Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 41 of 163
Found at i:13326533 original size:7 final size:7
Alignment explanation
Indices: 13326521--13326674 Score: 64
Period size: 7 Copynumber: 21.7 Consensus size: 7
13326511 TATTATTATA
13326521 GTTTAGG
1 GTTTAGG
13326528 GTTTAGG
1 GTTTAGG
*
13326535 ATTTAGG
1 GTTTAGG
* **
13326542 GTATATA
1 GTTTAGG
13326549 GTTTAGG
1 GTTTAGG
*
13326556 GTTTAAG
1 GTTTAGG
13326563 GTTTAGG
1 GTTTAGG
**
13326570 AG-TTACT
1 -GTTTAGG
* *
13326577 ATTTAAG
1 GTTTAGG
* *
13326584 GTCTATG
1 GTTTAGG
*
13326591 GATTATGG
1 GTTTA-GG
13326599 GTTTAGG
1 GTTTAGG
* *
13326606 GATTATG
1 GTTTAGG
*
13326613 GTTTATG
1 GTTTAGG
*
13326620 GTTTATGA
1 GTTTA-GG
*
13326628 G-TTGGG
1 GTTTAGG
13326634 GTTTAGGG
1 GTTTA-GG
13326642 GTTT-GAG
1 GTTTAG-G
13326649 G-TTAGG
1 GTTTAGG
*
13326655 GGTTAGGG
1 GTTTA-GG
13326663 GTTTAGG
1 GTTTAGG
13326670 GTTTA
1 GTTTA
13326675 TATTTTATGA
Statistics
Matches: 106, Mismatches: 31, Indels: 20
0.68 0.20 0.13
Matches are distributed among these distances:
6 7 0.07
7 80 0.75
8 19 0.18
ACGTcount: A:0.20, C:0.01, G:0.36, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:13327161 original size:34 final size:35
Alignment explanation
Indices: 13327117--13327281 Score: 158
Period size: 35 Copynumber: 4.8 Consensus size: 35
13327107 NNNNNNNNNN
* * *
13327117 GAACAGGAGAGATTCCCTGCAA-GAAATGATGTGT
1 GAACAGGAGAGATTCCCTGCAACAAAATAATGCGT
* *
13327151 TAACAGGAGAGATTCCCCGCAACAAAATAATGCGT
1 GAACAGGAGAGATTCCCTGCAACAAAATAATGCGT
* * * *
13327186 GAACAGGAGAGATTCCCT-TAA-AATAGTCGA-GCAT
1 GAACAGGAGAGATTCCCTGCAACAA-AAT-AATGCGT
*
13327220 GAATAGGAGAGATTCCCTGCAACAAAATAATGCGT
1 GAACAGGAGAGATTCCCTGCAACAAAATAATGCGT
* * * *
13327255 GAACAGGAAATATTCCCAGCAAGAAAA
1 GAACAGGAGAGATTCCCTGCAACAAAA
13327282 GACAAGTGAA
Statistics
Matches: 104, Mismatches: 21, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
33 2 0.02
34 45 0.43
35 55 0.53
36 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (35 bp):
GAACAGGAGAGATTCCCTGCAACAAAATAATGCGT
Found at i:13327292 original size:69 final size:68
Alignment explanation
Indices: 13327155--13327294 Score: 174
Period size: 69 Copynumber: 2.0 Consensus size: 68
13327145 ATGTGTTAAC
* ** * * *
13327155 AGGAGAGATTCCCCGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTTAAAATAGTCGAGCAT
1 AGGAGAGATTCCCCGCAACAAAATAATGCGTGAACAGGAAAGATTCCCGCAAAAAAGACAAG-AT
13327220 GAAT
65 GAAT
* *
13327224 AGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAATATTCCCAGCAAGAAAAGACAAG-
1 AGGAGAGATTCCCCGCAACAAAATAATGCGTGAACAGGAAAGATTCCC-GCAA-AAAAGACAAGA
13327288 TGAAT
64 TGAAT
13327293 AG
1 AG
13327295 TTCTATAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
69 52 0.85
70 2 0.03
71 7 0.11
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (68 bp):
AGGAGAGATTCCCCGCAACAAAATAATGCGTGAACAGGAAAGATTCCCGCAAAAAAGACAAGATG
AAT
Found at i:13327560 original size:21 final size:21
Alignment explanation
Indices: 13327536--13327590 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
13327526 AATTTAATTT
13327536 TTAAGTTTCCAAATTTTCAAA
1 TTAAGTTTCCAAATTTTCAAA
*
13327557 TTAAGTTTTCAAATTTTCAAA
1 TTAAGTTTCCAAATTTTCAAA
13327578 TTAAGTTTCCAAA
1 TTAAGTTTCCAAA
13327591 CTTAAGCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (21 bp):
TTAAGTTTCCAAATTTTCAAA
Found at i:13340148 original size:26 final size:25
Alignment explanation
Indices: 13340101--13340149 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
13340091 TAATATATGT
**
13340101 TTTAATATATTATTTAGTTTAAATA
1 TTTAATATATTATTTAAATTAAATA
13340126 TTTATATATATTATTTAAATTAAA
1 TTTA-ATATATTATTTAAATTAAA
13340150 ATCTATTTAT
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:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TTTAATATATTATTTAAATTAAATA
Found at i:13340167 original size:16 final size:16
Alignment explanation
Indices: 13340148--13340178 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13340138 ATTTAAATTA
*
13340148 AAATCTATTTATTTTG
1 AAATCAATTTATTTTG
13340164 AAATCAATTTATTTT
1 AAATCAATTTATTTT
13340179 ANNNNNNNNN
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
AAATCAATTTATTTTG
Found at i:13340365 original size:16 final size:16
Alignment explanation
Indices: 13340344--13340374 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13340334 NNNNNNNNNN
*
13340344 ATTTATTTTGAAATCA
1 ATTTATTTTAAAATCA
13340360 ATTTATTTTAAAATC
1 ATTTATTTTAAAATC
13340375 CCTCATATAT
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:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTATTTTAAAATCA
Found at i:13340387 original size:21 final size:20
Alignment explanation
Indices: 13340363--13340410 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
13340353 GAAATCAATT
*
13340363 TATTTTAAAATCCCTCATATA
1 TATTTTAAAAT-CCTAATATA
* *
13340384 TA-TTAAAAATCCTAATATT
1 TATTTTAAAATCCTAATATA
13340403 TATTTTAA
1 TATTTTAA
13340411 CTTACTTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 9 0.41
20 11 0.50
21 2 0.09
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (20 bp):
TATTTTAAAATCCTAATATA
Found at i:13340401 original size:19 final size:20
Alignment explanation
Indices: 13340369--13340406 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
13340359 AATTTATTTT
*
13340369 AAAATCCCTCATATATATTA
1 AAAATCCCTAATATATATTA
*
13340389 AAAAT-CCTAATATTTATT
1 AAAATCCCTAATATATATT
13340407 TTAACTTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATCCCTAATATATATTA
Found at i:13352256 original size:18 final size:18
Alignment explanation
Indices: 13352235--13352274 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
13352225 GAAATATTTA
*
13352235 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
13352253 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
13352271 TTTT
1 TTTT
13352275 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:13352306 original size:12 final size:12
Alignment explanation
Indices: 13352276--13352308 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
13352266 TATATTTTTT
13352276 AAAATT-ATATA
1 AAAATTAATATA
13352287 AAAA-TAATATA
1 AAAATTAATATA
13352298 AAAATTAATAT
1 AAAATTAATAT
13352309 GGGCGAGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:13368484 original size:36 final size:37
Alignment explanation
Indices: 13368426--13368495 Score: 133
Period size: 36 Copynumber: 1.9 Consensus size: 37
13368416 AGTGACTGGG
13368426 TTGGATCGATAAATGACATGAAAAGCACCTCAGGTTA
1 TTGGATCGATAAATGACATGAAAAGCACCTCAGGTTA
13368463 TTGGATCGAT-AATGACATGAAAAGCACCTCAGG
1 TTGGATCGATAAATGACATGAAAAGCACCTCAGG
13368496 GTATCTGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 23 0.70
37 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (37 bp):
TTGGATCGATAAATGACATGAAAAGCACCTCAGGTTA
Found at i:13369817 original size:18 final size:20
Alignment explanation
Indices: 13369794--13369832 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13369784 AGGAATGTCT
*
13369794 AATTCT-TTTC-AAGGTTCA
1 AATTCTATTTCTAAAGTTCA
13369812 AATTCTATTTCTAAAGTTCA
1 AATTCTATTTCTAAAGTTCA
13369832 A
1 A
13369833 CTTACATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (20 bp):
AATTCTATTTCTAAAGTTCA
Found at i:13378575 original size:36 final size:36
Alignment explanation
Indices: 13378528--13378600 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
13378518 TATTTTCAGG
13378528 CTTAGAAGGTGAATGACGACTGTAATGTCGCGATAC
1 CTTAGAAGGTGAATGACGACTGTAATGTCGCGATAC
13378564 CTTAGAAGGTGAATGACGACTGTAATGTCGCGATAC
1 CTTAGAAGGTGAATGACGACTGTAATGTCGCGATAC
13378600 C
1 C
13378601 AGGAAGTGGG
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:0.18, G:0.27, T:0.25
Consensus pattern (36 bp):
CTTAGAAGGTGAATGACGACTGTAATGTCGCGATAC
Found at i:13379554 original size:16 final size:16
Alignment explanation
Indices: 13379533--13379563 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13379523 TTAAATTGGT
*
13379533 TAATTTTTAGTTTAAA
1 TAATTTTTAGGTTAAA
13379549 TAATTTTTAGGTTAA
1 TAATTTTTAGGTTAA
13379564 TTAGTTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
TAATTTTTAGGTTAAA
Found at i:13381455 original size:10 final size:8
Alignment explanation
Indices: 13381422--13381451 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
13381412 AGCCATTTTT
13381422 TATTTTAA
1 TATTTTAA
13381430 TATTTTAA
1 TATTTTAA
13381438 TATTTTAA
1 TATTTTAA
13381446 TATTTT
1 TATTTT
13381452 TTAAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TATTTTAA
Found at i:13381464 original size:16 final size:17
Alignment explanation
Indices: 13381422--13381465 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
13381412 AGCCATTTTT
*
13381422 TATTTTA-ATATTTTAA
1 TATTTTATATTTTTTAA
13381438 TATTTTAATATTTTTTAA
1 TATTTT-ATATTTTTTAA
13381456 -ATTTTATATT
1 TATTTTATATT
13381466 CTAATTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 11 0.44
17 6 0.24
18 8 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTATATTTTTTAA
Found at i:13381464 original size:24 final size:25
Alignment explanation
Indices: 13381424--13381474 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
13381414 CCATTTTTTA
*
13381424 TTTTAATATTTTAATATTTTAATATT
1 TTTTAATATTTTAATATTCTAAT-TT
13381450 TTTTAA-ATTTT-ATATTCTAATTT
1 TTTTAATATTTTAATATTCTAATTT
13381473 TT
1 TT
13381475 CGTTTGTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 9 0.38
25 5 0.21
26 6 0.25
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTAATATTTTAATATTCTAATTT
Found at i:13382582 original size:29 final size:30
Alignment explanation
Indices: 13382523--13382580 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13382513 TCCGAGCCTT
*
13382523 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
13382553 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
13382581 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:13382870 original size:14 final size:14
Alignment explanation
Indices: 13382851--13382913 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
13382841 GATAGAGAGA
13382851 TAAATTTACGGAAT
1 TAAATTTACGGAAT
13382865 TAAATTTACGGAAT
1 TAAATTTACGGAAT
* * *
13382879 T-TATGTTTCAGGGA-
1 TAAAT-TTAC-GGAAT
13382893 -AAATTTACGGAAT
1 TAAATTTACGGAAT
13382906 TAAATTTA
1 TAAATTTA
13382914 GAGTTCTGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
12 3 0.08
13 5 0.13
14 27 0.71
15 3 0.08
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (14 bp):
TAAATTTACGGAAT
Found at i:13389563 original size:18 final size:18
Alignment explanation
Indices: 13389540--13389583 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
13389530 TTATATTTTA
*
13389540 TTTATTTCTT-TCTTTGTT
1 TTTATTT-TTATCTTTATT
*
13389558 TTTATTTTTATTTTTATT
1 TTTATTTTTATCTTTATT
13389576 TTTATTTT
1 TTTATTTT
13389584 ATTATGCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.11, C:0.05, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTATTTTTATCTTTATT
Found at i:13389586 original size:5 final size:6
Alignment explanation
Indices: 13389556--13389583 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
13389546 TCTTTCTTTG
13389556 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
13389584 ATTATGCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:13395298 original size:16 final size:16
Alignment explanation
Indices: 13395273--13395307 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13395263 AATTAAAAAC
*
13395273 TTTGGAACTTTTAATT
1 TTTGGAACTTGTAATT
*
13395289 TTTGGGACTTGTAATT
1 TTTGGAACTTGTAATT
13395305 TTT
1 TTT
13395308 AATTTTTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.06, G:0.17, T:0.57
Consensus pattern (16 bp):
TTTGGAACTTGTAATT
Found at i:13395330 original size:23 final size:24
Alignment explanation
Indices: 13395280--13395332 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
13395270 AACTTTGGAA
13395280 CTTTTAATTTTTGGGACTTGTAAT
1 CTTTTAATTTTTGGGACTTGTAAT
* * *
13395304 -TTTTAATTTTTTGGA-TTTTTAT
1 CTTTTAATTTTTGGGACTTGTAAT
13395326 CTTTTAA
1 CTTTTAA
13395333 AAAAATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.21, C:0.06, G:0.11, T:0.62
Consensus pattern (24 bp):
CTTTTAATTTTTGGGACTTGTAAT
Found at i:13395610 original size:22 final size:21
Alignment explanation
Indices: 13395547--13395603 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
13395537 TAACATAGAA
* *
13395547 ATTTTTCAAATT-TTTTTATGT
1 ATTTTTCATATTATTTTTGT-T
13395568 -TTTTTCATAGTTATTTTTGTT
1 ATTTTTCATA-TTATTTTTGTT
13395589 ATTTTTCAT-TTATTT
1 ATTTTTCATATTATTT
13395604 GTATGTTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 14 0.45
21 3 0.10
22 14 0.45
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.70
Consensus pattern (21 bp):
ATTTTTCATATTATTTTTGTT
Found at i:13406682 original size:2 final size:2
Alignment explanation
Indices: 13406677--13406704 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13406667 CAAAAAAAGA
13406677 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
13406705 TTCACAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13408443 original size:16 final size:17
Alignment explanation
Indices: 13408418--13408451 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13408408 AAATATTATT
*
13408418 TAATTTTTAA-TTAATA
1 TAATTATTAAGTTAATA
13408434 TAATTATTAAGTTAATA
1 TAATTATTAAGTTAATA
13408451 T
1 T
13408452 TATTTTTAAA
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:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TAATTATTAAGTTAATA
Found at i:13408460 original size:17 final size:16
Alignment explanation
Indices: 13408418--13408460 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
13408408 AAATATTATT
13408418 TAATTTTTAATTAATA
1 TAATTTTTAATTAATA
*
13408434 TAATTATTAAGTTAATA
1 TAATTTTTAA-TTAATA
*
13408451 TTATTTTTAA
1 TAATTTTTAA
13408461 AATTTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TAATTTTTAATTAATA
Found at i:13410489 original size:22 final size:21
Alignment explanation
Indices: 13410463--13410515 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
13410453 TTTTATCTCA
13410463 AATTTCTTCTTTTACTATTTT
1 AATTTCTTCTTTTACTATTTT
*
13410484 CAATTTCTT-TATTACTATTTT
1 -AATTTCTTCTTTTACTATTTT
13410505 --TTTCTTCTTTT
1 AATTTCTTCTTTT
13410516 CAGATCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 6 0.21
19 3 0.11
21 11 0.39
22 8 0.29
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (21 bp):
AATTTCTTCTTTTACTATTTT
Found at i:13410500 original size:21 final size:22
Alignment explanation
Indices: 13410463--13410504 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
13410453 TTTTATCTCA
*
13410463 AATTTCTTCTTTTACTATTTTC
1 AATTTCTTCTATTACTATTTTC
13410485 AATTTCTT-TATTACTATTTT
1 AATTTCTTCTATTACTATTTT
13410505 TTTCTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (22 bp):
AATTTCTTCTATTACTATTTTC
Found at i:13424256 original size:29 final size:31
Alignment explanation
Indices: 13424191--13424259 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 31
13424181 AAATCAAATT
*
13424191 GGTCAATTG-ATTATTTTTATTAATATGAGG
1 GGTCAATTGAATTATTTTCATTAATATGAGG
*
13424221 GGCCAATTGAATTATTTTCATT-AT-TGAGG
1 GGTCAATTGAATTATTTTCATTAATATGAGG
*
13424250 GTTCAATTGA
1 GGTCAATTGA
13424260 GGCATTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 13 0.38
30 10 0.29
31 11 0.32
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.43
Consensus pattern (31 bp):
GGTCAATTGAATTATTTTCATTAATATGAGG
Found at i:13432932 original size:18 final size:21
Alignment explanation
Indices: 13432901--13432944 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 21
13432891 AAAAATATAA
13432901 ATTTTAGAATTTTTAAAAA-T
1 ATTTTAGAATTTTTAAAAATT
13432921 ATTTT-GAA-TTTTAAAAATT
1 ATTTTAGAATTTTTAAAAATT
13432940 ATTTT
1 ATTTT
13432945 TATTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.39
19 9 0.39
20 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTTAGAATTTTTAAAAATT
Found at i:13433126 original size:104 final size:104
Alignment explanation
Indices: 13432992--13433190 Score: 398
Period size: 104 Copynumber: 1.9 Consensus size: 104
13432982 TTGCTCATTT
13432992 TCAAAATTGATAGGGACCAAATGAGTATTTGCACCAATCTATTATTTGAGTCATTCAAATTATTT
1 TCAAAATTGATAGGGACCAAATGAGTATTTGCACCAATCTATTATTTGAGTCATTCAAATTATTT
13433057 GAATTTTTCGAATTGTAAAATTCAACTCGATCAATTTGC
66 GAATTTTTCGAATTGTAAAATTCAACTCGATCAATTTGC
13433096 TCAAAATTGATAGGGACCAAATGAGTATTTGCACCAATCTATTATTTGAGTCATTCAAATTATTT
1 TCAAAATTGATAGGGACCAAATGAGTATTTGCACCAATCTATTATTTGAGTCATTCAAATTATTT
13433161 GAATTTTTCGAATTGTAAAATTCAACTCGA
66 GAATTTTTCGAATTGTAAAATTCAACTCGA
13433191 CTTGAACTCG
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 95 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (104 bp):
TCAAAATTGATAGGGACCAAATGAGTATTTGCACCAATCTATTATTTGAGTCATTCAAATTATTT
GAATTTTTCGAATTGTAAAATTCAACTCGATCAATTTGC
Found at i:13459887 original size:88 final size:88
Alignment explanation
Indices: 13459734--13460387 Score: 824
Period size: 88 Copynumber: 7.4 Consensus size: 88
13459724 GTGAAGATAA
* * * *
13459734 CAGATCTTGCCTTCCTACACCGACAGTGAAGTAGATCGAAGACACTAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTACACCAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
13459799 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* ** * *
13459822 CAGATCTTGCCTTCCTATACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTACACCAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
* * *
13459887 GCAGCAGAGCAGGTTGAAAATTG
66 GCAGCGGAGCAGGTTAAAAATAG
** * * ** * * * * *
13459910 CAGATCTTATCTCCCTA-AGCAGTAGTGGAGTAGATCGAAGACACTAGCCTTGCCTCCCTCGGTG
1 CAGATCTTGCCTTCCTACACCAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
* *
13459974 GCAGCGAAGCAGGTTAAAGATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * * * * * *
13459997 CAAATCTTGCCTTCCTATACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCTCTCGATG
1 CAGATCTTGCCTTCCTACACCAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
*
13460062 GCAGCGGAGCAGGTTAAAGATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* ** ** * * *
13460085 CAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTACACCAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
13460150 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
13460173 CAGATCTTGCCTTCTTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTACACCAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
* *
13460238 GCAGCGGAGTAGGTTCAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
13460261 CAGATCTTGCCTTCCTGCACTAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTACACCAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
13460326 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
13460349 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTACACCAACAGCGAAGCAGATCGA
13460388 TAACCCCAAC
Statistics
Matches: 499, Mismatches: 66, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
87 68 0.14
88 431 0.86
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTACACCAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:13460030 original size:45 final size:45
Alignment explanation
Indices: 13459979--13460118 Score: 133
Period size: 45 Copynumber: 3.2 Consensus size: 45
13459969 CGGTGGCAGC
*
13459979 GAAGCAGGTTAAAGATAGCAAATCTTGCCTTCCTATACTAACAGT
1 GAAGCAGGTTAAAGATAGCAAATCTTGCCTTCCTATACTGACAGT
* * * * ** ** * *
13460024 GAAGCAGATTGAAGACA-CTAGCCTTGCC-TCTCTCGA-TGGCAGC
1 GAAGCAGGTTAAAGATAGCAAATCTTGCCTTC-CTATACTGACAGT
* *
13460067 GGAGCAGGTTAAAGATAGCAAATCTTGCCTTCCTGTACTGACAGT
1 GAAGCAGGTTAAAGATAGCAAATCTTGCCTTCCTATACTGACAGT
13460112 GAAGCAG
1 GAAGCAG
13460119 ATTGAAGACA
Statistics
Matches: 68, Mismatches: 23, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
43 19 0.28
44 22 0.32
45 27 0.40
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (45 bp):
GAAGCAGGTTAAAGATAGCAAATCTTGCCTTCCTATACTGACAGT
Found at i:13460337 original size:43 final size:43
Alignment explanation
Indices: 13460196--13460337 Score: 133
Period size: 44 Copynumber: 3.3 Consensus size: 43
13460186 CTTGCACCAA
13460196 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* * * * * * * * ** **
13460239 CAGCGGAGTAGGTTC-AAAATAGCAGATCTTGCCTTCCTGCACTAA
1 CAGCGAAGCA-GATCGAAGACACCAG-CCTTGCCTCCCTG-GGTTG
13460284 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
*
13460327 CAGCGGAGCAG
1 CAGCGAAGCAG
13460338 GTTAAAAATA
Statistics
Matches: 70, Mismatches: 25, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 26 0.37
44 28 0.40
45 16 0.23
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.18
Consensus pattern (43 bp):
CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
Found at i:13460463 original size:44 final size:44
Alignment explanation
Indices: 13460398--13460574 Score: 228
Period size: 44 Copynumber: 4.0 Consensus size: 44
13460388 TAACCCCAAC
* *
13460398 CCTATCTCCCTGGACAACAATGGAATAGGCTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAATGGAATAGGCTAAAGATTGTGAAT
* *
13460442 CCTATCTCCCTGGTCAGCAATGGAATAGGCTGAGGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAATGGAATAGGCTAAAGATTGTGAAT
* * * * *
13460486 CATATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAATGGAATAGGCTAAAGATTGTGAAT
* * * * *
13460530 CCTATCTCCCTGGTTAGCAGTGGAATAGGTTAAAAATTGCGAAT
1 CCTATCTCCCTGGTCAGCAATGGAATAGGCTAAAGATTGTGAAT
13460574 C
1 C
13460575 TTACTTTTCT
Statistics
Matches: 118, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 118 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAATGGAATAGGCTAAAGATTGTGAAT
Found at i:13467103 original size:30 final size:30
Alignment explanation
Indices: 13467067--13467127 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
13467057 CTAGCTCAAG
13467067 TCTCTGTTAACTTAATTCATATTGCATTCT
1 TCTCTGTTAACTTAATTCATATTGCATTCT
*
13467097 TCTCTGTTAACTTAATTCATCTTGCATTCT
1 TCTCTGTTAACTTAATTCATATTGCATTCT
13467127 T
1 T
13467128 AGTTCCAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.51
Consensus pattern (30 bp):
TCTCTGTTAACTTAATTCATATTGCATTCT
Found at i:13467591 original size:73 final size:73
Alignment explanation
Indices: 13467472--13467620 Score: 289
Period size: 73 Copynumber: 2.0 Consensus size: 73
13467462 GGGACTGAAA
13467472 GAACGAGACAACAGCAACTACTGAATTTGAGAAGGGACTTTAAAAATTTAAAATTAAAGGAAGAA
1 GAACGAGACAACAGCAACTACTGAATTTGAGAAGGGACTTTAAAAATTTAAAATTAAAGGAAGAA
13467537 GAAACAGT
66 GAAACAGT
*
13467545 GAACGAGACAATAGCAACTACTGAATTTGAGAAGGGACTTTAAAAATTTAAAATTAAAGGAAGAA
1 GAACGAGACAACAGCAACTACTGAATTTGAGAAGGGACTTTAAAAATTTAAAATTAAAGGAAGAA
13467610 GAAACAGT
66 GAAACAGT
13467618 GAA
1 GAA
13467621 GCAATATTCA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.50, C:0.10, G:0.21, T:0.19
Consensus pattern (73 bp):
GAACGAGACAACAGCAACTACTGAATTTGAGAAGGGACTTTAAAAATTTAAAATTAAAGGAAGAA
GAAACAGT
Found at i:13481871 original size:26 final size:26
Alignment explanation
Indices: 13481842--13481893 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
13481832 TGTTTAACTT
*
13481842 GAAAAT-TGATCTTTTTTTTAAATAAC
1 GAAAATAT-ATCTCTTTTTTAAATAAC
13481868 GAAAATCATATCTCTTTTTTAAATAA
1 GAAAAT-ATATCTCTTTTTTAAATAA
13481894 TTAACTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 16 0.70
28 1 0.04
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (26 bp):
GAAAATATATCTCTTTTTTAAATAAC
Found at i:13491169 original size:6 final size:6
Alignment explanation
Indices: 13491155--13491187 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
13491145 TTTTCCTTTT
*
13491155 CCTTTC CCTTCC CCTTCC CCTTCC CCTTCC CCT
1 CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCT
13491188 ATCCTTGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
CCTTCC
Found at i:13491254 original size:157 final size:157
Alignment explanation
Indices: 13490994--13491280 Score: 565
Period size: 157 Copynumber: 1.8 Consensus size: 157
13490984 TTCAGGAAAA
*
13490994 TTTTCCTTTCCCTTTCCCTTCCCCTTCCCCTTCCCCTATCCTTGACACCTGATCTTCTGCTTGCC
1 TTTTCCTTTCCCTTCCCCTTCCCCTTCCCCTTCCCCTATCCTTGACACCTGATCTTCTGCTTGCC
13491059 ATCAGCCAACACCGATTCTTAACACCAGACACCGACGTTCATCAAGTCTGGGAATTCTGCCCTGA
66 ATCAGCCAACACCGATTCTTAACACCAGACACCGACGTTCATCAAGTCTGGGAATTCTGCCCTGA
13491124 TGTAAGACATTTTTAGGAAAATTTTCC
131 TGTAAGACATTTTTAGGAAAATTTTCC
13491151 TTTTCCTTTCCCTTCCCCTTCCCCTTCCCCTTCCCCTATCCTTGACACCTGATCTTCTGCTTGCC
1 TTTTCCTTTCCCTTCCCCTTCCCCTTCCCCTTCCCCTATCCTTGACACCTGATCTTCTGCTTGCC
13491216 ATCAGCCAACACCGATTCTTAACACCAGACACCGACGTTCATCAAGTCTGGGAATTCTGCCCTGA
66 ATCAGCCAACACCGATTCTTAACACCAGACACCGACGTTCATCAAGTCTGGGAATTCTGCCCTGA
13491281 ATCAGGAACC
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 129 1.00
ACGTcount: A:0.19, C:0.37, G:0.12, T:0.32
Consensus pattern (157 bp):
TTTTCCTTTCCCTTCCCCTTCCCCTTCCCCTTCCCCTATCCTTGACACCTGATCTTCTGCTTGCC
ATCAGCCAACACCGATTCTTAACACCAGACACCGACGTTCATCAAGTCTGGGAATTCTGCCCTGA
TGTAAGACATTTTTAGGAAAATTTTCC
Found at i:13492769 original size:18 final size:18
Alignment explanation
Indices: 13492739--13492785 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
13492729 GTTGAATCGG
* *
13492739 ATTTTTT-ATTTTTTATT
1 ATTTTTTAAATTTTTAAT
13492756 ATTTTTTAAATTTTTAAT
1 ATTTTTTAAATTTTTAAT
*
13492774 AATTTTTAAATT
1 ATTTTTTAAATT
13492786 AGATCGATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTTTAAATTTTTAAT
Found at i:13493786 original size:87 final size:88
Alignment explanation
Indices: 13493676--13493856 Score: 355
Period size: 87 Copynumber: 2.1 Consensus size: 88
13493666 ATAGTAAATT
13493676 TTTAATTTAGATTATTTATAATTTATAAAATTTTAAATTAGTAATGATAAAATTGCACATTGGTA
1 TTTAATTTAGATTATTTATAATTTATAAAATTTTAAATTAGTAATGATAAAATTGCACATTGGTA
13493741 CCTCAAAAACGATAAAAATTTGA
66 CCTCAAAAACGATAAAAATTTGA
13493764 TTTAATTTAGA-TATTTATAATTTATAAAATTTTAAATTAGTAATGATAAAATTGCACATTGGTA
1 TTTAATTTAGATTATTTATAATTTATAAAATTTTAAATTAGTAATGATAAAATTGCACATTGGTA
13493828 CCTCAAAAACGATAAAAATTTGA
66 CCTCAAAAACGATAAAAATTTGA
13493851 TTTAAT
1 TTTAAT
13493857 CTTTTAAAAA
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 82 0.88
88 11 0.12
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (88 bp):
TTTAATTTAGATTATTTATAATTTATAAAATTTTAAATTAGTAATGATAAAATTGCACATTGGTA
CCTCAAAAACGATAAAAATTTGA
Found at i:13497126 original size:5 final size:5
Alignment explanation
Indices: 13497116--13497143 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13497106 GACATTGTTT
13497116 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
13497144 TTCAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATTAA
Found at i:13499552 original size:15 final size:15
Alignment explanation
Indices: 13499532--13499562 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13499522 GATAAGTCAA
13499532 TACTAAAACCACCAC
1 TACTAAAACCACCAC
13499547 TACTAAAACCACCAC
1 TACTAAAACCACCAC
13499562 T
1 T
13499563 CAAGAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (15 bp):
TACTAAAACCACCAC
Found at i:13503157 original size:21 final size:21
Alignment explanation
Indices: 13503117--13503163 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
13503107 GGGCGTGTAA
*
13503117 GCCATGAGCCAGGCCGTGTGG
1 GCCATGAGCCAAGCCGTGTGG
**
13503138 GCCATGAGCCAAGCTTTGTGG
1 GCCATGAGCCAAGCCGTGTGG
13503159 GCCAT
1 GCCAT
13503164 ACGGGCAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.28, G:0.36, T:0.19
Consensus pattern (21 bp):
GCCATGAGCCAAGCCGTGTGG
Found at i:13518063 original size:16 final size:16
Alignment explanation
Indices: 13518042--13518078 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
13518032 ATATACAGAT
13518042 AATTTAAAACATCATA
1 AATTTAAAACATCATA
*
13518058 AATTTAAAACATCATC
1 AATTTAAAACATCATA
13518074 AATTT
1 AATTT
13518079 TACCATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTTAAAACATCATA
Found at i:13524393 original size:95 final size:91
Alignment explanation
Indices: 13524171--13524491 Score: 305
Period size: 95 Copynumber: 3.5 Consensus size: 91
13524161 TAATTAAACT
* * * * * *
13524171 CTTTTTTTT-CACTCAATT-GGTATTTAAACTTTTAAATTGTATCAAAAATGACATTAAACTTTT
1 CTTTTTTTTGCACTCAATTGGGTACTTGAACTTTTAAAATGTATTAAAAAAGACATCAAACTTTT
* *
13524234 TC-AAAAAAAAACAATTAAGTCCTTG
66 TCAAAAAAAAAACAATTAAGTCCCTA
** * * * * *
13524259 CTTTTTTTTGCACTCAATTGATTGCTTGAACTTTCAAAATGCATTAAAAAGGTCATCAAACTTTT
1 CTTTTTTTTGCACTCAATTGGGTACTTGAACTTTTAAAATGTATTAAAAAAGACATCAAACTTTT
*
13524324 TCAAAAAAAAAAGTAATTAAGTCCCTA
66 TCAAAAAAAAAA-CAATTAAGTCCCTA
* * * *
13524351 CTTTTTTCTTTTGTACTCAATTGGGTACTTGAACTTTTAAAATGTATTAAAAAAGCCCTCAAATT
1 C--TTTT-TTTTGCACTCAATTGGGTACTTGAACTTTTAAAATGTATTAAAAAAGACATCAAACT
* * *
13524416 TTTTCAAAAACAAAA-ATTTAAGCCCCTGA
63 TTTTCAAAAAAAAAACAATTAAGTCCCT-A
* * * *
13524445 --TTTTTTTACACTCAATTAGGTACTTGAAC-TGTAAAATGTATCAAAAA
1 CTTTTTTTTGCACTCAATTGGGTACTTGAACTTTTAAAATGTATTAAAAA
13524492 GGCTCATTAA
Statistics
Matches: 192, Mismatches: 33, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
88 25 0.13
89 32 0.17
90 38 0.20
91 9 0.05
92 12 0.06
93 10 0.05
94 5 0.03
95 61 0.32
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (91 bp):
CTTTTTTTTGCACTCAATTGGGTACTTGAACTTTTAAAATGTATTAAAAAAGACATCAAACTTTT
TCAAAAAAAAAACAATTAAGTCCCTA
Found at i:13524660 original size:29 final size:29
Alignment explanation
Indices: 13524627--13524692 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
13524617 CAATGAAAGT
13524627 TATAAAAAT-TATTAAATTTTAATAAAAAA
1 TATAAAAATAT-TTAAATTTTAATAAAAAA
* *
13524656 TATAAACATATTTAAATTTTATTAAAAAA
1 TATAAAAATATTTAAATTTTAATAAAAAA
*
13524685 TAGAAAAA
1 TATAAAAA
13524693 AATTAATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (29 bp):
TATAAAAATATTTAAATTTTAATAAAAAA
Found at i:13527611 original size:30 final size:30
Alignment explanation
Indices: 13527577--13527636 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
13527567 TAACCATTAA
13527577 GCTATTTCCTCATTTTTGAAATAATTTTGC
1 GCTATTTCCTCATTTTTGAAATAATTTTGC
13527607 GCTATTTCCTCATTTTTGAAATAATTTTGC
1 GCTATTTCCTCATTTTTGAAATAATTTTGC
13527637 AATATTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (30 bp):
GCTATTTCCTCATTTTTGAAATAATTTTGC
Found at i:13527643 original size:30 final size:30
Alignment explanation
Indices: 13527579--13527643 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
13527569 ACCATTAAGC
**
13527579 TATTTCCTCATTTTTGAAATAATTTTGCGC
1 TATTTCCTCATTTTTGAAATAATTTTGCAA
13527609 TATTTCCTCATTTTTGAAATAATTTTGCAA
1 TATTTCCTCATTTTTGAAATAATTTTGCAA
13527639 TATTT
1 TATTT
13527644 ATTTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.52
Consensus pattern (30 bp):
TATTTCCTCATTTTTGAAATAATTTTGCAA
Found at i:13527949 original size:21 final size:18
Alignment explanation
Indices: 13527893--13527948 Score: 51
Period size: 21 Copynumber: 2.9 Consensus size: 18
13527883 ATGTTACAAA
*
13527893 TATAAAAATCGTAAAAAT
1 TATAAAAATCATAAAAAT
*
13527911 TATAAAAAT-ATTGTAAAATTT
1 TATAAAAATCA---TAAAA-AT
13527932 TATAAAAATCATAAAAA
1 TATAAAAATCATAAAAA
13527949 AAATTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
18 9 0.30
19 5 0.17
20 5 0.17
21 10 0.33
22 1 0.03
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (18 bp):
TATAAAAATCATAAAAAT
Found at i:13527970 original size:21 final size:21
Alignment explanation
Indices: 13527905--13527959 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
13527895 TAAAAATCGT
**
13527905 AAAAATTATAAAAAT-ATTGTA
1 AAAAATTATAAAAATCA-TAAA
**
13527926 AAATTTTATAAAAATCATAAA
1 AAAAATTATAAAAATCATAAA
13527947 AAAAATTATAAAA
1 AAAAATTATAAAA
13527960 TGCATCAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAATTATAAAAATCATAAA
Found at i:13528162 original size:13 final size:13
Alignment explanation
Indices: 13528144--13528168 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13528134 GTACGATAAG
13528144 TTTTATAAATTTA
1 TTTTATAAATTTA
13528157 TTTTATAAATTT
1 TTTTATAAATTT
13528169 TATATTTCTT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTATAAATTTA
Found at i:13528261 original size:11 final size:11
Alignment explanation
Indices: 13528242--13528277 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
13528232 TATTTATATA
*
13528242 TTTTATAATTT
1 TTTTCTAATTT
13528253 TTTTCTAATTTT
1 TTTTCTAA-TTT
13528265 TTTTCTAATTT
1 TTTTCTAATTT
13528276 TT
1 TT
13528278 ATATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTCTAATTT
Found at i:13528267 original size:12 final size:12
Alignment explanation
Indices: 13528250--13528277 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13528240 TATTTTATAA
13528250 TTTTTTTCTAAT
1 TTTTTTTCTAAT
13528262 TTTTTTTCTAAT
1 TTTTTTTCTAAT
13528274 TTTT
1 TTTT
13528278 ATATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTCTAAT
Found at i:13528276 original size:20 final size:20
Alignment explanation
Indices: 13528253--13528306 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
13528243 TTTATAATTT
13528253 TTTTCTAATTTTTT-TTCTAA
1 TTTT-TAATTTTTTATTCTAA
* *
13528273 TTTTTATATTTTTTATTTTAT
1 TTTTTA-ATTTTTTATTCTAA
13528294 TTTTATAATTTTT
1 TTTT-TAATTTTT
13528307 ATTGATCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 2 0.07
20 11 0.38
21 14 0.48
22 2 0.07
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTAATTTTTTATTCTAA
Found at i:13528288 original size:41 final size:40
Alignment explanation
Indices: 13528214--13528306 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 40
13528204 CTTTATAAAA
*
13528214 TTTTATAA-TGTTTTTCTATATTTATATATTTTATAATT-T
1 TTTTATAATTTTTTTTCTATATTTATATATTTTAT-ATTAT
* * * *
13528253 TTTTCTAATTTTTTTTCTAATTTTTATATTTTTTATTTTAT
1 TTTTATAATTTTTTTTCT-ATATTTATATATTTTATATTAT
13528294 TTTTATAATTTTT
1 TTTTATAATTTTT
13528307 ATTGATCTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 7 0.16
40 10 0.22
41 28 0.62
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (40 bp):
TTTTATAATTTTTTTTCTATATTTATATATTTTATATTAT
Found at i:13528306 original size:39 final size:40
Alignment explanation
Indices: 13528214--13528306 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 40
13528204 CTTTATAAAA
13528214 TTTTATAATGTTTTTCTATATTTATATATTTTATAATTTTT
1 TTTTATAAT-TTTTTCTATATTTATATATTTTATAATTTTT
* * * *
13528255 TTCTA-ATTTTTTTTCTA-ATTTTTATATTTT-TTATTTTAT
1 TTTTATA-ATTTTTTCTATATTTATATATTTTATAATTTT-T
13528294 TTTTATAATTTTT
1 TTTTATAATTTTT
13528307 ATTGATCTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
38 6 0.14
39 22 0.51
40 10 0.23
41 5 0.12
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (40 bp):
TTTTATAATTTTTTCTATATTTATATATTTTATAATTTTT
Found at i:13528307 original size:20 final size:20
Alignment explanation
Indices: 13528214--13528309 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 20
13528204 CTTTATAAAA
* *
13528214 TTTTATAATGTTT-TTCTAT
1 TTTTATAATTTTTATTTTAT
* *
13528233 ATTTAT-ATATTTTATAATT-T
1 TTTTATAAT-TTTTAT-TTTAT
*
13528253 TTTTCTAATTTTT-TTTCTAAT
1 TTTTATAATTTTTATTT-T-AT
*
13528274 TTTTATATTTTTTATTTTAT
1 TTTTATAATTTTTATTTTAT
13528294 TTTTATAATTTTTATT
1 TTTTATAATTTTTATT
13528310 GATCTTTATT
Statistics
Matches: 59, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
18 3 0.05
19 10 0.17
20 27 0.46
21 16 0.27
22 3 0.05
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (20 bp):
TTTTATAATTTTTATTTTAT
Found at i:13528317 original size:19 final size:20
Alignment explanation
Indices: 13528275--13528318 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
13528265 TTTTCTAATT
* * *
13528275 TTTATATTTTTTATTTTATT
1 TTTATAATTTTTATTTGATC
13528295 TTTATAATTTTTA-TTGATC
1 TTTATAATTTTTATTTGATC
13528314 TTTAT
1 TTTAT
13528319 TTTTAGCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTATAATTTTTATTTGATC
Found at i:13528657 original size:13 final size:13
Alignment explanation
Indices: 13528639--13528666 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13528629 AAAAACTTGA
13528639 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
13528652 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
13528665 TT
1 TT
13528667 AAAAGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:13544194 original size:11 final size:11
Alignment explanation
Indices: 13544180--13544205 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13544170 TAAAAATGAA
13544180 TTTTAAATAAT
1 TTTTAAATAAT
13544191 TTTTAAATAAT
1 TTTTAAATAAT
13544202 TTTT
1 TTTT
13544206 TGTCGAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAATAAT
Found at i:13555951 original size:22 final size:21
Alignment explanation
Indices: 13555921--13555962 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13555911 AACTAATTTC
13555921 ATTTCAATTATCATAATTTTTA
1 ATTTCAATT-TCATAATTTTTA
* *
13555943 ATTTTAATTTTATAATTTTT
1 ATTTCAATTTCATAATTTTT
13555963 TTATAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTCAATTTCATAATTTTTA
Found at i:13556751 original size:14 final size:15
Alignment explanation
Indices: 13556734--13556762 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13556724 TAATTTAAGC
13556734 ATAATGA-ACATATA
1 ATAATGATACATATA
13556748 ATAATGATACATATA
1 ATAATGATACATATA
13556763 TAGAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (15 bp):
ATAATGATACATATA
Found at i:13557606 original size:51 final size:52
Alignment explanation
Indices: 13557510--13557609 Score: 175
Period size: 51 Copynumber: 1.9 Consensus size: 52
13557500 CTCTCAAATA
13557510 AAAAATTAAAATCATCCAAAAAAATCCCTAAACCTATATAGTAATAATTATC
1 AAAAATTAAAATCATCCAAAAAAATCCCTAAACCTATATAGTAATAATTATC
* *
13557562 AAAAATTAAAATCATCC-AAAAAATCCCTAAATCTATATATTAATAATT
1 AAAAATTAAAATCATCCAAAAAAATCCCTAAACCTATATAGTAATAATT
13557610 TTATTTATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 29 0.63
52 17 0.37
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.29
Consensus pattern (52 bp):
AAAAATTAAAATCATCCAAAAAAATCCCTAAACCTATATAGTAATAATTATC
Found at i:13559873 original size:30 final size:30
Alignment explanation
Indices: 13559837--13559898 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
13559827 CAACTTTTTA
13559837 TTATTTGTGCGACCGTATAGGACATCACAC
1 TTATTTGTGCGACCGTATAGGACATCACAC
13559867 TTATTTGTGCGACCGTATAGGACATCACAC
1 TTATTTGTGCGACCGTATAGGACATCACAC
13559897 TT
1 TT
13559899 GTAAGTGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (30 bp):
TTATTTGTGCGACCGTATAGGACATCACAC
Found at i:13562947 original size:31 final size:31
Alignment explanation
Indices: 13562894--13562956 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
13562884 TAAGGACTTG
13562894 AGGCTTTTTAATATTGCACTTCTC-AGGAGAC
1 AGGCTTTTTAATATTGCACTTCTCGA-GAGAC
**
13562925 AGGCTTTTTAATATTGTGCTTCTCGAGAGAC
1 AGGCTTTTTAATATTGCACTTCTCGAGAGAC
13562956 A
1 A
13562957 TGTGTGACGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (31 bp):
AGGCTTTTTAATATTGCACTTCTCGAGAGAC
Found at i:13563494 original size:55 final size:55
Alignment explanation
Indices: 13563405--13563510 Score: 203
Period size: 55 Copynumber: 1.9 Consensus size: 55
13563395 AAAATCTGGC
13563405 TATTTAGCTTATTCTTAAGAAGATCGGTTATGGGTCACATCGTTTATTTTGGAGG
1 TATTTAGCTTATTCTTAAGAAGATCGGTTATGGGTCACATCGTTTATTTTGGAGG
*
13563460 TATTTAGCTTATTCTTAAGAAGATCGGTTTTGGGTCACATCGTTTATTTTG
1 TATTTAGCTTATTCTTAAGAAGATCGGTTATGGGTCACATCGTTTATTTTG
13563511 AAGGACTATC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.23, C:0.11, G:0.22, T:0.44
Consensus pattern (55 bp):
TATTTAGCTTATTCTTAAGAAGATCGGTTATGGGTCACATCGTTTATTTTGGAGG
Found at i:13565436 original size:22 final size:22
Alignment explanation
Indices: 13565372--13565437 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
13565362 TCATATATAT
** *
13565372 CATATATAGGGTTTTCATATAA
1 CATATATAGGGTTCACATGTAA
**
13565394 CATATGTATAGAATTCACATGTAA
1 CATA--TATAGGGTTCACATGTAA
*
13565418 CATATATAGGGTTCGCATGT
1 CATATATAGGGTTCACATGT
13565438 TTAACCTAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 17 0.50
24 17 0.50
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (22 bp):
CATATATAGGGTTCACATGTAA
Found at i:13565983 original size:46 final size:46
Alignment explanation
Indices: 13565933--13566025 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
13565923 CACCTGCCAT
* * *
13565933 TTTCCCACTTTGGCTGAATTTAAAAGGAAAGGGAAAGAAAGAGGCA
1 TTTCCCACTTTGGCCGAAATTAAAAGGAAAAGGAAAGAAAGAGGCA
13565979 TTTCCCACTTTGGCCGAAATTAAAAGGAAAAGGAAAGAAAGAGGCA
1 TTTCCCACTTTGGCCGAAATTAAAAGGAAAAGGAAAGAAAGAGGCA
13566025 T
1 T
13566026 GAATCAATCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (46 bp):
TTTCCCACTTTGGCCGAAATTAAAAGGAAAAGGAAAGAAAGAGGCA
Found at i:13586735 original size:50 final size:50
Alignment explanation
Indices: 13586675--13587019 Score: 285
Period size: 50 Copynumber: 6.9 Consensus size: 50
13586665 GTGATGTCGA
* * * *
13586675 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCTG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCCTG
* ** * * *
13586725 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCCTG
* * * * * * * *
13586775 GGAAGTAAGATTCACCGTTGTGGCGTTAATCTATTCCACTACACCGCTTG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCCTG
* * * ** * * *
13586825 AGAAGTAAGATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCAATGTCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCCTG
* * * * * *
13586875 GGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCACTGCATCGCCTG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCCTG
* * ** * * * *
13586925 GGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGTAATGTCAG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCCTG
* * * * *
13586975 GGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAAC
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAAC
13587020 CTCAGGGGGA
Statistics
Matches: 218, Mismatches: 77, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
50 218 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (50 bp):
GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCCTG
Found at i:13587017 original size:100 final size:100
Alignment explanation
Indices: 13586648--13587014 Score: 529
Period size: 100 Copynumber: 3.7 Consensus size: 100
13586638 TAACTCGTAA
* ** * * * *
13586648 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAGC-TTCAATCTGTTCC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCGTT-AATCTGTTCC
13586712 ACTACACCGCCTGGGAAGTAAGATTCGCTGTTGTAG
65 ACTACACCGCCTGGGAAGTAAGATTCGCTGTTGTAG
* *
13586748 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGGCGTTAATCTATTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCCA
* * *
13586813 CTACACCGCTTGAGAAGTAAGATTCGCTGTGGTAG
66 CTACACCGCCTGGGAAGTAAGATTCGCTGTTGTAG
* *
13586848 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCCA
* * *
13586913 CTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTAG
66 CTACACCGCCTGGGAAGTAAGATTCGCTGTTGTAG
* * * *
13586948 CTTTAATCTTTTTAACTGTAATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCCA
13587013 CT
66 CT
13587015 GCAACCTCAG
Statistics
Matches: 238, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
100 236 0.99
101 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCCA
CTACACCGCCTGGGAAGTAAGATTCGCTGTTGTAG
Found at i:13588519 original size:7 final size:7
Alignment explanation
Indices: 13588498--13588549 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
13588488 CCTTAGCCTC
13588498 TTCATTT
1 TTCATTT
13588505 TT-ACTTT
1 TTCA-TTT
13588512 TTCATTT
1 TTCATTT
13588519 TTCATTCT
1 TTCATT-T
*
13588527 TT--GTT
1 TTCATTT
13588532 TTCATTT
1 TTCATTT
13588539 TTCATTT
1 TTCATTT
13588546 TTCA
1 TTCA
13588550 CATTTTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
5 3 0.08
6 2 0.05
7 29 0.76
8 4 0.11
ACGTcount: A:0.13, C:0.15, G:0.02, T:0.69
Consensus pattern (7 bp):
TTCATTT
Found at i:13589455 original size:18 final size:18
Alignment explanation
Indices: 13589434--13589482 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
13589424 TAACTTTGAC
* *
13589434 TTTGATTTTTTTTTTCTT
1 TTTGATTTTTCTTTTCAT
* * *
13589452 TTTGCTTTTGCTTTTGAT
1 TTTGATTTTTCTTTTCAT
13589470 TTTGATTTTTCTT
1 TTTGATTTTTCTT
13589483 CCCCTTTTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.06, C:0.08, G:0.10, T:0.76
Consensus pattern (18 bp):
TTTGATTTTTCTTTTCAT
Found at i:13591055 original size:15 final size:15
Alignment explanation
Indices: 13591035--13591064 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13591025 AATGGACTTT
*
13591035 AATGCATGTAATGAA
1 AATGCATGAAATGAA
13591050 AATGCATGAAATGAA
1 AATGCATGAAATGAA
13591065 TGCCTAGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.20, T:0.23
Consensus pattern (15 bp):
AATGCATGAAATGAA
Found at i:13596587 original size:65 final size:65
Alignment explanation
Indices: 13596505--13596628 Score: 189
Period size: 65 Copynumber: 1.9 Consensus size: 65
13596495 AGTTGAATTC
13596505 AATGTATAAATTTTATATACATATGTGGTTCAAATA-TAGGTTACAAATT-TCTTGAGCTGGATT
1 AATGTATAAATTTTATATACATATGTGGTTCAAATATTA-GTTACAAATTCT-TTGAGCTGGATT
13596568 TT
64 TT
* **
13596570 AATGTATGAATTTTATATACATATGTGGTTTGAATATTAGTTACAAATTCTTTGAGCTG
1 AATGTATAAATTTTATATACATATGTGGTTCAAATATTAGTTACAAATTCTTTGAGCTG
13596629 AAGTTAAAGT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
65 51 0.94
66 3 0.06
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (65 bp):
AATGTATAAATTTTATATACATATGTGGTTCAAATATTAGTTACAAATTCTTTGAGCTGGATTTT
Found at i:13596841 original size:41 final size:41
Alignment explanation
Indices: 13596796--13596936 Score: 228
Period size: 41 Copynumber: 3.4 Consensus size: 41
13596786 CTTTGTGCCT
13596796 GCAGGCTTAATGCCGGTGAAATATTTTAGACTTTACGTCTA
1 GCAGGCTTAATGCCGGTGAAATATTTTAGACTTTACGTCTA
* * *
13596837 GCAGGCTTAATGCTGGTGAAATATTTCAGACTTTATGTCTA
1 GCAGGCTTAATGCCGGTGAAATATTTTAGACTTTACGTCTA
* *
13596878 GCAGGCTTAATGCCGGTGAAATATTTTAGACCTTACGTGTA
1 GCAGGCTTAATGCCGGTGAAATATTTTAGACTTTACGTCTA
*
13596919 GCAGGTTTAATGCCGGTG
1 GCAGGCTTAATGCCGGTG
13596937 TATTGAATCA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 91 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
GCAGGCTTAATGCCGGTGAAATATTTTAGACTTTACGTCTA
Found at i:13596961 original size:82 final size:82
Alignment explanation
Indices: 13596792--13596966 Score: 228
Period size: 82 Copynumber: 2.1 Consensus size: 82
13596782 CAGGCTTTGT
* *
13596792 GCCT-GCAGGCTTAATGCCGGTGAAATATTTTAGACTTTACGTCTAGCAGGCTTAATGCTGGTGA
1 GCCTAGCAGGCTTAATGCCGGTGAAATATTTTAGACCTTACGTCTAGCAGGCTTAATGCCGGTGA
* * *
13596856 AATATTTCAGACTTTAT
66 AATATATCAGACTTCAA
* * * *
13596873 GTCTAGCAGGCTTAATGCCGGTGAAATATTTTAGACCTTACGTGTAGCAGGTTTAATGCCGGTGT
1 GCCTAGCAGGCTTAATGCCGGTGAAATATTTTAGACCTTACGTCTAGCAGGCTTAATGCCGGTGA
* *
13596938 ATTGA-ATCAGGCTTCAA
66 AAT-ATATCAGACTTCAA
13596955 GCCTAGCAGGCT
1 GCCTAGCAGGCT
13596967 ACGCGCCGGT
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 3 0.04
82 76 0.95
83 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (82 bp):
GCCTAGCAGGCTTAATGCCGGTGAAATATTTTAGACCTTACGTCTAGCAGGCTTAATGCCGGTGA
AATATATCAGACTTCAA
Found at i:13599025 original size:5 final size:5
Alignment explanation
Indices: 13599015--13599042 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13599005 TATATACGAC
13599015 CATAT CATAT CATAT CATAT CATAT CAT
1 CATAT CATAT CATAT CATAT CATAT CAT
13599043 GAGAATTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
CATAT
Found at i:13603339 original size:14 final size:14
Alignment explanation
Indices: 13603320--13603363 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
13603310 ATACACGTAA
13603320 TAGCCTTCACATAG
1 TAGCCTTCACATAG
13603334 TAGCCTTCACATAG
1 TAGCCTTCACATAG
*
13603348 TAGGCTTCACATAG
1 TAGCCTTCACATAG
13603362 TA
1 TA
13603364 CTACACACGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (14 bp):
TAGCCTTCACATAG
Found at i:13603521 original size:102 final size:102
Alignment explanation
Indices: 13603345--13603574 Score: 354
Period size: 102 Copynumber: 2.3 Consensus size: 102
13603335 AGCCTTCACA
* * *
13603345 TAGTAGGCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCCTTCACT
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTCTCGGTACACATAGTAGCCTTCACT
** * *
13603410 TAGTACTACACATGTGTTCATCATTTATCTG-TATATG
66 TAGTACTACACATGTGACCATCATTTATC-GATACACG
* *
13603447 TAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGGTACACATAGTAGTCTTCACT
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTCTCGGTACACATAGTAGCCTTCACT
*
13603512 TAGTACTACACATGTGACCATTATTTATCGATACACG
66 TAGTACTACACATGTGACCATCATTTATCGATACACG
13603549 TAGTAGCCTTCACATAGTACTACACA
1 TAGTAGCCTTCACATAGTACTACACA
13603575 TGTGTTCATC
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
101 1 0.01
102 115 0.99
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (102 bp):
TAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTCTCGGTACACATAGTAGCCTTCACT
TAGTACTACACATGTGACCATCATTTATCGATACACG
Found at i:13603575 original size:51 final size:51
Alignment explanation
Indices: 13603341--13603578 Score: 264
Period size: 51 Copynumber: 4.7 Consensus size: 51
13603331 TAGTAGCCTT
* *
13603341 CACATAGTAGGCTTCACATAGTACTACACACGTGACCA-AAGCTTT-TCGGTA
1 CACATAGTAGCCTTCACATAGTACTACACATGTGACCATAA--TTTATCGGTA
* ** * *
13603392 CACATAGTAGCCTTCACTTAGTACTACACATGTGTTCATCATTTATCTGTA
1 CACATAGTAGCCTTCACATAGTACTACACATGTGACCATAATTTATCGGTA
* ** * * * * *
13603443 TATGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGGTA
1 CACATAGTAGCCTTCACATAGTACTACACATGTGACCATAATTTATCGGTA
* * * *
13603494 CACATAGTAGTCTTCACTTAGTACTACACATGTGACCATTATTTATCGATA
1 CACATAGTAGCCTTCACATAGTACTACACATGTGACCATAATTTATCGGTA
*
13603545 CACGTAGTAGCCTTCACATAGTACTACACATGTG
1 CACATAGTAGCCTTCACATAGTACTACACATGTG
13603579 TTCATCGATA
Statistics
Matches: 150, Mismatches: 35, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
50 3 0.02
51 146 0.97
52 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (51 bp):
CACATAGTAGCCTTCACATAGTACTACACATGTGACCATAATTTATCGGTA
Found at i:13604084 original size:31 final size:31
Alignment explanation
Indices: 13604049--13604113 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
13604039 TCCTCGACTC
13604049 AACTTTTTACAAAATTACGA-TTTTGTCCCCA
1 AACTTTTTACAAAATTAC-ATTTTTGTCCCCA
* * *
13604080 AAC-TTTTGCATATTTACATTTTTGTCCCCA
1 AACTTTTTACAAAATTACATTTTTGTCCCCA
13604110 AACT
1 AACT
13604114 CGAAAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.03
30 25 0.86
31 3 0.10
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (31 bp):
AACTTTTTACAAAATTACATTTTTGTCCCCA
Found at i:13614605 original size:109 final size:109
Alignment explanation
Indices: 13614388--13615046 Score: 1090
Period size: 109 Copynumber: 6.1 Consensus size: 109
13614378 TACGCATACT
* * *
13614388 AATATTCTTTTAAAGATTTCAAAATAAAGCAATGTTTTGCGTTTGGAAATTCGAG-AAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
13614452 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
13614496 AATATCCTTTTAAAAATTTGAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * *
13614561 GTAATGTGCTGGGTTTCGATTTTTCTCGTCCAACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
13614605 AATATCCTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * *
13614670 CTAATATGCTGGGTTTCGATTTTTCTTGTTCAACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
13614714 AATATCCTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* *
13614779 CTAATATGCCGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
13614823 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
13614888 TTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
13614932 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTACGTTTGGAAATTTGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * * *
13614997 TTAGTGTGCTAGGTTTCGA--TTTCTCGTTCGACCAAGTAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
13615039 AATATCCT
1 AATATCCT
13615047 CCTAAATCTT
Statistics
Matches: 521, Mismatches: 29, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
107 30 0.06
108 51 0.10
109 440 0.84
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
Found at i:13615976 original size:16 final size:16
Alignment explanation
Indices: 13615955--13615989 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13615945 TGTTGTTTTG
* *
13615955 TTTTGACTGCATTGCA
1 TTTTGACTACATGGCA
13615971 TTTTGACTACATGGCA
1 TTTTGACTACATGGCA
13615987 TTT
1 TTT
13615990 CATTAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (16 bp):
TTTTGACTACATGGCA
Found at i:13622479 original size:44 final size:44
Alignment explanation
Indices: 13622388--13622499 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 44
13622378 AGGATAGCAG
* ** *
13622388 ATCCTATCTCTCTGAAGTTGCAGCGGAGCAGATTGAAGCTATTA
1 ATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAAATATGA
* *
13622432 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAATGATGA
1 ATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAAAT-ATGA
13622476 ATCCTATAC-CTCTGAAGTTGCAGT
1 ATCCTAT-CTCTCTGAAGTTGCAGT
13622500 AGGTCAGATT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 3 0.05
44 55 0.93
45 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAAATATGA
Found at i:13624201 original size:3 final size:3
Alignment explanation
Indices: 13624195--13624229 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
13624185 ACTAATATTG
*
13624195 TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13624230 CCAAATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:13627686 original size:28 final size:28
Alignment explanation
Indices: 13627645--13627741 Score: 74
Period size: 28 Copynumber: 3.5 Consensus size: 28
13627635 AGAAACCCCA
13627645 AATTAAAAGTAAAAATCCAAAGAAGCCAT
1 AATTAAAA-TAAAAATCCAAAGAAGCCAT
* * * * *
13627674 AATTACAATAAAATACCCCTAA-AA--TAG
1 AATTAAAATAAAA-A-TCCAAAGAAGCCAT
* *
13627701 AATCAAAATAAAAATCCAAAGAGGCCAT
1 AATTAAAATAAAAATCCAAAGAAGCCAT
*
13627729 AATTACAATAAAA
1 AATTAAAATAAAA
13627742 TACCCCCAAA
Statistics
Matches: 49, Mismatches: 14, Indels: 11
0.66 0.19 0.15
Matches are distributed among these distances:
25 4 0.08
26 2 0.04
27 12 0.24
28 17 0.35
29 10 0.20
30 4 0.08
ACGTcount: A:0.59, C:0.15, G:0.07, T:0.19
Consensus pattern (28 bp):
AATTAAAATAAAAATCCAAAGAAGCCAT
Found at i:13627738 original size:55 final size:55
Alignment explanation
Indices: 13627649--13627764 Score: 205
Period size: 55 Copynumber: 2.1 Consensus size: 55
13627639 ACCCCAAATT
*
13627649 AAAAGTAAAAATCCAAAGAAGCCATAATTACAATAAAATACCCCTAAAATAGAATC
1 AAAA-TAAAAATCCAAAGAAGCCATAATTACAATAAAATACCCCCAAAATAGAATC
*
13627705 AAAATAAAAATCCAAAGAGGCCATAATTACAATAAAATACCCCCAAAATAGAATC
1 AAAATAAAAATCCAAAGAAGCCATAATTACAATAAAATACCCCCAAAATAGAATC
13627760 AAAAT
1 AAAAT
13627765 TTTAATTAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
55 54 0.93
56 4 0.07
ACGTcount: A:0.58, C:0.18, G:0.07, T:0.17
Consensus pattern (55 bp):
AAAATAAAAATCCAAAGAAGCCATAATTACAATAAAATACCCCCAAAATAGAATC
Found at i:13630181 original size:22 final size:21
Alignment explanation
Indices: 13630151--13630194 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
13630141 ACACCAAAAC
* *
13630151 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCAGCG-TTTTTT
13630173 AGGCCTTTAGCAGCGTTTTTT
1 AGGCCTTTAGCAGCGTTTTTT
13630194 A
1 A
13630195 TCACCGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.43
Consensus pattern (21 bp):
AGGCCTTTAGCAGCGTTTTTT
Found at i:13630355 original size:43 final size:43
Alignment explanation
Indices: 13630265--13630548 Score: 295
Period size: 43 Copynumber: 6.7 Consensus size: 43
13630255 GCGTCGCTAA
* *
13630265 CTTTAGCGGCGC-TTTCCCAAAAACGCCGCTATAGCTCGAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAAGAC
* * *
13630307 CTTTAGCGGCGCTTTTTCCACAAACGCCACTATAGATCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAAGAC
* * * *
13630350 ATTTAGCGGCGCTTTTCCCAGAAACGCCACTATAGCTCAAGAG
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAAGAC
* * *
13630393 CTTTGGCGGCGCTTTTCCCACAAACGCCGCTGTAGGTCACA-AC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCA-AGAC
* * * * * *
13630436 CTTTAGCCGCACTTTTTCCACAAACGTCGCTATAGCTCGATAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAAGAC
* * * **
13630479 CTTTAGCGACACTTTTCCCATAAACGCCGCTATAGAACAA-AC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAAGAC
* * * *
13630521 CTTTAGCGACGCTTCTCACAAAAACGCC
1 CTTTAGCGGCGCTTTTCCCACAAACGCC
13630549 ACTAAAAATA
Statistics
Matches: 202, Mismatches: 37, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
42 39 0.19
43 162 0.80
44 1 0.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAAGAC
Found at i:13630383 original size:86 final size:85
Alignment explanation
Indices: 13630265--13630552 Score: 335
Period size: 86 Copynumber: 3.4 Consensus size: 85
13630255 GCGTCGCTAA
* *
13630265 CTTTAGCGGCGC-TTTCCCAAAAACGCCGCTATAGCTCGAGACCTTTAGCGGCGCTTTTTCCACA
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCACTATAGCTCGAGACCTTTAGCGGCGCTTTTCCCACA
*
13630329 AACGCCACTATAGATCAAGAC
66 AACGCCGCTATAGATCAA-AC
* * * * *
13630350 ATTTAGCGGCGCTTTTCCCAGAAACGCCACTATAGCTCAAGAGCTTTGGCGGCGCTTTTCCCACA
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCACTATAGCTCGAGACCTTTAGCGGCGCTTTTCCCACA
* *
13630415 AACGCCGCTGTAGGTCACAAC
66 AACGCCGCTATAGATCA-AAC
* * * * * * * * * *
13630436 CTTTAGCCGCACTTTTTCCACAAACGTCGCTATAGCTCGATACCTTTAGCGACACTTTTCCCATA
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCACTATAGCTCGAGACCTTTAGCGGCGCTTTTCCCACA
*
13630501 AACGCCGCTATAGAACAAAC
66 AACGCCGCTATAGATCAAAC
* * *
13630521 CTTTAGCGACGCTTCTCACAAAAACGCCACTA
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCACTA
13630553 AAAATACAAC
Statistics
Matches: 165, Mismatches: 36, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
85 37 0.22
86 127 0.77
87 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.24
Consensus pattern (85 bp):
CTTTAGCGGCGCTTTTCCCAAAAACGCCACTATAGCTCGAGACCTTTAGCGGCGCTTTTCCCACA
AACGCCGCTATAGATCAAAC
Found at i:13630438 original size:129 final size:128
Alignment explanation
Indices: 13630265--13630548 Score: 329
Period size: 129 Copynumber: 2.2 Consensus size: 128
13630255 GCGTCGCTAA
* * *
13630265 CTTTAGCGGCGCTTTCCCAAAAACGCCGCTATAGCTCGAGACCTTTAGCGGCGCTTTTTCCACAA
1 CTTTAGCGGCGCTTTCCCAAAAACGCCGCTATAGCTCGAAACCTTTAGCCGCACTTTTTCCACAA
* *
13630330 ACGCCACTATAGATCAAGACATTTAGCGGCGCTTTTCCCAGAAACGCCACTATAGCTCAAGAG
66 ACGCCACTATAGATCAAGACATTTAGCGACACTTTTCCCAGAAACGCCACTATAGCTCAAGAG
* * * *
13630393 CTTTGGCGGCGCTTTTCCCACAAACGCCGCTGTAGGTC-ACAACCTTTAGCCGCACTTTTTCCAC
1 CTTTAGCGGCGC-TTTCCCAAAAACGCCGCTATAGCTCGA-AACCTTTAGCCGCACTTTTTCCAC
* * * * * * * * ** *
13630457 AAACGTCGCTATAGCTCGATACCTTTAGCGACACTTTTCCCATAAACGCCGCTATAGAACAA-AC
64 AAACGCCACTATAGATCAAGACATTTAGCGACACTTTTCCCAGAAACGCCACTATAGCTCAAGAG
* *
13630521 CTTTAGCGACGCTTCTCACAAAAACGCC
1 CTTTAGCGGCGCTT-TCCCAAAAACGCC
13630549 ACTAAAAATA
Statistics
Matches: 129, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
127 2 0.02
128 34 0.26
129 93 0.72
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (128 bp):
CTTTAGCGGCGCTTTCCCAAAAACGCCGCTATAGCTCGAAACCTTTAGCCGCACTTTTTCCACAA
ACGCCACTATAGATCAAGACATTTAGCGACACTTTTCCCAGAAACGCCACTATAGCTCAAGAG
Found at i:13634601 original size:69 final size:67
Alignment explanation
Indices: 13634510--13634636 Score: 218
Period size: 67 Copynumber: 1.9 Consensus size: 67
13634500 CCCATAACTA
13634510 CTAACCCCTAAACCTTAGTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAACCCGA
1 CTAACCCCTAAACCTTAGTT-A-ATATAAATTAAAAAACACTAATTAATCTAAACCCTAACCCGA
13634575 ATCC
64 ATCC
* *
13634579 CTAACCCCTAAACCTTATTTAATATAAATTAAAACACACTAATTAATCTAAACCCTAA
1 CTAACCCCTAAACCTTAGTTAATATAAATTAAAAAACACTAATTAATCTAAACCCTAA
13634637 ACCCCTAACT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
67 36 0.64
68 1 0.02
69 19 0.34
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.28
Consensus pattern (67 bp):
CTAACCCCTAAACCTTAGTTAATATAAATTAAAAAACACTAATTAATCTAAACCCTAACCCGAAT
CC
Found at i:13635223 original size:41 final size:41
Alignment explanation
Indices: 13635166--13635316 Score: 232
Period size: 41 Copynumber: 3.7 Consensus size: 41
13635156 AAATGTTTTT
* *
13635166 GCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCTGAGCATTA
13635207 GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCTGAGCATTA
* * *
13635248 GCGGCGCTTTTCCAAAAACGCCGTTAAAGCGCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCTGAGCATTA
*
13635289 GCGGCGC-TTTCTCAAAAACGCTGCTAAA
1 GCGGCGCTTTTC-CAAAAACGCCGCTAAA
13635317 GCCCCGAAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 4 0.04
41 98 0.96
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCTGAGCATTA
Found at i:13635457 original size:40 final size:40
Alignment explanation
Indices: 13635356--13635490 Score: 193
Period size: 40 Copynumber: 3.4 Consensus size: 40
13635346 TGGGCTTAGG
* * *
13635356 TTTTT-GCGGCGCATTTCATAAAACGCCGCTAATACT-AA
1 TTTTTAGCGGCGCTTTTCATAAAACGCCGCTAATGCTCGA
* *
13635394 TTTTTAGCGGCGCTTTCCTTAAAACGCCGCTAATGCTCGA
1 TTTTTAGCGGCGCTTTTCATAAAACGCCGCTAATGCTCGA
*
13635434 TCTTTAGCGGCGCTTTTCATAAAACGCCGCTAATGCTCGA
1 TTTTTAGCGGCGCTTTTCATAAAACGCCGCTAATGCTCGA
*
13635474 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGCTTTT
13635491 TTGTCCAAAC
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 5 0.06
39 27 0.32
40 53 0.62
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (40 bp):
TTTTTAGCGGCGCTTTTCATAAAACGCCGCTAATGCTCGA
Found at i:13648528 original size:6 final size:6
Alignment explanation
Indices: 13648517--13648561 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
13648507 TAATACTACT
* *
13648517 GCTGGG GCTGGG GCTGGG GCTGGG GCTGGG GCTGAG GCTGAG GCT
1 GCTGGG GCTGGG GCTGGG GCTGGG GCTGGG GCTGGG GCTGGG GCT
13648562 AAAACTTGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.04, C:0.18, G:0.60, T:0.18
Consensus pattern (6 bp):
GCTGGG
Found at i:13660607 original size:29 final size:29
Alignment explanation
Indices: 13660573--13660673 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 29
13660563 ATTCAGTTAT
*
13660573 CACATTGAACATTTCTAAATTACAAGTAC
1 CACATTGAACATTTCCAAATTACAAGTAC
* *
13660602 TACATTGGACATTTCCAAATTACAAGTAC
1 CACATTGAACATTTCCAAATTACAAGTAC
* * * * *
13660631 CACATTGGATATTTTCAAAGTAGAAGTAC
1 CACATTGAACATTTCCAAATTACAAGTAC
* *
13660660 CATATTAAACATTT
1 CACATTGAACATTT
13660674 TATGAAAGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (29 bp):
CACATTGAACATTTCCAAATTACAAGTAC
Found at i:13661984 original size:25 final size:26
Alignment explanation
Indices: 13661956--13662012 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
13661946 CAAAAATTAT
**
13661956 AATTTAAAAAATAAAAAA-TAGGTAA
1 AATTTAAAAAATAAAAAACTACATAA
** *
13661981 AATTTTTAAATTAAAAAACTACATAA
1 AATTTAAAAAATAAAAAACTACATAA
13662007 AATTTA
1 AATTTA
13662013 TAACAATTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (26 bp):
AATTTAAAAAATAAAAAACTACATAA
Found at i:13662103 original size:37 final size:37
Alignment explanation
Indices: 13662026--13662105 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
13662016 CAATTTTTTT
13662026 AAAAATATAAAATATATATAACTTTTCAAAATTCAAA
1 AAAAATATAAAATATATATAACTTTTCAAAATTCAAA
* *
13662063 AAAACATATAAAA-AT-TATATATTTTTTAAAATTCAAA
1 AAAA-ATATAAAATATATATA-ACTTTTCAAAATTCAAA
13662100 AAAAAT
1 AAAAAT
13662106 CAATAGAAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
36 6 0.15
37 25 0.64
38 8 0.21
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (37 bp):
AAAAATATAAAATATATATAACTTTTCAAAATTCAAA
Found at i:13664905 original size:20 final size:20
Alignment explanation
Indices: 13664880--13664926 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
13664870 GTACTATTAG
13664880 ATAAAAGATTTGAAAATCCA
1 ATAAAAGATTTGAAAATCCA
*
13664900 ATAAAAGTTTTGAAAATCCA
1 ATAAAAGATTTGAAAATCCA
13664920 ATAAAAG
1 ATAAAAG
13664927 CACTTAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.26
Consensus pattern (20 bp):
ATAAAAGATTTGAAAATCCA
Found at i:13667550 original size:20 final size:19
Alignment explanation
Indices: 13667521--13667569 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
13667511 GCCACTAGCC
*
13667521 TTATTGATATTGTAATTAT
1 TTATTTATATTGTAATTAT
* *
13667540 GTTATTTATATTTTATTTAT
1 -TTATTTATATTGTAATTAT
*
13667560 CTATTTATAT
1 TTATTTATAT
13667570 ATATGTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (19 bp):
TTATTTATATTGTAATTAT
Found at i:13667854 original size:43 final size:43
Alignment explanation
Indices: 13667793--13667999 Score: 179
Period size: 43 Copynumber: 4.8 Consensus size: 43
13667783 CGTTTTTTTT
*
13667793 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG-GCAGAG
1 ACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAGCA-AG
* ** * * * *
13667836 ACCTTTAGTGATTCTTTTCCCACAAATGCCGCTGAAGATCATG
1 ACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAGCAAG
* * *
13667879 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGATCATG
1 ACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAGCAAG
** *** * * *
13667922 ACCTTTTTCGACGCTTCAACCACAAACGGCACTATGAAGA--ATG
1 ACCTTTAGCGACGCTTTTCCCACAAACGCCGCTA--AAGAGCAAG
*
13667965 ACCTTTAGCGACGCTTTT-TCACAAACGCCGCTAAA
1 ACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAA
13668000 AACATGACTT
Statistics
Matches: 132, Mismatches: 29, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
40 2 0.02
42 12 0.09
43 112 0.85
44 2 0.02
45 4 0.03
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
ACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAGCAAG
Found at i:13667945 original size:86 final size:85
Alignment explanation
Indices: 13667793--13668011 Score: 225
Period size: 86 Copynumber: 2.6 Consensus size: 85
13667783 CGTTTTTTTT
* * * ** ***
13667793 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG-GCAGAGACCTTTAGTGATTCTTTTCCC
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACA-TGACCTTT-TTGACGCTTCAACC
* *
13667857 ACAAA-TGC-CGCTGAAGATCATG
64 ACAAACGGCACGATGAAGA--ATG
*
13667879 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGATCATGACCTTTTTCGACGCTTCAACCA
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTTT-GACGCTTCAACCA
*
13667944 CAAACGGCACTATGAAGAATG
65 CAAACGGCACGATGAAGAATG
* *
13667965 ACCTTTAGCGACGCTTTT-TCACAAACGCCGCTAAA-AACATGA-CTTTT
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTT
13668012 AAAAAAAATT
Statistics
Matches: 115, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
83 5 0.04
84 6 0.05
85 17 0.15
86 76 0.66
87 4 0.03
88 7 0.06
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (85 bp):
ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTTTGACGCTTCAACCAC
AAACGGCACGATGAAGAATG
Found at i:13669504 original size:13 final size:13
Alignment explanation
Indices: 13669466--13669508 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
13669456 GCTCAATGCA
*
13669466 AAATTGTAATTTT
1 AAATTCTAATTTT
* * *
13669479 GAATTTTATTTTT
1 AAATTCTAATTTT
13669492 AAATTCTAATTTT
1 AAATTCTAATTTT
13669505 AAAT
1 AAAT
13669509 CAAAATAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (13 bp):
AAATTCTAATTTT
Found at i:13672935 original size:7 final size:7
Alignment explanation
Indices: 13672925--13672983 Score: 82
Period size: 7 Copynumber: 8.4 Consensus size: 7
13672915 CACTAACTCT
*
13672925 TAACCTC
1 TAACCCC
13672932 TAACCCC
1 TAACCCC
13672939 TAACCCC
1 TAACCCC
13672946 TAACCCC
1 TAACCCC
**
13672953 TAACTAC
1 TAACCCC
*
13672960 TAGCCCC
1 TAACCCC
13672967 TAACCCC
1 TAACCCC
13672974 TAACCCC
1 TAACCCC
13672981 TAA
1 TAA
13672984 ACATTATTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.31, C:0.49, G:0.02, T:0.19
Consensus pattern (7 bp):
TAACCCC
Found at i:13673242 original size:35 final size:35
Alignment explanation
Indices: 13673196--13673267 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
13673186 NNNNNNNNNN
13673196 ATTTTTAACAAATATTTTTCTATGTTTTTTTATAA
1 ATTTTTAACAAATATTTTTCTATGTTTTTTTATAA
13673231 ATTTTTAACAAATATTTTTCTATGTTTTTTTATAA
1 ATTTTTAACAAATATTTTTCTATGTTTTTTTATAA
13673266 AT
1 AT
13673268 AAACAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.60
Consensus pattern (35 bp):
ATTTTTAACAAATATTTTTCTATGTTTTTTTATAA
Found at i:13673469 original size:41 final size:41
Alignment explanation
Indices: 13673399--13673593 Score: 264
Period size: 41 Copynumber: 4.7 Consensus size: 41
13673389 AAATGTTTTT
** * * *
13673399 GCGGCGCTTTTTTAAAAAACGCCGCTAAAGATCTGAGTATTA
1 GCGGCGC-TTTTCCAAAAACGCCGCTAAAGCTCTAAGCATTA
*
13673441 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCTCTAAGAATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCTCTAAGCATTA
* *
13673482 GCGACGCTTTTCCAAAAACGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCTCTAAGCATTA
* * *
13673523 GCGGCGATTCTCCAAAAACGCCGCTAAAGCTCTAAACATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCTCTAAGCATTA
* *
13673564 GCGGCGCTTTTTCAAAAACGCCTCTAAAGC
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGC
13673594 CCCGAAAGGT
Statistics
Matches: 136, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 129 0.95
42 7 0.05
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGCTCTAAGCATTA
Found at i:13673731 original size:40 final size:39
Alignment explanation
Indices: 13673652--13673735 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 39
13673642 AAAAAATGCT
* * * *
13673652 GCTAATGCTCTTTTTTAGCGGCGTTTTTAGAAAAGCGCC
1 GCTAATGCTCATCTTTAGCGGCGTTTTCACAAAAGCGCC
*
13673691 GCTAATGCTCGATCTTTAGCGGCGTTTTCATCCAAA-CGCC
1 GCTAATGCTC-ATCTTTAGCGGCGTTTTCA-CAAAAGCGCC
13673731 GCTAA
1 GCTAA
13673736 AAATGCCGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
39 10 0.26
40 25 0.66
41 3 0.08
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (39 bp):
GCTAATGCTCATCTTTAGCGGCGTTTTCACAAAAGCGCC
Found at i:13675679 original size:500 final size:500
Alignment explanation
Indices: 13674738--13675684 Score: 1894
Period size: 500 Copynumber: 1.9 Consensus size: 500
13674728 ATTCGCAGAC
13674738 GTCGACTACTAAATTTTTGTTTTTCAAAATGGTGGTTTCGAGAGCTTGACGACTCCACTAGGGAC
1 GTCGACTACTAAATTTTTGTTTTTCAAAATGGTGGTTTCGAGAGCTTGACGACTCCACTAGGGAC
13674803 CTTTAGAGAGTCAGGCCGTAAAATTGATTATTTTTTGTCTTATTGTCGAAAATTGAAAATTTGAT
66 CTTTAGAGAGTCAGGCCGTAAAATTGATTATTTTTTGTCTTATTGTCGAAAATTGAAAATTTGAT
13674868 TTGAAAAATTATGATCCTCCCTTCGTATTTGTTTGAATGATTACTGTAAATTAAATTTTATATCT
131 TTGAAAAATTATGATCCTCCCTTCGTATTTGTTTGAATGATTACTGTAAATTAAATTTTATATCT
13674933 TGGCATCATATTGCATAAAGACTGCTTAGTCTTACCCTTTTAAGTGGGAGTGAGAAGCTACTCCT
196 TGGCATCATATTGCATAAAGACTGCTTAGTCTTACCCTTTTAAGTGGGAGTGAGAAGCTACTCCT
13674998 TCGTGAGGTTTTCACCTCTGTGCAGGATAGTGGATCACTTTCAGAATACATTCGTACCTATGTCT
261 TCGTGAGGTTTTCACCTCTGTGCAGGATAGTGGATCACTTTCAGAATACATTCGTACCTATGTCT
13675063 TCGTGAGATTTTCATCTCCGTGCAGCCATAGGGAAATGTATTCCCCTGAACCGAACTTGGTCTGT
326 TCGTGAGATTTTCATCTCCGTGCAGCCATAGGGAAATGTATTCCCCTGAACCGAACTTGGTCTGT
13675128 ATAAGCCTATAATGGGTGAAGAACGAGGAATCTGCTGGTTCGGGTACCTTGACTTTAACCTATTT
391 ATAAGCCTATAATGGGTGAAGAACGAGGAATCTGCTGGTTCGGGTACCTTGACTTTAACCTATTT
13675193 TCTCAATAAAAGATTGGTGGCGACTTCAATTTTCATTTTTAATAA
456 TCTCAATAAAAGATTGGTGGCGACTTCAATTTTCATTTTTAATAA
13675238 GTCGACTACTAAATTTTTGTTTTTCAAAATGGTGGTTTCGAGAGCTTGACGACTCCACTAGGGAC
1 GTCGACTACTAAATTTTTGTTTTTCAAAATGGTGGTTTCGAGAGCTTGACGACTCCACTAGGGAC
13675303 CTTTAGAGAGTCAGGCCGTAAAATTGATTATTTTTTGTCTTATTGTCGAAAATTGAAAATTTGAT
66 CTTTAGAGAGTCAGGCCGTAAAATTGATTATTTTTTGTCTTATTGTCGAAAATTGAAAATTTGAT
13675368 TTGAAAAATTATGATCCTCCCTTCGTATTTGTTTGAATGATTACTGTAAATTAAATTTTATATCT
131 TTGAAAAATTATGATCCTCCCTTCGTATTTGTTTGAATGATTACTGTAAATTAAATTTTATATCT
13675433 TGGCATCATATTGCATAAAGACTGCTTAGTCTTACCCTTTTAAGTGGGAGTGAGAAGCTACTCCT
196 TGGCATCATATTGCATAAAGACTGCTTAGTCTTACCCTTTTAAGTGGGAGTGAGAAGCTACTCCT
13675498 TCGTGAGGTTTTCACCTCTGTGCAGGATAGTGGATCACTTTCAGAATACATTCGTACCTATGTCT
261 TCGTGAGGTTTTCACCTCTGTGCAGGATAGTGGATCACTTTCAGAATACATTCGTACCTATGTCT
13675563 TCGTGAGATTTTCATCTCCGTGCAGCCATAGGGAAATGTATTCCCCTGAACCGAACTTGGTCTGT
326 TCGTGAGATTTTCATCTCCGTGCAGCCATAGGGAAATGTATTCCCCTGAACCGAACTTGGTCTGT
13675628 ATAAGCCTATAATGGGTGAAGAACGAGGAATCTGCTGGTTCGGGTACCTTGACTTTA
391 ATAAGCCTATAATGGGTGAAGAACGAGGAATCTGCTGGTTCGGGTACCTTGACTTTA
13675685 GAGCCAAACA
Statistics
Matches: 447, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
500 447 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (500 bp):
GTCGACTACTAAATTTTTGTTTTTCAAAATGGTGGTTTCGAGAGCTTGACGACTCCACTAGGGAC
CTTTAGAGAGTCAGGCCGTAAAATTGATTATTTTTTGTCTTATTGTCGAAAATTGAAAATTTGAT
TTGAAAAATTATGATCCTCCCTTCGTATTTGTTTGAATGATTACTGTAAATTAAATTTTATATCT
TGGCATCATATTGCATAAAGACTGCTTAGTCTTACCCTTTTAAGTGGGAGTGAGAAGCTACTCCT
TCGTGAGGTTTTCACCTCTGTGCAGGATAGTGGATCACTTTCAGAATACATTCGTACCTATGTCT
TCGTGAGATTTTCATCTCCGTGCAGCCATAGGGAAATGTATTCCCCTGAACCGAACTTGGTCTGT
ATAAGCCTATAATGGGTGAAGAACGAGGAATCTGCTGGTTCGGGTACCTTGACTTTAACCTATTT
TCTCAATAAAAGATTGGTGGCGACTTCAATTTTCATTTTTAATAA
Found at i:13678828 original size:7 final size:7
Alignment explanation
Indices: 13678810--13678857 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
13678800 CATCCAAATC
*
13678810 AAAAATG
1 AAAAAAG
*
13678817 AAAAATAA
1 AAAAA-AG
13678825 AAAAAAG
1 AAAAAAG
13678832 AAAAAAG
1 AAAAAAG
13678839 AAAAAAG
1 AAAAAAG
13678846 AAAAAAG
1 AAAAAAG
13678853 AAAAA
1 AAAAA
13678858 GGAGAGGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:13678834 original size:15 final size:14
Alignment explanation
Indices: 13678810--13678857 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
13678800 CATCCAAATC
*
13678810 AAAAATGAAAAATAA
1 AAAAAAGAAAAA-AA
*
13678825 AAAAAAGAAAAAAG
1 AAAAAAGAAAAAAA
13678839 AAAAAAGAAAAAAGA
1 AAAAAAGAAAAAA-A
13678854 AAAA
1 AAAA
13678858 GGAGAGGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 14 0.48
15 15 0.52
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.04
Consensus pattern (14 bp):
AAAAAAGAAAAAAA
Found at i:13681156 original size:88 final size:88
Alignment explanation
Indices: 13681007--13681706 Score: 990
Period size: 88 Copynumber: 8.0 Consensus size: 88
13680997 TGAAATCACA
* * ** * * * *
13681007 AAGCCTTGCCTCCCTCGATTGTAGTGGAGCAGATTGAAGATAATAGATCTGGCATTTCTGCATTG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
* *
13681072 A-TGACGAAGCAGATCGAAGACAC
66 ACAG-TGAAGCAGATCGAAGACAC
* * * *
13681095 AAGCCTTACCTCCATTGGTTGTAGTGGAGAAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
*
13681160 ACAGTGAAGCAGATTGAAGACAC
66 ACAGTGAAGCAGATCGAAGACAC
* * * * *
13681183 AAGCCTTGCCTCCCTTGGTCGTAGTGGAGCAGGTTGAAGATAGTAGACCTTACCTTCCTGCATCG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
*
13681248 ACAGTGAAGCAGATTGAAGACAC
66 ACAGTGAAGCAGATCGAAGACAC
* *
13681271 AAGCCTTGCCTCCCTCGGTCGTAGTGGAGCAGGTTGAAGATAGCAGGTCTTGCCTTCCTGCATCG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
*
13681336 ACAGCGAAGCAGATCGAAGACAC
66 ACAGTGAAGCAGATCGAAGACAC
* * *
13681359 AAGCCTTGCCTCCTTCGGTTGTAGTGGAGCAAGTTGAAGATAGCAGATCTTGCCTTCCTGTA-CT
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC-
13681423 GACAGTGAAGCAGATCGAAGACAC
65 GACAGTGAAGCAGATCGAAGACAC
* *
13681447 AAGCCTTGCCTCCCTTGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
* * *
13681512 ATAGTGAGGCAGATTGAAGACAC
66 ACAGTGAAGCAGATCGAAGACAC
* * * *
13681535 AAGCCTTGCCTTCCTCGGTTGTAGTGGAGTAGGTTGAAGAAAGCAGATCTTGCCTTCCTGCATCT
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
**
13681600 ACAACGAAGCAGATCGAAGACAC
66 ACAGTGAAGCAGATCGAAGACAC
* * * *
13681623 AAGCCTTGCCTCCCTCGGTTGTAATGGAGCAGATTGAAGATAGCAGGTCTTGTCTTCCTGCATCG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
13681688 ACAGTGAAGCAGATCGAAG
66 ACAGTGAAGCAGATCGAAG
13681707 CCAATAGTCC
Statistics
Matches: 545, Mismatches: 64, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 542 0.99
89 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (88 bp):
AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
ACAGTGAAGCAGATCGAAGACAC
Found at i:13681864 original size:128 final size:128
Alignment explanation
Indices: 13681693--13681965 Score: 415
Period size: 128 Copynumber: 2.1 Consensus size: 128
13681683 CATCGACAGT
** * *
13681693 GAAGCAGATCGAAGCCAATAGTCCTATCTCCTTGGTCAGCAGTGGAATAGGTTGGAAATTACAGA
1 GAAGCAGATTTAAGCCAATAGTCCTATCTCCTTGGTCAACAGTGGAATAGGTTGGAAATCACAGA
* **
13681758 TCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAG
66 TCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACAACGAATCTTATCTTCAAGAGTAAG
13681821 GAAGCAGATTTAAGCCACA-AGTCCTATCTACC-TGGTCAACAGTGGAATAGGTTGGAAATCACA
1 GAAGCAGATTTAAGCCA-ATAGTCCTATCT-CCTTGGTCAACAGTGGAATAGGTTGGAAATCACA
* * *
13681884 GATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGGAGATAACGAATCTTATCTTCAAGAGTAGG
64 GATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACAACGAATCTTATCTTCAAGAGTAAG
*
13681949 GAAACAGATTTAAGCCA
1 GAAGCAGATTTAAGCCA
13681966 TAAATCTTAT
Statistics
Matches: 132, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
128 129 0.98
129 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (128 bp):
GAAGCAGATTTAAGCCAATAGTCCTATCTCCTTGGTCAACAGTGGAATAGGTTGGAAATCACAGA
TCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACAACGAATCTTATCTTCAAGAGTAAG
Found at i:13683450 original size:20 final size:19
Alignment explanation
Indices: 13683421--13683469 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
13683411 GCCACTAGCC
*
13683421 TTATTGATATTGTAATTAT
1 TTATTTATATTGTAATTAT
* *
13683440 GTTATTTATATTTTATTTAT
1 -TTATTTATATTGTAATTAT
*
13683460 CTATTTATAT
1 TTATTTATAT
13683470 ATATGTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (19 bp):
TTATTTATATTGTAATTAT
Found at i:13686339 original size:17 final size:19
Alignment explanation
Indices: 13686305--13686339 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13686295 ATTGTATAAA
13686305 TTATAAATTATAATACATT
1 TTATAAATTATAATACATT
13686324 TTATAAA-TAT-ATACAT
1 TTATAAATTATAATACAT
13686340 ATATTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (19 bp):
TTATAAATTATAATACATT
Found at i:13688811 original size:44 final size:44
Alignment explanation
Indices: 13688763--13688923 Score: 226
Period size: 44 Copynumber: 3.8 Consensus size: 44
13688753 CCTTTATTTT
* * * *
13688763 AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTAGCTAC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAGGATTACTGGCTTC
*
13688807 AATCTGCTTCGCTGTAATCTCAGGGAGATAGGATTACTGGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAGGATTACTGGCTTC
13688851 AATCTGCTCCGCTGTAATCTC------ATAGGATTACTGGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAGGATTACTGGCTTC
*
13688889 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAGGATT
13688924 CACCATCTTC
Statistics
Matches: 104, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
38 38 0.37
44 66 0.63
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAGGATTACTGGCTTC
Found at i:13688876 original size:38 final size:38
Alignment explanation
Indices: 13688790--13688910 Score: 161
Period size: 38 Copynumber: 3.0 Consensus size: 38
13688780 TCTCAGGGAA
* * *
13688790 ATAGGATTACTAGCTACAATCTGCTTCGCTGTAATCTC
1 ATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
13688828 AGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
1 ------ATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
13688872 ATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
1 ATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
13688910 A
1 A
13688911 GGGAGATAAG
Statistics
Matches: 74, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
38 39 0.53
44 35 0.47
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (38 bp):
ATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
Done.