Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 175 of 185
Found at i:53180568 original size:27 final size:27
Alignment explanation
Indices: 53180521--53180587 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
53180511 ATAAATGGGG
* * **
53180521 GGTGCCGCCTGTGGCAGTGGCACTTTT
1 GGTGCCGCCTGTGCCACTGGCACCATT
*
53180548 GGTGCCGCCTTTGCCACTGGCACCATT
1 GGTGCCGCCTGTGCCACTGGCACCATT
*
53180575 GGTGCTGCCTGTG
1 GGTGCCGCCTGTG
53180588 GCAGTCCTTC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.07, C:0.30, G:0.34, T:0.28
Consensus pattern (27 bp):
GGTGCCGCCTGTGCCACTGGCACCATT
Found at i:53197013 original size:12 final size:12
Alignment explanation
Indices: 53196993--53197022 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
53196983 AAATAGAGCA
*
53196993 ATGAAGGTGATG
1 ATGATGGTGATG
53197005 ATGATGGTGATG
1 ATGATGGTGATG
53197017 ATGATG
1 ATGATG
53197023 ACGACGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.40, T:0.30
Consensus pattern (12 bp):
ATGATGGTGATG
Found at i:53197580 original size:22 final size:22
Alignment explanation
Indices: 53197554--53197598 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
53197544 GAGAAAGAGA
53197554 GTTTTCAATTGATGTAAGTGGT
1 GTTTTCAATTGATGTAAGTGGT
*
53197576 GTTTTCAATTGGTGTAAGTGGT
1 GTTTTCAATTGATGTAAGTGGT
53197598 G
1 G
53197599 AGAACAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.44
Consensus pattern (22 bp):
GTTTTCAATTGATGTAAGTGGT
Found at i:53198528 original size:13 final size:13
Alignment explanation
Indices: 53198510--53198534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53198500 GGTCCCCAGA
53198510 ATTTTTATTTTTT
1 ATTTTTATTTTTT
53198523 ATTTTTATTTTT
1 ATTTTTATTTTT
53198535 GTTTCAGATG
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:53201110 original size:4 final size:4
Alignment explanation
Indices: 53201101--53201131 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
53201091 AGGGCCCATG
*
53201101 AATT AATT AATT AATT AGTT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AATT AAT
53201132 AAAAATCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:53207472 original size:25 final size:26
Alignment explanation
Indices: 53207395--53207484 Score: 91
Period size: 25 Copynumber: 3.6 Consensus size: 26
53207385 ATTCAAGAAT
*
53207395 GCTCATGTGAG-CATATAAACGGGTA
1 GCTCATGTGAGCCATATAAACGGGAA
*
53207420 GCTC-TTTCGAGCCATATAAAC--GAA
1 GCTCATGT-GAGCCATATAAACGGGAA
*
53207444 GCTCATGTGAGCCATGT-AACGGGAA
1 GCTCATGTGAGCCATATAAACGGGAA
**
53207469 GCTCATAAGAGCCATA
1 GCTCATGTGAGCCATA
53207485 ATCAGGAAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
23 3 0.06
24 16 0.30
25 25 0.47
26 9 0.17
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (26 bp):
GCTCATGTGAGCCATATAAACGGGAA
Found at i:53207571 original size:27 final size:27
Alignment explanation
Indices: 53207536--53207598 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
53207526 AGCCATAAGT
53207536 GGGAAGCTCATGAAAGAGCTTTAAATC
1 GGGAAGCTCATGAAAGAGCTTTAAATC
* *
53207563 GGGAGGCTCATGAGAGAGCTTTAAATC
1 GGGAAGCTCATGAAAGAGCTTTAAATC
*
53207590 AGGAAGCTC
1 GGGAAGCTC
53207599 GTAAGAGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (27 bp):
GGGAAGCTCATGAAAGAGCTTTAAATC
Found at i:53207605 original size:27 final size:27
Alignment explanation
Indices: 53207537--53207605 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
53207527 GCCATAAGTG
*
53207537 GGAAGCTCATGAA-AGAGCTTTAAATCG
1 GGAAGCTCAT-AAGAGAGCTTTAAATCA
* *
53207564 GGAGGCTCATGAGAGAGCTTTAAATCA
1 GGAAGCTCATAAGAGAGCTTTAAATCA
*
53207591 GGAAGCTCGTAAGAG
1 GGAAGCTCATAAGAG
53207606 CCACATGTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.20
Consensus pattern (27 bp):
GGAAGCTCATAAGAGAGCTTTAAATCA
Found at i:53207690 original size:25 final size:25
Alignment explanation
Indices: 53207591--53207683 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 25
53207581 CTTTAAATCA
* * *
53207591 GGAAGCTCGTAAGAGCCACATGTCG
1 GGAAGCTCGTGAGAGCCAAATATCG
* * * * * *
53207616 AGATGCTCATAAGAGCTAAATAACG
1 GGAAGCTCGTGAGAGCCAAATATCG
53207641 GGAAGCTCGTGAGAGCCAAATATCG
1 GGAAGCTCGTGAGAGCCAAATATCG
53207666 GGAAGCTC-TAGAGAGCCA
1 GGAAGCTCGT-GAGAGCCA
53207684 TTAATCGAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 1 0.02
25 53 0.98
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.16
Consensus pattern (25 bp):
GGAAGCTCGTGAGAGCCAAATATCG
Found at i:53209307 original size:30 final size:30
Alignment explanation
Indices: 53209273--53209329 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
53209263 CGAGCTTTGA
53209273 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
1 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
* * * *
53209303 GGCAAAATTGTAATTTTGCCAAAGTTT
1 GGCAAAAGTGTAAATATGCAAAAGTTT
53209330 GAGTCAAGGA
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:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAGG
Found at i:53209798 original size:23 final size:23
Alignment explanation
Indices: 53209772--53209867 Score: 165
Period size: 23 Copynumber: 4.2 Consensus size: 23
53209762 GTTATTGATT
*
53209772 AGTGGTAGCTTCGGCTACATTTC
1 AGTGGTAGCTTCGGCTACATATC
*
53209795 AGTGGTAACTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
*
53209818 AGTGGTAGCTTCGGCTACATTTC
1 AGTGGTAGCTTCGGCTACATATC
53209841 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
53209864 AGTG
1 AGTG
53209868 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATATC
Found at i:53209825 original size:46 final size:46
Alignment explanation
Indices: 53209772--53209867 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
53209762 GTTATTGATT
53209772 AGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGGCTACATATC
*
53209818 AGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGGCTACATATC
53209864 AGTG
1 AGTG
53209868 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (46 bp):
AGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGGCTACATATC
Found at i:53216367 original size:29 final size:29
Alignment explanation
Indices: 53216324--53216386 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
53216314 ATAAAATGGT
*
53216324 ATTTGTGCAAGTTCAAATCCTTTTTTGGA
1 ATTTGTGCAAATTCAAATCCTTTTTTGGA
53216353 ATTTGTGCAAATTCAAATCCTTTTTTGGA
1 ATTTGTGCAAATTCAAATCCTTTTTTGGA
*
53216382 GTTTG
1 ATTTG
53216387 ATTCTGCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (29 bp):
ATTTGTGCAAATTCAAATCCTTTTTTGGA
Found at i:53234273 original size:6 final size:6
Alignment explanation
Indices: 53234264--53234302 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
53234254 TCCCTTCCCT
53234264 TTCCGA TTCCGA TTCCGA TTCCGA TTCCGA TTCCGA TTC
1 TTCCGA TTCCGA TTCCGA TTCCGA TTCCGA TTCCGA TTC
53234303 TTCTTCTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.33, G:0.15, T:0.36
Consensus pattern (6 bp):
TTCCGA
Found at i:53244114 original size:17 final size:18
Alignment explanation
Indices: 53244087--53244122 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
53244077 AATTACAAAC
53244087 AAAATTTATAAAAATTTT
1 AAAATTTATAAAAATTTT
*
53244105 AAAA-TTATAAAATTTTT
1 AAAATTTATAAAAATTTT
53244122 A
1 A
53244123 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTTATAAAAATTTT
Found at i:53246054 original size:16 final size:15
Alignment explanation
Indices: 53246010--53246057 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
53246000 TCAGTCGTGC
53246010 AATACTCAATTCATG
1 AATACTCAATTCATG
*
53246025 AATACATCATTTCAT-
1 AATAC-TCAATTCATG
53246040 ACCATACTCAATTCATG
1 A--ATACTCAATTCATG
53246057 A
1 A
53246058 GTATTTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (15 bp):
AATACTCAATTCATG
Found at i:53247330 original size:41 final size:37
Alignment explanation
Indices: 53247273--53247366 Score: 107
Period size: 37 Copynumber: 2.4 Consensus size: 37
53247263 CGAGCTATTA
53247273 CACCCAGTGTCTCATCGAATAAATCCGAAGTAGTAAATTGG
1 CACCCAGTGTCTCATCGAATAAA-CCG-A--AGTAAATTGG
* **
53247314 CACCCAGTGTTTCATCGGTTAAACCGAAGTAAATTGG
1 CACCCAGTGTCTCATCGAATAAACCGAAGTAAATTGG
* *
53247351 CACCCAATGCCTCATC
1 CACCCAGTGTCTCATC
53247367 AACTCGAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
37 23 0.49
39 1 0.02
40 3 0.06
41 20 0.43
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (37 bp):
CACCCAGTGTCTCATCGAATAAACCGAAGTAAATTGG
Found at i:53248299 original size:5 final size:4
Alignment explanation
Indices: 53248260--53248342 Score: 60
Period size: 4 Copynumber: 19.0 Consensus size: 4
53248250 TGTCTTTCTC
* *
53248260 CTTT CTTT CTTT CCTTT -TTT TTTT CTTCT TTTT CTCTT CTTT CTTT CCTTT
1 CTTT CTTT CTTT -CTTT CTTT CTTT CTT-T CTTT CT-TT CTTT CTTT -CTTT
*
53248311 CTATTT CGTCTT GTTT CTTT CTTT CTTT CTTT
1 C--TTT C-T-TT CTTT CTTT CTTT CTTT CTTT
53248343 ATTCATTTGC
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
3 3 0.05
4 39 0.60
5 17 0.26
6 6 0.09
ACGTcount: A:0.01, C:0.24, G:0.02, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:53248300 original size:34 final size:33
Alignment explanation
Indices: 53248260--53248339 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
53248250 TGTCTTTCTC
* * *
53248260 CTTTCTTTCTTTCCTTTTTTTTTTCTTCTT-TTT
1 CTTTCTTTCTTTCC-TTTCTATTTCGTCTTGTTT
53248293 CTCTTCTTTCTTTCCTTTCTATTTCGTCTTGTTT
1 CT-TTCTTTCTTTCCTTTCTATTTCGTCTTGTTT
53248327 CTTTCTTTCTTTC
1 CTTTCTTTCTTTC
53248340 TTTATTCATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
33 25 0.60
34 17 0.40
ACGTcount: A:0.01, C:0.25, G:0.03, T:0.71
Consensus pattern (33 bp):
CTTTCTTTCTTTCCTTTCTATTTCGTCTTGTTT
Found at i:53248317 original size:24 final size:24
Alignment explanation
Indices: 53248281--53248336 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
53248271 TCCTTTTTTT
*
53248281 TTTC-TTCTTTTTC-TCTTCTTTC
1 TTTCTTTCTATTTCGTCTTCTTTC
*
53248303 TTTCCTTTCTATTTCGTCTTGTTTC
1 TTT-CTTTCTATTTCGTCTTCTTTC
53248328 TTTCTTTCT
1 TTTCTTTCT
53248337 TTCTTTATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 3 0.10
23 1 0.03
24 14 0.48
25 11 0.38
ACGTcount: A:0.02, C:0.25, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTCTTTCTATTTCGTCTTCTTTC
Found at i:53248414 original size:26 final size:25
Alignment explanation
Indices: 53248367--53248415 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
53248357 TTGTTTTGTT
* *
53248367 TTATTATATTTACTTTATTATTATA
1 TTATTATATTTACTTAAATATTATA
53248392 TTATATATATTTACTTAAATATTA
1 TTAT-TATATTTACTTAAATATTA
53248416 AGTAAACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATTATATTTACTTAAATATTATA
Found at i:53249239 original size:31 final size:31
Alignment explanation
Indices: 53249196--53249261 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
53249186 TTATAAACAT
* * *
53249196 GTCATTGAACTATTTGAATGTTCTCATTTAA
1 GTCACTGAACTATTAGAAAGTTCTCATTTAA
* *
53249227 GTCACTGAACTATTAGAAAGTTTTTATTTAA
1 GTCACTGAACTATTAGAAAGTTCTCATTTAA
53249258 GTCA
1 GTCA
53249262 ATACACTGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (31 bp):
GTCACTGAACTATTAGAAAGTTCTCATTTAA
Found at i:53251487 original size:22 final size:23
Alignment explanation
Indices: 53251462--53251553 Score: 108
Period size: 22 Copynumber: 4.3 Consensus size: 23
53251452 AATAAATACC
53251462 AAAAATTTATTTTAAAAAT-TTT
1 AAAAATTTATTTTAAAAATATTT
53251484 AAAAATTTATTTTAAAAATATTT
1 AAAAATTTATTTTAAAAATATTT
*
53251507 TAAAATTTA----AAAAA-ATTT
1 AAAAATTTATTTTAAAAATATTT
*
53251525 AAAAA-GTATTTTAAAAATATTT
1 AAAAATTTATTTTAAAAATATTT
*
53251547 TAAAATT
1 AAAAATT
53251554 AAAAAATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.03
18 8 0.14
19 5 0.09
21 5 0.09
22 27 0.47
23 11 0.19
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (23 bp):
AAAAATTTATTTTAAAAATATTT
Found at i:53251492 original size:8 final size:9
Alignment explanation
Indices: 53251470--53251569 Score: 59
Period size: 10 Copynumber: 11.1 Consensus size: 9
53251460 CCAAAAATTT
53251470 ATTTTAAAA
1 ATTTTAAAA
53251479 ATTTTAAAA
1 ATTTTAAAA
53251488 A-TTT----
1 ATTTTAAAA
53251492 ATTTTAAAA
1 ATTTTAAAA
*
53251501 ATATTTTAAA
1 AT-TTTAAAA
*
53251511 ATTTAAAAAA
1 ATTT-TAAAA
*
53251521 ATTTAAAAA
1 ATTTTAAAA
53251530 GTATTTTAAAA
1 --ATTTTAAAA
*
53251541 ATATTTTAAA
1 AT-TTTAAAA
*
53251551 A-TTAAAAA
1 ATTTTAAAA
53251559 ATTTTTAAAA
1 A-TTTTAAAA
53251569 A
1 A
53251570 AGTATTTTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 23
0.70 0.08 0.23
Matches are distributed among these distances:
4 1 0.01
5 3 0.04
8 9 0.13
9 21 0.30
10 29 0.41
11 8 0.11
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:53251507 original size:11 final size:11
Alignment explanation
Indices: 53251469--53251551 Score: 81
Period size: 11 Copynumber: 7.9 Consensus size: 11
53251459 ACCAAAAATT
53251469 TATTTT-AAAA
1 TATTTTAAAAA
53251479 -ATTTTAAAAA
1 TATTTTAAAAA
53251489 TTTATTTTAAAAA
1 --TATTTTAAAAA
53251502 TATTTT--AAA
1 TATTTTAAAAA
53251511 -A-TTTAAAAA
1 TATTTTAAAAA
*
53251520 -AATTTAAAAA
1 TATTTTAAAAA
53251530 GTATTTTAAAAA
1 -TATTTTAAAAA
53251542 TATTTTAAAA
1 TATTTTAAAA
53251552 TTAAAAAATT
Statistics
Matches: 63, Mismatches: 1, Indels: 17
0.78 0.01 0.21
Matches are distributed among these distances:
7 3 0.05
8 1 0.02
9 12 0.19
10 12 0.19
11 16 0.25
12 9 0.14
13 10 0.16
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:53251552 original size:30 final size:29
Alignment explanation
Indices: 53251494--53251589 Score: 108
Period size: 30 Copynumber: 3.3 Consensus size: 29
53251484 AAAAATTTAT
**
53251494 TTTAAAAATATTTT-AAAAT-TTAAAAAAA
1 TTTAAAAATATTTTAAAAATATT-TTAAAA
53251522 TTTAAAAAGTATTTTAAAAATATTTTAAAA
1 TTTAAAAA-TATTTTAAAAATATTTTAAAA
*
53251552 TTAAAAAAT-TTTTAAAAAAGTATTTTAAAA
1 TTTAAAAATATTTT-AAAAA-TATTTTAAAA
53251582 TTTAAAAA
1 TTTAAAAA
53251590 ATAAAAAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
28 12 0.20
29 12 0.20
30 33 0.56
31 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (29 bp):
TTTAAAAATATTTTAAAAATATTTTAAAA
Found at i:53251582 original size:40 final size:40
Alignment explanation
Indices: 53251475--53251581 Score: 162
Period size: 40 Copynumber: 2.6 Consensus size: 40
53251465 AATTTATTTT
**
53251475 AAAAATTTTAAAAATTTATTTTAAAAATATTTTAAAATTTA
1 AAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAA-TTA
*
53251516 AAAAAATTT-AAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
53251555 AAAAATTTTTAAAAAAGTATTTTAAAA
1 AAAAA-TTTTAAAAAAGTATTTTAAAA
53251582 TTTAAAAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
39 8 0.13
40 28 0.47
41 24 0.40
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (40 bp):
AAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:53252913 original size:3 final size:3
Alignment explanation
Indices: 53252905--53252932 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
53252895 TGAGTGTTAC
53252905 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
53252933 GTGAAGAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:53256836 original size:79 final size:80
Alignment explanation
Indices: 53256705--53256871 Score: 273
Period size: 79 Copynumber: 2.1 Consensus size: 80
53256695 ATCGAGTTAT
* *
53256705 TCAAGTTTGAACTGAGTTTAATTTTATAATTTGAATAACTCAAATAATTCAAATGGTGTAAATA-
1 TCAAGTTTGAACCGAGTTTAATTTTATAATTTGAATAACTCAAATAATTCAAATAGTGTAAATAT
*
53256769 CTTTTTAGGTCCCTA
66 CCTTTTAGGTCCCTA
*
53256784 TCAAGTTTGAACCGAGTTTAATTTTATAATTTGAATAACTCGAATAATTCAAATAGTGTAAATAT
1 TCAAGTTTGAACCGAGTTTAATTTTATAATTTGAATAACTCAAATAATTCAAATAGTGTAAATAT
*
53256849 CCTTTTAGGTTCCTA
66 CCTTTTAGGTCCCTA
*
53256864 CCAAGTTT
1 TCAAGTTT
53256872 AAAAATGAGC
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 61 0.75
80 20 0.25
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (80 bp):
TCAAGTTTGAACCGAGTTTAATTTTATAATTTGAATAACTCAAATAATTCAAATAGTGTAAATAT
CCTTTTAGGTCCCTA
Found at i:53256954 original size:18 final size:18
Alignment explanation
Indices: 53256933--53256986 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
53256923 AATTCAAAAT
53256933 ATTTATAAAATTTTCAAA
1 ATTTATAAAATTTTCAAA
** *
53256951 ATTTAT-ATTTTTTAAAA
1 ATTTATAAAATTTTCAAA
* *
53256968 AATTATAAAAATTTCAAA
1 ATTTATAAAATTTTCAAA
53256986 A
1 A
53256987 AAATTCTAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTATAAAATTTTCAAA
Found at i:53257007 original size:11 final size:10
Alignment explanation
Indices: 53256963--53257021 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
53256953 TTATATTTTT
53256963 TAAAAAATTA
1 TAAAAAATTA
*
53256973 TAAAAATTTCA
1 TAAAAAATT-A
*
53256984 -AAAAAATTC
1 TAAAAAATTA
53256993 TAAAAAATATA
1 TAAAAAAT-TA
*
53257004 TAAAAAAGT-
1 TAAAAAATTA
53257013 TAAAAAATT
1 TAAAAAATT
53257022 TCTAGAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 8 0.20
10 23 0.57
11 9 0.22
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:53257018 original size:31 final size:30
Alignment explanation
Indices: 53256963--53257025 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
53256953 TTATATTTTT
*
53256963 TAAAAAATTATAAAAATTTCAAAAAAATTC
1 TAAAAAATTATAAAAAGTTCAAAAAAATTC
*
53256993 TAAAAAATATATAAAAAAGTT-AAAAAATTTC
1 TAAAAAAT-TAT-AAAAAGTTCAAAAAAATTC
53257024 TA
1 TA
53257026 GAATAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 8 0.28
31 14 0.48
32 7 0.24
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (30 bp):
TAAAAAATTATAAAAAGTTCAAAAAAATTC
Found at i:53260706 original size:2 final size:2
Alignment explanation
Indices: 53260701--53260734 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
53260691 ACACACACAC
53260701 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
53260735 CTCACCACTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:53262430 original size:18 final size:18
Alignment explanation
Indices: 53262407--53262442 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
53262397 TTCACATGAA
53262407 GAAATCTAATAACCATAT
1 GAAATCTAATAACCATAT
*
53262425 GAAATCTAATAATCATAT
1 GAAATCTAATAACCATAT
53262443 TGAAGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.31
Consensus pattern (18 bp):
GAAATCTAATAACCATAT
Found at i:53274084 original size:17 final size:16
Alignment explanation
Indices: 53274057--53274089 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
53274047 CCCAATCCTT
53274057 TTTATATTTATAATAC
1 TTTATATTTATAATAC
53274073 TTTATAATTTATAATAC
1 TTTAT-ATTTATAATAC
53274090 ATTAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTATATTTATAATAC
Found at i:53274215 original size:15 final size:14
Alignment explanation
Indices: 53274168--53274215 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
53274158 GACTATATAA
*
53274168 AAAATTAATAAATAA
1 AAAA-TAATAAATAT
*
53274183 AAAATAAAAAATATT
1 AAAATAATAAATA-T
53274198 AAAATAATATAATAT
1 AAAATAATA-AATAT
53274213 AAA
1 AAA
53274216 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 8 0.29
15 16 0.57
16 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATAATAAATAT
Found at i:53279018 original size:2 final size:2
Alignment explanation
Indices: 53279011--53279054 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
53279001 TTTACTAATC
53279011 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
53279053 GA
1 GA
53279055 CCTGATTAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:53283383 original size:2 final size:2
Alignment explanation
Indices: 53283376--53283400 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
53283366 CTATTAACAA
53283376 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
53283401 AGAAAAGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53286633 original size:42 final size:42
Alignment explanation
Indices: 53286574--53286659 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
53286564 TTGGGTGGTA
*
53286574 TAGTATCAACTTTAGCCCCTCTCAGTTATGAAGTATTCAATT
1 TAGTATCAACTTTAGCCCCTCTCAATTATGAAGTATTCAATT
*
53286616 TAGTATCAACTTTAGCCCCTTTCAATTATGAAGTATTCAATT
1 TAGTATCAACTTTAGCCCCTCTCAATTATGAAGTATTCAATT
53286658 TA
1 TA
53286660 AGCCCCTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (42 bp):
TAGTATCAACTTTAGCCCCTCTCAATTATGAAGTATTCAATT
Found at i:53291306 original size:16 final size:16
Alignment explanation
Indices: 53291279--53291321 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
53291269 ATATATTTAT
*
53291279 AACAAATTAATATAAC
1 AACAAGTTAATATAAC
*
53291295 AATAAGTTAATATAAC
1 AACAAGTTAATATAAC
*
53291311 AGCAAGTTAAT
1 AACAAGTTAAT
53291322 TAAAGAGTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (16 bp):
AACAAGTTAATATAAC
Found at i:53295643 original size:14 final size:14
Alignment explanation
Indices: 53295626--53295676 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
53295616 AAAAACAAAA
53295626 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
53295640 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
53295654 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
53295669 G-AATAAAA
1 GAAATAAAA
53295677 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:53295687 original size:17 final size:16
Alignment explanation
Indices: 53295665--53295698 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
53295655 AAGTTAAAAT
53295665 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
53295682 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
53295698 A
1 A
53295699 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:53300799 original size:19 final size:19
Alignment explanation
Indices: 53300775--53300813 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
53300765 ATGTTCTATG
53300775 TTTATAATATA-ATATATTA
1 TTTAT-ATATAGATATATTA
53300794 TTTATATATAGATATATTA
1 TTTATATATAGATATATTA
53300813 T
1 T
53300814 ATAATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTATATATAGATATATTA
Found at i:53300814 original size:24 final size:23
Alignment explanation
Indices: 53300777--53300823 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
53300767 GTTCTATGTT
*
53300777 TATAATATAATATATTATTTATA
1 TATAATATAATATATAATTTATA
*
53300800 TATAGATATATTATATAATTTATA
1 TATA-ATATAATATATAATTTATA
53300824 AGACATAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATAATATAATATATAATTTATA
Found at i:53301951 original size:17 final size:17
Alignment explanation
Indices: 53301929--53301961 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
53301919 ATATTTCTTA
53301929 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
53301946 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
53301962 TATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:53306474 original size:9 final size:8
Alignment explanation
Indices: 53306452--53306481 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
53306442 AATTAATTAA
53306452 TTAAAAAT
1 TTAAAAAT
53306460 TTAAAAAT
1 TTAAAAAT
53306468 TTAAAAAT
1 TTAAAAAT
53306476 TATAAA
1 T-TAAA
53306482 TCGGTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TTAAAAAT
Found at i:53314583 original size:31 final size:35
Alignment explanation
Indices: 53314518--53314584 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 35
53314508 AAAATATGAC
*
53314518 AAGTAAGACTAAAATATATATAATAATAATATAAA
1 AAGTAAGACTAAAATATATATAATAATAAAATAAA
*
53314553 AAGT-AGA-TAAAATATA-ATGAT-ATAAAATAAA
1 AAGTAAGACTAAAATATATATAATAATAAAATAAA
53314584 A
1 A
53314585 TAAGAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 10 0.33
32 4 0.13
33 9 0.30
34 3 0.10
35 4 0.13
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.27
Consensus pattern (35 bp):
AAGTAAGACTAAAATATATATAATAATAAAATAAA
Found at i:53314594 original size:31 final size:32
Alignment explanation
Indices: 53314521--53314611 Score: 75
Period size: 33 Copynumber: 2.8 Consensus size: 32
53314511 ATATGACAAG
*
53314521 TAAGACTAAAATATATATAATAATAATATAAA
1 TAAGAATAAAATATATATAATAATAATATAAA
53314553 -AAGTAGATAAAATATA-ATGATATAA-AATA-AAA
1 TAAG-A-ATAAAATATATAT-A-ATAATAATATAAA
*
53314585 TAAGAATAAAGTA-ATAGGTAATAATAA
1 TAAGAATAAAATATATA--TAATAATAA
53314612 ACACAATAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
30 1 0.02
31 15 0.31
32 10 0.21
33 18 0.38
34 4 0.08
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (32 bp):
TAAGAATAAAATATATATAATAATAATATAAA
Found at i:53315891 original size:23 final size:21
Alignment explanation
Indices: 53315839--53315896 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
53315829 GGGTTTGTAA
* *
53315839 ATTGGGCTCAGGTAGTTTTAGG
1 ATTGGGCT-AGGTTGGTTTAGG
53315861 ATTGGGCTAGGTTGGTTTAGGG
1 ATTGGGCTAGGTTGGTTTA-GG
53315883 TATTGGGCTAGGTT
1 -ATTGGGCTAGGTT
53315897 AGTTGGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 9 0.28
22 10 0.31
23 13 0.41
ACGTcount: A:0.16, C:0.07, G:0.40, T:0.38
Consensus pattern (21 bp):
ATTGGGCTAGGTTGGTTTAGG
Found at i:53316656 original size:71 final size:74
Alignment explanation
Indices: 53316418--53316690 Score: 310
Period size: 71 Copynumber: 3.7 Consensus size: 74
53316408 CTTACTTGGC
* * * * *
53316418 ATGTGATCTTGA-GCCCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAACAAAAACT-AA
1 ATGTGATCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATCTTTGAAAACAGAAACTGAA
*
53316481 AGATACCTCAA
66 A-TTACCTC-A
* * * * *
53316492 CATGTGAAC-TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTGTTTGGACAACAGAAATT
1 -ATGTGATCTTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGAATCTTT-GAAAACAGAAACT
53316555 GAAATTACCTCA
63 GAAATTACCTCA
**
53316567 GCGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT-TTTGAAAACAGAAA-TGAA
1 ATGTGATCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATCTTTGAAAACAGAAACTGAA
53316629 ATTACCTCA
66 ATTACCTCA
* *
53316638 ATGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTCAAAA
1 ATGTGATCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATCTTTGAAAA
53316691 ACATAATAAT
Statistics
Matches: 172, Mismatches: 19, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
71 54 0.31
72 17 0.10
73 7 0.04
74 37 0.22
75 36 0.21
76 18 0.10
77 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (74 bp):
ATGTGATCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATCTTTGAAAACAGAAACTGAA
ATTACCTCA
Found at i:53316863 original size:159 final size:155
Alignment explanation
Indices: 53316545--53317237 Score: 620
Period size: 160 Copynumber: 4.6 Consensus size: 155
53316535 TTGTTTGGAC
* * * **
53316545 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
* * * **
53316610 TTTTGAAAACAGAAA-TGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
66 -TTTAAAAACAGAAATTGAAAATACCTC-CTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* *
53316674 AGTTGATTCTTTCAAAAACATAATAATGAA
129 AGTTGATT-TTT-GAAAACATAA-ATTGAA
* * * *
53316704 AACAGAAATGGAAAATACCTCGGTGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
* * * * * *
53316769 ATTAAAACACAAAAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCCATTCACCTCTAGCAATA
66 TTTAAAA-ACAGAAATTGAAAATACCTC--C-TGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
*
53316834 TGAATTGATTTTTGAAAACATAAATTGAAA
127 TGAGTTGATTTTTGAAAACATAAATTG-AA
* * **
53316864 AACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGGT
1 AACAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
53316929 TTTGAAAAACAGAAATTGAAAATACCTCAAC-GTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
66 TTT-AAAAACAGAAATTGAAAATACCTC--CTGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
53316993 GAGTTGATTTTTG-----A-AAA--G--
128 GAGTTGATTTTTGAAAACATAAATTGAA
* **
53317011 --CAGAAATTGAAAATACCTCAATGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* * * * **
53317073 TTTTTGACAACAGAAATTG-AAATACCTCAGC-GTGTCCTGAGGCTCAACTCATTTCTCGCAATA
65 -ATTTAAAAACAGAAATTGAAAATACCTC--CTGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
53317136 TGA---G----TTG--AA-AT---TTGGAA
127 TGAGTTGATTTTTGAAAACATAAATT-GAA
* * * * *
53317153 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
1 AACAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
* *
53317218 TTTGAAAACAAAAATT-AAAA
66 TTTAAAAACAGAAATTGAAAA
53317238 GGCTTAACTC
Statistics
Matches: 454, Mismatches: 60, Indels: 56
0.80 0.11 0.10
Matches are distributed among these distances:
137 3 0.01
139 1 0.00
140 1 0.00
141 1 0.00
143 18 0.04
144 98 0.22
145 68 0.15
146 4 0.01
150 1 0.00
152 3 0.01
153 1 0.00
158 46 0.10
159 65 0.14
160 101 0.22
161 7 0.02
162 36 0.08
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (155 bp):
AACAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
TTTAAAAACAGAAATTGAAAATACCTCCTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAACATAAATTGAA
Found at i:53316922 original size:86 final size:88
Alignment explanation
Indices: 53316766--53316950 Score: 225
Period size: 86 Copynumber: 2.1 Consensus size: 88
53316756 AATATGAGTT
* * * * *
53316766 GAAATT-AAAACACAAAAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCCATTCACCTCTAGC
1 GAAATTGAAAACACAAAAATGGAAAATACCTCAGCG-ATGTCCTGAGGCTCAACTCACCTCTAGC
*
53316830 AATATGAATTGATTTTTG-AAAACA
65 AATATGAATTG-GTTTTGAAAAACA
* * *
53316854 TAAATTGAAAA-ACAGAAATGGAAAATACCTCAGC-ATGTCCTGAGGCTCAACTCACCTCTCGCA
1 GAAATTGAAAACACAAAAATGGAAAATACCTCAGCGATGTCCTGAGGCTCAACTCACCTCTAGCA
* *
53316917 GTATGAGTTGGTTTTGAAAAACA
66 ATATGAATTGGTTTTGAAAAACA
53316940 GAAATTGAAAA
1 GAAATTGAAAA
53316951 TACCTCAACG
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
85 5 0.06
86 49 0.59
88 25 0.30
89 4 0.05
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.25
Consensus pattern (88 bp):
GAAATTGAAAACACAAAAATGGAAAATACCTCAGCGATGTCCTGAGGCTCAACTCACCTCTAGCA
ATATGAATTGGTTTTGAAAAACA
Found at i:53317037 original size:73 final size:72
Alignment explanation
Indices: 53316862--53317237 Score: 528
Period size: 72 Copynumber: 5.2 Consensus size: 72
53316852 CATAAATTGA
* * *
53316862 AAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
53316927 -GTTTTG
66 ATTTTTG
* *
53316933 AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
53316998 GATTTTTG
65 GATTTTTG
**
53317006 AAAAGCAGAAATTGAAAATACCTCAATGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
53317070 GATTTTTTG
65 GA-TTTTTG
* **
53317079 ACAACAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
53317143 AAATTTGG
66 -ATTTTTG
* * *
53317151 AAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
53317216 A-TTTTG
66 ATTTTTG
*
53317222 AAAACAAAAATT-AAAA
1 AAAACAGAAATTGAAAA
53317238 GGCTTAACTC
Statistics
Matches: 275, Mismatches: 23, Indels: 14
0.88 0.07 0.04
Matches are distributed among these distances:
70 3 0.01
71 30 0.11
72 155 0.56
73 87 0.32
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:53317119 original size:144 final size:146
Alignment explanation
Indices: 53316700--53317220 Score: 520
Period size: 144 Copynumber: 3.5 Consensus size: 146
53316690 AACATAATAA
* ** * *
53316700 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCAATGTG-TCTGAGGCTCAACTCACCTCTCGCAATATGAGT
** * ** * *
53316765 TGA--AATT-AAAACACAAAAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCCATTCACCTCT
65 TGATTTTTTGAAAA-ACAGAAATTGAAAATACCTCAAC--GTGTCCTGAGGCTCAACTCACCTCT
* *
53316827 AGCAATATGAATTGATTTTTGAAAACATAAAT
127 CGCAATATG-A--G----TTG--AA-AT--TT
* * *
53316859 TGAAAAACAGAAATGGAAAATACCTCAGCATGT-CCTGAGGCTCAACTCACCTCTCGCAGTATGA
1 TG-AAAACAGAAATTGAAAATACCTCA--ATGTGTCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
53316923 GTTG--GTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
63 GTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
*
53316986 GCAATATGAGTTG-ATTTT
128 GCAATATGAGTTGAAATTT
53317004 TGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAA-CAGAAATTGAAAATACCTCAATGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * **
53317069 TGATTTTTTG-ACAACAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGC
65 TGATTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGC
53317132 AATATGAGTTGAAATTT
130 AATATGAGTTGAAATTT
* * * ** *
53317149 GGAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCAATGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGT
53317214 TGATTTT
65 TGATTTT
53317221 GAAAACAAAA
Statistics
Matches: 320, Mismatches: 31, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
143 4 0.01
144 106 0.33
145 81 0.25
146 5 0.02
147 1 0.00
148 1 0.00
151 3 0.01
155 1 0.00
157 1 0.00
158 30 0.09
159 2 0.01
160 78 0.24
161 4 0.01
162 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (146 bp):
TGAAAACAGAAATTGAAAATACCTCAATGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGAAATTT
Found at i:53317457 original size:72 final size:71
Alignment explanation
Indices: 53317237--53317551 Score: 355
Period size: 72 Copynumber: 4.5 Consensus size: 71
53317227 AAAAATTAAA
* * *
53317237 AGGCTTAACTCACTTCTCGCAATATGAGTCAA--TTTAAAACATAAACT-AAAATACCTCGGCGT
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTTGAAACATAAACTAAAAATACCTCAGCGT
*
53317299 G-CCCG
66 GACCTG
* * **
53317304 AGGCTCAACTCACC-CTCGCAATATGAG-CTGA-TTTTGAAACA-AAAGGAATTAAATACCTCAG
1 AGGCTTAACTCACCTCTCGCAATATGAGTC-AATTTTTGAAACATAAACTAA--AAATACCTCAG
53317365 CGTGACCTG
63 CGTGACCTG
*
53317374 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTGAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTTGAAACATAAACTAAAAATACCTCAGCGT
53317439 GTACCTG
66 G-ACCTG
* * * * * *
53317446 AGGCTCAACTCA-TTCTCACAATATGAGTTAAGTTTTTGAAAACATGAA-TTAAAATACCTCAGC
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAA-TTTTTG-AAACATAAACTAAAAATACCTCAGC
53317509 GTGACCTG
64 GTGACCTG
*
53317517 AGGCTTGACTCACCTCTCGCAATATGAGTC-ATTTT
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTT
53317552 CCTTGGAAAG
Statistics
Matches: 209, Mismatches: 25, Indels: 25
0.81 0.10 0.10
Matches are distributed among these distances:
65 1 0.00
66 17 0.08
67 21 0.10
69 14 0.07
70 19 0.09
71 61 0.29
72 63 0.30
73 13 0.06
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (71 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTTGAAACATAAACTAAAAATACCTCAGCGT
GACCTG
Found at i:53317526 original size:143 final size:139
Alignment explanation
Indices: 53317237--53317551 Score: 433
Period size: 143 Copynumber: 2.3 Consensus size: 139
53317227 AAAAATTAAA
* * *
53317237 AGGCTTAACTCACTTCTCGCAATATGAGTCAA--TTTAAAACATAAACTAAAATACCTCGGCGTG
1 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTAAAACATAAACTAAAATACCTCAGCGTG
*
53317300 CCCGAGGCTCAACTCACCCTCGCAATATGAGCTGATTTTGAAACAAAAGGAATTAAATACCTCAG
66 CCCGAGGCTCAACTCACCCTCACAATATGAGCTGATTTTGAAACAAAAGGAATTAAATACCTCAG
53317365 CGTGACCTG
131 CGTGACCTG
*
53317374 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTGAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTAAAACATAAACT-AAAATACCTCAGCGT
* ** * * * *
53317439 GTACCTGAGGCTCAACTCATTCTCACAATATGAGTTAAGTTTTTG-AA-AACATGAATTAAAATA
65 G--CCCGAGGCTCAACTCACCCTCACAATATGAGCT--GATTTTGAAACAAAAGGAATT-AAATA
53317502 CCTCAGCGTGACCTG
125 CCTCAGCGTGACCTG
53317517 AGGCTTGACTCACCTCTCGCAATATGAGTC-ATTTT
1 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTT
53317552 CCTTGGAAAG
Statistics
Matches: 158, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
137 30 0.19
139 14 0.09
140 15 0.09
142 41 0.26
143 52 0.33
144 6 0.04
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (139 bp):
AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTAAAACATAAACTAAAATACCTCAGCGTG
CCCGAGGCTCAACTCACCCTCACAATATGAGCTGATTTTGAAACAAAAGGAATTAAATACCTCAG
CGTGACCTG
Found at i:53329818 original size:26 final size:27
Alignment explanation
Indices: 53329770--53329831 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
53329760 ATATATAATA
*
53329770 ATAATAATATAAAAAGTAGATAA-AAT
1 ATAATAATATAAAAAGTAAATAAGAAT
*
53329796 ATAATGATATAAAAA-TAAAATAAGAAT
1 ATAATAATATAAAAAGT-AAATAAGAAT
53329823 A-AAGTAATA
1 ATAA-TAATA
53329832 GGTAATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.03
26 21 0.70
27 8 0.27
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (27 bp):
ATAATAATATAAAAAGTAAATAAGAAT
Found at i:53329825 original size:32 final size:35
Alignment explanation
Indices: 53329734--53329843 Score: 86
Period size: 34 Copynumber: 3.1 Consensus size: 35
53329724 AGTGTAAAAG
*
53329734 AAAAATATGACAAGTAAGACTAAAATATATATAATAAT
1 AAAAATAT-A-AA-TAAGAATAAAATATATATAATAAT
* *
53329772 AATAATATAAA-AAGTAGATAAAATATA-ATGAT-AT
1 AAAAATATAAATAAG-A-ATAAAATATATATAATAAT
*
53329806 AAAAATA-AAATAAGAATAAAGTA-ATAGGTAATAAT
1 AAAAATATAAATAAGAATAAAATATATA--TAATAAT
53329841 AAA
1 AAA
53329844 CACAATAACA
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
31 1 0.02
32 8 0.14
33 4 0.07
34 17 0.29
35 10 0.17
36 11 0.19
37 1 0.02
38 7 0.12
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (35 bp):
AAAAATATAAATAAGAATAAAATATATATAATAAT
Found at i:53331126 original size:23 final size:21
Alignment explanation
Indices: 53331074--53331131 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
53331064 GGGTTTGTAA
* *
53331074 ATTGGGCTCAGGTAGTTTTAGG
1 ATTGGGCT-AGGTTGGTTTAGG
53331096 ATTGGGCTAGGTTGGTTTAGGG
1 ATTGGGCTAGGTTGGTTTA-GG
53331118 TATTGGGCTAGGTT
1 -ATTGGGCTAGGTT
53331132 AGTTGGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 9 0.28
22 10 0.31
23 13 0.41
ACGTcount: A:0.16, C:0.07, G:0.40, T:0.38
Consensus pattern (21 bp):
ATTGGGCTAGGTTGGTTTAGG
Found at i:53333624 original size:22 final size:23
Alignment explanation
Indices: 53333591--53333649 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
53333581 AGAATGATAC
*
53333591 ATGA-AAACTTAAAATAAT-TAT
1 ATGATAAATTTAAAATAATATAT
53333612 ATGATAAATTTAAAATAATAATAT
1 ATGATAAATTTAAAATAAT-ATAT
*
53333636 GTGATAAATTTAAA
1 ATGATAAATTTAAA
53333650 CAACATTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 13 0.39
24 16 0.48
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (23 bp):
ATGATAAATTTAAAATAATATAT
Found at i:53338658 original size:24 final size:25
Alignment explanation
Indices: 53338621--53338668 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
53338611 CTAACATGTC
* *
53338621 ATATCATGTCAATAAATA-ATATCT
1 ATATCATATAAATAAATAGATATCT
*
53338645 ATATCATATAAATATATAGATATC
1 ATATCATATAAATAAATAGATATC
53338669 ACTACCCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (25 bp):
ATATCATATAAATAAATAGATATCT
Found at i:53339499 original size:36 final size:36
Alignment explanation
Indices: 53339452--53339524 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
53339442 TCACTTTCTT
53339452 TCTTTTCACACCCTACTCAACCCCATGATCATTAAA
1 TCTTTTCACACCCTACTCAACCCCATGATCATTAAA
53339488 TCTTTTCACACCCTACTCAACCCCATGATCATTAAA
1 TCTTTTCACACCCTACTCAACCCCATGATCATTAAA
53339524 T
1 T
53339525 TCTCCCTATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.36, G:0.03, T:0.32
Consensus pattern (36 bp):
TCTTTTCACACCCTACTCAACCCCATGATCATTAAA
Found at i:53343787 original size:19 final size:19
Alignment explanation
Indices: 53343763--53343806 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
53343753 ATAATTGATA
53343763 AGGTATACAAAATAAGGTG
1 AGGTATACAAAATAAGGTG
*
53343782 AGGTATATAAAATAAGGTG
1 AGGTATACAAAATAAGGTG
53343801 AGGTAT
1 AGGTAT
53343807 TACTAATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.25
Consensus pattern (19 bp):
AGGTATACAAAATAAGGTG
Found at i:53345418 original size:2 final size:2
Alignment explanation
Indices: 53345411--53345435 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
53345401 TTGCTTCGTG
53345411 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
53345436 GAAATACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53346748 original size:12 final size:12
Alignment explanation
Indices: 53346731--53346759 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
53346721 TAGAAAATGA
53346731 ATGTATTAAAAT
1 ATGTATTAAAAT
53346743 ATGTATTAAAAT
1 ATGTATTAAAAT
53346755 ATGTA
1 ATGTA
53346760 GGTATGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (12 bp):
ATGTATTAAAAT
Found at i:53346959 original size:3 final size:3
Alignment explanation
Indices: 53346951--53347006 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
53346941 ATATAGTAGG
53346951 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
53346999 AAT AAT AA
1 AAT AAT AA
53347007 AGTCATAGTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:53354284 original size:22 final size:22
Alignment explanation
Indices: 53354235--53354303 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
53354225 ATAATAAGAA
* *
53354235 CAAAATAGTAGCAATATAATAG
1 CAAAATAGCAGCAAAATAATAG
** *
53354257 TGAAATAGCAGCAAAATAGTAG
1 CAAAATAGCAGCAAAATAATAG
* *
53354279 CAAAATAAG-AACAAAACAATAG
1 CAAAAT-AGCAGCAAAATAATAG
53354301 CAA
1 CAA
53354304 CAAGAGAAAG
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.16
Consensus pattern (22 bp):
CAAAATAGCAGCAAAATAATAG
Found at i:53355186 original size:20 final size:22
Alignment explanation
Indices: 53355152--53355199 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
53355142 AACTAGTTCA
53355152 AGTTTGAGGGGTCATG-TTTGG
1 AGTTTGAGGGGTCATGATTTGG
* *
53355173 AGTTT-AGGGTTCATGATTTTG
1 AGTTTGAGGGGTCATGATTTGG
53355194 AGTTTG
1 AGTTTG
53355200 TGGTTCAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.17, C:0.04, G:0.35, T:0.44
Consensus pattern (22 bp):
AGTTTGAGGGGTCATGATTTGG
Found at i:53355196 original size:21 final size:21
Alignment explanation
Indices: 53355152--53355210 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
53355142 AACTAGTTCA
*
53355152 AGTTTGAGGGGTCATG-TTTGG
1 AGTTT-AGGGTTCATGATTTGG
*
53355173 AGTTTAGGGTTCATGATTTTG
1 AGTTTAGGGTTCATGATTTGG
53355194 AGTTT-GTGGTTCA-GATT
1 AGTTTAG-GGTTCATGATT
53355211 CGTCATGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.17, C:0.05, G:0.34, T:0.44
Consensus pattern (21 bp):
AGTTTAGGGTTCATGATTTGG
Found at i:53355227 original size:29 final size:31
Alignment explanation
Indices: 53355183--53355240 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
53355173 AGTTTAGGGT
*
53355183 TCATGATTTTGAGTTT-GTGGTTCA-GATTCG
1 TCATGATTTGGAGTTTAG-GGTTCATGATTCG
53355213 TCATG-TTTGGAGTTTAGGGTTCATGATT
1 TCATGATTTGGAGTTTAGGGTTCATGATT
53355241 TTGAGTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.17, C:0.09, G:0.28, T:0.47
Consensus pattern (31 bp):
TCATGATTTGGAGTTTAGGGTTCATGATTCG
Found at i:53355227 original size:50 final size:50
Alignment explanation
Indices: 53355162--53355262 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
53355152 AGTTTGAGGG
53355162 GTCATGTTTGGAGTTTAGGGTTCATGATTTTGAGTTTGTGGTTCAGATTC
1 GTCATGTTTGGAGTTTAGGGTTCATGATTTTGAGTTTGTGGTTCAGATTC
53355212 GTCATGTTTGGAGTTTAGGGTTCATGATTTTGAGTTTGTGGTTCAGATTC
1 GTCATGTTTGGAGTTTAGGGTTCATGATTTTGAGTTTGTGGTTCAGATTC
53355262 G
1 G
53355263 GGGTTCATGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.16, C:0.08, G:0.31, T:0.46
Consensus pattern (50 bp):
GTCATGTTTGGAGTTTAGGGTTCATGATTTTGAGTTTGTGGTTCAGATTC
Found at i:53355247 original size:21 final size:21
Alignment explanation
Indices: 53355213--53355260 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
53355203 TTCAGATTCG
53355213 TCATG-TTTGGAGTTTAG-GGT
1 TCATGATTTGGAGTTT-GTGGT
*
53355233 TCATGATTTTGAGTTTGTGGT
1 TCATGATTTGGAGTTTGTGGT
53355254 TCA-GATT
1 TCATGATT
53355261 CGGGGTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.17, C:0.06, G:0.29, T:0.48
Consensus pattern (21 bp):
TCATGATTTGGAGTTTGTGGT
Found at i:53358769 original size:44 final size:42
Alignment explanation
Indices: 53358694--53358803 Score: 114
Period size: 44 Copynumber: 2.6 Consensus size: 42
53358684 ATATGTGTTA
* * * **
53358694 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATT
1 TCGTATAAGACCATGTCTGGGACATCAGCATC-ATATT-AGATT
* *
53358737 TATGTATAAGACCATGTCTGGGACATCAGCATCATATTTGATT
1 T-CGTATAAGACCATGTCTGGGACATCAGCATCATATTAGATT
*
53358780 TCGTATAAGACCCTGTCTGGGACA
1 TCGTATAAGACCATGTCTGGGACA
53358804 GTGGCATCGA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 21 0.38
43 8 0.14
44 27 0.48
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TCGTATAAGACCATGTCTGGGACATCAGCATCATATTAGATT
Found at i:53358811 original size:42 final size:42
Alignment explanation
Indices: 53358694--53358821 Score: 118
Period size: 42 Copynumber: 3.0 Consensus size: 42
53358684 ATATGTGTTA
* * * **
53358694 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATT
1 TCGTATAAGACCATGTCTGGGACATCAGCATCGATATT--GATT
*
53358737 TATGTATAAGACCATGTCTGGGACATCAGCATC-ATATTTGATT
1 T-CGTATAAGACCATGTCTGGGACATCAGCATCGATA-TTGATT
* *
53358780 TCGTATAAGACCCTGTCTGGGACAGT-GGCATCGATATTGATT
1 TCGTATAAGACCATGTCTGGGACA-TCAGCATCGATATTGATT
53358822 ACATGTAAGA
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
42 32 0.45
43 12 0.17
44 25 0.35
45 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TCGTATAAGACCATGTCTGGGACATCAGCATCGATATTGATT
Found at i:53359196 original size:17 final size:18
Alignment explanation
Indices: 53359152--53359196 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
53359142 TATGAAATTT
53359152 TGATATGAAATGTGAGTA
1 TGATATGAAATGTGAGTA
*
53359170 TGAT-TAAAATGATGA-TA
1 TGATATGAAATG-TGAGTA
53359187 T-ATATGAAAT
1 TGATATGAAAT
53359197 ATATGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (18 bp):
TGATATGAAATGTGAGTA
Found at i:53370587 original size:27 final size:26
Alignment explanation
Indices: 53370519--53370587 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
53370509 ACTCAAGTCT
* * *
53370519 CGTATTTTATATCTCGATGGACTATCT
1 CGTA-TTTATATCCCGATGGACTACCC
* *
53370546 CGTGTTTATTGTCCCGATGGACTACCC
1 CGTATTTA-TATCCCGATGGACTACCC
53370573 CGTATTTACTATCCC
1 CGTATTTA-TATCCC
53370588 AGTAGACTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (26 bp):
CGTATTTATATCCCGATGGACTACCC
Found at i:53377620 original size:13 final size:14
Alignment explanation
Indices: 53377602--53377631 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
53377592 TGACGCACTT
53377602 GTTAGTTAA-TTTA
1 GTTAGTTAAGTTTA
53377615 GTTAGTTAAGTTTA
1 GTTAGTTAAGTTTA
53377629 GTT
1 GTT
53377632 TTAATTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (14 bp):
GTTAGTTAAGTTTA
Found at i:53387417 original size:20 final size:21
Alignment explanation
Indices: 53387377--53387418 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
53387367 TAAAAGGTTT
*
53387377 AGGATCAAATTTAATTAAAAG
1 AGGATCAAAATTAATTAAAAG
*
53387398 AGGATCAAAATTGA-TAAAAG
1 AGGATCAAAATTAATTAAAAG
53387418 A
1 A
53387419 ATATAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.24
Consensus pattern (21 bp):
AGGATCAAAATTAATTAAAAG
Found at i:53387639 original size:23 final size:26
Alignment explanation
Indices: 53387612--53387658 Score: 73
Period size: 23 Copynumber: 1.9 Consensus size: 26
53387602 CATAAATCTA
53387612 TCAATTT-TGA-AAATAA-AATAACT
1 TCAATTTATGAGAAATAAGAATAACT
53387635 TCAATTTATGAGAAATAAGAATAA
1 TCAATTTATGAGAAATAAGAATAA
53387659 TTAACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 3 0.14
25 6 0.29
26 5 0.24
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (26 bp):
TCAATTTATGAGAAATAAGAATAACT
Found at i:53388635 original size:35 final size:35
Alignment explanation
Indices: 53388584--53388650 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
53388574 ATATATATAT
53388584 ATATAATTTTCATAATCCTAATTCAA-TTCTAACTA
1 ATATAATTTTCATAATCCTAATT-AAGTTCTAACTA
*
53388619 ATATAATTTTCGTAATCCTAATTAAGTTCTAA
1 ATATAATTTTCATAATCCTAATTAAGTTCTAA
53388651 GATAGTGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.07
35 28 0.93
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.43
Consensus pattern (35 bp):
ATATAATTTTCATAATCCTAATTAAGTTCTAACTA
Found at i:53388639 original size:20 final size:19
Alignment explanation
Indices: 53388584--53388640 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
53388574 ATATATATAT
53388584 ATATAATTTTCATAATCCTA
1 ATATAATTTTC-TAATCCTA
53388604 AT-TCAA--TTCTAA--CTA
1 ATAT-AATTTTCTAATCCTA
53388619 ATATAATTTTCGTAATCCTA
1 ATATAATTTTC-TAATCCTA
53388639 AT
1 AT
53388641 TAAGTTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 14
0.68 0.00 0.32
Matches are distributed among these distances:
15 7 0.23
16 1 0.03
17 6 0.20
18 6 0.20
19 1 0.03
20 9 0.30
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.44
Consensus pattern (19 bp):
ATATAATTTTCTAATCCTA
Found at i:53392136 original size:35 final size:35
Alignment explanation
Indices: 53392090--53392157 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
53392080 TATATATATA
53392090 AATATAATTTTCATAATCCTAATTCAA-TTCTAACT
1 AATATAATTTTCATAATCCTAATT-AAGTTCTAACT
*
53392125 AATATAATTTTCGTAATCCTAATTAAGTTCTAA
1 AATATAATTTTCATAATCCTAATTAAGTTCTAA
53392158 GATAGTGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.43
Consensus pattern (35 bp):
AATATAATTTTCATAATCCTAATTAAGTTCTAACT
Found at i:53392146 original size:20 final size:19
Alignment explanation
Indices: 53392090--53392147 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
53392080 TATATATATA
53392090 AATATAATTTTCATAATCCT
1 AATATAATTTTC-TAATCCT
53392110 AAT-TCAA--TTCTAA--CT
1 AATAT-AATTTTCTAATCCT
53392125 AATATAATTTTCGTAATCCT
1 AATATAATTTTC-TAATCCT
53392145 AAT
1 AAT
53392148 TAAGTTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 14
0.69 0.00 0.31
Matches are distributed among these distances:
15 7 0.23
16 1 0.03
17 6 0.19
18 6 0.19
19 1 0.03
20 10 0.32
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATAATTTTCTAATCCT
Found at i:53394100 original size:20 final size:20
Alignment explanation
Indices: 53394074--53394112 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
53394064 GTATAAACGC
53394074 ATTTTTTTTATAT-TACATA
1 ATTTTTTTTATATATACATA
53394093 ATTTTTTTTATATATACATA
1 ATTTTTTTTATATATACATA
53394113 TACATATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTTTTATATATACATA
Found at i:53394407 original size:22 final size:23
Alignment explanation
Indices: 53394365--53394420 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 23
53394355 TGACACCGTG
53394365 TTTTATTTTG-TGTTAAGATTA-A
1 TTTTA-TTTGATGTTAAGATTAGA
53394387 TTTTATTTGATGTATAA-ATTATGA
1 TTTTATTTGATGT-TAAGATTA-GA
53394411 TTTTATTTGA
1 TTTTATTTGA
53394421 ATAAGCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.13
22 12 0.40
23 3 0.10
24 11 0.37
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (23 bp):
TTTTATTTGATGTTAAGATTAGA
Found at i:53396080 original size:24 final size:24
Alignment explanation
Indices: 53396053--53396104 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
53396043 TTAGTAGCTC
*
53396053 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
53396077 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
53396101 AAAT
1 AAAT
53396105 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:53399123 original size:47 final size:49
Alignment explanation
Indices: 53399071--53399190 Score: 147
Period size: 47 Copynumber: 2.5 Consensus size: 49
53399061 TGAACTCTAT
* * * *
53399071 ATATAATTTTCGTGATCTTAATTCAGTTCTAACTAGA-ATATA-TAT-AA
1 ATATAATTTTCCTAATCCTAATTCAATTCTAACTA-ATATATATTATAAA
*
53399118 ATATAATTTTCCTAATCCTAATTCAATTCTAGCTAATATATATTTATAAA
1 ATATAATTTTCCTAATCCTAATTCAATTCTAACTAATATATA-TTATAAA
*
53399168 ATATAATTTTCATAATCCTAATT
1 ATATAATTTTCCTAATCCTAATT
53399191 AAGTTATGCG
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
46 1 0.02
47 35 0.56
49 3 0.05
50 24 0.38
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.44
Consensus pattern (49 bp):
ATATAATTTTCCTAATCCTAATTCAATTCTAACTAATATATATTATAAA
Found at i:53401161 original size:42 final size:43
Alignment explanation
Indices: 53401102--53401186 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 43
53401092 CTGCTTGCTA
53401102 TCCATTTATTTACTTATTCA-TTCTTTTTTATTTCTCAAGATC
1 TCCATTTATTTACTTATTCACTTCTTTTTTATTTCTCAAGATC
* *
53401144 TCCATTTATTTACTTATTCACGCTTTTTTTTTATTTCTTAAGA
1 TCCATTTATTTACTTATTCA--CTTCTTTTTTATTTCTCAAGA
53401187 ATCAATCTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 20 0.53
45 18 0.47
ACGTcount: A:0.21, C:0.18, G:0.04, T:0.58
Consensus pattern (43 bp):
TCCATTTATTTACTTATTCACTTCTTTTTTATTTCTCAAGATC
Found at i:53407346 original size:3 final size:3
Alignment explanation
Indices: 53407338--53407375 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
53407328 TGTAAAATTG
53407338 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
53407376 TTAACATTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:53414873 original size:45 final size:45
Alignment explanation
Indices: 53414805--53415068 Score: 411
Period size: 45 Copynumber: 5.9 Consensus size: 45
53414795 AAGAGGTGGA
** * * *
53414805 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
53414850 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
53414895 CAATATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
53414940 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
53414985 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
53415030 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
53415069 CCCTGGCCGA
Statistics
Matches: 203, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 203 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:53421279 original size:45 final size:45
Alignment explanation
Indices: 53421211--53421474 Score: 395
Period size: 45 Copynumber: 5.9 Consensus size: 45
53421201 AAGAGGTGGA
** * *
53421211 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCATTTGAC
*
53421256 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCATTTGAC
*
53421301 CAACATCATGCATAATTCATGGAA-AAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAAA-TTGAGGAAGCATTTGAC
*
53421346 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCATTTGAC
* * *
53421391 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCATTTGAC
* * *
53421436 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCA
53421475 CCATGGCCGA
Statistics
Matches: 201, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
44 2 0.01
45 197 0.98
46 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAAATTGAGGAAGCATTTGAC
Found at i:53422336 original size:25 final size:25
Alignment explanation
Indices: 53422304--53422377 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 25
53422294 AGCCATCTCT
*
53422304 CGAGCCATATAACGGGAAGCTCATG
1 CGAGCCATATAACGGGAAGCTCATC
* * * *
53422329 TGAGCCATGTAACTGGAAGCTTATC
1 CGAGCCATATAACGGGAAGCTCATC
* **
53422354 CGGGCTGTATAACGGGAAGCTCAT
1 CGAGCCATATAACGGGAAGCTCAT
53422378 AAGAGTCATA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (25 bp):
CGAGCCATATAACGGGAAGCTCATC
Found at i:53422520 original size:26 final size:26
Alignment explanation
Indices: 53422305--53422527 Score: 94
Period size: 26 Copynumber: 8.8 Consensus size: 26
53422295 GCCATCTCTC
* *
53422305 GAGCCATATAACGGGAAGCTCATG-T
1 GAGCCATATAACGGGAAGCTCACGAA
* * *
53422330 GAGCCATGTAACTGGAAGCTTATCCG--
1 GAGCCATATAACGGGAAGCTCA--CGAA
** *
53422356 G-GCTGTATAACGGGAAGCTCA-TAA
1 GAGCCATATAACGGGAAGCTCACGAA
* * ** * *
53422380 GAGTCATAT-TCATGAAGCTCA-TAC
1 GAGCCATATAACGGGAAGCTCACGAA
* *
53422404 GAGTCA-ATAACGGGTAGCTCA-GAAAA
1 GAGCCATATAACGGGAAGCTCACG--AA
*
53422430 GAGCCAT-TAACGGGAAGCTC-CGGA
1 GAGCCATATAACGGGAAGCTCACGAA
* ** *
53422454 TAGCCAT-TAATTAGGAAGCTCACAAA
1 GAGCCATATAA-CGGGAAGCTCACGAA
*
53422480 GAGCC-TTTAATCGGGAAGCTCACGAA
1 GAGCCATATAA-CGGGAAGCTCACGAA
*
53422506 GAGCCATATAACGGGACGCTCA
1 GAGCCATATAACGGGAAGCTCA
53422528 TAAGAGCTGC
Statistics
Matches: 147, Mismatches: 37, Indels: 27
0.70 0.18 0.13
Matches are distributed among these distances:
23 2 0.01
24 36 0.24
25 47 0.32
26 57 0.39
27 5 0.03
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (26 bp):
GAGCCATATAACGGGAAGCTCACGAA
Found at i:53425555 original size:26 final size:25
Alignment explanation
Indices: 53425526--53425606 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 25
53425516 CGCATTTGGG
53425526 TAATATATATTGTAGTTATAGATATA
1 TAATATATATTG-AGTTATAGATATA
*
53425552 TAATAAATATTGAGTT-T--ATATA
1 TAATATATATTGAGTTATAGATATA
*
53425574 TAATAT-TA--GACTTATAGCA-ATA
1 TAATATATATTGAGTTATAG-ATATA
53425596 TAATATATATT
1 TAATATATATT
53425607 ATTAATTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
19 4 0.09
20 1 0.02
21 2 0.04
22 19 0.42
23 3 0.07
24 1 0.02
25 4 0.09
26 11 0.24
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (25 bp):
TAATATATATTGAGTTATAGATATA
Found at i:53427834 original size:3 final size:3
Alignment explanation
Indices: 53427816--53427866 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
53427806 TCAAATACCC
* * * * *
53427816 TTA TTA TT- TTA ATA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
53427863 TTA T
1 TTA T
53427867 GTGCTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:53427998 original size:3 final size:3
Alignment explanation
Indices: 53427990--53428028 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
53427980 TATTCCAATG
53427990 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
53428029 GTTTATGCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:53429291 original size:17 final size:18
Alignment explanation
Indices: 53429271--53429306 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
53429261 TAGTATATTC
53429271 ATAAATATA-ATATAAGT
1 ATAAATATATATATAAGT
*
53429288 ATAAATATATATTTAAGT
1 ATAAATATATATATAAGT
53429306 A
1 A
53429307 ATTTAAATTA
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:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
ATAAATATATATATAAGT
Found at i:53434644 original size:41 final size:40
Alignment explanation
Indices: 53434599--53434700 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 40
53434589 TGATTCAGTA
53434599 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
53434640 CACCGGCATTAAGTCTGCTAGACATATAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
* *
53434681 CACTGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
53434701 AGCGCTATGC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 2 0.04
41 49 0.92
42 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:53441382 original size:22 final size:21
Alignment explanation
Indices: 53441353--53441407 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
53441343 CATGATAGGG
53441353 AAACAATAACAAAATAGTAAGA
1 AAACAATAACAAAATAGTAA-A
* *
53441375 AAATAATAGCAAAATAGTAAA
1 AAACAATAACAAAATAGTAAA
*
53441396 AAACAACAACAA
1 AAACAATAACAA
53441408 GAAGAAAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.69, C:0.11, G:0.07, T:0.13
Consensus pattern (21 bp):
AAACAATAACAAAATAGTAAA
Found at i:53441694 original size:36 final size:35
Alignment explanation
Indices: 53441651--53441721 Score: 90
Period size: 38 Copynumber: 2.0 Consensus size: 35
53441641 AGTATAATGA
53441651 TTTA-TTTTACCTTTTAATTTAATTTTAGTCCTTTAT
1 TTTATTTTTACCTTTTAATTT-ATTTTAG-CCTTTAT
* *
53441687 TTTATTTTTTACTTTTTAATTTTTTTTAGCCTTTA
1 TTTA-TTTTTACCTTTTAATTTATTTTAGCCTTTA
53441722 AACTTGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 10 0.32
37 6 0.19
38 15 0.48
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.68
Consensus pattern (35 bp):
TTTATTTTTACCTTTTAATTTATTTTAGCCTTTAT
Found at i:53443008 original size:72 final size:72
Alignment explanation
Indices: 53442909--53443127 Score: 357
Period size: 72 Copynumber: 3.0 Consensus size: 72
53442899 GAAGGGTTTC
* * * *
53442909 GGTTTGTAAATAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTATA
1 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTGTAGACCGGCACCGGATGAGGCTTATA
53442974 AACCGGT
66 AACCGGT
53442981 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTGTAGACCGGCACCGGATGAGGCTTATA
1 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTGTAGACCGGCACCGGATGAGGCTTATA
53443046 AACCGGT
66 AACCGGT
* * * * *
53443053 GGTTTGTAGACAGGAACCGGCGGAGGGAGTGGTTTCTTGTAGACCGGCACCGGGTGAGGCTTATA
1 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTGTAGACCGGCACCGGATGAGGCTTATA
53443118 AACCGGT
66 AACCGGT
53443125 GGT
1 GGT
53443128 GGAAGAGGTT
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 138 1.00
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.22
Consensus pattern (72 bp):
GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTGTAGACCGGCACCGGATGAGGCTTATA
AACCGGT
Found at i:53444421 original size:18 final size:17
Alignment explanation
Indices: 53444379--53444421 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
53444369 TTTTTAAGTT
*
53444379 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
53444396 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
53444414 TATAATTT
1 TATAATTT
53444422 AGAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:53445992 original size:16 final size:15
Alignment explanation
Indices: 53445961--53446003 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
53445951 AATAACTGGA
*
53445961 AATTAAAATGGCTCG
1 AATTAAAATTGCTCG
*
53445976 AACTTAAAATTGTTCG
1 AA-TTAAAATTGCTCG
53445992 AATCTAAAATTG
1 AAT-TAAAATTG
53446004 ATTCAAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 21 0.88
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (15 bp):
AATTAAAATTGCTCG
Found at i:53463024 original size:9 final size:9
Alignment explanation
Indices: 53463010--53463104 Score: 52
Period size: 9 Copynumber: 9.9 Consensus size: 9
53463000 TTTTACATAC
53463010 TTTTTAAAT
1 TTTTTAAAT
53463019 TTTTTAAA-
1 TTTTTAAAT
*
53463027 TTTTAAAAT
1 TTTTTAAAT
53463036 ATTTTTAAAATACTT
1 -TTTTT--AA-A--T
53463051 TTTTTAAAT
1 TTTTTAAAT
*
53463060 TTTTTTAA-
1 TTTTTAAAT
*
53463068 TTTTAAAAT
1 TTTTTAAAT
53463077 ATTTTTAAAAT
1 -TTTTT-AAAT
*
53463088 ATTTGT-AAT
1 -TTTTTAAAT
53463097 TTTTTAAA
1 TTTTTAAA
53463105 AATTTTAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 22
0.69 0.08 0.23
Matches are distributed among these distances:
8 17 0.25
9 21 0.31
10 8 0.12
11 10 0.15
12 4 0.06
13 1 0.01
14 5 0.07
15 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:53463030 original size:39 final size:39
Alignment explanation
Indices: 53462986--53463116 Score: 176
Period size: 41 Copynumber: 3.3 Consensus size: 39
53462976 CCCGGCCTTT
* *
53462986 AATTTTAAAATATTTTTTACATACTTTTTAAATTTTTTA
1 AATTTTAAAATATTTTTAAAATACTTTTTAAATTTTTTA
*
53463025 AATTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTT
1 AATTTTAAAATATTTTTAAAATAC--TTTTTAAATTTTTTA
*
53463066 AATTTTAAAATATTTTTAAAATA-TTTGT-AATTTTTTAAA
1 AATTTTAAAATATTTTTAAAATACTTTTTAAATTTTTT--A
53463105 AATTTTAAAATA
1 AATTTTAAAATA
53463117 AAAATAGGCC
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
37 8 0.10
38 4 0.05
39 34 0.41
41 37 0.45
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (39 bp):
AATTTTAAAATATTTTTAAAATACTTTTTAAATTTTTTA
Found at i:53463043 original size:11 final size:11
Alignment explanation
Indices: 53462988--53463116 Score: 74
Period size: 11 Copynumber: 12.9 Consensus size: 11
53462978 CGGCCTTTAA
53462988 TTTTAAAATAT
1 TTTTAAAATAT
* *
53462999 TTTTTACATACT
1 TTTTAAAATA-T
53463011 TTTT-AAAT-T
1 TTTTAAAATAT
53463020 TTTT--AA-A-
1 TTTTAAAATAT
53463027 TTTTAAAATAT
1 TTTTAAAATAT
53463038 TTTTAAAATACTT
1 TTTTAAAATA--T
*
53463051 TTTTTAAAT-T
1 TTTTAAAATAT
*
53463061 TTTT----TAA
1 TTTTAAAATAT
53463068 TTTTAAAATAT
1 TTTTAAAATAT
53463079 TTTTAAAATAT
1 TTTTAAAATAT
*
53463090 TTGT--AAT-T
1 TTTTAAAATAT
53463098 TTTTAAAA-A-
1 TTTTAAAATAT
53463107 TTTTAAAATA
1 TTTTAAAATA
53463117 AAAATAGGCC
Statistics
Matches: 93, Mismatches: 8, Indels: 35
0.68 0.06 0.26
Matches are distributed among these distances:
6 1 0.01
7 8 0.09
8 6 0.06
9 18 0.19
10 9 0.10
11 37 0.40
12 5 0.05
13 9 0.10
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:53463096 original size:28 final size:29
Alignment explanation
Indices: 53463036--53463116 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 29
53463026 ATTTTAAAAT
* * *
53463036 ATTTTTAAAATACTTTTTTTAAATTTTTTTA
1 ATTTTTAAAATA--TTTTTAAAATATTTGTA
53463067 A-TTTTAAAATATTTTTAAAATATTTGTA
1 ATTTTTAAAATATTTTTAAAATATTTGTA
53463095 ATTTTTTAAAA-A-TTTTAAAATA
1 A-TTTTTAAAATATTTTTAAAATA
53463117 AAAATAGGCC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
28 25 0.56
29 1 0.02
30 18 0.40
31 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (29 bp):
ATTTTTAAAATATTTTTAAAATATTTGTA
Found at i:53464185 original size:21 final size:22
Alignment explanation
Indices: 53464160--53464202 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
53464150 AAAATATATT
* *
53464160 AAATAT-ATATTTTTATTTTTA
1 AAATATAATAGTTTTAGTTTTA
53464181 AAATATAATAGTTTTAGTTTTA
1 AAATATAATAGTTTTAGTTTTA
53464203 TTTTAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
AAATATAATAGTTTTAGTTTTA
Found at i:53469958 original size:43 final size:42
Alignment explanation
Indices: 53469889--53470044 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
53469879 ATGTATTTTC
* * *
53469889 GTGTAAGATCACGTCTGGGACGTTGGCATCGAATTGTTTATA
1 GTGTAAGACCACGTCTGGGACATTGGCATCGAATTGATTATA
* * *
53469931 CGTATAAGACCATGTCTGGGACATTGGCATCGTATTTGATT-T-
1 -GTGTAAGACCACGTCTGGGACATTGGCATCG-AATTGATTATA
* *
53469973 GTGTAAGACC-CTGTCTAGGACAGTGGCATCGATATGTGATTATA
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGA-AT-TGATTATA
*
53470017 -TGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
53470045 TGTACGAGCC
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
40 1 0.01
41 27 0.29
42 5 0.05
43 52 0.57
44 7 0.08
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGAATTGATTATA
Found at i:53473676 original size:59 final size:58
Alignment explanation
Indices: 53473613--53473732 Score: 213
Period size: 59 Copynumber: 2.1 Consensus size: 58
53473603 ATCAGGCTTG
* *
53473613 TTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAA
1 TTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAA-TTAATAA
53473672 TTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAATAA
1 TTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAATAA
53473730 TTT
1 TTT
53473733 GATAATTTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 9 0.15
59 50 0.85
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (58 bp):
TTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAATAA
Found at i:53473784 original size:23 final size:23
Alignment explanation
Indices: 53473726--53473795 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
53473716 TTAACAATTA
* *
53473726 ATAATTTGATAATTTTACTAACAAT
1 ATAATTT--TAATTTTATTAAAAAT
*
53473751 -TAGTTTTAATTTTATTAAAAAT
1 ATAATTTTAATTTTATTAAAAAT
53473773 ATAATTTTAATTTTAATTAAAAA
1 ATAATTTTAATTTT-ATTAAAAA
53473796 CGAGCCAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 14 0.36
23 12 0.31
24 13 0.33
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (23 bp):
ATAATTTTAATTTTATTAAAAAT
Found at i:53486030 original size:23 final size:24
Alignment explanation
Indices: 53485990--53486041 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
53485980 CATCAACAAT
* * *
53485990 TAAAAATTTAAAATAAAAAATATA
1 TAAAAATTCAAAATAAAAAAGACA
53486014 TAAAAATTCAAAA-AAAAAAGACA
1 TAAAAATTCAAAATAAAAAAGACA
53486037 TAAAA
1 TAAAA
53486042 GTTACTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (24 bp):
TAAAAATTCAAAATAAAAAAGACA
Found at i:53488335 original size:3 final size:3
Alignment explanation
Indices: 53488327--53488366 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
53488317 ATATGTAGGT
*
53488327 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
53488367 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:53488350 original size:15 final size:12
Alignment explanation
Indices: 53488329--53488380 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
53488319 ATGTAGGTAT
53488329 AATAATAATATATA
1 AATAATAATA-A-A
53488343 ATATAATAATAAA
1 A-ATAATAATAAA
53488356 AATAATAATAACA
1 AATAATAATAA-A
*
53488369 AA-ATTAATAAA
1 AATAATAATAAA
53488380 A
1 A
53488381 TAGACTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 2 0.06
12 17 0.49
13 5 0.14
14 2 0.06
15 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:53488850 original size:19 final size:19
Alignment explanation
Indices: 53488803--53488881 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 19
53488793 AAATTAAATC
*
53488803 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
53488823 CCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
53488845 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
53488866 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
53488882 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 14 0.28
21 18 0.36
22 7 0.14
23 11 0.22
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:53488863 original size:21 final size:21
Alignment explanation
Indices: 53488837--53488880 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
53488827 CTAAGATTAC
53488837 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
53488858 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
53488879 AT
1 AT
53488881 CCTTGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:53503270 original size:30 final size:31
Alignment explanation
Indices: 53503236--53503303 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
53503226 TCTAATTAAA
* *
53503236 AAAAGTTACAATTT-AGTCATTGAACTATTT
1 AAAAGTTACAATTTAAGTCACTGAACTATTC
***
53503266 AAAAGTTTTTATTTAAGTCACTGAACTATTC
1 AAAAGTTACAATTTAAGTCACTGAACTATTC
53503297 AAAAGTT
1 AAAAGTT
53503304 TTTATTCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 11 0.34
31 21 0.66
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (31 bp):
AAAAGTTACAATTTAAGTCACTGAACTATTC
Found at i:53503291 original size:31 final size:31
Alignment explanation
Indices: 53503246--53503318 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
53503236 AAAAGTTACA
* *
53503246 ATTT-AGTCATTGAACTATTTAAAAGTTTTT
1 ATTTAAGTCACTGAACTATTCAAAAGTTTTT
53503276 ATTTAAGTCACTGAACTATTCAAAAGTTTTT
1 ATTTAAGTCACTGAACTATTCAAAAGTTTTT
*
53503307 ATTCAAGTCACT
1 ATTTAAGTCACT
53503319 TTATTGTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 4 0.10
31 35 0.90
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (31 bp):
ATTTAAGTCACTGAACTATTCAAAAGTTTTT
Found at i:53519169 original size:18 final size:19
Alignment explanation
Indices: 53519138--53519179 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
53519128 TCATTGATTA
*
53519138 AATTTTTAATATTTTTTCT
1 AATTTTTAATATTTTTTAT
53519157 AATTTTTAA-ATTTTTTAT
1 AATTTTTAATATTTTTTAT
53519175 AATTT
1 AATTT
53519180 CTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTTAATATTTTTTAT
Found at i:53519988 original size:21 final size:20
Alignment explanation
Indices: 53519963--53520003 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
53519953 CCGGCCTATT
*
53519963 TTTTAAATAAACACAAAAAAA
1 TTTTAAA-AAACAAAAAAAAA
*
53519984 TTTTAAAAAATAAAAAAAAA
1 TTTTAAAAAACAAAAAAAAA
53520004 GTATTCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
TTTTAAAAAACAAAAAAAAA
Done.