Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 88 of 132
Found at i:26878068 original size:21 final size:21
Alignment explanation
Indices: 26878051--26878092 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
26878041 AAGTCAACTA
26878051 TCAA-AGTCAAAGGGTCAAAG
1 TCAACAGTCAAAGGGTCAAAG
*
26878071 TCAACAGTCAATGGGTCAAAG
1 TCAACAGTCAAAGGGTCAAAG
26878092 T
1 T
26878093 AAATGGGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (21 bp):
TCAACAGTCAAAGGGTCAAAG
Found at i:26880102 original size:3 final size:3
Alignment explanation
Indices: 26880094--26880142 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
26880084 ACCCCAAGTT
26880094 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26880142 T
1 T
26880143 ATTTTTTCAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:26880854 original size:31 final size:31
Alignment explanation
Indices: 26880819--26880880 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
26880809 TTATTTTAGC
* *
26880819 ATTTAATT-TTTATTTTTATTTTTATTTATTT
1 ATTTAATTATTTA-TCTTATTGTTATTTATTT
* *
26880850 ATTTATTTATTTATCTTGTTGTTATTTATTT
1 ATTTAATTATTTATCTTATTGTTATTTATTT
26880881 TCATGACATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (31 bp):
ATTTAATTATTTATCTTATTGTTATTTATTT
Found at i:26880880 original size:4 final size:4
Alignment explanation
Indices: 26880839--26880863 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
26880829 TATTTTTATT
26880839 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
26880864 CTTGTTGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:26886844 original size:40 final size:40
Alignment explanation
Indices: 26886786--26887103 Score: 330
Period size: 40 Copynumber: 8.0 Consensus size: 40
26886776 TTAATTTAAT
* * * *
26886786 GTGATATGTTTCATGCTACGGCTTAGCAGGCTTTGAGCCG
1 GTGATGTGATTCAAGCTACGGCTTAGCAGGCTATGAGCCG
** * * *
26886826 GTGATGTTTTTCAAGCTACGGCTTAGCAAGCTTTGAGCCA
1 GTGATGTGATTCAAGCTACGGCTTAGCAGGCTATGAGCCG
* *
26886866 GTGATGTGATTCAAGCTACGACTTAGCAGGCTATGAGTCG
1 GTGATGTGATTCAAGCTACGGCTTAGCAGGCTATGAGCCG
* *
26886906 GTGATGTGATTCAAGCTACGGCTTAGCAGGCTATTAGTCG
1 GTGATGTGATTCAAGCTACGGCTTAGCAGGCTATGAGCCG
* * * *
26886946 ATGATGTGAATCAAGCTACGGGTTAGCAAGCTATGAGCCG
1 GTGATGTGATTCAAGCTACGGCTTAGCAGGCTATGAGCCG
* * * ** * *
26886986 ATGTTATGATTCGGGCTACGGCCTAGCAGGCTATGAGTCG
1 GTGATGTGATTCAAGCTACGGCTTAGCAGGCTATGAGCCG
* * * *
26887026 GTGATGTGAATCAAGCTACAGCTTAGCATGCTATGAGCCA
1 GTGATGTGATTCAAGCTACGGCTTAGCAGGCTATGAGCCG
* * ** * *
26887066 GTGTTATGATTCGGGCTACAGCCTAGCAGGCTATGAGC
1 GTGATGTGATTCAAGCTACGGCTTAGCAGGCTATGAGC
26887104 TAGTGTTATT
Statistics
Matches: 231, Mismatches: 47, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 231 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (40 bp):
GTGATGTGATTCAAGCTACGGCTTAGCAGGCTATGAGCCG
Found at i:26887323 original size:2 final size:2
Alignment explanation
Indices: 26887271--26887307 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
26887261 TTATATCAAG
26887271 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26887308 TTACTCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26898831 original size:22 final size:21
Alignment explanation
Indices: 26898805--26898859 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
26898795 ATATCTAAAC
*
26898805 AATAACAACAAAATAGTAATA
1 AATAACAACAAAATAGCAATA
*
26898826 ATATAATAACAAAATAGCAATA
1 A-ATAACAACAAAATAGCAATA
*
26898848 AACAACAACAAA
1 AATAACAACAAA
26898860 GAACAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.67, C:0.13, G:0.04, T:0.16
Consensus pattern (21 bp):
AATAACAACAAAATAGCAATA
Found at i:26902927 original size:41 final size:41
Alignment explanation
Indices: 26902882--26903011 Score: 233
Period size: 41 Copynumber: 3.2 Consensus size: 41
26902872 ATGATCATGG
26902882 GATTATGAATAAGGAAGACTCATGTCTCGAGATGAGAATGA
1 GATTATGAATAAGGAAGACTCATGTCTCGAGATGAGAATGA
*
26902923 GATTATGAATAAGGAAGACTCATGTCTCAAGATGAGAATGA
1 GATTATGAATAAGGAAGACTCATGTCTCGAGATGAGAATGA
*
26902964 GATTATGAAGAAGGAAGACTCATGTCTCGAGATGAGAATGA
1 GATTATGAATAAGGAAGACTCATGTCTCGAGATGAGAATGA
*
26903005 GAATATG
1 GATTATG
26903012 GTAAAATGAA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 85 1.00
ACGTcount: A:0.40, C:0.09, G:0.27, T:0.24
Consensus pattern (41 bp):
GATTATGAATAAGGAAGACTCATGTCTCGAGATGAGAATGA
Found at i:26904278 original size:17 final size:16
Alignment explanation
Indices: 26904239--26904278 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
26904229 TACAGTTAAA
*
26904239 TTTTTTCCAATTTTTT
1 TTTTTTCCAATTTTTC
26904255 TTCTTTTCCAATATTTTC
1 TT-TTTTCCAAT-TTTTC
26904273 TTTTTT
1 TTTTTT
26904279 TTGGAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 13 0.62
18 6 0.29
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTCCAATTTTTC
Found at i:26905235 original size:7 final size:6
Alignment explanation
Indices: 26905206--26905267 Score: 72
Period size: 6 Copynumber: 9.8 Consensus size: 6
26905196 CAGTGCATAA
*
26905206 TAAAAT TAAAAT TAAAAT TAAAATT TAAAAAAT GAAAA- TAAAAT TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAAA-T T--AAAAT TAAAAT TAAAAT TAAAAT
26905256 TAAAAAT TAAAA
1 T-AAAAT TAAAA
26905268 AAAATAAAGC
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
5 4 0.08
6 32 0.65
7 8 0.16
8 1 0.02
9 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (6 bp):
TAAAAT
Found at i:26905248 original size:32 final size:33
Alignment explanation
Indices: 26905207--26905269 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
26905197 AGTGCATAAT
*
26905207 AAAATTAAAATTAAAATTAAAATTTAAAAAATG
1 AAAATTAAAATTAAAATTAAAAATTAAAAAATG
26905240 AAAA-TAAAATTAAAATTAAAAATTAAAAAA
1 AAAATTAAAATTAAAATTAAAAATTAAAAAA
26905270 AATAAAGCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (33 bp):
AAAATTAAAATTAAAATTAAAAATTAAAAAATG
Found at i:26905269 original size:26 final size:26
Alignment explanation
Indices: 26905207--26905268 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
26905197 AGTGCATAAT
*
26905207 AAAATTAAAATTAAAATTAAAATTTA
1 AAAATTAAAAATAAAATTAAAATTTA
* *
26905233 AAAAATGAAAATAAAATTAAAA-TTA
1 AAAATTAAAAATAAAATTAAAATTTA
26905258 AAAATTAAAAA
1 AAAATTAAAAA
26905269 AAATAAAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 12 0.39
26 19 0.61
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (26 bp):
AAAATTAAAAATAAAATTAAAATTTA
Found at i:26905416 original size:61 final size:61
Alignment explanation
Indices: 26905321--26905449 Score: 222
Period size: 61 Copynumber: 2.1 Consensus size: 61
26905311 TGTCCATGTT
* * *
26905321 GTGTGCCATTTCGAATTAAAATAAAAATACACCCAATGGTCACATGGTCTGGCACACGCCC
1 GTGTGTCATTTAGAATTAAAATAAAAATACACCCAATGGTCACACGGTCTGGCACACGCCC
*
26905382 GTGTGTCATTTAGAATTAAAATAAAAATATACCCAATGGTCACACGGTCTGGCACACGCCC
1 GTGTGTCATTTAGAATTAAAATAAAAATACACCCAATGGTCACACGGTCTGGCACACGCCC
26905443 GTGTGTC
1 GTGTGTC
26905450 CAGGTCATGT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (61 bp):
GTGTGTCATTTAGAATTAAAATAAAAATACACCCAATGGTCACACGGTCTGGCACACGCCC
Found at i:26912253 original size:32 final size:32
Alignment explanation
Indices: 26912217--26912287 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
26912207 GTTTTAGATT
*
26912217 TTGAAATTATTATGTTTTAAAG-TTGTTGAATA
1 TTGAAATTATTATG-TTTAAAGCCTGTTGAATA
* * *
26912249 TTGAATTTATTATGTTTCAAGCCTGTTGGATA
1 TTGAAATTATTATGTTTAAAGCCTGTTGAATA
26912281 TTGAAAT
1 TTGAAAT
26912288 GATTGACAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 6 0.18
32 27 0.82
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (32 bp):
TTGAAATTATTATGTTTAAAGCCTGTTGAATA
Found at i:26913265 original size:19 final size:19
Alignment explanation
Indices: 26913241--26913277 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26913231 TGTTTTAATG
*
26913241 TGGTGTAGTACTAATTATA
1 TGGTGTAATACTAATTATA
*
26913260 TGGTGTAATACTAGTTAT
1 TGGTGTAATACTAATTAT
26913278 GCACTTGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (19 bp):
TGGTGTAATACTAATTATA
Found at i:26913405 original size:22 final size:22
Alignment explanation
Indices: 26913379--26913452 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
26913369 ACTAATTTGT
*
26913379 AATATTAGTTATGCATTTGGAC
1 AATATTAGTTATGCATTTGGAA
* * **
26913401 AATATTGTAGTTAT-TATGTGGTGT
1 AATA-T-TAGTTATGCATTTGG-AA
*
26913425 AATACTAGTTATGCATTTGGAA
1 AATATTAGTTATGCATTTGGAA
26913447 AATATT
1 AATATT
26913453 GTAGTTATCA
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
22 16 0.42
23 11 0.29
24 11 0.29
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (22 bp):
AATATTAGTTATGCATTTGGAA
Found at i:26913413 original size:24 final size:24
Alignment explanation
Indices: 26913384--26913460 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 24
26913374 TTTGTAATAT
*
26913384 TAGTTATGCATTTGGACAATATTG
1 TAGTTATGCATTTGGAAAATATTG
* * ** *
26913408 TAGTTAT-TATGTGGTGTAATA--C
1 TAGTTATGCATTTGG-AAAATATTG
26913430 TAGTTATGCATTTGGAAAATATTG
1 TAGTTATGCATTTGGAAAATATTG
26913454 TAGTTAT
1 TAGTTAT
26913461 CATGTGGTCT
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
22 11 0.28
23 10 0.26
24 18 0.46
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (24 bp):
TAGTTATGCATTTGGAAAATATTG
Found at i:26913428 original size:46 final size:46
Alignment explanation
Indices: 26913376--26913477 Score: 159
Period size: 46 Copynumber: 2.2 Consensus size: 46
26913366 ACTACTAATT
* * *
26913376 TGTAATATTAGTTATGCATTTGGACAATATTGTAGTTATTATGTGG
1 TGTAATACTAGTTATGCATTTGGAAAATATTGTAGTTATCATGTGG
26913422 TGTAATACTAGTTATGCATTTGGAAAATATTGTAGTTATCATGTGG
1 TGTAATACTAGTTATGCATTTGGAAAATATTGTAGTTATCATGTGG
* *
26913468 TCTATTACTA
1 TGTAATACTA
26913478 ATTTGTAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (46 bp):
TGTAATACTAGTTATGCATTTGGAAAATATTGTAGTTATCATGTGG
Found at i:26914631 original size:31 final size:36
Alignment explanation
Indices: 26914565--26914639 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 36
26914555 TAACTCTTTC
26914565 TAAAATTAAAAATTATTTAAAACTTTATTTCTAAAA-T
1 TAAAATTAAAAATTATTTAAAA--TTATTTCTAAAATT
26914602 TAAAATTAAAAA-TA-TTAAAA-TATTT-TAAAATT
1 TAAAATTAAAAATTATTTAAAATTATTTCTAAAATT
26914634 TAAAAT
1 TAAAAT
26914640 GATTTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
31 5 0.14
32 12 0.32
35 6 0.16
36 2 0.05
37 12 0.32
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (36 bp):
TAAAATTAAAAATTATTTAAAATTATTTCTAAAATT
Found at i:26914638 original size:17 final size:18
Alignment explanation
Indices: 26914607--26914653 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
26914597 AAAATTAAAA
26914607 TTAAAAATATTAAAAT-AT
1 TTAAAAAT-TTAAAATGAT
*
26914625 TTTAAAATTTAAAATGAT
1 TTAAAAATTTAAAATGAT
26914643 TTAAAAATTTA
1 TTAAAAATTTA
26914654 TTTCAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TTAAAAATTTAAAATGAT
Found at i:26914652 original size:8 final size:8
Alignment explanation
Indices: 26914603--26914653 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
26914593 TTCTAAAATT
26914603 AAAA-TTA
1 AAAATTTA
26914610 AAAATATTA
1 AAAAT-TTA
*
26914619 AAATATTTT
1 AAA-ATTTA
26914628 AAAATTTA
1 AAAATTTA
26914636 AAATGATTTA
1 AAA--ATTTA
26914646 AAAATTTA
1 AAAATTTA
26914654 TTTCAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 4 0.11
8 12 0.32
9 11 0.30
10 10 0.27
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (8 bp):
AAAATTTA
Found at i:26916171 original size:29 final size:28
Alignment explanation
Indices: 26916130--26916264 Score: 146
Period size: 30 Copynumber: 4.6 Consensus size: 28
26916120 ATGTTTCAAC
*
26916130 CCCTAAACTTTCTAAAAATTCAAATTTGAT
1 CCCTAAACTTTCTAAAAATT-AAATTT-AA
* * *
26916160 CCCTATAC-TTCTTAAAAATTACATTTTAG
1 CCCTAAACTTTC-TAAAAATTA-AATTTAA
26916189 CCCTAAACTTTCTAAAAATTAAATATTAA
1 CCCTAAACTTTCTAAAAATTAAAT-TTAA
*
26916218 CCCTTAAACTTTCTAAAAATTACATTTTAA
1 CCC-TAAACTTTCTAAAAATTA-AATTTAA
*
26916248 CCCTAAACTTTCCAAAA
1 CCCTAAACTTTCTAAAA
26916265 TTTTGATTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
28 2 0.02
29 40 0.44
30 47 0.52
31 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.36
Consensus pattern (28 bp):
CCCTAAACTTTCTAAAAATTAAATTTAA
Found at i:26916204 original size:59 final size:59
Alignment explanation
Indices: 26916130--26916264 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 59
26916120 ATGTTTCAAC
* * *
26916130 CCCTAAACTTTCTAAAAATTCAAAT-TTGATCCC-TATAC-TTCTTAAAAATTACATTTTAG
1 CCCTAAACTTTCTAAAAATT-AAATATT-AACCCTTAAACTTTC-TAAAAATTACATTTTAA
26916189 CCCTAAACTTTCTAAAAATTAAATATTAACCCTTAAACTTTCTAAAAATTACATTTTAA
1 CCCTAAACTTTCTAAAAATTAAATATTAACCCTTAAACTTTCTAAAAATTACATTTTAA
*
26916248 CCCTAAACTTTCCAAAA
1 CCCTAAACTTTCTAAAA
26916265 TTTTGATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
58 8 0.12
59 58 0.84
60 3 0.04
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.36
Consensus pattern (59 bp):
CCCTAAACTTTCTAAAAATTAAATATTAACCCTTAAACTTTCTAAAAATTACATTTTAA
Found at i:26916273 original size:29 final size:29
Alignment explanation
Indices: 26916130--26916278 Score: 165
Period size: 29 Copynumber: 5.1 Consensus size: 29
26916120 ATGTTTCAAC
* *
26916130 CCCTAAACTTTCTAAAAATTCAAATTTGAT
1 CCCTAAACTTTCTAAAAATT-AAATTTTAA
* * *
26916160 CCCTATAC-TTCTTAAAAATTACATTTTAG
1 CCCTAAACTTTC-TAAAAATTAAATTTTAA
*
26916189 CCCTAAACTTTCTAAAAATTAAATATTAA
1 CCCTAAACTTTCTAAAAATTAAATTTTAA
*
26916218 CCCTTAAACTTTCTAAAAATTACATTTTAA
1 CCC-TAAACTTTCTAAAAATTAAATTTTAA
* * **
26916248 CCCTAAACTTTCCAAAATTTTGATTTTAA
1 CCCTAAACTTTCTAAAAATTAAATTTTAA
26916277 CC
1 CC
26916279 GTATTTTTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
29 57 0.56
30 45 0.44
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (29 bp):
CCCTAAACTTTCTAAAAATTAAATTTTAA
Found at i:26919830 original size:57 final size:57
Alignment explanation
Indices: 26919743--26919852 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
26919733 TTAAAAAAAG
** * * *
26919743 AAGAAAAAAAGAGAAAAGGGTCGAGATGAAAACCCGCGAAGGGGATCTTGAAACCTA
1 AAGAAAAAAAGAGAAAAAAGTCAAGATGAAAACCCGCAAAGGGCATCTTGAAACCTA
*
26919800 AAGAAAAAAAG-GAAAAAAAGTCAAGATGAAAACCTGCAAAGGGCATCTTGAAA
1 AAGAAAAAAAGAG-AAAAAAGTCAAGATGAAAACCCGCAAAGGGCATCTTGAAA
26919853 ATCTATTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 1 0.02
57 45 0.98
ACGTcount: A:0.52, C:0.13, G:0.25, T:0.11
Consensus pattern (57 bp):
AAGAAAAAAAGAGAAAAAAGTCAAGATGAAAACCCGCAAAGGGCATCTTGAAACCTA
Found at i:26921340 original size:13 final size:14
Alignment explanation
Indices: 26921326--26921405 Score: 96
Period size: 13 Copynumber: 5.9 Consensus size: 14
26921316 ATTTCACCAA
*
26921326 AAAAAGAGAAAAAA
1 AAAAAGAGAAAAAG
26921340 AGAAAAGA-AAAAAG
1 A-AAAAGAGAAAAAG
26921354 AAAAA-AGAAAAAG
1 AAAAAGAGAAAAAG
26921367 AAAAAGA-AAAAAG
1 AAAAAGAGAAAAAG
*
26921380 AAAAAAAGAAGAAAG
1 AAAAAGAGAA-AAAG
26921395 AAAAAGA-AAAA
1 AAAAAGAGAAAA
26921406 GGAGAGGTCG
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
12 1 0.02
13 29 0.50
14 12 0.21
15 16 0.28
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAGAGAAAAAG
Found at i:26921345 original size:7 final size:7
Alignment explanation
Indices: 26921325--26921405 Score: 98
Period size: 7 Copynumber: 11.7 Consensus size: 7
26921315 TATTTCACCA
26921325 AAAAAAG
1 AAAAAAG
26921332 AGAAAAA-
1 A-AAAAAG
26921339 AAGAAAAG
1 AA-AAAAG
26921347 AAAAAAG
1 AAAAAAG
26921354 AAAAAAG
1 AAAAAAG
26921361 -AAAAAG
1 AAAAAAG
26921367 -AAAAAG
1 AAAAAAG
26921373 AAAAAAG
1 AAAAAAG
26921380 AAAAAAAG
1 -AAAAAAG
*
26921388 AAGAAAG
1 AAAAAAG
26921395 -AAAAAG
1 AAAAAAG
26921401 AAAAA
1 AAAAA
26921406 GGAGAGGTCG
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
6 18 0.27
7 34 0.52
8 14 0.21
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:26921351 original size:6 final size:6
Alignment explanation
Indices: 26921336--26921406 Score: 81
Period size: 6 Copynumber: 11.0 Consensus size: 6
26921326 AAAAAGAGAA
26921336 AAAAAG -AAAAG AAAAAAG AAAAAAG AAAAAG AAAAAG AAAAAAG AAAAAAAG
1 AAAAAG AAAAAG -AAAAAG -AAAAAG AAAAAG AAAAAG -AAAAAG --AAAAAG
26921388 AAGAAAG AAAAAG AAAAAG
1 AA-AAAG AAAAAG AAAAAG
26921407 GAGAGGTCGA
Statistics
Matches: 60, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.08
6 24 0.40
7 24 0.40
8 7 0.12
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:26921359 original size:19 final size:18
Alignment explanation
Indices: 26921324--26921393 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 18
26921314 TTATTTCACC
*
26921324 AAAAAAAGAGAAAAAAAGA
1 AAAAAAAAAG-AAAAAAGA
26921343 AAAGAAAAAAGAAAAAAGA
1 AAA-AAAAAAGAAAAAAGA
26921362 AAAAGAAAAAGAAAAAAGA
1 AAAA-AAAAAGAAAAAAGA
*
26921381 AAAAAAGAAGAAA
1 AAAAAAAAAGAAA
26921394 GAAAAAGAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.19
19 32 0.68
20 6 0.13
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAGA
Found at i:26921395 original size:34 final size:34
Alignment explanation
Indices: 26921326--26921406 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
26921316 ATTTCACCAA
*
26921326 AAAAAGAGAAAAAAAGAAAAGAAAAAAGAAAAAAG
1 AAAAAGA-AAAAGAAGAAAAGAAAAAAGAAAAAAG
*
26921361 AAAAAGAAAAAGAA-AAAAGAAAAAAAGAAGAAAG
1 AAAAAGAAAAAGAAGAAAAG-AAAAAAGAAAAAAG
26921395 AAAAAGAAAAAG
1 AAAAAGAAAAAG
26921407 GAGAGGTCGA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
33 5 0.12
34 31 0.72
35 7 0.16
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (34 bp):
AAAAAGAAAAAGAAGAAAAGAAAAAAGAAAAAAG
Found at i:26922201 original size:24 final size:24
Alignment explanation
Indices: 26922166--26922217 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
26922156 TTGCATTCAT
*
26922166 CATTCATACCCATCTAATTAGGAG
1 CATTCATACCCATCTAATTAAGAG
* *
26922190 CATTCATGCCCATCTAGTTAAGAG
1 CATTCATACCCATCTAATTAAGAG
26922214 CATT
1 CATT
26922218 TGACTCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (24 bp):
CATTCATACCCATCTAATTAAGAG
Found at i:26922923 original size:43 final size:43
Alignment explanation
Indices: 26922720--26923040 Score: 327
Period size: 45 Copynumber: 7.4 Consensus size: 43
26922710 TTACATCACA
* *
26922720 ATCCAATCTTTTACCCTTAAGTCAAGAGGGGCAGATTGAAG-TC
1 ATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAGACC
*
26922763 ATCCAATCTTTTACCCCTAATCCAA-AGGGGCAGATTGAAGCCACA
1 ATCCAATCTTTTACCCCTAAT-CAAGAGGGGCAGATTGAAG--ACC
*
26922808 ACCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACC
1 ATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG--ACC
* * *
26922853 GTCTAAATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGACC
1 ATC-CAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGACC
*
26922897 ATCCAATCTTTTACCCCTAA-CTAAGAGGGGCAGATTGAAGCCAC
1 ATCCAATCTTTTACCCCTAATC-AAGAGGGGCAGATTGAAGAC-C
* * *
26922941 AACGTAATCTTTTACCCCTAATCAAGAGGGGTAGATTG-AGACTATC
1 ATC-CAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGAC---C
* * * *
26922987 GTCCAATCTTTTACCCC-GATC-A-TGGGGCAGATT-AA-AGC
1 ATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGACC
26923025 ATCCAATCTTTTACCC
1 ATCCAATCTTTTACCC
26923041 ATCCAATCTT
Statistics
Matches: 239, Mismatches: 26, Indels: 31
0.81 0.09 0.10
Matches are distributed among these distances:
38 16 0.07
41 1 0.00
42 27 0.11
43 57 0.24
44 17 0.07
45 83 0.35
46 38 0.16
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGACC
Found at i:26922930 original size:89 final size:88
Alignment explanation
Indices: 26922720--26923003 Score: 341
Period size: 88 Copynumber: 3.2 Consensus size: 88
26922710 TTACATCACA
* * *
26922720 ATCCAATCTTTTACCCTTAAGTCAAGAGGGGCAGATTGAAGTCA---TCCAATCTTTTACCCCTA
1 ATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAGCCACCGTCTAATCTTTTACCCCTA
*
26922782 ATCCAA-AGGGGCAGATTGAAGCCACA
65 AT-CAAGAGGGGCAGATTGAAG--ACC
*
26922808 ACCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCGTCTAAATCTTTTACCCCTA
1 ATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCGTCT-AATCTTTTACCCCTA
*
26922873 GTCAAGAGGGGCAGATTGAAGACC
65 ATCAAGAGGGGCAGATTGAAGACC
26922897 ATCCAATCTTTTACCCCTAA-CTAAGAGGGGCAGATTGAAGCCACAACG--TAATCTTTTACCCC
1 ATCCAATCTTTTACCCCTAATC-AAGAGGGGCAGATTGAAGCCAC--CGTCTAATCTTTTACCCC
*
26922959 TAATCAAGAGGGGTAGATTG-AGACTATC
63 TAATCAAGAGGGGCAGATTGAAGAC---C
*
26922987 GTCCAATCTTTTACCCC
1 ATCCAATCTTTTACCCC
26923004 GATCATGGGG
Statistics
Matches: 175, Mismatches: 10, Indels: 20
0.85 0.05 0.10
Matches are distributed among these distances:
87 26 0.15
88 50 0.29
89 44 0.25
90 22 0.13
91 33 0.19
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (88 bp):
ATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCGTCTAATCTTTTACCCCTAA
TCAAGAGGGGCAGATTGAAGACC
Found at i:26922964 original size:134 final size:133
Alignment explanation
Indices: 26922724--26923040 Score: 434
Period size: 134 Copynumber: 2.4 Consensus size: 133
26922714 ATCACAATCC
* *
26922724 AATCTTTTACCCTTAAGTCAAGAGGGGCAGATTGAAG-TCATCCAATCTTTTACCCCTAATCCAA
1 AATCTTTTACCCCT-AGTCAAGAGGGGCAGATTGAAGACCATCCAATCTTTTACCCCTAATCCAA
26922788 AGGGGCAGATTGAAGCCACAACCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGA-AGCCAC
65 AGGGGCAGATTGAAGCCACAACCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAGA-CCAC
26922852 CGTCTA
129 CGTC-A
*
26922858 AATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGACCATCCAATCTTTTACCCCTAA-CTAAG
1 AATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGACCATCCAATCTTTTACCCCTAATCCAA-
** * * *
26922922 AGGGGCAGATTGAAGCCACAACGTAATCTTTTACCCCTAATCAAGAGGGGTAGATTGAGACTATC
65 AGGGGCAGATTGAAGCCACAACCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAGACCACC
*
26922987 GTCC
130 GTCA
* * *
26922991 AATCTTTTACCCCGA-TC-A-TGGGGCAGATT-AA-AGCATCCAATCTTTTACCC
1 AATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGACCATCCAATCTTTTACCC
26923041 ATCCAATCTT
Statistics
Matches: 168, Mismatches: 12, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
128 18 0.11
129 2 0.01
130 10 0.06
131 1 0.01
132 2 0.01
133 39 0.23
134 95 0.57
135 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (133 bp):
AATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGACCATCCAATCTTTTACCCCTAATCCAAA
GGGGCAGATTGAAGCCACAACCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAGACCACCG
TCA
Found at i:26923875 original size:55 final size:55
Alignment explanation
Indices: 26923809--26923918 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
26923799 TTTCTTTTGT
*
26923809 TTCGAAATATAGTAGATAAAAATATAAAATAAAGAGAGAAAAGGGAAGGAGGTTA
1 TTCGAAATATAGCAGATAAAAATATAAAATAAAGAGAGAAAAGGGAAGGAGGTTA
26923864 TTCGAAATATAGCAGATAAAAATATAAAATAAAGAGAGAAAAGGGAAGGAGGTTA
1 TTCGAAATATAGCAGATAAAAATATAAAATAAAGAGAGAAAAGGGAAGGAGGTTA
26923919 CCTGGTTGTC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.55, C:0.03, G:0.24, T:0.19
Consensus pattern (55 bp):
TTCGAAATATAGCAGATAAAAATATAAAATAAAGAGAGAAAAGGGAAGGAGGTTA
Found at i:26924710 original size:29 final size:30
Alignment explanation
Indices: 26924651--26924846 Score: 188
Period size: 30 Copynumber: 6.7 Consensus size: 30
26924641 ATTATGTTTC
* *
26924651 AACCCCTAAACTTTCCAAAAATTCAAATTTG
1 AACCCCTAAACTTTCTAAAAATT-ACATTTG
*
26924682 ATCCCC-AAACTTTCTAAAAATTACATTTG
1 AACCCCTAAACTTTCTAAAAATTACATTTG
* * *
26924711 -GCCCC-AAACTTTTTAAAAACTACATTT-
1 AACCCCTAAACTTTCTAAAAATTACATTTG
* * *
26924738 AACTCTTAAACTTTCTAAAAATTACATTTT
1 AACCCCTAAACTTTCTAAAAATTACATTTG
* * * *
26924768 AACCCCTAAACTTTTTGAAAATTGCATTTT
1 AACCCCTAAACTTTCTAAAAATTACATTTG
* *
26924798 AACCCCTAAACTTTCTGAAAATTGCATTTTG
1 AACCCCTAAACTTTCTAAAAATTACA-TTTG
*
26924829 -ACTCCTAAACTTTC-AAAA
1 AACCCCTAAACTTTCTAAAA
26924847 TTTTTGATTT
Statistics
Matches: 141, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.18
29 29 0.21
30 78 0.55
31 8 0.06
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (30 bp):
AACCCCTAAACTTTCTAAAAATTACATTTG
Found at i:26941419 original size:15 final size:14
Alignment explanation
Indices: 26941395--26941428 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
26941385 TTTTACATTT
*
26941395 TTTTATTTGTTTCA
1 TTTTACTTGTTTCA
26941409 CTTTTACTTGTTTCA
1 -TTTTACTTGTTTCA
26941424 TTTTA
1 TTTTA
26941429 AATTCTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.68
Consensus pattern (14 bp):
TTTTACTTGTTTCA
Found at i:26957885 original size:21 final size:22
Alignment explanation
Indices: 26957861--26957903 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
26957851 ACTTTCATCA
*
26957861 TTAAGCTTTATT-AACCCATTT
1 TTAAGCTTGATTAAACCCATTT
*
26957882 TTAATCTTGATTAAACCCATTT
1 TTAAGCTTGATTAAACCCATTT
26957904 ATACTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.47
Consensus pattern (22 bp):
TTAAGCTTGATTAAACCCATTT
Found at i:26975654 original size:21 final size:22
Alignment explanation
Indices: 26975630--26975672 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
26975620 ACTTTCATCA
*
26975630 TTAAGCTTTATTA-ACCCATTT
1 TTAAGCTTGATTATACCCATTT
*
26975651 TTAATCTTGATTATACCCATTT
1 TTAAGCTTGATTATACCCATTT
26975673 ATACTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.28, C:0.19, G:0.05, T:0.49
Consensus pattern (22 bp):
TTAAGCTTGATTATACCCATTT
Found at i:26978363 original size:24 final size:24
Alignment explanation
Indices: 26978318--26978363 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
26978308 TTAAATCTTA
* *
26978318 TCAGCGTAAATGTAATATAAATTG
1 TCAGAGTAAATGTAATAAAAATTG
26978342 TCAGAGTAAAT-TAATCAAAAAT
1 TCAGAGTAAATGTAAT-AAAAAT
26978364 CGATTGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (24 bp):
TCAGAGTAAATGTAATAAAAATTG
Found at i:26979896 original size:2 final size:2
Alignment explanation
Indices: 26979876--26979918 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
26979866 CAACATTTAT
* *
26979876 TA TA TA GTA -A TA TA CA TA TA TA TG TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26979918 T
1 T
26979919 TCTTCTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:26980582 original size:17 final size:18
Alignment explanation
Indices: 26980562--26980599 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
26980552 TAGAACAAAT
26980562 AAAATGCAGA-GATAA-TA
1 AAAATGCA-ATGATAATTA
26980579 AAAATGCAATGATAATTA
1 AAAATGCAATGATAATTA
26980597 AAA
1 AAA
26980600 GAAATGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.05
17 13 0.68
18 5 0.26
ACGTcount: A:0.61, C:0.05, G:0.13, T:0.21
Consensus pattern (18 bp):
AAAATGCAATGATAATTA
Found at i:26980999 original size:3 final size:3
Alignment explanation
Indices: 26980991--26981047 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
26980981 CTAGGCAACA
*
26980991 TCT TCT TCT TTT TCT TGCT TC- TCT TCT AT-T TCT TCT TCT T-T TCTT
1 TCT TCT TCT TCT TCT T-CT TCT TCT TCT -TCT TCT TCT TCT TCT TC-T
26981036 TCT TCT TCT TCT
1 TCT TCT TCT TCT
26981048 GCCTCAATAC
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 5 0.11
3 34 0.74
4 7 0.15
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:26981017 original size:18 final size:17
Alignment explanation
Indices: 26980994--26981047 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
26980984 GGCAACATCT
26980994 TCTTCTTTTTCTTGCTTC
1 TCTTCTTTTTCTT-CTTC
*
26981012 TCTTCTATTTCTTCTTC
1 TCTTCTTTTTCTTCTTC
*
26981029 TTTTCTTTCTTCTTCTTC
1 TCTTCTTT-TTCTTCTTC
26981047 T
1 T
26981048 GCCTCAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 10 0.31
18 22 0.69
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.69
Consensus pattern (17 bp):
TCTTCTTTTTCTTCTTC
Found at i:26981027 original size:30 final size:30
Alignment explanation
Indices: 26980991--26981047 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
26980981 CTAGGCAACA
26980991 TCTTCTTCTTTTTCTTGCTTC-TCTTCTATT
1 TCTTCTTC-TTTTCTTGCTTCTTCTTCTATT
*
26981021 TCTTCTTCTTTTCTTTCTTCTTCTTCT
1 TCTTCTTCTTTTCTTGCTTCTTCTTCT
26981048 GCCTCAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (30 bp):
TCTTCTTCTTTTCTTGCTTCTTCTTCTATT
Found at i:26996429 original size:21 final size:22
Alignment explanation
Indices: 26996405--26996447 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
26996395 ACTTTCATCA
26996405 TTAACCTTGATT-AACCCATTT
1 TTAACCTTGATTAAACCCATTT
*
26996426 TTAATCTTGATTAAACCCATTT
1 TTAACCTTGATTAAACCCATTT
26996448 ATACTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (22 bp):
TTAACCTTGATTAAACCCATTT
Found at i:26997710 original size:50 final size:52
Alignment explanation
Indices: 26997612--26997767 Score: 135
Period size: 50 Copynumber: 3.1 Consensus size: 52
26997602 TGACATCCAT
* * * * *
26997612 TAACTCTCATGATTAATT-AAGTTTGCATCA-TAAAT-AATGACATCCATTAAG
1 TAACTCACATG-TTAGTTAAAGTATGCATCATTAAATCAA-GTCATGCATTAAG
* * *
26997663 TAACTTACATGTTAGTTAAA-TATGCATCA-TAAATCCTA-TCATGCATTATG
1 TAACTCACATGTTAGTTAAAGTATGCATCATTAAAT-CAAGTCATGCATTAAG
* * * *
26997713 TGACTCCCATGTTAGTTAAAGTTTGCATCATTAAATCAAGTCATGCATTTAG
1 TAACTCACATGTTAGTTAAAGTATGCATCATTAAATCAAGTCATGCATTAAG
26997765 TAA
1 TAA
26997768 TTCATTAGTT
Statistics
Matches: 83, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
50 44 0.53
51 21 0.25
52 18 0.22
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (52 bp):
TAACTCACATGTTAGTTAAAGTATGCATCATTAAATCAAGTCATGCATTAAG
Found at i:27006382 original size:16 final size:16
Alignment explanation
Indices: 27006357--27006406 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
27006347 CCCATTGACT
*
27006357 TTGACCTGTTGACCTA
1 TTGACTTGTTGACCTA
27006373 TTGACTTGTTGA-CT-
1 TTGACTTGTTGACCTA
27006387 TTGAC-T-TTGACC-A
1 TTGACTTGTTGACCTA
27006400 TTGACTT
1 TTGACTT
27006407 TCCTTTGACA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
12 4 0.13
13 7 0.23
14 6 0.20
15 2 0.07
16 11 0.37
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (16 bp):
TTGACTTGTTGACCTA
Found at i:27006390 original size:22 final size:21
Alignment explanation
Indices: 27006335--27006391 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
27006325 CTCGACCAAT
*
27006335 CTGTTGAC-CTGACCCATTGA
1 CTGTTGACTTTGACCCATTGA
*
27006355 CT-TTGACCTGTTGACCTATTGA
1 CTGTTGA-CT-TTGACCCATTGA
27006377 CTTGTTGACTTTGAC
1 C-TGTTGACTTTGAC
27006392 TTTGACCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
22 16 0.53
23 3 0.10
24 4 0.13
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.39
Consensus pattern (21 bp):
CTGTTGACTTTGACCCATTGA
Found at i:27006415 original size:30 final size:30
Alignment explanation
Indices: 27006351--27006406 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
27006341 ACCTGACCCA
27006351 TTGACTTTGACCTGTTGACCTATTGACTTG
1 TTGACTTTGACCTGTTGACCTATTGACTTG
27006381 TTGACTTTGA-CT-TTGACC-ATTGACTT
1 TTGACTTTGACCTGTTGACCTATTGACTT
27006407 TCCTTTGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 8 0.31
28 6 0.23
29 2 0.08
30 10 0.38
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.45
Consensus pattern (30 bp):
TTGACTTTGACCTGTTGACCTATTGACTTG
Found at i:27010929 original size:18 final size:19
Alignment explanation
Indices: 27010898--27010933 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27010888 GAATATTTTT
*
27010898 TATTTTTTTATTTTTCTCA
1 TATTTTTCTATTTTTCTCA
27010917 TATTTTTCT-TTTTTCTC
1 TATTTTTCTATTTTTCTC
27010934 TACTTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (19 bp):
TATTTTTCTATTTTTCTCA
Found at i:27014601 original size:19 final size:19
Alignment explanation
Indices: 27014577--27014619 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
27014567 TGTGTTCATC
27014577 AGACAATTGTCGGTTGTGG
1 AGACAATTGTCGGTTGTGG
27014596 AGACAATTGTCGGTTGTGG
1 AGACAATTGTCGGTTGTGG
*
27014615 CGACA
1 AGACA
27014620 TTTTTGGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (19 bp):
AGACAATTGTCGGTTGTGG
Found at i:27034560 original size:202 final size:202
Alignment explanation
Indices: 27034214--27034619 Score: 812
Period size: 202 Copynumber: 2.0 Consensus size: 202
27034204 TATAATAAAA
27034214 ATTAAACCTAAAAACCGAACCCAATATGATTTAAACTCAAATTAAAAGCCCGAAACTCGTAATTC
1 ATTAAACCTAAAAACCGAACCCAATATGATTTAAACTCAAATTAAAAGCCCGAAACTCGTAATTC
27034279 CCGTCATAATCACGTCCAGAAATTCTGCTTGCGCAGTCTTTATTAAAACGATCATAACTTGAGCT
66 CCGTCATAATCACGTCCAGAAATTCTGCTTGCGCAGTCTTTATTAAAACGATCATAACTTGAGCT
27034344 CCTAAACTTGAAATAAAGTAATTCAAAGTGAGTTTCGAAGATAAGAGATAGATCTTCAACATCCA
131 CCTAAACTTGAAATAAAGTAATTCAAAGTGAGTTTCGAAGATAAGAGATAGATCTTCAACATCCA
27034409 TGCAGAC
196 TGCAGAC
27034416 ATTAAACCTAAAAACCGAACCCAATATGATTTAAACTCAAATTAAAAGCCCGAAACTCGTAATTC
1 ATTAAACCTAAAAACCGAACCCAATATGATTTAAACTCAAATTAAAAGCCCGAAACTCGTAATTC
27034481 CCGTCATAATCACGTCCAGAAATTCTGCTTGCGCAGTCTTTATTAAAACGATCATAACTTGAGCT
66 CCGTCATAATCACGTCCAGAAATTCTGCTTGCGCAGTCTTTATTAAAACGATCATAACTTGAGCT
27034546 CCTAAACTTGAAATAAAGTAATTCAAAGTGAGTTTCGAAGATAAGAGATAGATCTTCAACATCCA
131 CCTAAACTTGAAATAAAGTAATTCAAAGTGAGTTTCGAAGATAAGAGATAGATCTTCAACATCCA
27034611 TGCAGAC
196 TGCAGAC
27034618 AT
1 AT
27034620 CTCAACCCAT
Statistics
Matches: 204, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
202 204 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.26
Consensus pattern (202 bp):
ATTAAACCTAAAAACCGAACCCAATATGATTTAAACTCAAATTAAAAGCCCGAAACTCGTAATTC
CCGTCATAATCACGTCCAGAAATTCTGCTTGCGCAGTCTTTATTAAAACGATCATAACTTGAGCT
CCTAAACTTGAAATAAAGTAATTCAAAGTGAGTTTCGAAGATAAGAGATAGATCTTCAACATCCA
TGCAGAC
Found at i:27041002 original size:50 final size:50
Alignment explanation
Indices: 27040916--27041039 Score: 142
Period size: 50 Copynumber: 2.4 Consensus size: 50
27040906 TGCATGACTT
* *
27040916 GATTTAATGATGAAAACTTTAACTAACATGGGAGTTACATAATGCATGAT-AG
1 GATTT-ATGATGCAAA-TTTAACTAACATGGAAGTTACATAATGCATG-TCAG
* * * *
27040968 GATTTATGATGCATATTTAACTAACATGTAAGTTACTTAATGCATGTCAT
1 GATTTATGATGCAAATTTAACTAACATGGAAGTTACATAATGCATGTCAG
* *
27041018 TATTTATGATGCAAACTTAACT
1 GATTTATGATGCAAATTTAACT
27041040 GATTTTGAGA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.02
50 48 0.77
51 8 0.13
52 5 0.08
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (50 bp):
GATTTATGATGCAAATTTAACTAACATGGAAGTTACATAATGCATGTCAG
Found at i:27041279 original size:17 final size:17
Alignment explanation
Indices: 27041248--27041280 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27041238 CAAACACTTA
27041248 TTAAACTAAAATAAAAC
1 TTAAACTAAAATAAAAC
27041265 TTAAA-TAAAATTAAAA
1 TTAAACTAAAA-TAAAA
27041281 AGTCCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAACTAAAATAAAAC
Found at i:27041924 original size:17 final size:17
Alignment explanation
Indices: 27041904--27041936 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27041894 TTTAAGGACT
27041904 TTTTAATTTTA-TTTAAG
1 TTTT-ATTTTAGTTTAAG
27041921 TTTTATTTTAGTTTAA
1 TTTTATTTTAGTTTAA
27041937 TAAGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTATTTTAGTTTAAG
Found at i:27047538 original size:79 final size:80
Alignment explanation
Indices: 27047422--27047570 Score: 246
Period size: 79 Copynumber: 1.9 Consensus size: 80
27047412 ACTAATTTCA
* * * *
27047422 TTTTAACTCTTGTAGGGAAGCTAATGAGTCATGTCTCTTCATTAGGATC-GATGTAGTTAAAAAG
1 TTTTAACTCTTGTAGGAAAGCCAATGAGTCATCTCTCTTCATTAGGATCTGATGTAGCTAAAAAG
27047486 GCATGGCAATTTCGT
66 GCATGGCAATTTCGT
*
27047501 TTTTAACTCTTGTAGGAAAGCCAATGAGTCATCTCTCTTCATTAGGATCTGATGTAGCTGAAAAG
1 TTTTAACTCTTGTAGGAAAGCCAATGAGTCATCTCTCTTCATTAGGATCTGATGTAGCTAAAAAG
27047566 GCATG
66 GCATG
27047571 ACATTTCTCC
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
79 46 0.72
80 18 0.28
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (80 bp):
TTTTAACTCTTGTAGGAAAGCCAATGAGTCATCTCTCTTCATTAGGATCTGATGTAGCTAAAAAG
GCATGGCAATTTCGT
Found at i:27048068 original size:48 final size:47
Alignment explanation
Indices: 27048012--27048130 Score: 177
Period size: 48 Copynumber: 2.5 Consensus size: 47
27048002 TAATGCAAAA
* * *
27048012 GCATTTAACAAACAAAATAGTTAATAATGCAGATTACTAAACAAAGAT
1 GCATTTAACAAACAAAACACTTAATAATACAGATTA-TAAACAAAGAT
* *
27048060 GCATTTAACAAACAAAACACTTAATGATACAGATTATTAACAAAGAT
1 GCATTTAACAAACAAAACACTTAATAATACAGATTATAAACAAAGAT
27048107 GCATTTAACAAA-AAAACACTTAAT
1 GCATTTAACAAACAAAACACTTAAT
27048131 GAAGCATAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
46 12 0.18
47 22 0.33
48 32 0.48
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.25
Consensus pattern (47 bp):
GCATTTAACAAACAAAACACTTAATAATACAGATTATAAACAAAGAT
Found at i:27049992 original size:27 final size:28
Alignment explanation
Indices: 27049949--27050062 Score: 103
Period size: 27 Copynumber: 4.1 Consensus size: 28
27049939 TAGAAATTGA
27049949 TTTTTCAATACTT-GAATTTTTTTCTTCT
1 TTTTTCAA-ACTTCGAATTTTTTTCTTCT
** *
27049977 TTTTTTTAA-TTCGAATTCTTTTCTTCT
1 TTTTTCAAACTTCGAATTTTTTTCTTCT
**
27050004 TTTTTCAAACTTCGAATTTTCTTTAAT-T
1 TTTTTCAAACTTCGAATTTT-TTTCTTCT
* *
27050032 TTTTTCAATATTTC-AATATTTTTCTT-T
1 TTTTTCAA-ACTTCGAATTTTTTTCTTCT
27050059 TTTT
1 TTTT
27050063 CACTTTTTCT
Statistics
Matches: 70, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.03
27 31 0.44
28 29 0.41
29 8 0.11
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.65
Consensus pattern (28 bp):
TTTTTCAAACTTCGAATTTTTTTCTTCT
Found at i:27049995 original size:22 final size:24
Alignment explanation
Indices: 27049970--27050027 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
27049960 TTGAATTTTT
27049970 TTCTTCTTTTTTTT-AA-TTCGAA
1 TTCTTCTTTTTTTTAAACTTCGAA
27049992 TTCTTTTCTTCTTTTTTCAAACTTCGAA
1 TTC--TTCTT-TTTTTT-AAACTTCGAA
27050020 TT-TTCTTT
1 TTCTTCTTT
27050028 AATTTTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
22 3 0.10
24 6 0.20
25 11 0.37
27 2 0.07
28 8 0.27
ACGTcount: A:0.16, C:0.17, G:0.03, T:0.64
Consensus pattern (24 bp):
TTCTTCTTTTTTTTAAACTTCGAA
Found at i:27051391 original size:50 final size:50
Alignment explanation
Indices: 27051267--27051409 Score: 146
Period size: 50 Copynumber: 2.8 Consensus size: 50
27051257 TGGATTGCTA
* *
27051267 AATGCATGAC-TTGATTTAATGATGCAAACTTTAACTAACATGGGAGTTACAT
1 AATGCATGTCATT-ATTT-ATGATGCAAA-TTTAACTAACATGGAAGTTACAT
** * * * *
27051319 AATGCATGAT-AGGATTTTTGATGCATATTTAACTAACATGTAAGTTACTT
1 AATGCATG-TCATTATTTATGATGCAAATTTAACTAACATGGAAGTTACAT
*
27051369 AATGCATGTCATTATTTATGATGCAAACTTAACTAATCATG
1 AATGCATGTCATTATTTATGATGCAAATTTAACTAA-CATG
27051410 AGAGTTAATG
Statistics
Matches: 74, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
49 1 0.01
50 49 0.66
51 12 0.16
52 12 0.16
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (50 bp):
AATGCATGTCATTATTTATGATGCAAATTTAACTAACATGGAAGTTACAT
Found at i:27058231 original size:18 final size:17
Alignment explanation
Indices: 27058210--27058250 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
27058200 AAAAGTAGAG
*
27058210 AAAAAAGAAAAATATGAA
1 AAAAAAGAAAAAAAT-AA
*
27058228 AAAAAATAAAAAAATAA
1 AAAAAAGAAAAAAATAA
27058245 AAAAAA
1 AAAAAA
27058251 TATTCTGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (17 bp):
AAAAAAGAAAAAAATAA
Found at i:27058238 original size:17 final size:17
Alignment explanation
Indices: 27058210--27058252 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
27058200 AAAAGTAGAG
*
27058210 AAAAAAGAAAAATATGAA
1 AAAAAATAAAAA-ATGAA
27058228 AAAAAATAAAAAAAT-AA
1 AAAAAAT-AAAAAATGAA
27058245 AAAAAATA
1 AAAAAATA
27058253 TTCTGTGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 9 0.39
18 8 0.35
19 5 0.22
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAAATAAAAAATGAA
Found at i:27066686 original size:80 final size:80
Alignment explanation
Indices: 27066551--27066747 Score: 297
Period size: 80 Copynumber: 2.5 Consensus size: 80
27066541 GATGATCATG
* * * *
27066551 GCACCTAGTGCCTAGCGGATAAACCACAAATGTGAGCCCAGCTCTAGTTGTATTAACCAACAATT
1 GCACCTAGTGCCTAGTGGATAAACCGCAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAATT
*
27066616 TTCCGTCAAATCCTA
66 ATCCGTCAAATCCTA
*
27066631 GCACCTAGTGCCTAGTGGATAAACCGCACATGTGAGCCCAACTCTAGTTGGATTAACCAACAATT
1 GCACCTAGTGCCTAGTGGATAAACCGCAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAATT
*
27066696 ATCCGTCAAATCCTG
66 ATCCGTCAAATCCTA
* *
27066711 GCACCCAATGCCTAGTGGATAAACCGCGAAA-GTGAGC
1 GCACCTAGTGCCTAGTGGATAAACCGC-AAATGTGAGC
27066748 TTAGCTCTAG
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 104 0.98
81 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (80 bp):
GCACCTAGTGCCTAGTGGATAAACCGCAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAATT
ATCCGTCAAATCCTA
Found at i:27068378 original size:36 final size:35
Alignment explanation
Indices: 27068329--27068431 Score: 134
Period size: 36 Copynumber: 2.9 Consensus size: 35
27068319 GGTAACAGGC
*
27068329 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGTATA
1 ATGACC-TTGGGTCAACAGGGAGTAAAATGAGCATA
*
27068365 ATGACCTTCGGGTCAACAGGGAGTAAAATGAGCATC
1 ATGACCTT-GGGTCAACAGGGAGTAAAATGAGCATA
* * *
27068401 ATGACCATTGAGTCAATAAGGAGTAAAATGA
1 ATGACC-TTGGGTCAACAGGGAGTAAAATGA
27068432 ATAACGATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
35 2 0.03
36 56 0.93
37 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (35 bp):
ATGACCTTGGGTCAACAGGGAGTAAAATGAGCATA
Found at i:27071621 original size:44 final size:43
Alignment explanation
Indices: 27071472--27071674 Score: 192
Period size: 44 Copynumber: 4.7 Consensus size: 43
27071462 TAATGATTAA
** * *
27071472 TTATGTCTCGGGTAGAGTATAAGATTGATTATAAATGGAAGAC
1 TTATGTCTCGATTAGAGCATAAGATTAATTATAAATGGAAGAC
* * * *
27071515 TTATGTCTCGGTT-GAAGCATAAAATTATTTATGAAGTGGAAGAC
1 TTATGTCTCGATTAG-AGCATAAGATTAATTAT-AAATGGAAGAC
* * **
27071559 TTATGTCTCGGTTGGAGCATAAGATTGTTTATGAAATGGAAGAC
1 TTATGTCTCGATTAGAGCATAAGATTAATTAT-AAATGGAAGAC
* * * * *
27071603 TTATTTCTCGACTAGAGCATAAGGTTAATTGTAAATAGAAGAAC
1 TTATGTCTCGATTAGAGCATAAGATTAATTATAAATGGAAG-AC
* *
27071647 TTATGACTCGATTAGAGCATAAGGTTAA
1 TTATGTCTCGATTAGAGCATAAGATTAA
27071675 ACATGGCTCA
Statistics
Matches: 135, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 33 0.24
44 100 0.74
45 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.33
Consensus pattern (43 bp):
TTATGTCTCGATTAGAGCATAAGATTAATTATAAATGGAAGAC
Found at i:27071649 original size:88 final size:87
Alignment explanation
Indices: 27071472--27071669 Score: 220
Period size: 88 Copynumber: 2.3 Consensus size: 87
27071462 TAATGATTAA
* * * *
27071472 TTATGTCTCGGGTAGAGTATAAGATTGATTATAAATGGAAGACTTATGTCTCGGTTGAAGCATAA
1 TTATGTCTCGGTTAGAGCATAAGATTGATTATAAATGGAAGACTTATGTCTCGCTAGAAGCATAA
* * *
27071537 AATTATTTATGAAGTGGAAGAC
66 AATTAATTATGAAATAGAAGAC
* * *
27071559 TTATGTCTCGGTTGGAGCATAAGATTGTTTATGAAATGGAAGACTTATTTCTCGACTAG-AGCAT
1 TTATGTCTCGGTTAGAGCATAAGATTGATTAT-AAATGGAAGACTTATGTCTCG-CTAGAAGCAT
** *
27071623 AAGGTTAATTGT-AAATAGAAGAAC
64 AAAATTAATTATGAAATAGAAG-AC
* *
27071647 TTATGACTCGATTAGAGCATAAG
1 TTATGTCTCGGTTAGAGCATAAG
27071670 GTTAAACATG
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
87 35 0.38
88 55 0.60
89 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (87 bp):
TTATGTCTCGGTTAGAGCATAAGATTGATTATAAATGGAAGACTTATGTCTCGCTAGAAGCATAA
AATTAATTATGAAATAGAAGAC
Found at i:27077938 original size:44 final size:44
Alignment explanation
Indices: 27077828--27078044 Score: 251
Period size: 44 Copynumber: 5.0 Consensus size: 44
27077818 GAAGACTTGG
** *
27077828 TGATTACT-AAATGGAAGACTTATGTCTCGGGCAGAACATAAGAT
1 TGATTA-TGAAATGGAAGACTTATGTCTCGGTTAGAGCATAAGAT
* *
27077872 TGATTAT-AAATGGAAGACTTATGTTTGGGTTAGAGCATAAGAT
1 TGATTATGAAATGGAAGACTTATGTCTCGGTTAGAGCATAAGAT
* *
27077915 TGCTTATGAAATGGAAGACTTATGTCTCGGTTGGAGCATAAGAT
1 TGATTATGAAATGGAAGACTTATGTCTCGGTTAGAGCATAAGAT
* * * *
27077959 AGTTTATGAAATGGAAGACTTATGTCTCAGCTAGAGCATAAGAT
1 TGATTATGAAATGGAAGACTTATGTCTCGGTTAGAGCATAAGAT
* * * * *
27078003 TAATTGT-AAATGGAAGAAATTATGACTCGATTAGAGCATAAG
1 TGATTATGAAATGGAAG-ACTTATGTCTCGGTTAGAGCATAAG
27078045 GTTAAATGTG
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
43 47 0.32
44 101 0.68
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (44 bp):
TGATTATGAAATGGAAGACTTATGTCTCGGTTAGAGCATAAGAT
Found at i:27084858 original size:19 final size:20
Alignment explanation
Indices: 27084834--27084874 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
27084824 TATACTAAAG
27084834 TTCATATTCCA-TATTGGTT
1 TTCATATTCCATTATTGGTT
* *
27084853 TTCATATTTCATTCTTGGTT
1 TTCATATTCCATTATTGGTT
27084873 TT
1 TT
27084875 TACAACCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.59
Consensus pattern (20 bp):
TTCATATTCCATTATTGGTT
Found at i:27098836 original size:37 final size:38
Alignment explanation
Indices: 27098751--27098839 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 38
27098741 CACTCAAGAT
* *
27098751 TGTCGTTGCATAAATATTCTTCAAATTGCATCTAGAAC
1 TGTCGTTGCATAAATATTCTTCAAATTGCACCCAGAAC
* *
27098789 TATCGTTGCATAAGTATTCTTC-AATTGCACCCAGGAA-
1 TGTCGTTGCATAAATATTCTTCAAATTGCACCCA-GAAC
*
27098826 TGTCGCTGCATAAA
1 TGTCGTTGCATAAA
27098840 CATGTACAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
37 20 0.47
38 23 0.53
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (38 bp):
TGTCGTTGCATAAATATTCTTCAAATTGCACCCAGAAC
Found at i:27098860 original size:26 final size:26
Alignment explanation
Indices: 27098826--27098879 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
27098816 CACCCAGGAA
*
27098826 TGTCGCTGCATAAACATGTACAGAAT
1 TGTCCCTGCATAAACATGTACAGAAT
* * *
27098852 TGTCCCTGCATGAACGTGTCCAGAAT
1 TGTCCCTGCATAAACATGTACAGAAT
27098878 TG
1 TG
27098880 CACCCAGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
TGTCCCTGCATAAACATGTACAGAAT
Found at i:27107222 original size:8 final size:9
Alignment explanation
Indices: 27107202--27107226 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27107192 AACATACTTG
27107202 AAAATTTTA
1 AAAATTTTA
27107211 AAAATTTTA
1 AAAATTTTA
27107220 AAAATTT
1 AAAATTT
27107227 GAGCAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AAAATTTTA
Found at i:27109565 original size:11 final size:11
Alignment explanation
Indices: 27109537--27109567 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
27109527 TCTAAAGGAG
*
27109537 AAATGAACTCT
1 AAATGAGCTCT
27109548 AAATGAGCTCT
1 AAATGAGCTCT
27109559 AAATGAGCT
1 AAATGAGCT
27109568 AATTTCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (11 bp):
AAATGAGCTCT
Found at i:27111163 original size:22 final size:22
Alignment explanation
Indices: 27111136--27111177 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27111126 TATTTCAGTT
* *
27111136 TACAAATATTAAGTTTATTTTC
1 TACAAAAATAAAGTTTATTTTC
27111158 TACAAAAATAAAGTTTATTT
1 TACAAAAATAAAGTTTATTT
27111178 GGTTTATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (22 bp):
TACAAAAATAAAGTTTATTTTC
Found at i:27113576 original size:15 final size:15
Alignment explanation
Indices: 27113539--27113579 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
27113529 ATAAATCTCA
* *
27113539 TAATTTGTATTGTTT
1 TAATTTGGATTATTT
27113554 TCAATTTGGATTATTT
1 T-AATTTGGATTATTT
27113570 TAATTTGGAT
1 TAATTTGGAT
27113580 GAATTGGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.59
Consensus pattern (15 bp):
TAATTTGGATTATTT
Found at i:27115609 original size:15 final size:16
Alignment explanation
Indices: 27115579--27115613 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
27115569 GGATTCAACG
*
27115579 ATTTGGGGATTTTAAT
1 ATTTAGGGATTTTAAT
27115595 ATTTAGGGA-TTTAAT
1 ATTTAGGGATTTTAAT
27115610 ATTT
1 ATTT
27115614 TATGGATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (16 bp):
ATTTAGGGATTTTAAT
Found at i:27115674 original size:17 final size:17
Alignment explanation
Indices: 27115648--27115707 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 17
27115638 AGGCTATCGA
*
27115648 TTTAGGGATTTTAACAT
1 TTTAGGGATTTTAATAT
* *
27115665 TTTGGGGATTTCAATA-
1 TTTAGGGATTTTAATAT
*
27115681 GTTAGGGATTTTAATAT
1 TTTAGGGATTTTAATAT
27115698 TTTAGGGATT
1 TTTAGGGATT
27115708 CAAAGATTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
16 13 0.37
17 22 0.63
ACGTcount: A:0.27, C:0.03, G:0.23, T:0.47
Consensus pattern (17 bp):
TTTAGGGATTTTAATAT
Found at i:27115797 original size:31 final size:31
Alignment explanation
Indices: 27115713--27115798 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 31
27115703 GGATTCAAAG
* *
27115713 ATTTCAGATATTATGGATTTAGGATTTCACA
1 ATTTCAGATGTTATGGATTTGGGATTTCACA
*
27115744 ATTTCGGATGTTATGGATTTGGGATTTCACA
1 ATTTCAGATGTTATGGATTTGGGATTTCACA
* *
27115775 ATTTTAGATGTTATGGACTTGGGA
1 ATTTCAGATGTTATGGATTTGGGA
27115799 ATCAAATATT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (31 bp):
ATTTCAGATGTTATGGATTTGGGATTTCACA
Found at i:27115810 original size:31 final size:31
Alignment explanation
Indices: 27115702--27115810 Score: 87
Period size: 31 Copynumber: 3.5 Consensus size: 31
27115692 TAATATTTTA
* * *
27115702 GGGAT-TCAAAGATTTCAGATATTATGGATTT
1 GGGATATCAAA-ATTTTAGATGTTATGGACTT
* * * ** *
27115733 AGGATTTCACAATTTCGGATGTTATGGATTT
1 GGGATATCAAAATTTTAGATGTTATGGACTT
* *
27115764 GGGATTTCACAATTTTAGATGTTATGGACTT
1 GGGATATCAAAATTTTAGATGTTATGGACTT
27115795 GGGA-ATCAAATATTTT
1 GGGATATCAAA-ATTTT
27115811 GAGGATTTCA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
30 4 0.06
31 58 0.88
32 4 0.06
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.40
Consensus pattern (31 bp):
GGGATATCAAAATTTTAGATGTTATGGACTT
Found at i:27116571 original size:20 final size:21
Alignment explanation
Indices: 27116546--27116584 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
27116536 CTGCCATTTT
27116546 GATAAGAAAAAGA-AGAAGTA
1 GATAAGAAAAAGAGAGAAGTA
*
27116566 GATAAGAGAAAGAGAGAAG
1 GATAAGAAAAAGAGAGAAG
27116585 CTTACTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (21 bp):
GATAAGAAAAAGAGAGAAGTA
Found at i:27118055 original size:83 final size:85
Alignment explanation
Indices: 27117932--27118171 Score: 266
Period size: 83 Copynumber: 2.9 Consensus size: 85
27117922 GAATAAAAAT
* * * * *
27117932 TAAAATCGAATAAATCTGTTTCGGGATTCATTCTCGCCGTTTAATAGATTTCATTTTATTTTGAT
1 TAAAATTGAATAAATCTGTTTCGGGATTTATTCCCTCCGTTTAATAGATTTGATTTTATTTTGAT
*
27117997 TTTGTTTCCAAAACAAG-AA
66 TTAGTTTCCAAAACAAGAAA
* * *
27118016 T-AAATTGAATAAATCTGTTTCGGTATTTATTCCCTCCG-TT--CA-A-TTGATTTTATTCTGAT
1 TAAAATTGAATAAATCTGTTTCGGGATTTATTCCCTCCGTTTAATAGATTTGATTTTATTTTGAT
27118075 TTAGTTTCC-AAACAAGAAA
66 TTAGTTTCCAAAACAAGAAA
* * * * *
27118094 TAAAAAT-AATTAATTCTTTTTCGGGATTTATT-CCTGTCGTTTAATAGATTTGATTTGATTTTG
1 TAAAATTGAA-TAAATCTGTTTCGGGATTTATTCCCT-CCGTTTAATAGATTTGATTTTATTTTG
27118157 ATTTAGTTTCCAAAA
64 ATTTAGTTTCCAAAA
27118172 AAAACTAATT
Statistics
Matches: 129, Mismatches: 17, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
77 7 0.05
78 30 0.23
79 26 0.20
80 3 0.02
82 3 0.02
83 33 0.26
84 24 0.19
85 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.44
Consensus pattern (85 bp):
TAAAATTGAATAAATCTGTTTCGGGATTTATTCCCTCCGTTTAATAGATTTGATTTTATTTTGAT
TTAGTTTCCAAAACAAGAAA
Found at i:27118153 original size:78 final size:77
Alignment explanation
Indices: 27117932--27118154 Score: 191
Period size: 79 Copynumber: 2.8 Consensus size: 77
27117922 GAATAAAAAT
* * * * *
27117932 TAAAATCGAATAAATCTGTTTCGGGATTCATTCTCGCCGTTTAATAGATTTCATTTTATTTTGAT
1 TAAAAT-GAATAAATCTGTTTCGGGATTTATTCCCTCCGTTCAATAG-----ATTTGA-TTTGAT
*
27117997 TTTGTTTCCAAAACAAGAA
59 TTAGTTTCCAAAACAAGAA
* * * *
27118016 TAAATTGAATAAATCTGTTTCGGTATTTATTCCCTCCGTTCAATTGATTTTATTCTGATTTAGTT
1 TAAAATGAATAAATCTGTTTCGGGATTTATTCCCTCCGTTCAATAGATTTGATT-TGATTTAGTT
27118081 TCC-AAACAAGAAA
65 TCCAAAACAAG-AA
* * * *
27118094 TAAAAAT-AATTAATTCTTTTTCGGGATTTATT-CCTGTCGTTTAATAGATTTGATTTGATTT
1 T-AAAATGAA-TAAATCTGTTTCGGGATTTATTCCCT-CCGTTCAATAGATTTGATTTGATTT
27118155 TGATTTAGTT
Statistics
Matches: 118, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
77 9 0.08
78 32 0.27
79 38 0.32
83 34 0.29
84 5 0.04
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (77 bp):
TAAAATGAATAAATCTGTTTCGGGATTTATTCCCTCCGTTCAATAGATTTGATTTGATTTAGTTT
CCAAAACAAGAA
Found at i:27119262 original size:12 final size:11
Alignment explanation
Indices: 27119226--27119316 Score: 86
Period size: 11 Copynumber: 8.6 Consensus size: 11
27119216 CTACGTCAGC
*
27119226 AAATGATTTTA
1 AAATTATTTTA
27119237 AAATTATTTTA
1 AAATTATTTTA
*
27119248 AAATTAATTTAA
1 AAATT-ATTTTA
*
27119260 AAATATTTTTTA
1 AAAT-TATTTTA
27119272 AAA-TA---TA
1 AAATTATTTTA
27119279 AAATTA--TTA
1 AAATTATTTTA
*
27119288 AATTTATTTTA
1 AAATTATTTTA
27119299 AAATTATTTTA
1 AAATTATTTTA
27119310 AAATTAT
1 AAATTAT
27119317 AATCATCATC
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
7 5 0.07
8 2 0.03
9 7 0.10
10 1 0.01
11 35 0.52
12 16 0.24
13 1 0.01
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:27120275 original size:47 final size:47
Alignment explanation
Indices: 27120222--27120404 Score: 330
Period size: 47 Copynumber: 3.9 Consensus size: 47
27120212 ATGATGATTA
* *
27120222 TAATTTTAAAATAATTTTAATTATTTTATATTTAAAAAAATTTAAAT
1 TAATTTTAAAATAAATTTAATAATTTTATATTTAAAAAAATTTAAAT
27120269 TAATTTTAAAATAAATTTAATAATTTTATATTTAAAAAAATTTAAAT
1 TAATTTTAAAATAAATTTAATAATTTTATATTTAAAAAAATTTAAAT
*
27120316 TAATTTTAAAATAAATTTAATAATTTTATATTTAAAAAAAATTAAAT
1 TAATTTTAAAATAAATTTAATAATTTTATATTTAAAAAAATTTAAAT
27120363 TAATTTTAAAATAAATTTAATAATTTTATATTTTAAAAAAAT
1 TAATTTTAAAATAAATTTAATAATTTTATA-TTTAAAAAAAT
27120405 AATTTTAATA
Statistics
Matches: 131, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
47 121 0.92
48 10 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (47 bp):
TAATTTTAAAATAAATTTAATAATTTTATATTTAAAAAAATTTAAAT
Found at i:27120278 original size:21 final size:22
Alignment explanation
Indices: 27120222--27120390 Score: 150
Period size: 22 Copynumber: 7.4 Consensus size: 22
27120212 ATGATGATTA
*
27120222 TAATTTTAAAATAATTTTAATTATT
1 TAATTTTAAAATAAATTTAA--A-T
*
27120247 TTATATTTAAAA-AAATTTAAAT
1 TAAT-TTTAAAATAAATTTAAAT
27120269 TAATTTTAAAATAAATTTAATAATT
1 TAATTTTAAAATAAATTT-A-AA-T
*
27120294 TTATATTTAAAA-AAATTTAAAT
1 TAAT-TTTAAAATAAATTTAAAT
27120316 TAATTTTAAAATAAATTTAATAATT
1 TAATTTTAAAATAAATTT-A-AA-T
* *
27120341 TTATATTTAAAA-AAAATTAAAT
1 TAAT-TTTAAAATAAATTTAAAT
27120363 TAATTTTAAAATAAATTT-AA-
1 TAATTTTAAAATAAATTTAAAT
27120383 TAATTTTA
1 TAATTTTA
27120391 TATTTTAAAA
Statistics
Matches: 123, Mismatches: 9, Indels: 29
0.76 0.06 0.18
Matches are distributed among these distances:
20 8 0.07
21 23 0.19
22 29 0.24
23 7 0.06
24 6 0.05
25 29 0.24
26 21 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATTTTAAAATAAATTTAAAT
Found at i:27120407 original size:21 final size:23
Alignment explanation
Indices: 27120381--27120423 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
27120371 AAATAAATTT
27120381 AATAATTTT-AT-ATTTTAAAAA
1 AATAATTTTAATAATTTTAAAAA
27120402 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
27120424 TCATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AATAATTTTAATAATTTTAAAAA
Found at i:27122972 original size:21 final size:21
Alignment explanation
Indices: 27122927--27122975 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
27122917 CAGTGCATAC
*
27122927 TTCTACCAATACCTATGACAG
1 TTCTACCAATACCAATGACAG
27122948 TTCTACCAATA-CAAGTGA-AG
1 TTCTACCAATACCAA-TGACAG
27122968 TTTCTACC
1 -TTCTACC
27122976 GAAACAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.31
Consensus pattern (21 bp):
TTCTACCAATACCAATGACAG
Found at i:27123094 original size:24 final size:24
Alignment explanation
Indices: 27123061--27123120 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
27123051 CAAGTACATA
* *
27123061 AACTATCGATACTCCTATGGGCAG
1 AACTACCGATACTCCTATGAGCAG
27123085 AACTACCGATACTCCTATGAGCAG
1 AACTACCGATACTCCTATGAGCAG
27123109 AACTACCGATAC
1 AACTACCGATAC
27123121 AACTCAAGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (24 bp):
AACTACCGATACTCCTATGAGCAG
Found at i:27131310 original size:24 final size:24
Alignment explanation
Indices: 27131278--27131337 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
27131268 CAAGTACATA
*
27131278 AACTATCGATACTCCTATGGGTAG
1 AACTATCGATACTCCTATGGGCAG
27131302 AACTATCGATACTCCTATGGGCAG
1 AACTATCGATACTCCTATGGGCAG
*
27131326 AACTACCGATAC
1 AACTATCGATAC
27131338 AACTCAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (24 bp):
AACTATCGATACTCCTATGGGCAG
Found at i:27137192 original size:51 final size:51
Alignment explanation
Indices: 27137090--27137193 Score: 131
Period size: 51 Copynumber: 2.0 Consensus size: 51
27137080 AAACTTGATG
*
27137090 TTTTAAATAAATATAAATATTTATTTAATGTGATTTTTTTAAATATGGTGT
1 TTTTAAATAAATATAAATATTTATTTAATGTGATTTTTTGAAATATGGTGT
* * * *
27137141 TTTTACATAAATATAAATATTTGTTTATAT-T-ATTTTATTGAGATATTGTGT
1 TTTTAAATAAATATAAATATTTATTTA-ATGTGATTTT-TTGAAATATGGTGT
27137192 TT
1 TT
27137194 GATATAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
50 5 0.11
51 39 0.85
52 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.10, T:0.55
Consensus pattern (51 bp):
TTTTAAATAAATATAAATATTTATTTAATGTGATTTTTTGAAATATGGTGT
Found at i:27138041 original size:30 final size:31
Alignment explanation
Indices: 27138005--27138076 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
27137995 ATTAAGCTTA
* * * *
27138005 ACAAAACAGTCACTCAACTT-TGGAAATGTG
1 ACAAAACAGTCACTAAAATTATCGAAAAGTG
27138035 ACAAAACAGTCACTAAAATTATCGAAAAGTG
1 ACAAAACAGTCACTAAAATTATCGAAAAGTG
*
27138066 ACAAAATAGTC
1 ACAAAACAGTC
27138077 CTCTTGTTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 18 0.50
31 18 0.50
ACGTcount: A:0.47, C:0.18, G:0.14, T:0.21
Consensus pattern (31 bp):
ACAAAACAGTCACTAAAATTATCGAAAAGTG
Found at i:27147411 original size:6 final size:6
Alignment explanation
Indices: 27147400--27147425 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
27147390 ATCTTAGTCC
27147400 CAATCT CAATCT CAATCT CAATCT CA
1 CAATCT CAATCT CAATCT CAATCT CA
27147426 TGATATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (6 bp):
CAATCT
Found at i:27157357 original size:29 final size:29
Alignment explanation
Indices: 27157299--27157357 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
27157289 TCCATCTTGA
* * *
27157299 CACGAATTCTCAACAAACAAGTTCTTCAC
1 CACGAAGTCTCAACAAACAAGTTATCCAC
*
27157328 CACGAAGTCTCAACGAACAAGTTATCCAC
1 CACGAAGTCTCAACAAACAAGTTATCCAC
27157357 C
1 C
27157358 TCTTCCACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.20
Consensus pattern (29 bp):
CACGAAGTCTCAACAAACAAGTTATCCAC
Found at i:27174152 original size:18 final size:18
Alignment explanation
Indices: 27174129--27174213 Score: 107
Period size: 18 Copynumber: 4.7 Consensus size: 18
27174119 AAGTAATGTA
*
27174129 ATACTGGCTCATTTGAGC
1 ATACTGGCTCGTTTGAGC
27174147 ATACTGGCTCGTTTGAGC
1 ATACTGGCTCGTTTGAGC
* *
27174165 ATACTGACTCGTTGGAGC
1 ATACTGGCTCGTTTGAGC
**
27174183 ATACTGGCTCGTAAGAGC
1 ATACTGGCTCGTTTGAGC
*
27174201 GTTACTGGCTCGT
1 -ATACTGGCTCGT
27174214 GAGGGCAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
18 48 0.81
19 11 0.19
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (18 bp):
ATACTGGCTCGTTTGAGC
Found at i:27179617 original size:16 final size:16
Alignment explanation
Indices: 27179596--27179626 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
27179586 ATGAGATCAT
27179596 CGCAGTTTATTGAGCC
1 CGCAGTTTATTGAGCC
27179612 CGCAGTTTATTGAGC
1 CGCAGTTTATTGAGC
27179627 TTGAAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (16 bp):
CGCAGTTTATTGAGCC
Found at i:27180610 original size:18 final size:18
Alignment explanation
Indices: 27180581--27180681 Score: 121
Period size: 18 Copynumber: 5.6 Consensus size: 18
27180571 AAGTAATGTA
* *
27180581 ATACTAGCTCGTTTGAGC
1 ATACTGGCTCATTTGAGC
* * **
27180599 ATATTGGCTCGTAAGAGC
1 ATACTGGCTCATTTGAGC
27180617 ATTACTGGCTCATTTGAGC
1 A-TACTGGCTCATTTGAGC
27180636 ATACTGGCTCATTTGAGC
1 ATACTGGCTCATTTGAGC
*
27180654 ATACTAGCTCATTTGAGC
1 ATACTGGCTCATTTGAGC
*
27180672 ATACTAGCTC
1 ATACTGGCTC
27180682 GTAAGAGAGT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
18 59 0.81
19 14 0.19
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (18 bp):
ATACTGGCTCATTTGAGC
Found at i:27180644 original size:37 final size:36
Alignment explanation
Indices: 27180581--27180688 Score: 144
Period size: 36 Copynumber: 3.0 Consensus size: 36
27180571 AAGTAATGTA
* *
27180581 ATACTAGCTCGTTTGAGCATATTGGCTCGTAAGAGC
1 ATACTAGCTCATTTGAGCATACTGGCTCGTAAGAGC
* * **
27180617 ATTACTGGCTCATTTGAGCATACTGGCTCATTTGAGC
1 A-TACTAGCTCATTTGAGCATACTGGCTCGTAAGAGC
*
27180654 ATACTAGCTCATTTGAGCATACTAGCTCGTAAGAG
1 ATACTAGCTCATTTGAGCATACTGGCTCGTAAGAG
27180689 AGTTACTAGC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 30 0.50
37 30 0.50
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (36 bp):
ATACTAGCTCATTTGAGCATACTGGCTCGTAAGAGC
Found at i:27188013 original size:21 final size:20
Alignment explanation
Indices: 27187992--27188030 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
27187982 CGACAAAGGA
27187992 AAAG-AAAGGAAAGAAAATGG
1 AAAGCAAAGG-AAGAAAATGG
*
27188012 AAAGCAAAGGGAGAAAATG
1 AAAGCAAAGGAAGAAAATG
27188031 AGTGAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.31, T:0.05
Consensus pattern (20 bp):
AAAGCAAAGGAAGAAAATGG
Found at i:27189738 original size:20 final size:21
Alignment explanation
Indices: 27189693--27189731 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
27189683 TAGTTAGAGT
*
27189693 ACTCACTTTCATTTTCTTCTC
1 ACTCTCTTTCATTTTCTTCTC
*
27189714 TCTCTCTTT-ATTTTCTTC
1 ACTCTCTTTCATTTTCTTC
27189732 CAACTCTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.59
Consensus pattern (21 bp):
ACTCTCTTTCATTTTCTTCTC
Found at i:27206664 original size:21 final size:19
Alignment explanation
Indices: 27206638--27206679 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
27206628 TAGTTTTCAC
*
27206638 TGTAACTATGTTAATTTAGTT
1 TGTAACT-TGTTAACTTA-TT
27206659 TGTAACTTGTTAACTTATT
1 TGTAACTTGTTAACTTATT
27206678 TG
1 TG
27206680 GTTATGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.52
Consensus pattern (19 bp):
TGTAACTTGTTAACTTATT
Found at i:27218067 original size:80 final size:80
Alignment explanation
Indices: 27217927--27218082 Score: 258
Period size: 80 Copynumber: 1.9 Consensus size: 80
27217917 GGCGCAAACC
* * *
27217927 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTATCGCAGTTTATCCGCTAAGCACTGGGTGCCAT
1 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTAACGCAGTTTAACCGCTAAGCACCGGGTGCCAT
*
27217992 GTATTGACGGACTTT
66 GAATTGACGGACTTT
* *
27218007 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTAACGCGGTTTAACCGCTAGGCACCGGGTGCCAT
1 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTAACGCAGTTTAACCGCTAAGCACCGGGTGCCAT
27218072 GAATTGACGGA
66 GAATTGACGGA
27218083 AATTATGAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (80 bp):
GTTGGTTAATCCAACTAGAGCTGGGCTCACTTAACGCAGTTTAACCGCTAAGCACCGGGTGCCAT
GAATTGACGGACTTT
Found at i:27219776 original size:21 final size:21
Alignment explanation
Indices: 27219752--27219796 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27219742 TAAATTTTAC
27219752 TATTTAAAAATTAGGTATCGA
1 TATTTAAAAATTAGGTATCGA
* ** *
27219773 TATTTCAGTATTTGGTATCGA
1 TATTTAAAAATTAGGTATCGA
27219794 TAT
1 TAT
27219797 CATCTATGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (21 bp):
TATTTAAAAATTAGGTATCGA
Found at i:27229768 original size:16 final size:16
Alignment explanation
Indices: 27229747--27229794 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
27229737 TTGAGATGAG
27229747 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
27229763 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
* *
27229777 ATTGAAATTTTAAATTA
1 AAT-AAATTTTTAATTA
27229794 A
1 A
27229795 TTACAACTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 10 0.37
15 3 0.11
16 6 0.22
17 8 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:27230200 original size:29 final size:30
Alignment explanation
Indices: 27230142--27230221 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
27230132 TAAATTAAAT
* **
27230142 TATACATGAACTATGATTTAATGTGTAATTA
1 TATACATGAACTTTGATTT-ATGTACAATTA
*
27230173 TATACATGAACTTTGATTT-TGTACAATTT
1 TATACATGAACTTTGATTTATGTACAATTA
*
27230202 TATACATGAATTTTTGATTT
1 TATACATGAA-CTTTGATTT
27230222 GATCCAATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 17 0.40
30 8 0.19
31 18 0.42
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.47
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATGTACAATTA
Found at i:27230447 original size:29 final size:30
Alignment explanation
Indices: 27230415--27230473 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
27230405 TCACGTGTAT
*
27230415 AATTACAC-CAAATTAAAATTCATGTATAC
1 AATTACACACAAATCAAAATTCATGTATAC
*
27230444 AATTACACATTAAATCAAAATTCATGTATA
1 AATTACACA-CAAATCAAAATTCATGTATA
27230474 ATTTTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.32
Consensus pattern (30 bp):
AATTACACACAAATCAAAATTCATGTATAC
Found at i:27230476 original size:29 final size:27
Alignment explanation
Indices: 27230410--27230476 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 27
27230400 GAGTTTCACG
*
27230410 TGTATAATTACACCAAATTAAAATTCA
1 TGTATAATTACACCAAATCAAAATTCA
*
27230437 TGTATACAATTACACATTAAATCAAAATTCA
1 TGTAT--AATTACAC--CAAATCAAAATTCA
27230468 TGTATAATT
1 TGTATAATT
27230477 TTAATATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.15
29 12 0.35
31 17 0.50
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.36
Consensus pattern (27 bp):
TGTATAATTACACCAAATCAAAATTCA
Found at i:27231000 original size:26 final size:26
Alignment explanation
Indices: 27230948--27231001 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
27230938 TTAAAATTTT
* * *
27230948 TTCGAATCAAGTCGAGTGAAATGAAA
1 TTCGAATCAAGTCGAATCAAATAAAA
* *
27230974 TTCGAGTCAAGTCGAATCAAGTAAAA
1 TTCGAATCAAGTCGAATCAAATAAAA
27231000 TT
1 TT
27231002 AAAATAATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (26 bp):
TTCGAATCAAGTCGAATCAAATAAAA
Found at i:27231624 original size:23 final size:24
Alignment explanation
Indices: 27231569--27231632 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 24
27231559 AAATTACAAG
**
27231569 AGAATATTCACTGTTCATTGCAGA
1 AGAATATTCACTGTTCATCCCAGA
27231593 A-AATATTCACTGTTCATCCCA-A
1 AGAATATTCACTGTTCATCCCAGA
* *
27231615 AGAATCTTCATTGTTCAT
1 AGAATATTCACTGTTCAT
27231633 TCATTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 2 0.06
23 32 0.91
24 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (24 bp):
AGAATATTCACTGTTCATCCCAGA
Found at i:27231653 original size:35 final size:33
Alignment explanation
Indices: 27231612--27231680 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 33
27231602 CTGTTCATCC
*
27231612 CAAAGAATCTTCAT-TGTTCATTCATTTTTTTTTTG
1 CAAAGAATC-TCATCTGTTCA-TC-TTTTGTTTTTG
*
27231647 CAAAGAATCTCTTCTGTTCATCTTTTGTTTTTG
1 CAAAGAATCTCATCTGTTCATCTTTTGTTTTTG
27231680 C
1 C
27231681 CTTCATTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 11 0.35
34 5 0.16
35 15 0.48
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.52
Consensus pattern (33 bp):
CAAAGAATCTCATCTGTTCATCTTTTGTTTTTG
Found at i:27238142 original size:39 final size:40
Alignment explanation
Indices: 27238054--27238152 Score: 146
Period size: 39 Copynumber: 2.5 Consensus size: 40
27238044 TGGGACAAGT
*
27238054 CTCTTCCAAATGGTGTCCATCCAATATGAAAAGAGTTGTGA
1 CTCTT-CAAAAGGTGTCCATCCAATATGAAAAGAGTTGTGA
* * *
27238095 CTTTTCAAAAGGTGTTCATCCAATATG-AAAGGGTTGTGA
1 CTCTTCAAAAGGTGTCCATCCAATATGAAAAGAGTTGTGA
27238134 CTCTTCAAAAGGTGTCCAT
1 CTCTTCAAAAGGTGTCCAT
27238153 TGAGTGCATA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 28 0.54
40 20 0.38
41 4 0.08
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (40 bp):
CTCTTCAAAAGGTGTCCATCCAATATGAAAAGAGTTGTGA
Found at i:27244077 original size:23 final size:23
Alignment explanation
Indices: 27244050--27244094 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
27244040 ATTTTCGAAT
**
27244050 TTCGAATTATTCGAATCGAGTTA
1 TTCGAATTAAACGAATCGAGTTA
*
27244073 TTCGAGTTAAACGAATCGAGTT
1 TTCGAATTAAACGAATCGAGTT
27244095 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (23 bp):
TTCGAATTAAACGAATCGAGTTA
Found at i:27244393 original size:58 final size:58
Alignment explanation
Indices: 27244322--27244441 Score: 179
Period size: 58 Copynumber: 2.1 Consensus size: 58
27244312 ACCCATCAAC
* *
27244322 AAACTAAACCCAAATATTTTTAAACCCAAATACAATTTCATTCTTCAAA-AATACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATACAATTTCATTCCT-AAATAACACTCAT
* * *
27244380 AAACTAGACCCAAATATTTTTAAACCCAAATATAATTTTATTCCTAAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATACAATTTCATTCCTAAATAACACTCAT
27244438 AAAC
1 AAAC
27244442 AACTCCTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 3 0.05
58 53 0.95
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATACAATTTCATTCCTAAATAACACTCAT
Found at i:27251690 original size:122 final size:122
Alignment explanation
Indices: 27251473--27251718 Score: 465
Period size: 122 Copynumber: 2.0 Consensus size: 122
27251463 ATGATATAAG
* *
27251473 TAATTTGCAATAAACAAGCCATTTAAGCTCAAAATTAAAGTTTCAAGGGTCTAATATCATAAGAT
1 TAATTTGCAATAAACAAGCCATTTAAGCTCAAAATTAAAGTTTCAAAGGTCAAATATCATAAGAT
27251538 GGGCTAGAAAGGCTTAGACGATCCAAAGAAATGGTGCCTATATCATTTTTAGACTTT
66 GGGCTAGAAAGGCTTAGACGATCCAAAGAAATGGTGCCTATATCATTTTTAGACTTT
27251595 TAATTTGCAATAAACAAGCCATTTAAGCTCAAAATTAAAGTTTCAAAGGTCAAATATCATAAGAT
1 TAATTTGCAATAAACAAGCCATTTAAGCTCAAAATTAAAGTTTCAAAGGTCAAATATCATAAGAT
*
27251660 GGGCTTGAAAGGCTTAGACGATCCAAAGAAATGGTGCCTATATCATTTTTAGACTTT
66 GGGCTAGAAAGGCTTAGACGATCCAAAGAAATGGTGCCTATATCATTTTTAGACTTT
27251717 TA
1 TA
27251719 TGTCTCCTAA
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 121 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (122 bp):
TAATTTGCAATAAACAAGCCATTTAAGCTCAAAATTAAAGTTTCAAAGGTCAAATATCATAAGAT
GGGCTAGAAAGGCTTAGACGATCCAAAGAAATGGTGCCTATATCATTTTTAGACTTT
Found at i:27254101 original size:6 final size:6
Alignment explanation
Indices: 27254090--27254137 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
27254080 ACATAAGGAA
* * *
27254090 TAAAAT TAAAAT TAAAAT TAAAAT TAACAAT AAAAAT GAAAAA TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAA-AAT TAAAAT TAAAAT TAAAA
27254138 GTTTCAAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
6 32 0.86
7 5 0.14
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (6 bp):
TAAAAT
Found at i:27255788 original size:13 final size:14
Alignment explanation
Indices: 27255772--27255810 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
27255762 TCCGTTAACC
27255772 TGACCCATTGAC-T
1 TGACCCATTGACTT
27255785 TGACCCATTGACTT
1 TGACCCATTGACTT
*
27255799 TGACCCGTTGAC
1 TGACCCATTGAC
27255811 CTATTGACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.21, C:0.31, G:0.18, T:0.31
Consensus pattern (14 bp):
TGACCCATTGACTT
Found at i:27255810 original size:22 final size:21
Alignment explanation
Indices: 27255784--27255831 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
27255774 ACCCATTGAC
*
27255784 TTGACCCATTGACTTTGACCCG
1 TTGACCCATTGACTTTG-CCAG
*
27255806 TTGACCTATTGACTTTGCCAG
1 TTGACCCATTGACTTTGCCAG
27255827 TTGAC
1 TTGAC
27255832 TTTGACTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (21 bp):
TTGACCCATTGACTTTGCCAG
Found at i:27255838 original size:19 final size:19
Alignment explanation
Indices: 27255792--27255872 Score: 83
Period size: 19 Copynumber: 4.1 Consensus size: 19
27255782 ACTTGACCCA
*
27255792 TTGACTTTGACCCGTTGACCT
1 TTGACTTTG-CCAGTTGA-CT
27255813 ATTGACTTTGCCAGTTGACT
1 -TTGACTTTGCCAGTTGACT
**
27255833 TTGACTTTGATAGTTGACT
1 TTGACTTTGCCAGTTGACT
*
27255852 TTGACTTTAACC-GTTGACT
1 TTGACTTT-GCCAGTTGACT
27255871 TT
1 TT
27255873 TCTTTGACCA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
19 34 0.65
20 2 0.04
21 7 0.13
22 9 0.17
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (19 bp):
TTGACTTTGCCAGTTGACT
Found at i:27266757 original size:18 final size:18
Alignment explanation
Indices: 27266734--27266770 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27266724 TTTGTGATCA
27266734 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
27266752 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
27266770 A
1 A
27266771 TATGAATTGT
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:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:27270298 original size:15 final size:14
Alignment explanation
Indices: 27270274--27270307 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
27270264 TTTACATTTT
*
27270274 TTTTATTTGTTTCA
1 TTTTACTTGTTTCA
27270288 CTTTTACTTGTTTCA
1 -TTTTACTTGTTTCA
27270303 TTTTA
1 TTTTA
27270308 AATTCTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.68
Consensus pattern (14 bp):
TTTTACTTGTTTCA
Found at i:27272644 original size:17 final size:18
Alignment explanation
Indices: 27272622--27272661 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
27272612 ATATTGCATA
27272622 CATTTT-TATTGTCATCG
1 CATTTTATATTGTCATCG
* *
27272639 CATTTTATTTTGTCATTG
1 CATTTTATATTGTCATCG
27272657 CATTT
1 CATTT
27272662 CTTTTGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.57
Consensus pattern (18 bp):
CATTTTATATTGTCATCG
Done.