Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 18 of 182
Found at i:7369481 original size:19 final size:20
Alignment explanation
Indices: 7369437--7369504 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 20
7369427 TAAAATTTCC
7369437 ATTAAAATATTAAGAATTATT
1 ATTAAAATATTAA-AATTATT
* *
7369458 CTTAAAAT-TTAAAACTATT
1 ATTAAAATATTAAAATTATT
*
7369477 ATT--AATGTTAAAATTTATT
1 ATTAAAATATTAAAA-TTATT
7369496 ATTAAAATA
1 ATTAAAATA
7369505 AAATCATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
17 3 0.08
18 6 0.16
19 15 0.39
20 4 0.11
21 10 0.26
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (20 bp):
ATTAAAATATTAAAATTATT
Found at i:7371258 original size:21 final size:22
Alignment explanation
Indices: 7371227--7371267 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7371217 TTTGTTTTTA
7371227 AAATATTTATAAAAAATTATTT
1 AAATATTTATAAAAAATTATTT
*
7371249 AAAT-TTTATAAGAAATTAT
1 AAATATTTATAAAAAATTAT
7371268 ATATATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATATTTATAAAAAATTATTT
Found at i:7377224 original size:362 final size:362
Alignment explanation
Indices: 7376559--7377279 Score: 1370
Period size: 362 Copynumber: 2.0 Consensus size: 362
7376549 TTCTTTAACC
7376559 GAATAAGAGAAATGATTCAAATTATCCAATACTGCACCATCCATATTCCATGAATTCCGCACAAC
1 GAATAAGAGAAATGATTCAAATTATCCAATACTGCACCATCCATATTCCATGAATTCCGCACAAC
* *
7376624 GTCTTGGAATTCCAGATTACTAAACCAGCTAGCTAGTAGACGGAATGGTTGCTCTTTCCTACCAG
66 GTCTTGGAATTCCAGATGACTAAACCAGCTAGCTAGTAGACGGAATGGTCGCTCTTTCCTACCAG
*
7376689 CATTAGCACTAACAATAGACACCAAAATTGGGCGATGATCCTACTTCAATTTATACAAGTGCCTA
131 CATTAGCACTAACAATAGACACCAAAATTGGGCGATGATCCGACTTCAATTTATACAAGTGCCTA
* *
7376754 ACTGTTAGGTGAGGAGTTTCAGCAAGCCACAGATCATTACCCAACGCCCGATCTAATCCTTGGAG
196 ACTATTAGGTGAGGAGTTTCAGCAAGCCACAGATCATTACCAAACGCCCGATCTAATCCTTGGAG
*
7376819 AAGACAACACGCTGCCACGTGAACTTCAAACTTTCAAAGCCTAGATCCGGGATATTATGATTGAA
261 AAGACAACACGCTGCCACGTGAACTTCAAACTTTCAAAGCCTAGATCCGAGATATTATGATTGAA
7376884 AACAAAATCACTGAATTTATGACAAACTGAATTCCAT
326 AACAAAATCACTGAATTTATGACAAACTGAATTCCAT
*
7376921 GAATAAGAGAAATGATTTAAATTATCCAATACTGCACCATCCATATTCCATGAATTCCGCACAAC
1 GAATAAGAGAAATGATTCAAATTATCCAATACTGCACCATCCATATTCCATGAATTCCGCACAAC
7376986 GTCTTGGAATTCCAGATGACTAAACCAGCTAGCTAGTAGACGGAATGGTCGCTCTTTCCTACCAG
66 GTCTTGGAATTCCAGATGACTAAACCAGCTAGCTAGTAGACGGAATGGTCGCTCTTTCCTACCAG
*
7377051 CATTAGCACTAACAATAGACACCAAAATTGGGCGATGATTCGACTTCAATTTATACAAGTGCCTA
131 CATTAGCACTAACAATAGACACCAAAATTGGGCGATGATCCGACTTCAATTTATACAAGTGCCTA
7377116 ACTATTAGGTGAGGAGTTTCAGCAAGCCACAGATCATTACCAAACGCCCGATCTAATCCTTGGAG
196 ACTATTAGGTGAGGAGTTTCAGCAAGCCACAGATCATTACCAAACGCCCGATCTAATCCTTGGAG
7377181 AAGACAACACGCTGCCACGTGAACTTCAAACTTTCAAAGCCTAGATCCGAGATATTATGATTGAA
261 AAGACAACACGCTGCCACGTGAACTTCAAACTTTCAAAGCCTAGATCCGAGATATTATGATTGAA
7377246 AACAAAATCACTGAATTTATGACAAACTGAATTC
326 AACAAAATCACTGAATTTATGACAAACTGAATTC
7377280 ATTGCTTCTT
Statistics
Matches: 351, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
362 351 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (362 bp):
GAATAAGAGAAATGATTCAAATTATCCAATACTGCACCATCCATATTCCATGAATTCCGCACAAC
GTCTTGGAATTCCAGATGACTAAACCAGCTAGCTAGTAGACGGAATGGTCGCTCTTTCCTACCAG
CATTAGCACTAACAATAGACACCAAAATTGGGCGATGATCCGACTTCAATTTATACAAGTGCCTA
ACTATTAGGTGAGGAGTTTCAGCAAGCCACAGATCATTACCAAACGCCCGATCTAATCCTTGGAG
AAGACAACACGCTGCCACGTGAACTTCAAACTTTCAAAGCCTAGATCCGAGATATTATGATTGAA
AACAAAATCACTGAATTTATGACAAACTGAATTCCAT
Found at i:7380431 original size:10 final size:10
Alignment explanation
Indices: 7380385--7380453 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 10
7380375 AAGTTGTTTC
7380385 TTAAATAATTA
1 TTAAA-AATTA
7380396 TATAAATAATTA
1 T-TAAA-AATTA
*
7380408 -TAAAAAATA
1 TTAAAAATTA
*
7380417 TTTAAAAGTTA
1 -TTAAAAATTA
7380428 TTAAAAATTA
1 TTAAAAATTA
7380438 -TAAGAAATTA
1 TTAA-AAATTA
*
7380448 ATAAAA
1 TTAAAA
7380454 TAGGACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
9 7 0.14
10 21 0.43
11 11 0.22
12 10 0.20
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:7380453 original size:30 final size:32
Alignment explanation
Indices: 7380393--7380453 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 32
7380383 TCTTAAATAA
*
7380393 TTATATAAATAATTATAAAAAATATTTAAAAG
1 TTATATAAATAATTATAAAAAATATATAAAAG
*
7380425 TTAT-TAAA-AATTATAAGAAAT-TAATAAAA
1 TTATATAAATAATTATAAAAAATAT-ATAAAA
7380454 TAGGACTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 1 0.04
30 17 0.65
31 4 0.15
32 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (32 bp):
TTATATAAATAATTATAAAAAATATATAAAAG
Found at i:7391473 original size:3 final size:3
Alignment explanation
Indices: 7391465--7391500 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
7391455 GATAGGGGAA
7391465 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
7391501 CCTTTGGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:7392544 original size:25 final size:26
Alignment explanation
Indices: 7392500--7392550 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
7392490 AACTATCCCA
*
7392500 ATAAATAATATAATTATCCGAAACTT
1 ATAAATAATATAAGTATCCGAAACTT
*
7392526 ATAAATTATA-AAGTATCCGAAACTT
1 ATAAATAATATAAGTATCCGAAACTT
7392551 TCATAACACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (26 bp):
ATAAATAATATAAGTATCCGAAACTT
Found at i:7392648 original size:23 final size:21
Alignment explanation
Indices: 7392622--7392669 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
7392612 ATAAATTATG
7392622 ATAAA-AAACTATAATATTCTTTT
1 ATAAATAAA-TATAATA-T-TTTT
*
7392645 ATAAATAAATATATTATTTTT
1 ATAAATAAATATAATATTTTT
7392666 ATAA
1 ATAA
7392670 TATATAGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 8 0.35
22 1 0.04
23 11 0.48
24 3 0.13
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAAATAAATATAATATTTTT
Found at i:7409516 original size:23 final size:23
Alignment explanation
Indices: 7409486--7409612 Score: 85
Period size: 23 Copynumber: 5.4 Consensus size: 23
7409476 ACATTAGCGC
7409486 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTCT-GT
*
7409509 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTCTGT
* * * *
7409534 GCTCTCTGATTAGCATTTTGTGT
1 GCTCTCTGTTTAGCACTGTCTGT
** ** * * *
7409557 GCTCTCTGACTATTACTTTGTAT
1 GCTCTCTGTTTAGCACTGTCTGT
* * *
7409580 ACTCTCTATTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTCTGT
7409603 GCTCTCTGTT
1 GCTCTCTGTT
7409613 ACCCAGCACT
Statistics
Matches: 82, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
23 61 0.74
24 1 0.01
25 17 0.21
26 3 0.04
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.45
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTCTGT
Found at i:7409609 original size:25 final size:25
Alignment explanation
Indices: 7409487--7409609 Score: 61
Period size: 25 Copynumber: 5.2 Consensus size: 25
7409477 CATTAGCGCG
* *
7409487 CTCTCTGTTTAGCAC-GTCTCGTGCT
1 CTCTCTATTTAGCACTGTGT-GTGCT
*
7409512 CTCTGT-TATTAGCACTGTGTGTGCT
1 CTCTCTAT-TTAGCACTGTGTGTGCT
* * *
7409537 CTCT-GA-TTAGCATTTTGTGTGCT
1 CTCTCTATTTAGCACTGTGTGTGCT
*
7409560 CTCTGACTA-TT---ACT-T-TGT-AT
1 CTCT--CTATTTAGCACTGTGTGTGCT
7409580 ACTCTCTATTTAGCACTGTGTGTGCT
1 -CTCTCTATTTAGCACTGTGTGTGCT
7409606 CTCT
1 CTCT
7409610 GTTACCCAGC
Statistics
Matches: 75, Mismatches: 9, Indels: 28
0.67 0.08 0.25
Matches are distributed among these distances:
19 3 0.04
20 3 0.04
21 7 0.09
22 1 0.01
23 24 0.32
24 2 0.03
25 28 0.37
26 7 0.09
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.45
Consensus pattern (25 bp):
CTCTCTATTTAGCACTGTGTGTGCT
Found at i:7410502 original size:23 final size:23
Alignment explanation
Indices: 7410476--7410641 Score: 150
Period size: 23 Copynumber: 7.4 Consensus size: 23
7410466 AGTGCTGGGC
7410476 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
7410499 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
*
7410518 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
7410538 ATCAGAGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* * *
7410561 ATCGGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACAAAGTGCT-A
* *
7410585 TAACAGAGAGCACGA-GACGTGCTA
1 -AACAGAGAGCAC-ACAAAGTGCTA
*
7410609 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
7410632 ATCAGAGAGC
1 AACAGAGAGC
7410642 GCGCTAGTGT
Statistics
Matches: 114, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
16 10 0.09
18 3 0.03
19 1 0.01
20 1 0.01
21 2 0.02
22 1 0.01
23 78 0.68
24 2 0.02
25 15 0.13
26 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.11
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:7410536 original size:39 final size:39
Alignment explanation
Indices: 7410482--7410556 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
7410472 GGGCAACAGA
*
7410482 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
7410521 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
7410557 GCTAATCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:7410595 original size:48 final size:46
Alignment explanation
Indices: 7410521--7410641 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
7410511 ACAAAGTACT
* * *
7410521 GAGCACACAAAGTGCTAATCAGAGAGCAC-ACGAAGTGCTAATCGGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GAAGTGCTAAACAGA
*
7410567 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGAAGTGCTAAACAGA
7410615 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
7410642 GCGCTAGTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACGAGAAGTGCTAAACAGA
Found at i:7416203 original size:23 final size:22
Alignment explanation
Indices: 7416169--7416219 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
7416159 ATAAAGTAAG
7416169 TTATATATTA-TTTTT-CTAAT
1 TTATATATTATTTTTTACTAAT
7416189 ATTATATATTATATTTTTTACTAAT
1 -TTATATA-T-TATTTTTTACTAAT
7416214 TTATAT
1 TTATAT
7416220 TTTAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.27
22 1 0.04
23 2 0.08
24 11 0.42
25 5 0.19
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATATATTATTTTTTACTAAT
Found at i:7416217 original size:24 final size:26
Alignment explanation
Indices: 7416172--7416219 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
7416162 AAGTAAGTTA
*
7416172 TATATTATTTTTCTAATATTATATAT
1 TATATTATTTTACTAATATTATATAT
7416198 TATATT-TTTTACTAAT-TTATAT
1 TATATTATTTTACTAATATTATAT
7416220 TTTAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 9 0.43
26 6 0.29
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
TATATTATTTTACTAATATTATATAT
Found at i:7416313 original size:21 final size:21
Alignment explanation
Indices: 7416288--7416345 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
7416278 ATTTAATAAT
7416288 AATTATGTTAA-AATATAATTA
1 AATTAT-TTAATAATATAATTA
* *
7416309 AATTATTTAATATTATTATTA
1 AATTATTTAATAATATAATTA
7416330 AATTATATTAATAATA
1 AATTAT-TTAATAATA
7416346 ATCTTATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 20 0.62
22 8 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AATTATTTAATAATATAATTA
Found at i:7418090 original size:18 final size:18
Alignment explanation
Indices: 7418064--7418115 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
7418054 ACCACTTTAT
*
7418064 AATTAATTTTTTTATATA
1 AATTTATTTTTTTATATA
* *
7418082 AATTTA-TTTTTCATATT
1 AATTTATTTTTTTATATA
* *
7418099 AAGTTCTTTTTTTATAT
1 AATTTATTTTTTTATAT
7418116 GTGAGTTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
AATTTATTTTTTTATATA
Found at i:7420621 original size:23 final size:23
Alignment explanation
Indices: 7420595--7420737 Score: 122
Period size: 23 Copynumber: 6.4 Consensus size: 23
7420585 AGTGCTGGGC
7420595 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
7420618 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
*
7420637 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
7420657 ATCAGAGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* * *
7420680 ATCGGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACAAAGTGCT-A
* *
7420704 TAACAGAGAGCACGA-GACGTGCTA
1 -AACAGAGAGCAC-ACAAAGTGCTA
7420728 AACAGAGAGC
1 AACAGAGAGC
7420738 GCGCTAGTGT
Statistics
Matches: 96, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
16 10 0.10
18 3 0.03
19 1 0.01
20 1 0.01
21 2 0.02
23 61 0.64
24 2 0.02
25 15 0.16
26 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:7420655 original size:39 final size:39
Alignment explanation
Indices: 7420601--7420675 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
7420591 GGGCAACAGA
*
7420601 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
7420640 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
7420676 GCTAATCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:7420726 original size:48 final size:46
Alignment explanation
Indices: 7420640--7420737 Score: 126
Period size: 48 Copynumber: 2.1 Consensus size: 46
7420630 ACAAAGTACT
* *
7420640 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGA
1 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAAACAGA
* *
7420686 GAGCACACACAGTGCTAATAACAGAGAGCACGA-GACGTGCTAAACAGA
1 GAGCACACAAAGTGCTAAT--CAGAGAGCAC-ACGAAGTGCTAAACAGA
7420734 GAGC
1 GAGC
7420738 GCGCTAGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
46 18 0.40
48 26 0.58
49 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.27, T:0.11
Consensus pattern (46 bp):
GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAAACAGA
Found at i:7423886 original size:17 final size:17
Alignment explanation
Indices: 7423865--7423907 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7423855 TTATAATTGA
7423865 TTTTTTTATA-TAAATT
1 TTTTTTTATATTAAATT
* *
7423881 TATTTTTCATATTAAGTT
1 T-TTTTTTATATTAAATT
7423899 TTTTTTTAT
1 TTTTTTTAT
7423908 GGGTGAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 15 0.68
18 6 0.27
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTTTTTATATTAAATT
Found at i:7429337 original size:15 final size:16
Alignment explanation
Indices: 7429319--7429361 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
7429309 GTTTTTTACT
*
7429319 AAAATAATATTTAAAA
1 AAAATAATATATAAAA
**
7429335 AAAATAATATAT-ACC
1 AAAATAATATATAAAA
7429350 AAAATAATATAT
1 AAAATAATATAT
7429362 TCTTCTCGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATAATATATAAAA
Found at i:7432242 original size:23 final size:22
Alignment explanation
Indices: 7432212--7432380 Score: 135
Period size: 23 Copynumber: 7.4 Consensus size: 22
7432202 ACACTAGCGC
* * *
7432212 GCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGATTAGCAC-TTTTGT
7432235 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTT-TGT
*
7432258 GCTCTTTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTT-TGT
*
7432281 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTTT-TGT
* * *
7432304 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACT-TTTGT
*
7432327 GCTCTCTG-TTGCCCAGCACTTATGT
1 GCTCTCTGATT----AGCACTTTTGT
* *
7432352 GCTCTCTG-TTAGTACTTTGGT
1 GCTCTCTGATTAGCACTTTTGT
*
7432373 ACTCTCTG
1 GCTCTCTG
7432381 CTTGTTCCGT
Statistics
Matches: 124, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
21 15 0.12
22 4 0.03
23 84 0.68
24 1 0.01
25 14 0.11
26 6 0.05
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (22 bp):
GCTCTCTGATTAGCACTTTTGT
Found at i:7432283 original size:46 final size:46
Alignment explanation
Indices: 7432213--7432334 Score: 165
Period size: 46 Copynumber: 2.7 Consensus size: 46
7432203 CACTAGCGCG
* * *
7432213 CTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGATTAGCACTTTGTGTG
1 CTCTCTGATTAGCACTGTGT-GTGCTCTCTGATTAGCACTTTGTGTA
* * *
7432259 CTCTTTGATTAGCACTTTGTGTGCTCTCTGATTAGTACTTTGTGTA
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTA
*
7432305 CTCTCTGTTTAGCACTGTGTGTGCTCTCTG
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTG
7432335 TTGCCCAGCA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
46 64 0.97
47 2 0.03
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (46 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTA
Found at i:7432326 original size:69 final size:66
Alignment explanation
Indices: 7432236--7432380 Score: 184
Period size: 69 Copynumber: 2.1 Consensus size: 66
7432226 ACGTCTCGTG
* * *
7432236 CTCTCTGATTAGCACTTTGTGTGCTCTTTGATT-AGCACTTTGTGTGCTCTCTGATTAGTACTTT
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTG-TTCAGCAC-TTATGTGCTCTCTG-TTAGTACTTT
7432300 GTGTA
63 G-GTA
*
7432305 CTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTGCCCAGCACTTATGTGCTCTCTGTTAGTACTTT
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGTT---CAGCACTTATGTGCTCTCTGTTAGTACTTT
7432370 GGTA
63 GGTA
7432374 CTCTCTG
1 CTCTCTG
7432381 CTTGTTCCGT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
68 2 0.03
69 37 0.54
70 11 0.16
71 13 0.19
72 5 0.07
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (66 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCTGTTCAGCACTTATGTGCTCTCTGTTAGTACTTTGGT
A
Found at i:7433129 original size:17 final size:17
Alignment explanation
Indices: 7433081--7433128 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
7433071 GAGATTATTT
* *
7433081 TATTTAATTCATTTGATA
1 TATTTAAAT-ATTTTATA
7433099 TATTTAAATATTTTATA
1 TATTTAAATATTTTATA
7433116 TA-TTAAATATTTT
1 TATTTAAATATTTT
7433129 TTAAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.39
17 9 0.32
18 8 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TATTTAAATATTTTATA
Found at i:7433148 original size:12 final size:13
Alignment explanation
Indices: 7433120--7433147 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7433110 TTTATATATT
7433120 AAATATTTTTTAA
1 AAATATTTTTTAA
7433133 AAATATTTTTTAA
1 AAATATTTTTTAA
7433146 AA
1 AA
7433148 TGAAAAATTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATATTTTTTAA
Found at i:7434022 original size:58 final size:60
Alignment explanation
Indices: 7433890--7434033 Score: 140
Period size: 58 Copynumber: 2.5 Consensus size: 60
7433880 TGTATTATTT
* *
7433890 TTTATATTTAAATTTTTCTTATATTATTATTGTAAAAATCTGGAGATTATTATTATTTTGATA
1 TTTA-ATTT-AATTTTT-TTATATTATTATTGTAAAAATATGGAGATTATTATTATTTTAATA
** * * *
7433953 AATAA-AT-ATTTTTTTATATTATTTATT-TAAAAATATTGAG-TTATTCTTA-TTTAATA
1 TTTAATTTAATTTTTTTATATTA-TTATTGTAAAAATATGGAGATTATTATTATTTTAATA
7434009 TTTAATTTAATTTTTTTA-ATT-TTAT
1 TTTAATTTAATTTTTTTATATTATTAT
7434034 AATATTTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
55 4 0.06
56 9 0.13
57 12 0.18
58 28 0.41
59 11 0.16
61 1 0.01
62 1 0.01
63 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (60 bp):
TTTAATTTAATTTTTTTATATTATTATTGTAAAAATATGGAGATTATTATTATTTTAATA
Found at i:7434211 original size:27 final size:27
Alignment explanation
Indices: 7434181--7434243 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
7434171 CTTGATAGAA
*
7434181 AGGCACCATTGGTGCCGCCTGACAGGT
1 AGGCACCACTGGTGCCGCCTGACAGGT
*
7434208 AGGCACCACTGGTGCCGCCTGTCAGGT
1 AGGCACCACTGGTGCCGCCTGACAGGT
7434235 AGGCACCAC
1 AGGCACCAC
7434244 CCATTTATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.19, C:0.33, G:0.32, T:0.16
Consensus pattern (27 bp):
AGGCACCACTGGTGCCGCCTGACAGGT
Found at i:7436449 original size:6 final size:6
Alignment explanation
Indices: 7436438--7436465 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7436428 GCCTGACTGA
7436438 CATTGG CATTGG CATTGG CATTGG CATT
1 CATTGG CATTGG CATTGG CATTGG CATT
7436466 AGCAGTAGCA
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:0.18, C:0.18, G:0.29, T:0.36
Consensus pattern (6 bp):
CATTGG
Found at i:7436476 original size:18 final size:18
Alignment explanation
Indices: 7436438--7436480 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
7436428 GCCTGACTGA
* * *
7436438 CATTGGCATTGGCATTGG
1 CATTGGCATTAGCAGTAG
7436456 CATTGGCATTAGCAGTAG
1 CATTGGCATTAGCAGTAG
7436474 CA-TGGCA
1 CATTGGCA
7436481 ACCTCATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (18 bp):
CATTGGCATTAGCAGTAG
Found at i:7439685 original size:96 final size:95
Alignment explanation
Indices: 7439510--7439700 Score: 301
Period size: 96 Copynumber: 2.0 Consensus size: 95
7439500 TAAACGTGTT
*
7439510 CTTAGTCTAATAAAAAGAATGACCAAATTGATTGAAAAATTAATATATTGTCTATCAAATCCAAT
1 CTTAGTCTAATAAAAAGAATGACCAAATTGATTGAAAAATTAATATATCGTCTATCAAATCCAAT
* * * * *
7439575 TCGGGGAGATGCTTTGTCTTGGGCATCAGA
66 TCGAGAAAATGCTTTATCTTGAGCATCAGA
* *
7439605 CTTAGTCTAATAAAAAGAATGAGCAAATTGATTGAAAAAATTAATATGTCGTCTATCAAATCCAA
1 CTTAGTCTAATAAAAAGAATGACCAAATTGATTG-AAAAATTAATATATCGTCTATCAAATCCAA
7439670 TTCGAGAAAATGCTTTATCTTGAGCATCAGA
65 TTCGAGAAAATGCTTTATCTTGAGCATCAGA
7439701 GTGGATGACT
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
95 33 0.38
96 54 0.62
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (95 bp):
CTTAGTCTAATAAAAAGAATGACCAAATTGATTGAAAAATTAATATATCGTCTATCAAATCCAAT
TCGAGAAAATGCTTTATCTTGAGCATCAGA
Found at i:7443061 original size:3 final size:3
Alignment explanation
Indices: 7443055--7443081 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7443045 ATAACAGTAG
7443055 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
7443082 AGGAAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7461295 original size:19 final size:19
Alignment explanation
Indices: 7461267--7461306 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
7461257 CATACTTATG
*
7461267 ACAATGTCATTAGACAAAC
1 ACAATATCATTAGACAAAC
*
7461286 ACAATATCATTGGACAAAC
1 ACAATATCATTAGACAAAC
7461305 AC
1 AC
7461307 TAATTGAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.23, G:0.10, T:0.20
Consensus pattern (19 bp):
ACAATATCATTAGACAAAC
Found at i:7462674 original size:21 final size:20
Alignment explanation
Indices: 7462640--7462679 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7462630 ATTTTTTTTC
*
7462640 GAATTGAGTCAAGTGAAATG
1 GAATTGAGTAAAGTGAAATG
*
7462660 GAATTCGAGTAAAGTTAAAT
1 GAATT-GAGTAAAGTGAAAT
7462680 TGAGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.28
Consensus pattern (20 bp):
GAATTGAGTAAAGTGAAATG
Found at i:7467170 original size:23 final size:23
Alignment explanation
Indices: 7467115--7467178 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
7467105 AAGATAGAAG
7467115 CGTGCCACAAGGCAAAAGAAAAA
1 CGTGCCACAAGGCAAAAGAAAAA
* * * * *
7467138 CAATGTCACAAGGTAGAGGAAAAA
1 C-GTGCCACAAGGCAAAAGAAAAA
7467162 CGTGCCACAAAGGCAAA
1 CGTGCCAC-AAGGCAAA
7467179 TAAAAACTAG
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
23 6 0.20
24 24 0.80
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.08
Consensus pattern (23 bp):
CGTGCCACAAGGCAAAAGAAAAA
Found at i:7467677 original size:19 final size:20
Alignment explanation
Indices: 7467643--7467681 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
7467633 ATGGAGGATA
7467643 AATAATTTAAATTTTATCAAC
1 AATAATTT-AATTTTATCAAC
7467664 AATAATTT-ATTTTATCAA
1 AATAATTTAATTTTATCAA
7467682 TGAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAATTTAATTTTATCAAC
Found at i:7471490 original size:4 final size:5
Alignment explanation
Indices: 7471463--7471487 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7471453 AGATAGATTA
7471463 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
7471488 ATTCAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:7473527 original size:29 final size:26
Alignment explanation
Indices: 7473473--7473535 Score: 63
Period size: 29 Copynumber: 2.3 Consensus size: 26
7473463 AAAATTAAAA
*
7473473 ATAATTCAGATTAAAATCCACACATGTAC
1 ATAATT-AGACTAAAATCCACACATG--C
**
7473502 ATAATTAGACTAGAAATCCATGCATGC
1 ATAATTAGACTA-AAATCCACACATGC
7473529 ATAATTA
1 ATAATTA
7473536 TAAAACTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 8 0.27
28 5 0.17
29 17 0.57
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (26 bp):
ATAATTAGACTAAAATCCACACATGC
Found at i:7478338 original size:28 final size:28
Alignment explanation
Indices: 7478287--7478341 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
7478277 TGAATAAATT
7478287 AATAACATTATAAAATATTATATTAAAA
1 AATAACATTATAAAATATTATATTAAAA
7478315 AATAA-ATTATAAAA-ATTAAGTATTAAA
1 AATAACATTATAAAATATT-A-TATTAAA
7478342 TTTAAGCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 3 0.12
27 10 0.40
28 12 0.48
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
AATAACATTATAAAATATTATATTAAAA
Found at i:7481454 original size:15 final size:14
Alignment explanation
Indices: 7481421--7481455 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
7481411 TTATTTTCAA
7481421 TATTTTCTTTTTTT
1 TATTTTCTTTTTTT
*
7481435 AATTTTCTTTTTTAT
1 TATTTTCTTTTTT-T
7481450 TATTTT
1 TATTTT
7481456 AATTAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (14 bp):
TATTTTCTTTTTTT
Found at i:7481819 original size:30 final size:31
Alignment explanation
Indices: 7481759--7481823 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
7481749 AAGAAACATC
* * * *
7481759 AATTTGACTCTTTTTGAAATATTAATGGTCA
1 AATTCGACTCTTTTTAAAAGATTAAAGGTCA
7481790 AATTCGACTC-TTTTAAAAGATTAAAGGTCA
1 AATTCGACTCTTTTTAAAAGATTAAAGGTCA
7481820 AATT
1 AATT
7481824 TAGTTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (31 bp):
AATTCGACTCTTTTTAAAAGATTAAAGGTCA
Found at i:7507655 original size:31 final size:31
Alignment explanation
Indices: 7507619--7507684 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
7507609 GGATCAAGAT
* * *
7507619 TAAAATTGATTAATTTGAAAAGTATATGGAC
1 TAAAATTGATTAATTTAAAAAGTACATAGAC
7507650 TAAAATTGATTAATTTAAAAAGTACATAGAC
1 TAAAATTGATTAATTTAAAAAGTACATAGAC
7507681 TAAA
1 TAAA
7507685 TTTACAACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (31 bp):
TAAAATTGATTAATTTAAAAAGTACATAGAC
Found at i:7510898 original size:29 final size:29
Alignment explanation
Indices: 7510866--7510921 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
7510856 AAAAATCTAG
* *
7510866 AAAATTAACACCACTAACAAAACCCATAA
1 AAAATTAACACAACAAACAAAACCCATAA
*
7510895 AAAATTAACATAACAAACAAAACCCAT
1 AAAATTAACACAACAAACAAAACCCAT
7510922 CAATCCAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.61, C:0.25, G:0.00, T:0.14
Consensus pattern (29 bp):
AAAATTAACACAACAAACAAAACCCATAA
Found at i:7512885 original size:19 final size:19
Alignment explanation
Indices: 7512863--7512907 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7512853 TTTTATTAGG
7512863 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
7512882 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
7512901 ATTTAAT
1 ATTTAAT
7512908 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:7519736 original size:6 final size:6
Alignment explanation
Indices: 7519725--7519759 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
7519715 AAGAACCCAT
*
7519725 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGT GTTTG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTG
7519760 CAGGGAGACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (6 bp):
GTTTGG
Found at i:7523321 original size:30 final size:31
Alignment explanation
Indices: 7523244--7523324 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
7523234 AATTGAATAG
*
7523244 TAAGTAGAG-GATTGTTTTGTCACTTTTCAA
1 TAAGTTGAGTGATTGTTTTGTCACTTTTCAA
* * * *
7523274 TAATTTTAGTGACTGTTTTGTCACATTTT-TA
1 TAAGTTGAGTGATTGTTTTGTCAC-TTTTCAA
7523305 -AAGTTGAGTGATTGTTTTGT
1 TAAGTTGAGTGATTGTTTTGT
7523325 TAAATATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 23 0.56
31 14 0.34
32 4 0.10
ACGTcount: A:0.23, C:0.07, G:0.20, T:0.49
Consensus pattern (31 bp):
TAAGTTGAGTGATTGTTTTGTCACTTTTCAA
Found at i:7525840 original size:24 final size:24
Alignment explanation
Indices: 7525821--7525900 Score: 117
Period size: 24 Copynumber: 3.4 Consensus size: 24
7525811 ATTGTTCGTA
7525821 AACATGTTCAATTATATGTTCATG
1 AACATGTTCAATTATATGTTCATG
* ** *
7525845 AATATGTTCGTTTA-ATGTTCGTG
1 AACATGTTCAATTATATGTTCATG
7525868 AACATGTTCAATTATATGTTCATG
1 AACATGTTCAATTATATGTTCATG
7525892 AACATGTTC
1 AACATGTTC
7525901 GTTTAATACT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 19 0.40
24 28 0.60
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (24 bp):
AACATGTTCAATTATATGTTCATG
Found at i:7525882 original size:47 final size:47
Alignment explanation
Indices: 7525813--7525948 Score: 179
Period size: 47 Copynumber: 2.9 Consensus size: 47
7525803 TCATTAACAT
* *
7525813 TGTTCGTAAACATGTTCAATTATATGTTCATGAATATGTTCGTTTAA
1 TGTTCGTGAACATGTTCAATTATATGTTCATGAACATGTTCGTTTAA
7525860 TGTTCGTGAACATGTTCAATTATATGTTCATGAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCAATTATATGTTCATGAACATGTTCGTTTAA
* ** *
7525907 TACTT-GTGAACATGTTTGATTA-A-GTTAAATGAACATGTTCGT
1 T-GTTCGTGAACATGTTCAATTATATGTT-CATGAACATGTTCGT
7525949 GAACATTAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
45 3 0.04
46 15 0.19
47 61 0.75
48 2 0.02
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (47 bp):
TGTTCGTGAACATGTTCAATTATATGTTCATGAACATGTTCGTTTAA
Found at i:7532078 original size:2 final size:2
Alignment explanation
Indices: 7532036--7532060 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7532026 AAAATAAAAT
7532036 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
7532061 TCCTAAAAAC
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:7532647 original size:2 final size:2
Alignment explanation
Indices: 7532640--7532690 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
7532630 TTATTAATAC
7532640 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7532682 AT AT AT AT A
1 AT AT AT AT A
7532691 ATTGTTATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7537104 original size:14 final size:14
Alignment explanation
Indices: 7537085--7537112 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7537075 ACGGAGTAGG
7537085 TTTTTTTTTTAAAA
1 TTTTTTTTTTAAAA
7537099 TTTTTTTTTTAAAA
1 TTTTTTTTTTAAAA
7537113 ATAATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTTTTTTAAAA
Found at i:7539687 original size:28 final size:29
Alignment explanation
Indices: 7539630--7539688 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
7539620 ATACATTTTC
7539630 AATCTCTATCAATTTTAAAAATAAATAAATT
1 AATCTCTATCAA--TTAAAAATAAATAAATT
7539661 AATCTCTATCAA-TAAAAATTAAA-AAATT
1 AATCTCTATCAATTAAAAA-TAAATAAATT
7539689 CAAAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 11 0.41
29 4 0.15
31 12 0.44
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (29 bp):
AATCTCTATCAATTAAAAATAAATAAATT
Found at i:7539767 original size:39 final size:39
Alignment explanation
Indices: 7539722--7539798 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 39
7539712 ATTTATTTTT
7539722 TAAAAAA-TATAATAATTTCAAAATAATTCTAAAA-AATATA
1 TAAAAAAGTA-AA-AATTTCAAAAT-ATTCTAAAATAATATA
* *
7539762 TAAAAAAGTAAAAATTTTAAAATGTTCTAAAATAATA
1 TAAAAAAGTAAAAATTTCAAAATATTCTAAAATAATA
7539799 ATTTTGGGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
38 8 0.24
39 14 0.42
40 9 0.27
41 2 0.06
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (39 bp):
TAAAAAAGTAAAAATTTCAAAATATTCTAAAATAATATA
Found at i:7542007 original size:56 final size:57
Alignment explanation
Indices: 7541939--7542098 Score: 180
Period size: 56 Copynumber: 2.8 Consensus size: 57
7541929 TTATTAAATT
* *
7541939 TTAATAAAATTATTATTAAATATAATTTAATAAAAAATAAATATTTTAA-A-CATATT
1 TTAATATAATTATTATTAAATATAATTTAATAAAAAATAAATATTTTAATATCAT-TC
* * * * * *
7541995 TTAATTTGATTATTATTAAATACAATTTAATAAAATAGTATATAATTTAATATCATTC
1 TTAATATAATTATTATTAAATATAATTTAATAAAA-AATAAATATTTTAATATCATTC
* *
7542053 TTAATATAATTATTATTAAAATATAAATTAATAAAAATTATAATAT
1 TTAATATAATTATTATT-AAATATAATTTAATAAAAAATA-AATAT
7542099 ACAATATTAG
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
56 31 0.37
57 11 0.13
58 20 0.24
59 22 0.26
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (57 bp):
TTAATATAATTATTATTAAATATAATTTAATAAAAAATAAATATTTTAATATCATTC
Found at i:7548914 original size:54 final size:54
Alignment explanation
Indices: 7548840--7548948 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
7548830 TCTCTAAGGT
7548840 CATTTGGTGCCTTCTTGCTTATGCTAATATTCAATGTATTTTTCTGCTTCTTAA
1 CATTTGGTGCCTTCTTGCTTATGCTAATATTCAATGTATTTTTCTGCTTCTTAA
7548894 CATTTGGTGCCTTCTTGCTTATGCTAATATTCAATGTATTTTTCTGCTTCTTAA
1 CATTTGGTGCCTTCTTGCTTATGCTAATATTCAATGTATTTTTCTGCTTCTTAA
7548948 C
1 C
7548949 TCTTGTTTCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.50
Consensus pattern (54 bp):
CATTTGGTGCCTTCTTGCTTATGCTAATATTCAATGTATTTTTCTGCTTCTTAA
Found at i:7549374 original size:28 final size:28
Alignment explanation
Indices: 7549334--7549389 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
7549324 TTCCCCTCTC
7549334 CAGAAAGATGCTTTGTTGTTCTGGAGAT
1 CAGAAAGATGCTTTGTTGTTCTGGAGAT
7549362 CAGAAAGATGCTTTGTTGTTCTGGAGAT
1 CAGAAAGATGCTTTGTTGTTCTGGAGAT
7549390 GTCACCTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.36
Consensus pattern (28 bp):
CAGAAAGATGCTTTGTTGTTCTGGAGAT
Found at i:7563695 original size:23 final size:23
Alignment explanation
Indices: 7563669--7563789 Score: 156
Period size: 23 Copynumber: 5.2 Consensus size: 23
7563659 ACACTAGCGC
7563669 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
7563692 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
7563715 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
7563740 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
7563763 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
7563786 GCTC
1 GCTC
7563790 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.72
24 1 0.01
25 16 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:7563738 original size:48 final size:46
Alignment explanation
Indices: 7563669--7563789 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
7563659 ACACTAGCGC
* *
7563669 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
7563715 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
7563763 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
7563790 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:7563818 original size:39 final size:39
Alignment explanation
Indices: 7563754--7563828 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
7563744 TCCGATTAGC
*
7563754 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
7563793 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
7563829 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:7563823 original size:23 final size:23
Alignment explanation
Indices: 7563788--7563881 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
7563778 CTTTGTGTGC
*
7563788 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
7563811 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
7563834 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
7563859 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
7563881 T
1 T
7563882 TGTTCCGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 21 0.36
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:7564814 original size:24 final size:25
Alignment explanation
Indices: 7564789--7564836 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
7564779 TCTCGTATTC
7564789 TTCTCCTAGTTAAACTCT-ATTATCT
1 TTCTCC-AGTTAAACTCTGATTATCT
*
7564814 TTTTCCAGTTAAACTCTGATTAT
1 TTCTCCAGTTAAACTCTGATTAT
7564837 TCCAGAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.25, C:0.21, G:0.06, T:0.48
Consensus pattern (25 bp):
TTCTCCAGTTAAACTCTGATTATCT
Found at i:7567126 original size:20 final size:21
Alignment explanation
Indices: 7567095--7567134 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
7567085 ATTAATTTGT
7567095 TTTTTTATAATTATAATTTAA
1 TTTTTTATAATTATAATTTAA
*
7567116 TTTTTTA-AATTATATTTTA
1 TTTTTTATAATTATAATTTA
7567135 TTTGAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTTATAATTATAATTTAA
Found at i:7567128 original size:26 final size:25
Alignment explanation
Indices: 7567071--7567129 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
7567061 CATAAAAGTC
7567071 TTAAATTA-AATTAAATTAATTTGT
1 TTAAATTATAATTAAATTAATTTGT
**
7567095 TT-TTTTATAATTATAATTTAATTT-T
1 TTAAATTATAATTA-AA-TTAATTTGT
7567120 TTAAATTATA
1 TTAAATTATA
7567130 TTTTATTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
23 3 0.11
24 7 0.26
25 5 0.19
26 12 0.44
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
TTAAATTATAATTAAATTAATTTGT
Found at i:7572019 original size:20 final size:20
Alignment explanation
Indices: 7571981--7572035 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
7571971 ATTTAATTAT
**
7571981 TTTTTAAATTTTAAAAAATAA
1 TTTTTAAATTTT-TTAAATAA
7572002 TTTTTAAATTTTTTAAATAA
1 TTTTTAAATTTTTTAAATAA
7572022 -TTTTAATATTTTTT
1 TTTTTAA-ATTTTTT
7572036 TATTTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 6 0.19
20 13 0.42
21 12 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTAAATTTTTTAAATAA
Found at i:7582516 original size:123 final size:126
Alignment explanation
Indices: 7582285--7582522 Score: 322
Period size: 123 Copynumber: 1.9 Consensus size: 126
7582275 TGATCGTTAT
* *
7582285 CTCTTTGCCGGTGATAAAGATTCCATGCATGTTTTTTTTTATTAAAACAGAACTTTAATAAATAA
1 CTCTTTGCCGGTGATAAAGATTCCATACATGTTTTATTTTATTAAAACAGAACTTTAATAAATAA
* ***
7582350 ATATGTAAAATGTTAAAATCATATGTTTGTTTTAATCTATAAAT-ATATTTAATACTATAA
66 ATATATAAAATGTTAAAATCATATGTTTACCTTAATCTATAAATAATATTTAATACTATAA
* * *
7582410 CTCTTTGTC-GTGATAAAGATTCCATACATG-TTTATTTTATTAAAACATAATTTTAATAAATAA
1 CTCTTTGCCGGTGATAAAGATTCCATACATGTTTTATTTTATTAAAACAGAACTTTAATAAATAA
* * * *
7582473 ATATATAAAATGTTAAAATCAT-TTTATTACCTTCATGTTTAAATAATATT
66 ATATATAAAATGTTAAAATCATATGT-TTACCTTAATCTATAAATAATATT
7582523 AGTTTCTTGT
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
122 2 0.02
123 63 0.64
124 25 0.26
125 8 0.08
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (126 bp):
CTCTTTGCCGGTGATAAAGATTCCATACATGTTTTATTTTATTAAAACAGAACTTTAATAAATAA
ATATATAAAATGTTAAAATCATATGTTTACCTTAATCTATAAATAATATTTAATACTATAA
Found at i:7585373 original size:133 final size:133
Alignment explanation
Indices: 7585130--7585399 Score: 450
Period size: 133 Copynumber: 2.0 Consensus size: 133
7585120 AGTCAAAGTG
* * **
7585130 CTCAAAGGGTGGCCGGCCATGGGATTGAGTGACTGAAATTTATTTTCTAAAAATAGTCTCCAACT
1 CTCAAAAGGTGGCCAGCCATGGGATTGAGTGACTGAAATTTATTTTCTAAAAATAACCTCCAACT
*
7585195 CCTACCTATAAATACCCCCTAAGCTACCCATTCTAATAACAAATTCACAAACACATTATCTTCTT
66 CCCACCTATAAATACCCCCTAAGCTACCCATTCTAATAACAAATTCACAAACACATTATCTTCTT
7585260 TAT
131 TAT
* *
7585263 CTCAAAAGGTGGTCAGCCATGGGATTGAGTGGCTGAAATTTATTTTCTAAAAATAACCTCCAACT
1 CTCAAAAGGTGGCCAGCCATGGGATTGAGTGACTGAAATTTATTTTCTAAAAATAACCTCCAACT
* * *
7585328 CCCACCTATAAATACCCCCTAAGCTACCCATTCTAATAACGAATTCACCAACACATTATCTTTTT
66 CCCACCTATAAATACCCCCTAAGCTACCCATTCTAATAACAAATTCACAAACACATTATCTTCTT
7585393 TAT
131 TAT
7585396 CTCA
1 CTCA
7585400 TTTTCTCTTT
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
133 127 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (133 bp):
CTCAAAAGGTGGCCAGCCATGGGATTGAGTGACTGAAATTTATTTTCTAAAAATAACCTCCAACT
CCCACCTATAAATACCCCCTAAGCTACCCATTCTAATAACAAATTCACAAACACATTATCTTCTT
TAT
Found at i:7586307 original size:6 final size:6
Alignment explanation
Indices: 7586290--7586319 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
7586280 ATTAACAAAT
*
7586290 TAATTA TGATTA TAATTA TAATTA TAATTA
1 TAATTA TAATTA TAATTA TAATTA TAATTA
7586320 GAAATACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:7592526 original size:2 final size:2
Alignment explanation
Indices: 7592521--7592547 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7592511 TTGGGTGTCT
7592521 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7592548 GTCTGTGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7603983 original size:14 final size:14
Alignment explanation
Indices: 7603964--7603994 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7603954 AGAATAAATC
7603964 TTTAATTAAATAAA
1 TTTAATTAAATAAA
*
7603978 TTTAATTAATTAAA
1 TTTAATTAAATAAA
7603992 TTT
1 TTT
7603995 TTAAACCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAATTAAATAAA
Found at i:7611721 original size:26 final size:26
Alignment explanation
Indices: 7611692--7611744 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
7611682 ACATGGAACA
*
7611692 TATTTAAAATACATGAATGAATAATT
1 TATTTAAAATACATGAATAAATAATT
7611718 TATTTAAAATACATGAATAAATAATT
1 TATTTAAAATACATGAATAAATAATT
7611744 T
1 T
7611745 CATATGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (26 bp):
TATTTAAAATACATGAATAAATAATT
Found at i:7627496 original size:20 final size:21
Alignment explanation
Indices: 7627448--7627497 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
7627438 ATAATAACAT
7627448 AATCCAAATATAAAGTTTAAA
1 AATCCAAATATAAAGTTTAAA
* *
7627469 AATTCAAATATAAAG-TTATA
1 AATCCAAATATAAAGTTTAAA
7627489 AATCCAAAT
1 AATCCAAAT
7627498 TACATAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (21 bp):
AATCCAAATATAAAGTTTAAA
Found at i:7655857 original size:16 final size:17
Alignment explanation
Indices: 7655836--7655871 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7655826 GAGCCACATT
7655836 AAAAAAT-TTTGAAAAA
1 AAAAAATGTTTGAAAAA
*
7655852 AAAAAATGTTTTAAAAA
1 AAAAAATGTTTGAAAAA
7655869 AAA
1 AAA
7655872 TTAAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (17 bp):
AAAAAATGTTTGAAAAA
Found at i:7656119 original size:30 final size:29
Alignment explanation
Indices: 7656085--7656155 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
7656075 AATAATAAAG
7656085 ATAAAATTATATTTTAACTCTTTAAAAATA
1 ATAAAATTATA-TTTAACTCTTTAAAAATA
* * *
7656115 ATAAAAAATTA-ATTTAATTTTTTAAAAATT
1 AT--AAAATTATATTTAACTCTTTAAAAATA
*
7656145 ATAAAAATATA
1 ATAAAATTATA
7656156 AACAATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
28 6 0.18
29 1 0.03
30 19 0.56
31 1 0.03
32 7 0.21
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
ATAAAATTATATTTAACTCTTTAAAAATA
Found at i:7658447 original size:18 final size:18
Alignment explanation
Indices: 7658415--7658463 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
7658405 GCATGTACGA
* *
7658415 TTGACGAATTTTCTAAAT
1 TTGACGAACTCTCTAAAT
* *
7658433 TTGACGTACTCTCTAAGT
1 TTGACGAACTCTCTAAAT
*
7658451 TTGTCGAACTCTC
1 TTGACGAACTCTC
7658464 CAGAAATGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.41
Consensus pattern (18 bp):
TTGACGAACTCTCTAAAT
Found at i:7659469 original size:9 final size:9
Alignment explanation
Indices: 7659457--7659516 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
7659447 TAAAAAAATA
7659457 TTAAAATTT
1 TTAAAATTT
7659466 TT--AATTT
1 TTAAAATTT
*
7659473 TTAAATTTT
1 TTAAAATTT
*
7659482 TTTAAATTT
1 TTAAAATTT
7659491 TTAAAATATT
1 TTAAAAT-TT
7659501 ATTAAAATTT
1 -TTAAAATTT
*
7659511 ATAAAA
1 TTAAAA
7659517 AAATATATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 7 0.17
9 24 0.57
10 4 0.10
11 7 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TTAAAATTT
Found at i:7659700 original size:2 final size:2
Alignment explanation
Indices: 7659693--7659718 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7659683 ATAAAAATTA
7659693 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7659719 TAAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7660852 original size:20 final size:20
Alignment explanation
Indices: 7660806--7660852 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
7660796 GAATGGACAC
* *
7660806 ATGTGAAAATTTTATATATA
1 ATGTTAAAATTTTACATATA
*
7660826 ATTTTAAAATTTTACATA-A
1 ATGTTAAAATTTTACATATA
7660845 TATGTTAA
1 -ATGTTAA
7660853 TATAAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (20 bp):
ATGTTAAAATTTTACATATA
Found at i:7661396 original size:20 final size:19
Alignment explanation
Indices: 7661360--7661398 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7661350 TTTTTACAAT
**
7661360 AGTAAAAATGTAATTTTTA
1 AGTAAAAATACAATTTTTA
7661379 AGTAAAAATACAATTTTTA
1 AGTAAAAATACAATTTTTA
7661398 A
1 A
7661399 AGGATTAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (19 bp):
AGTAAAAATACAATTTTTA
Found at i:7661722 original size:23 final size:23
Alignment explanation
Indices: 7661694--7661759 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
7661684 GTTCAATTAT
7661694 ATGTTCATGAACATATTCGTTTA
1 ATGTTCATGAACATATTCGTTTA
* *
7661717 ATGTTCGTGAACATATTCGATTA
1 ATGTTCATGAACATATTCGTTTA
* *
7661740 A-GTTAAATGAACATGTTCGT
1 ATGTT-CATGAACATATTCGT
7661760 AAGTATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 3 0.08
23 33 0.92
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (23 bp):
ATGTTCATGAACATATTCGTTTA
Found at i:7663920 original size:2 final size:2
Alignment explanation
Indices: 7663913--7663937 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7663903 CCTGAAAATG
7663913 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
7663938 TCAGATACTC
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:7664091 original size:261 final size:257
Alignment explanation
Indices: 7663631--7664151 Score: 1006
Period size: 261 Copynumber: 2.0 Consensus size: 257
7663621 ATATATTCAT
7663631 ATATTCTTTTTACTTCCTGAAAATGTATATATATATATATATATATTCAGATACTCTAATGGGAG
1 ATATTCTTTTTACTTCCTGAAAATGTATATATATATATATATATATTCAGATACTCTAATGGGAG
7663696 AAATTTAAGATGTTGAACAGGCTTTAACAACAGTTAGAAGATGCAAGTCTCAATCGTACAAGATA
66 AAATTTAAGATGTTGAACAGGCTTTAACAACAGTTAGAAGATGCAAGTCTCAATCGTACAAGATA
7663761 AAAATTCTCAAAGATATCAGTGGCATCATCAAGCCCTCGAGGTTTCTCATATTCATTTCATCTGT
131 AAAATTCTCAAAGATATCAGTGGCATCATCAAGCCCTCGAGGTTTCTCATATTCATTTCATCTGT
7663826 GAATGATCTATCAGTTTAGGCTATTTCTTTTTTAGACAACAGCTATACCAAACGAGTAATTG
196 GAATGATCTATCAGTTTAGGCTATTTCTTTTTTAGACAACAGCTATACCAAACGAGTAATTG
7663888 ATATTCTTTTTACTTCCTGAAAATGTATATATATATATATATATATATATTCAGATACTCTAATG
1 ATATTCTTTTTACTTCCTGAAAATG----TATATATATATATATATATATTCAGATACTCTAATG
7663953 GGAGAAATTTAAGATGTTGAACAGGCTTTAACAACAGTTAGAAGATGCAAGTCTCAATCGTACAA
62 GGAGAAATTTAAGATGTTGAACAGGCTTTAACAACAGTTAGAAGATGCAAGTCTCAATCGTACAA
7664018 GATAAAAATTCTCAAAGATATCAGTGGCATCATCAAGCCCTCGAGGTTTCTCATATTCATTTCAT
127 GATAAAAATTCTCAAAGATATCAGTGGCATCATCAAGCCCTCGAGGTTTCTCATATTCATTTCAT
7664083 CTGTGAATGATCTATCAGTTTAGGCTATTTCTTTTTTAGACAACAGCTATACCAAACGAGTAATT
192 CTGTGAATGATCTATCAGTTTAGGCTATTTCTTTTTTAGACAACAGCTATACCAAACGAGTAATT
7664148 G
257 G
7664149 ATA
1 ATA
7664152 AGCTGCCGTA
Statistics
Matches: 260, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
257 25 0.10
261 235 0.90
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (257 bp):
ATATTCTTTTTACTTCCTGAAAATGTATATATATATATATATATATTCAGATACTCTAATGGGAG
AAATTTAAGATGTTGAACAGGCTTTAACAACAGTTAGAAGATGCAAGTCTCAATCGTACAAGATA
AAAATTCTCAAAGATATCAGTGGCATCATCAAGCCCTCGAGGTTTCTCATATTCATTTCATCTGT
GAATGATCTATCAGTTTAGGCTATTTCTTTTTTAGACAACAGCTATACCAAACGAGTAATTG
Found at i:7669861 original size:56 final size:54
Alignment explanation
Indices: 7669777--7670010 Score: 219
Period size: 56 Copynumber: 4.2 Consensus size: 54
7669767 GTCATGGCCG
7669777 ACACCATTTTTC-A-A-TT-AAAATATTTTTTTGAGTGTTTGCCACACAATGGTTT
1 ACACCATTTTTCTAGATTTAAAAATA-TTTTTTGAGTGTTTGCCAC-CAATGGTTT
* *
7669829 ACACCATTTTTCTTAGATTTAAAAATATTTTTTGAGTGTTTGTCATCCAATGGCTT
1 ACACCATTTTTC-TAGATTTAAAAATATTTTTTGAGTGTTTGCCA-CCAATGGTTT
* * *
7669885 ACATTACATTTTTC-AAATTTAAAAATATTTTTTTAGTGTTTGCCACCTAATGGTTT
1 ACA--CCATTTTTCTAGATTTAAAAATATTTTTTGAGTGTTTGCCACC-AATGGTTT
* * * *
7669941 ATACCATCTTTT-TCAGATTTAAAAATATTTTTTTTTAGTGTTTGTCATCCAATGGCTT
1 ACACCAT-TTTTCT-AGATTTAAAAATA--TTTTTTGAGTGTTTGCCA-CCAATGGTTT
* *
7669999 ACATCATATTTC
1 ACACCATTTTTC
7670011 CAAAATTTTA
Statistics
Matches: 151, Mismatches: 15, Indels: 26
0.79 0.08 0.14
Matches are distributed among these distances:
52 12 0.08
54 4 0.03
55 7 0.05
56 79 0.52
57 10 0.07
58 37 0.25
59 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (54 bp):
ACACCATTTTTCTAGATTTAAAAATATTTTTTGAGTGTTTGCCACCAATGGTTT
Found at i:7669938 original size:112 final size:111
Alignment explanation
Indices: 7669781--7670002 Score: 335
Period size: 112 Copynumber: 2.0 Consensus size: 111
7669771 TGGCCGACAC
*
7669781 CATTTTTCAATTAAAATATTTTTTTGAGTGTTTGCCACACAATGGTTTACACCAT-TTTTCTTAG
1 CATTTTTCAATTAAAATATTTTTTTGAGTGTTTGCCACACAATGGTTTACACCATCTTTT-TCAG
7669845 ATTTAAAAATA-TTTTTTGAGTGTTTGTCATCCAATGGCTTACATTA
65 ATTTAAAAATATTTTTTTGAGTGTTTGTCATCCAATGGCTTACATTA
*
7669891 CATTTTTCAAATTTAAAAATATTTTTTT-AGTGTTTGCCAC-CTAATGGTTTATACCATCTTTTT
1 CATTTTTC-AA-TT-AAAATATTTTTTTGAGTGTTTGCCACAC-AATGGTTTACACCATCTTTTT
*
7669954 CAGATTTAAAAATATTTTTTTTTAGTGTTTGTCATCCAATGGCTTACAT
62 CAGATTTAAAAATA-TTTTTTTGAGTGTTTGTCATCCAATGGCTTACAT
7670003 CATATTTCCA
Statistics
Matches: 102, Mismatches: 3, Indels: 10
0.89 0.03 0.09
Matches are distributed among these distances:
110 8 0.08
111 3 0.03
112 42 0.41
113 17 0.17
114 32 0.31
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.48
Consensus pattern (111 bp):
CATTTTTCAATTAAAATATTTTTTTGAGTGTTTGCCACACAATGGTTTACACCATCTTTTTCAGA
TTTAAAAATATTTTTTTGAGTGTTTGTCATCCAATGGCTTACATTA
Found at i:7670058 original size:14 final size:13
Alignment explanation
Indices: 7670020--7670077 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 13
7670010 CCAAAATTTT
7670020 AAAAA-ATAATTA
1 AAAAATATAATTA
**
7670032 AAGCATA-AATTA
1 AAAAATATAATTA
7670044 AAAAATTATAATTA
1 AAAAA-TATAATTA
7670058 AATTAAA-ATAATTA
1 AA--AAATATAATTA
7670072 AAAAAT
1 AAAAAT
7670078 GATTTAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
12 14 0.39
13 3 0.08
14 16 0.44
16 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (13 bp):
AAAAATATAATTA
Found at i:7670266 original size:29 final size:29
Alignment explanation
Indices: 7670212--7670267 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
7670202 TTCAATTTAA
* **
7670212 GTCATTTATGTAAATAAAATTTTTTTTGG
1 GTCATTTATATAAATAAAATCGTTTTTGG
7670241 GTCATTTATATAAA-AAAACTCGTTTTT
1 GTCATTTATATAAATAAAA-TCGTTTTT
7670268 CGTTTGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (29 bp):
GTCATTTATATAAATAAAATCGTTTTTGG
Found at i:7676055 original size:21 final size:20
Alignment explanation
Indices: 7676022--7676176 Score: 89
Period size: 21 Copynumber: 7.3 Consensus size: 20
7676012 TAAAAATGCA
* *
7676022 TAAAAATAACAACCAAAATAG
1 TAAAAA-AACAACAAAAACAG
7676043 TATAAAAAACAACAAAAACAG
1 TA-AAAAAACAACAAAAACAG
*
7676064 TAACAAAAACAACAGCAAAAATAG
1 TAA-AAAAAC-A-A-CAAAAACAG
* * *
7676088 CAACAAAAACAGCATCAAAACAA
1 TAA-AAAAACAACA--AAAACAG
*
7676111 TAAAAAAA-ATC-AAAACAG
1 TAAAAAAACAACAAAAACAG
*
7676129 TAAAAAAACAACATCAAAACAA
1 TAAAAAAACAACA--AAAACAG
* * * *
7676151 CAAAAAAGCAACCAAAGCAG
1 TAAAAAAACAACAAAAACAG
7676171 TAAAAA
1 TAAAAA
7676177 CAGCACCAAA
Statistics
Matches: 105, Mismatches: 18, Indels: 23
0.72 0.12 0.16
Matches are distributed among these distances:
18 14 0.13
19 2 0.02
20 11 0.10
21 26 0.25
22 26 0.25
23 9 0.09
24 17 0.16
ACGTcount: A:0.68, C:0.17, G:0.06, T:0.08
Consensus pattern (20 bp):
TAAAAAAACAACAAAAACAG
Found at i:7676068 original size:12 final size:12
Alignment explanation
Indices: 7676052--7676107 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
7676042 GTATAAAAAA
7676052 CAACAAAAACAG
1 CAACAAAAACAG
* *
7676064 TAACAAAAACAA
1 CAACAAAAACAG
* *
7676076 CAGCAAAAATAG
1 CAACAAAAACAG
7676088 CAACAAAAACAG
1 CAACAAAAACAG
*
7676100 CATCAAAA
1 CAACAAAA
7676108 CAATAAAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.66, C:0.21, G:0.07, T:0.05
Consensus pattern (12 bp):
CAACAAAAACAG
Found at i:7676124 original size:18 final size:18
Alignment explanation
Indices: 7676101--7676136 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7676091 CAAAAACAGC
7676101 ATCAAAACAATAAAAAAA
1 ATCAAAACAATAAAAAAA
*
7676119 ATCAAAACAGTAAAAAAA
1 ATCAAAACAATAAAAAAA
7676137 CAACATCAAA
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:0.75, C:0.11, G:0.03, T:0.11
Consensus pattern (18 bp):
ATCAAAACAATAAAAAAA
Found at i:7676136 original size:40 final size:39
Alignment explanation
Indices: 7676092--7676193 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 39
7676082 AAATAGCAAC
*
7676092 AAAAACAGCATCAAAACAATAAAAAA-AATCAAAACAGT
1 AAAAACAGCATCAAAACAATAAAAAACAACCAAAACAGT
* * *
7676130 AAAAAAACAACATCAAAACAACAAAAAAGCAACCAAAGCAGT
1 --AAAAACAGCATCAAAACAATAAAAAA-CAACCAAAACAGT
* *
7676172 AAAAACAGCACCAAAATAATAA
1 AAAAACAGCATCAAAACAATAA
7676194 TATAATTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
40 42 0.81
42 10 0.19
ACGTcount: A:0.68, C:0.19, G:0.06, T:0.08
Consensus pattern (39 bp):
AAAAACAGCATCAAAACAATAAAAAACAACCAAAACAGT
Found at i:7676636 original size:29 final size:30
Alignment explanation
Indices: 7676574--7676644 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
7676564 AGTTTATATC
* * *
7676574 TTTATAATTTTTAAAGGATTAAATTAAATT
1 TTTATTATTTTTAAAGGATCAAAGTAAATT
7676604 TTTATTATTTTTAAA-GATCAAAGTACAATT
1 TTTATTATTTTTAAAGGATCAAAGTA-AATT
7676634 TTAATATTATT
1 TT--TATTATT
7676645 AATTTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.23
30 20 0.57
32 7 0.20
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (30 bp):
TTTATTATTTTTAAAGGATCAAAGTAAATT
Found at i:7679684 original size:31 final size:30
Alignment explanation
Indices: 7679648--7679758 Score: 123
Period size: 31 Copynumber: 3.6 Consensus size: 30
7679638 TTAATATAAT
*
7679648 ATTTGATATTTAAATTTGATATATTTTTTTA
1 ATTTGATATTTAAATTTGACAT-TTTTTTTA
*
7679679 ATTTGATATTTAAACTTGACATTTTTTTTAAA
1 ATTTGATATTTAAATTTGACATTTTTTTT--A
* *
7679711 ATTTGGTATCTAAATTTGACACTTTTTTTTA
1 ATTTGATATTTAAATTTGACA-TTTTTTTTA
* * *
7679742 AGTTGGTACTTAAATTT
1 ATTTGATATTTAAATTT
7679759 TTTGGGATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.10
31 35 0.51
32 19 0.28
33 8 0.12
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (30 bp):
ATTTGATATTTAAATTTGACATTTTTTTTA
Found at i:7680022 original size:31 final size:30
Alignment explanation
Indices: 7679981--7680081 Score: 86
Period size: 31 Copynumber: 3.4 Consensus size: 30
7679971 AAAAAAACTT
*
7679981 AGGTACCAAATTAGGAAAAAATGTCAAGTTC
1 AGGTATCAAATTAGGAAAAAATGT-AAGTTC
* *
7680012 AGGTATCAAATTGAGTCAAAAAA---AA-TTT
1 AGGTATCAAATT-AG-GAAAAAATGTAAGTTC
*
7680040 AGATA-CTAAATTAGGAAAAAATGGTAAGTTC
1 AGGTATC-AAATTAGGAAAAAAT-GTAAGTTC
7680071 AGGTATCAAAT
1 AGGTATCAAAT
7680082 GTTATATTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
26 6 0.11
27 3 0.06
28 11 0.20
29 2 0.04
30 2 0.04
31 21 0.39
32 3 0.06
33 6 0.11
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.26
Consensus pattern (30 bp):
AGGTATCAAATTAGGAAAAAATGTAAGTTC
Found at i:7680051 original size:59 final size:59
Alignment explanation
Indices: 7679953--7680081 Score: 179
Period size: 59 Copynumber: 2.2 Consensus size: 59
7679943 TAATAAATTT
* ** *
7679953 AGGTACCAAATTGAATTTAAAAAAACTTAGGTACCAAATTAGGAAAAAAT-GTCAAGTTC
1 AGGTATCAAATTGAATCAAAAAAAACTTAGATACCAAATTAGGAAAAAATGGT-AAGTTC
* * *
7680012 AGGTATCAAATTGAGTCAAAAAAAATTTAGATACTAAATTAGGAAAAAATGGTAAGTTC
1 AGGTATCAAATTGAATCAAAAAAAACTTAGATACCAAATTAGGAAAAAATGGTAAGTTC
7680071 AGGTATCAAAT
1 AGGTATCAAAT
7680082 GTTATATTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 60 0.97
60 2 0.03
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.26
Consensus pattern (59 bp):
AGGTATCAAATTGAATCAAAAAAAACTTAGATACCAAATTAGGAAAAAATGGTAAGTTC
Found at i:7695722 original size:22 final size:22
Alignment explanation
Indices: 7695697--7695742 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7695687 TCATTTAATT
*
7695697 AATTT-TTATAAATTATACAAAA
1 AATTTGTT-TAAAATATACAAAA
*
7695719 AATTTGTTTAAAATATAGAAAA
1 AATTTGTTTAAAATATACAAAA
7695741 AA
1 AA
7695743 AAAGACTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (22 bp):
AATTTGTTTAAAATATACAAAA
Found at i:7696268 original size:9 final size:9
Alignment explanation
Indices: 7696231--7696273 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
7696221 CTTCTCCAAC
7696231 TTTTTAATAA
1 TTTTTAAT-A
*
7696241 TATTTAATA
1 TTTTTAATA
7696250 TGTTTT-ATA
1 T-TTTTAATA
7696259 TTTTTAATA
1 TTTTTAATA
7696268 TTTTTA
1 TTTTTA
7696274 TAATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 4 0.14
9 15 0.52
10 10 0.34
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTAATA
Found at i:7696274 original size:17 final size:19
Alignment explanation
Indices: 7696232--7696281 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
7696222 TTCTCCAACT
*
7696232 TTTTAATAATATTTAATATG
1 TTTT-ATAATTTTTAATATG
7696252 TTTTAT-ATTTTTAATAT-
1 TTTTATAATTTTTAATATG
7696269 TTTTATAATTTTT
1 TTTTATAATTTTT
7696282 TTATCATGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.21
18 16 0.57
19 2 0.07
20 4 0.14
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTTAATATG
Found at i:7696730 original size:9 final size:9
Alignment explanation
Indices: 7696707--7696747 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
7696697 AATAAAAATA
7696707 ATTTTATATT
1 ATTTTATA-T
7696717 ATTTTATAT
1 ATTTTATAT
7696726 ATTTTATA-
1 ATTTTATAT
*
7696734 AATTTA-AT
1 ATTTTATAT
7696742 ATTTTA
1 ATTTTA
7696748 AAATAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 10 0.36
9 9 0.32
10 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
ATTTTATAT
Found at i:7696743 original size:18 final size:19
Alignment explanation
Indices: 7696703--7696743 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
7696693 GTAAAATAAA
*
7696703 AATA-ATTTTATATTATTT
1 AATATATTTTATATAATTT
*
7696721 TATATATTTTATA-AATTT
1 AATATATTTTATATAATTT
7696739 AATAT
1 AATAT
7696744 TTTAAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATATATTTTATATAATTT
Found at i:7696745 original size:16 final size:16
Alignment explanation
Indices: 7696719--7696751 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7696709 TTTATATTAT
7696719 TTTATATATTTTATAAA
1 TTTATATATTTTA-AAA
7696736 TTTA-ATATTTTAAAA
1 TTTATATATTTTAAAA
7696751 T
1 T
7696752 AAAAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTATATATTTTAAAA
Found at i:7698370 original size:14 final size:14
Alignment explanation
Indices: 7698343--7698378 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
7698333 TGTAGAACAG
* *
7698343 AAAAAGGAAGAAGA
1 AAAAAAGAAAAAGA
7698357 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
7698371 AAAAAAGA
1 AAAAAAGA
7698379 GAGAACATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:7704051 original size:20 final size:19
Alignment explanation
Indices: 7704011--7704054 Score: 52
Period size: 22 Copynumber: 2.2 Consensus size: 19
7704001 TATTATATGT
*
7704011 TATTTTAAATATATATTTA
1 TATTTTAAATATATATATA
7704030 TATTTTAAAATTATGATATATA
1 TATTTT-AAA-TAT-ATATATA
7704052 TAT
1 TAT
7704055 ATATATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 3 0.14
21 3 0.14
22 9 0.43
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TATTTTAAATATATATATA
Found at i:7704185 original size:23 final size:23
Alignment explanation
Indices: 7704159--7704209 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
7704149 TTGTTTTTAG
* *
7704159 AAATAAGAATATCCTTAT-TTGGA
1 AAATAA-AATATCATAATATTGGA
*
7704182 AAATAAAATTTCATAATATTGGA
1 AAATAAAATATCATAATATTGGA
7704205 AAATA
1 AAATA
7704210 CTCAGAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (23 bp):
AAATAAAATATCATAATATTGGA
Found at i:7704409 original size:27 final size:26
Alignment explanation
Indices: 7704361--7704411 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
7704351 TAATATTTGA
**
7704361 ATTTGATTTTTTTTCTTAAATGTGTT
1 ATTTGATTTTTTTAATTAAATGTGTT
*
7704387 ATTTGTATTTTTTTAATTTAATGTG
1 ATTTG-ATTTTTTTAATTAAATGTG
7704412 ATATCTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.65
Consensus pattern (26 bp):
ATTTGATTTTTTTAATTAAATGTGTT
Found at i:7725077 original size:14 final size:12
Alignment explanation
Indices: 7725045--7725084 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 12
7725035 AGTTTAGCAT
7725045 TATTTTTAAGAAA
1 TATTTTTAA-AAA
7725058 TATTTTTAAAAA
1 TATTTTTAAAAA
7725070 GTATTTTTGAAAAA
1 -TATTTTT-AAAAA
7725084 T
1 T
7725085 TTGAGTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.12
13 17 0.68
14 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TATTTTTAAAAA
Found at i:7736913 original size:8 final size:8
Alignment explanation
Indices: 7736894--7736927 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
7736884 TTGCTTGTAG
7736894 TTCTTATTT
1 TTCTT-TTT
7736903 TTCTTTTT
1 TTCTTTTT
7736911 TTC-TTTT
1 TTCTTTTT
7736918 TTCTTTTT
1 TTCTTTTT
7736926 TT
1 TT
7736928 GCATTTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.29
8 12 0.50
9 5 0.21
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (8 bp):
TTCTTTTT
Found at i:7739921 original size:60 final size:60
Alignment explanation
Indices: 7739807--7739919 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 60
7739797 TTAATATAAC
* * * * *
7739807 ATTTGATATTTGAACTTGACATTTTTTTTCTAATTTAATACTTAAACTTTTTTTGACATA
1 ATTTGAAACTTGAACTTCACATCTTTTTCCTAATTTAATACTTAAACTTTTTTTGACATA
*
7739867 ATTTGAAACTTGAACTTCACA-CTTTTTCCTAATTTGATA-TCTAAACTTTTTTT
1 ATTTGAAACTTGAACTTCACATCTTTTTCCTAATTTAATACT-TAAACTTTTTTT
7739920 TGGATCCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 1 0.02
59 27 0.59
60 18 0.39
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.51
Consensus pattern (60 bp):
ATTTGAAACTTGAACTTCACATCTTTTTCCTAATTTAATACTTAAACTTTTTTTGACATA
Found at i:7740235 original size:30 final size:30
Alignment explanation
Indices: 7740201--7740287 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 30
7740191 GTATCCCAAA
*
7740201 AAGTTTAAGTATCAACTTA-AAAAAAGTGTC
1 AAGTTTAAGTA-CAAATTAGAAAAAAGTGTC
* *
7740231 AAGTTTAGGTACAAATTAGGAAAAAGTGTC
1 AAGTTTAAGTACAAATTAGAAAAAAGTGTC
* *
7740261 AAGTTTGAGTACCAAATTGGATAAAAA
1 AAGTTTAAGTA-CAAATTAGA-AAAAA
7740288 ATTTAGGTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 6 0.13
30 29 0.62
31 7 0.15
32 5 0.11
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (30 bp):
AAGTTTAAGTACAAATTAGAAAAAAGTGTC
Found at i:7740277 original size:31 final size:29
Alignment explanation
Indices: 7740221--7740323 Score: 94
Period size: 30 Copynumber: 3.6 Consensus size: 29
7740211 ATCAACTTAA
7740221 AAAAAGTGTCAAGTTTAGGTACAAATTAGG
1 AAAAAGTGTCAAGTTTAGGTACAAATT-GG
7740251 AAAAAGTGTCAAGTTT-GAGTACCAAATTGG
1 AAAAAGTGTCAAGTTTAG-GTA-CAAATTGG
7740281 ATAAAA-----AA-TTTAGGTATCAAATTGG
1 A-AAAAGTGTCAAGTTTAGGTA-CAAATTGG
*
7740306 AAAGAAATGTCAAGTTTA
1 AAA-AAGTGTCAAGTTTA
7740324 AATACCAAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 21
0.73 0.01 0.25
Matches are distributed among these distances:
24 2 0.03
25 17 0.28
26 3 0.05
29 1 0.02
30 24 0.39
31 14 0.23
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (29 bp):
AAAAAGTGTCAAGTTTAGGTACAAATTGG
Found at i:7740614 original size:13 final size:15
Alignment explanation
Indices: 7740598--7740629 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7740588 TTTAATTTAA
7740598 TTTTTA-AT-ATATG
1 TTTTTAGATAATATG
7740611 TTTTTAGATAATATG
1 TTTTTAGATAATATG
7740626 TTTT
1 TTTT
7740630 CAAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (15 bp):
TTTTTAGATAATATG
Found at i:7744849 original size:102 final size:103
Alignment explanation
Indices: 7744664--7744869 Score: 353
Period size: 102 Copynumber: 2.0 Consensus size: 103
7744654 AAGAAGTCAG
*
7744664 TTTCTTGTAAAAGATTGGAGAATATTAGGCTCTTGTTGTAATATTGTGTTTTCCTGGTTAGCTGG
1 TTTCTTGTAAAAGATTGGAGAATATTAGGCTCTTGTTGTAATATTGTGTTTTCCTGGTCAGCTGG
7744729 TATGACAGCGTAGCGCCCACACCTTCTGACTTGCTCAT
66 TATGACAGCGTAGCGCCCACACCTTCTGACTTGCTCAT
*
7744767 TTTCTTGT-AAAGATTGGAGAATATTAGGCTCTTGTTGTAATATTGTGTTTTCTTGGTCAGCTGG
1 TTTCTTGTAAAAGATTGGAGAATATTAGGCTCTTGTTGTAATATTGTGTTTTCCTGGTCAGCTGG
* *
7744831 TATGACA-CGGTCGCGCCCACACCTTCTGGCTTGCTCAT
66 TATGACAGC-GTAGCGCCCACACCTTCTGACTTGCTCAT
7744869 T
1 T
7744870 CTTTTGTCTA
Statistics
Matches: 98, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
101 1 0.01
102 89 0.91
103 8 0.08
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (103 bp):
TTTCTTGTAAAAGATTGGAGAATATTAGGCTCTTGTTGTAATATTGTGTTTTCCTGGTCAGCTGG
TATGACAGCGTAGCGCCCACACCTTCTGACTTGCTCAT
Found at i:7762272 original size:23 final size:23
Alignment explanation
Indices: 7762246--7762294 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
7762236 AAGAGATTAA
7762246 TTATAAAAAAATTATATTATCAC
1 TTATAAAAAAATTATATTATCAC
* * *
7762269 TTATTAAATAATTATTTTATCAC
1 TTATAAAAAAATTATATTATCAC
7762292 TTA
1 TTA
7762295 ATAATCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (23 bp):
TTATAAAAAAATTATATTATCAC
Found at i:7763186 original size:54 final size:54
Alignment explanation
Indices: 7763074--7763272 Score: 184
Period size: 54 Copynumber: 3.7 Consensus size: 54
7763064 AAGCTTCAAA
* ** * * * * *
7763074 TGATTTACGATCATGACAATCTACTTACGGGATTTTATGAATCTCGCAGT-TAGT
1 TGATTTACAATCATGACCTTCTACTTACGGGATTTTACGAATCTCACGGTCCA-C
* * * ***
7763128 TGATTTACAATCATGACCTTTTACTTGCGGGATTTTACGAATTTTGTGGTCCAC
1 TGATTTACAATCATGACCTTCTACTTACGGGATTTTACGAATCTCACGGTCCAC
** * * **
7763182 TGATTTATGATCATGACCTTCTAGTTTCGGGATTTTACGAATCTCACGGTCTGC
1 TGATTTACAATCATGACCTTCTACTTACGGGATTTTACGAATCTCACGGTCCAC
**
7763236 TGATTTACAATTGTGACCTTCTACTTACGGGATTTTA
1 TGATTTACAATCATGACCTTCTACTTACGGGATTTTA
7763273 TTAAATATTG
Statistics
Matches: 115, Mismatches: 29, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
54 114 0.99
55 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.40
Consensus pattern (54 bp):
TGATTTACAATCATGACCTTCTACTTACGGGATTTTACGAATCTCACGGTCCAC
Found at i:7763267 original size:108 final size:108
Alignment explanation
Indices: 7763074--7763272 Score: 265
Period size: 108 Copynumber: 1.8 Consensus size: 108
7763064 AAGCTTCAAA
* * *
7763074 TGATTTACGATCATGACAATCTACTTACGGGATTTTATGAATCTCGCAGTTAGTTGATTTACAAT
1 TGATTTACGATCATGACAATCTACTTACGGGATTTTACGAATCTCACAGTTAGCTGATTTACAAT
* *
7763139 CATGACCTTTTACTTGCGGGATTTTACGAATTTTGTGGTCCAC
66 CATGACCTTCTACTTACGGGATTTTACGAATTTTGTGGTCCAC
* ** * * *
7763182 TGATTTATGATCATGACCTTCTAGTTTCGGGATTTTACGAATCTCACGGTCT-GCTGATTTACAA
1 TGATTTACGATCATGACAATCTACTTACGGGATTTTACGAATCTCACAGT-TAGCTGATTTACAA
**
7763246 TTGTGACCTTCTACTTACGGGATTTTA
65 TCATGACCTTCTACTTACGGGATTTTA
7763273 TTAAATATTG
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
108 76 0.99
109 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.40
Consensus pattern (108 bp):
TGATTTACGATCATGACAATCTACTTACGGGATTTTACGAATCTCACAGTTAGCTGATTTACAAT
CATGACCTTCTACTTACGGGATTTTACGAATTTTGTGGTCCAC
Found at i:7763836 original size:618 final size:614
Alignment explanation
Indices: 7762518--7764459 Score: 2095
Period size: 618 Copynumber: 3.1 Consensus size: 614
7762508 CCAATCCAAT
* * * ** * * * *
7762518 TCACGACATTTTACTTACACGATTTTACGAATCTCGCGGTCCGC-GTATTTACAATCACGACCTT
1 TCACGACCTTTTACTTGCAAGATTTTACGAATCTCGCAATCCACTG-ATTTATAATCATGACCAT
* ** * * * * * * * *
7762582 CTACCTTCGAAATTTTAC-AATTCTCACAATCCGCTAATTTATAATCATTAGCTTCTACTTACGA
65 ATAGTTTCGAGATTTTACGAA-TCTCACGATCCGATGATTTACAATCGTGACCTTCTACTTACGA
* * * * * *
7762646 GATTTTATTCAATATTATTTAGACTGTTCGATGATGAGAATTATGAAAAAATGTTGAGAAAATTG
129 GATTTTATTCAATATTGTTTAGTCTGTTTGATGATGAGAATTATCAGAAGATGTTGAGAAAATTG
*
7762711 GTTGACCATGCAATGAGTGCGGCTAATAATTGCTCCGATACTAATCTGGATATGTTGGTTTTCTT
194 GTTGACCATGCAATGAGTGCGGCTAATAATTGCTCCGATACTAGTCTGGATATGTTGGTTTTCTT
* * * *
7762776 GGTTCAAAAAAGAATGAAAATTTTCTAAACTAGTTTTAAGAATGGCTTGAGATGATTTTCAACTA
259 GGTTCAAAAGA-AATGTAAATTTTCTAAACTAGTTATAAGAATGGCTAGAGATGATTTTCAACTA
* * * *
7762841 GCTAATTCTAAACTCTCTACCCTTCAGAG-CATGTTAGATACTAGAGATGATGAATAT-ATGCGT
323 GTTAATTCTAACCTCTCTGCCCTTCAGAGCCA-GTTAGATGCTAGAGATGATGAATATAAT-CGT
* * * *
7762904 GTTGAGGAAGAATTCAAAA-TCGGCCTTGAAAGAA-AGAGGATAAAGGAATAAATTTTGTTACAT
386 GTTGAGGAAGAACTCAAAACT-GACCTTGAAAGAAGA-AGGATAGAGGAATCAATTTTGTTACAT
* * * *
7762967 TGTCATCGTGAGCCTTTAAAGCTACTTCTCTTCACCATAAC-CTGAAATGAAGATTGAAATGGA-
449 TGTCTTCGTGAG-C-TTGAAGCTACTTCTCTTCACCAT-ACTTTGAAATGAAGCTTGAAATGGAT
* * *
7763030 CTAATCTGCTAAGAAAAACAAAGAACTTTCTAAAAAGCTTCAAATGATTTACGATCATGACAATC
511 C-AATATGCT--CAAAAA-AAAGAACATTCTAAAAAGCTTCAAATGATTTACGATCATGACAATC
** * * *
7763095 TACTTACGGGATTTTATGAATCTCGCAGTTAGTTGATTTACAA
572 TACTTACAAGATTTTACGAATCTCGCAGTCAGCTGATTTACAA
* ** * * *** * * *
7763138 TCATGACCTTTTACTTGCGGGATTTTACGAATTTTGTGGTCCACTGATTTATGATCATGACCTTC
1 TCACGACCTTTTACTTGCAAGATTTTACGAATCTCGCAATCCACTGATTTATAATCATGACCATA
* * * * * *
7763203 TAGTTTCGGGATTTTACGAATCTCACGGTCTGCTGATTTACAATTGTGACCTTCTACTTACGGGA
66 TAGTTTCGAGATTTTACGAATCTCACGATCCGATGATTTACAATCGTGACCTTCTACTTACGAGA
* * * * * * **
7763268 TTTTATTAAATATTGTTTAGTCTATTTGATTATTAGAATCATTAGAAGATGTTGAGAAGTTTGGT
131 TTTTATTCAATATTGTTTAGTCTGTTTGATGATGAGAATTATCAGAAGATGTTGAGAAAATTGGT
* * *
7763333 TGACCATGCAATGAGTGCGGCTAATAATTTCTCCGATACTAGTTTTGATATGTTGGTTTTCTTGG
196 TGACCATGCAATGAGTGCGGCTAATAATTGCTCCGATACTAGTCTGGATATGTTGGTTTTCTTGG
* * *
7763398 TTCAAAAGAAATGTAAATTTTCTAAACTAGTAATAGGAATGACTAGAGATGATTTTCAACTAGTT
261 TTCAAAAGAAATGTAAATTTTCTAAACTAGTTATAAGAATGGCTAGAGATGATTTTCAACTAGTT
* * * *
7763463 AATTCTAACCTCTTTGCCCTTTAGAGCCAGTTAGATGCTAGAGATGATTAATATAATTGTGTTGA
326 AATTCTAACCTCTCTGCCCTTCAGAGCCAGTTAGATGCTAGAGATGATGAATATAATCGTGTTGA
*
7763528 GGAAGAACTCAAAACTGACCTTGAAAGAAGAAGGATAGAGGAATCAATTTTGTTACATTGTCTTT
391 GGAAGAACTCAAAACTGACCTTGAAAGAAGAAGGATAGAGGAATCAATTTTGTTACATTGTCTTC
** *
7763593 GTGAGCTTGAAGCTACTTCTTCTCTTCACTGTACGTTTGAAATGAAGCTCGAAATGGATCAATAT
456 GTGAGCTTGAAGCTA---CTTCTCTTCACCATAC-TTTGAAATGAAGCTTGAAATGGATCAATAT
** * **
7763658 GCTCAAAAAAGTGTACATTCTAAAAAGCTTCAGTTGATTTACGATCATGACAATCTACTTACAAG
517 GCTCAAAAAAAAGAACATTCTAAAAAGCTTCAAATGATTTACGATCATGACAATCTACTTACAAG
*
7763723 ATTTTACGAATCTCGC-GATCCA-CTGATTTACGA
582 ATTTTACGAATCTCGCAG-T-CAGCTGATTTACAA
* *
7763756 -CTACGACCTTTTACTTGTAAGATTTTACGAATCTCGCAATCCACTGATTT-TCAATCATGATCA
1 TC-ACGACCTTTTACTTGCAAGATTTTACGAATCTCGCAATCCACTGATTTAT-AATCATGACCA
* * *
7763819 TATATTTTCGAGATTTTACGAATCTCACGATCCGATGATTTACGATCGTGACCTTCTATTTACGA
64 TATAGTTTCGAGATTTTACGAATCTCACGATCCGATGATTTACAATCGTGACCTTCTACTTACGA
*
7763884 GATTTAATTCAATATTGTTTAGAT-TGTTTGATGATGAGAATTATCAGAAGATGTTGAGAAAATT
129 GATTTTATTCAATATTGTTTAG-TCTGTTTGATGATGAGAATTATCAGAAGATGTTGAGAAAATT
* *
7763948 GGTTGACCATGCAATGAGTGTGGCTAATAATTGCTCCGATACTAGTGTGGATATGTTGGTTTTCT
193 GGTTGACCATGCAATGAGTGCGGCTAATAATTGCTCCGATACTAGTCTGGATATGTTGGTTTTCT
* * * * * * *
7764013 TGGTTCAGAAGGAATGTAAATTTTTTGAACTAGTTCTAAGAATGGCCAAAGATGATTTTCAACTA
258 TGGTTCAAAAGAAATGTAAATTTTCTAAACTAGTTATAAGAATGGCTAGAGATGATTTTCAACTA
* * * * **
7764078 GTTAATTCTAACCTCTCTGCTCTTCAGTGCAAGTTAGATGCTAGAAATGATGAATATAGGCGTGT
323 GTTAATTCTAACCTCTCTGCCCTTCAGAGCCAGTTAGATGCTAGAGATGATGAATATAATCGTGT
*
7764143 GGAGGAAGAAC-CTAAAACTGACCTTGAAAG--G-AGGATAGAGGAATCAATTTTGTTACATTGT
388 TGAGGAAGAACTC-AAAACTGACCTTGAAAGAAGAAGGATAGAGGAATCAATTTTGTTACATTGT
* * * * *
7764204 CTTCATGAACCTGAAGCTACTTCTCTTCACCATGCATTTGAAATGAAGCTTGAAATGGATCGATA
452 CTTCGTGAGCTTGAAGCTACTTCTCTTCACCATAC-TTTGAAATGAAGCTTGAAATGGATCAATA
* * * ** * ** *
7764269 TGCTCAAAAAAACAAAGACCTT-TATGAAAAGATTCAGTTGATTTACGATCACGACCTTCTTCTT
516 TGCTCAAAAAAA-AGA-ACATTCTA--AAAAGCTTCAAATGATTTACGATCATGACAATCTACTT
* * * * *
7764333 ACGAGATTTTATGAATCTCGCAGTCTGATGATTTACGA
577 ACAAGATTTTACGAATCTCGCAGTCAGCTGATTTACAA
* * * * * * * * * ** ** *
7764371 TCAC-AACTTTCTACTTTCGATATTTTACAAATCTCACAGTCCTCAGATTTACGATCACAACCTT
1 TCACGACCTTT-TACTTGCAAGATTTTACGAATCTCGCAATCCACTGATTTATAATCATGACCAT
* * *
7764435 TTACTTACGAGATTTTACGAATCTC
65 ATAGTTTCGAGATTTTACGAATCTC
7764460 GTGGTCTACA
Statistics
Matches: 1112, Mismatches: 183, Indels: 59
0.82 0.14 0.04
Matches are distributed among these distances:
612 51 0.05
613 2 0.00
614 10 0.01
615 169 0.15
616 3 0.00
617 12 0.01
618 427 0.38
619 170 0.15
620 238 0.21
621 29 0.03
622 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (614 bp):
TCACGACCTTTTACTTGCAAGATTTTACGAATCTCGCAATCCACTGATTTATAATCATGACCATA
TAGTTTCGAGATTTTACGAATCTCACGATCCGATGATTTACAATCGTGACCTTCTACTTACGAGA
TTTTATTCAATATTGTTTAGTCTGTTTGATGATGAGAATTATCAGAAGATGTTGAGAAAATTGGT
TGACCATGCAATGAGTGCGGCTAATAATTGCTCCGATACTAGTCTGGATATGTTGGTTTTCTTGG
TTCAAAAGAAATGTAAATTTTCTAAACTAGTTATAAGAATGGCTAGAGATGATTTTCAACTAGTT
AATTCTAACCTCTCTGCCCTTCAGAGCCAGTTAGATGCTAGAGATGATGAATATAATCGTGTTGA
GGAAGAACTCAAAACTGACCTTGAAAGAAGAAGGATAGAGGAATCAATTTTGTTACATTGTCTTC
GTGAGCTTGAAGCTACTTCTCTTCACCATACTTTGAAATGAAGCTTGAAATGGATCAATATGCTC
AAAAAAAAGAACATTCTAAAAAGCTTCAAATGATTTACGATCATGACAATCTACTTACAAGATTT
TACGAATCTCGCAGTCAGCTGATTTACAA
Found at i:7763879 original size:54 final size:54
Alignment explanation
Indices: 7763692--7763888 Score: 191
Period size: 54 Copynumber: 3.6 Consensus size: 54
7763682 AAGCTTCAGT
* *
7763692 TGATTTACGATCATGACAATCTACTTACAAGATTTTACGAATCTCGCGATCCAC
1 TGATTTACGATCATGACCATCTATTTACAAGATTTTACGAATCTCGCGATCCAC
* * * * ** *
7763746 TGATTTACGA-CTACGACCTTTTACTTGTAAGATTTTACGAATCTCGCAATCCAC
1 TGATTTACGATC-ATGACCATCTATTTACAAGATTTTACGAATCTCGCGATCCAC
* * * * * * *
7763800 TGATTTTCAATCATGATCATATATTTTCGAGATTTTACGAATCTCACGATCCGA-
1 TGATTTACGATCATGACCATCTATTTACAAGATTTTACGAATCTCGCGATCC-AC
* * *
7763854 TGATTTACGATCGTGACCTTCTATTTACGAGATTT
1 TGATTTACGATCATGACCATCTATTTACAAGATTT
7763889 AATTCAATAT
Statistics
Matches: 114, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
53 1 0.01
54 111 0.97
55 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (54 bp):
TGATTTACGATCATGACCATCTATTTACAAGATTTTACGAATCTCGCGATCCAC
Found at i:7764368 original size:54 final size:55
Alignment explanation
Indices: 7764307--7764460 Score: 197
Period size: 54 Copynumber: 2.8 Consensus size: 55
7764297 AAGATTCAGT
* * *
7764307 TGATTTACGATCACGACCTTCTTCTTACGAGATTTTATGAATCTCGCAGT-CTGA
1 TGATTTACGATCACAACCTTCTTCTTACGAGATTTTACGAATCTCGCAGTCCTCA
* * * * * *
7764361 TGATTTACGATCACAACTTTCTACTTTCGATATTTTACAAATCTCACAGTCCTCA
1 TGATTTACGATCACAACCTTCTTCTTACGAGATTTTACGAATCTCGCAGTCCTCA
7764416 -GATTTACGATCACAACCTT-TTACTTACGAGATTTTACGAATCTCG
1 TGATTTACGATCACAACCTTCTT-CTTACGAGATTTTACGAATCTCG
7764461 TGGTCTACAA
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 79 0.95
55 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.37
Consensus pattern (55 bp):
TGATTTACGATCACAACCTTCTTCTTACGAGATTTTACGAATCTCGCAGTCCTCA
Found at i:7766411 original size:19 final size:20
Alignment explanation
Indices: 7766389--7766439 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
7766379 GTTTTTTTTA
7766389 TTTATAATATTTTTTAA-TT
1 TTTATAATATTTTTTAACTT
* *
7766408 TTTATATTA-ATTTTAACTT
1 TTTATAATATTTTTTAACTT
*
7766427 TTTTTAA-ATTTTT
1 TTTATAATATTTTT
7766440 AAAAATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTATAATATTTTTTAACTT
Found at i:7780728 original size:162 final size:162
Alignment explanation
Indices: 7780456--7780784 Score: 541
Period size: 162 Copynumber: 2.0 Consensus size: 162
7780446 GAAGGAAGAT
* * * * *
7780456 CTGCAAAGCTAGATGGTTCTGTCAATGGTGGTTCATTGTTGCCCCGGAAAAGGAAAACTGAGAAG
1 CTGCAAAGCTAGATGGTACTGTAAATGGTGGTTCATTGTTGCCCCAGAAAAAGAAAACTCAGAAG
*
7780521 AAAAGTTCTAAAATTGATCCACATCAGGTCTGTTTTCCCGAAGAAAACACTGCAGATGAGATTAA
66 AAAAGTTCTAAAATTGATCCACATCAGGTCTGTTTTCCCGAAGAAAACAATGCAGATGAGATTAA
7780586 GCAAACAACATATAGGACTGAAACTCCACCGC
131 GCAAACAACATATAGGACTGAAACTCCACCGC
* *
7780618 CTGCAAAGCTAGCTGGTACTGTAAATGGTGGTTCATTGTTGCCCCAGAAAAAGAGAACTCAGAAG
1 CTGCAAAGCTAGATGGTACTGTAAATGGTGGTTCATTGTTGCCCCAGAAAAAGAAAACTCAGAAG
* * *
7780683 AAATGTTCTAAAATTGATCCACATCAGTTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTAA
66 AAAAGTTCTAAAATTGATCCACATCAGGTCTGTTTTCCCGAAGAAAACAATGCAGATGAGATTAA
* *
7780748 GCAAACAACATATAGGAGTGAAACTCCACTGC
131 GCAAACAACATATAGGACTGAAACTCCACCGC
7780780 CTGCA
1 CTGCA
7780785 GAGAAGACTT
Statistics
Matches: 154, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
162 154 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (162 bp):
CTGCAAAGCTAGATGGTACTGTAAATGGTGGTTCATTGTTGCCCCAGAAAAAGAAAACTCAGAAG
AAAAGTTCTAAAATTGATCCACATCAGGTCTGTTTTCCCGAAGAAAACAATGCAGATGAGATTAA
GCAAACAACATATAGGACTGAAACTCCACCGC
Found at i:7785689 original size:5 final size:5
Alignment explanation
Indices: 7785679--7785703 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7785669 AAGCAAACCC
7785679 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
7785704 GAAGACAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Done.