Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 110 of 255
Found at i:34866803 original size:16 final size:16
Alignment explanation
Indices: 34866782--34866812 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34866772 ATCGGCAAAA
34866782 GCCAAAATGCCGAAAT
1 GCCAAAATGCCGAAAT
*
34866798 GCCAAAATGTCGAAA
1 GCCAAAATGCCGAAA
34866813 GTTTGGCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (16 bp):
GCCAAAATGCCGAAAT
Found at i:34867079 original size:29 final size:29
Alignment explanation
Indices: 34867036--34867137 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
34867026 TGAATGTGGC
*
34867036 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
34867065 TGGGCGTAATAGGCCATATACAA-GTGGTT
1 TGGGCCTAATGGGCCATATA-AATGTGATT
* * *
34867094 TGAGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
34867122 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
34867138 GATATAGGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
28 17 0.29
29 40 0.68
30 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:34874167 original size:27 final size:26
Alignment explanation
Indices: 34874123--34874174 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
34874113 CTCGCTGCAA
34874123 TTTGGTGGCCTCGCCACATATATCTGT
1 TTTGGTGGCCTCGCCACA-ATATCTGT
* *
34874150 TTTGGTGGCTTCGTCACAATATCTG
1 TTTGGTGGCCTCGCCACAATATCTG
34874175 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
TTTGGTGGCCTCGCCACAATATCTGT
Found at i:34874242 original size:26 final size:27
Alignment explanation
Indices: 34874213--34874272 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
34874203 CCACATATAT
*
34874213 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
34874239 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
34874266 ATATCTG
1 ATATCTG
34874273 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:34878652 original size:15 final size:15
Alignment explanation
Indices: 34878593--34878672 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
34878583 CAAAGATAAC
*
34878593 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
34878607 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
34878622 GAGAAA-CTCGGAATA
1 AAGAAATC-CAGAATA
*
34878637 AATAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
34878652 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
34878667 AAGAAA
1 AAGAAA
34878673 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
14 10 0.20
15 39 0.76
16 2 0.04
ACGTcount: A:0.57, C:0.12, G:0.17, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:34878681 original size:15 final size:15
Alignment explanation
Indices: 34878604--34878681 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
34878594 AGAAAACCGA
34878604 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
34878619 ATAGAGAAACTCGGA-
1 ATAAAGAAA-TCCAAG
*
34878634 ATAAATAAATCC-AG
1 ATAAAGAAATCCAAG
* *
34878648 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
34878664 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
34878679 ATA
1 ATA
34878682 CGATACTATG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
13 1 0.02
14 2 0.04
15 40 0.85
16 4 0.09
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:34881774 original size:46 final size:45
Alignment explanation
Indices: 34881681--34881766 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
34881671 TACATCTCTC
* * *
34881681 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGAACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
34881727 GAACTCGAACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGAACTCAACTCAACGAGTTCGGAATGCGCAACCAT
34881767 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCGAACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:34884141 original size:53 final size:53
Alignment explanation
Indices: 34883966--34884169 Score: 158
Period size: 53 Copynumber: 3.8 Consensus size: 53
34883956 AGGGTTCTAG
* * * * * * * *
34883966 GATACCAAGTAAGACCATGCTAAGCCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAG-TTCATAAGGCAAA
* * * * * * * *
34884020 GAAATCATGTAAGACCATGTCAAGACAT-GACATTGATAAACTATTATAATGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGA-AATGGT-AAGT-TCATAAGGCAAA
* * * * *
34884075 GATTCCATGTAAGACTATGCCAAGGCATGGAAATGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCATAAGGCAAA
* *
34884128 GATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGTT
34884170 TAAAAAGGAA
Statistics
Matches: 115, Mismatches: 31, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
53 46 0.40
54 30 0.26
55 37 0.32
56 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.24
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCATAAGGCAAA
Found at i:34885402 original size:24 final size:25
Alignment explanation
Indices: 34885365--34885419 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
34885355 AATTTTTTTT
34885365 AAAGT-AAA-TTTTTTATGCCCCAA
1 AAAGTAAAATTTTTTTATGCCCCAA
*
34885388 AAAGTAAAATTTTTTTATGCCCCGA
1 AAAGTAAAATTTTTTTATGCCCCAA
34885413 AAAGTAA
1 AAAGTAA
34885420 GATAAGTCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 5 0.17
24 3 0.10
25 21 0.72
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (25 bp):
AAAGTAAAATTTTTTTATGCCCCAA
Found at i:34885445 original size:22 final size:22
Alignment explanation
Indices: 34885417--34885460 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34885407 CCCCGAAAAG
34885417 TAAGATAAGTCTGGTAACGTCT
1 TAAGATAAGTCTGGTAACGTCT
34885439 TAAGATAAGTCTGGTAACGTCT
1 TAAGATAAGTCTGGTAACGTCT
34885461 CGTGCTCGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (22 bp):
TAAGATAAGTCTGGTAACGTCT
Found at i:34895200 original size:15 final size:15
Alignment explanation
Indices: 34895159--34895190 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34895149 ATTATGAAAG
34895159 ATAGGCTCAAATGGA
1 ATAGGCTCAAATGGA
34895174 ATAGGCTCAAATGGA
1 ATAGGCTCAAATGGA
34895189 AT
1 AT
34895191 GGTTTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (15 bp):
ATAGGCTCAAATGGA
Found at i:34896038 original size:23 final size:21
Alignment explanation
Indices: 34896012--34896068 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 21
34896002 GACACCTGAA
34896012 ATTAAACACATTAAAACAGACAT
1 ATTAAACACATTAAAAC--ACAT
*
34896035 ATTAAACACATTTAAACACAT
1 ATTAAACACATTAAAACACAT
34896056 A--AAACACATTAAA
1 ATTAAACACATTAAA
34896069 CATTTATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 11 0.34
21 5 0.16
23 16 0.50
ACGTcount: A:0.58, C:0.18, G:0.02, T:0.23
Consensus pattern (21 bp):
ATTAAACACATTAAAACACAT
Found at i:34896051 original size:10 final size:10
Alignment explanation
Indices: 34896013--34896070 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 10
34896003 ACACCTGAAA
34896013 TTAAACACAT
1 TTAAACACAT
*
34896023 TAAAACAGACAT
1 TTAAAC--ACAT
34896035 ATTAAACACAT
1 -TTAAACACAT
34896046 TTAAACACA-
1 TTAAACACAT
*
34896055 TAAAACACA-
1 TTAAACACAT
34896064 TTAAACA
1 TTAAACA
34896071 TTTATCTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 14 0.34
10 14 0.34
11 4 0.10
12 4 0.10
13 5 0.12
ACGTcount: A:0.57, C:0.19, G:0.02, T:0.22
Consensus pattern (10 bp):
TTAAACACAT
Found at i:34898299 original size:26 final size:28
Alignment explanation
Indices: 34898247--34898300 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
34898237 TCACAATCTT
*
34898247 TCTCTTTTTCGTTTTCTTTCTCTTTCATG
1 TCTCTTTTTCG-TTTCTTTCTATTTCATG
34898276 TCTCTTTTTC-TTT-TTTCTATTTCAT
1 TCTCTTTTTCGTTTCTTTCTATTTCAT
34898301 TTTCTATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 11 0.46
27 3 0.12
29 10 0.42
ACGTcount: A:0.06, C:0.22, G:0.04, T:0.69
Consensus pattern (28 bp):
TCTCTTTTTCGTTTCTTTCTATTTCATG
Found at i:34898320 original size:36 final size:37
Alignment explanation
Indices: 34898245--34898324 Score: 87
Period size: 36 Copynumber: 2.2 Consensus size: 37
34898235 TCTCACAATC
*
34898245 TTTCTCTTTTTCGTTTTCTTTCTCTTTCATGTCTCTT
1 TTTCTCTTTTTCGTTTTCTTTCTCTATCATGTCTCTT
*
34898282 TTTCT-TTTTTC-TATTTCATTT-TCTATCATTTCT-TT
1 TTTCTCTTTTTCGT-TTTC-TTTCTCTATCATGTCTCTT
*
34898317 TTTTTCTT
1 TTTCTCTT
34898325 CTCTCAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
35 7 0.19
36 22 0.59
37 8 0.22
ACGTcount: A:0.06, C:0.20, G:0.03, T:0.71
Consensus pattern (37 bp):
TTTCTCTTTTTCGTTTTCTTTCTCTATCATGTCTCTT
Found at i:34901350 original size:20 final size:20
Alignment explanation
Indices: 34901337--34901411 Score: 141
Period size: 20 Copynumber: 3.8 Consensus size: 20
34901327 ATGATTGACT
34901337 TGATATGCACATGATATGTA
1 TGATATGCACATGATATGTA
34901357 TGATATGCACATGATATGTA
1 TGATATGCACATGATATGTA
*
34901377 CGATATGCACATGATATGTA
1 TGATATGCACATGATATGTA
34901397 TGATATGCACATGAT
1 TGATATGCACATGAT
34901412 GGATTCATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
TGATATGCACATGATATGTA
Found at i:34901353 original size:11 final size:11
Alignment explanation
Indices: 34901325--34901411 Score: 82
Period size: 9 Copynumber: 8.6 Consensus size: 11
34901315 ATTTTGATAT
34901325 ACATGAT-TG-
1 ACATGATATGC
*
34901334 ACTTGATATGC
1 ACATGATATGC
34901345 ACATGATATG-
1 ACATGATATGC
*
34901355 -TATGATATGC
1 ACATGATATGC
*
34901365 ACATGATATGT
1 ACATGATATGC
34901376 AC--GATATGC
1 ACATGATATGC
34901385 ACATGATATG-
1 ACATGATATGC
*
34901395 -TATGATATGC
1 ACATGATATGC
34901405 ACATGAT
1 ACATGAT
34901412 GGATTCATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
9 30 0.48
10 2 0.03
11 30 0.48
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:34909448 original size:11 final size:10
Alignment explanation
Indices: 34909417--34909469 Score: 58
Period size: 9 Copynumber: 5.4 Consensus size: 10
34909407 CATGGGATTT
34909417 TGATAT-ACA
1 TGATATGACA
34909426 TGAT-TGACA
1 TGATATGACA
34909435 TGATATGCACA
1 TGATATG-ACA
*
34909446 TGATATG-TA
1 TGATATGACA
34909455 TGATATGCACA
1 TGATATG-ACA
34909466 TGAT
1 TGAT
34909470 GTATTCATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 1 0.03
9 19 0.51
10 2 0.05
11 15 0.41
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (10 bp):
TGATATGACA
Found at i:34909448 original size:20 final size:20
Alignment explanation
Indices: 34909423--34909469 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
34909413 ATTTTGATAT
34909423 ACATGAT-TGACATGATATGC
1 ACATGATATG-CATGATATGC
*
34909443 ACATGATATGTATGATATGC
1 ACATGATATGCATGATATGC
34909463 ACATGAT
1 ACATGAT
34909470 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:34909548 original size:26 final size:26
Alignment explanation
Indices: 34909519--34909591 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
34909509 GAGGAAGTGC
34909519 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
34909545 AAAAGGGCTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
34909571 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
34909592 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:34916815 original size:24 final size:24
Alignment explanation
Indices: 34916770--34916815 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
34916760 GCTAATTGAG
* *
34916770 TGCCGATTTTGTTTCTAGCTTTGC
1 TGCCGATTTTCTTTCTAACTTTGC
34916794 TGCCGA-TTTCTTTCTCAACTTT
1 TGCCGATTTTCTTTCT-AACTTT
34916816 TTGGGTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.11, C:0.24, G:0.15, T:0.50
Consensus pattern (24 bp):
TGCCGATTTTCTTTCTAACTTTGC
Found at i:34925209 original size:19 final size:19
Alignment explanation
Indices: 34925175--34925218 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
34925165 GAAACAATAT
*
34925175 TGGGCCATTCTGGGTCGAA
1 TGGGCCATTCTGGGTCCAA
*
34925194 CTGGGCCA-TGTGGGTCCAA
1 -TGGGCCATTCTGGGTCCAA
34925213 TGGGCC
1 TGGGCC
34925219 TGTAGGCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.14, C:0.25, G:0.39, T:0.23
Consensus pattern (19 bp):
TGGGCCATTCTGGGTCCAA
Found at i:34928335 original size:37 final size:37
Alignment explanation
Indices: 34928274--34928493 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
34928264 TACGTATGAT
* *
34928274 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
34928309 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
34928346 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
34928383 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
34928420 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
34928457 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
34928494 TAAAGCTATC
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 9 0.05
36 3 0.02
37 163 0.93
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:34928536 original size:52 final size:52
Alignment explanation
Indices: 34928457--34928823 Score: 452
Period size: 52 Copynumber: 7.2 Consensus size: 52
34928447 TAAGTGTAGC
* * **
34928457 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCACT-TGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
34928510 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
34928562 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
34928608 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
34928660 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* * * *
34928706 CACTTTCCATTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
34928758 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
34928810 CACTTTGTCACTTG
1 CACTTT-TCACTTG
34928824 ATCAGAAGTA
Statistics
Matches: 275, Mismatches: 26, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
46 83 0.30
49 1 0.00
52 175 0.64
53 16 0.06
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:34928598 original size:98 final size:98
Alignment explanation
Indices: 34928457--34928815 Score: 502
Period size: 98 Copynumber: 3.6 Consensus size: 98
34928447 TAAGTGTAGC
* * * * *
34928457 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
34928522 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
34928555 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
** *
34928620 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
34928653 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCATTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
*
34928718 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * *
34928751 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTT
34928816 GTCACTTGAT
Statistics
Matches: 234, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
98 190 0.81
100 1 0.00
104 43 0.18
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:34928824 original size:150 final size:144
Alignment explanation
Indices: 34928464--34928829 Score: 579
Period size: 150 Copynumber: 2.5 Consensus size: 144
34928454 AGCCACTTAT
* *
34928464 CACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTT
1 CACT-TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCACTT
*
34928529 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCG
59 GATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCG
34928594 AAGCTATTACTTATCACTTTC
124 AAGCTATTACTTATCACTTTC
34928615 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
*
34928680 TAAGTATAGCCGAAGCTATTACTTATCACTTTCCATTTGTCACTTGATCAGATAAGTATAGCCGA
66 TAAGTATAGCCGAAGCTATCACTTATCA-----C-TTTGTCACTTGATCAGATAAGTATAGCCGA
34928745 AGCTATTACTTATCACTTTC
125 AGCTATTACTTATCACTTTC
34928765 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
34928830 AGTACTCAAA
Statistics
Matches: 205, Mismatches: 4, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
144 42 0.20
147 1 0.00
149 1 0.00
150 157 0.77
151 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (144 bp):
CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
TAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
TACTTATCACTTTC
Found at i:34932010 original size:49 final size:50
Alignment explanation
Indices: 34931955--34932158 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
34931945 TTCGTTTTCT
* *
34931955 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACACAATCACATAC
* *
34932004 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACACAATCACATAC
* *
34932053 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G----A-A-ATCACACA-ATCACATAC
* * *
34932111 CGATGGCATAGCCCAGCTATGGTCTTACACGAAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACACAATCACAT
34932159 GTTCACATGT
Statistics
Matches: 137, Mismatches: 9, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
53 1 0.01
54 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 38 0.28
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACACAATCACATAC
Found at i:34932125 original size:58 final size:59
Alignment explanation
Indices: 34932039--34932157 Score: 213
Period size: 58 Copynumber: 2.0 Consensus size: 59
34932029 TACACGAAAT
*
34932039 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATAATCA
*
34932097 CACATATCACTTACCGATGGCATAGCCCAGCTATGGTCTTACACGAAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATAATCA
34932156 CA
1 CA
34932158 TGTTCACATG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 52 0.90
59 6 0.10
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATAATCA
Found at i:34932138 original size:28 final size:28
Alignment explanation
Indices: 34932048--34932138 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 28
34932038 TCACATATCA
*
34932048 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGACATAGCCCAGCTATGGT
* * * **
34932076 CTTACACGGAATCACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGACATAGCCCAGC-TATGGT
*
34932106 CTTACCGATGGCATAGCCCAGCTATGGT
1 CTTACCGATGACATAGCCCAGCTATGGT
34932134 CTTAC
1 CTTAC
34932139 ACGAAATCAC
Statistics
Matches: 45, Mismatches: 12, Indels: 12
0.65 0.17 0.17
Matches are distributed among these distances:
27 12 0.27
28 12 0.27
29 2 0.04
30 7 0.16
31 12 0.27
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (28 bp):
CTTACCGATGACATAGCCCAGCTATGGT
Found at i:34933475 original size:37 final size:37
Alignment explanation
Indices: 34933410--34933629 Score: 363
Period size: 37 Copynumber: 6.0 Consensus size: 37
34933400 TACGTATGAT
* * *
34933410 CACTTATCAC-TTG-TCCCTGATCAAATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
34933445 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
34933482 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
34933519 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
34933556 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
34933593 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
34933630 TAAAGCTATC
Statistics
Matches: 174, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
35 9 0.05
36 3 0.02
37 162 0.93
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:34933672 original size:52 final size:52
Alignment explanation
Indices: 34933593--34933809 Score: 277
Period size: 52 Copynumber: 4.2 Consensus size: 52
34933583 TAAGTGTAGC
* *
34933593 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCACT-TGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
*
34933646 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAG-TCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCT-AAAGCTATCACTTAT
* ** *
34933698 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
* *
34933744 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
34933796 CACTTTGTCACTTG
1 CACTTT-TCACTTG
34933810 ATCAGAAGTA
Statistics
Matches: 142, Mismatches: 13, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
46 41 0.29
49 1 0.01
51 1 0.01
52 83 0.58
53 16 0.11
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
Found at i:34933715 original size:46 final size:45
Alignment explanation
Indices: 34933643--34933815 Score: 213
Period size: 46 Copynumber: 3.7 Consensus size: 45
34933633 AGCTATCACT
*
34933643 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGTCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG-CGAAGC
*
34933688 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG-CGAAGC
* *
34933734 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGC-GAAGC
*
34933786 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
34933816 AGTACTCAAA
Statistics
Matches: 112, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
45 12 0.11
46 58 0.52
48 1 0.01
50 1 0.01
51 1 0.01
52 39 0.35
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (45 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCGAAGC
Found at i:34933734 original size:98 final size:98
Alignment explanation
Indices: 34933592--34933815 Score: 351
Period size: 98 Copynumber: 2.3 Consensus size: 98
34933582 ATAAGTGTAG
* * * * *
34933592 CCACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
34933657 TGTCACTTGATCAGATAAGTGTAG-TCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCT-AAAGCTA
* * *
34933690 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
34933755 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
34933788 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
34933816 AGTACTCAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
98 114 0.99
99 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
Found at i:34940360 original size:18 final size:18
Alignment explanation
Indices: 34940324--34940368 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
34940314 AGTAAATATG
* *
34940324 TATTAAATTATATTTATT
1 TATTAAAATATATTAATT
*
34940342 TATTAAAATATGTTAATT
1 TATTAAAATATATTAATT
*
34940360 TAATAAAAT
1 TATTAAAAT
34940369 TAATAATAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TATTAAAATATATTAATT
Found at i:34941322 original size:40 final size:42
Alignment explanation
Indices: 34941266--34941378 Score: 153
Period size: 40 Copynumber: 2.8 Consensus size: 42
34941256 AGTGCCCCAG
34941266 TTTGTACTTCGGTACCCCTGAATGCACATCTGT-TCCCT-TA
1 TTTGTACTTCGGTACCCCTGAATGCACATCTGTATCCCTCTA
** * *
34941306 TTTGTACTTCAATACCCCTGAATGCACAT-T-TATGCCTCTG
1 TTTGTACTTCGGTACCCCTGAATGCACATCTGTATCCCTCTA
*
34941346 TTTGTACTTCGGTACCCCTGAAGGCACATCTGT
1 TTTGTACTTCGGTACCCCTGAATGCACATCTGT
34941379 GCCCCTAATC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.02
39 5 0.08
40 54 0.87
41 1 0.02
42 1 0.02
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.36
Consensus pattern (42 bp):
TTTGTACTTCGGTACCCCTGAATGCACATCTGTATCCCTCTA
Found at i:34943487 original size:45 final size:45
Alignment explanation
Indices: 34943431--34943518 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
34943421 GAACTATGTG
* *
34943431 ATCTGAACTCATTAAATTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTAAACTCATTAAATAGTGGTCTGAGTTCATGATATATGTGAC
* * *
34943476 ATCTAAACTCATTGAGTAGTGGTCTGAGTTCATGATGTATGTG
1 ATCTAAACTCATTAAATAGTGGTCTGAGTTCATGATATATGTG
34943519 GCACATGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (45 bp):
ATCTAAACTCATTAAATAGTGGTCTGAGTTCATGATATATGTGAC
Found at i:34946702 original size:24 final size:24
Alignment explanation
Indices: 34946670--34946739 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 24
34946660 AGGAATATAA
34946670 TCGGACTCAACTCAATGAGTGAAC
1 TCGGACTCAACTCAATGAGTGAAC
*
34946694 TCGGACTCAACTCACCCATAAGTGAAC
1 TCGGACTCAACTCA---ATGAGTGAAC
34946721 TCGGACTCAACTCAATGAG
1 TCGGACTCAACTCAATGAG
34946740 CTCGGGTGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 18 0.44
27 23 0.56
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.20
Consensus pattern (24 bp):
TCGGACTCAACTCAATGAGTGAAC
Found at i:34948075 original size:13 final size:13
Alignment explanation
Indices: 34948057--34948081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34948047 GCCCGAACGT
34948057 CAAAATTTTCAAA
1 CAAAATTTTCAAA
34948070 CAAAATTTTCAA
1 CAAAATTTTCAA
34948082 GAAATTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
CAAAATTTTCAAA
Found at i:34953017 original size:58 final size:58
Alignment explanation
Indices: 34952927--34953041 Score: 230
Period size: 58 Copynumber: 2.0 Consensus size: 58
34952917 TTTTCAAAGA
34952927 AGTACAGGTCACACGCCCTTGTAAACAGGTCGTGTGCCTTACACGACATTAGACACGT
1 AGTACAGGTCACACGCCCTTGTAAACAGGTCGTGTGCCTTACACGACATTAGACACGT
34952985 AGTACAGGTCACACGCCCTTGTAAACAGGTCGTGTGCCTTACACGACATTAGACACG
1 AGTACAGGTCACACGCCCTTGTAAACAGGTCGTGTGCCTTACACGACATTAGACACG
34953042 CCCGCGTGTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (58 bp):
AGTACAGGTCACACGCCCTTGTAAACAGGTCGTGTGCCTTACACGACATTAGACACGT
Found at i:34954142 original size:43 final size:42
Alignment explanation
Indices: 34954083--34954200 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 42
34954073 AACATATACA
* * *
34954083 ATGCCAACGTCACAGACGTGGTCTTACATGTAATCAAACATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACA-CG
* * * *
34954126 ATGCCATTGTCCCAGACAG-GGTCTTACATGAAATCAGATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAACACG
* * *
34954168 ATGCCAATGTCCAAGACATGGTCTTACACGTAA
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAA
34954201 AACAGAATTA
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
42 28 0.46
43 32 0.52
44 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACACG
Found at i:34954185 original size:42 final size:43
Alignment explanation
Indices: 34954102--34954195 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 43
34954092 TCACAGACGT
* * * *
34954102 GGTCTTACATGTAATCAAACATTGATGCCATTGTCCCAGACAG
1 GGTCTTACATGAAATCAAACATCGATGCCAATGTCCAAGACAG
* * *
34954145 GGTCTTACATGAAATCAGATA-CGATGCCAATGTCCAAGACAT
1 GGTCTTACATGAAATCAAACATCGATGCCAATGTCCAAGACAG
34954187 GGTCTTACA
1 GGTCTTACA
34954196 CGTAAAACAG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 26 0.59
43 18 0.41
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGAAATCAAACATCGATGCCAATGTCCAAGACAG
Found at i:34960388 original size:34 final size:34
Alignment explanation
Indices: 34960304--34960389 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 34
34960294 GTATCAGTTA
*
34960304 GGCCTTAGCCTAATTTAGTAACAGTAGTAGTCTG
1 GGCCTTAGCCTATTTTAGTAACAGTAGTAGTCTG
* * * *
34960338 CGCCTGAGCCCATTTTAGTAACAGTGGTAGTCTG
1 GGCCTTAGCCTATTTTAGTAACAGTAGTAGTCTG
*
34960372 GGCCTTAGCCTTTTTTAG
1 GGCCTTAGCCTATTTTAG
34960390 CATAGTATGC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (34 bp):
GGCCTTAGCCTATTTTAGTAACAGTAGTAGTCTG
Found at i:34963128 original size:12 final size:12
Alignment explanation
Indices: 34963111--34963137 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
34963101 ATTCCGAAGT
34963111 ATATATATATAC
1 ATATATATATAC
34963123 ATATATATATAC
1 ATATATATATAC
34963135 ATA
1 ATA
34963138 AGTATGCCAT
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:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:34963653 original size:27 final size:27
Alignment explanation
Indices: 34963622--34963799 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34963612 TAAATTGTAC
34963622 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34963649 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34963675 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34963703 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34963731 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34963758 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34963785 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34963800 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34963736 original size:82 final size:81
Alignment explanation
Indices: 34963623--34963778 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34963613 AAATTGTACA
* *
34963623 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34963687 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34963704 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34963769 TGCGAGTTGA
65 TGCGAATTGA
34963779 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34963790 original size:82 final size:81
Alignment explanation
Indices: 34963619--34963799 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34963609 GATTAAATTG
* *
34963619 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34963684 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34963700 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34963764 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34963782 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34963800 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34972599 original size:39 final size:40
Alignment explanation
Indices: 34972392--34972597 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
34972382 GGACTAAGAT
* * *
34972392 CCGAAGGCATTTGTGAGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * ** *
34972432 CCGAAGGCATTTATGCTAGCGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
34972472 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
34972512 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
34972552 CCGAAGGTATTTGAGCGAG-TAGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTC
34972591 CCGAAGG
1 CCGAAGG
34972598 TACTTGGTTT
Statistics
Matches: 147, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 17 0.12
40 130 0.88
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:34991749 original size:25 final size:25
Alignment explanation
Indices: 34991720--34991767 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34991710 TTATAAGATG
** *
34991720 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
34991745 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
34991768 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:34991855 original size:18 final size:19
Alignment explanation
Indices: 34991818--34991855 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
34991808 GATTTGATAC
34991818 GATATGCACATGTTATGTAT
1 GATATGCACATG-TATGTAT
34991838 GATATGCACATG-ATGTAT
1 GATATGCACATGTATGTAT
34991856 TCATTTATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (19 bp):
GATATGCACATGTATGTAT
Found at i:34991966 original size:26 final size:25
Alignment explanation
Indices: 34991897--34991992 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
34991887 GGAGGAGTGC
* *
34991897 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
34991922 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
34991947 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAGTTTACCG
34991973 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
34991993 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
25 43 0.65
26 23 0.35
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:34991977 original size:51 final size:50
Alignment explanation
Indices: 34991897--34991992 Score: 147
Period size: 51 Copynumber: 1.9 Consensus size: 50
34991887 GGAGGAGTGC
* *
34991897 AAAAGGGCTATGCCCTAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
* *
34991947 AAAAGGGCTTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGC-TATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTT
34991993 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 8 0.20
51 33 0.80
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:34992250 original size:31 final size:31
Alignment explanation
Indices: 34992212--34992295 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
34992202 TTGTTACAGT
34992212 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
34992243 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
34992274 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
34992296 CTGAGATTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:34993710 original size:27 final size:27
Alignment explanation
Indices: 34993651--34994028 Score: 300
Period size: 27 Copynumber: 14.0 Consensus size: 27
34993641 AAGACCCTGG
* *
34993651 TTTGTAAAATTACCAAAATACCCCTCGA
1 TTTGTAAAATTACCGAAATACCCCT-AA
* * **
34993679 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTGTAAAATTACCGAAATACCCCTAA
* *
34993706 TTTGTAAAA-TACTGAAATA-CCCTTA
1 TTTGTAAAATTACCGAAATACCCCTAA
* * *
34993731 TAGTGTAAAATTATCGAAATACCCAC-AG
1 T-TTGTAAAATTACCGAAATACCC-CTAA
*
34993759 TTTGTAAAATTACCAAAATA-CCCTAGA
1 TTTGTAAAATTACCGAAATACCCCTA-A
** *
34993786 TTTGTAAAATTATTGAAATACCCCTAG
1 TTTGTAAAATTACCGAAATACCCCTAA
* ** * *
34993813 TTTATAAAATTATTGAAATACCCCCAG
1 TTTGTAAAATTACCGAAATACCCCTAA
* *
34993840 TTTGTAAATTTATCGAAATA-CCCTCAA
1 TTTGTAAAATTACCGAAATACCCCT-AA
* **
34993867 TTTTTAAAATTACCGAAATACCCCCGA
1 TTTGTAAAATTACCGAAATACCCCTAA
** **
34993894 TTTGTAAAATTATTGAAATATCCCCCGA
1 TTTGTAAAATTACCGAAATA-CCCCTAA
** *
34993922 TTTGTAAAATTATTGAGATACCCCTAA
1 TTTGTAAAATTACCGAAATACCCCTAA
*
34993949 TTTGTAAAATTACTGAAATACCCCTAA
1 TTTGTAAAATTACCGAAATACCCCTAA
* * **
34993976 TTTTTAAAATTACCAAAATA-CCCTTG
1 TTTGTAAAATTACCGAAATACCCCTAA
* *
34994002 TATTGTAAAATTATCAAAATACCCCTA
1 T-TTGTAAAATTACCGAAATACCCCTA
34994029 TAGGGTAAAA
Statistics
Matches: 290, Mismatches: 48, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
25 5 0.02
26 26 0.09
27 193 0.67
28 65 0.22
29 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCCTAA
Found at i:34993727 original size:54 final size:55
Alignment explanation
Indices: 34993645--34994028 Score: 337
Period size: 54 Copynumber: 7.1 Consensus size: 55
34993635 GTTGTAAAGA
* * * *
34993645 CCCTGGTTTGTAAAATTACCAAAATACCCCTCGATTTGTAAAATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCGAAATACCCCTCGATTTGTAAAATTATCGAAATAC
* * * * *
34993700 CCTTGGTTTGTAAAA-TACTGAAATA-CCCT-TATAGTGTAAAATTATCGAAATAC
1 CCCTAGTTTGTAAAATTACCGAAATACCCCTCGAT-TTGTAAAATTATCGAAATAC
* * *
34993753 CCAC-AGTTTGTAAAATTACCAAAATA-CCCTAGATTTGTAAAATTATTGAAATAC
1 CC-CTAGTTTGTAAAATTACCGAAATACCCCTCGATTTGTAAAATTATCGAAATAC
* ** *
34993807 CCCTAGTTTATAAAATTATTGAAATACCCC-C-AGTTTGTAAATTTATCGAAATA-
1 CCCTAGTTTGTAAAATTACCGAAATACCCCTCGA-TTTGTAAAATTATCGAAATAC
* * *
34993860 CCCTCAATTTTTAAAATTACCGAAATACCCC-CGATTTGTAAAATTATTGAAATATC
1 CCCT-AGTTTGTAAAATTACCGAAATACCCCTCGATTTGTAAAATTATCGAAATA-C
* ** * *
34993916 CCC-CGATTTGTAAAATTATTGAGATACCCCT-AATTTGTAAAATTA-CTGAAATAC
1 CCCTAG-TTTGTAAAATTACCGAAATACCCCTCGATTTGTAAAATTATC-GAAATAC
* * * * *
34993970 CCCTAATTTTTAAAATTACCAAAATA-CCCTTG-TATTGTAAAATTATCAAAATAC
1 CCCTAGTTTGTAAAATTACCGAAATACCCCTCGAT-TTGTAAAATTATCGAAATAC
34994024 CCCTA
1 CCCTA
34994029 TAGGGTAAAA
Statistics
Matches: 267, Mismatches: 44, Indels: 37
0.77 0.13 0.11
Matches are distributed among these distances:
52 2 0.01
53 44 0.16
54 158 0.59
55 60 0.22
56 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (55 bp):
CCCTAGTTTGTAAAATTACCGAAATACCCCTCGATTTGTAAAATTATCGAAATAC
Found at i:34993821 original size:81 final size:79
Alignment explanation
Indices: 34993645--34994025 Score: 363
Period size: 81 Copynumber: 4.7 Consensus size: 79
34993635 GTTGTAAAGA
* * * * * **
34993645 CCCTGGTTTGTAAAATTACCAAAATACCCCTCGATTTGTAAAATTACCAAAATACCCTTGGTTTG
1 CCCTAGTTTGTAAAATTATCGAAATACCCC-AG-TTTGTAAAATTATCAAAATACCC-TAATTTG
34993710 TAAAA-TACTGAAATAC
63 TAAAATTACTGAAATAC
* * *
34993726 CCTTA-TAGTGTAAAATTATCGAAATACCCACAGTTTGTAAAATTACCAAAATACCCTAGATTTG
1 CCCTAGT-TTGTAAAATTATCGAAATACCC-CAGTTTGTAAAATTATCAAAATACCCTA-ATTTG
*
34993790 TAAAATTATTGAAATAC
63 TAAAATTACTGAAATAC
* * * * *
34993807 CCCTAGTTTATAAAATTATTGAAATACCCCCAGTTTGTAAATTTATCGAAATACCCTCAATTTTT
1 CCCTAGTTTGTAAAATTATCGAAATA-CCCCAGTTTGTAAAATTATCAAAATACCCT-AATTTGT
*
34993872 AAAATTACCGAAATAC
64 AAAATTACTGAAATAC
* * * ** *
34993888 CCC-CGATTTGTAAAATTATTGAAATATCCCCCGATTTGTAAAATTATTGAGATACCCCTAATTT
1 CCCTAG-TTTGTAAAATTATCGAAATA-CCCCAG-TTTGTAAAATTATCAAAATA-CCCTAATTT
34993952 GTAAAATTACTGAAATAC
62 GTAAAATTACTGAAATAC
* * * * **
34993970 CCCTAATTTTTAAAATTACCAAAATACCCTTGTATTGTAAAATTATCAAAATACCC
1 CCCTAGTTTGTAAAATTATCGAAATACCCCAGT-TTGTAAAATTATCAAAATACCC
34994026 CTATAGGGTA
Statistics
Matches: 249, Mismatches: 39, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
79 1 0.00
80 38 0.15
81 143 0.57
82 63 0.25
83 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (79 bp):
CCCTAGTTTGTAAAATTATCGAAATACCCCAGTTTGTAAAATTATCAAAATACCCTAATTTGTAA
AATTACTGAAATAC
Found at i:34994036 original size:27 final size:27
Alignment explanation
Indices: 34993980--34994038 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
34993970 CCCTAATTTT
* * **
34993980 TAAAATTACCAAAATACCCTTGTATTG
1 TAAAATTACCAAAATACCCCTATAGGG
*
34994007 TAAAATTATCAAAATACCCCTATAGGG
1 TAAAATTACCAAAATACCCCTATAGGG
34994034 TAAAA
1 TAAAA
34994039 CGATTGTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTATAGGG
Found at i:34996047 original size:52 final size:52
Alignment explanation
Indices: 34995953--34996152 Score: 147
Period size: 52 Copynumber: 3.8 Consensus size: 52
34995943 TTCTAAACTT
* **
34995953 ACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGACTC
1 ACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGACTC
* * * *
34996005 ACCATTGCCATGCCTTGGCATGGTCTTACATGAG-ATCTTTGCCTTATCGTAGTTT
1 ACCATTGCCATGCCTTGACATGGTCTTACATG-GTATCCTTGCCTTAT-G-A-CTC
* * * * * * ** *
34996060 ATCAATGCCATGTCTTGACTTGGTCTTACATGATTTCC-TGCCTTGTAAAACTT
1 ACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCC-T-TATGACTC
*
34996113 ACCAATT-CCATGCCTT-AGCATGGTCTTACTTGGTATCCTT
1 ACC-ATTGCCATGCCTTGA-CATGGTCTTACATGGTATCCTT
34996153 AAACCCTAAT
Statistics
Matches: 113, Mismatches: 25, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
52 41 0.36
53 30 0.27
54 9 0.08
55 31 0.27
56 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (52 bp):
ACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGACTC
Found at i:34999537 original size:42 final size:43
Alignment explanation
Indices: 34999480--34999583 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
34999470 CATCGACTTA
* *
34999480 TGATTTACATGTAAGACCATGTTTGAGACATCGACATC-GTATT
1 TGATTT-CATGTAAGACCATGTCTGAGACATCGACATCAATATT
* * * * *
34999523 TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCAATATT
1 TGATTTCATGTAAGACCATGTCTGAGACATCGACATCAATATT
*
34999566 TGATTACATGTAAGACCA
1 TGATTTCATGTAAGACCA
34999584 CATCTGGGAC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGTCTGAGACATCGACATCAATATT
Found at i:34999566 original size:43 final size:43
Alignment explanation
Indices: 34999440--34999601 Score: 123
Period size: 43 Copynumber: 3.8 Consensus size: 43
34999430 CGATATGTGT
* * * ** * *
34999440 TTTCGTGTAGGACCCCGTCTGGGATGTTGGCATCGACT-TATGA
1 TTTCATGTAAGACCCTGTCTGGGACATTGGCATC-AATATTTGA
* * * * * *
34999483 TTTACATGTAAGACCATGTTTGAGACATCGACATC-GTATTTGA
1 TTT-CATGTAAGACCCTGTCTGGGACATTGGCATCAATATTTGA
*
34999526 TTTCGTGTAAGACCCTGTCTGGGACATTGGCATCAATATTTGA
1 TTTCATGTAAGACCCTGTCTGGGACATTGGCATCAATATTTGA
* * *
34999569 TTACATGTAAGACCAC-ATCTGGGACGTTGGCAT
1 TTTCATGTAAGACC-CTGTCTGGGACATTGGCAT
34999602 TGTATGAGCT
Statistics
Matches: 92, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
42 26 0.28
43 44 0.48
44 22 0.24
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
TTTCATGTAAGACCCTGTCTGGGACATTGGCATCAATATTTGA
Found at i:35008498 original size:14 final size:14
Alignment explanation
Indices: 35008479--35008509 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
35008469 ATTTAGTAGG
35008479 ATTTGAATTTAATT
1 ATTTGAATTTAATT
35008493 ATTTGAATTTAATT
1 ATTTGAATTTAATT
35008507 ATT
1 ATT
35008510 AATTGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (14 bp):
ATTTGAATTTAATT
Found at i:35012797 original size:20 final size:20
Alignment explanation
Indices: 35012759--35012797 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35012749 ACATGCACTT
* * *
35012759 ATAAAATTATATTATAATAC
1 ATAAAATAATACTAAAATAC
35012779 ATAAAATAATACTAAAATA
1 ATAAAATAATACTAAAATA
35012798 ATTTTATCTG
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:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAATAATACTAAAATAC
Found at i:35015719 original size:27 final size:27
Alignment explanation
Indices: 35015689--35015772 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
35015679 AGCATGGCTG
35015689 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
35015716 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
35015743 CCAGATCAGATAATTATGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
35015770 CCA
1 CCA
35015773 AGACGATTCC
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 2 0.04
27 48 0.92
28 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:35015921 original size:26 final size:27
Alignment explanation
Indices: 35015879--35015951 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
35015869 AAAGTAACCT
* * *
35015879 TAGGGGTATAAT-GGTAATTT-TACACC
1 TAGGGGTAT-ATCAGTAATTTCCACACA
*
35015905 TAGGGGTATATCAGTAATTTCCATACA
1 TAGGGGTATATCAGTAATTTCCACACA
35015932 TAGGGGTAT-TCAAGTAATTT
1 TAGGGGTATATC-AGTAATTT
35015952 AACTATTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.05
26 18 0.45
27 20 0.50
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.36
Consensus pattern (27 bp):
TAGGGGTATATCAGTAATTTCCACACA
Found at i:35021608 original size:47 final size:46
Alignment explanation
Indices: 35021488--35021759 Score: 167
Period size: 47 Copynumber: 5.8 Consensus size: 46
35021478 GAATTGACTG
* *
35021488 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGA
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCAAGA
* * * *
35021534 -CAAGGATCCCGTGTAAGACCATGTCAAGACATGGCATCGGCATTGA
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCA-AGA
** ** * *
35021580 TTAAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGTACTGAGA
1 TTAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATCGG--C-AAGA
* *** * * *
35021629 -CAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGA
1 TTAAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TCGGCAAGA
* ** * *
35021676 -CAAGGATACCATGTAAGACCATGTTTAGAACATGGCATTTGGTAAGA
1 TTAAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TCGGCAAGA
* * * **
35021723 -TAAAGATATCATGTAAGACCATGCCAAGGTATGGCAT
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCAT
35021760 TGGTGAGTTC
Statistics
Matches: 181, Mismatches: 36, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
45 38 0.21
46 8 0.04
47 102 0.56
48 21 0.12
49 8 0.04
50 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (46 bp):
TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCAAGA
Found at i:35021688 original size:95 final size:92
Alignment explanation
Indices: 35021490--35021750 Score: 231
Period size: 95 Copynumber: 2.8 Consensus size: 92
35021480 ATTGACTGTT
** * *
35021490 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCCCGTGTAAGACCA
1 AAGGATACCATGTAAGACCACATCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAGACCA
* * *
35021555 TGTCAAGACATGGCATCGGCATTGATT
66 TGTCAAGACATGACATCGGCATAGATC
**
35021582 AAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGTACTGAGACAAGGATACCATGTAAG
1 AAGGA-TACCATGTAAGACCACATCAAGACATGGCATTGGTA---AGACAAGGATACCATGTAAG
*** * *
35021646 ACCATGTTTGGAACATGACATTTGGTA-AGA-C
62 ACCATGTCAAG-ACATGACA-TCGGCATAGATC
** ** * * *
35021677 AAGGATACCATGTAAGACCATGTTTAGAACATGGCATTTGGTAAGATAAAGATATCATGTAAGAC
1 AAGGATACCATGTAAGACCACATCAAG-ACATGGCA-TTGGTAAGACAAGGATACCATGTAAGAC
*
35021742 CATGCCAAG
64 CATGTCAAG
35021751 GTATGGCATT
Statistics
Matches: 133, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
92 35 0.26
93 1 0.01
94 25 0.19
95 47 0.35
96 15 0.11
97 10 0.08
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (92 bp):
AAGGATACCATGTAAGACCACATCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAGACCA
TGTCAAGACATGACATCGGCATAGATC
Found at i:35021758 original size:142 final size:140
Alignment explanation
Indices: 35021490--35021819 Score: 333
Period size: 142 Copynumber: 2.3 Consensus size: 140
35021480 ATTGACTGTT
* * *
35021490 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCCCGTGTAAGACCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGTAAGACAAGGATACCATGTAAGACCA
* * * *
35021555 TGTCAAGACATGGCATCGGCATTGATTAAGGACTCCATGTAAGACCACATCAAGATGTGGCATTG
66 TGTCAAGACATGGCATCGGCATAGATTAAAGACTCCATGTAAGACCACACCAAGATATGGCATTG
35021620 GTACTGAGAC
131 GTACTGAGAC
***
35021630 AAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGACAAGGATACCATGTAAGAC
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGACA-TTGGTAAGACAAGGATACCATGTAAGAC
** * * * ** *
35021695 CATGTTTAGAACATGGCATTTGGTA-AGA-TAAAGA-TATCATGTAAGACCATGCCAAGGTATGG
64 CATGTCAAG-ACATGGCA-TCGGCATAGATTAAAGACT-CCATGTAAGACCACACCAAGATATGG
* *
35021757 CATTGGTGAGTTCATAAGGC
126 CATTGGT-A---C-TGAGAC
* * * *
35021777 AAGGATACCACGTAAGAACATGTCAAGACATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGTAAG
35021820 TTCAAAAAGG
Statistics
Matches: 153, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
140 24 0.16
141 8 0.05
142 65 0.42
143 11 0.07
144 4 0.03
145 7 0.05
146 8 0.05
147 26 0.17
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (140 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGTAAGACAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATCGGCATAGATTAAAGACTCCATGTAAGACCACACCAAGATATGGCATTG
GTACTGAGAC
Found at i:35030866 original size:30 final size:30
Alignment explanation
Indices: 35030810--35030866 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
35030800 TTTCGAGCCA
**
35030810 AGGGACAAAATGGTCATTTTGTCAAAGTCT
1 AGGGACAAAATGGTCATTTTACCAAAGTCT
* *
35030840 AGGGGCAAAATGGTCGTTTTACCAAAG
1 AGGGACAAAATGGTCATTTTACCAAAG
35030867 ATATGAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.26
Consensus pattern (30 bp):
AGGGACAAAATGGTCATTTTACCAAAGTCT
Found at i:35031314 original size:46 final size:45
Alignment explanation
Indices: 35031204--35031419 Score: 167
Period size: 46 Copynumber: 4.7 Consensus size: 45
35031194 ACACTTGTGT
* * * *
35031204 GAGCTAGTGTAAGACATGT-TGGGTCATGCATCGACCA-GATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-AGCATGA-GATGA
* *
35031249 GAGCCAATGTAAGACCATGT-TGGGATATGACATCAGCATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCAGCA-TGAGATGA
* * * * *
35031296 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCAT-GAGATGA
*
35031341 GAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-T-AGA-GA
1 G-AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATGAGATGA
* *
35031384 TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
35031420 GGCACAGATA
Statistics
Matches: 143, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.01
43 14 0.10
44 15 0.10
45 20 0.14
46 64 0.45
47 27 0.19
48 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATGAGATGA
Found at i:35031347 original size:93 final size:91
Alignment explanation
Indices: 35031206--35031428 Score: 242
Period size: 93 Copynumber: 2.4 Consensus size: 91
35031196 ACTTGTGTGA
* * * *
35031206 GCTAGTGTAAGACATGT-TGGGTCATGCATCGACCAGATTATGAGAGCCAATGTAAGACCATGT-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATGAGGAGAGCCAATGTAAGA-CATGTC
* *
35031269 TGGGATATGACATCAGCATTGAGATGAGT
65 TGGGACATG-CATCAGC-TAGAGATGAGT
* *
35031298 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGGA-AGCCAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-AGATGA-GGAGAGCCAATGTAAGACATGT
* *
35031361 CTGGGACATGCATCGGCTAGAGATGTGT
64 CTGGGACATGCATCAGCTAGAGATGAGT
35031389 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CAGAT
35031429 ATGCTAGAAC
Statistics
Matches: 112, Mismatches: 11, Indels: 16
0.81 0.08 0.12
Matches are distributed among these distances:
89 9 0.08
90 15 0.13
91 19 0.17
92 29 0.26
93 36 0.32
94 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (91 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATGAGGAGAGCCAATGTAAGACATGTCT
GGGACATGCATCAGCTAGAGATGAGT
Found at i:35032453 original size:13 final size:13
Alignment explanation
Indices: 35032435--35032459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35032425 TGGGCATGTG
35032435 AGGGACACGGGCC
1 AGGGACACGGGCC
35032448 AGGGACACGGGC
1 AGGGACACGGGC
35032460 GTTTGCCAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:35040257 original size:43 final size:43
Alignment explanation
Indices: 35040209--35040294 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
35040199 ATCACATGTA
* * *
35040209 TCGCATCCATTATGAACTATGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTAGGACCACTCAACAAGCTCGGATGC
* *
35040252 TCGCATGCATAATGAACTCGGACCACTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTAGGACCACTCAACAAGCTCGGATGC
35040295 CACATATATC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (43 bp):
TCGCATCCATAATGAACTAGGACCACTCAACAAGCTCGGATGC
Found at i:35050580 original size:48 final size:47
Alignment explanation
Indices: 35050509--35050775 Score: 198
Period size: 48 Copynumber: 5.6 Consensus size: 47
35050499 TAAAGTACCA
* * **
35050509 ATGCCATGT-TCTCGACATGGTCTTACAT-GAATCCACATATCATTGTTG
1 ATGCCATGTCCCT-GACATGGTCTTACATAGCA--CACATATCATCATTG
*
35050557 ATGCCATGTCCCTGACATGGTCTTACACTAGCACAGATATCATCATTG
1 ATGCCATGTCCCTGACATGGTCTTACA-TAGCACACATATCATCATTG
** * * * *
35050605 ATGCCATGTCCCAAACTTGGTCTTACATTGGCACATATATCATCACTG
1 ATGCCATGTCCCTGACATGGTCTTACA-TAGCACACATATCATCATTG
* * * * ***
35050653 ATGCCATGTCTCAT-ACATGGTCTTACACTGGCACATATATAATCGCCG
1 ATGCCATGTC-CCTGACATGGTCTTACA-TAGCACACATATCATCATTG
* * * * * ***
35050701 ATGCCATGTCCCAGACATGGTCTTACATTGGCACATATATAACCGCCG
1 ATGCCATGTCCCTGACATGGTCTTACA-TAGCACACATATCATCATTG
*
35050749 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCTGACATGGTCTTACA
35050776 CAGGCACATT
Statistics
Matches: 191, Mismatches: 23, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
47 1 0.01
48 184 0.96
49 4 0.02
50 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (47 bp):
ATGCCATGTCCCTGACATGGTCTTACATAGCACACATATCATCATTG
Found at i:35050782 original size:48 final size:48
Alignment explanation
Indices: 35050556--35050784 Score: 296
Period size: 48 Copynumber: 4.8 Consensus size: 48
35050546 TATCATTGTT
* * * * **
35050556 GATGCCATGTCCCTGACATGGTCTTACACTAGCACAGATATCATCATT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATAATCACC
* * * * *
35050604 GATGCCATGTCCCAAACTTGGTCTTACATTGGCACATATATCATCACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATAATCACC
* * *
35050652 GATGCCATGTCTCATACATGGTCTTACACTGGCACATATATAATCGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATAATCACC
* * *
35050700 GATGCCATGTCCCAGACATGGTCTTACATTGGCACATATATAACCGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATAATCACC
*
35050748 GATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACAT
35050785 TTAGCATGGT
Statistics
Matches: 161, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 161 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATAATCACC
Found at i:35056118 original size:23 final size:26
Alignment explanation
Indices: 35056062--35056115 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
35056052 TCGAGGTAAG
35056062 TTTTTATGTAAATAATATATCAATTA
1 TTTTTATGTAAATAATATATCAATTA
* *
35056088 TTTTTATGT-AATTATATTTC-ATTA
1 TTTTTATGTAAATAATATATCAATTA
35056112 TTTT
1 TTTT
35056116 ATGAGATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 8 0.31
25 9 0.35
26 9 0.35
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
TTTTTATGTAAATAATATATCAATTA
Found at i:35056281 original size:12 final size:14
Alignment explanation
Indices: 35056266--35056297 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
35056256 GTGAGAACAC
35056266 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
35056278 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
35056292 ATGTGT
1 ATGTGT
35056298 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:35056343 original size:50 final size:51
Alignment explanation
Indices: 35056267--35056494 Score: 206
Period size: 50 Copynumber: 4.5 Consensus size: 51
35056257 TGAGAACACA
* * *
35056267 TGTGTAGTACTATGTGTAGGCTACTATGTGT-TTAAGATGGTTTTAGGTCAC
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAA-ATGGTTTTAGGTCAC
* * ** * *
35056318 -GTGTAGTACTAAGTGCAGGCTACTATGCGTGTCCGAAA---ACTTCGATCAC
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAT-C-AAATGGTTTTAGGTCAC
* *
35056367 GTGTGTAGTACTAAGTCCAAGCTACTATGTGTATCAAATGG--TTAGGTCAC
1 -TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAATGGTTTTAGGTCAC
* * *
35056417 GTGTATAGTACTAAGTGCAGGCTACTAAGTGTACCAAAT--TTTT-GGTCAC
1 -TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAATGGTTTTAGGTCAC
35056466 ATGTGTAGTACTAAGTGCAGGCTACTATG
1 -TGTGTAGTACTAAGTGCAGGCTACTATG
35056495 CTTACCAGAT
Statistics
Matches: 145, Mismatches: 22, Indels: 22
0.77 0.12 0.12
Matches are distributed among these distances:
49 42 0.29
50 71 0.49
51 29 0.20
52 1 0.01
53 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAATGGTTTTAGGTCAC
Found at i:35056494 original size:99 final size:99
Alignment explanation
Indices: 35056263--35056494 Score: 283
Period size: 101 Copynumber: 2.3 Consensus size: 99
35056253 ATTGTGAGAA
* * *
35056263 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTTCAAGATGG-TTTAGGTCACGTGTAGTACT
*
35056328 AAGTGCAGGCTACTATGCGTGTCCGAAAACTTCGAT
65 AAGTGCAGGCTACTA-GAGTGTCCGAAAACTTCGAT
* * *
35056364 CACGTGTGTAGTACTAAGTCCAAGCTACTATGTGTATCAA-ATGG-TTAGGTCACGTGTATAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGT-TCAAGATGGTTTAGGTCACGTG--TAGTA
** * *
35056427 CTAAGTGCAGGCTACTA-AGTGTACC-AAATTTTTGGT
63 CTAAGTGCAGGCTACTAGAGTGT-CCGAAAACTTCGAT
35056463 CACATGTGTAGTACTAAGTGCAGGCTACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
35056495 CTTACCAGAT
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
99 52 0.46
100 2 0.02
101 56 0.50
102 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (99 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTTCAAGATGGTTTAGGTCACGTGTAGTACTA
AGTGCAGGCTACTAGAGTGTCCGAAAACTTCGAT
Found at i:35059130 original size:15 final size:15
Alignment explanation
Indices: 35059110--35059139 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35059100 ACCCGAGTGT
35059110 CAGCATTGTGGTAAG
1 CAGCATTGTGGTAAG
35059125 CAGCATTGTGGTAAG
1 CAGCATTGTGGTAAG
35059140 TGTTGGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (15 bp):
CAGCATTGTGGTAAG
Found at i:35065855 original size:18 final size:18
Alignment explanation
Indices: 35065832--35065876 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
35065822 ATGTATTCAT
35065832 ATTCATATAATCCATGTA
1 ATTCATATAATCCATGTA
* *
35065850 ATTCATGTAATTCATGTA
1 ATTCATATAATCCATGTA
*
35065868 AGTCATATA
1 ATTCATATA
35065877 GCTCTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (18 bp):
ATTCATATAATCCATGTA
Found at i:35065856 original size:9 final size:9
Alignment explanation
Indices: 35065832--35065873 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
35065822 ATGTATTCAT
*
35065832 ATTCATATA
1 ATTCATGTA
*
35065841 ATCCATGTA
1 ATTCATGTA
35065850 ATTCATGTA
1 ATTCATGTA
35065859 ATTCATGTA
1 ATTCATGTA
*
35065868 AGTCAT
1 ATTCAT
35065874 ATAGCTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (9 bp):
ATTCATGTA
Found at i:35066104 original size:23 final size:22
Alignment explanation
Indices: 35066056--35066187 Score: 76
Period size: 23 Copynumber: 5.8 Consensus size: 22
35066046 TGATAAATGG
* *
35066056 TAAGCTCCAAAGAGCTAAACGA
1 TAAGCTCTATAGAGCTAAACGA
*
35066078 TAAGCTCTGTAGAGCTGAAAC-A
1 TAAGCTCTATAGAGCT-AAACGA
* *
35066100 GTAAGCTCCAAAGAGCTGAAACGA
1 -TAAGCTCTATAGAGCT-AAACGA
*
35066124 TAAGCT-TTTACGAGCTAAATC-A
1 TAAGCTCTATA-GAGCTAAA-CGA
* *
35066146 GTAAGCTCTA-ATGAGCTAAAATGG
1 -TAAGCTCTATA-GAGCT-AAACGA
35066170 TAAGCTC-ATATGAGCTAA
1 TAAGCTCTATA-GAGCTAA
35066188 TGTGAGTCCG
Statistics
Matches: 87, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
22 22 0.25
23 60 0.69
24 5 0.06
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (22 bp):
TAAGCTCTATAGAGCTAAACGA
Found at i:35066175 original size:46 final size:45
Alignment explanation
Indices: 35066055--35066165 Score: 154
Period size: 46 Copynumber: 2.4 Consensus size: 45
35066045 CTGATAAATG
35066055 GTAAGCTCCAAAGAGCTAAACGATAAGCTCTGTAGAGCTGAAACA
1 GTAAGCTCCAAAGAGCTAAACGATAAGCTCTGTAGAGCTGAAACA
*
35066100 GTAAGCTCCAAAGAGCTGAAACGATAAGCT-TTTACGAGCT-AAATCA
1 GTAAGCTCCAAAGAGCT-AAACGATAAGCTCTGTA-GAGCTGAAA-CA
* *
35066146 GTAAGCTCTAATGAGCTAAA
1 GTAAGCTCCAAAGAGCTAAA
35066166 ATGGTAAGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
45 26 0.43
46 34 0.57
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (45 bp):
GTAAGCTCCAAAGAGCTAAACGATAAGCTCTGTAGAGCTGAAACA
Found at i:35066185 original size:46 final size:43
Alignment explanation
Indices: 35066055--35066187 Score: 140
Period size: 46 Copynumber: 2.9 Consensus size: 43
35066045 CTGATAAATG
*
35066055 GTAAGCTCCAAAGAGCTAAACGATAAGCTCTGTAGAGCTGAAACA
1 GTAAGCTCCAAAGAGCTAAACGATAAGCTCTAT-GAGCT-AAACA
* *
35066100 GTAAGCTCCAAAGAGCTGAAACGATAAGCTTTTACGAGCTAAATCA
1 GTAAGCTCCAAAGAGCT-AAACGATAAGC-TCTATGAGCTAAA-CA
* * * *
35066146 GTAAGCTCTAATGAGCTAAAATGGTAAGCTCATATGAGCTAA
1 GTAAGCTCCAAAGAGCT-AAACGATAAGCTC-TATGAGCTAA
35066188 TGTGAGTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
45 21 0.28
46 51 0.69
47 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (43 bp):
GTAAGCTCCAAAGAGCTAAACGATAAGCTCTATGAGCTAAACA
Found at i:35070215 original size:33 final size:32
Alignment explanation
Indices: 35070178--35070241 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
35070168 CAATATTAGT
35070178 ACAGTCAAGGCCTTAGCCCTAAACAGTAACAGA
1 ACAGTCAAGGCCTTAGCCCTAAACA-TAACAGA
* * * *
35070211 ACAGTCTAGGCTTTAGTCCTATACATAACAG
1 ACAGTCAAGGCCTTAGCCCTAAACATAACAG
35070242 TGTGGGCCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 6 0.22
33 21 0.78
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (32 bp):
ACAGTCAAGGCCTTAGCCCTAAACATAACAGA
Found at i:35072024 original size:47 final size:47
Alignment explanation
Indices: 35071951--35072450 Score: 777
Period size: 47 Copynumber: 10.6 Consensus size: 47
35071941 CCCTTCGGGA
* * * * *
35071951 CTTATCACATTTATACACTTTCACATTCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35071997 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35072045 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35072092 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35072139 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35072188 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35072235 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35072282 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
35072329 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35072378 CTTATCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35072425 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
35072451 CACAATTATC
Statistics
Matches: 418, Mismatches: 30, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
46 2 0.00
47 326 0.78
48 2 0.00
49 88 0.21
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35072207 original size:143 final size:141
Alignment explanation
Indices: 35071951--35072450 Score: 777
Period size: 143 Copynumber: 3.5 Consensus size: 141
35071941 CCCTTCGGGA
* * * * * *
35071951 CTTATCACATTTATACACTTTCACATTCATCACGTTGGCCACTCGG-CTCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATACA
*
35072015 CTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACAT
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
35072080 CGGCTATTAGGC
130 CGGCCATTAGGC
35072092 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
35072157 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
35072222 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
35072235 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
35072300 TTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* * *
35072365 TTGGCCATTCGGT
129 TCGGCCATTAGGC
* *
35072378 CTTATCACATATATACACTTTCACATTCATTACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
35072443 ATTCACAT
66 TTTCACAT
35072451 CACAATTATC
Statistics
Matches: 330, Mismatches: 24, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
141 90 0.27
142 2 0.01
143 238 0.72
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:35072285 original size:190 final size:189
Alignment explanation
Indices: 35071951--35072450 Score: 887
Period size: 190 Copynumber: 2.6 Consensus size: 189
35071941 CCCTTCGGGA
* * *
35071951 CTTATCACAT-T-TATACACTTTCACATTCATCACGTTGGCCACTCGGCTCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCT-TATCACATATATAC
35072014 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
35072079 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
130 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35072139 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGG-CTTATCACATATATAC
35072204 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
*
35072269 TCGGCTATTAGGCCTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
130 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35072329 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGTCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGG-CTTATCACATATATAC
* * * *
35072394 ACTTTCACATTCATTACATCGGCCATTAGGCCTTATCACATATATATACATTCACAT
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACAT
35072451 CACAATTATC
Statistics
Matches: 300, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
188 10 0.03
189 1 0.00
190 287 0.96
191 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (189 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACAT
CGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35075102 original size:27 final size:25
Alignment explanation
Indices: 35075060--35075138 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 25
35075050 GGGCTGTCAC
35075060 AATGTGGCA-AGCCACCAGTATCAGT
1 AATGTGGCATAGCCACCAGTA-CAGT
35075085 AATTGTGGCATAGCCACCAGTAACAGT
1 AA-TGTGGCATAGCCACCAGT-ACAGT
*
35075112 GAATGTGGCATAGTCACCAGTACAGT
1 -AATGTGGCATAGCCACCAGTACAGT
35075138 A
1 A
35075139 CTTCCTCCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
25 3 0.06
26 12 0.24
27 31 0.63
28 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (25 bp):
AATGTGGCATAGCCACCAGTACAGT
Found at i:35075342 original size:26 final size:26
Alignment explanation
Indices: 35075307--35075363 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
35075297 GACGATCATT
35075307 TTTTACCCTACAGAGGTATTA-AGTCA
1 TTTTACCCTACAG-GGTATTACAGTCA
*
35075333 TTTTACCCTACAGGGTATTACGGTCA
1 TTTTACCCTACAGGGTATTACAGTCA
35075359 TTTTA
1 TTTTA
35075364 GAAATCTGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (26 bp):
TTTTACCCTACAGGGTATTACAGTCA
Found at i:35075388 original size:27 final size:27
Alignment explanation
Indices: 35075358--35075476 Score: 132
Period size: 27 Copynumber: 4.4 Consensus size: 27
35075348 TATTACGGTC
* * *
35075358 ATTTTAGAAATCTGAGGTATTTTAGTA
1 ATTTTACAAATCAGAGGTATTTCAGTA
* * *
35075385 ATTTCACAAATCAGGGGTATTTCAATA
1 ATTTTACAAATCAGAGGTATTTCAGTA
*
35075412 ATTTTACAAATCAGGGGTATTTC-GATA
1 ATTTTACAAATCAGAGGTATTTCAG-TA
* * *
35075439 ATTTCACAAATTAGAGGTATTTCGGTA
1 ATTTTACAAATCAGAGGTATTTCAGTA
35075466 ATTTTACAAAT
1 ATTTTACAAAT
35075477 ACGGGTCTTA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
27 77 0.99
28 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
ATTTTACAAATCAGAGGTATTTCAGTA
Found at i:35075403 original size:54 final size:54
Alignment explanation
Indices: 35075345--35075476 Score: 158
Period size: 54 Copynumber: 2.4 Consensus size: 54
35075335 TTACCCTACA
* * * *
35075345 GGGTATTACGGTCATTTTAGAAATCTGAGGTATTTTAG-TAATTTCACAAATCAG
1 GGGTATTTCGGTAATTTTACAAATCAGAGGTA-TTTAGATAATTTCACAAATCAG
** * * *
35075399 GGGTATTTCAATAATTTTACAAATCAGGGGTATTTCGATAATTTCACAAATTAG
1 GGGTATTTCGGTAATTTTACAAATCAGAGGTATTTAGATAATTTCACAAATCAG
*
35075453 AGGTATTTCGGTAATTTTACAAAT
1 GGGTATTTCGGTAATTTTACAAAT
35075477 ACGGGTCTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 4 0.06
54 61 0.94
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAATCAGAGGTATTTAGATAATTTCACAAATCAG
Found at i:35075711 original size:17 final size:18
Alignment explanation
Indices: 35075689--35075724 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
35075679 TTTATCCGTA
*
35075689 TGGGCCCAC-GAGCCCAT
1 TGGGCCCACACAGCCCAT
35075706 TGGGCCCACACAGCCCAT
1 TGGGCCCACACAGCCCAT
35075724 T
1 T
35075725 TCGACTCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.42, G:0.25, T:0.14
Consensus pattern (18 bp):
TGGGCCCACACAGCCCAT
Found at i:35079729 original size:33 final size:33
Alignment explanation
Indices: 35079692--35079775 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
35079682 TCTAGGCTAA
* * * * *
35079692 AGCCCTATCCAATATCAGTACAGTCTGGGCCTT
1 AGCCCTATACAATAACAGAACAGTCCGAGCCTT
* *
35079725 AGCCCTAAACAATAACAGAACAGTCCGAGCTTT
1 AGCCCTATACAATAACAGAACAGTCCGAGCCTT
*
35079758 AGCCCTATACAGTAACAG
1 AGCCCTATACAATAACAG
35079776 TGTGGGCCTA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (33 bp):
AGCCCTATACAATAACAGAACAGTCCGAGCCTT
Found at i:35080013 original size:27 final size:27
Alignment explanation
Indices: 35079928--35080045 Score: 81
Period size: 27 Copynumber: 4.5 Consensus size: 27
35079918 CAGCAAAGCT
* *
35079928 ACCAGTAAT-AATAATGCT-GCATAGCT
1 ACCAGTAATCAGTAATG-TGGCATAGCC
* * *
35079954 GCCAG-AAACAGTAAATGTGGTA-AGCC
1 ACCAGTAATCAGT-AATGTGGCATAGCC
35079980 ACCAGT-ATCAGTAATTGTGGCATAGCC
1 ACCAGTAATCAGTAA-TGTGGCATAGCC
* *
35080007 ACCAGTAAT-AGTGAATGTGACATAGTC
1 ACCAGTAATCAGT-AATGTGGCATAGCC
35080034 ACCAG-AA-CAGTA
1 ACCAGTAATCAGTA
35080046 CTTCCTCCAT
Statistics
Matches: 73, Mismatches: 10, Indels: 19
0.72 0.10 0.19
Matches are distributed among these distances:
25 5 0.07
26 30 0.41
27 34 0.47
28 4 0.05
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22
Consensus pattern (27 bp):
ACCAGTAATCAGTAATGTGGCATAGCC
Found at i:35080231 original size:29 final size:29
Alignment explanation
Indices: 35080185--35080271 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 29
35080175 CATAATCGTC
* * *
35080185 TTTTTACCATACAAGGGTATTACGGTCAT
1 TTTTTACCCTATAGGGGTATTACGGTCAT
35080214 TTTTTACCCTATAGGGGTATTA-GGTCA-
1 TTTTTACCCTATAGGGGTATTACGGTCAT
*
35080241 -TTTTACCCTATAGGGGTATTACGGTTAT
1 TTTTTACCCTATAGGGGTATTACGGTCAT
35080269 TTT
1 TTT
35080272 ACAAATCGAG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
26 21 0.41
27 4 0.08
28 5 0.10
29 21 0.41
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.43
Consensus pattern (29 bp):
TTTTTACCCTATAGGGGTATTACGGTCAT
Found at i:35080297 original size:27 final size:27
Alignment explanation
Indices: 35080267--35080438 Score: 179
Period size: 27 Copynumber: 6.4 Consensus size: 27
35080257 TATTACGGTT
* *
35080267 ATTTTACAAATCGAGCGTATTTTGATA
1 ATTTTACAAATCGAGGGTATTTCGATA
*
35080294 ATTTTACAAAT-TAGGGGTATTTCGATA
1 ATTTTACAAATCGA-GGGTATTTCGATA
* * *
35080321 ATTTCACAAATC-AGGGGTATTTTGGTA
1 ATTTTACAAATCGA-GGGTATTTCGATA
*
35080348 ATTTTACAAATCGAGGGTATTTCAATA
1 ATTTTACAAATCGAGGGTATTTCGATA
* *
35080375 ATTTCACAAAT-TAGGGATATTTCGATA
1 ATTTTACAAATCGAGGG-TATTTCGATA
* * *
35080402 ATTTTACAAATCGTGAGTATTTTGATA
1 ATTTTACAAATCGAGGGTATTTCGATA
*
35080429 GTTTTACAAA
1 ATTTTACAAA
35080439 ACGGGGTCTT
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
26 5 0.04
27 113 0.93
28 3 0.02
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
ATTTTACAAATCGAGGGTATTTCGATA
Found at i:35080354 original size:81 final size:81
Alignment explanation
Indices: 35080252--35080438 Score: 250
Period size: 81 Copynumber: 2.3 Consensus size: 81
35080242 TTTACCCTAT
** * ** * *
35080252 AGGGGTATTACGGTTATTTTACAAATCGAGCGTATTTTGATAATTTTACAAATTAGGGGTATTTC
1 AGGGGTATTTTGGTAATTTTACAAATCGAGCGTATTTCAATAATTTCACAAATTAGGGATATTTC
35080317 GATAATTTCACAAATC
66 GATAATTTCACAAATC
*
35080333 AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAAATTAGGGATATTTC
1 AGGGGTATTTTGGTAATTTTACAAATCGAGCGTATTTCAATAATTTCACAAATTAGGGATATTTC
*
35080398 GATAATTTTACAAATC
66 GATAATTTCACAAATC
* * *
35080414 -GTGAGTATTTTGATAGTTTTACAAA
1 AG-GGGTATTTTGGTAATTTTACAAA
35080439 ACGGGGTCTT
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 92 0.99
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATCGAGCGTATTTCAATAATTTCACAAATTAGGGATATTTC
GATAATTTCACAAATC
Found at i:35082252 original size:26 final size:27
Alignment explanation
Indices: 35082223--35082273 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
35082213 TCAACCTTAA
*
35082223 TCCTAGGGGTATATCAGT-AATTTTAC
1 TCCTAGGGGTAAATCAGTAAATTTTAC
*
35082249 TCCTAGGGGTAAATCTGTAAATTTT
1 TCCTAGGGGTAAATCAGTAAATTTT
35082274 TCGCCTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (27 bp):
TCCTAGGGGTAAATCAGTAAATTTTAC
Found at i:35082280 original size:27 final size:26
Alignment explanation
Indices: 35082224--35082280 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
35082214 CAACCTTAAT
* *
35082224 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACG
* *
35082250 CCTAGGGGTAAATCTGTAAATTTTTCG
1 CCTAGGGGTAAATCAGT-AATTTTACG
35082277 CCTA
1 CCTA
35082281 TCAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACG
Found at i:35084579 original size:19 final size:18
Alignment explanation
Indices: 35084542--35084585 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
35084532 ATACATACAG
35084542 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
35084559 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
35084578 TACTAATT
1 TAATAATT
35084586 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:35087819 original size:30 final size:30
Alignment explanation
Indices: 35087785--35087845 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
35087775 TTACCAAGCC
35087785 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
35087815 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
35087845 T
1 T
35087846 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:35088717 original size:51 final size:50
Alignment explanation
Indices: 35088660--35088849 Score: 267
Period size: 51 Copynumber: 3.8 Consensus size: 50
35088650 CTAGGTCGCA
35088660 TGTGTAGTACTAAGTGCAGGCTACTATGCGTAGCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCGATAACTTCGATCACG
* *
35088711 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACGTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCGATAACTTCGATCACG
* * * * *
35088762 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATAACTTCGATCACG
35088811 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATA
35088850 GTTTGGCGAC
Statistics
Matches: 125, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
49 39 0.31
50 3 0.02
51 83 0.66
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGATAACTTCGATCACG
Found at i:35088834 original size:100 final size:102
Alignment explanation
Indices: 35088660--35088849 Score: 296
Period size: 100 Copynumber: 1.9 Consensus size: 102
35088650 CTAGGTCGCA
* *
35088660 TGTGTAGTACTAAGTGCAGGCTACTATGCGTAGCCGATAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTAGCCGATAACTTCGATCACATGTGTAGTACTAAG
*
35088725 TGCAGGCTACTATGCGTACCCGATAACGTCGATCATG
66 TGCAGGCTACTATGCGTACCAGATAACGTCGATCATG
* * *
35088762 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGGATAA-TT-GGTCGCATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTAGCC-GATAACTTCGATCACATGTGTAGTACTAA
35088824 GTGCAGGCTACTATGCGTACCAGATA
65 GTGCAGGCTACTATGCGTACCAGATA
35088850 GTTTGGCGAC
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
100 42 0.52
101 4 0.05
102 35 0.43
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (102 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTAGCCGATAACTTCGATCACATGTGTAGTACTAAG
TGCAGGCTACTATGCGTACCAGATAACGTCGATCATG
Found at i:35093831 original size:13 final size:13
Alignment explanation
Indices: 35093813--35093839 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35093803 CTAAGCTAGG
35093813 TAAATTAAATGAT
1 TAAATTAAATGAT
35093826 TAAATTAAATGAT
1 TAAATTAAATGAT
35093839 T
1 T
35093840 GTGGCTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
TAAATTAAATGAT
Found at i:35095200 original size:39 final size:39
Alignment explanation
Indices: 35094925--35095182 Score: 408
Period size: 39 Copynumber: 6.6 Consensus size: 39
35094915 CATGGAATTT
35094925 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* *
35094964 GAAATATATCCGGACATGAGGTCTGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
*
35095003 GAAATATATCTGGACATGAAGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* * * *
35095042 GAAATATATCTGGACATGAGGTACGCATGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
35095081 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* * * *
35095120 GGAATATATCCGGACATGAGGTCCACAGGCTAGATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
*
35095159 GAAATATATCCGGACTTGAAGTCC
1 GAAATATATCCGGACATGAAGTCC
35095183 ACAAGCCACG
Statistics
Matches: 200, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 200 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
Found at i:35102919 original size:39 final size:39
Alignment explanation
Indices: 35102876--35103121 Score: 393
Period size: 39 Copynumber: 6.3 Consensus size: 39
35102866 CATGGTATTT
* **
35102876 GAAATATATCCAGACATGAGGTCTACAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
35102915 GAAATATATCCGGACATGAGGTCCCCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
35102954 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
35102993 GAAATATATCTGGACAAGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
35103032 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* * *
35103071 GGAATATATTCGGACATGAGGTCCGCAGGCTATATACTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
35103110 GAAATATATCCG
1 GAAATATATCCG
35103122 AACTTGAAGT
Statistics
Matches: 190, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 190 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
Found at i:35103148 original size:117 final size:117
Alignment explanation
Indices: 35102909--35103151 Score: 342
Period size: 117 Copynumber: 2.1 Consensus size: 117
35102899 TACAGGCTAT
*
35102909 ATGCTGGAAATATATCCGGACATGAGGTCCCCAGGCTATATGCTGGAAATATATCCGGACATGAA
1 ATGCTGGAAATATATCCGGACATGAAGTCCCCAGGCTATATGCTGGAAATATATCCGGACATGAA
* * * * * * *
35102974 GTCCGCAGGCTATATGCTGGAAATATATCTGGACAAGAGGTCCGCAGGCTAT
66 GTCCGCAGGCTATATACTGGAAATATATCCGAACAAGAAGTCCGCAAGCCAC
* * * *
35103026 ATGCTGGAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGGGAATATATTCGGACATGAG
1 ATGCTGGAAATATATCCGGACATGAAGTCCCCAGGCTATATGCTGGAAATATATCCGGACATGAA
** *
35103091 GTCCGCAGGCTATATACTGGAAATATATCCGAACTTGAAGTTCGCAAGCCAC
66 GTCCGCAGGCTATATACTGGAAATATATCCGAACAAGAAGTCCGCAAGCCAC
*
35103143 GTGCTGGAA
1 ATGCTGGAA
35103152 TGGTATATGG
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
117 110 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (117 bp):
ATGCTGGAAATATATCCGGACATGAAGTCCCCAGGCTATATGCTGGAAATATATCCGGACATGAA
GTCCGCAGGCTATATACTGGAAATATATCCGAACAAGAAGTCCGCAAGCCAC
Found at i:35105704 original size:30 final size:30
Alignment explanation
Indices: 35105670--35105726 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
35105660 TTCCCGAGCC
35105670 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
35105700 TAGGGGCAAAATTGTAATTTTGCAAAA
1 TAGGGGCAAAAGTGTAAATATGCAAAA
35105727 TTTTGAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:35106514 original size:67 final size:64
Alignment explanation
Indices: 35106395--35106544 Score: 160
Period size: 67 Copynumber: 2.3 Consensus size: 64
35106385 AGACAGATAG
* * * *
35106395 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGTGTACAAGAGAGCTAC--GACA-
35106460 TA
63 TA
* * * **
35106462 TGATGTAGCTAGGTCGCATGGGTGAT-CTAGGTGTACACCATGTAG-ACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGT-GTACAAGAGAGCTACGACAT
35106525 A
64 A
35106526 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCGCATG
35106545 TGTAGTACTA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
63 18 0.25
64 3 0.04
65 2 0.03
67 28 0.39
68 21 0.29
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGTGTACAAGAGAGCTACGACATA
Found at i:35106598 original size:51 final size:50
Alignment explanation
Indices: 35106543--35106782 Score: 313
Period size: 51 Copynumber: 4.8 Consensus size: 50
35106533 CTAGGTCGCA
*
35106543 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TTCGATCACG
*
35106594 TGTGTAGTACTAAGTGCAGGCTACTATGCGTAGCC-GATAACTTCAATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCAGATAA-TTCGATCACG
* * * *
35106645 TGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATAATTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGATCACG
* * * * * * *
35106695 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGATCACG
*
35106744 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
35106783 GTTTGGCTAT
Statistics
Matches: 172, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
49 41 0.24
50 46 0.27
51 83 0.48
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGATCACG
Found at i:35108704 original size:26 final size:26
Alignment explanation
Indices: 35108675--35108724 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
35108665 CAACCTTAAC
* *
35108675 CCTAAGGGTATATCAGTAATTTTTCT
1 CCTAAGGGTAAATCAGTAAATTTTCT
* *
35108701 CCTAGGGGTAAATCTGTAAATTTT
1 CCTAAGGGTAAATCAGTAAATTTT
35108725 GCACCTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (26 bp):
CCTAAGGGTAAATCAGTAAATTTTCT
Found at i:35108731 original size:27 final size:26
Alignment explanation
Indices: 35108675--35108731 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
35108665 CAACCTTAAC
* * *
35108675 CCTAAGGGTATATCAGTAATTTTTCT
1 CCTAAGGGTAAATCAGTAATTTTGCA
* *
35108701 CCTAGGGGTAAATCTGTAAATTTTGCA
1 CCTAAGGGTAAATCAGT-AATTTTGCA
35108728 CCTA
1 CCTA
35108732 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (26 bp):
CCTAAGGGTAAATCAGTAATTTTGCA
Found at i:35110987 original size:19 final size:18
Alignment explanation
Indices: 35110950--35110993 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
35110940 ATACATACAG
35110950 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
35110967 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
35110986 TACTAATT
1 TAATAATT
35110994 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:35114015 original size:48 final size:48
Alignment explanation
Indices: 35113633--35114015 Score: 441
Period size: 48 Copynumber: 8.0 Consensus size: 48
35113623 ATTAATCCAC
* * * *
35113633 ATATCATCGCCAATGCCAT-TCCTAGACATGGTCTTACACTGGCACAC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * * * *
35113680 ATATCATTGTCGATGCCATGTCCTAGACATTGTCTTACACAGGCACAC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* *
35113728 ATATCATCGCTGATGCCATGTCCCAGACATGGTATTACACAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
** * * *
35113776 ATATCATCGGTGATGCCATTTCCCAGACATAGTCTTACACAGGCACAC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
** * *
35113824 ATATCATCGTTGATACCATGTCCCAGACATGGTCTTACACTGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
35113872 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTA-GCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACAC-AGGCACAT
* ** * *
35113920 ATATAATCATCGATTCCATGTCCCTA-ACATGGTATTACACTA-GCACAT
1 ATATCATCGCCGATGCCATGTCCC-AGACATGGTCTTACAC-AGGCACAT
* * * * *
35113968 ATATAATCACCAATGCAATGTCTCAGACATGGTCTTACACAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
35114016 TTAGCACGGT
Statistics
Matches: 293, Mismatches: 38, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
47 18 0.06
48 274 0.94
49 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (48 bp):
ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
Found at i:35120317 original size:21 final size:21
Alignment explanation
Indices: 35120279--35120318 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35120269 TAGGGATTTT
* *
35120279 TTTAAGGGTTAAGCAAATTGC
1 TTTAAGGGATAAGAAAATTGC
*
35120300 TTTAAGGGATATGAAAATT
1 TTTAAGGGATAAGAAAATT
35120319 AATAGAATGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (21 bp):
TTTAAGGGATAAGAAAATTGC
Found at i:35124208 original size:27 final size:26
Alignment explanation
Indices: 35124160--35124219 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
35124150 GCGAGGCTGC
*
35124160 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
35124187 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
35124213 CAGATAT
1 CAGATAT
35124220 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:35132543 original size:79 final size:81
Alignment explanation
Indices: 35132407--35132591 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
35132397 TTGAATGATG
*
35132407 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35132471 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35132486 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35132548 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
35132566 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35132592 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:35132605 original size:40 final size:40
Alignment explanation
Indices: 35132408--35132591 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
35132398 TGAATGATGT
* * * *
35132408 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35132448 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
35132488 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35132526 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35132567 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35132592 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35132613 original size:79 final size:79
Alignment explanation
Indices: 35132460--35132614 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
35132450 GGACTAAGAT
* **
35132460 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
35132525 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
35132539 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
35132602 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
35132615 ATTTCGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.60
80 25 0.37
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:35145751 original size:20 final size:20
Alignment explanation
Indices: 35145726--35145770 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
35145716 AGGGACTAAA
* *
35145726 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
35145746 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
35145766 ATGAA
1 ATGAA
35145771 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Done.