGAAAACACGAA
1 AATTTTTG-AAACACGAA
49449740 AATTTTTGAAACACCGAA
1 AATTTTTGAAACA-CGAA
49449758 AA-TTTTGAAAACACGAA
1 AATTTTTG-AAACACGAA
* * * *
49449775 GAGTTTTGAAACACCAG
1 AATTTTTGAAACACGAA
49449792 AATTTTTGAAAACACGAA
1 AATTTTTG-AAACACGAA
* * *
49449810 GATTTTTGAAGCACGAT
1 AATTTTTGAAACACGAA
** * *
49449827 TTTTTTTAAAAACAAGAA
1 AATTTTT-GAAACACGAA
*
49449845 AATTTGTGAAAACACGAA
1 AATTTTTG-AAACACGAA
49449863 AA
1 AA
49449865 AAACGAAGAT
Statistics
Matches: 167, Mismatches: 35, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
16 1 0.01
17 75 0.45
18 79 0.47
19 12 0.07
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (17 bp):
AATTTTTGAAACACGAA
Found at i:49449833 original size:35 final size:34
Alignment explanation
Indices: 49449633--49449863 Score: 187
Period size: 35 Copynumber: 6.5 Consensus size: 34
49449623 GCACAATAAT
*
49449633 AATTGTTTGAAAACACGTAAATTTGTG-AAACACGAGA
1 AATT-TTTG-AAACACG-AAATTTTTGAAAACACGA-A
* * * *
49449670 ATTTTTTAAAAACGCGAAAATTTTTG-AAACACAAA
1 AATTTTT-GAAACACG-AAATTTTTGAAAACACGAA
* *
49449705 AATTTTTGAAACATAGGAATTTTTGAAAACACGAA
1 AATTTTTGAAACA-CGAAATTTTTGAAAACACGAA
*
49449740 AATTTTTGAAACACCGAAAATTTTGAAAACACGAA
1 AATTTTTGAAACA-CGAAATTTTTGAAAACACGAA
* * *
49449775 GAGTTTTGAAACACCAGAATTTTTGAAAACACGAA
1 AATTTTTGAAACACGA-AATTTTTGAAAACACGAA
* * ** * *
49449810 GATTTTTGAAGCACGATTTTTTTTAAAAACAAGAA
1 AATTTTTGAAACACGA-AATTTTTGAAAACACGAA
*
49449845 AATTTGTGAAAACACGAAA
1 AATTTTTG-AAACACGAAA
49449864 AAAACGAAGA
Statistics
Matches: 156, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
34 14 0.09
35 108 0.69
36 31 0.20
37 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.29
Consensus pattern (34 bp):
AATTTTTGAAACACGAAATTTTTGAAAACACGAA
Found at i:49450409 original size:16 final size:15
Alignment explanation
Indices: 49450375--49450421 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
49450365 CTTGGGCCTC
*
49450375 TTCTTTTTTTCTTTTT
1 TTCTTCTTTT-TTTTT
49450391 TTC-TCTTCTTTTTTCT
1 TTCTTCTT-TTTTTT-T
49450407 TTCTTCTTTTTTTTT
1 TTCTTCTTTTTTTTT
49450422 GGCCTGTTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 8 0.30
16 15 0.56
17 4 0.15
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTCTTCTTTTTTTTT
Found at i:49450411 original size:14 final size:13
Alignment explanation
Indices: 49450383--49450419 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
49450373 TCTTCTTTTT
49450383 TTCTTTTTTTCTC
1 TTCTTTTTTTCTC
*
49450396 TTCTTTTTTCTTTC
1 TTCTTTTTT-TCTC
49450410 TTCTTTTTTT
1 TTCTTTTTTT
49450420 TTGGCCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTCTTTTTTTCTC
Found at i:49450807 original size:13 final size:13
Alignment explanation
Indices: 49450781--49450845 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
49450771 TTTTTTATTT
49450781 TTTTCTTCTTTTTC
1 TTTTCTT-TTTTTC
*
49450795 TTCTCTTTTTTTC
1 TTTTCTTTTTTTC
* *
49450808 TTTCCCTTTTTTC
1 TTTTCTTTTTTTC
* *
49450821 TTTTCTTCTGTTC
1 TTTTCTTTTTTTC
49450834 TTTTCTTTTTTT
1 TTTTCTTTTTTT
49450846 TCCTTCTCTA
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
13 35 0.85
14 6 0.15
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:49450818 original size:26 final size:27
Alignment explanation
Indices: 49450789--49450854 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
49450779 TTTTTTCTTC
* *
49450789 TTTTTCTTCTCTTTTTTTC-TTTCCCT
1 TTTTTCTTCTCTTCTGTTCTTTTCCCT
* **
49450815 TTTTTCTTTTCTTCTGTTCTTTTCTTT
1 TTTTTCTTCTCTTCTGTTCTTTTCCCT
49450842 TTTTTCCTTCTCT
1 TTTTT-CTTCTCT
49450855 AAACCCTAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 16 0.50
27 10 0.31
28 6 0.19
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (27 bp):
TTTTTCTTCTCTTCTGTTCTTTTCCCT
Found at i:49450825 original size:31 final size:33
Alignment explanation
Indices: 49450781--49450841 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
49450771 TTTTTTATTT
*
49450781 TTTTCTTCTTTTTCTTCTCTTTTTTTCTTTCCC
1 TTTTCTTCTTTTTCTTCTCTTCTTTTCTTTCCC
*
49450814 TTTT-TTC-TTTTCTTCTGTTCTTTTCTTT
1 TTTTCTTCTTTTTCTTCTCTTCTTTTCTTT
49450842 TTTTTCCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 19 0.73
32 3 0.12
33 4 0.15
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (33 bp):
TTTTCTTCTTTTTCTTCTCTTCTTTTCTTTCCC
Found at i:49450845 original size:8 final size:8
Alignment explanation
Indices: 49450765--49450845 Score: 56
Period size: 8 Copynumber: 9.5 Consensus size: 8
49450755 CTATTTTTAC
*
49450765 TTTTATTT
1 TTTTCTTT
*
49450773 TTTTATTT
1 TTTTCTTT
49450781 TTTTCTTCT
1 TTTTCTT-T
49450790 TTTTCTTCT
1 TTTTCTT-T
49450799 CTTTT-TTT
1 -TTTTCTTT
* *
49450807 CTTTCCCTT
1 -TTTTCTTT
49450816 TTTTCTTT
1 TTTTCTTT
*
49450824 TCTTCTGTT
1 TTTTCT-TT
49450833 CTTTTCTTT
1 -TTTTCTTT
49450842 TTTT
1 TTTT
49450846 TCCTTCTCTA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
8 34 0.56
9 18 0.30
10 9 0.15
ACGTcount: A:0.02, C:0.17, G:0.01, T:0.79
Consensus pattern (8 bp):
TTTTCTTT
Found at i:49450995 original size:19 final size:20
Alignment explanation
Indices: 49450959--49451002 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
49450949 TTCTCTCTCA
49450959 TTTTTCTTCTTTGCTGCT-T
1 TTTTTCTTCTTTGCTGCTAT
*
49450978 TTTTTCTT-TTTGGTTGCTAT
1 TTTTTCTTCTTT-GCTGCTAT
49450998 TTTTT
1 TTTTT
49451003 TTGTTGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 13 0.59
20 6 0.27
ACGTcount: A:0.02, C:0.14, G:0.11, T:0.73
Consensus pattern (20 bp):
TTTTTCTTCTTTGCTGCTAT
Found at i:49451022 original size:22 final size:24
Alignment explanation
Indices: 49450986--49451039 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
49450976 TTTTTTTCTT
*
49450986 TTTGGTTGCTATTTTTTTTGTTGA
1 TTTGCTTGCTATTTTTTTTGTTGA
*
49451010 TTT-CTTGCT-TTTTTTTTGTTGC
1 TTTGCTTGCTATTTTTTTTGTTGA
49451032 TTTGCTTG
1 TTTGCTTG
49451040 TTTGGGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 15 0.56
23 9 0.33
24 3 0.11
ACGTcount: A:0.04, C:0.09, G:0.19, T:0.69
Consensus pattern (24 bp):
TTTGCTTGCTATTTTTTTTGTTGA
Found at i:49451036 original size:19 final size:18
Alignment explanation
Indices: 49450973--49451038 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 18
49450963 TCTTCTTTGC
* *
49450973 TGCTTTTTTTCTTTTTGGT
1 TGCTTTTTTT-TTGTTGTT
49450992 TGCTATTTTTTTTGTTGATTTCT
1 TGCT-TTTTTTTTGTTG---T-T
49451015 TGCTTTTTTTTTGTTGCTT
1 TGCTTTTTTTTTGTTG-TT
49451034 TGCTT
1 TGCTT
49451039 GTTTGGGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 15 0.38
20 7 0.18
22 12 0.31
23 5 0.13
ACGTcount: A:0.03, C:0.11, G:0.15, T:0.71
Consensus pattern (18 bp):
TGCTTTTTTTTTGTTGTT
Found at i:49456860 original size:11 final size:11
Alignment explanation
Indices: 49456844--49456870 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
49456834 TTTACTTTAT
49456844 TTATTTTATTA
1 TTATTTTATTA
49456855 TTATTTTATTA
1 TTATTTTATTA
49456866 TTATT
1 TTATT
49456871 AAAATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:49460688 original size:21 final size:21
Alignment explanation
Indices: 49460659--49460711 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
49460649 GTTCACTATG
*
49460659 TTGCGACATCGACATTCCAG-A
1 TTGCAACATCGACATTCC-GTA
*
49460680 TTGCAACATCAACATTCCGTA
1 TTGCAACATCGACATTCCGTA
49460701 TTGCAACATCG
1 TTGCAACATCG
49460712 TGGCCAGTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (21 bp):
TTGCAACATCGACATTCCGTA
Found at i:49463282 original size:9 final size:9
Alignment explanation
Indices: 49463264--49463339 Score: 91
Period size: 9 Copynumber: 8.4 Consensus size: 9
49463254 TTTGGTTAAA
49463264 AATTAACCG
1 AATTAACCG
*
49463273 AATTACCCG
1 AATTAACCG
*
49463282 AATTAACTG
1 AATTAACCG
*
49463291 AATTAA-CT
1 AATTAACCG
*
49463299 AGATTACCCG
1 A-ATTAACCG
49463309 AATTAACCG
1 AATTAACCG
*
49463318 AATTATCCG
1 AATTAACCG
49463327 AATTAACCG
1 AATTAACCG
49463336 AATT
1 AATT
49463340 GAATCACTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
8 1 0.02
9 52 0.95
10 2 0.04
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:49463482 original size:18 final size:18
Alignment explanation
Indices: 49463442--49463485 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
49463432 AATTTTTATG
**
49463442 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
49463460 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
49463478 CTTGGGTT
1 ATTGGGTT
49463486 TGGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:49468612 original size:3 final size:3
Alignment explanation
Indices: 49468604--49468643 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
49468594 TGAGCTGTCA
49468604 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49468644 GTGCTATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:49472819 original size:7 final size:7
Alignment explanation
Indices: 49472807--49472835 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
49472797 CGACTCCCCA
49472807 TTTATTT
1 TTTATTT
49472814 TTTA-TT
1 TTTATTT
49472820 TTTATTT
1 TTTATTT
49472827 TTTATTT
1 TTTATTT
49472834 TT
1 TT
49472836 GTTTTTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTATTT
Found at i:49472825 original size:13 final size:13
Alignment explanation
Indices: 49472807--49472842 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
49472797 CGACTCCCCA
49472807 TTTATTTTTTATT
1 TTTATTTTTTATT
49472820 TTTATTTTTTATT
1 TTTATTTTTTATT
*
49472833 TTTGTTTTTT
1 TTTATTTTTT
49472843 GTAACCCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:49473934 original size:28 final size:28
Alignment explanation
Indices: 49473866--49473935 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
49473856 CCGAATATAA
* *
49473866 TAAATATATATTTTATATTTTTTTAATTT
1 TAAA-ATAAATTTTTTATTTTTTTAATTT
* *
49473895 TAAAAT-ACTTTTTTATTTTTTTATTTT
1 TAAAATAAATTTTTTATTTTTTTAATTT
49473922 TAAAATAAATTTTT
1 TAAAATAAATTTTT
49473936 GGTGTTTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.66
28 8 0.23
29 4 0.11
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (28 bp):
TAAAATAAATTTTTTATTTTTTTAATTT
Found at i:49486418 original size:35 final size:35
Alignment explanation
Indices: 49486339--49486410 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 35
49486329 CTTTTGTGCC
* *
49486339 TTTTT-TTTTTATTTTTAATCTCCCTTCTTCAAAA
1 TTTTTATTTTTAATTTTAATCTCCCTTCTACAAAA
*
49486373 TTTTTATTTTTAATTTT-ATCTTCCTTCTACAAAA
1 TTTTTATTTTTAATTTTAATCTCCCTTCTACAAAA
49486407 TTTT
1 TTTT
49486411 ACCTTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 24 0.71
35 10 0.29
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.62
Consensus pattern (35 bp):
TTTTTATTTTTAATTTTAATCTCCCTTCTACAAAA
Found at i:49489304 original size:29 final size:29
Alignment explanation
Indices: 49489271--49489326 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
49489261 ACAAGAATGC
*
49489271 TTGATTTTATTGATTATGATTAGGTTTAG
1 TTGATTTTATTGATTAAGATTAGGTTTAG
* *
49489300 TTGATTTTATTGCTTAAGTTTAGGTTT
1 TTGATTTTATTGATTAAGATTAGGTTT
49489327 TTAGATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.02, G:0.20, T:0.57
Consensus pattern (29 bp):
TTGATTTTATTGATTAAGATTAGGTTTAG
Found at i:49491472 original size:6 final size:6
Alignment explanation
Indices: 49491463--49491497 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
49491453 ATAGAAGTAG
49491463 AACATT AACATT AACATT AACATT AACATT AACAT
1 AACATT AACATT AACATT AACATT AACATT AACAT
49491498 CCTTCCCCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.31
Consensus pattern (6 bp):
AACATT
Found at i:49496703 original size:27 final size:27
Alignment explanation
Indices: 49496646--49496697 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
49496636 TAGATTAAGA
*
49496646 TTTGATTTTAATTATTATTATTTAAATT
1 TTTG-TTTTAATTATTATTACTTAAATT
49496674 TTTGTTTTAATT-TTA-TACTTAAAT
1 TTTGTTTTAATTATTATTACTTAAAT
49496698 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 3 0.13
27 8 0.35
28 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTGTTTTAATTATTATTACTTAAATT
Found at i:49497437 original size:16 final size:16
Alignment explanation
Indices: 49497416--49497447 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49497406 ATAACCTAAG
49497416 GGAAACAAAAGTGATT
1 GGAAACAAAAGTGATT
49497432 GGAAACAAAAGTGATT
1 GGAAACAAAAGTGATT
49497448 ATTTTGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.25, T:0.19
Consensus pattern (16 bp):
GGAAACAAAAGTGATT
Found at i:49497587 original size:22 final size:21
Alignment explanation
Indices: 49497562--49497623 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 21
49497552 AATTATAAAT
49497562 TATTGATATTATTTAAATAATA
1 TATT-ATATTATTTAAATAATA
*
49497584 TATTACA--ATTTAAA-AATTA
1 TATTATATTATTTAAATAA-TA
49497603 TATTATATT-TTTGAAATAATA
1 TATTATATTATTT-AAATAATA
49497624 AAAAAGAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
18 2 0.06
19 15 0.45
20 3 0.09
21 7 0.21
22 6 0.18
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (21 bp):
TATTATATTATTTAAATAATA
Found at i:49498278 original size:21 final size:20
Alignment explanation
Indices: 49498253--49498291 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49498243 TCTAATTTCG
*
49498253 AATTTAATAAATTTTTATTCA
1 AATTT-ATAAAATTTTATTCA
*
49498274 AATTTTTAAAATTTTATT
1 AATTTATAAAATTTTATT
49498292 TGTAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTATAAAATTTTATTCA
Found at i:49501440 original size:32 final size:32
Alignment explanation
Indices: 49501404--49501467 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
49501394 GCAAGTAAGC
49501404 TAACTGAAGCTTAGTAAGTGCAATTAGTTAAA
1 TAACTGAAGCTTAGTAAGTGCAATTAGTTAAA
*
49501436 TAACTGAAGCTTAGTAAGTTCAATTAGTTAAA
1 TAACTGAAGCTTAGTAAGTGCAATTAGTTAAA
49501468 CATAAATCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (32 bp):
TAACTGAAGCTTAGTAAGTGCAATTAGTTAAA
Found at i:49501716 original size:21 final size:21
Alignment explanation
Indices: 49501688--49501882 Score: 133
Period size: 21 Copynumber: 9.3 Consensus size: 21
49501678 AAGTCTGAAG
49501688 GCTAAACAGAAGCTCATAAGA
1 GCTAAACAGAAGCTCATAAGA
* * * *
49501709 GATAAACAGAAACCCATAAGG
1 GCTAAACAGAAGCTCATAAGA
* * *
49501730 GTTGAACGGAAGCTCATAAGA
1 GCTAAACAGAAGCTCATAAGA
* * *
49501751 GCTAAAC-GAAAACCCATAAGG
1 GCTAAACAG-AAGCTCATAAGA
* *
49501772 GTTAAACAGAAGCTCAAAAGA
1 GCTAAACAGAAGCTCATAAGA
* * * * *
49501793 GCTTAACGGAAACCCATAAGG
1 GCTAAACAGAAGCTCATAAGA
*
49501814 GTTAAACAGAAGCTCA-ATAGA
1 GCTAAACAGAAGCTCATA-AGA
* * *
49501835 GCTAAACAAAAACTCATATGA
1 GCTAAACAGAAGCTCATAAGA
* * * *
49501856 GTTGAATAGAAGCTCATGAGA
1 GCTAAACAGAAGCTCATAAGA
49501877 GCTAAA
1 GCTAAA
49501883 TGGAAAGTAA
Statistics
Matches: 124, Mismatches: 46, Indels: 8
0.70 0.26 0.04
Matches are distributed among these distances:
20 2 0.02
21 120 0.97
22 2 0.02
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (21 bp):
GCTAAACAGAAGCTCATAAGA
Found at i:49501744 original size:42 final size:42
Alignment explanation
Indices: 49501690--49501882 Score: 237
Period size: 42 Copynumber: 4.6 Consensus size: 42
49501680 GTCTGAAGGC
*
49501690 TAAACAGAAGCTCATAAGAGATAAACAGAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* *
49501732 TGAACGGAAGCTCATAAGAGCTAAAC-GAAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACAG-AAACCCATAAGGGT
* * *
49501774 TAAACAGAAGCTCAAAAGAGCTTAACGGAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * * *
49501816 TAAACAGAAGCTCA-ATAGAGCTAAACAAAAACTCATATGAGT
1 TAAACAGAAGCTCATA-AGAGCTAAACAGAAACCCATAAGGGT
* * *
49501858 TGAATAGAAGCTCATGAGAGCTAAA
1 TAAACAGAAGCTCATAAGAGCTAAA
49501883 TGGAAAGTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.02
42 128 0.98
43 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (42 bp):
TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
Found at i:49508324 original size:41 final size:41
Alignment explanation
Indices: 49508265--49508345 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
49508255 CACATGGCCG
* * * *
49508265 TGTGGTAGGTCATGTGGGTCACGC-AGTCATGTGGTAGACCA
1 TGTGGTAGGCCATATGGGTCACACGA-CCATGTGGTAGACCA
*
49508306 TGTGGTAGGCCGTATGGGTCACACGACCATGTGGTAGACC
1 TGTGGTAGGCCATATGGGTCACACGACCATGTGGTAGACC
49508346 GTATGGGTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.25
Consensus pattern (41 bp):
TGTGGTAGGCCATATGGGTCACACGACCATGTGGTAGACCA
Found at i:49508333 original size:29 final size:29
Alignment explanation
Indices: 49508301--49508380 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 29
49508291 TCATGTGGTA
49508301 GACCATGTGGTAGGCCGTATGGGTCACAC
1 GACCATGTGGTAGGCCGTATGGGTCACAC
*
49508330 GACCATGTGGTAGACCGTATGGGTCACAC
1 GACCATGTGGTAGGCCGTATGGGTCACAC
* *
49508359 AACCCTGTGGTAGGCCGTATGG
1 GACCATGTGGTAGGCCGTATGG
49508381 TGGCCCTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.21
Consensus pattern (29 bp):
GACCATGTGGTAGGCCGTATGGGTCACAC
Found at i:49508433 original size:41 final size:41
Alignment explanation
Indices: 49508335--49508434 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 41
49508325 CACACGACCA
* **
49508335 TGTGGTAGACCGTATGGGTCACACAACCCTGTGGTAGGCCG
1 TGTGGTAGACCGTGTGGGTCACACAACAATGTGGTAGGCCG
* * * * *
49508376 TATGGTGGCCCTTGTGGGTCACACAACAATGTGGTAGGTTC-
1 TGTGGTAGACCGTGTGGGTCACACAACAATGTGGTAGG-CCG
*
49508417 TGTGGCAGACCGTGTGGG
1 TGTGGTAGACCGTGTGGG
49508435 CTATACGAGC
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.36, T:0.25
Consensus pattern (41 bp):
TGTGGTAGACCGTGTGGGTCACACAACAATGTGGTAGGCCG
Found at i:49509824 original size:15 final size:15
Alignment explanation
Indices: 49509783--49509829 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
49509773 CATGCATAAC
49509783 TTGCTTTATACTTTAG
1 TTGCTTT-TACTTTAG
* *
49509799 TTAAC-TATACTTTAG
1 TT-GCTTTTACTTTAG
49509814 TTGCTTTTACTTTAG
1 TTGCTTTTACTTTAG
49509829 T
1 T
49509830 ACTTTAGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
14 1 0.04
15 20 0.80
16 3 0.12
17 1 0.04
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (15 bp):
TTGCTTTTACTTTAG
Found at i:49510642 original size:18 final size:18
Alignment explanation
Indices: 49510600--49510636 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
49510590 AATTGTACCT
* *
49510600 TACTTAAGTGTTTGGTTG
1 TACTTGAGTGTTTGATTG
49510618 TACTTGAGTGTTTGATTG
1 TACTTGAGTGTTTGATTG
49510636 T
1 T
49510637 CGTTGAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.05, G:0.27, T:0.51
Consensus pattern (18 bp):
TACTTGAGTGTTTGATTG
Found at i:49510766 original size:23 final size:23
Alignment explanation
Indices: 49510736--49510785 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
49510726 AAGTTTATTA
* *
49510736 GAAA-ATTGTTTGG-TTTGGGAGT
1 GAAATATTGTCTGGATTT-GGACT
49510758 GAAATATTGTCTGGATTTGGACT
1 GAAATATTGTCTGGATTTGGACT
49510781 GAAAT
1 GAAAT
49510786 TAGAGTTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.17
23 17 0.71
24 3 0.12
ACGTcount: A:0.28, C:0.04, G:0.30, T:0.38
Consensus pattern (23 bp):
GAAATATTGTCTGGATTTGGACT
Found at i:49512049 original size:29 final size:28
Alignment explanation
Indices: 49512013--49512110 Score: 115
Period size: 29 Copynumber: 3.4 Consensus size: 28
49512003 TGTCACATGG
49512013 CCATGTGGTAGCTCGTGTGGGTTACACAA
1 CCATGTGGTAGC-CGTGTGGGTTACACAA
* *
49512042 CCGTGTGGTAGGCCGTGTGGGTTACACAG
1 CCATGTGGTA-GCCGTGTGGGTTACACAA
* * *
49512071 CCATATGGTAGCCTGTGTGGGTCACACGA
1 CCATGTGGTAGCC-GTGTGGGTTACACAA
*
49512100 CCATATGGTAG
1 CCATGTGGTAG
49512111 ATTGTATGGG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
28 3 0.05
29 55 0.92
30 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (28 bp):
CCATGTGGTAGCCGTGTGGGTTACACAA
Found at i:49512120 original size:29 final size:29
Alignment explanation
Indices: 49512071--49512126 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
49512061 GGTTACACAG
* *
49512071 CCATATGGTAGCCTGTGTGGGTCACACGA
1 CCATATGGTAGACTGTATGGGTCACACGA
*
49512100 CCATATGGTAGATTGTATGGGTCACAC
1 CCATATGGTAGACTGTATGGGTCACAC
49512127 AATAATGTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (29 bp):
CCATATGGTAGACTGTATGGGTCACACGA
Found at i:49513211 original size:25 final size:25
Alignment explanation
Indices: 49513182--49513252 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 25
49513172 TCTGTTGATA
* *
49513182 GCTCTTCGGAGCATCCCGATTAAAG
1 GCTCTTTGGAGCTTCCCGATTAAAG
** *
49513207 GCTCTTTGTGAGCTTCCTAATTAATG
1 GCTCTTTG-GAGCTTCCCGATTAAAG
49513233 GCTCTTTGGAGCTTCCCGAT
1 GCTCTTTGGAGCTTCCCGAT
49513253 ATTGGCTCGC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 17 0.45
26 21 0.55
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (25 bp):
GCTCTTTGGAGCTTCCCGATTAAAG
Found at i:49523609 original size:37 final size:37
Alignment explanation
Indices: 49523568--49523781 Score: 392
Period size: 37 Copynumber: 5.8 Consensus size: 37
49523558 TTTGAGTACT
49523568 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
49523605 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
49523642 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
49523679 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
*
49523716 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
** *
49523753 TCTGATCAAGTGATAAAGTGATAAGTGGT
1 TCTGATCAAGAAACAAAGTGATAAGTGGT
49523782 AGCTTTAGCT
Statistics
Matches: 172, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 172 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
Found at i:49523851 original size:45 final size:46
Alignment explanation
Indices: 49523743--49523866 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
49523733 GTGATAAGTG
* *
49523743 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
*
49523789 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGC-CTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
49523834 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
49523867 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 22 0.30
46 40 0.54
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
Found at i:49528312 original size:18 final size:21
Alignment explanation
Indices: 49528291--49528335 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
49528281 GATAATAGCA
49528291 ATAACAATA-T-AAAA-AATG
1 ATAACAATAGTAAAAATAATG
*
49528309 ATAATAATAGTAAAAATAATG
1 ATAACAATAGTAAAAATAATG
49528330 ATAACA
1 ATAACA
49528336 TTATTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 8 0.36
19 1 0.05
20 4 0.18
21 9 0.41
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.24
Consensus pattern (21 bp):
ATAACAATAGTAAAAATAATG
Found at i:49529916 original size:44 final size:44
Alignment explanation
Indices: 49529868--49530026 Score: 171
Period size: 44 Copynumber: 3.5 Consensus size: 44
49529858 TAATCCGCTT
49529868 CACTGCAACTTC-AGGAAGATAGAATTGATTTCTTCAATCTACTC
1 CACTGCAACTTCAAGG-AGATAGAATTGATTTCTTCAATCTACTC
* * ** *
49529912 CACTGCAACTTCAAGGAGATA-AGATTGGATACGATCATTTTAATCCGCTT
1 CACTGCAACTTCAAGGAGATAGA-ATT-GAT---TTC--TTCAATCTACTC
49529962 CACTGCAACTTC-AGGAAGATAGAATTGATTTCTTCAATCTACTC
1 CACTGCAACTTCAAGG-AGATAGAATTGATTTCTTCAATCTACTC
49530006 CACTGCAACTTCAAGGAGATA
1 CACTGCAACTTCAAGGAGATA
49530027 AGATTGGATA
Statistics
Matches: 94, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
43 1 0.01
44 45 0.48
45 9 0.10
46 2 0.02
48 2 0.02
49 6 0.06
50 28 0.30
51 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (44 bp):
CACTGCAACTTCAAGGAGATAGAATTGATTTCTTCAATCTACTC
Found at i:49529971 original size:50 final size:48
Alignment explanation
Indices: 49529898--49530042 Score: 158
Period size: 44 Copynumber: 3.1 Consensus size: 48
49529888 AGAATTGATT
*
49529898 TCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGATACGA
1 TCTTCAATCCACTCCACTGCAACTTCAAGGAGATAAGATTGGATACGA
* * * *
49529946 TCATTTTAATCCGCTTCACTGCAACTTC-AGGAAGAT-AGAATT-GAT---T
1 TC--TTCAATCCACTCCACTGCAACTTCAAGG-AGATAAG-ATTGGATACGA
*
49529992 TCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGATACGA
1 TCTTCAATCCACTCCACTGCAACTTCAAGGAGATAAGATTGGATACGA
49530040 TCT
1 TCT
49530043 GCTCTACTGC
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
44 27 0.35
45 8 0.10
46 2 0.03
48 5 0.06
49 8 0.10
50 27 0.35
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (48 bp):
TCTTCAATCCACTCCACTGCAACTTCAAGGAGATAAGATTGGATACGA
Found at i:49529984 original size:94 final size:94
Alignment explanation
Indices: 49529851--49530041 Score: 382
Period size: 94 Copynumber: 2.0 Consensus size: 94
49529841 GAAAAGATCC
49529851 ATCATTTTAATCCGCTTCACTGCAACTTCAGGAAGATAGAATTGATTTCTTCAATCTACTCCACT
1 ATCATTTTAATCCGCTTCACTGCAACTTCAGGAAGATAGAATTGATTTCTTCAATCTACTCCACT
49529916 GCAACTTCAAGGAGATAAGATTGGATACG
66 GCAACTTCAAGGAGATAAGATTGGATACG
49529945 ATCATTTTAATCCGCTTCACTGCAACTTCAGGAAGATAGAATTGATTTCTTCAATCTACTCCACT
1 ATCATTTTAATCCGCTTCACTGCAACTTCAGGAAGATAGAATTGATTTCTTCAATCTACTCCACT
49530010 GCAACTTCAAGGAGATAAGATTGGATACG
66 GCAACTTCAAGGAGATAAGATTGGATACG
49530039 ATC
1 ATC
49530042 TGCTCTACTG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 97 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (94 bp):
ATCATTTTAATCCGCTTCACTGCAACTTCAGGAAGATAGAATTGATTTCTTCAATCTACTCCACT
GCAACTTCAAGGAGATAAGATTGGATACG
Found at i:49530732 original size:101 final size:101
Alignment explanation
Indices: 49530264--49531408 Score: 1535
Period size: 101 Copynumber: 11.4 Consensus size: 101
49530254 TCAATTTGTT
* * * * * *
49530264 CGCCAGGG-AAGTAAGATTCACTGTTGTGGCTTCAATCTTTTTAACCGCAATGTCGAGGAAGCAA
1 CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
** *
49530328 GATTCGTTGTTGTAGCTTCAATCTGTTCCACTACAC
66 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * ** * * * * *
49530364 CGTCAGGG-AAGTAAGATTCATTGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGAAAGCAA
1 CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
* *
49530428 GATTCGCCGTTGTAGCTTTAATCTGTTCCACTACAC
66 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * * *
49530464 TGCCAGGG-AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAA
1 CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
* * *
49530528 GATTCACCGTTGTAGCTTTAATCTGTTCCACTGTAC
66 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * * * * * *
49530564 TGTCAGGG-AAGTAAGATTCACCGTTGTTGCTTCAATCTTTTTAATTTCAATGTCGGGGAAGCAA
1 CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
*
49530628 GATTCGCCGTTGTAGCTTCAATCTGTTCTACTGCAC
66 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * *
49530664 CACCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACCGCAATATCGGGGAAGCAA
1 CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
49530729 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
66 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * * *
49530765 TGCCTGGGAAAGTAAAATTCGCTGTTGTAGTTTTAATATTTTCAACTGCAATGTCGAGGAAGCAA
1 CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
*
49530830 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
66 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * * *
49530866 TGCCTGGGAAAGTAAAATTCGCTGTTGTAGTTTTAATATTTTCAACTGCAATGTCGAGGAAGCAA
1 CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
*
49530931 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
66 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * *
49530967 CGCCTGAGAAAGTAAGATTCGTTGTTGTAGCTTCAATCTTTTTAATTTCAATGTCGGGGAAGCAA
1 CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
*
49531032 GATTCGCCGTTGTAGCTTCAATCTGTTCTACTGCAC
66 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * *
49531068 CACCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACCGCAATATCGGGGAAGCAA
1 CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
*
49531133 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAC
66 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * * *
49531169 TGCCTGGGAAAGTAAAATTCGCTGTTGTAGTTTTAATATTTTCAACTGCAATGTCGAGGAAGCAA
1 CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
*
49531234 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
66 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* *
49531270 CGCCTGAGAAAGTAAGATTCGTTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
1 CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
* *
49531335 GATTCGCCGTTGTAGCTTAAATCTATTCCACTGCAC
66 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * *
49531371 CGCCAGGG-AAGTAAGATTCACCGTTGTAGCTTCAATCT
1 CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCT
49531409 ATTCCACTAC
Statistics
Matches: 943, Mismatches: 101, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
100 303 0.32
101 640 0.68
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (101 bp):
CGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
Found at i:49531608 original size:132 final size:131
Alignment explanation
Indices: 49531435--49531754 Score: 451
Period size: 132 Copynumber: 2.4 Consensus size: 131
49531425 AGGGATATGA
* * * *
49531435 GATCTGCAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAAGACTAATGGCTTAAATCTAAT
1 GATCTACAATCTTCGACCTACTCCACTCTT-CTCAGGGAGATAGGACTAATGGCTTAAATCTAAT
* * **
49531500 TCCCTACTACCTTAGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGAC
65 TCCCTACTACCTTAGGAAGAGAAGATTCACCATCTTTGATCTGCTCCACTACAACTTAGGGAGAC
49531565 AG
130 AG
* * * ** * **
49531567 GATCTACAATTTTCGACCTACTCCACTACTTCTTAGAGAGATAGGACTGGTGGTTTAAATCTGCT
1 GATCTACAATCTTCGACCTACTCCACT-CTTCTCAGGGAGATAGGACTAATGGCTTAAATCTAAT
*
49531632 TCCCTACTACCTTGGGAAGAGAAGATTCACCATCTTTGATCTGCTCCACTACAACTTAGGGAGAC
65 TCCCTACTACCTTAGGAAGAGAAGATTCACCATCTTTGATCTGCTCCACTACAACTTAGGGAGAC
49531697 AG
130 AG
*
49531699 GATCTACAATCTTCGACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTT
1 GATCTACAATCTTCGACCTACTCCACT-CTTCTCAGGGAGATAGGACTAATGGCTT
49531755 CACCAATTTG
Statistics
Matches: 162, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
132 160 0.99
133 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (131 bp):
GATCTACAATCTTCGACCTACTCCACTCTTCTCAGGGAGATAGGACTAATGGCTTAAATCTAATT
CCCTACTACCTTAGGAAGAGAAGATTCACCATCTTTGATCTGCTCCACTACAACTTAGGGAGACA
G
Found at i:49532920 original size:6 final size:6
Alignment explanation
Indices: 49532909--49532970 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
49532899 TGGCCTCTCC
* *
49532909 TTTTCT TTTTC- TTTTCT TCTTCT TCTTTC- TTTT-T TCTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTTCT TTTTCT
* *
49532955 TTTTCT CTCTCT TTTT
1 TTTTCT TTTTCT TTTT
49532971 TAAACATTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
5 11 0.25
6 30 0.68
7 3 0.07
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTCT
Found at i:49532934 original size:14 final size:15
Alignment explanation
Indices: 49532910--49532960 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
49532900 GGCCTCTCCT
*
49532910 TTTCTTTTTCTTTTC
1 TTTCTTCTTCTTTTC
49532925 -TTCTTCTTC-TTTC
1 TTTCTTCTTCTTTTC
*
49532938 TTTTTTCTTCTTTTTC
1 TTTCTTCTTC-TTTTC
49532954 TTT-TTCT
1 TTTCTTCT
49532961 CTCTCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 4 0.13
16 7 0.23
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTCTTCTTTTC
Found at i:49532936 original size:20 final size:20
Alignment explanation
Indices: 49532911--49532960 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
49532901 GCCTCTCCTT
49532911 TTCTTTTTCTTTTCTTCTTC
1 TTCTTTTTCTTTTCTTCTTC
*
49532931 TTCTTTCTT-TTTTCTTCTTT
1 TTCTTT-TTCTTTTCTTCTTC
49532951 TTCTTTTTCT
1 TTCTTTTTCT
49532961 CTCTCTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTCTTTTTCTTTTCTTCTTC
Found at i:49532967 original size:28 final size:27
Alignment explanation
Indices: 49532903--49532971 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
49532893 TCACCTTGGC
*
49532903 CTCTC-CTTTTCTTTTTCTTTTCTTCTT
1 CTCTCTCTTTT-TTCTTCTTTTCTTCTT
* *
49532930 CTTCTTTCTTTTTTCTTCTTTTTCTTTTT
1 C-TCTCTCTTTTTTCTTC-TTTTCTTCTT
49532959 CTCTCTCTTTTTT
1 CTCTCTCTTTTTT
49532972 AAACATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 1 0.03
28 19 0.54
29 15 0.43
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (27 bp):
CTCTCTCTTTTTTCTTCTTTTCTTCTT
Found at i:49532969 original size:17 final size:15
Alignment explanation
Indices: 49532911--49532960 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 15
49532901 GCCTCTCCTT
49532911 TTCTTTTTCTTTTCTTC
1 TTCTTTTTC-TTT-TTC
49532928 TTCTTCTTTCTTTTTTC
1 TTCTT-TTTC-TTTTTC
49532945 TTCTTTTTCTTTTTC
1 TTCTTTTTCTTTTTC
49532960 T
1 T
49532961 CTCTCTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.22
16 4 0.12
17 13 0.41
18 8 0.25
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTCTTTTTCTTTTTC
Found at i:49532971 original size:20 final size:20
Alignment explanation
Indices: 49532909--49532971 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 20
49532899 TGGCCTCTCC
*
49532909 TTTTCTTTTTCTTTTCTTCTTCT
1 TTTTCTTTTTC-TCTC-TCTT-T
49532932 TCTTTCTTTTT-TCT-TC--T
1 T-TTTCTTTTTCTCTCTCTTT
49532949 TTTTCTTTTTCTCTCTCTTT
1 TTTTCTTTTTCTCTCTCTTT
49532969 TTT
1 TTT
49532972 AAACATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
16 9 0.26
17 5 0.15
18 2 0.06
20 6 0.18
22 2 0.06
23 1 0.03
24 9 0.26
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTCTCTCTCTTT
Found at i:49533933 original size:25 final size:23
Alignment explanation
Indices: 49533886--49533936 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
49533876 AGAAAGAATG
*
49533886 AAAGAATAAAAATAATTATTCAA
1 AAAGAATAAAAATAATTACTCAA
*
49533909 AAAGAATGAAAGAATATTTACTCAA
1 AAAGAAT-AAA-AATAATTACTCAA
49533934 AAA
1 AAA
49533937 TGATCGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.29
24 3 0.12
25 14 0.58
ACGTcount: A:0.63, C:0.06, G:0.08, T:0.24
Consensus pattern (23 bp):
AAAGAATAAAAATAATTACTCAA
Found at i:49541558 original size:5 final size:5
Alignment explanation
Indices: 49541548--49541586 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
49541538 GCCTAAGATG
* *
49541548 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
49541587 GTTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:49548598 original size:103 final size:99
Alignment explanation
Indices: 49548406--49548634 Score: 219
Period size: 103 Copynumber: 2.3 Consensus size: 99
49548396 CAATGTTTAA
* * * * * * **
49548406 ATGTAAGACCATAGCTGGGTTATGGCATTTTAATGAAAAGACAATAATTGGGTTATGGCACCTTG
1 ATGTAATACCATAGTTGGGCTATGGCATTATAATGAAAAGACAATAACTGGATTATGGCACCTCA
* ** *
49548471 AACGTAAGACCATGGTTGGACCATGACAGTATATAT
66 AACATAAGACCATGGAAGGACCATGACA--ATACAT
* * *
49548507 ACATGTAATACCATAGTTGGGCTATGGCATTATGATGATAAGACCATAACTGGATTATGGCA-CT
1 --ATGTAATACCATAGTTGGGCTATGGCATTATAATGAAAAGACAATAACTGGATTATGGCACCT
* * *
49548571 ACAAATATAAGACCATGGCAAGG-CCATGGCAATGCAT
64 -CAAACATAAGACCATGG-AAGGACCATGACAATACAT
*
49548608 ATGTAATACCATAGTTGGACTATGGCA
1 ATGTAATACCATAGTTGGGCTATGGCA
49548635 CAAAAAGAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
99 26 0.25
101 4 0.04
102 2 0.02
103 71 0.68
104 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (99 bp):
ATGTAATACCATAGTTGGGCTATGGCATTATAATGAAAAGACAATAACTGGATTATGGCACCTCA
AACATAAGACCATGGAAGGACCATGACAATACAT
Found at i:49554855 original size:12 final size:12
Alignment explanation
Indices: 49554838--49554878 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 12
49554828 ACTAATCCTA
49554838 TCTCAAATTTCC
1 TCTCAAATTTCC
*
49554850 TCTC-AATTTCT
1 TCTCAAATTTCC
49554861 TCT-AAATTTCC
1 TCTCAAATTTCC
49554872 TCTCAAA
1 TCTCAAA
49554879 AGCGCATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (12 bp):
TCTCAAATTTCC
Found at i:49555375 original size:16 final size:16
Alignment explanation
Indices: 49555356--49555386 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49555346 CCTAAACTAA
*
49555356 TAAAGTAATAAATTAT
1 TAAACTAATAAATTAT
49555372 TAAACTAATAAATTA
1 TAAACTAATAAATTA
49555387 ACACATAATA
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:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (16 bp):
TAAACTAATAAATTAT
Found at i:49557110 original size:11 final size:11
Alignment explanation
Indices: 49557090--49557119 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
49557080 TTTAAAAATA
49557090 AAAAAGTATTTT
1 AAAAA-TATTTT
49557102 AAAAATATTTT
1 AAAAATATTTT
49557113 AAAAATA
1 AAAAATA
49557120 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:49565468 original size:29 final size:29
Alignment explanation
Indices: 49565431--49565486 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
49565421 ATTTATTACA
**
49565431 GTTAAGTGGGGTGATTTAGGGTTTAAATG
1 GTTAAGTGGAATGATTTAGGGTTTAAATG
* *
49565460 GTTAGGTGGAATGATTTCGGGTTTAAA
1 GTTAAGTGGAATGATTTAGGGTTTAAA
49565487 ATAAATGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.36, T:0.38
Consensus pattern (29 bp):
GTTAAGTGGAATGATTTAGGGTTTAAATG
Found at i:49566650 original size:28 final size:28
Alignment explanation
Indices: 49566589--49566648 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
49566579 TCACCAAAGC
* *
49566589 TTTTTGTGTTTGTTTCCTTATTACATGT
1 TTTTTGTGTTTGTTTCCTTATCAAATGT
* *
49566617 GTTTTGTGTTTGTTTCCTT-TCAAATTT
1 TTTTTGTGTTTGTTTCCTTATCAAATGT
49566644 TTTTT
1 TTTTT
49566649 TGAAGTGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.10, C:0.10, G:0.13, T:0.67
Consensus pattern (28 bp):
TTTTTGTGTTTGTTTCCTTATCAAATGT
Found at i:49568613 original size:18 final size:16
Alignment explanation
Indices: 49568590--49568623 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
49568580 AGTAAAATAT
49568590 AAATTACAAACATAAAAA
1 AAATTA-AAACA-AAAAA
49568608 AAATTAAAACAAAAAA
1 AAATTAAAACAAAAAA
49568624 CTCCAACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (16 bp):
AAATTAAAACAAAAAA
Found at i:49568623 original size:17 final size:18
Alignment explanation
Indices: 49568590--49568623 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
49568580 AGTAAAATAT
*
49568590 AAATTACAAACATAAAAA
1 AAATTACAAACAAAAAAA
49568608 AAATTA-AAACAAAAAA
1 AAATTACAAACAAAAAA
49568624 CTCCAACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (18 bp):
AAATTACAAACAAAAAAA
Found at i:49575135 original size:56 final size:56
Alignment explanation
Indices: 49575049--49575160 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
49575039 TTACGATGTA
49575049 GGAGAGGCTATTTATATTAAATATGTTTTTGTTATCTTATAGTAAAGTCCCAAACT
1 GGAGAGGCTATTTATATTAAATATGTTTTTGTTATCTTATAGTAAAGTCCCAAACT
*
49575105 GGAGAGGCTATTTATATTAACTATGTTTTTGTTATCTTATAGTAAAGTCCCAAACT
1 GGAGAGGCTATTTATATTAAATATGTTTTTGTTATCTTATAGTAAAGTCCCAAACT
49575161 TTGAGGGGGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (56 bp):
GGAGAGGCTATTTATATTAAATATGTTTTTGTTATCTTATAGTAAAGTCCCAAACT
Found at i:49578331 original size:15 final size:15
Alignment explanation
Indices: 49578311--49578340 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49578301 TAATCCTTAA
*
49578311 TAATTATCTTAATAT
1 TAATTATCCTAATAT
49578326 TAATTATCCTAATAT
1 TAATTATCCTAATAT
49578341 GATTAAAATA
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:49581826 original size:18 final size:18
Alignment explanation
Indices: 49581803--49581839 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
49581793 TACCTAGCTT
*
49581803 TCAATATCGATACCAAAA
1 TCAATATCGAGACCAAAA
49581821 TCAATATCGAGACCAAAA
1 TCAATATCGAGACCAAAA
49581839 T
1 T
49581840 TGTAACACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.08, T:0.22
Consensus pattern (18 bp):
TCAATATCGAGACCAAAA
Found at i:49591306 original size:16 final size:16
Alignment explanation
Indices: 49591285--49591318 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
49591275 CAGAAAACTA
49591285 AAAGTCTTCCAGTTTC
1 AAAGTCTTCCAGTTTC
*
49591301 AAAGTCTTCTAGTTTC
1 AAAGTCTTCCAGTTTC
49591317 AA
1 AA
49591319 CGTCCAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (16 bp):
AAAGTCTTCCAGTTTC
Found at i:49596161 original size:18 final size:18
Alignment explanation
Indices: 49596138--49596172 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
49596128 CCCAGCTTTT
49596138 AATATCGATACCAAAATC
1 AATATCGATACCAAAATC
49596156 AATATCGATACCAAAAT
1 AATATCGATACCAAAAT
49596173 TGCTTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.23
Consensus pattern (18 bp):
AATATCGATACCAAAATC
Found at i:49602926 original size:23 final size:23
Alignment explanation
Indices: 49602900--49602947 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
49602890 AATTAGTACC
49602900 TGATAGAATAACATTATGACACG
1 TGATAGAATAACATTATGACACG
*
49602923 TGATGGAATAACATTATGACACG
1 TGATAGAATAACATTATGACACG
49602946 TG
1 TG
49602948 GCATAAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (23 bp):
TGATAGAATAACATTATGACACG
Found at i:49604037 original size:12 final size:11
Alignment explanation
Indices: 49604003--49604049 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
49603993 GAAAAATAAA
49604003 TATTTTTTA-T
1 TATTTTTTATT
49604013 TATTTTTTA--
1 TATTTTTTATT
49604022 -ATTTTTTAATT
1 TATTTTTT-ATT
49604033 TATTTTTTATT
1 TATTTTTTATT
49604044 T-TTTTT
1 TATTTTT
49604050 CAAATGATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 7 0.21
9 1 0.03
10 14 0.42
11 4 0.12
12 7 0.21
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TATTTTTTATT
Found at i:49604038 original size:19 final size:18
Alignment explanation
Indices: 49604004--49604047 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
49603994 AAAAATAAAT
49604004 ATTTTTTATTATTTTTTA
1 ATTTTTTATTATTTTTTA
49604022 ATTTTTTAATTTATTTTTT-
1 ATTTTTT-A-TTATTTTTTA
49604041 ATTTTTT
1 ATTTTTT
49604048 TTCAAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.29
19 8 0.33
20 9 0.38
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
ATTTTTTATTATTTTTTA
Found at i:49609125 original size:24 final size:26
Alignment explanation
Indices: 49609097--49609145 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
49609087 TATATATAAA
49609097 ATTTTAATA-AATAAA-TAAAAATAT
1 ATTTTAATATAATAAATTAAAAATAT
*
49609121 ATTTTTATATAATAAATTAAAAATA
1 ATTTTAATATAATAAATTAAAAATA
49609146 ATATGAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 6 0.27
26 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
ATTTTAATATAATAAATTAAAAATAT
Found at i:49609155 original size:25 final size:25
Alignment explanation
Indices: 49609102--49609155 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
49609092 ATAAAATTTT
* *
49609102 AATA-AATAAATAAAAATATATTTT
1 AATATAATAAATAAAAATATATATG
*
49609126 TATATAATAAATTAAAAATA-ATATG
1 AATATAATAAA-TAAAAATATATATG
49609151 AATAT
1 AATAT
49609156 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 3 0.12
25 13 0.54
26 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
AATATAATAAATAAAAATATATATG
Found at i:49614573 original size:19 final size:18
Alignment explanation
Indices: 49614541--49614588 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
49614531 GTTATTTTAG
*
49614541 TAATTA-TTTT-TAAATT
1 TAATTATTTTTATAAATA
49614557 TAGATTATTTTTATAAATA
1 TA-ATTATTTTTATAAATA
49614576 TAATTTATTTTTA
1 TAA-TTATTTTTA
49614589 GATTAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 2 0.07
17 4 0.15
18 5 0.19
19 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TAATTATTTTTATAAATA
Found at i:49615043 original size:23 final size:22
Alignment explanation
Indices: 49614999--49615043 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
49614989 TTTTTTTACT
* **
49614999 ATTTTTAAATATTTTATTTTTA
1 ATTTTTAAATATTTAAAGTTTA
49615021 ATTTTATAAATATTTAAAGTTTA
1 ATTTT-TAAATATTTAAAGTTTA
49615044 TATATAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTTAAATATTTAAAGTTTA
Found at i:49616513 original size:76 final size:76
Alignment explanation
Indices: 49616386--49616531 Score: 197
Period size: 76 Copynumber: 1.9 Consensus size: 76
49616376 TGTAACGACC
* * *
49616386 CGATAGTCAGGGGTGTCGAAAAGTGCATTCCTGAGATTTCGTTCCCGTAAATCAGACTCGTAAAT
1 CGATAGTCAGGGGTATCGAAAAGTGCATTCCTGAGATCTCATTCCCGTAAATCAGACTCGTAAAT
49616451 ATTTAACAACT
66 ATTTAACAACT
* * * *
49616462 CGATAGTCAGGGGTATCGGAAAGTGTATT-CTCGAGA-CTCTATTCTCGTAAATCGGACTCGTAA
1 CGATAGTCAGGGGTATCGAAAAGTGCATTCCT-GAGATCTC-ATTCCCGTAAATCAGACTCGTAA
49616525 ATATTTA
64 ATATTTA
49616532 TTAAAAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
75 4 0.07
76 57 0.93
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (76 bp):
CGATAGTCAGGGGTATCGAAAAGTGCATTCCTGAGATCTCATTCCCGTAAATCAGACTCGTAAAT
ATTTAACAACT
Found at i:49616850 original size:6 final size:6
Alignment explanation
Indices: 49616834--49616883 Score: 82
Period size: 6 Copynumber: 8.2 Consensus size: 6
49616824 AACTGAAAGG
*
49616834 AAAGAAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAG AAAGAA
1 AAAG-AA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
49616883 A
1 A
49616884 GACGCAAGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 37 0.90
7 4 0.10
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:49617319 original size:19 final size:20
Alignment explanation
Indices: 49617292--49617329 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
49617282 TTTAGGCAAC
*
49617292 TATTGAATA-AAAATTGAAA
1 TATTCAATATAAAATTGAAA
*
49617311 TATTCAATATGAAATTGAA
1 TATTCAATATAAAATTGAA
49617330 TTGTGTTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.34
Consensus pattern (20 bp):
TATTCAATATAAAATTGAAA
Found at i:49617567 original size:5 final size:5
Alignment explanation
Indices: 49617539--49617615 Score: 120
Period size: 5 Copynumber: 15.4 Consensus size: 5
49617529 CACTTTGATT
* *
49617539 ATTGA ATTGA TTTAA AGTTG- ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA
1 ATTGA ATTGA ATTGA A-TTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA
49617589 ATTGA ATTGA ATTGA ATTGA ATTGA AT
1 ATTGA ATTGA ATTGA ATTGA ATTGA AT
49617616 ATGTGTTAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
4 3 0.05
5 61 0.92
6 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (5 bp):
ATTGA
Found at i:49620388 original size:19 final size:17
Alignment explanation
Indices: 49620355--49620389 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
49620345 CTTTATTTTA
49620355 TTTAAGAATAAATTAAG
1 TTTAAGAATAAATTAAG
49620372 TTTATAGAATGAAATTAA
1 TTTA-AGAAT-AAATTAA
49620390 ATCATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (17 bp):
TTTAAGAATAAATTAAG
Found at i:49631673 original size:39 final size:38
Alignment explanation
Indices: 49631619--49631695 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 38
49631609 TTGGCGGCTT
*
49631619 CGTCGTAAGCAGAAGCGGCTTCGACGGCAGTAGGGAAA
1 CGTCGTAAGCAGAAGCAGCTTCGACGGCAGTAGGGAAA
*
49631657 NCGTCGTAAGCCGAAGCAGCTTCGACGGCAGTAGGGAAA
1 -CGTCGTAAGCAGAAGCAGCTTCGACGGCAGTAGGGAAA
49631696 GTGCCGAGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.22, G:0.35, T:0.13
Consensus pattern (38 bp):
CGTCGTAAGCAGAAGCAGCTTCGACGGCAGTAGGGAAA
Found at i:49677106 original size:31 final size:31
Alignment explanation
Indices: 49677068--49677126 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
49677058 AAAAAAACTT
49677068 ACTTAAAT-AAAAGCTTTTGAATAATTTAATG
1 ACTTAAATGAAAA-CTTTTGAATAATTTAATG
* *
49677099 ACTTAAATGAAAATTTTTGAATAGTTTA
1 ACTTAAATGAAAACTTTTGAATAATTTA
49677127 GTGATCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTTGAATAATTTAATG
Found at i:49677241 original size:18 final size:18
Alignment explanation
Indices: 49677214--49677249 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
49677204 ATTATTTGTA
49677214 TTTTTTGTT-AATTTAAT
1 TTTTTTGTTAAATTTAAT
49677231 TTTTTTAGTTAAATTTAAT
1 TTTTTT-GTTAAATTTAAT
49677250 CGTTTACCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTTTTGTTAAATTTAAT
Found at i:49680609 original size:10 final size:10
Alignment explanation
Indices: 49680594--49680619 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
49680584 AAACATGTAT
49680594 TCGAGCGAGA
1 TCGAGCGAGA
49680604 TCGAGCGAGA
1 TCGAGCGAGA
49680614 TCGAGC
1 TCGAGC
49680620 CTACCAAGGC
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:0.27, C:0.23, G:0.38, T:0.12
Consensus pattern (10 bp):
TCGAGCGAGA
Found at i:49683084 original size:27 final size:27
Alignment explanation
Indices: 49683049--49683103 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
49683039 AAACTGTTGG
*
49683049 TTTCATTTTTTCTCTTATTTTCAATTTT
1 TTTCATTTTATCTCTTATTTT-AATTTT
*
49683077 TTTC-TTTTATCTCTTCTTTTAATTTT
1 TTTCATTTTATCTCTTATTTTAATTTT
49683103 T
1 T
49683104 AATTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.28
27 14 0.56
28 4 0.16
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTCATTTTATCTCTTATTTTAATTTT
Found at i:49683338 original size:17 final size:17
Alignment explanation
Indices: 49683316--49683350 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
49683306 GGTGTCTAAA
49683316 AACTATATTTTTAAGTT
1 AACTATATTTTTAAGTT
*
49683333 AACTATGTTTTTAAGTT
1 AACTATATTTTTAAGTT
49683350 A
1 A
49683351 TTCCATGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (17 bp):
AACTATATTTTTAAGTT
Found at i:49684564 original size:31 final size:31
Alignment explanation
Indices: 49684529--49684593 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
49684519 CTTTCAGAGC
49684529 TTTCATTCAAGTCATTGAACTATTTAAAAAT
1 TTTCATTCAAGTCATTGAACTATTTAAAAAT
* * * * *
49684560 TTTCATTTAGGTTATTGAACTATTTGAAAGT
1 TTTCATTCAAGTCATTGAACTATTTAAAAAT
49684591 TTT
1 TTT
49684594 TATTTGAGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (31 bp):
TTTCATTCAAGTCATTGAACTATTTAAAAAT
Found at i:49690419 original size:57 final size:57
Alignment explanation
Indices: 49690357--49690503 Score: 285
Period size: 57 Copynumber: 2.6 Consensus size: 57
49690347 CTGCATTAAT
49690357 TATTTTGCTAAATAATTATTTTATTTCATATATCTCTAATTAATTCAGTTCCTATTA
1 TATTTTGCTAAATAATTATTTTATTTCATATATCTCTAATTAATTCAGTTCCTATTA
49690414 TATTTTGCTAAATAATTATTTTATTTCATATATCTCTAATTAATTCAGTTCCTATTA
1 TATTTTGCTAAATAATTATTTTATTTCATATATCTCTAATTAATTCAGTTCCTATTA
*
49690471 TATTTTGCTAAATAATTATTTTATTTCTTATAT
1 TATTTTGCTAAATAATTATTTTATTTCATATAT
49690504 ATGAGAAAAA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 89 1.00
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.54
Consensus pattern (57 bp):
TATTTTGCTAAATAATTATTTTATTTCATATATCTCTAATTAATTCAGTTCCTATTA
Found at i:49690424 original size:29 final size:29
Alignment explanation
Indices: 49690392--49690487 Score: 101
Period size: 29 Copynumber: 3.3 Consensus size: 29
49690382 TCATATATCT
*
49690392 CTAATTAATTCAGTTCCTATTATATTTTG
1 CTAAATAATTCAGTTCCTATTATATTTTG
* *
49690421 CTAAATAATT-A-TT-TTATTTCATATATCT-
1 CTAAATAATTCAGTTCCTA-TT-ATAT-TTTG
*
49690449 CTAATTAATTCAGTTCCTATTATATTTTG
1 CTAAATAATTCAGTTCCTATTATATTTTG
49690478 CTAAATAATT
1 CTAAATAATT
49690488 ATTTTATTTC
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
26 2 0.04
27 4 0.08
28 16 0.30
29 25 0.47
30 4 0.08
31 2 0.04
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.51
Consensus pattern (29 bp):
CTAAATAATTCAGTTCCTATTATATTTTG
Found at i:49690457 original size:28 final size:28
Alignment explanation
Indices: 49690364--49690503 Score: 103
Period size: 28 Copynumber: 4.9 Consensus size: 28
49690354 AATTATTTTG
49690364 CTAAATAATTATTTTATTTCATATATCT
1 CTAAATAATTATTTTATTTCATATATCT
* * *
49690392 CTAATTAATTCAGTTCCTA-TT-ATAT-TTT
1 CTAAATAATT-A-TT-TTATTTCATATATCT
49690420 GCTAAATAATTATTTTATTTCATATATCT
1 -CTAAATAATTATTTTATTTCATATATCT
* * *
49690449 CTAATTAATTCAGTTCCTA-TT-ATAT-TTT
1 CTAAATAATT-A-TT-TTATTTCATATATCT
*
49690477 GCTAAATAATTATTTTATTTCTTATAT
1 -CTAAATAATTATTTTATTTCATATAT
49690504 ATGAGAAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 27
0.69 0.10 0.22
Matches are distributed among these distances:
26 4 0.05
27 8 0.09
28 31 0.36
29 31 0.36
30 8 0.09
31 4 0.05
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.54
Consensus pattern (28 bp):
CTAAATAATTATTTTATTTCATATATCT
Found at i:49690944 original size:31 final size:31
Alignment explanation
Indices: 49690895--49691036 Score: 122
Period size: 31 Copynumber: 4.6 Consensus size: 31
49690885 AATGATCACC
* *
49690895 GAACTCTTCGAAAGTTTTCATTTAAGTCATT
1 GAACTATTCAAAAGTTTTCATTTAAGTCATT
* *
49690926 GAACTATTCAAAAATTTTCATTTAGGTCATT
1 GAACTATTCAAAAGTTTTCATTTAAGTCATT
* * ** * * ***
49690957 AAACTCTTTGAAAGTTTTTATTTAAATTGCT
1 GAACTATTCAAAAGTTTTCATTTAAGTCATT
* * * * *
49690988 AAATTATTCAAAAGTTCTCATTTAGGTTATT
1 GAACTATTCAAAAGTTTTCATTTAAGTCATT
49691019 GAACTATTCAAAAGTTTT
1 GAACTATTCAAAAGTTTT
49691037 TATGTAAATC
Statistics
Matches: 83, Mismatches: 28, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
31 83 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.44
Consensus pattern (31 bp):
GAACTATTCAAAAGTTTTCATTTAAGTCATT
Found at i:49696857 original size:29 final size:30
Alignment explanation
Indices: 49696819--49696903 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 30
49696809 CACTTTCTCT
49696819 GTAATGTTATATTTCTGTGACTACATTCTTA
1 GTAA-GTTATATTTCTGTGACTACATTCTTA
*** * * *
49696850 GTAA-TTATATTTCAAAGAATCACTTTCTTT
1 GTAAGTTATATTTCTGTGACT-ACATTCTTA
49696880 GTAATGTTATATTTCTGTGACTAC
1 GTAA-GTTATATTTCTGTGACTAC
49696904 GACCACTCGA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
29 12 0.29
30 11 0.27
31 6 0.15
32 12 0.29
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (30 bp):
GTAAGTTATATTTCTGTGACTACATTCTTA
Found at i:49707431 original size:125 final size:124
Alignment explanation
Indices: 49707203--49707479 Score: 448
Period size: 125 Copynumber: 2.2 Consensus size: 124
49707193 TTCCTCTCAA
* * *
49707203 TTTCCAGGACCTACTGTA-ACAAAAGCGCGTCCAAGAGGGCGCGATTTCACAAGTTCTTCTCAAA
1 TTTCCAGGACCTACTGTAGA-AAAAGCGCGTCCAAGAGGCCGCGATTTCACAAATTCTTATCAAA
* *
49707267 TAGCATCCTGCTAGAAGCGATTTTATACTATTTGTTCAGAAACGTCAACTCGAAATTATT
65 CAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATT
*
49707327 TCTTCCAGGACCTACTGTAGAAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTATCAAA
1 T-TTCCAGGACCTACTGTAGAAAAAGCGCGTCCAAGAGGCCGCGATTTCACAAATTCTTATCAAA
49707392 CAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATT
65 CAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATT
* * *
49707452 TTTTCAGGACCTACTATAGCAAAAGCGC
1 TTTCCAGGACCTACTGTAGAAAAAGCGC
49707480 ATAAACATAG
Statistics
Matches: 142, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
124 25 0.18
125 116 0.82
126 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (124 bp):
TTTCCAGGACCTACTGTAGAAAAAGCGCGTCCAAGAGGCCGCGATTTCACAAATTCTTATCAAAC
AGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATT
Found at i:49708180 original size:21 final size:19
Alignment explanation
Indices: 49708141--49708216 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 19
49708131 AAAAATAATA
49708141 TAAAAAT-ATTCAAAAAATTT
1 TAAAAATAATTC--AAAATTT
49708161 TAATAAAATAATTCAAAA-TT
1 T-A-AAAATAATTCAAAATTT
49708181 TAAAAA-AATTCTAAAAATTT
1 TAAAAATAATTC--AAAATTT
49708201 TAAAAATAATATCAAA
1 TAAAAATAAT-TCAAA
49708217 TACTCATCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
17 5 0.10
18 4 0.08
19 5 0.10
20 15 0.31
21 8 0.17
22 7 0.15
23 4 0.08
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATAATTCAAAATTT
Found at i:49708185 original size:40 final size:39
Alignment explanation
Indices: 49708141--49708216 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
49708131 AAAAATAATA
*
49708141 TAAAAATATTCAAAAAATTTTAATAAAATAAT-TCAAAATT
1 TAAAAAAATTCAAAAAATTTT-A-AAAATAATATCAAAATT
*
49708181 TAAAAAAATTCTAAAAATTTTAAAAATAATATCAAA
1 TAAAAAAATTCAAAAAATTTTAAAAATAATATCAAA
49708217 TACTCATCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 8 0.24
39 6 0.18
40 19 0.58
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (39 bp):
TAAAAAAATTCAAAAAATTTTAAAAATAATATCAAAATT
Found at i:49711491 original size:17 final size:17
Alignment explanation
Indices: 49711469--49711503 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49711459 AGACTTCTCT
49711469 CGGAAGAACTAATTATC
1 CGGAAGAACTAATTATC
* *
49711486 CGGAAGAGCTGATTATC
1 CGGAAGAACTAATTATC
49711503 C
1 C
49711504 CAAAACAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (17 bp):
CGGAAGAACTAATTATC
Found at i:49713452 original size:175 final size:172
Alignment explanation
Indices: 49713129--49713689 Score: 522
Period size: 173 Copynumber: 3.2 Consensus size: 172
49713119 TCAAACTAAG
* ** * *
49713129 AACTTAAATGATTTA-TTTTTAATACCCCGTTACAATACTTC--AAACACTTCTTTAACTTCAAT
1 AACTTGAATGATTTACTTTTTAATACCCTATTACAACACTTCAAAAACACTTCTTCAACTTCAA-
* ** * * * * * ** * * * ** *
49713191 GAAA-TAAAAAAATAAGCTTTCCAAACGAGGATAATGCACTTCAAAATACTTGAAATCATATCAT
65 CAAAGTGCAAGAATAAACTTTCCGAACAAAGATAACACACTTCAACACAC-TCAAATCA-GCCCT
* *
49713255 CTTACATTAATAAGAAATTCATGCCAATCAAGTTAAGACTCAATC
128 CCTACATTAGTAAGAAATTCATGCCAATCAAGTTAAGACTCAATC
* * * * *
49713300 AATTTGAATGGTTTACTTTTTTAATACCTTGTTACAATAC-TCAAAAAGCACTTCTTCAACTTCA
1 AACTTGAATGATTTAC-TTTTTAATACCCTATTACAACACTTCAAAAA-CACTTCTTCAACTTCA
* * * *
49713364 ACAAAGTGCACGAATAAACTTTCCGAACAAGGATAATACACTTCAACACA-TCAAATTCATCTCC
64 ACAAAGTGCAAGAATAAACTTTCCGAACAAAGATAACACACTTCAACACACTCAAA-TCAGC-CC
* * *
49713428 TCCTACATTAGTAAGAATATTCATGTCAATTAAGTTAAGACTTAATC
127 TCCTACATTAGTAAGAA-ATTCATGCCAATCAAGTTAAGACTCAATC
* * * * **
49713475 AACTTAAATGATTTACTTTTTAATACCCTATTACAACACTTCAACAATACTTTTTCAACTTCAGT
1 AACTTGAATGATTTACTTTTTAATACCCTATTACAACACTTCAAAAACACTTCTTCAACTTCAAC
* * * *
49713540 GAAGTGCAAGAATAAATTTTCCGAACAAAGATAACACACTTCAACATACTCAAATGAGCCCTCCT
66 AAAGTGCAAGAATAAACTTTCCGAACAAAGATAACACACTTCAACACACTCAAATCAGCCCTCCT
* * * * * * * *
49713605 ATATTAGTAAGAACGTCCATACCAATCAAGTTAAAATTGAATT
131 ACATTAGTAAGAA-ATTCATGCCAATCAAGTTAAGACTCAATC
49713648 AACTTGAATGATTTACTTTTTAATACCCTATTACAACACTTC
1 AACTTGAATGATTTACTTTTTAATACCCTATTACAACACTTC
49713690 GAATTAACTT
Statistics
Matches: 322, Mismatches: 57, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
171 12 0.04
172 2 0.01
173 104 0.32
174 104 0.32
175 100 0.31
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (172 bp):
AACTTGAATGATTTACTTTTTAATACCCTATTACAACACTTCAAAAACACTTCTTCAACTTCAAC
AAAGTGCAAGAATAAACTTTCCGAACAAAGATAACACACTTCAACACACTCAAATCAGCCCTCCT
ACATTAGTAAGAAATTCATGCCAATCAAGTTAAGACTCAATC
Found at i:49713563 original size:174 final size:171
Alignment explanation
Indices: 49713129--49713689 Score: 558
Period size: 174 Copynumber: 3.2 Consensus size: 171
49713119 TCAAACTAAG
** *
49713129 AACTTAAATGATTTA-TTTTTAATACCCCGTTACAATACTTC-AAACACTTCTTT-AACTTCAAT
1 AACTTAAATGATTTACTTTTTAATACCCTATTACAACACTTCAAAACACTT-TTTCAACTTCAAT
* ** * * * * * * * * * *
49713191 GAAATAAAAAAATAAGCTTTCCAAACGAGGATAATGCACTTCAAAATACTTGAAATCATATCATC
65 GAAGTGCAAGAATAAACTTTCCGAACAAGGATAATACACTTC--AACACATCAAATCATCTCCTC
* * *
49713256 TTACATTAATAAGAAATTCATGCCAATCAAGTTAAGACTCAATC
128 CTACATTAGTAAGAAATTCATGCCAATCAAGTTAAGACTTAATC
* * * * * * *
49713300 AATTTGAATGGTTTACTTTTTTAATACCTTGTTACAATAC-TCAAAAAGCACTTCTTCAACTTCA
1 AACTTAAATGATTTAC-TTTTTAATACCCTATTACAACACTTC-AAAA-CACTTTTTCAACTTCA
** *
49713364 ACAAAGTGCACGAATAAACTTTCCGAACAAGGATAATACACTTCAACACATCAAATTCATCTCCT
63 ATGAAGTGCAAGAATAAACTTTCCGAACAAGGATAATACACTTCAACACATCAAA-TCATCTCCT
* *
49713429 CCTACATTAGTAAGAATATTCATGTCAATTAAGTTAAGACTTAATC
127 CCTACATTAGTAAGAA-ATTCATGCCAATCAAGTTAAGACTTAATC
* *
49713475 AACTTAAATGATTTACTTTTTAATACCCTATTACAACACTTCAACAATACTTTTTCAACTTCAGT
1 AACTTAAATGATTTACTTTTTAATACCCTATTACAACACTTCAA-AACACTTTTTCAACTTCAAT
* * * * * *
49713540 GAAGTGCAAGAATAAATTTTCCGAACAAAGATAACACACTTCAACATACTCAAATGAGC-CCTCC
65 GAAGTGCAAGAATAAACTTTCCGAACAAGGATAATACACTTCAACACA-TCAAATCATCTCCTCC
* * * * * *
49713604 TATATTAGTAAGAACGTCCATACCAATCAAGTTAA-AATTGAATT
129 TACATTAGTAAGAA-ATTCATGCCAATCAAGTTAAGACTT-AATC
*
49713648 AACTTGAATGATTTACTTTTTAATACCCTATTACAACACTTC
1 AACTTAAATGATTTACTTTTTAATACCCTATTACAACACTTC
49713690 GAATTAACTT
Statistics
Matches: 323, Mismatches: 55, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
171 12 0.04
172 5 0.02
173 106 0.33
174 107 0.33
175 93 0.29
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (171 bp):
AACTTAAATGATTTACTTTTTAATACCCTATTACAACACTTCAAAACACTTTTTCAACTTCAATG
AAGTGCAAGAATAAACTTTCCGAACAAGGATAATACACTTCAACACATCAAATCATCTCCTCCTA
CATTAGTAAGAAATTCATGCCAATCAAGTTAAGACTTAATC
Found at i:49716736 original size:30 final size:30
Alignment explanation
Indices: 49716693--49716751 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
49716683 AAAGTTATAT
*
49716693 TTTAAAATCTATAATAATAATAATTTTTTAA
1 TTTAAAATCTATAAAAATAAT-ATTTTTTAA
* *
49716724 TTTAATAT-TATAAAAATTATATTTTTTA
1 TTTAAAATCTATAAAAATAATATTTTTTA
49716752 TTATCGTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 10 0.40
31 7 0.28
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTAAAATCTATAAAAATAATATTTTTTAA
Found at i:49733344 original size:19 final size:20
Alignment explanation
Indices: 49733304--49733347 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
49733294 GTTTCTTTTG
* *
49733304 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
49733323 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
49733342 GCATTA
1 GCATTA
49733348 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:49737605 original size:86 final size:87
Alignment explanation
Indices: 49737456--49737636 Score: 292
Period size: 86 Copynumber: 2.1 Consensus size: 87
49737446 ATCAGTAAAA
*
49737456 ATCAAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAAATCTTGCCTT
1 ATCAAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCAGGTTGAAGATAGCAAATCTTGCCTT
49737521 CCTGCA-TTGACAGCGAAGCAG
66 CCTGCATTTGACAGCGAAGCAG
* * * *
49737542 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCAGGTTGAATATTGCAGATCTTGCCTT
1 ATCAAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCAGGTTGAAGATAGCAAATCTTGCCTT
* *
49737607 CCTGTATTTGGCAGCGAAGCAG
66 CCTGCATTTGACAGCGAAGCAG
49737629 ATCAAAGA
1 ATCAAAGA
49737637 TGGCAGATTT
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 65 0.76
87 21 0.24
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (87 bp):
ATCAAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCAGGTTGAAGATAGCAAATCTTGCCTT
CCTGCATTTGACAGCGAAGCAG
Found at i:49737895 original size:95 final size:95
Alignment explanation
Indices: 49737627--49737917 Score: 519
Period size: 95 Copynumber: 3.0 Consensus size: 95
49737617 GCAGCGAAGC
49737627 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
49737692 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
49737722 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTATAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
49737787 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
*
49737819 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
49737884 CTCCCTGTATTTGGCAGTGGAATAGACTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
49737914 AGAT
1 AGAT
49737918 TACAGATCTT
Statistics
Matches: 187, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
95 96 0.51
97 91 0.49
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Done.