Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 43 of 135
Found at i:15832766 original size:25 final size:25
Alignment explanation
Indices: 15832733--15832787 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
15832723 ATTCTGAAGA
*
15832733 AGAAAAGTATAGGACTATCATAAAT
1 AGAAGAGTATAGGACTATCATAAAT
*
15832758 AGAAGAGTATAGGACTGTCATAAAT
1 AGAAGAGTATAGGACTATCATAAAT
15832783 -GAAGA
1 AGAAGA
15832788 AATGTAGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.49, C:0.07, G:0.22, T:0.22
Consensus pattern (25 bp):
AGAAGAGTATAGGACTATCATAAAT
Found at i:15834257 original size:29 final size:29
Alignment explanation
Indices: 15834215--15834281 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
15834205 ATATTTTTTT
* *
15834215 ATCATCTAATTATGAAAAATTATAAAATA
1 ATCATTTAATTATGAAAAATTACAAAATA
*
15834244 ATCATTTAATTATGAAAAATTACAAAATG
1 ATCATTTAATTATGAAAAATTACAAAATA
*
15834273 ATCACTTAA
1 ATCATTTAA
15834282 CTATTCAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.34
Consensus pattern (29 bp):
ATCATTTAATTATGAAAAATTACAAAATA
Found at i:15835260 original size:2 final size:2
Alignment explanation
Indices: 15835253--15835284 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15835243 CTTTATTCTC
15835253 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15835285 GTAAGAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15836321 original size:18 final size:17
Alignment explanation
Indices: 15836298--15836332 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15836288 GGAAGAAAGA
15836298 TAAGTTTGATTAAGTTTT
1 TAAGTTTGATTAA-TTTT
*
15836316 TAAGTTTGGTTAATTTT
1 TAAGTTTGATTAATTTT
15836333 AAATTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (17 bp):
TAAGTTTGATTAATTTT
Found at i:15836389 original size:172 final size:172
Alignment explanation
Indices: 15836095--15836476 Score: 705
Period size: 172 Copynumber: 2.2 Consensus size: 172
15836085 TTGTTTAATA
* *
15836095 AGTTGA-TTAATTAAGAGGAGAGGAAGAAAGATAAGTTTGATTAATTTTTTAAGTGTGGTTAATT
1 AGTTGAGTAAATTAAGAGGAGAGGAAGAAAGATAAGTTTGATTAAGTTTTTAAGTGTGGTTAATT
15836159 TTAAATTTAATTCTAAAATATTTTAATTTGTTAGGTAATTTGATTATTTTAAGTTTTTTGTTTTG
66 TTAAATTTAATTCTAAAATATTTTAATTTGTTAGGTAATTTGATTATTTTAAGTTTTTTGTTTTG
15836224 TTTAATTTAATTTTTAATTGATTTGTTATTTAATGTTGTTAT
131 TTTAATTTAATTTTTAATTGATTTGTTATTTAATGTTGTTAT
*
15836266 AGTTGAGTAAATTAAGAGGAGAGGAAGAAAGATAAGTTTGATTAAGTTTTTAAGTTTGGTTAATT
1 AGTTGAGTAAATTAAGAGGAGAGGAAGAAAGATAAGTTTGATTAAGTTTTTAAGTGTGGTTAATT
*
15836331 TTAAATTTAATTTTAAAATATTTTAATTTGTTAGGTAATTTGATTATTTTAAGTTTTTTGTTTTG
66 TTAAATTTAATTCTAAAATATTTTAATTTGTTAGGTAATTTGATTATTTTAAGTTTTTTGTTTTG
15836396 TTTAATTTAATTTTTAATTGATTTGTTATTTAATGTTGTTAT
131 TTTAATTTAATTTTTAATTGATTTGTTATTTAATGTTGTTAT
15836438 AGTTGAGTAAATTAAGAGGAGAGGAAGAAATG-TAAGTTT
1 AGTTGAGTAAATTAAGAGGAGAGGAAGAAA-GATAAGTTT
15836477 AGTTATTATG
Statistics
Matches: 205, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
171 6 0.03
172 198 0.97
173 1 0.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (172 bp):
AGTTGAGTAAATTAAGAGGAGAGGAAGAAAGATAAGTTTGATTAAGTTTTTAAGTGTGGTTAATT
TTAAATTTAATTCTAAAATATTTTAATTTGTTAGGTAATTTGATTATTTTAAGTTTTTTGTTTTG
TTTAATTTAATTTTTAATTGATTTGTTATTTAATGTTGTTAT
Found at i:15836528 original size:16 final size:17
Alignment explanation
Indices: 15836509--15836545 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
15836499 TACTTTACTT
15836509 TAATTTTA-TTAGTTAG
1 TAATTTTATTTAGTTAG
*
15836525 TAATTTTATTTTGTTAG
1 TAATTTTATTTAGTTAG
15836542 TAAT
1 TAAT
15836546 AATAAGTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (17 bp):
TAATTTTATTTAGTTAG
Found at i:15837290 original size:30 final size:30
Alignment explanation
Indices: 15837256--15837350 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
15837246 AAATGGTACA
*
15837256 AAATAAATATTTATTTTGTACCATTTTAGT
1 AAATAAATATATATTTTGTACCATTTTAGT
* * * *
15837286 AAAT-AATA-GT-GTGTGAATACCATTTTGGT
1 AAATAAATATATATTTTG--TACCATTTTAGT
*
15837315 ATATAAATATATATTTTGTACCATTTTAGT
1 AAATAAATATATATTTTGTACCATTTTAGT
15837345 AAATAA
1 AAATAA
15837351 CTCATTTTGA
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
27 3 0.06
28 1 0.02
29 18 0.36
30 24 0.48
31 1 0.02
32 3 0.06
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (30 bp):
AAATAAATATATATTTTGTACCATTTTAGT
Found at i:15838390 original size:43 final size:42
Alignment explanation
Indices: 15838308--15838400 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 42
15838298 ATTAACATGT
* *
15838308 TAAATTATATTACTTGACTCGTGTTAATATGGTTGCATGTTA
1 TAAATTATATTACTTGACTCGTATTAATATGCTTGCATGTTA
* *
15838350 CTAAATTATATTACTTTACTCTTATTAATAT-CTTGACATGTTA
1 -TAAATTATATTACTTGACTCGTATTAATATGCTTG-CATGTTA
*
15838393 TTAATTAT
1 TAAATTAT
15838401 GTTGTTCATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
42 10 0.23
43 34 0.77
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (42 bp):
TAAATTATATTACTTGACTCGTATTAATATGCTTGCATGTTA
Found at i:15839031 original size:45 final size:45
Alignment explanation
Indices: 15838960--15839096 Score: 229
Period size: 45 Copynumber: 3.0 Consensus size: 45
15838950 CCCTAGTTCA
* ** *
15838960 TCAAGCCAAGAATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
1 TCAAGCCAAGGATATCAGGTTGAGTTTGACGAGCCACCGCAATAC
15839005 TCAAGCCAAGGATATCAGGTTGAGTTTGACGAGCCACCGCAATAC
1 TCAAGCCAAGGATATCAGGTTGAGTTTGACGAGCCACCGCAATAC
*
15839050 TCAAGCCAAGGATATCAGGTTGAGTTTGACGAGCCACCGTAATAC
1 TCAAGCCAAGGATATCAGGTTGAGTTTGACGAGCCACCGCAATAC
15839095 TC
1 TC
15839097 TACTCCTCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 87 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (45 bp):
TCAAGCCAAGGATATCAGGTTGAGTTTGACGAGCCACCGCAATAC
Found at i:15839133 original size:21 final size:21
Alignment explanation
Indices: 15839090--15839129 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
15839080 GAGCCACCGT
15839090 AATACTCTACTCCTCTCGGGC
1 AATACTCTACTCCTCTCGGGC
15839111 AATACTCTACTCCTC-CGGG
1 AATACTCTACTCCTCTCGGG
15839130 GCAAATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.20, C:0.38, G:0.15, T:0.28
Consensus pattern (21 bp):
AATACTCTACTCCTCTCGGGC
Found at i:15839392 original size:28 final size:28
Alignment explanation
Indices: 15839355--15839427 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
15839345 TCATAATCTT
*
15839355 AAACCCTAAACCCTAAACCTTAAACTTA
1 AAACCATAAACCCTAAACCTTAAACTTA
* *
15839383 GAATCATAAACCCTAAACCTTAAACTTA
1 AAACCATAAACCCTAAACCTTAAACTTA
*
15839411 AAACCTTAAACCCTAAA
1 AAACCATAAACCCTAAA
15839428 TCCTATACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (28 bp):
AAACCATAAACCCTAAACCTTAAACTTA
Found at i:15839412 original size:6 final size:7
Alignment explanation
Indices: 15839352--15839427 Score: 66
Period size: 7 Copynumber: 10.9 Consensus size: 7
15839342 ATTTCATAAT
15839352 CTTAAAC
1 CTTAAAC
*
15839359 CCTAAAC
1 CTTAAAC
*
15839366 CCTAAAC
1 CTTAAAC
15839373 CTTAAA-
1 CTTAAAC
*
15839379 CTTAGAAT
1 CTTA-AAC
*
15839387 CATAAAC
1 CTTAAAC
*
15839394 CCTAAAC
1 CTTAAAC
15839401 CTTAAA-
1 CTTAAAC
15839407 CTTAAAAC
1 CTT-AAAC
15839415 CTTAAAC
1 CTTAAAC
*
15839422 CCTAAA
1 CTTAAA
15839428 TCCTATACAT
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
6 7 0.12
7 45 0.78
8 6 0.10
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (7 bp):
CTTAAAC
Found at i:15843056 original size:18 final size:18
Alignment explanation
Indices: 15843033--15843068 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15843023 GTGCTCTTCT
15843033 TATCTCTCGCTTCTTTTC
1 TATCTCTCGCTTCTTTTC
**
15843051 TATCTCTTTCTTCTTTTC
1 TATCTCTCGCTTCTTTTC
15843069 CTTTACATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.31, G:0.03, T:0.61
Consensus pattern (18 bp):
TATCTCTCGCTTCTTTTC
Found at i:15846165 original size:24 final size:24
Alignment explanation
Indices: 15846129--15846174 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
15846119 GTAACTGAGC
* * *
15846129 TTGCATCTGCTCTTGCATTTCTTT
1 TTGCAACTACTCTAGCATTTCTTT
*
15846153 TTGCAACTACTCTAGCCTTTCT
1 TTGCAACTACTCTAGCATTTCT
15846175 ATTCTCTGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.13, C:0.28, G:0.11, T:0.48
Consensus pattern (24 bp):
TTGCAACTACTCTAGCATTTCTTT
Found at i:15850010 original size:29 final size:29
Alignment explanation
Indices: 15849935--15850128 Score: 109
Period size: 29 Copynumber: 6.7 Consensus size: 29
15849925 TGGATGCCCG
*
15849935 GGGGTGAAATGGTAATTTTGGTTGAAA-TT-
1 GGGGTAAAATGGTAATTTTGG-T-AAAGTTA
* ** *
15849964 -GGGTCAAAACGGGGATTTTGG-AAAGTTCG
1 GGGGT-AAAATGGTAATTTTGGTAAAGTT-A
*
15849993 GGGGTAAAATGGTAATTTTGGTAAAATT-
1 GGGGTAAAATGGTAATTTTGGTAAAGTTA
* * *
15850021 GAGGTCAAAAATGG-AATTTTGGAAAACTTA
1 GGGGT--AAAATGGTAATTTTGGTAAAGTTA
* * *
15850051 AGGGTAAAATGGTAATTTTTGGTAAA-ATC
1 GGGGTAAAATGGTAA-TTTTGGTAAAGTTA
*
15850080 GGGGTTAAAAATGG-AATTTTGG-AAGATTTA
1 GGGG-T-AAAATGGTAATTTTGGTAA-AGTTA
*
15850110 GGAGTAAAATGGTAATTTT
1 GGGGTAAAATGGTAATTTT
15850129 TGGTGAAATC
Statistics
Matches: 129, Mismatches: 20, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
26 3 0.02
27 2 0.02
28 24 0.19
29 58 0.45
30 35 0.27
31 7 0.05
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTGGTAAAGTTA
Found at i:15850034 original size:30 final size:29
Alignment explanation
Indices: 15849998--15850158 Score: 114
Period size: 29 Copynumber: 5.4 Consensus size: 29
15849988 GTTCGGGGGT
*
15849998 AAAATGGTAATTTTGGTAAAATTGAGGTCA
1 AAAATGG-AATTTTGGTAAAATTAAGGTCA
15850028 AAAATGGAATTTTGG-AAAACTTAAGGGT--
1 AAAATGGAATTTTGGTAAAA-TTAA-GGTCA
*** *
15850056 AAAATGGTAATTTTTGGTAAAATCGGGGTTA
1 AAAATGG-AA-TTTTGGTAAAATTAAGGTCA
* * ***
15850087 AAAATGGAATTTTGG-AAGATTTAGGAGT
1 AAAATGGAATTTTGGTAAAATTAAGGTCA
* *
15850115 AAAATGGTAATTTTTGGTGAAATCAAGGTCA
1 AAAATGG-AA-TTTTGGTAAAATTAAGGTCA
*
15850146 AAAATAGAATTTT
1 AAAATGGAATTTT
15850159 AGAAAGTTTG
Statistics
Matches: 102, Mismatches: 19, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
28 24 0.24
29 28 0.27
30 27 0.26
31 23 0.23
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.33
Consensus pattern (29 bp):
AAAATGGAATTTTGGTAAAATTAAGGTCA
Found at i:15850100 original size:59 final size:58
Alignment explanation
Indices: 15849936--15850189 Score: 237
Period size: 59 Copynumber: 4.3 Consensus size: 58
15849926 GGATGCCCGG
* * * ** * * **
15849936 GGGTGAAATGGTAA-TTTTGGTTGAAATTG-GGTCAAAACGGGGATTTTGGAAAGTTCGG
1 GGGTAAAATGGTAATTTTTGG-TAAAATCGAGGTCAAAAATGGAATTTTGGAAAATT-AA
*
15849994 GGGTAAAATGGTAA-TTTTGGTAAAATTGAGGTCAAAAATGGAATTTTGGAAAACTTAA
1 GGGTAAAATGGTAATTTTTGGTAAAATCGAGGTCAAAAATGGAATTTTGGAAAA-TTAA
* * * *
15850052 GGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAGATTTA
1 GGGTAAAATGGTAATTTTTGGTAAAATCGAGGTCAAAAATGGAATTTTGGAAAATTAA
* * * * * *
15850110 GGAGTAAAATGGTAATTTTTGGTGAAATCAAGGTCAAAAATAGAATTTTAGAAAGTTTGAG
1 GG-GTAAAATGGTAATTTTTGGTAAAATCGAGGTCAAAAATGGAATTTTGGAAA-ATT-AA
15850171 GGGTCAAAAT-GTAATTTTT
1 GGGT-AAAATGGTAATTTTT
15850190 AGAAAGTTTC
Statistics
Matches: 166, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
57 7 0.04
58 58 0.35
59 81 0.49
60 13 0.08
61 7 0.04
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.33
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGGTAAAATCGAGGTCAAAAATGGAATTTTGGAAAATTAA
Found at i:15850180 original size:30 final size:33
Alignment explanation
Indices: 15850141--15850203 Score: 89
Period size: 31 Copynumber: 2.0 Consensus size: 33
15850131 GTGAAATCAA
15850141 GGTCAAAAATAG-AA-TTTTAGAAAGTTT-GAGG
1 GGTCAAAAAT-GTAATTTTTAGAAAGTTTCGAGG
15850172 GGTC-AAAATGTAATTTTTAGAAAGTTTCGAGG
1 GGTCAAAAATGTAATTTTTAGAAAGTTTCGAGG
15850204 TTAAAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
29 1 0.03
30 7 0.24
31 17 0.59
32 4 0.14
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (33 bp):
GGTCAAAAATGTAATTTTTAGAAAGTTTCGAGG
Found at i:15850210 original size:30 final size:29
Alignment explanation
Indices: 15850146--15850300 Score: 143
Period size: 30 Copynumber: 5.2 Consensus size: 29
15850136 ATCAAGGTCA
* *
15850146 AAAATAGAA-TTTTAGAAAGTTTGAGGGGTC
1 AAAATATAATTTTTAGAAAGTTTGA--GGTT
*
15850176 AAAATGTAATTTTTAGAAAGTTTCGAGGTT
1 AAAATATAATTTTTAGAAAGTTT-GAGGTT
* *
15850206 AAAATAT-ATTTTTCAAAAAAATTTGAGGTT
1 AAAATATAATTTTT--AGAAAGTTTGAGGTT
* *
15850236 AAAATGTAATTTTTAGAAAGTTTTAGGGTT
1 AAAATATAATTTTTAGAAAGTTTGA-GGTT
* * *
15850266 AGAATATAATTTTTAAAAAGTTTTGGGGTT
1 AAAATATAATTTTTAGAAAG-TTTGAGGTT
15850296 AAAAT
1 AAAAT
15850301 TTAGAAAGGT
Statistics
Matches: 102, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
29 14 0.14
30 57 0.56
31 29 0.28
32 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.39
Consensus pattern (29 bp):
AAAATATAATTTTTAGAAAGTTTGAGGTT
Found at i:15850296 original size:60 final size:59
Alignment explanation
Indices: 15850146--15850300 Score: 177
Period size: 60 Copynumber: 2.6 Consensus size: 59
15850136 ATCAAGGTCA
* * * * * *
15850146 AAAATAGAATTTTAGAAAGTTTGAGGGGTCAAAATGTAATTTTTAGAAAGTTTCGAGGTT
1 AAAATATATTTTTAAAAAGTTT-TGGGGTTAAAATGTAATTTTTAGAAAGTTTAGAGGTT
** *
15850206 AAAATATATTTTTCAAAAAAATTTGAGGTTAAAATGTAATTTTTAGAAAGTTTTAG-GGTT
1 AAAATATATTTTT-AAAAAGTTTTGGGGTTAAAATGTAATTTTTAGAAAG-TTTAGAGGTT
*
15850266 AGAATATAATTTTTAAAAAGTTTTGGGGTTAAAAT
1 AAAATAT-ATTTTTAAAAAGTTTTGGGGTTAAAAT
15850301 TTAGAAAGGT
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
60 63 0.80
61 16 0.20
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.39
Consensus pattern (59 bp):
AAAATATATTTTTAAAAAGTTTTGGGGTTAAAATGTAATTTTTAGAAAGTTTAGAGGTT
Found at i:15851382 original size:25 final size:23
Alignment explanation
Indices: 15851345--15851392 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
15851335 TTTTCTTTTT
15851345 TTTAATAAAAATATTATTAATATTA
1 TTTAATAAAAATA-T-TTAATATTA
**
15851370 TTTAATACTAATATTTAATATTA
1 TTTAATAAAAATATTTAATATTA
15851393 CTGTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 1 0.05
25 11 0.52
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTAATAAAAATATTTAATATTA
Found at i:15852119 original size:6 final size:6
Alignment explanation
Indices: 15852105--15852190 Score: 97
Period size: 6 Copynumber: 14.8 Consensus size: 6
15852095 TGGACGTTGA
* * *
15852105 TTAAAT TTAATT TTAAAT TTAAAA TTAAAT CTAAAT TTAAA- TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
15852152 TTAAAT TTAAA- ATAGAT TTAAAT TTAAA- ATAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
15852191 ATCGTTTGGT
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
5 12 0.18
6 53 0.82
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:15852148 original size:17 final size:17
Alignment explanation
Indices: 15852116--15852190 Score: 114
Period size: 17 Copynumber: 4.4 Consensus size: 17
15852106 TAAATTTAAT
15852116 TTTAAATTTAAAATTAAA
1 TTTAAATTTAAAA-TAAA
* *
15852134 TCTAAATTTAAATTAAA
1 TTTAAATTTAAAATAAA
*
15852151 TTTAAATTTAAAATAGA
1 TTTAAATTTAAAATAAA
15852168 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
15852185 TTTAAA
1 TTTAAA
15852191 ATCGTTTGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
17 40 0.78
18 11 0.22
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:15852272 original size:20 final size:19
Alignment explanation
Indices: 15852247--15852290 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
15852237 ATTCGTCTTC
15852247 AATAAATCTATTAA-AAATAA
1 AATAAAT-T-TTAATAAATAA
15852267 AATAAAATTTTAATAAATAA
1 AAT-AAATTTTAATAAATAA
15852287 AATA
1 AATA
15852291 CGAATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AATAAATTTTAATAAATAA
Found at i:15852298 original size:20 final size:19
Alignment explanation
Indices: 15852257--15852304 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
15852247 AATAAATCTA
15852257 TTAAAAATAAAATAAAATT
1 TTAAAAATAAAATAAAATT
*
15852276 TTAATAAATAAAATACGAA-T
1 TTAA-AAATAAAATA-AAATT
15852296 TTAAAAATA
1 TTAAAAATA
15852305 TATCATATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 9 0.35
20 15 0.58
21 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
TTAAAAATAAAATAAAATT
Found at i:15852364 original size:4 final size:4
Alignment explanation
Indices: 15852355--15852408 Score: 65
Period size: 4 Copynumber: 13.0 Consensus size: 4
15852345 TCTCTCCGTC
*
15852355 TTCT TTCT TTCCT CTGCT -TCT TTCT TTCTT TTCT TTCT TTCT TTCT TTCT
1 TTCT TTCT TT-CT -TTCT TTCT TTCT TTC-T TTCT TTCT TTCT TTCT TTCT
15852405 TTCT
1 TTCT
15852409 CGTTTATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 2 0.05
4 33 0.75
5 8 0.18
6 1 0.02
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (4 bp):
TTCT
Found at i:15852381 original size:21 final size:21
Alignment explanation
Indices: 15852355--15852407 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
15852345 TCTCTCCGTC
15852355 TTCTTTCTTTCCTCTGC-TTCT
1 TTCTTTCTTTCCT-TGCTTTCT
* *
15852376 TTCTTTCTTTTCTTTCTTTCT
1 TTCTTTCTTTCCTTGCTTTCT
15852397 TTCTTTCTTTC
1 TTCTTTCTTTC
15852408 TCGTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (21 bp):
TTCTTTCTTTCCTTGCTTTCT
Found at i:15852520 original size:19 final size:19
Alignment explanation
Indices: 15852496--15852534 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15852486 TTTACAATCA
*
15852496 AAATAAAATAAATACACAC
1 AAATAAAATAAACACACAC
15852515 AAATAAAATAAACACACAC
1 AAATAAAATAAACACACAC
15852534 A
1 A
15852535 TATGGCACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.69, C:0.18, G:0.00, T:0.13
Consensus pattern (19 bp):
AAATAAAATAAACACACAC
Found at i:15860809 original size:20 final size:20
Alignment explanation
Indices: 15860774--15860823 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
15860764 ACGCGTATTG
15860774 ATAATATTTATCAAAT-TACA
1 ATAATATTTATCAAATATA-A
* *
15860794 ATAATATTTTTTAAATATAA
1 ATAATATTTATCAAATATAA
*
15860814 ATAAAATTTA
1 ATAATATTTA
15860824 ATTACGGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAATATTTATCAAATATAA
Found at i:15863804 original size:19 final size:19
Alignment explanation
Indices: 15863654--15863804 Score: 65
Period size: 19 Copynumber: 7.8 Consensus size: 19
15863644 CTTACGAGAC
*
15863654 ATATCAAAATTTATAA-AA
1 ATATCAAAATTTCTAACAA
* * *
15863672 GAGTACCAAAATCTCTAACAGG
1 -A-TATCAAAATTTCTAACA-A
* * * * *
15863694 ATATTAAGATTCCTAGCCA
1 ATATCAAAATTTCTAACAA
* *
15863713 ATACCAAAATTTCTAACGA
1 ATATCAAAATTTCTAACAA
* ** *
15863732 GTATCAAAACCTCTAACAT
1 ATATCAAAATTTCTAACAA
*
15863751 ATATC-AAATTTCTTAACGA
1 ATATCAAAATTTC-TAACAA
* **
15863770 ATA-CTAGAATCCCTAACAA
1 ATATC-AAAATTTCTAACAA
15863789 ATATCAAAATTTCTAA
1 ATATCAAAATTTCTAA
15863805 TGAAAGATGT
Statistics
Matches: 89, Mismatches: 36, Indels: 14
0.64 0.26 0.10
Matches are distributed among these distances:
18 6 0.07
19 54 0.61
20 27 0.30
21 2 0.02
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (19 bp):
ATATCAAAATTTCTAACAA
Found at i:15865798 original size:23 final size:22
Alignment explanation
Indices: 15865743--15865798 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
15865733 TTTAGAGGGA
*
15865743 TTAA-AATT-AAATTATAATTT
1 TTAAGAATTAAAAATATAATTT
* *
15865763 TTATGATAGTAAAAATATAATTT
1 TTAAGA-ATTAAAAATATAATTT
15865786 TTAAAGAATTAAA
1 TT-AAGAATTAAA
15865799 TCGAAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 2 0.07
23 18 0.67
24 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
TTAAGAATTAAAAATATAATTT
Found at i:15869094 original size:12 final size:13
Alignment explanation
Indices: 15869077--15869109 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
15869067 ACTCCATAAA
15869077 AATAAAAATA-TT
1 AATAAAAATATTT
15869089 AATAAAAATATTT
1 AATAAAAATATTT
15869102 AA-AAAAAT
1 AATAAAAAT
15869110 CATAAAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATAAAAATATTT
Found at i:15872945 original size:13 final size:12
Alignment explanation
Indices: 15872903--15872952 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
15872893 ATTAGATATC
15872903 AATTTTAATAAAA
1 AATTTT-ATAAAA
15872916 AATATTTA-AAAA
1 AAT-TTTATAAAA
*
15872928 TATTTTATAAATA
1 AATTTTATAAA-A
15872941 AATTTTA-AAAA
1 AATTTTATAAAA
15872952 A
1 A
15872953 TCACATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 6 0.19
12 12 0.38
13 11 0.34
14 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTTTATAAAA
Found at i:15872953 original size:25 final size:25
Alignment explanation
Indices: 15872904--15872951 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
15872894 TTAGATATCA
15872904 ATTTTAATAAAAAATATTTAAAAAT
1 ATTTTAATAAAAAATATTTAAAAAT
15872929 ATTTT-ATAAATAAAT-TTTAAAAA
1 ATTTTAATAAA-AAATATTTAAAAA
15872952 ATCACATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTTAATAAAAAATATTTAAAAAT
Found at i:15876712 original size:18 final size:20
Alignment explanation
Indices: 15876670--15876717 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
15876660 TTGATTACTC
*
15876670 ATTTTATTTTTTAAAAATTA
1 ATTTTAGTTTTTAAAAATTA
*
15876690 A-TTTA-TTTTT-AGAATTA
1 ATTTTAGTTTTTAAAAATTA
15876707 ATTTTAGTTTT
1 ATTTTAGTTTT
15876718 CTTCCAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.28
18 9 0.36
19 8 0.32
20 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
ATTTTAGTTTTTAAAAATTA
Found at i:15881953 original size:20 final size:20
Alignment explanation
Indices: 15881928--15881967 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15881918 AACACATGCT
15881928 ACCTTCCTACCAAGCGTGCA
1 ACCTTCCTACCAAGCGTGCA
15881948 ACCTTCCTACCAAGCGTGCA
1 ACCTTCCTACCAAGCGTGCA
15881968 TTGTACGTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.40, G:0.15, T:0.20
Consensus pattern (20 bp):
ACCTTCCTACCAAGCGTGCA
Found at i:15884861 original size:23 final size:23
Alignment explanation
Indices: 15884809--15884861 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
15884799 GCGTGCCTCG
* *
15884809 TATTTTTTTCACTTAAATTTTGT
1 TATTTTTTTCACTTAAACTCTGT
* *
15884832 TATTTTTTTTAGTTAAACTCTGAT
1 TATTTTTTTCACTTAAACTCTG-T
15884856 TATTTT
1 TATTTT
15884862 AAGGATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.64
Consensus pattern (23 bp):
TATTTTTTTCACTTAAACTCTGT
Found at i:15897168 original size:20 final size:21
Alignment explanation
Indices: 15897132--15897181 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
15897122 GCATTAAGCT
*
15897132 TTAATT-AATCATTTTTA-ATC
1 TTAATTAAATCATATTTATA-C
15897152 TTAATTAAATC-TATTTATAC
1 TTAATTAAATCATATTTATAC
15897172 TTAATGTAAA
1 TTAAT-TAAA
15897182 CCATGCCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATTAAATCATATTTATAC
Found at i:15898986 original size:15 final size:15
Alignment explanation
Indices: 15898966--15898996 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15898956 ATCTATCTAG
*
15898966 AAAAGGCAAATAAGA
1 AAAAGGAAAATAAGA
15898981 AAAAGGAAAATAAGA
1 AAAAGGAAAATAAGA
15898996 A
1 A
15898997 GGGGAAAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.19, T:0.06
Consensus pattern (15 bp):
AAAAGGAAAATAAGA
Found at i:15899153 original size:11 final size:11
Alignment explanation
Indices: 15899133--15899174 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
15899123 TTATATTTAA
15899133 AAAATAATTTT
1 AAAATAATTTT
*
15899144 AAATTAATTTT
1 AAAATAATTTT
*
15899155 AAAATATTTTT
1 AAAATAATTTT
15899166 AAAA-AATTT
1 AAAATAATTT
15899175 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:15901969 original size:19 final size:17
Alignment explanation
Indices: 15901937--15901975 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
15901927 AATAAATAAA
15901937 TTTTTTTATTTATTTAG
1 TTTTTTTATTTATTTAG
*
15901954 TTTTATTTATTTTATTTGG
1 TTTT-TTTA-TTTATTTAG
15901973 TTT
1 TTT
15901976 AGGCTTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 11 0.58
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (17 bp):
TTTTTTTATTTATTTAG
Found at i:15902188 original size:40 final size:41
Alignment explanation
Indices: 15902121--15902676 Score: 515
Period size: 40 Copynumber: 14.0 Consensus size: 41
15902111 TCGCAACCTA
*
15902121 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTTGAT-TG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
* * *
15902161 TCTTTAATTTGGCCCATGATCGGGGTAAGAGATTAG-TGTG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
* * *
15902201 TCTTCAATCTGCCCTATGATCGAGGAAAGAGATTAGAT-TG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
* * *
15902241 TCTTCAATTTGCCCCATGATCGAGGTAAGAGATT-GGTGTG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
*
15902281 TCTTCAATTTGCCCCATGATC-GGGTAAGAGATT-GATGTG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
* *
15902320 TTTTCAATCTGCCCCATGATCGAGGTAA-ACGATTAG-TGTG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGA-GATTAGATGTG
*
15902360 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATT-GGTGTG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
** *** *** * *
15902400 TCTTCAATCTAACTTTTGATTAAGGTAAAAGATTGGA--TG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
* *** *** * * *
15902439 -ATTCAATCTGCCTTTTGATTAAGGTAAAACATTGGA--TG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
* * * *
15902477 -ATTCAATCTGCCCCATGATCAGGGTAAGAAATT-GGTGTG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
* ** *
15902516 TCTTCAATCT-CCTCCATAATTTGGGTAAGAGATT-GGTGTG
1 TCTTCAATCTGCC-CCATGATCGGGGTAAGAGATTAGATGTG
* * *
15902556 TCTTCAATTTGCCTCATGATCGGGGTAAGAGATTGGAT-TG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
* *
15902596 TCTTCAATCTACCCCATGATCGGGGTAAGAGATT-GGTGTG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
*
15902636 TCTTCAATCTGCCCCATGATCAGGGTAAGAGATTAG-TGTG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
15902676 T
1 T
15902677 TTTATCACAT
Statistics
Matches: 439, Mismatches: 60, Indels: 34
0.82 0.11 0.06
Matches are distributed among these distances:
37 1 0.00
38 60 0.14
39 48 0.11
40 321 0.73
41 9 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGTG
Found at i:15902454 original size:38 final size:38
Alignment explanation
Indices: 15902402--15902488 Score: 147
Period size: 38 Copynumber: 2.3 Consensus size: 38
15902392 TTGGTGTGTC
** *
15902402 TTCAATCTAACTTTTGATTAAGGTAAAAGATTGGATGA
1 TTCAATCTGCCTTTTGATTAAGGTAAAACATTGGATGA
15902440 TTCAATCTGCCTTTTGATTAAGGTAAAACATTGGATGA
1 TTCAATCTGCCTTTTGATTAAGGTAAAACATTGGATGA
15902478 TTCAATCTGCC
1 TTCAATCTGCC
15902489 CCATGATCAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (38 bp):
TTCAATCTGCCTTTTGATTAAGGTAAAACATTGGATGA
Found at i:15906668 original size:23 final size:22
Alignment explanation
Indices: 15906619--15906670 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
15906609 TTGACTAGGG
15906619 TAAAAATACTTGTCAAATTGAA
1 TAAAAATACTTGTCAAATTGAA
* *
15906641 TAAAAATATTTGTCAAACTTG-G
1 TAAAAATACTTGTCAAA-TTGAA
15906663 TAAAAATA
1 TAAAAATA
15906671 AATAGAATCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.33
Consensus pattern (22 bp):
TAAAAATACTTGTCAAATTGAA
Found at i:15908391 original size:29 final size:29
Alignment explanation
Indices: 15908359--15908510 Score: 82
Period size: 29 Copynumber: 5.2 Consensus size: 29
15908349 TAAAAATGAG
*
15908359 ATTTTAGAAAGTTTGAGGGTAAAATGGTA
1 ATTTTAGAAAGTTTAAGGGTAAAATGGTA
* * *
15908388 ATTTTGGATGAAA--TCAAGGTTAAAAATGG-G
1 ATTTT--A-GAAAGTTTAAGGGT-AAAATGGTA
* *
15908418 ATTTTAGGAAGTTTAGGGGTAAAATGGTA
1 ATTTTAGAAAGTTTAAGGGTAAAATGGTA
* * * *
15908447 ATTTTTGTTAAAATCT--GGGTTAAAAATGG-G
1 ATTTTAG--AAAGTTTAAGGG-T-AAAATGGTA
* *
15908477 ATTTTGGGAAGTTTAAGGGTAAAATGGTA
1 ATTTTAGAAAGTTTAAGGGTAAAATGGTA
15908506 ATTTT
1 ATTTT
15908511 TTGTGAAATA
Statistics
Matches: 90, Mismatches: 19, Indels: 28
0.66 0.14 0.20
Matches are distributed among these distances:
27 3 0.03
28 19 0.21
29 25 0.28
30 20 0.22
31 19 0.21
32 4 0.04
ACGTcount: A:0.36, C:0.01, G:0.27, T:0.36
Consensus pattern (29 bp):
ATTTTAGAAAGTTTAAGGGTAAAATGGTA
Found at i:15908525 original size:29 final size:30
Alignment explanation
Indices: 15908496--15908578 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 30
15908486 AGTTTAAGGG
*
15908496 TAAAATGGTAATTTTTTGTGAAATAGGGGT
1 TAAAATGGTAATTTTTTGTGAAATAGGGGC
* *
15908526 TAAAAATGG-GA--TTTTG-GAAATTTTGGGGC
1 T-AAAATGGTAATTTTTTGTGAAA--TAGGGGC
*
15908555 TAAAATGGTAATTTTTGGTGAAAT
1 TAAAATGGTAATTTTTTGTGAAAT
15908579 CGAGGTTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
27 4 0.10
28 12 0.29
29 7 0.17
30 3 0.07
31 11 0.27
32 4 0.10
ACGTcount: A:0.34, C:0.01, G:0.27, T:0.39
Consensus pattern (30 bp):
TAAAATGGTAATTTTTTGTGAAATAGGGGC
Found at i:15908626 original size:58 final size:58
Alignment explanation
Indices: 15908314--15909030 Score: 927
Period size: 59 Copynumber: 12.3 Consensus size: 58
15908304 TTTGGCTTTC
* * * *
15908314 AGGGGTAAAAAT-GTAATTTTTGGTGAAACCAAGGTTAAAAATGAGATTTTAGAAAGTTT
1 AGGGGT-AAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT
*
15908373 -GAGGGTAAAATGGTAATTTTGGATGAAATCAAGGTTAAAAATGGGATTTTAGG-AAGTTT
1 AG-GGGTAAAATGGTAATTTTGG-TGAAATCGAGGTTAAAAATGGGATTTT-GGAAAGTTT
* * *
15908432 AGGGGTAAAATGGTAATTTTTGTTAAAATCTG-GGTTAAAAATGGGATTTTGGGAAGTTT
1 AGGGGTAAAATGGTAA-TTTTGGTGAAATC-GAGGTTAAAAATGGGATTTTGGAAAGTTT
* * * *
15908491 AAGGGTAAAATGGTAATTTTTTGTGAAATAGGGGTTAAAAATGGGATTTTGGAAA-TTT
1 AGGGGTAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT
*
15908549 TGGGGCTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT
1 AGGGG-TAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT
*
15908609 AGGGGT-AAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGGAAGTTT
1 AGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT
* * * *
15908666 TGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAAAGGGATTTGGGGAAGTTT
1 AGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT
* *
15908724 AGGGGTAAAATGGTAATTTTTGGTGAAAT-TAGGGTTAAAAATAGGATTTTGGAAAG-TT
1 AGGGGTAAAATGGTAA-TTTTGGTGAAATCGA-GGTTAAAAATGGGATTTTGGAAAGTTT
*
15908782 AAGGGT-AAATGGTAATTTTGGTGAAATCGAGGTT-AAAATGGGATTTTGGAAAGTTT
1 AGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT
* * * *
15908838 AGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTTC
1 AGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT
* * * * * * *
15908896 GGGGGTGAAATGGTAATTTTGGTAAAATTGGGGTT-AAAATGGAATTTTAGAAAG-TT
1 AGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT
* *
15908952 CGAGGGTAAAATAGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT
1 AG-GGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT
15909011 AGGGGTAAAATGGTAATTTT
1 AGGGGTAAAATGGTAATTTT
15909031 TGGGCATTCT
Statistics
Matches: 584, Mismatches: 53, Indels: 43
0.86 0.08 0.06
Matches are distributed among these distances:
55 18 0.03
56 25 0.04
57 128 0.22
58 186 0.32
59 213 0.36
60 14 0.02
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.34
Consensus pattern (58 bp):
AGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT
Found at i:15910932 original size:6 final size:6
Alignment explanation
Indices: 15910880--15910954 Score: 52
Period size: 6 Copynumber: 13.0 Consensus size: 6
15910870 AAATTGGACT
* * * * *
15910880 TTTAAT TTTAAG TTTAAG TTTAAA TGTT-AT TTTAAA TTT-GA -TTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA
15910926 TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA
15910955 ATCAATTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
4 3 0.05
5 7 0.12
6 43 0.77
7 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:15910942 original size:17 final size:17
Alignment explanation
Indices: 15910910--15910965 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
15910900 TAAATGTTAT
15910910 TTTAAATTT--GATTAAA
1 TTTAAATTTAAGA-TAAA
15910926 TTTAAATTTAAGATAAA
1 TTTAAATTTAAGATAAA
* *
15910943 TTTAAATTTAAAATCAA
1 TTTAAATTTAAGATAAA
15910960 TTTAAA
1 TTTAAA
15910966 CTTTTAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
16 9 0.25
17 25 0.69
18 2 0.06
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (17 bp):
TTTAAATTTAAGATAAA
Found at i:15910965 original size:23 final size:24
Alignment explanation
Indices: 15910921--15910978 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
15910911 TTAAATTTGA
* *
15910921 TTAAATTTAAATTTAAGATAAA-T
1 TTAAATTTAAAATCAAGATAAACT
**
15910944 TTAAATTTAAAATCAATTTAAACT
1 TTAAATTTAAAATCAAGATAAACT
*
15910968 TTTAA-TTAAAA
1 TTAAATTTAAAA
15910979 CCAAAGGCCC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (24 bp):
TTAAATTTAAAATCAAGATAAACT
Found at i:15922831 original size:96 final size:95
Alignment explanation
Indices: 15922658--15922849 Score: 267
Period size: 96 Copynumber: 2.0 Consensus size: 95
15922648 GTTGGGATTG
* * *
15922658 ATTTGAGTGAAATATAAGGATCAAAACTAAAAGTTAACCATAAAAAGTTAGAGGTATTAGAATTG
1 ATTTGAGTGAAATATAAGGATCAAAACTAAAAGTTAACCATAAAAAATTAAAGGGATTAGAATTG
15922723 AAATATAACCATTATCTTCTCATGTAAAAA
66 AAATATAACCATTATCTTCTCATGTAAAAA
* * * * *
15922753 ATTTCGAGTGAAATATAGGGTTCAAAATTGAAATTTAACCATAAAAAATTAAAGGGATTAGAATT
1 ATTT-GAGTGAAATATAAGGATCAAAACTAAAAGTTAACCATAAAAAATTAAAGGGATTAGAATT
* * * *
15922818 GAATTTTAGCCATTATCTTTTCATGTAAAAA
65 GAAATATAACCATTATCTTCTCATGTAAAAA
15922849 A
1 A
15922850 AATGGACAAG
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 4 0.05
96 80 0.95
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (95 bp):
ATTTGAGTGAAATATAAGGATCAAAACTAAAAGTTAACCATAAAAAATTAAAGGGATTAGAATTG
AAATATAACCATTATCTTCTCATGTAAAAA
Found at i:15925121 original size:14 final size:14
Alignment explanation
Indices: 15925102--15925137 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
15925092 TTGTTTGACT
*
15925102 GAAAATGGTTTCCG
1 GAAAATGATTTCCG
*
15925116 GAAAATGATTTCTG
1 GAAAATGATTTCCG
15925130 GAAAATGA
1 GAAAATGA
15925138 ATTACTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:15928723 original size:17 final size:17
Alignment explanation
Indices: 15928701--15928734 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15928691 TGTAGAGCTG
15928701 TCGACATGGCCTTCCAC
1 TCGACATGGCCTTCCAC
15928718 TCGACATGGCCTTCCAC
1 TCGACATGGCCTTCCAC
15928735 CCACTGGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.41, G:0.18, T:0.24
Consensus pattern (17 bp):
TCGACATGGCCTTCCAC
Found at i:15931244 original size:2 final size:2
Alignment explanation
Indices: 15931237--15931296 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
15931227 TCAACTTTGC
15931237 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15931279 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
15931297 GACCATTGCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15954830 original size:12 final size:12
Alignment explanation
Indices: 15954813--15954839 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15954803 AAATTTTAAT
15954813 ATATATATATAA
1 ATATATATATAA
15954825 ATATATATATAA
1 ATATATATATAA
15954837 ATA
1 ATA
15954840 AATTATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAA
Found at i:15954832 original size:16 final size:16
Alignment explanation
Indices: 15954811--15954850 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
15954801 CCAAATTTTA
15954811 ATATATATATATAAAT
1 ATATATATATATAAAT
*
15954827 ATATATATAAATAAAT
1 ATATATATATATAAAT
15954843 -TATA-ATAT
1 ATATATATAT
15954851 TTTTTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 3 0.14
15 4 0.18
16 15 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATATATATAAAT
Found at i:15955192 original size:16 final size:17
Alignment explanation
Indices: 15955158--15955199 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
15955148 AATAGTCACG
*
15955158 TTATCG-TTT-GAAATG
1 TTATCGTTTTAGAAATA
15955173 TTAT-GTTTTAGAAATA
1 TTATCGTTTTAGAAATA
15955189 TTATCGTTTTA
1 TTATCGTTTTA
15955200 TTATAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 1 0.04
15 7 0.30
16 9 0.39
17 6 0.26
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (17 bp):
TTATCGTTTTAGAAATA
Found at i:15959846 original size:34 final size:34
Alignment explanation
Indices: 15959808--15959898 Score: 146
Period size: 34 Copynumber: 2.7 Consensus size: 34
15959798 ACAACTCACT
*
15959808 TTGTAAGTTTTCAAGCTCAAGAAATCAATATGTA
1 TTGTAAGTTTTCAAACTCAAGAAATCAATATGTA
*
15959842 TTGTAAGTTTTCAAACTCAAGAAATTAATATGTA
1 TTGTAAGTTTTCAAACTCAAGAAATCAATATGTA
* *
15959876 TTTTAAGTTTTCAAACTAAAGAA
1 TTGTAAGTTTTCAAACTCAAGAA
15959899 TTAGAATGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 53 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (34 bp):
TTGTAAGTTTTCAAACTCAAGAAATCAATATGTA
Found at i:15960734 original size:7 final size:7
Alignment explanation
Indices: 15960722--15960788 Score: 71
Period size: 7 Copynumber: 9.6 Consensus size: 7
15960712 CTCGGTCCTT
15960722 CGTTCCC
1 CGTTCCC
15960729 CGTTCCC
1 CGTTCCC
*
15960736 TGTTCCC
1 CGTTCCC
*
15960743 TGTTCCC
1 CGTTCCC
*
15960750 TGTTCCC
1 CGTTCCC
*
15960757 TGTTCCC
1 CGTTCCC
15960764 CGTTCCC
1 CGTTCCC
*
15960771 CGTTTCC
1 CGTTCCC
* *
15960778 CTTTTCC
1 CGTTCCC
15960785 CGTT
1 CGTT
15960789 TATTCACTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 55 1.00
ACGTcount: A:0.00, C:0.46, G:0.13, T:0.40
Consensus pattern (7 bp):
CGTTCCC
Found at i:15960742 original size:14 final size:14
Alignment explanation
Indices: 15960723--15960785 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
15960713 TCGGTCCTTC
15960723 GTTCCCCGTTCCCT
1 GTTCCCCGTTCCCT
*
15960737 GTTCCCTGTTCCCT
1 GTTCCCCGTTCCCT
* *
15960751 GTTCCCTGTTCCCC
1 GTTCCCCGTTCCCT
15960765 GTTCCCCGTTTCCCT
1 GTTCCCCG-TTCCCT
*
15960780 TTTCCC
1 GTTCCC
15960786 GTTTATTCAC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
14 33 0.77
15 10 0.23
ACGTcount: A:0.00, C:0.48, G:0.13, T:0.40
Consensus pattern (14 bp):
GTTCCCCGTTCCCT
Found at i:15960749 original size:21 final size:21
Alignment explanation
Indices: 15960722--15960785 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
15960712 CTCGGTCCTT
15960722 CGTTCCCCGTTCCCTGTTCCC
1 CGTTCCCCGTTCCCTGTTCCC
* *
15960743 TGTTCCCTGTTCCCTGTTCCC
1 CGTTCCCCGTTCCCTGTTCCC
*
15960764 CGTTCCCCGTTTCCCTTTTCCC
1 CGTTCCCCG-TTCCCTGTTCCC
15960786 GTTTATTCAC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 26 0.70
22 11 0.30
ACGTcount: A:0.00, C:0.48, G:0.12, T:0.39
Consensus pattern (21 bp):
CGTTCCCCGTTCCCTGTTCCC
Found at i:15963486 original size:20 final size:19
Alignment explanation
Indices: 15963470--15963521 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
15963460 ATATATATAA
15963470 ATTTTGAAATTTTTATAAAT
1 ATTTTG-AATTTTTATAAAT
*
15963490 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTATAAA-T
*
15963509 ATTTTTAATTTTT
1 ATTTTGAATTTTT
15963522 GAAAATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.29
19 10 0.36
20 10 0.36
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTTTGAATTTTTATAAAT
Found at i:15963501 original size:19 final size:20
Alignment explanation
Indices: 15963470--15963541 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
15963460 ATATATATAA
*
15963470 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTAAAAATT
15963490 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
* *
15963509 ATTTTTAATTTTTGAAAATTT
1 ATTTTGAATTTTT-AAAAATT
15963530 ATTTT-AATTTTT
1 ATTTTGAATTTTT
15963542 TTTGTAAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.17
19 10 0.22
20 17 0.37
21 11 0.24
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:15963526 original size:20 final size:19
Alignment explanation
Indices: 15963477--15963541 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
15963467 TAAATTTTGA
*
15963477 AATTTTTATAAA-TATTTTG
1 AATTTTTA-AAATTATTTTT
*
15963496 AATTTTAAAAATTATTTTT
1 AATTTTTAAAATTATTTTT
15963515 AATTTTTGAAAATT-TATTTT
1 AATTTTT-AAAATTAT-TTTT
15963535 AATTTTT
1 AATTTTT
15963542 TTTGTAAGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 3 0.08
19 20 0.50
20 17 0.43
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
AATTTTTAAAATTATTTTT
Found at i:15963949 original size:20 final size:21
Alignment explanation
Indices: 15963887--15963950 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
15963877 TTTCTTTTAT
* *
15963887 AAAATGTATAT-ATACATTAAA
1 AAAATATATATAAT-CAATAAA
* *
15963908 AAAATATATATAATCTAGAAA
1 AAAATATATATAATCAATAAA
15963929 ATAAATATATA-AAT-AATAAA
1 A-AAATATATATAATCAATAAA
15963949 AA
1 AA
15963951 CATGTGACGG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.03
20 5 0.14
21 18 0.51
22 11 0.31
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (21 bp):
AAAATATATATAATCAATAAA
Found at i:15967136 original size:6 final size:6
Alignment explanation
Indices: 15967126--15967164 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
15967116 AATGTAAAAT
*
15967126 AAAAGT AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
15967165 GAACTCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:15971470 original size:94 final size:94
Alignment explanation
Indices: 15971309--15971498 Score: 371
Period size: 94 Copynumber: 2.0 Consensus size: 94
15971299 TCGCATATGT
*
15971309 TGCCCTGAGGGTAGTATATTCGTTTGTAAATTTGAAATAGTAAAATGCTGTCCTTTTGTAAGAGT
1 TGCCCAGAGGGTAGTATATTCGTTTGTAAATTTGAAATAGTAAAATGCTGTCCTTTTGTAAGAGT
15971374 TCCAACACTATTTACTAATGTAAATATTA
66 TCCAACACTATTTACTAATGTAAATATTA
15971403 TGCCCAGAGGGTAGTATATTCGTTTGTAAATTTGAAATAGTAAAATGCTGTCCTTTTGTAAGAGT
1 TGCCCAGAGGGTAGTATATTCGTTTGTAAATTTGAAATAGTAAAATGCTGTCCTTTTGTAAGAGT
15971468 TCCAACACTATTTACTAATGTAAATATTA
66 TCCAACACTATTTACTAATGTAAATATTA
15971497 TG
1 TG
15971499 ACTGTAATGG
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (94 bp):
TGCCCAGAGGGTAGTATATTCGTTTGTAAATTTGAAATAGTAAAATGCTGTCCTTTTGTAAGAGT
TCCAACACTATTTACTAATGTAAATATTA
Found at i:15981455 original size:9 final size:9
Alignment explanation
Indices: 15981441--15981472 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
15981431 GAATTAAATA
15981441 ATTTGAGTT
1 ATTTGAGTT
15981450 ATTTGAGTT
1 ATTTGAGTT
15981459 ATTTGAGTT
1 ATTTGAGTT
15981468 ATTTG
1 ATTTG
15981473 GATCAACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (9 bp):
ATTTGAGTT
Found at i:15984019 original size:19 final size:19
Alignment explanation
Indices: 15983987--15984023 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15983977 TTGTGTTGAT
*
15983987 AGTAATTAGGGAAGTTAGA
1 AGTAAATAGGGAAGTTAGA
*
15984006 AGTAAATAGTGAAGTTAG
1 AGTAAATAGGGAAGTTAG
15984024 GGGTAATTTA
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:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (19 bp):
AGTAAATAGGGAAGTTAGA
Found at i:15985681 original size:45 final size:45
Alignment explanation
Indices: 15985617--15985707 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
15985607 GAAGCTGATT
15985617 AGAATGGGAAGTAAGCAAGATGGACTCTACTACTTCAAGGAGGAA
1 AGAATGGGAAGTAAGCAAGATGGACTCTACTACTTCAAGGAGGAA
15985662 AGAATGGGAAGTAAGCAAGATGGACTCTACTACTTCAAGGAGGAA
1 AGAATGGGAAGTAAGCAAGATGGACTCTACTACTTCAAGGAGGAA
15985707 A
1 A
15985708 CTAGTTCTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.13, G:0.29, T:0.18
Consensus pattern (45 bp):
AGAATGGGAAGTAAGCAAGATGGACTCTACTACTTCAAGGAGGAA
Found at i:15993326 original size:20 final size:20
Alignment explanation
Indices: 15993301--15993340 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15993291 GATGTATTCC
15993301 CGAAAGCAATCCACTATCCT
1 CGAAAGCAATCCACTATCCT
15993321 CGAAAGCAATCCACTATCCT
1 CGAAAGCAATCCACTATCCT
15993341 ATACAGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.10, T:0.20
Consensus pattern (20 bp):
CGAAAGCAATCCACTATCCT
Found at i:15997125 original size:99 final size:98
Alignment explanation
Indices: 15996995--15997229 Score: 326
Period size: 99 Copynumber: 2.4 Consensus size: 98
15996985 AGGTATAAGG
* ** * * *
15996995 TTCGCCGTTACGGCTTAAATCTTTTGCTTCATGCTTTTGAGGTACAAGGTTCGCCGTTGCGACTT
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTACAACTT
* *
15997060 AAACCCTTCCCTCCATTATCTTCATTGTACTGGA
66 AAACCCTTCCCTCCA-TATCTTCATGGTACTCGA
* * *
15997094 TTCGCCGTTGCAGCTTAAATATTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCGTTACAACTT
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTACAACTT
* * *
15997159 AAACCTTTCCCTTCATATCTTCATGGTATTCGA
66 AAACCCTTCCCTCCATATCTTCATGGTACTCGA
15997192 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTC
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG-CTTC
15997230 ACGGTAATAA
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
98 46 0.39
99 73 0.61
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.38
Consensus pattern (98 bp):
TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTACAACTT
AAACCCTTCCCTCCATATCTTCATGGTACTCGA
Found at i:15997198 original size:148 final size:148
Alignment explanation
Indices: 15996938--15997219 Score: 350
Period size: 148 Copynumber: 1.9 Consensus size: 148
15996928 TGTCTTCGTG
* ** * *
15996938 GTACTTGATTCCCCGTTGTGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTATAAGGTTCGCCGT
1 GTACTGGATTCCCCGTTGCAGCTTAAATATTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGT
** * ** * * * *
15997003 TACGGCTTAAATCTTTTGCTTCATGCTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCCTT
66 TACAACTTAAACCTTTCCCTTCATGATCTTCAGGTACAAGATTCGCCGTTGCGACTTAAACCCTT
15997068 CCCTCCATTATCTTCATT
131 CCCTCCATTATCTTCATT
* *
15997086 GTACTGGATTCGCCGTTGCAGCTTAAATATTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCGT
1 GTACTGGATTCCCCGTTGCAGCTTAAATATTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGT
*** * * *
15997151 TACAACTTAAACCTTTCCCTTCAT-ATCTTCATGGTATTCGATTCGCCGTTGCGGCTTAAATCTT
66 TACAACTTAAACCTTTCCCTTCATGATCTTCA-GGTACAAGATTCGCCGTTGCGACTTAAACCCT
15997215 TCCCT
130 TCCCT
15997220 TCATGTCTTC
Statistics
Matches: 111, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
147 4 0.04
148 107 0.96
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (148 bp):
GTACTGGATTCCCCGTTGCAGCTTAAATATTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGT
TACAACTTAAACCTTTCCCTTCATGATCTTCAGGTACAAGATTCGCCGTTGCGACTTAAACCCTT
CCCTCCATTATCTTCATT
Found at i:15997230 original size:49 final size:49
Alignment explanation
Indices: 15996927--15997235 Score: 223
Period size: 49 Copynumber: 6.3 Consensus size: 49
15996917 TGCGGCTATA
* ** * *
15996927 ATGTCTTCGTGGTACTTGATTCCCCGTTGTGGCTTAAATCTTTCCCTTC
1 ATGTCTTCATGGTACAAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTC
* * * **
15996976 ATG-CTTC-TGAGGTATAAGGTTCGCCGTTACGGCTTAAATCTTTTGCTTC
1 ATGTCTTCAT--GGTACAAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTC
* * * * * * *
15997025 ATGCTTTTGA-GGTACAAGGTTCGCCGTTGCGACTTAAACCCTTCCCTCC
1 ATG-TCTTCATGGTACAAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTC
* * ** * *
15997074 ATTATCTTCATTGTACTGGATTCGCCGTTGCAGCTTAAATATTTCCCTTC
1 A-TGTCTTCATGGTACAAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTC
* * * ** *
15997124 ATG-CTTC-TGAGGTACAAGGTTCGTCGTTACAACTTAAACCTTTCCCTTC
1 ATGTCTTCAT--GGTACAAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTC
* ***
15997173 ATATCTTCATGGTATTCGATTCGCCGTTGCGGCTTAAATCTTTCCCTTC
1 ATGTCTTCATGGTACAAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTC
*
15997222 ATGTCTTCACGGTA
1 ATGTCTTCATGGTA
15997236 ATAAAACCTG
Statistics
Matches: 195, Mismatches: 54, Indels: 22
0.72 0.20 0.08
Matches are distributed among these distances:
47 2 0.01
48 8 0.04
49 147 0.75
50 35 0.18
51 3 0.02
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (49 bp):
ATGTCTTCATGGTACAAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTC
Found at i:16005469 original size:18 final size:18
Alignment explanation
Indices: 16005422--16005470 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
16005412 GGTTTAAGTT
16005422 AATTCTAAATTTATTTACA
1 AATT-TAAATTTATTTACA
**
16005441 AATTTGGATTTATCTTA-A
1 AATTTAAATTTAT-TTACA
16005459 AATTTAAATTTA
1 AATTTAAATTTA
16005471 AATCAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (18 bp):
AATTTAAATTTATTTACA
Found at i:16005502 original size:17 final size:16
Alignment explanation
Indices: 16005480--16005519 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
16005470 AAATCAATTT
16005480 TTAAATTTAAATTTGTG
1 TTAAATTTAAATTTG-G
16005497 TTAAATTTAAATTTGG
1 TTAAATTTAAATTTGG
16005513 -TAAATTT
1 TTAAATTT
16005520 GGAATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.30
16 1 0.04
17 15 0.65
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (16 bp):
TTAAATTTAAATTTGG
Found at i:16005828 original size:20 final size:20
Alignment explanation
Indices: 16005803--16005840 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16005793 CTGGAAATCG
16005803 AAAATA-CAAACCCTTTTCAA
1 AAAATATCAAA-CCTTTTCAA
16005823 AAAATATCAAACCTTTTC
1 AAAATATCAAACCTTTTC
16005841 TAAGCATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATATCAAACCTTTTCAA
Found at i:16007368 original size:30 final size:30
Alignment explanation
Indices: 16007327--16007568 Score: 342
Period size: 30 Copynumber: 8.0 Consensus size: 30
16007317 CCCTAAATTG
*
16007327 TCCAGAAATTACATTTTGACCCTAAAACTTT
1 TCCA-AAATTACATTTTAACCCTAAAACTTT
* *
16007358 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCTAAAACTTT
*
16007388 TCCAAAATTATATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTAACCCTAAAACTTT
16007418 TCCAAAATTACATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTAACCCTAAAACTTT
* *
16007448 TCCAAAATTATATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCTAAAACTTT
* *
16007478 TCCAAAATTATATTTTAACCCTAAAACCTT
1 TCCAAAATTACATTTTAACCCTAAAACTTT
*
16007508 TCCAAAATTACATTTTAA-CCTCAAAACCTT
1 TCCAAAATTACATTTTAACCCT-AAAACTTT
** * *
16007538 TCCAAAATTATGTTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCTAAAACTTT
16007568 T
1 T
16007569 GTAAAAATTG
Statistics
Matches: 194, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
29 3 0.02
30 185 0.95
31 6 0.03
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (30 bp):
TCCAAAATTACATTTTAACCCTAAAACTTT
Found at i:16007425 original size:60 final size:60
Alignment explanation
Indices: 16007327--16007613 Score: 346
Period size: 60 Copynumber: 4.8 Consensus size: 60
16007317 CCCTAAATTG
* * *
16007327 TCCAGAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCA-AAATTATATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTT
*
16007388 TCCAAAATTATATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTT
1 TCCAAAATTATATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTT
* * * *
16007448 TCCAAAATTATATTTTAACCCCAAAACTTTTCCAAAATTATATTTTAACCCTAAAACCTT
1 TCCAAAATTATATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTT
* * ** *
16007508 TCCAAAATTACATTTTAA-CCTCAAAACCTTTCCAAAATTATGTTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTAACCCT-AAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTT
** * * *
16007568 TGTAAAAATTGTATTTCT-ACCCCAAAAC-TTTCAAAAATTACCATTT
1 T-CCAAAATTATATTT-TAACCCTAAAACTTTTCCAAAATTA-CATTT
16007614 CACCCTCAAA
Statistics
Matches: 199, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
59 2 0.01
60 171 0.86
61 23 0.12
62 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.36
Consensus pattern (60 bp):
TCCAAAATTATATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTT
Found at i:16007485 original size:90 final size:89
Alignment explanation
Indices: 16007327--16007626 Score: 408
Period size: 90 Copynumber: 3.3 Consensus size: 89
16007317 CCCTAAATTG
* *
16007327 TCCAGAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCA
1 TCCA-AAATTACATTTTAACCCTAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCA
16007392 AAATTATATTTTAACCCTAAAACTTT
65 AAATTATATTTTAACCCTAAAAC-TT
*
16007418 TCCAAAATTACATTTTAACCCTAAAACTTTTCCAAAATTATATTTTAACCCCAAAACTTTTCCAA
1 TCCAAAATTACATTTTAACCCTAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAA
16007483 AATTATATTTTAACCCTAAAACCTT
66 AATTATATTTTAACCCTAAAA-CTT
* * **
16007508 TCCAAAATTACATTTTAA-CCTCAAAACCTTTCCAAAATTATGTTTTGACCCCAAAACTTTTGTA
1 TCCAAAATTACATTTTAACCCT-AAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTT-CC
* *
16007572 AAAATTGTATTTCT-ACCCCAAAACTT
64 AAAATTATATTT-TAACCCTAAAACTT
* * *
16007598 TCAAAAATTACCA-TTTCACCCTCAAACTT
1 TCCAAAATTA-CATTTTAACCCTAAAACTT
16007627 CCTTAAATTC
Statistics
Matches: 189, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
89 3 0.02
90 156 0.83
91 29 0.15
92 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (89 bp):
TCCAAAATTACATTTTAACCCTAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAA
AATTATATTTTAACCCTAAAACTT
Found at i:16010379 original size:20 final size:20
Alignment explanation
Indices: 16010354--16010393 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
16010344 GATGTATTCC
16010354 CGAAAGCAATCCACTATCCT
1 CGAAAGCAATCCACTATCCT
16010374 CGAAAGCAATCCACTATCCT
1 CGAAAGCAATCCACTATCCT
16010394 ATACAGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.10, T:0.20
Consensus pattern (20 bp):
CGAAAGCAATCCACTATCCT
Found at i:16013219 original size:18 final size:18
Alignment explanation
Indices: 16013168--16013219 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
16013158 AACGGCCTCG
* * *
16013168 GGGCAGCAGAAGAGTTTC
1 GGGCAGAAGGAGAGTCTC
*
16013186 GGGCAGAGGGAGAGTCTC
1 GGGCAGAAGGAGAGTCTC
16013204 GGGCA-AAGGAGCAGTC
1 GGGCAGAAGGAG-AGTC
16013220 AATGGTCAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 5 0.18
18 23 0.82
ACGTcount: A:0.27, C:0.17, G:0.44, T:0.12
Consensus pattern (18 bp):
GGGCAGAAGGAGAGTCTC
Found at i:16013492 original size:13 final size:13
Alignment explanation
Indices: 16013474--16013499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16013464 CTTGTAATTG
16013474 GAAGATTTTATTT
1 GAAGATTTTATTT
16013487 GAAGATTTTATTT
1 GAAGATTTTATTT
16013500 TTATTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
GAAGATTTTATTT
Found at i:16013641 original size:13 final size:13
Alignment explanation
Indices: 16013623--16013648 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16013613 TACTTAGTTA
16013623 TCTTAAGAATTTT
1 TCTTAAGAATTTT
16013636 TCTTAAGAATTTT
1 TCTTAAGAATTTT
16013649 GCTTGAGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
TCTTAAGAATTTT
Found at i:16023187 original size:17 final size:18
Alignment explanation
Indices: 16023160--16023196 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16023150 TGACACAAGG
*
16023160 GTTTTTATTTTTATTTTT
1 GTTTTTATTTTTAATTTT
16023178 GTTTTT-TTTTTAATTTT
1 GTTTTTATTTTTAATTTT
16023195 GT
1 GT
16023197 CTAAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (18 bp):
GTTTTTATTTTTAATTTT
Found at i:16027100 original size:27 final size:27
Alignment explanation
Indices: 16027058--16027120 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
16027048 AGGAGTAACT
* * *
16027058 TGATTTTGGCTCGAAAGAACGTTATTC
1 TGATTCTGGCTCGAAAGAACATAATTC
* * *
16027085 TGATTCTGGCTTGAAAGAGCATAATTT
1 TGATTCTGGCTCGAAAGAACATAATTC
16027112 TGATTCTGG
1 TGATTCTGG
16027121 GCTAGTAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (27 bp):
TGATTCTGGCTCGAAAGAACATAATTC
Found at i:16027823 original size:21 final size:21
Alignment explanation
Indices: 16027797--16027849 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
16027787 GTATGTGAAA
16027797 GTATCGGTAGATTGAGTGCTT
1 GTATCGGTAGATTGAGTGCTT
*
16027818 GTATCGGTAGATTGAGTGTTT
1 GTATCGGTAGATTGAGTGCTT
* *
16027839 GCATTGGTAGA
1 GTATCGGTAGA
16027850 AGTTGCAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.21, C:0.08, G:0.34, T:0.38
Consensus pattern (21 bp):
GTATCGGTAGATTGAGTGCTT
Found at i:16031841 original size:27 final size:27
Alignment explanation
Indices: 16031803--16031904 Score: 132
Period size: 27 Copynumber: 3.7 Consensus size: 27
16031793 AGGAGTAATT
* *
16031803 TGATTCTAGCTCGAAAGAGCGTTATTT
1 TGATTCTGGCTCGAAAGAGCGTTATTC
16031830 TGATTCTGGCTCGAAAGAGCGTTATTC
1 TGATTCTGGCTCGAAAGAGCGTTATTC
* * * *
16031857 TGACTCTGGCTTGAAAGAGCATCATTC
1 TGATTCTGGCTCGAAAGAGCGTTATTC
*
16031884 TGATTCTGGGCTCGTAAGAGC
1 TGATTCT-GGCTCGAAAGAGC
16031905 TAACCATTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 54 0.83
28 11 0.17
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (27 bp):
TGATTCTGGCTCGAAAGAGCGTTATTC
Found at i:16043402 original size:23 final size:23
Alignment explanation
Indices: 16043370--16043413 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16043360 ACTACCATTT
16043370 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
16043393 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
16043414 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:16043406 original size:13 final size:11
Alignment explanation
Indices: 16043374--16043416 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
16043364 CCATTTTCTA
*
16043374 AATAAAATAAT
1 AATAAAATATT
16043385 AAT-AAATATCT
1 AATAAAATAT-T
16043396 AAGTAAAATATT
1 AA-TAAAATATT
16043408 AATAAAATA
1 AATAAAATA
16043417 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:16044658 original size:20 final size:20
Alignment explanation
Indices: 16044620--16044658 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16044610 CATCATTAAA
** *
16044620 TTTTAATTACCCCTTTTTAG
1 TTTTAATTAAACCTATTTAG
16044640 TTTTAATTAAACCTATTTA
1 TTTTAATTAAACCTATTTA
16044659 TACTTAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTTAATTAAACCTATTTAG
Found at i:16050479 original size:77 final size:77
Alignment explanation
Indices: 16050392--16050546 Score: 267
Period size: 77 Copynumber: 2.0 Consensus size: 77
16050382 TCATGCTAAC
* * *
16050392 ATAAAGAAACTAATTTACTTATTTTTTGGTAAAAAGATAAAATATAATATAATTCTTAATACAGA
1 ATAAAGAAACTAATTTACTTATTTTTTAGTAAAAAGACAAAATACAATATAATTCTTAATACAGA
16050457 AA-TCTTCATAAT
66 AACT-TTCATAAT
16050469 ATAAAGAAACTAATTTACTTATTTTTTAGTAAAAAGACAAAATACAATATAATTCTTAATACAGA
1 ATAAAGAAACTAATTTACTTATTTTTTAGTAAAAAGACAAAATACAATATAATTCTTAATACAGA
16050534 AACTTTCATAAT
66 AACTTTCATAAT
16050546 A
1 A
16050547 CTTTTATCTT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
77 73 0.99
78 1 0.01
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (77 bp):
ATAAAGAAACTAATTTACTTATTTTTTAGTAAAAAGACAAAATACAATATAATTCTTAATACAGA
AACTTTCATAAT
Found at i:16051777 original size:77 final size:78
Alignment explanation
Indices: 16051650--16051846 Score: 351
Period size: 78 Copynumber: 2.5 Consensus size: 78
16051640 GTTCCATTGG
16051650 GCTTTTAGTTCCTTATTTATTTGAACTTACATTACAGGAAAAAAAGTTTTTAGCGA-CGTTTTTT
1 GCTTTTAGTTCCTTATTTATTTGAACTTACATTACAGGAAAAAAAGTTTTTAGCGACCGTTTTTT
16051714 GGGTCTATACGGC
66 GGGTCTATACGGC
* *
16051727 GCTTTTAGTCCCTTATTTATTTGAACTTACATTACAGGAAAAAAAGTTTTTAGCGACCTTTTTTT
1 GCTTTTAGTTCCTTATTTATTTGAACTTACATTACAGGAAAAAAAGTTTTTAGCGACCGTTTTTT
16051792 GGGTCTATACGGC
66 GGGTCTATACGGC
* *
16051805 GCTTTTAGTTCCTTATTTATTTGAACTCACACTACAGGAAAA
1 GCTTTTAGTTCCTTATTTATTTGAACTTACATTACAGGAAAA
16051847 CAGACTTTTA
Statistics
Matches: 114, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 55 0.48
78 59 0.52
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (78 bp):
GCTTTTAGTTCCTTATTTATTTGAACTTACATTACAGGAAAAAAAGTTTTTAGCGACCGTTTTTT
GGGTCTATACGGC
Found at i:16066703 original size:48 final size:47
Alignment explanation
Indices: 16066566--16066716 Score: 167
Period size: 48 Copynumber: 3.1 Consensus size: 47
16066556 CCGGCATCCC
* * * * * *
16066566 CCACCTCCATCAGACCCCTTTGCACCTCCTCCGCCTAGACCTCCGGCA
1 CCACCTCCACCAGACCCCTTTGCTCCACCACCGCC-AGGCATCCGGCA
* * * * *
16066614 ACACCTCCGCTAGACCCCTTTGCTCCGCCACCGCCAAGGCATCCAGCA
1 CCACCTCCACCAGACCCCTTTGCTCCACCACCGCC-AGGCATCCGGCA
*
16066662 CCACCTCCACCAGACCCCTTTGCTCCACCACCGCCAGGGCATCCGGCT
1 CCACCTCCACCAGACCCCTTTGCTCCACCACCGCCA-GGCATCCGGCA
16066710 CCACCTC
1 CCACCTC
16066717 TGTTTGGGCA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.01
48 84 0.99
ACGTcount: A:0.18, C:0.52, G:0.15, T:0.16
Consensus pattern (47 bp):
CCACCTCCACCAGACCCCTTTGCTCCACCACCGCCAGGCATCCGGCA
Found at i:16073567 original size:3 final size:3
Alignment explanation
Indices: 16073559--16073598 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
16073549 GAGGACCGAG
16073559 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
16073599 TTTAATTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:16078284 original size:21 final size:20
Alignment explanation
Indices: 16078258--16078296 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16078248 TATTTTAAAC
16078258 TTTTTATTATATTTTAATTGA
1 TTTTTATTATA-TTTAATTGA
*
16078279 TTTTTATTTTATTTAATT
1 TTTTTATTATATTTAATT
16078297 CAAATGTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTTATTATATTTAATTGA
Found at i:16082235 original size:17 final size:17
Alignment explanation
Indices: 16082193--16082238 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
16082183 AATTCAATTT
*
16082193 TAATATAAAT-ATTCAA
1 TAATATAAATAACTCAA
16082209 T-ATGATTAAATAACTCAA
1 TAAT-A-TAAATAACTCAA
16082227 TAATATAAATAA
1 TAATATAAATAA
16082239 TATAAATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 2 0.08
16 2 0.08
17 12 0.48
18 7 0.28
19 2 0.08
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (17 bp):
TAATATAAATAACTCAA
Found at i:16082441 original size:19 final size:19
Alignment explanation
Indices: 16082417--16082456 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
16082407 AGGGAGGAAG
* *
16082417 TGGGAGAGAGTAAAAGTTT
1 TGGGAGAAAATAAAAGTTT
16082436 TGGGAGAAAATAAAAGTTT
1 TGGGAGAAAATAAAAGTTT
16082455 TG
1 TG
16082457 AGAGTTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.28
Consensus pattern (19 bp):
TGGGAGAAAATAAAAGTTT
Found at i:16086284 original size:31 final size:31
Alignment explanation
Indices: 16086223--16086284 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
16086213 ACTTTACTAC
* **
16086223 TAGTCACTAAACTATGAGTAAGTTTTCATTT
1 TAGTCACTAAACTATGAGAAAGTTACCATTT
*
16086254 TAGTCACTAAACTATTTA-AAAGTTACCATTT
1 TAGTCACTAAACTA-TGAGAAAGTTACCATTT
16086285 AAACTATTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (31 bp):
TAGTCACTAAACTATGAGAAAGTTACCATTT
Found at i:16086893 original size:31 final size:31
Alignment explanation
Indices: 16086858--16086916 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
16086848 ACTCAGTGAC
* **
16086858 TTAAATAAAAATTTTTGAATAATTTAATGAA
1 TTAAATAAAAACTTTCAAATAATTTAATGAA
*
16086889 TTAAATGAAAACTTTCAAATAATTTAAT
1 TTAAATAAAAACTTTCAAATAATTTAAT
16086917 AACCAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (31 bp):
TTAAATAAAAACTTTCAAATAATTTAATGAA
Found at i:16095934 original size:34 final size:34
Alignment explanation
Indices: 16095890--16095962 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
16095880 GATTCCTTGT
* *
16095890 GTGAAGCATGGCTATGGGTATTCAAAATATTCTG
1 GTGAACCATGGCTATAGGTATTCAAAATATTCTG
* * *
16095924 GTGAACCATGGTTATAGGTGTTCAAAATTTTCTG
1 GTGAACCATGGCTATAGGTATTCAAAATATTCTG
*
16095958 ATGAA
1 GTGAA
16095963 GATGAATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (34 bp):
GTGAACCATGGCTATAGGTATTCAAAATATTCTG
Found at i:16111267 original size:23 final size:22
Alignment explanation
Indices: 16111241--16111284 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
16111231 ATGTGACTTT
*
16111241 AAATATAAATGAAAACATAAAAA
1 AAATATAAAT-AAAAAATAAAAA
* *
16111264 AAATTTATATAAAAAATAAAA
1 AAATATAAATAAAAAATAAAA
16111285 CGGTTTTACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AAATATAAATAAAAAATAAAAA
Found at i:16132568 original size:27 final size:27
Alignment explanation
Indices: 16132527--16132580 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
16132517 CTGACACCAG
16132527 TGGAGGAACACCAAGTGGCGGCACTAA
1 TGGAGGAACACCAAGTGGCGGCACTAA
* *
16132554 TGGAGGAATATCAAGTGGCGGCACTAA
1 TGGAGGAACACCAAGTGGCGGCACTAA
16132581 GGGGTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.33, T:0.15
Consensus pattern (27 bp):
TGGAGGAACACCAAGTGGCGGCACTAA
Found at i:16132770 original size:4 final size:4
Alignment explanation
Indices: 16132757--16132793 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
16132747 AAAATTGAGG
*
16132757 GAAA -AAA GAAA GAAA -AAA GAAA AAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
16132794 GAAGGAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:16132782 original size:19 final size:19
Alignment explanation
Indices: 16132758--16132796 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
16132748 AAATTGAGGG
16132758 AAAAAAGAAAGAAAAAAGA
1 AAAAAAGAAAGAAAAAAGA
*
16132777 AAAAAAGAAAGAAAGAAGA
1 AAAAAAGAAAGAAAAAAGA
16132796 A
1 A
16132797 GGAAGAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAGAAAAAAGA
Found at i:16132830 original size:10 final size:10
Alignment explanation
Indices: 16132786--16132831 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
16132776 AAAAAAAGAA
*
16132786 AGAAAGAAGA
1 AGAAAGAAGG
*
16132796 AGGAAGAAGG
1 AGAAAGAAGG
*
16132806 AG-AATAAGG
1 AGAAAGAAGG
16132815 -GAAAGAAGG
1 AGAAAGAAGG
16132824 AGAAAGAA
1 AGAAAGAA
16132832 AAAAAAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
8 1 0.03
9 12 0.40
10 17 0.57
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (10 bp):
AGAAAGAAGG
Found at i:16133215 original size:20 final size:21
Alignment explanation
Indices: 16133174--16133216 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
16133164 TAATTTACTT
16133174 TAATTTAATTTTGCTAGTTAG
1 TAATTTAATTTTGCTAGTTAG
* *
16133195 TAATTTTATTTTG-TTGTTAG
1 TAATTTAATTTTGCTAGTTAG
16133215 TA
1 TA
16133217 GTAGTAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (21 bp):
TAATTTAATTTTGCTAGTTAG
Found at i:16133291 original size:92 final size:92
Alignment explanation
Indices: 16133180--16133349 Score: 340
Period size: 92 Copynumber: 1.8 Consensus size: 92
16133170 ACTTTAATTT
16133180 AATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATT
1 AATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATT
16133245 TATTGATTTAAAATTTAATAATGTTTA
66 TATTGATTTAAAATTTAATAATGTTTA
16133272 AATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATT
1 AATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATT
16133337 TATTGATTTAAAA
66 TATTGATTTAAAA
16133350 AATAATATAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (92 bp):
AATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATT
TATTGATTTAAAATTTAATAATGTTTA
Found at i:16133587 original size:16 final size:16
Alignment explanation
Indices: 16133542--16133591 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
16133532 TAAACTTAGC
*
16133542 TAATTAATTACCAAAA
1 TAATTAATTATCAAAA
*
16133558 T-A-TAA-TATAAAAAA
1 TAATTAATTAT-CAAAA
16133572 TAATTAATTATCAAAA
1 TAATTAATTATCAAAA
16133588 TAAT
1 TAAT
16133592 ACCCTCATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
13 2 0.07
14 8 0.30
15 2 0.07
16 12 0.44
17 3 0.11
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATTAATTATCAAAA
Found at i:16135468 original size:12 final size:12
Alignment explanation
Indices: 16135453--16135486 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
16135443 CCAGAGTAAC
16135453 AAGAAGAGGAGG
1 AAGAAGAGGAGG
16135465 AAGAAGAGGAGG
1 AAGAAGAGGAGG
*
16135477 AAGAGGAGGA
1 AAGAAGAGGA
16135487 AGAGGCATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (12 bp):
AAGAAGAGGAGG
Found at i:16137573 original size:12 final size:12
Alignment explanation
Indices: 16137556--16137588 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
16137546 TATGTGCAAA
16137556 TGGATTTTCGAC
1 TGGATTTTCGAC
16137568 TGGATTTTCGAC
1 TGGATTTTCGAC
16137580 TGGATTTTC
1 TGGATTTTC
16137589 ATCGTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.45
Consensus pattern (12 bp):
TGGATTTTCGAC
Found at i:16138317 original size:4 final size:4
Alignment explanation
Indices: 16138298--16138364 Score: 64
Period size: 4 Copynumber: 16.5 Consensus size: 4
16138288 ACATTACCTG
* * * *
16138298 TCTT TCCT TC-T TCTT TCTT TCCTC TCCT TCTT TCTT TCTT TCTT TATT
1 TCTT TCTT TCTT TCTT TCTT T-CTT TCTT TCTT TCTT TCTT TCTT TCTT
*
16138346 TCTT TCCTC TCTT TCTT TC
1 TCTT T-CTT TCTT TCTT TC
16138365 CCGTTTATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
3 3 0.06
4 42 0.82
5 6 0.12
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (4 bp):
TCTT
Found at i:16138585 original size:27 final size:27
Alignment explanation
Indices: 16138546--16138597 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
16138536 TTAGTGCCAC
*
16138546 CACTTGATATTCCTCCATTGGTGTCGT
1 CACTTGATATTCCTCCACTGGTGTCGT
* *
16138573 CACTTGGTGTTCCTCCACTGGTGTC
1 CACTTGATATTCCTCCACTGGTGTC
16138598 AGGTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.12, C:0.29, G:0.21, T:0.38
Consensus pattern (27 bp):
CACTTGATATTCCTCCACTGGTGTCGT
Found at i:16140727 original size:16 final size:16
Alignment explanation
Indices: 16140695--16140726 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
16140685 GTGCTTAATT
16140695 AGGACCCAAAAGAAAA
1 AGGACCCAAAAGAAAA
16140711 AGGA-CCAAAAGAAAA
1 AGGACCCAAAAGAAAA
16140726 A
1 A
16140727 AAAAACAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.66, C:0.16, G:0.19, T:0.00
Consensus pattern (16 bp):
AGGACCCAAAAGAAAA
Found at i:16142213 original size:19 final size:20
Alignment explanation
Indices: 16142190--16142236 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
16142180 AAAAAATCAG
16142190 AATTTTTTTAAAAATA-ATT
1 AATTTTTTTAAAAATATATT
* *
16142209 CA-TTTTTTAAAACTATATT
1 AATTTTTTTAAAAATATATT
16142228 AATTTTTTT
1 AATTTTTTT
16142237 TTCTGAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.52
19 5 0.22
20 6 0.26
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTTTTTTAAAAATATATT
Found at i:16143358 original size:15 final size:15
Alignment explanation
Indices: 16143338--16143369 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16143328 ATTTGCCTAT
16143338 TTATTTTTTAAAATA
1 TTATTTTTTAAAATA
*
16143353 TTATTTTTTAATATA
1 TTATTTTTTAAAATA
16143368 TT
1 TT
16143370 GGTGTGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTTTTAAAATA
Found at i:16145037 original size:13 final size:13
Alignment explanation
Indices: 16145003--16145040 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
16144993 ATCGGGTTTT
* *
16145003 AAATAAAAAAATA
1 AAATAAAATATTA
16145016 AAA-AAAATATTA
1 AAATAAAATATTA
16145028 AAATAAAATATTA
1 AAATAAAATATTA
16145041 TATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAATATTA
Found at i:16145046 original size:2 final size:2
Alignment explanation
Indices: 16145035--16145065 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
16145025 TTAAAATAAA
16145035 AT AT -T 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
16145066 TTAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:16150060 original size:32 final size:33
Alignment explanation
Indices: 16150016--16150100 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 33
16150006 TTTTTTAATT
* * *
16150016 TTTATAAAAAATTTATTTTTATATATATTTTG-AC
1 TTTAT-AAAAATTTATTTTTACATAT-TTTAGAAA
*
16150050 TTT-TAAAAATTTATATTTACATATTTTAGAAA
1 TTTATAAAAATTTATTTTTACATATTTTAGAAA
16150082 TTTATAAAAA-TTATTTTTA
1 TTTATAAAAATTTATTTTTA
16150101 AACTTTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 4 0.09
32 30 0.68
33 7 0.16
34 3 0.07
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (33 bp):
TTTATAAAAATTTATTTTTACATATTTTAGAAA
Found at i:16153884 original size:23 final size:23
Alignment explanation
Indices: 16153858--16153937 Score: 92
Period size: 23 Copynumber: 3.4 Consensus size: 23
16153848 AATGATCACG
16153858 AACATGTTCATTCAAC-TTAATCA
1 AACATGTTCA-TCAACATTAATCA
*
16153881 AACATGTTCA-CGAACATTAAACA
1 AACATGTTCATC-AACATTAATCA
**
16153904 AACATGTTCATCAACATATAATTG
1 AACATGTTCATCAACAT-TAATCA
16153928 AACATGTTCA
1 AACATGTTCA
16153938 CGAACAGTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
21 1 0.02
22 3 0.06
23 31 0.63
24 14 0.29
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (23 bp):
AACATGTTCATCAACATTAATCA
Done.