Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 315 of 318
Found at i:97765025 original size:2 final size:2
Alignment explanation
Indices: 97765020--97765047 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
97765010 ATGTTTTTTA
97765020 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
97765048 TATTGAGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97765727 original size:18 final size:20
Alignment explanation
Indices: 97765694--97765735 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
97765684 AAAGAAAAAT
97765694 CAAACCTTTTTATTTTACAC
1 CAAACCTTTTTATTTTACAC
*
97765714 CAAA-CTTTTT-TTTTAGAC
1 CAAACCTTTTTATTTTACAC
97765732 CAAA
1 CAAA
97765736 ATTTGTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 6 0.29
20 4 0.19
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.43
Consensus pattern (20 bp):
CAAACCTTTTTATTTTACAC
Found at i:97770129 original size:86 final size:82
Alignment explanation
Indices: 97769984--97770147 Score: 274
Period size: 86 Copynumber: 2.0 Consensus size: 82
97769974 GGTGTGCTGT
*
97769984 ATACATCTCGTGTTGATGTACAATGACCACTTTTGAATAGTATCTTTGCATGAGTTTTTTTTTTA
1 ATACATCTCGTGTTGATGTACAAGGACCACTTTTGAATAGTATCTTTGCATGAG---TTTTTTT-
97770049 AAAAAAAGAACTAATTTCCGC
62 AAAAAAAGAACTAATTTCCGC
*
97770070 ATACATCTCGTGTTGATGTACAGGGACCACTTTTGAATAGTATCTTTGCATGAGTTTTTTTAAAA
1 ATACATCTCGTGTTGATGTACAAGGACCACTTTTGAATAGTATCTTTGCATGAGTTTTTTTAAAA
97770135 AAAGAACTAATTT
66 AAAGAACTAATTT
97770148 ACTCTTTGAT
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
82 17 0.22
83 7 0.09
86 52 0.68
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (82 bp):
ATACATCTCGTGTTGATGTACAAGGACCACTTTTGAATAGTATCTTTGCATGAGTTTTTTTAAAA
AAAGAACTAATTTCCGC
Found at i:97793023 original size:31 final size:32
Alignment explanation
Indices: 97792983--97793046 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
97792973 CAAAATCTAT
*
97792983 AAAATTAATGTTTCTTACAATAGTTGACATTC
1 AAAATTAATGCTTCTTACAATAGTTGACATTC
97793015 AAAA-TAATGCTTCTTACAATAGTTGACATTC
1 AAAATTAATGCTTCTTACAATAGTTGACATTC
97793046 A
1 A
97793047 TTTATTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (32 bp):
AAAATTAATGCTTCTTACAATAGTTGACATTC
Found at i:97794122 original size:6 final size:7
Alignment explanation
Indices: 97794103--97794127 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
97794093 TTAGGGCATT
97794103 ATAAAAA
1 ATAAAAA
97794110 ATAAAAA
1 ATAAAAA
97794117 ATAAAAA
1 ATAAAAA
97794124 ATAA
1 ATAA
97794128 TACATATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
ATAAAAA
Found at i:97798808 original size:26 final size:26
Alignment explanation
Indices: 97798772--97798835 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
97798762 ACATATTTTC
*
97798772 TCAAAATTTTATCAATGG-CAAAATCG
1 TCAAAATTTTA-CAAGGGACAAAATCG
* *
97798798 TCAAAATTTTACTAGGGATAAAATCG
1 TCAAAATTTTACAAGGGACAAAATCG
97798824 TCAAAATTTTAC
1 TCAAAATTTTAC
97798836 TGCGGGTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 4 0.12
26 30 0.88
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACAAGGGACAAAATCG
Found at i:97800099 original size:21 final size:22
Alignment explanation
Indices: 97800053--97800098 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
97800043 TTTAATATTA
97800053 TTTT-TTATTTTGATCTTAATT
1 TTTTATTATTTTGATCTTAATT
97800074 TTTTATTATTTTGATCTTAATT
1 TTTTATTATTTTGATCTTAATT
97800096 TTT
1 TTT
97800099 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTATTATTTTGATCTTAATT
Found at i:97800105 original size:21 final size:22
Alignment explanation
Indices: 97800059--97800106 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
97800049 ATTATTTTTT
**
97800059 ATTTTGATCTTAATTTTTTATT
1 ATTTTGATCTTAATTTTTTAAA
97800081 ATTTTGATCTTAA-TTTTTAAA
1 ATTTTGATCTTAATTTTTTAAA
97800102 ATTTT
1 ATTTT
97800107 AATTAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (22 bp):
ATTTTGATCTTAATTTTTTAAA
Found at i:97800377 original size:37 final size:36
Alignment explanation
Indices: 97800292--97800377 Score: 88
Period size: 37 Copynumber: 2.4 Consensus size: 36
97800282 TCAAATTTTC
* *
97800292 AAAAAAAA-T-AAAATAAAATTTAAGAGTTAAAAAT
1 AAAAAAAATTAAAAATAAAAATTAAGAGCTAAAAAT
* *
97800326 CAAAATAATCTAAAAATAAAAATTAAG-GCTAAAGTAAT
1 AAAAAAAAT-TAAAAATAAAAATTAAGAGCTAAA--AAT
97800364 AAAAAAAATTAAAA
1 AAAAAAAATTAAAA
97800378 GCTAAGTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
34 6 0.15
36 6 0.15
37 19 0.46
38 10 0.24
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (36 bp):
AAAAAAAATTAAAAATAAAAATTAAGAGCTAAAAAT
Found at i:97816842 original size:5 final size:5
Alignment explanation
Indices: 97816832--97816859 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
97816822 CTGTTTGGAT
97816832 GAAAA GAAAA GAAAA GAAAA GAAAA GAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAA
97816860 TTTGATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:97817965 original size:21 final size:20
Alignment explanation
Indices: 97817907--97817972 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
97817897 TTATCAAATG
97817907 TATATAAAAATTAAAATATA
1 TATATAAAAATTAAAATATA
* ** *
97817927 TATATAAAGTATGGAAATAAA
1 TATATAAA-AATTAAAATATA
97817948 TATATAAAAATTCAAAATATA
1 TATATAAAAATT-AAAATATA
97817969 TATA
1 TATA
97817973 ATCAAGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 10 0.28
21 26 0.72
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (20 bp):
TATATAAAAATTAAAATATA
Found at i:97817987 original size:42 final size:41
Alignment explanation
Indices: 97817907--97817987 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
97817897 TTATCAAATG
***
97817907 TATATAAAAATTAAAATATATATATAAAGTATGGAAATAAA
1 TATATAAAAATTAAAATATATATATAAAGTAAAAAAATAAA
*
97817948 TATATAAAAATTCAAAATATATATAATCAAG-AAAAAAATA
1 TATATAAAAATT-AAAATATATAT-ATAAAGTAAAAAAATA
97817988 TAACTCATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 12 0.35
42 17 0.50
43 5 0.15
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (41 bp):
TATATAAAAATTAAAATATATATATAAAGTAAAAAAATAAA
Found at i:97818115 original size:20 final size:20
Alignment explanation
Indices: 97818070--97818135 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
97818060 AATATGAAAA
* *
97818070 AAAAACTTGTAACTATTA-T
1 AAAAATTTGTAAATATTATT
97818089 AAAAATTTGTAAATATTATT
1 AAAAATTTGTAAATATTATT
* * *
97818109 TAAAATTTTTAAATTTTATT
1 AAAAATTTGTAAATATTATT
97818129 AAAAATT
1 AAAAATT
97818136 ATAAAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 16 0.40
20 24 0.60
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
AAAAATTTGTAAATATTATT
Found at i:97818333 original size:22 final size:23
Alignment explanation
Indices: 97818302--97818345 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
97818292 AAAATTTATA
*
97818302 TTTTCATTAAAAA-TTGTTATTT
1 TTTTCATTAAAAACGTGTTATTT
*
97818324 TTTTCGTTAAAAACGTGTTATT
1 TTTTCATTAAAAACGTGTTATT
97818346 AATAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.55
Consensus pattern (23 bp):
TTTTCATTAAAAACGTGTTATTT
Found at i:97820140 original size:14 final size:13
Alignment explanation
Indices: 97820103--97820141 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
97820093 TTAACATATA
97820103 TAATTAATATAAT
1 TAATTAATATAAT
**
97820116 TAATTTTTATAACT
1 TAATTAATATAA-T
97820130 TAATTAATATAA
1 TAATTAATATAA
97820142 ATATATATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATTAATATAAT
Found at i:97830355 original size:46 final size:46
Alignment explanation
Indices: 97830305--97830480 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
97830295 TGGTTGAGCA
97830305 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
97830351 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
97830396 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
97830444 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
97830481 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:97830461 original size:93 final size:93
Alignment explanation
Indices: 97830302--97830473 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
97830292 GGATGGTTGA
* *
97830302 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
97830367 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
97830395 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
97830460 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
97830474 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:97832343 original size:46 final size:46
Alignment explanation
Indices: 97832175--97832356 Score: 222
Period size: 46 Copynumber: 4.0 Consensus size: 46
97832165 TTTGACGTGA
* * * ** * *
97832175 TGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** * *
97832221 TGTCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
97832267 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
97832313 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
97832357 AGAGCACACT
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.03
46 115 0.97
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:97832348 original size:92 final size:92
Alignment explanation
Indices: 97832175--97832351 Score: 246
Period size: 92 Copynumber: 1.9 Consensus size: 92
97832165 TTTGACGTGA
* * ** * * * *
97832175 TGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTCTGTCATGTTGTCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
***
97832240 CATGGTCTTGTTCATTTCATGTCACGT
66 CATGGTCTTACACATTTCATGTCACGT
*
97832267 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
97832332 CATGGTCTTACACATTTCAT
66 CATGGTCTTACACATTTCAT
97832352 ATCAGAGAGC
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.42
Consensus pattern (92 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATGTCACGT
Found at i:97834318 original size:17 final size:15
Alignment explanation
Indices: 97834296--97834330 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
97834286 TTTCCCTTTA
97834296 TTTTTCTTTCTTTTCTC
1 TTTTTCTTT-TTTTC-C
97834313 TTTTTCTTTTTTTCC
1 TTTTTCTTTTTTTCC
97834328 TTT
1 TTT
97834331 CCCTGCTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 5 0.28
17 9 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTCTTTTTTTCC
Found at i:97836041 original size:5 final size:5
Alignment explanation
Indices: 97836031--97836060 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
97836021 AAATTGAAAA
97836031 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
97836061 ACATATGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:97844969 original size:11 final size:12
Alignment explanation
Indices: 97844955--97844983 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
97844945 TTATTAATGG
97844955 TGAATG-ATATT
1 TGAATGAATATT
97844966 TGAATGAATATT
1 TGAATGAATATT
97844978 TGAATG
1 TGAATG
97844984 TTCTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Found at i:97851122 original size:21 final size:21
Alignment explanation
Indices: 97851075--97851122 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
97851065 AAACATTATC
*
97851075 ATTAA-TTATTATCAAATATA
1 ATTAATTTATTATAAAATATA
**
97851095 AAAAATTTATTATAAAATATA
1 ATTAATTTATTATAAAATATA
97851116 ATTAATT
1 ATTAATT
97851123 AATATTTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAATTTATTATAAAATATA
Found at i:97856461 original size:18 final size:18
Alignment explanation
Indices: 97856438--97856480 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
97856428 GTTCAAGATG
*
97856438 TAATTAATTTAAAT-TTTT
1 TAATTAA-TTAAATCTATT
97856456 TAATTAATTAAATCTATT
1 TAATTAATTAAATCTATT
97856474 TAATTAA
1 TAATTAA
97856481 AAACCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAATCTATT
Found at i:97856649 original size:27 final size:26
Alignment explanation
Indices: 97856619--97856670 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
97856609 TCTAAGTAAC
97856619 TAAAATGTAATATAAAAAAAAC-ATTTA
1 TAAAAT-TAA-ATAAAAAAAACTATTTA
* *
97856646 TAAAGTTAAATAAAAACAACTATTT
1 TAAAATTAAATAAAAAAAACTATTT
97856671 TTCTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 10 0.45
26 7 0.32
27 5 0.23
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.31
Consensus pattern (26 bp):
TAAAATTAAATAAAAAAAACTATTTA
Found at i:97869085 original size:17 final size:19
Alignment explanation
Indices: 97869047--97869085 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
97869037 TTTATACATA
*
97869047 TTAAATTATACTTATCATT
1 TTAAATTATACTTATCAAT
97869066 TTAAATTA-AC-TATCAAT
1 TTAAATTATACTTATCAAT
97869083 TTA
1 TTA
97869086 TTATTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 2 0.11
19 8 0.42
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAATTATACTTATCAAT
Found at i:97871877 original size:11 final size:11
Alignment explanation
Indices: 97871861--97871885 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
97871851 TGATCTTTTG
97871861 ATTTTTTTTCC
1 ATTTTTTTTCC
97871872 ATTTTTTTTCC
1 ATTTTTTTTCC
97871883 ATT
1 ATT
97871886 CTAAATTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTTTTTTCC
Found at i:97875538 original size:25 final size:25
Alignment explanation
Indices: 97875491--97875538 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
97875481 TATTTGATAA
* * *
97875491 AGAATAATATAATATTAAATGAAAT
1 AGAATAAAATAAAAATAAATGAAAT
*
97875516 AGAATAAAATAAAAATAATTGAA
1 AGAATAAAATAAAAATAAATGAA
97875539 TTTATTATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (25 bp):
AGAATAAAATAAAAATAAATGAAAT
Found at i:97876536 original size:32 final size:31
Alignment explanation
Indices: 97876488--97876569 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
97876478 ATAAATCTAA
*
97876488 AAATT-ATATATG-AACTTTTATT-CAATTTAC
1 AAATTGATACATGAAACTTTTATTGCAA-TT-C
*
97876518 AAATTGATACATGAAACTTTGATTGCAATTC
1 AAATTGATACATGAAACTTTTATTGCAATTC
97876549 AAA-TGTATACATGAAA-TTTTA
1 AAATTG-ATACATGAAACTTTTA
97876570 ATTTTGATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
30 11 0.24
31 20 0.44
32 11 0.24
33 3 0.07
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (31 bp):
AAATTGATACATGAAACTTTTATTGCAATTC
Found at i:97877874 original size:21 final size:22
Alignment explanation
Indices: 97877845--97877885 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
97877835 ATGGGTTTTC
97877845 AGTTCAGATTTATTT-GATTTA
1 AGTTCAGATTTATTTCGATTTA
*
97877866 AGTTTAGATTTATTTCGATT
1 AGTTCAGATTTATTTCGATT
97877886 ATCCCATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.54
Consensus pattern (22 bp):
AGTTCAGATTTATTTCGATTTA
Found at i:97878659 original size:31 final size:30
Alignment explanation
Indices: 97878616--97878695 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 30
97878606 AATATCAAAA
*
97878616 TTATGCATGAATTTTGATCTGATGTAT-AATG
1 TTATACATGAATTTTGAT-TGATGT-TGAATG
* *
97878647 TTATACATGAATTTTGATT-TTGTTGAATT
1 TTATACATGAATTTTGATTGATGTTGAATG
97878676 TTATACATGAAATTTTGATT
1 TTATACATG-AATTTTGATT
97878696 TGATTCAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
28 1 0.02
29 15 0.34
30 11 0.25
31 17 0.39
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (30 bp):
TTATACATGAATTTTGATTGATGTTGAATG
Found at i:97881473 original size:29 final size:30
Alignment explanation
Indices: 97881412--97881474 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
97881402 TGTATAAGAG
* * *
97881412 AATTGGATAAAATTAAAATTTCATGTATCA
1 AATTGCATAAAATTAAAATTTCATATATAA
97881442 AATTGCATAAAATTAAAA-TTCATATATAA
1 AATTGCATAAAATTAAAATTTCATATATAA
97881471 AATT
1 AATT
97881475 ACACATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (30 bp):
AATTGCATAAAATTAAAATTTCATATATAA
Found at i:97882348 original size:78 final size:78
Alignment explanation
Indices: 97882214--97882371 Score: 264
Period size: 78 Copynumber: 2.0 Consensus size: 78
97882204 TTTTGAGAAT
* *
97882214 CAATACTAAACAAAACCTAAATTAAGCTCTAAGTTTGAACCTAGCTTCTTATAGCTTGATA-TTG
1 CAATACTAAACAAAACCTAAATTAAACTCTAAGTTTGAACCTAGCTTCTTATAGCTTGA-ACTCG
*
97882278 GTTTTACTCAATTA
65 ATTTTACTCAATTA
*
97882292 CAATGCTAAACAAAACCTAAATTAAACTCTAAGTTTGAACCTAGCTTCTTATAGCTTGAACTCGA
1 CAATACTAAACAAAACCTAAATTAAACTCTAAGTTTGAACCTAGCTTCTTATAGCTTGAACTCGA
97882357 TTTTACTCAATTA
66 TTTTACTCAATTA
97882370 CA
1 CA
97882372 CTTAAAAAGG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
77 1 0.01
78 74 0.99
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (78 bp):
CAATACTAAACAAAACCTAAATTAAACTCTAAGTTTGAACCTAGCTTCTTATAGCTTGAACTCGA
TTTTACTCAATTA
Found at i:97885775 original size:14 final size:14
Alignment explanation
Indices: 97885756--97885786 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
97885746 GATAAAAAAA
97885756 ATTAAAAGTATTAT
1 ATTAAAAGTATTAT
97885770 ATTAAAAGTATTAT
1 ATTAAAAGTATTAT
97885784 ATT
1 ATT
97885787 TGAGAGTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (14 bp):
ATTAAAAGTATTAT
Found at i:97886184 original size:8 final size:8
Alignment explanation
Indices: 97886171--97886205 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
97886161 AAAGAAGTTC
97886171 ATACATAT
1 ATACATAT
97886179 ATACATAT
1 ATACATAT
*
97886187 ATATATAT
1 ATACATAT
*
97886195 ATATATAT
1 ATACATAT
97886203 ATA
1 ATA
97886206 TATTTTGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (8 bp):
ATACATAT
Found at i:97886188 original size:2 final size:2
Alignment explanation
Indices: 97886175--97886208 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
97886165 AAGTTCATAC
*
97886175 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97886209 TTTGGTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:97889746 original size:50 final size:51
Alignment explanation
Indices: 97889669--97889797 Score: 172
Period size: 50 Copynumber: 2.5 Consensus size: 51
97889659 GACCATGTCA
* *
97889669 ACAAGTGATAAGTGAGAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGAGAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
97889720 A-AAGTGATAAGTTATAGCTTTGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGAGAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
97889770 ACAAGTGAAAAGTG-GTAGTTTCGGCTAC
1 ACAAGTGATAAGTGAG-AGCTTCGGCTAC
97889798 CTGATCAGTG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
50 45 0.68
51 21 0.32
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (51 bp):
ACAAGTGATAAGTGAGAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:97889811 original size:31 final size:31
Alignment explanation
Indices: 97889773--97889952 Score: 261
Period size: 31 Copynumber: 5.8 Consensus size: 31
97889763 ACAAATGACA
*
97889773 AGTGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
97889804 AGTGAAAAGTGGTAGCTTTTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
97889835 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
97889866 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
97889897 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
97889928 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
97889953 AAGTGACAAG
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 135 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:97890088 original size:46 final size:49
Alignment explanation
Indices: 97889974--97890145 Score: 185
Period size: 49 Copynumber: 3.6 Consensus size: 49
97889964 GATTTCCGTA
* * * * * * *
97889974 TAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCT--ACT-GTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATG-TGAATTCGTG
* *
97890021 TAAGACCATATCTGGGATATGGCATC-AT-TGAGATATGT-AATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGAATTCGTG
* *
97890067 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGAATTCGTG
*
97890116 TAAGACCATAGCTGGGCTATGACATCGATA
1 TAAGACCATAGCTGGGCTATGGCATCGATA
97890146 AATGAAGATG
Statistics
Matches: 111, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
44 1 0.01
45 10 0.09
46 27 0.24
47 28 0.25
48 9 0.08
49 36 0.32
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (49 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGAATTCGTG
Found at i:97890097 original size:41 final size:45
Alignment explanation
Indices: 97890021--97890185 Score: 133
Period size: 49 Copynumber: 3.6 Consensus size: 45
97890011 TGCTACTGTA
* * * * * *
97890021 TAAGACCATATCTGGGATATGGCATC-ATTGAGATATGTAATTCGTG
1 TAAGACCATAGCTGGGCTATGACATCGATAGTGATA-G-ATTTCGTG
*
97890067 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTTCGTG
1 TAAGACCATAGCTGGGCTATGACATCGATA-GTGATA---GATTTCGTG
*
97890116 TAAGACCATAGCTGGGCTATGACATCGATAAATGA-AGA--T-GTG
1 TAAGACCATAGCTGGGCTATGACATCGAT-AGTGATAGATTTCGTG
* **
97890158 TAAGACCATAGTTGAACTATGACATCGA
1 TAAGACCATAGCTGGGCTATGACATCGA
97890186 GTAAACGAAG
Statistics
Matches: 104, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
42 28 0.27
43 1 0.01
45 2 0.02
46 24 0.23
47 2 0.02
48 6 0.06
49 38 0.37
50 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (45 bp):
TAAGACCATAGCTGGGCTATGACATCGATAGTGATAGATTTCGTG
Found at i:97890123 original size:49 final size:49
Alignment explanation
Indices: 97889962--97890145 Score: 191
Period size: 47 Copynumber: 3.8 Consensus size: 49
97889952 CAAGTGACAA
* *
97889962 GTGATTTCCGTATAAGACCATATCTGGGATATGGCATCG--GTGTGATAT
1 GTGATTT-CGTATAAGACCATAGCTGGGATATGGCATCGATATGTGATAT
* * * * *
97890010 ATG-CTACTGTATAAGACCATATCTGGGATATGGCATC-AT-TGAGATAT
1 GTGATTTC-GTATAAGACCATAGCTGGGATATGGCATCGATATGTGATAT
* * *
97890057 GT-AATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATAT
1 GTGATTTCGTATAAGACCATAGCTGGGATATGGCATCGATATGTGATAT
* * *
97890105 GTGATTTCGTGTAAGACCATAGCTGGGCTATGACATCGATA
1 GTGATTTCGTATAAGACCATAGCTGGGATATGGCATCGATA
97890146 AATGAAGATG
Statistics
Matches: 116, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
46 27 0.23
47 42 0.36
48 11 0.09
49 36 0.31
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (49 bp):
GTGATTTCGTATAAGACCATAGCTGGGATATGGCATCGATATGTGATAT
Found at i:97890178 original size:42 final size:43
Alignment explanation
Indices: 97890113--97890195 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
97890103 ATGTGATTTC
** *
97890113 GTGTAAGACCATAGCTGGGCTATGACATCGA-TAAATGAAGAT
1 GTGTAAGACCATAGCTGAACTATGACATCGAGTAAACGAAGAT
*
97890155 GTGTAAGACCATAGTTGAACTATGACATCGAGTAAACGAAG
1 GTGTAAGACCATAGCTGAACTATGACATCGAGTAAACGAAG
97890196 TACTCAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 28 0.78
43 8 0.22
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.23
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGAACTATGACATCGAGTAAACGAAGAT
Found at i:97892518 original size:10 final size:10
Alignment explanation
Indices: 97892503--97892532 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
97892493 ATATTATAAT
97892503 TTTGATTTTA
1 TTTGATTTTA
97892513 TTTGATTTTA
1 TTTGATTTTA
*
97892523 TTTTATTTTA
1 TTTGATTTTA
97892533 AAATTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (10 bp):
TTTGATTTTA
Found at i:97892527 original size:15 final size:16
Alignment explanation
Indices: 97892501--97892530 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
97892491 TCATATTATA
97892501 ATTTTGATTTTATTTG
1 ATTTTGATTTTATTTG
97892517 ATTTT-ATTTTATTT
1 ATTTTGATTTTATTT
97892531 TAAAATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (16 bp):
ATTTTGATTTTATTTG
Found at i:97901434 original size:114 final size:112
Alignment explanation
Indices: 97901220--97901434 Score: 322
Period size: 114 Copynumber: 1.9 Consensus size: 112
97901210 ACAAAGGCTG
* *
97901220 TATTGCTTTGGGTTCTTTGAATATATTTACCTTAGTTCTCTTCCGGCCATTGCACCTTGTTTCGC
1 TATTGCTTTGGGTTCTTTGAATACATTTACCTTAGTTCTCTTCCGGCCATTGCACCTTGTATCGC
* * * ***
97901285 GAGCAATTTCATCTAAACAATGTTCTTTTGTGAGCTTTTGCTTCGGT
66 AAACAATGTCATCTAAACAATGTTCTTTCACGAGCTTTTGCTTCGGT
*
97901332 TATTGCATTTAGGGTTCTTTGAATACATTTACCTTCGTTCTCTTCCGGCCATTGCACCTTGTATC
1 TATTGC-TTT-GGGTTCTTTGAATACATTTACCTTAGTTCTCTTCCGGCCATTGCACCTTGTATC
*
97901397 GTAAACAATGTCATCTAAACAATGTTCTTTCACGAGCT
64 GCAAACAATGTCATCTAAACAATGTTCTTTCACGAGCT
97901435 ATGCATGAAC
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 6 0.07
113 3 0.03
114 82 0.90
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (112 bp):
TATTGCTTTGGGTTCTTTGAATACATTTACCTTAGTTCTCTTCCGGCCATTGCACCTTGTATCGC
AAACAATGTCATCTAAACAATGTTCTTTCACGAGCTTTTGCTTCGGT
Found at i:97902527 original size:39 final size:39
Alignment explanation
Indices: 97902473--97902551 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
97902463 TTTTATAATA
97902473 TATAAATAATGGTTTTCTTATTGCAAAAAAAATCATTTT
1 TATAAATAATGGTTTTCTTATTGCAAAAAAAATCATTTT
97902512 TATAAATAATGGTTTTCTTATTGCAAAAAAAATCATTTT
1 TATAAATAATGGTTTTCTTATTGCAAAAAAAATCATTTT
97902551 T
1 T
97902552 TTTCCTAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (39 bp):
TATAAATAATGGTTTTCTTATTGCAAAAAAAATCATTTT
Found at i:97902922 original size:24 final size:24
Alignment explanation
Indices: 97902895--97902944 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
97902885 TTTTTAAAGT
*
97902895 CTAATATAACATTTAATACCTGAA
1 CTAATATAACATTTAATACCTAAA
*
97902919 CTAATATAACATTTGATACCTAAA
1 CTAATATAACATTTAATACCTAAA
97902943 CT
1 CT
97902945 TGACGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (24 bp):
CTAATATAACATTTAATACCTAAA
Found at i:97909862 original size:21 final size:23
Alignment explanation
Indices: 97909824--97909868 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
97909814 GCTGCATAGG
* *
97909824 TTTTAAGCATAAATGGATTAATT
1 TTTTAAGCATAAAAGGATCAATT
97909847 TTTTAA-CA-AAAAGGATCAATT
1 TTTTAAGCATAAAAGGATCAATT
97909868 T
1 T
97909869 ACTTTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 2 0.10
23 6 0.30
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (23 bp):
TTTTAAGCATAAAAGGATCAATT
Found at i:97910946 original size:21 final size:20
Alignment explanation
Indices: 97910910--97910958 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
97910900 CATTCTAATA
* *
97910910 TATTTTTTTAAATTTTGATT
1 TATTTTTTTAAATTTTAAAT
*
97910930 TATTTTTTTAATTTTTTAAAT
1 TATTTTTTTAA-ATTTTAAAT
97910951 TATTTTTT
1 TATTTTTT
97910959 GAGTTGGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TATTTTTTTAAATTTTAAAT
Found at i:97911449 original size:26 final size:28
Alignment explanation
Indices: 97911420--97911471 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
97911410 TTTATTTTTA
*
97911420 TTTTTAAAATTTTTAAA-ATA-TTATAT
1 TTTTTAAAATTATTAAACATACTTATAT
*
97911446 TTTTTAATATTATTAAACATACTTAT
1 TTTTTAAAATTATTAAACATACTTAT
97911472 TTAATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 3 0.14
28 4 0.18
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTTTAAAATTATTAAACATACTTATAT
Found at i:97911522 original size:22 final size:22
Alignment explanation
Indices: 97911497--97911540 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
97911487 TAGTCTTATA
97911497 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
97911519 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
97911541 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:97913336 original size:16 final size:16
Alignment explanation
Indices: 97913315--97913345 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
97913305 ACTTGATTCA
97913315 TGTTATTAAAAATTGT
1 TGTTATTAAAAATTGT
*
97913331 TGTTATTCAAAATTG
1 TGTTATTAAAAATTG
97913346 AATTAAGAAT
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:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (16 bp):
TGTTATTAAAAATTGT
Found at i:97919265 original size:2 final size:2
Alignment explanation
Indices: 97919258--97919301 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
97919248 ATCCTAAACT
97919258 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
97919299 TA T
1 TA T
97919302 TTAAGAACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:97919842 original size:29 final size:30
Alignment explanation
Indices: 97919778--97919843 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
97919768 ATTTAGCCTT
* *
97919778 ATTTGATTCTTTTTAATAATATAGAAACTA
1 ATTTGATTCTATTTAATAATAGAGAAACTA
* **
97919808 AATTGATT-TATTTAATAATAGAGGGACTA
1 ATTTGATTCTATTTAATAATAGAGAAACTA
97919837 ATTTGAT
1 ATTTGAT
97919844 CAGGTTACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (30 bp):
ATTTGATTCTATTTAATAATAGAGAAACTA
Found at i:97923448 original size:19 final size:20
Alignment explanation
Indices: 97923412--97923454 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
97923402 TTATTTTATT
97923412 TAAATTTAATTATAAAATA-
1 TAAATTTAATTATAAAATAG
* * *
97923431 TAAATTTATTTTTTAAATAG
1 TAAATTTAATTATAAAATAG
97923451 TAAA
1 TAAA
97923455 ACGGGCCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TAAATTTAATTATAAAATAG
Found at i:97942970 original size:69 final size:69
Alignment explanation
Indices: 97942884--97943019 Score: 236
Period size: 69 Copynumber: 2.0 Consensus size: 69
97942874 TTTCCACAAT
97942884 AAGAAAGCATACAATTCCATAAAAAAGAGATACATAAAAGAGTAGAAATCAACAATCACCAAATT
1 AAGAAAGCATACAATTCCATAAAAAAGAGATACATAAAAGAGTAGAAATCAACAATCACCAAATT
97942949 TGAC
66 TGAC
* * * *
97942953 AAGAAATCATATAATTCCATAAAAATGAGATACATAAAATAGTAGAAATCAACAATCACCAAATT
1 AAGAAAGCATACAATTCCATAAAAAAGAGATACATAAAAGAGTAGAAATCAACAATCACCAAATT
97943018 TG
66 TG
97943020 GCAACAATAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (69 bp):
AAGAAAGCATACAATTCCATAAAAAAGAGATACATAAAAGAGTAGAAATCAACAATCACCAAATT
TGAC
Found at i:97944323 original size:2 final size:2
Alignment explanation
Indices: 97944311--97944349 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
97944301 CAGCACAAAA
*
97944311 AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
97944350 TTACTTGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:97948329 original size:13 final size:13
Alignment explanation
Indices: 97948311--97948338 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
97948301 AGTTAACGAG
97948311 TCGTATTTTATCA
1 TCGTATTTTATCA
97948324 TCGTATTTTATCA
1 TCGTATTTTATCA
97948337 TC
1 TC
97948339 CTAATTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.07, T:0.54
Consensus pattern (13 bp):
TCGTATTTTATCA
Found at i:97948622 original size:18 final size:18
Alignment explanation
Indices: 97948599--97948657 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
97948589 TTTAGAATTT
97948599 TTTTAAAATTTTATAATA
1 TTTTAAAATTTTATAATA
97948617 TTTTAAAA--TTATAA-A
1 TTTTAAAATTTTATAATA
* *
97948632 TGTTAAAATTTTTAAAAATA
1 TTTTAAAA-TTTT-ATAATA
97948652 TTTTAA
1 TTTTAA
97948658 GTTTTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
15 8 0.24
16 6 0.18
18 10 0.30
19 3 0.09
20 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTTAAAATTTTATAATA
Found at i:97948639 original size:15 final size:16
Alignment explanation
Indices: 97948609--97948641 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
97948599 TTTTAAAATT
*
97948609 TTATAATATTTTAAAA
1 TTATAATATGTTAAAA
97948625 TTATAA-ATGTTAAAA
1 TTATAATATGTTAAAA
97948640 TT
1 TT
97948642 TTTAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTATAATATGTTAAAA
Found at i:97948647 original size:16 final size:16
Alignment explanation
Indices: 97948601--97948647 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
97948591 TAGAATTTTT
*
97948601 TTAAAATTTTATAATATT
1 TTAAAATTTT-TAA-ATG
*
97948619 TTAAAA-TTATAAATG
1 TTAAAATTTTTAAATG
97948634 TTAAAATTTTTAAA
1 TTAAAATTTTTAAA
97948648 AATATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 8 0.32
16 9 0.36
17 2 0.08
18 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TTAAAATTTTTAAATG
Found at i:97961382 original size:16 final size:16
Alignment explanation
Indices: 97961357--97961387 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
97961347 CACCACTTGG
*
97961357 ATTGTTTGCCATTAAA
1 ATTGTCTGCCATTAAA
97961373 ATTGTCTGCCATTAA
1 ATTGTCTGCCATTAA
97961388 TCATAATGTT
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:0.16, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTGTCTGCCATTAAA
Found at i:97961988 original size:18 final size:18
Alignment explanation
Indices: 97961961--97962027 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
97961951 AATATTTATT
*
97961961 TATAATAATTAATAATTG
1 TATAAGAATTAATAATTG
97961979 TATAAGAATTAA-AATT-
1 TATAAGAATTAATAATTG
* *
97961995 AAT-AG-TTTAATAATTG
1 TATAAGAATTAATAATTG
* *
97962011 TATAATAATTATTAATT
1 TATAAGAATTAATAATT
97962028 ATTATAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
14 4 0.11
15 6 0.16
16 4 0.11
17 5 0.13
18 19 0.50
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (18 bp):
TATAAGAATTAATAATTG
Found at i:97962025 original size:21 final size:20
Alignment explanation
Indices: 97962001--97962043 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
97961991 AATTAATAGT
* *
97962001 TTAATAATTGTATAATAATTA
1 TTAATAATTATA-AATAAATA
*
97962022 TTAATTATTATAAATAAATA
1 TTAATAATTATAAATAAATA
97962042 TT
1 TT
97962044 TAGTTTAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAATAATTATAAATAAATA
Found at i:97963046 original size:23 final size:23
Alignment explanation
Indices: 97963019--97963067 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
97963009 TATAGACATC
*
97963019 AATGCATAGCAAATACAGATTCA
1 AATGCATAACAAATACAGATTCA
* *
97963042 AATGCATAACAGATATAGATTCA
1 AATGCATAACAAATACAGATTCA
97963065 AAT
1 AAT
97963068 CCTACCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.24
Consensus pattern (23 bp):
AATGCATAACAAATACAGATTCA
Found at i:97965911 original size:39 final size:39
Alignment explanation
Indices: 97965773--97965896 Score: 221
Period size: 39 Copynumber: 3.2 Consensus size: 39
97965763 GCTCTGATGA
97965773 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
97965812 GCTTCAGTTAGCCTCCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
97965851 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
97965890 GCTTCAG
1 GCTTCAG
97965897 CTAGATTTTG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:97968525 original size:53 final size:53
Alignment explanation
Indices: 97968384--97968534 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
97968374 ATAAGTGCGC
* **
97968384 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
97968437 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
97968490 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
97968535 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:97970703 original size:22 final size:21
Alignment explanation
Indices: 97970674--97970720 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
97970664 AAATTTAATC
*
97970674 TTTATATTTTTATTTTAGGAA
1 TTTATATTTTTATTTTACGAA
*
97970695 TTTAGTATTTTTATTTTTCGAA
1 TTTA-TATTTTTATTTTACGAA
97970717 TTTA
1 TTTA
97970721 AAAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (21 bp):
TTTATATTTTTATTTTACGAA
Found at i:97974727 original size:18 final size:18
Alignment explanation
Indices: 97974704--97974986 Score: 151
Period size: 18 Copynumber: 15.3 Consensus size: 18
97974694 GAATAATTAT
* *
97974704 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
97974722 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * * *
97974740 TTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAA
* * *
97974758 TTATTCAATATCGATCAA
1 TTATTCAGTAACAATCAA
*
97974776 TTGATTGGTTATCTAGTAACAGTCAA
1 TT-A-----T-TC-AGTAACAATCAA
97974802 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
* *
97974820 -TATTCAGTAACTATTAA
1 TTATTCAGTAACAATCAA
** *
97974837 GTTATTCAGTAGTAGTC-A
1 -TTATTCAGTAACAATCAA
* *
97974855 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAA
** *
97974874 TTATTCAGTAATGATTAA
1 TTATTCAGTAACAATCAA
* * *
97974892 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAA
*
97974910 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATC-AA
* *
97974929 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* *
97974946 TTATCCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* *
97974964 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAA
97974982 TTATT
1 TTATT
97974987 TTATACCTTT
Statistics
Matches: 200, Mismatches: 49, Indels: 32
0.71 0.17 0.11
Matches are distributed among these distances:
17 19 0.09
18 150 0.75
19 16 0.08
20 1 0.00
24 1 0.00
25 3 0.01
26 10 0.05
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:97974746 original size:36 final size:36
Alignment explanation
Indices: 97974704--97974986 Score: 178
Period size: 36 Copynumber: 7.6 Consensus size: 36
97974694 GAATAATTAT
* *
97974704 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * * *
97974740 TTATTCAATAATAACCAGTTATTCAATATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* *
97974776 TTGATTGGTTATCTAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TT-A-----T-TC-AGTAACAATCAGTTATTCAGTAACAATCA-A
* * ** *
97974820 -TATTCAGTAACTATTAAGTTATTCAGTAGTAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* ** *
97974855 TTCATTCAGTGACAATCAGTTATTCAGTAATGATTAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
97974892 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * *
97974929 -TATCCAGTAACAGTCAATTATCCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
97974964 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
97974987 TTATACCTTT
Statistics
Matches: 184, Mismatches: 47, Indels: 32
0.70 0.18 0.12
Matches are distributed among these distances:
35 9 0.05
36 130 0.71
37 19 0.10
42 2 0.01
43 7 0.04
44 17 0.09
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:97974919 original size:72 final size:72
Alignment explanation
Indices: 97974785--97974986 Score: 203
Period size: 72 Copynumber: 2.8 Consensus size: 72
97974775 ATTGATTGGT
* * * *
97974785 TATCTAGTAACAGTCAATTATTCAGTAA-AATCAGA-TATTCAGTAACTATTAAGTTATTCAGTA
1 TATCCAGTAACAATCAATTATCCAGTAACAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTA
** *
97974848 GTAGTC-AT
64 ACAGTCTAA
* * * * ** *
97974856 TCATTCAGTGACAATCAGTTATTCAGTAATGATTAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATCCAGTAACAATCAATTATTCAGTAATATTCAGTTATTCAGTAA
97974921 CAGTCTAA
65 CAGTCTAA
* * *
97974929 TATCCAGTAACAGTCAATTATCCGGTAACAATCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATCCAGTAACAATCAATTATTCAGTAATATTCAGTTATT
97974987 TTATACCTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
71 1 0.01
72 90 0.85
73 15 0.14
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (72 bp):
TATCCAGTAACAATCAATTATCCAGTAACAATCAATTATTCAGTAATATTCAGTTATTCAGTAAC
AGTCTAA
Found at i:97975209 original size:45 final size:45
Alignment explanation
Indices: 97975154--97975353 Score: 240
Period size: 45 Copynumber: 4.3 Consensus size: 45
97975144 ATCCGGAATA
* * **
97975154 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCA
1 GTAACAGTAGCAGTAACAATATTCAACACACAAAGTGCCGAATCA
* * * * *
97975199 GTAACGGTAACAGTAACAATATTCGACACACAAAATGCCGAATCG
1 GTAACAGTAGCAGTAACAATATTCAACACACAAAGTGCCGAATCA
97975244 GTAACAGTAGCAGTAACAATATTCGATTCGACACACAAAGTGCCGAATC-
1 GTAACAGTAGCAGTAACAATATTC-A----ACACACAAAGTGCCGAATCA
* *
97975293 GATAACAGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 G-TAACAGTAGCAGTAACAATATTCAACACACAAAGTGCCGAATCA
97975339 GTAACAGTAGCAGTA
1 GTAACAGTAGCAGTA
97975354 GCGGTAACAG
Statistics
Matches: 136, Mismatches: 12, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
45 93 0.68
46 1 0.01
49 1 0.01
50 41 0.30
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (45 bp):
GTAACAGTAGCAGTAACAATATTCAACACACAAAGTGCCGAATCA
Found at i:97975312 original size:95 final size:95
Alignment explanation
Indices: 97975174--97975353 Score: 290
Period size: 95 Copynumber: 1.9 Consensus size: 95
97975164 CAGTAACAGT
** *
97975174 ATTCAACACACAAAGTGTTGAATCAGTAACGGTAACAGTAACAATATTCGACACACAAAATGCCG
1 ATTCAACACACAAAGTGCCGAATCAGTAACAGTAACAGTAACAATATTCGACACACAAAATGCCG
97975239 AATCGGTAACAGTAGCAGTAACAATATTCG
66 AATCGGTAACAGTAGCAGTAACAATATTCG
* * *
97975269 ATTCGACACACAAAGTGCCGAATC-GATAACAGTAGCAGTAACAATATTCGACACACAAAGTGCC
1 ATTCAACACACAAAGTGCCGAATCAG-TAACAGTAACAGTAACAATATTCGACACACAAAATGCC
97975333 GAATCGGTAACAGTAGCAGTA
65 GAATCGGTAACAGTAGCAGTA
97975354 GCGGTAACAG
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 1 0.01
95 77 0.99
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (95 bp):
ATTCAACACACAAAGTGCCGAATCAGTAACAGTAACAGTAACAATATTCGACACACAAAATGCCG
AATCGGTAACAGTAGCAGTAACAATATTCG
Found at i:97975777 original size:10 final size:10
Alignment explanation
Indices: 97975763--97975797 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
97975753 AATTAATCAT
97975763 AATTCCATTC
1 AATTCCATTC
*
97975773 CATTCCATTC
1 AATTCCATTC
*
97975783 AATTCAATTC
1 AATTCCATTC
97975793 AATTC
1 AATTC
97975798 AAATTCACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTCCATTC
Found at i:97976968 original size:14 final size:13
Alignment explanation
Indices: 97976949--97976978 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
97976939 TGTTTTTCTT
97976949 TTTCATTTCTTTTA
1 TTTCATTTC-TTTA
97976963 TTTCATTTCTTTA
1 TTTCATTTCTTTA
97976976 TTT
1 TTT
97976979 TATTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTCATTTCTTTA
Found at i:97978340 original size:27 final size:27
Alignment explanation
Indices: 97978282--97978340 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
97978272 TACAGAAACG
*
97978282 ATAGGATGAAGACGATTCACACTATGA
1 ATAGTATGAAGACGATTCACACTATGA
97978309 ATAGTATGAAGACGATTCACACTATGA
1 ATAGTATGAAGACGATTCACACTATGA
97978336 ATAGT
1 ATAGT
97978341 TTAGGAAGCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (27 bp):
ATAGTATGAAGACGATTCACACTATGA
Found at i:97981566 original size:3 final size:3
Alignment explanation
Indices: 97981558--97981616 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
97981548 TTTTACTATC
*
97981558 ATT ATT ATT ATT ATT ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
97981605 ATT ATT ATT ATT
1 ATT ATT ATT ATT
97981617 TTTTTTTATC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:97989900 original size:19 final size:20
Alignment explanation
Indices: 97989867--97989919 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
97989857 AAATCAAAAT
*
97989867 AAAATTTTAAAAAAAAACCC
1 AAAATTTCAAAAAAAAACCC
97989887 AAAATTTCAAAAAAAAACCC
1 AAAATTTCAAAAAAAAACCC
97989907 AAAATTTCAAAAA
1 AAAATTTCAAAAA
97989920 TATATGACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAATTTCAAAAAAAAACCC
Found at i:97991735 original size:20 final size:22
Alignment explanation
Indices: 97991707--97991750 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
97991697 TTTTTACGGA
*
97991707 TTAATATAAA-ATT-ATATTTT
1 TTAAAATAAATATTAATATTTT
*
97991727 TTAAAATAAATTTTAATATTTT
1 TTAAAATAAATATTAATATTTT
97991749 TT
1 TT
97991751 TTCATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAAAATAAATATTAATATTTT
Found at i:97992310 original size:15 final size:16
Alignment explanation
Indices: 97992283--97992312 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
97992273 AAAGAAAGAG
97992283 ATTTAAGAAAAAAAAT
1 ATTTAAGAAAAAAAAT
97992299 ATTTAA-AAAAAAAA
1 ATTTAAGAAAAAAAA
97992313 GGAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
ATTTAAGAAAAAAAAT
Found at i:97994407 original size:25 final size:25
Alignment explanation
Indices: 97994379--97994465 Score: 102
Period size: 25 Copynumber: 3.4 Consensus size: 25
97994369 ATTACATTGG
*
97994379 TTTTGTCCAGAGTTTCGTGATTTTA
1 TTTTGTCCAAAGTTTCGTGATTTTA
*
97994404 TTTTGTCCAAAGTTTTGTGATTTTA
1 TTTTGTCCAAAGTTTCGTGATTTTA
* **
97994429 TTTTGTACACATTTTTCGTGATTTTTA
1 TTTTGTCCA-AAGTTTCGTGA-TTTTA
*
97994456 TTTTTTCCAA
1 TTTTGTCCAA
97994466 TTTGTTTTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
25 31 0.60
26 9 0.17
27 12 0.23
ACGTcount: A:0.18, C:0.11, G:0.14, T:0.56
Consensus pattern (25 bp):
TTTTGTCCAAAGTTTCGTGATTTTA
Found at i:97995583 original size:20 final size:20
Alignment explanation
Indices: 97995558--97995597 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
97995548 TTTAATTTAA
97995558 TATATGTATTT-TATTAAAAT
1 TATATGT-TTTGTATTAAAAT
97995578 TATATGTTTTGGTATTAAAA
1 TATATGTTTT-GTATTAAAA
97995598 GGTATCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 7 0.39
21 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (20 bp):
TATATGTTTTGTATTAAAAT
Found at i:97997503 original size:22 final size:22
Alignment explanation
Indices: 97997461--97997505 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
97997451 TTAATCTTTG
*
97997461 TTTTTTTTTATTTTTAGGAATT
1 TTTTTTTTTATTTTTACGAATT
97997483 TTTTATTTTTATTTTT-CGAATT
1 TTTT-TTTTTATTTTTACGAATT
97997505 T
1 T
97997506 AAAAATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (22 bp):
TTTTTTTTTATTTTTACGAATT
Found at i:98001256 original size:27 final size:28
Alignment explanation
Indices: 98001202--98001257 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
98001192 AATAAGTTAG
98001202 TAATTTGTTTATAAATTTTTGGACATAT
1 TAATTTGTTTATAAATTTTTGGACATAT
98001230 TAATTTGTTTATAAA-TTTTGGACATAT
1 TAATTTGTTTATAAATTTTTGGACATAT
98001257 T
1 T
98001258 CATATATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.54
Consensus pattern (28 bp):
TAATTTGTTTATAAATTTTTGGACATAT
Found at i:98005129 original size:15 final size:16
Alignment explanation
Indices: 98005099--98005132 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
98005089 AAATTTATAA
98005099 AAATATTCAGAAAAAT
1 AAATATTCAGAAAAAT
*
98005115 AAATATT-ATAAAAAT
1 AAATATTCAGAAAAAT
98005130 AAA
1 AAA
98005133 AATAACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATATTCAGAAAAAT
Found at i:98014646 original size:14 final size:14
Alignment explanation
Indices: 98014627--98014653 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
98014617 GGTAAGAAAT
98014627 ATGCATGTGTGTGC
1 ATGCATGTGTGTGC
98014641 ATGCATGTGTGTG
1 ATGCATGTGTGTG
98014654 TGTGAGAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.37, T:0.37
Consensus pattern (14 bp):
ATGCATGTGTGTGC
Found at i:98015387 original size:32 final size:32
Alignment explanation
Indices: 98015346--98015409 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
98015336 CTTCCAACTG
98015346 TTGATAGATGCTGGTATGTTATTAAATTGTGT
1 TTGATAGATGCTGGTATGTTATTAAATTGTGT
98015378 TTGATAGATGCTGGTATGTTATTAAATTGTGT
1 TTGATAGATGCTGGTATGTTATTAAATTGTGT
98015410 CATCTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (32 bp):
TTGATAGATGCTGGTATGTTATTAAATTGTGT
Found at i:98023136 original size:16 final size:16
Alignment explanation
Indices: 98023115--98023152 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
98023105 TAGGACCTAG
*
98023115 TATATACATATATATA
1 TATATACACATATATA
98023131 TATATACACATATATA
1 TATATACACATATATA
98023147 TATATA
1 TATATA
98023153 GTTTTGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (16 bp):
TATATACACATATATA
Found at i:98023141 original size:18 final size:18
Alignment explanation
Indices: 98023115--98023152 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
98023105 TAGGACCTAG
*
98023115 TATATACATATATATATA
1 TATACACATATATATATA
98023133 TATACACATATATATATA
1 TATACACATATATATATA
98023151 TA
1 TA
98023153 GTTTTGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
TATACACATATATATATA
Found at i:98024406 original size:19 final size:19
Alignment explanation
Indices: 98024382--98024420 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
98024372 AAGAATTGGA
*
98024382 ATTAATTTGTATTATACGG
1 ATTAATTAGTATTATACGG
*
98024401 ATTAATTAGTATTATTCGG
1 ATTAATTAGTATTATACGG
98024420 A
1 A
98024421 AGATCTAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (19 bp):
ATTAATTAGTATTATACGG
Found at i:98029136 original size:31 final size:31
Alignment explanation
Indices: 98029101--98029161 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
98029091 ATTAATATAA
* * *
98029101 ATTCAAAATAGATCAAATAAATCACCTCTAC
1 ATTCAAAACAAATAAAATAAATCACCTCTAC
98029132 ATTCAAAACAAATAAAATAAATCACCTCTA
1 ATTCAAAACAAATAAAATAAATCACCTCTA
98029162 GACAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.52, C:0.21, G:0.02, T:0.25
Consensus pattern (31 bp):
ATTCAAAACAAATAAAATAAATCACCTCTAC
Found at i:98029482 original size:22 final size:23
Alignment explanation
Indices: 98029457--98029501 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
98029447 ATACTCACAC
98029457 AACCA-TATCAACTTCAG-AAGCA
1 AACCATTATCAAC-TCAGTAAGCA
98029479 AACCATTATCAACTCAGTAAGCA
1 AACCATTATCAACTCAGTAAGCA
98029502 TACAGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.44, C:0.27, G:0.09, T:0.20
Consensus pattern (23 bp):
AACCATTATCAACTCAGTAAGCA
Found at i:98030027 original size:6 final size:6
Alignment explanation
Indices: 98030016--98030062 Score: 51
Period size: 7 Copynumber: 7.5 Consensus size: 6
98030006 AATAGTTGAG
*
98030016 TTTAAT TTTAAT GTTTAAT TTTAAT GTTTAA- TTTGAT ATTTAAT TTT
1 TTTAAT TTTAAT -TTTAAT TTTAAT -TTTAAT TTTAAT -TTTAAT TTT
98030063 TTTAAGTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
5 4 0.11
6 15 0.43
7 16 0.46
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (6 bp):
TTTAAT
Found at i:98030031 original size:13 final size:13
Alignment explanation
Indices: 98030015--98030062 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
98030005 TAATAGTTGA
98030015 GTTTAATTTTAAT
1 GTTTAATTTTAAT
98030028 GTTTAATTTTAAT
1 GTTTAATTTTAAT
*
98030041 GTTTAA-TTTGAT
1 GTTTAATTTTAAT
*
98030053 ATTTAATTTT
1 GTTTAATTTT
98030063 TTTAAGTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
12 10 0.31
13 22 0.69
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
GTTTAATTTTAAT
Found at i:98030034 original size:7 final size:7
Alignment explanation
Indices: 98030015--98030047 Score: 52
Period size: 6 Copynumber: 5.0 Consensus size: 7
98030005 TAATAGTTGA
98030015 GTTTAAT
1 GTTTAAT
98030022 -TTTAAT
1 GTTTAAT
98030028 GTTTAAT
1 GTTTAAT
98030035 -TTTAAT
1 GTTTAAT
98030041 GTTTAAT
1 GTTTAAT
98030048 TTGATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (7 bp):
GTTTAAT
Found at i:98030194 original size:31 final size:30
Alignment explanation
Indices: 98030151--98030230 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 30
98030141 CATGTGTACT
98030151 TTAATATACTAAATTAAACAGTAAAATCAAA
1 TTAA-ATACTAAATTAAACAGTAAAATCAAA
**
98030182 CTTAAATACTAAATTAAACCTTAAAATCAAA
1 -TTAAATACTAAATTAAACAGTAAAATCAAA
98030213 TTAAAATACTAAATTAAA
1 TT-AAATACTAAATTAAA
98030231 AAAATCTCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 2 0.04
31 39 0.87
32 4 0.09
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.30
Consensus pattern (30 bp):
TTAAATACTAAATTAAACAGTAAAATCAAA
Found at i:98031033 original size:11 final size:11
Alignment explanation
Indices: 98031031--98031067 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
98031021 TAACAATAAA
98031031 ATAATAACAAT
1 ATAATAACAAT
*
98031042 ATAATAATAAT
1 ATAATAACAAT
*
98031053 ATAATAACAAA
1 ATAATAACAAT
98031064 ATAA
1 ATAA
98031068 CGCCAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATAACAAT
Found at i:98031045 original size:22 final size:22
Alignment explanation
Indices: 98031019--98031068 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
98031009 ATATCCAAAC
98031019 AATAACAATAAAATAATAACAA
1 AATAACAATAAAATAATAACAA
* * *
98031041 TATAATAATAATATAATAACAA
1 AATAACAATAAAATAATAACAA
98031063 AATAAC
1 AATAAC
98031069 GCCAAAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (22 bp):
AATAACAATAAAATAATAACAA
Found at i:98031059 original size:14 final size:14
Alignment explanation
Indices: 98031019--98031051 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
98031009 ATATCCAAAC
98031019 AATAACAATAAAAT
1 AATAACAATAAAAT
*
98031033 AATAACAATATAAT
1 AATAACAATAAAAT
98031047 AATAA
1 AATAA
98031052 TATAATAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAACAATAAAAT
Found at i:98031085 original size:11 final size:11
Alignment explanation
Indices: 98031019--98031089 Score: 54
Period size: 11 Copynumber: 6.5 Consensus size: 11
98031009 ATATCCAAAC
*
98031019 AATAACAATAA
1 AATAACAACAA
*
98031030 AATAATAACAA
1 AATAACAACAA
* * *
98031041 TATAATAATAA
1 AATAACAACAA
* *
98031052 TATAATAACAA
1 AATAACAACAA
**
98031063 AATAACGCCAA
1 AATAACAACAA
98031074 AATAACAAC-A
1 AATAACAACAA
98031084 AATAAC
1 AATAAC
98031090 CAGAAAAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
10 7 0.14
11 42 0.86
ACGTcount: A:0.66, C:0.13, G:0.01, T:0.20
Consensus pattern (11 bp):
AATAACAACAA
Found at i:98033854 original size:62 final size:62
Alignment explanation
Indices: 98033779--98033904 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
98033769 TGTTCTTACG
98033779 TTGGAATTTCTGGTTAGTTGTTCTACAGTAAAAAGTTAAAATATTGCTGACATTAGATTGGC
1 TTGGAATTTCTGGTTAGTTGTTCTACAGTAAAAAGTTAAAATATTGCTGACATTAGATTGGC
98033841 TTGGAATTTCTGGTTAGTTGTTCTACAGTAAAAAGTTAAAATATTGCTGACATTAGATTGGC
1 TTGGAATTTCTGGTTAGTTGTTCTACAGTAAAAAGTTAAAATATTGCTGACATTAGATTGGC
98033903 TT
1 TT
98033905 CTTTGGCCCC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (62 bp):
TTGGAATTTCTGGTTAGTTGTTCTACAGTAAAAAGTTAAAATATTGCTGACATTAGATTGGC
Found at i:98038645 original size:2 final size:2
Alignment explanation
Indices: 98038638--98038663 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
98038628 GCTAAGCATA
98038638 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
98038664 GATTCGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98039175 original size:30 final size:30
Alignment explanation
Indices: 98039141--98039204 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
98039131 AATTTGACAA
98039141 AGAAATATTTGGATTTAAAGGGGAATTTAT
1 AGAAATATTTGGATTTAAAGGGGAATTTAT
98039171 AGAAATATTTGGATTTAAAGGGGAATTTAT
1 AGAAATATTTGGATTTAAAGGGGAATTTAT
98039201 AGAA
1 AGAA
98039205 TAAATTTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.34
Consensus pattern (30 bp):
AGAAATATTTGGATTTAAAGGGGAATTTAT
Found at i:98040781 original size:2 final size:2
Alignment explanation
Indices: 98040774--98040824 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
98040764 ACATACATAC
* *
98040774 AT AT AT AT AT AT AT AC AT AT AT AT AC AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
98040815 AT GT AT AT AT
1 AT AT AT AT AT
98040825 CTTAAGATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:98040793 original size:8 final size:8
Alignment explanation
Indices: 98040762--98040813 Score: 59
Period size: 8 Copynumber: 6.2 Consensus size: 8
98040752 GCTTATTTTC
*
98040762 ATACATAC
1 ATACATAT
98040770 ATACATAT
1 ATACATAT
*
98040778 ATATATAT
1 ATACATAT
98040786 ATACATATAT
1 ATAC--ATAT
98040796 ATACATAT
1 ATACATAT
*
98040804 ATATATAT
1 ATACATAT
98040812 AT
1 AT
98040814 TATGTATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
8 30 0.79
10 8 0.21
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (8 bp):
ATACATAT
Found at i:98040793 original size:10 final size:10
Alignment explanation
Indices: 98040766--98040813 Score: 69
Period size: 10 Copynumber: 4.8 Consensus size: 10
98040756 ATTTTCATAC
*
98040766 ATACATACAT
1 ATACATATAT
*
98040776 ATATATATAT
1 ATACATATAT
98040786 ATACATATAT
1 ATACATATAT
98040796 ATACATATAT
1 ATACATATAT
*
98040806 ATATATAT
1 ATACATAT
98040814 TATGTATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (10 bp):
ATACATATAT
Found at i:98044637 original size:2 final size:2
Alignment explanation
Indices: 98044630--98044662 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
98044620 GCTTAGCTTA
98044630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
98044663 ATAATTGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98048105 original size:18 final size:18
Alignment explanation
Indices: 98048082--98048119 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
98048072 TGCCACGGCG
*
98048082 AGGTGAGCGAGATCTAAT
1 AGGTGAACGAGATCTAAT
98048100 AGGTGAACGAGATCTAAT
1 AGGTGAACGAGATCTAAT
98048118 AG
1 AG
98048120 AACATAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.32, T:0.21
Consensus pattern (18 bp):
AGGTGAACGAGATCTAAT
Found at i:98059726 original size:80 final size:80
Alignment explanation
Indices: 98059615--98059778 Score: 301
Period size: 80 Copynumber: 2.0 Consensus size: 80
98059605 TTTTTTATAC
*
98059615 AAATTAAAATAAAAAAATTAAAGAATAAAACAGATAATGAATTTAAATATCGGAATTTATATTTA
1 AAATTAAAATAAAAAAATCAAAGAATAAAACAGATAATGAATTTAAATATCGGAATTTATATTTA
98059680 TAATATGCAAAAATA
66 TAATATGCAAAAATA
*
98059695 AAATTAAAATAAAAAAATCAAAGAATAAAACAGATAATGAATTTGAATATCGGAATTTATATTTA
1 AAATTAAAATAAAAAAATCAAAGAATAAAACAGATAATGAATTTAAATATCGGAATTTATATTTA
*
98059760 TTATATGCAAAAATA
66 TAATATGCAAAAATA
98059775 AAAT
1 AAAT
98059779 GGATTCGGAT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (80 bp):
AAATTAAAATAAAAAAATCAAAGAATAAAACAGATAATGAATTTAAATATCGGAATTTATATTTA
TAATATGCAAAAATA
Found at i:98060277 original size:16 final size:16
Alignment explanation
Indices: 98060256--98060288 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
98060246 AAAATTTGTG
98060256 AGTACAACAATAATTC
1 AGTACAACAATAATTC
98060272 AGTACAACAATAATTC
1 AGTACAACAATAATTC
98060288 A
1 A
98060289 ATCTAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (16 bp):
AGTACAACAATAATTC
Found at i:98060478 original size:97 final size:97
Alignment explanation
Indices: 98060312--98060511 Score: 382
Period size: 97 Copynumber: 2.1 Consensus size: 97
98060302 TATTAAAAGT
*
98060312 AAACACTCAACCAATAAACCACAGACTTGGGTTGTTCCAAATATATGCAATATAAAAATTTCTGG
1 AAACACTCAACCAATAAACCACAGACTTGGGTTGTTCCAAATATATACAATATAAAAATTTCTGG
98060377 GTGAGTCACTTATCTTAATACTATTCTCGTTC
66 GTGAGTCACTTATCTTAATACTATTCTCGTTC
*
98060409 AAACACTCCACCAATAAACCACAGACTTGGGTTGTTCCAAATATATACAATATAAAAATTTCTGG
1 AAACACTCAACCAATAAACCACAGACTTGGGTTGTTCCAAATATATACAATATAAAAATTTCTGG
98060474 GTGAGTCACTTATCTTAATACTATTCTCGTTC
66 GTGAGTCACTTATCTTAATACTATTCTCGTTC
98060506 AAACAC
1 AAACAC
98060512 GTTTAATTAT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 101 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (97 bp):
AAACACTCAACCAATAAACCACAGACTTGGGTTGTTCCAAATATATACAATATAAAAATTTCTGG
GTGAGTCACTTATCTTAATACTATTCTCGTTC
Found at i:98062091 original size:16 final size:16
Alignment explanation
Indices: 98062070--98062103 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
98062060 ATATAGGACA
98062070 TGGTTCAAACTACGAT
1 TGGTTCAAACTACGAT
*
98062086 TGGTTCAAACTAGGAT
1 TGGTTCAAACTACGAT
98062102 TG
1 TG
98062104 ATTGAATAAA
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:0.15, G:0.24, T:0.32
Consensus pattern (16 bp):
TGGTTCAAACTACGAT
Found at i:98077388 original size:27 final size:28
Alignment explanation
Indices: 98077341--98077401 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
98077331 AAATTATATT
* *
98077341 TTAATTTTTTATTTATAAAAT-AAATTAA
1 TTAATTTTTTATGTATAAAATCAAA-GAA
98077369 TTAATTTTTATATGT-T-AAATCAAAGAA
1 TTAATTTTT-TATGTATAAAATCAAAGAA
98077396 TTAATT
1 TTAATT
98077402 AATTATTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 12 0.41
28 13 0.45
29 4 0.14
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (28 bp):
TTAATTTTTTATGTATAAAATCAAAGAA
Found at i:98079187 original size:25 final size:25
Alignment explanation
Indices: 98079154--98079213 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
98079144 TCACTAAATC
**
98079154 TTAAAAAAAAAACCTATTTAGTTAA
1 TTAAAAAAAAAACCTATTTAACTAA
**
98079179 TTAAAAAAATGACCTATTTAACTAA
1 TTAAAAAAAAAACCTATTTAACTAA
98079204 TTAAAAAAAA
1 TTAAAAAAAA
98079214 TCGACATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.30
Consensus pattern (25 bp):
TTAAAAAAAAAACCTATTTAACTAA
Found at i:98079225 original size:27 final size:25
Alignment explanation
Indices: 98079176--98079232 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
98079166 CCTATTTAGT
*
98079176 TAATTAAAAAAATGACCTATTTAAC
1 TAATTAAAAAAATGACATATTTAAC
*
98079201 TAATTAAAAAAAATCGACATTTTTAAC
1 TAATT-AAAAAAAT-GACATATTTAAC
*
98079228 CAATT
1 TAATT
98079233 TAACCCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 5 0.19
26 8 0.30
27 14 0.52
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (25 bp):
TAATTAAAAAAATGACATATTTAAC
Found at i:98094687 original size:19 final size:20
Alignment explanation
Indices: 98094658--98094709 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
98094648 TTTGTATGTT
98094658 TTTTAGAATTTTT-AAAAATA
1 TTTT-GAATTTTTGAAAAATA
*
98094678 TTTTGAATTTTTGAAAATTA
1 TTTTGAATTTTTGAAAAATA
*
98094698 CTTTGAATTTTT
1 TTTTGAATTTTT
98094710 TTTTGTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.28
20 21 0.72
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTTGAATTTTTGAAAAATA
Found at i:98111542 original size:13 final size:13
Alignment explanation
Indices: 98111524--98111553 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
98111514 AATGTATAAT
98111524 TCAAGAACTAGTA
1 TCAAGAACTAGTA
98111537 TCAAGAACTAGTA
1 TCAAGAACTAGTA
98111550 TCAA
1 TCAA
98111554 TAAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (13 bp):
TCAAGAACTAGTA
Found at i:98111661 original size:15 final size:15
Alignment explanation
Indices: 98111629--98111662 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
98111619 TGATTTTAAT
*
98111629 AGAATGTGATTATTG
1 AGAATGTGATTATCG
*
98111644 AGAATGTGATTGTCG
1 AGAATGTGATTATCG
98111659 AGAA
1 AGAA
98111663 AATTCCTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (15 bp):
AGAATGTGATTATCG
Found at i:98121697 original size:196 final size:193
Alignment explanation
Indices: 98121374--98121907 Score: 759
Period size: 195 Copynumber: 2.7 Consensus size: 193
98121364 TTGTTTTTTA
* *
98121374 TCTTTAGATTTTATGTTTAACAATACTATTCGAGTTAATGGGTTTTTGTT-TT-TATTGAATTAT
1 TCTTTAGATTTTATGTTTAACAAAACCATTCGAGTT-ATGGGTTTTTGTTATTGT-TTGAATTAT
* * *
98121437 GCTTATTTGAGATCTTTAACTTAGTGAGATTACAAGAAAAATGTGATGGGTACTATTGATATGTT
64 GCTTATTTGAGATCCTTAACTTGGTGAGATTACAAGAAAAATGTGATGGGTACTATTAATATGTT
* * *
98121502 GGGGCTTGCAAAGAGTGTGAATTTAATGGTTTTCTGTATCGAATTTGCATTAGGTTTTGGGGGTT
129 GGGGCTTGCAAAGAGTGTAAAATTAATGGTTTT-TGTATCGAATTCGCATTAGGTTTTGGGGGTT
98121567 T
193 T
** * *
98121568 TCTTTAGATTTTATGTTTAACAAAACGGTTCAAATTGATGGGTTTTTGTTATTGTTTGAATTATT
1 TCTTTAGATTTTATGTTTAACAAAACCATTCGAGTT-ATGGGTTTTTGTTATTGTTTGAATTA-T
98121633 GCTTATTTGAGATCCTTAACTTGGTGAGATTACAAGAAAAATGTGATGGGTACTATTAATATGTT
64 GCTTATTTGAGATCCTTAACTTGGTGAGATTACAAGAAAAATGTGATGGGTACTATTAATATGTT
* * * * *
98121698 GGGGCTTGTAAAGAGTGTAAAATTAGTGGTTTTTGTATTGAATTCGCATTAGGTTTTGGTGTTTT
129 GGGGCTTGCAAAGAGTGTAAAATTAATGGTTTTTGTATCGAATTCGCATTAGGTTTTGGGGGTTT
* * *
98121763 TCTTTAGCTTTTATGTTTAACGAAACCATTCGAGTTATTGGGTTTTTGTTATTGGTTGAATTATG
1 TCTTTAGATTTTATGTTTAACAAAACCATTCGAGTTA-TGGGTTTTTGTTATTGTTTGAATTATG
* * * *
98121828 TTTATTTGAGATCCTTAACTTGGGTGA-AGTTACAAGACAAATGTGATGGGTACTCTTAACATGT
65 CTTATTTGAGATCCTTAACTT-GGTGAGA-TTACAAGAAAAATGTGATGGGTACTATTAATATGT
98121892 TGGGGCTTGCAAAGAG
128 TGGGGCTTGCAAAGAG
98121908 AGTTGGGGCC
Statistics
Matches: 305, Mismatches: 29, Indels: 11
0.88 0.08 0.03
Matches are distributed among these distances:
194 68 0.22
195 144 0.47
196 93 0.30
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43
Consensus pattern (193 bp):
TCTTTAGATTTTATGTTTAACAAAACCATTCGAGTTATGGGTTTTTGTTATTGTTTGAATTATGC
TTATTTGAGATCCTTAACTTGGTGAGATTACAAGAAAAATGTGATGGGTACTATTAATATGTTGG
GGCTTGCAAAGAGTGTAAAATTAATGGTTTTTGTATCGAATTCGCATTAGGTTTTGGGGGTTT
Found at i:98126312 original size:17 final size:17
Alignment explanation
Indices: 98126286--98126328 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
98126276 TTTTAAAATA
**
98126286 TTTTATTTTATTTTATTT
1 TTTTA-TTTATTGAATTT
98126304 TTTTATTTATTGAATTT
1 TTTTATTTATTGAATTT
98126321 TTTTATTT
1 TTTTATTT
98126329 TAATGTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTATTTATTGAATTT
Done.