Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, whole genome shotgun sequence
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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 61 of 84
Found at i:13687498 original size:24 final size:24
Alignment explanation
Indices: 13687470--13687554 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
13687460 TTAAAAATAT
* *
13687470 AATTAAAATTAAAATCAAGATAAA
1 AATTAAAATTAAAATCAAAATTAA
13687494 AATTAAAATTAAAATCAAAATTAA
1 AATTAAAATTAAAATCAAAATTAA
* *
13687518 AACTAAAATCAAAATCAAAATTAA
1 AATTAAAATTAAAATCAAAATTAA
* *
13687542 ATTTAAATTTAAA
1 AATTAAAATTAAA
13687555 TTTAAATCTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (24 bp):
AATTAAAATTAAAATCAAAATTAA
Found at i:13688285 original size:3 final size:3
Alignment explanation
Indices: 13688277--13688302 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13688267 ATATATATAT
13688277 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
13688303 TATATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13688312 original size:12 final size:13
Alignment explanation
Indices: 13688274--13688326 Score: 58
Period size: 12 Copynumber: 4.2 Consensus size: 13
13688264 GATATATATA
13688274 TATTTATTATTAT
1 TATTTATTATTAT
13688287 TA-TTATTATTAT
1 TATTTATTATTAT
*
13688299 TATTTA-TATAAT
1 TATTTATTATTAT
*
13688311 TATATA-TATGTAT
1 TATTTATTAT-TAT
13688324 TAT
1 TAT
13688327 ATTAAGAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 25 0.71
13 10 0.29
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TATTTATTATTAT
Found at i:13688381 original size:32 final size:33
Alignment explanation
Indices: 13688305--13688382 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 33
13688295 TTATTATTTA
* * *
13688305 TATAATTATATATATGTATTATATTAAGAAATT
1 TATAATTATATATATGAATTACATTAAGAAATC
* * *
13688338 TATTATT-TATATATGAATTACATTAATATA-C
1 TATAATTATATATATGAATTACATTAAGAAATC
13688369 TATAATTATATATA
1 TATAATTATATATA
13688383 ATTAAGATGT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
31 6 0.16
32 25 0.68
33 6 0.16
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (33 bp):
TATAATTATATATATGAATTACATTAAGAAATC
Found at i:13688645 original size:11 final size:11
Alignment explanation
Indices: 13688629--13688653 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13688619 TTTAACTTCC
13688629 TTTCTTTCTCT
1 TTTCTTTCTCT
13688640 TTTCTTTCTCT
1 TTTCTTTCTCT
13688651 TTT
1 TTT
13688654 TTCTATTGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTTCTCT
Found at i:13689150 original size:21 final size:21
Alignment explanation
Indices: 13689125--13689179 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
13689115 ATAACTAAAC
13689125 TTAATAAAATAATACATTTATA
1 TTAATAAAATAATA-ATTTATA
13689147 -TAATTAAAA-AATAATTTATA
1 TTAA-TAAAATAATAATTTATA
13689167 TTAA-AAAATAATA
1 TTAATAAAATAATA
13689180 TCTATAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 4 0.13
20 11 0.37
21 10 0.33
22 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAATAAAATAATAATTTATA
Found at i:13689165 original size:20 final size:19
Alignment explanation
Indices: 13689129--13689192 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 19
13689119 CTAAACTTAA
13689129 TAAAATAATACATTTATATAAT
1 TAAAA-AATA-ATTT-TATAAT
13689151 TAAAAAATAA-TTTAT-AT
1 TAAAAAATAATTTTATAAT
*
13689168 TAAAAAATAATATCTATAAT
1 TAAAAAATAAT-TTTATAAT
13689188 ATAAA
1 -TAAA
13689193 TTTTGTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 12 0.32
18 3 0.08
19 6 0.16
20 3 0.08
21 8 0.22
22 5 0.14
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAAATAATTTTATAAT
Found at i:13689297 original size:18 final size:19
Alignment explanation
Indices: 13689262--13689299 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
13689252 TTGTTTCATT
**
13689262 TTTTTGGTTTTTTTTTAGA
1 TTTTTGGTTTTTAATTAGA
13689281 TTTTT-GTTTTTAATTAGA
1 TTTTTGGTTTTTAATTAGA
13689299 T
1 T
13689300 AAATTTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (19 bp):
TTTTTGGTTTTTAATTAGA
Found at i:13693569 original size:37 final size:38
Alignment explanation
Indices: 13693491--13693571 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 38
13693481 ATATGAAAAA
* * * *
13693491 ATAAAA-CATAAAATATTTTTATTTAATATTGTTACAT
1 ATAAAATCATAAAATATATTTACTTAATATTATTACAG
*
13693528 ATAAAATC-TAAAATATATTTACTTAATATTATTATAG
1 ATAAAATCATAAAATATATTTACTTAATATTATTACAG
13693565 ATAAAAT
1 ATAAAAT
13693572 TTGGTCCAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (38 bp):
ATAAAATCATAAAATATATTTACTTAATATTATTACAG
Found at i:13696865 original size:20 final size:20
Alignment explanation
Indices: 13696828--13696865 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13696818 TTTTATTTTT
* *
13696828 TTTTATTTTTTAATTTTTAA
1 TTTTATTTTGTAAATTTTAA
13696848 TTTTATTTTGTAAATTTT
1 TTTTATTTTGTAAATTTT
13696866 GATAAATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTATTTTGTAAATTTTAA
Found at i:13698866 original size:25 final size:25
Alignment explanation
Indices: 13698832--13698882 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
13698822 ACTTGTATTT
*
13698832 GCATGGCAGACAGAATCGAGCATCA
1 GCATGACAGACAGAATCGAGCATCA
13698857 GCATGACAGACAGAATCGAGCATCA
1 GCATGACAGACAGAATCGAGCATCA
13698882 G
1 G
13698883 GCATCACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.24, G:0.27, T:0.12
Consensus pattern (25 bp):
GCATGACAGACAGAATCGAGCATCA
Found at i:13699901 original size:41 final size:41
Alignment explanation
Indices: 13699830--13700037 Score: 109
Period size: 46 Copynumber: 4.8 Consensus size: 41
13699820 AATTTTATTT
* *
13699830 TTTTTAAAATTATATTATAATTTGTATAAAAATCAATATTTCAAAA
1 TTTTTAAAA--ATATTTTAATTT-TTTAAAAAT-AATATTT-AAAA
* * * * *
13699876 TTTTT-ACAAT-TTTTTATTTTTTAAAATTTAAAATTTAATA
1 TTTTTAAAAATATTTTAATTTTTTAAAA-ATAATATTTAAAA
* **
13699916 TTTTTAAAAATATTTTAATTTTTTTAAAATAATATTTTTTTAA
1 TTTTTAAAAATATTTTAATTTTTTAAAAATAATA--TTTAAAA
* * * *
13699959 -TTTTATAAAATCTGATTTAATTTTTTCAAATTAAGTATTTTAAAT
1 TTTTTA-AAAATAT--TTTAATTTTTTAAAAATAA-TA-TTTAAAA
13700004 TTTTTAAGAAA-ATTTCTAGAATTTTTTAAAAATA
1 TTTTTAA-AAATATTT-T--AATTTTTTAAAAATA
13700038 TTAAATATTA
Statistics
Matches: 124, Mismatches: 24, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
40 8 0.06
41 20 0.16
42 27 0.22
43 14 0.11
44 1 0.01
45 26 0.21
46 28 0.23
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (41 bp):
TTTTTAAAAATATTTTAATTTTTTAAAAATAATATTTAAAA
Found at i:13700113 original size:13 final size:14
Alignment explanation
Indices: 13700074--13700115 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
13700064 ATTTTTTAAA
13700074 TTTTTT-AAATTCATT
1 TTTTTTGAAATT--TT
13700089 TTTTTTGAAATTTT
1 TTTTTTGAAATTTT
13700103 TTTTTTG-AATTTT
1 TTTTTTGAAATTTT
13700116 AACATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.23
14 9 0.35
15 6 0.23
16 5 0.19
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (14 bp):
TTTTTTGAAATTTT
Found at i:13700210 original size:37 final size:36
Alignment explanation
Indices: 13700169--13700249 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 36
13700159 ATTTTTGTAA
*** *
13700169 ATTTTATATATTTTTTCATTTTTATGTTTTTATAAAT
1 ATTTTATATATTTTAAAATTTTTA-GTTTTTATAAAG
13700206 ATTTTATATATTTTAAAATTTTTAGTTTTTATAAAG
1 ATTTTATATATTTTAAAATTTTTAGTTTTTATAAAG
*
13700242 AGTTTATA
1 ATTTTATA
13700250 AATTAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 18 0.46
37 21 0.54
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (36 bp):
ATTTTATATATTTTAAAATTTTTAGTTTTTATAAAG
Found at i:13700500 original size:27 final size:26
Alignment explanation
Indices: 13700425--13700514 Score: 69
Period size: 27 Copynumber: 3.4 Consensus size: 26
13700415 TTTATTCATT
* *
13700425 TAAATATTAAAATTTATTAAAAATATA
1 TAAAAATTAAAA-ATATTAAAAATATA
* *
13700452 TACAAATTAAAAATA-TAGAAAATTTTA
1 TAAAAATTAAAAATATTA-AAAA-TATA
* *
13700479 TAAAAATTTCAAAATATTAAAAACA-A
1 TAAAAA-TTAAAAATATTAAAAATATA
13700505 -AAAAATTAAA
1 TAAAAATTAAA
13700515 TATTTAGATT
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
24 4 0.08
25 7 0.14
26 7 0.14
27 18 0.36
28 12 0.24
29 2 0.04
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (26 bp):
TAAAAATTAAAAATATTAAAAATATA
Found at i:13700740 original size:23 final size:23
Alignment explanation
Indices: 13700714--13700758 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13700704 AATTTATTAA
*
13700714 AAATTAAA-ATATTTAAACATATT
1 AAATTAAATAT-TTTAAAAATATT
*
13700737 AAATTTAATATTTTAAAAATAT
1 AAATTAAATATTTTAAAAATAT
13700759 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATTAAATATTTTAAAAATATT
Found at i:13702624 original size:15 final size:15
Alignment explanation
Indices: 13702604--13702637 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
13702594 TAATTACTTT
13702604 ATATTAATTTTGCTG
1 ATATTAATTTTGCTG
13702619 ATATTAATTTTGCTG
1 ATATTAATTTTGCTG
13702634 ATAT
1 ATAT
13702638 GATATTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
ATATTAATTTTGCTG
Found at i:13703202 original size:21 final size:22
Alignment explanation
Indices: 13703178--13703225 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
13703168 GATCAATTCT
13703178 GAAAATTGAAAACT-ATTTTTA
1 GAAAATTGAAAACTGATTTTTA
*
13703199 GAAAATTGAAAATTGATTTTTA
1 GAAAATTGAAAACTGATTTTTA
*
13703221 AAAAA
1 GAAAA
13703226 ATTAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.35
Consensus pattern (22 bp):
GAAAATTGAAAACTGATTTTTA
Found at i:13703243 original size:26 final size:27
Alignment explanation
Indices: 13703206--13703258 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
13703196 TTAGAAAATT
13703206 GAAAATTGATTTT-TAAAAAAATTAAA
1 GAAAATTGATTTTCTAAAAAAATTAAA
*
13703232 GAAATATT-ATTTTCTAAAAAATTTAAA
1 GAAA-ATTGATTTTCTAAAAAAATTAAA
13703259 TATTGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.38
Consensus pattern (27 bp):
GAAAATTGATTTTCTAAAAAAATTAAA
Found at i:13703372 original size:24 final size:25
Alignment explanation
Indices: 13703335--13703385 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
13703325 TTTTTATATT
13703335 AAAACATTATTTTTCAAAAAATAAA
1 AAAACATTATTTTTCAAAAAATAAA
* *
13703360 AAAATATTA-TTTTCAAAAAATTAA
1 AAAACATTATTTTTCAAAAAATAAA
13703384 AA
1 AA
13703386 TATTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (25 bp):
AAAACATTATTTTTCAAAAAATAAA
Found at i:13703386 original size:22 final size:23
Alignment explanation
Indices: 13703332--13703389 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
13703322 AATTTTTTAT
*
13703332 ATTAAAACATTATTTTTCAAAAA
1 ATTAAAATATTATTTTTCAAAAA
*
13703355 ATAAAAAAATATTA-TTTTCAAAAA
1 AT--TAAAATATTATTTTTCAAAAA
13703379 ATTAAAATATT
1 ATTAAAATATT
13703390 TAAAATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 8 0.27
23 2 0.07
24 12 0.40
25 8 0.27
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTAAAATATTATTTTTCAAAAA
Found at i:13704824 original size:14 final size:14
Alignment explanation
Indices: 13704805--13704835 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13704795 ATTTTGTATT
*
13704805 ATTTTAATTTAGTA
1 ATTTTAATTTAATA
13704819 ATTTTAATTTAATA
1 ATTTTAATTTAATA
13704833 ATT
1 ATT
13704836 AATTGATTAA
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:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
ATTTTAATTTAATA
Found at i:13706112 original size:21 final size:22
Alignment explanation
Indices: 13706086--13706136 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
13706076 TGATCAATTC
13706086 TAAAAATTGAAAACT-A-TTTT
1 TAAAAATTGAAAACTGATTTTT
*
13706106 TAGAAAATTGAAAATTGATTTTT
1 TA-AAAATTGAAAACTGATTTTT
13706129 TAAAAATT
1 TAAAAATT
13706137 AAAGAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 12 0.44
22 7 0.26
23 6 0.22
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (22 bp):
TAAAAATTGAAAACTGATTTTT
Found at i:13706416 original size:21 final size:22
Alignment explanation
Indices: 13706373--13706421 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
13706363 TTTTTATCAT
*
13706373 TTTTAAAATTTTTTAAAATTTTA
1 TTTT-AAATTTTTTAAAACTTTA
*
13706396 TTTTAAA-TTTTTAAGACTTTA
1 TTTTAAATTTTTTAAAACTTTA
*
13706417 ATTTA
1 TTTTA
13706422 CTGATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 16 0.70
22 3 0.13
23 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTAAATTTTTTAAAACTTTA
Found at i:13706420 original size:22 final size:23
Alignment explanation
Indices: 13706373--13706420 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
13706363 TTTTTATCAT
*
13706373 TTTTAAAATTTTTTAAAATTTTA
1 TTTTAAAATTTTTTAAAATTTAA
*
13706396 TTTT-AAA-TTTTTAAGACTTTAA
1 TTTTAAAATTTTTTAA-AATTTAA
13706418 TTT
1 TTT
13706421 ACTGATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTAAAATTTTTTAAAATTTAA
Found at i:13706678 original size:11 final size:11
Alignment explanation
Indices: 13706662--13706691 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13706652 ATTTGATGAT
13706662 TATACTAAAAA
1 TATACTAAAAA
13706673 TATACTAAAAA
1 TATACTAAAAA
13706684 TATA-TAAA
1 TATACTAAA
13706692 TTATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (11 bp):
TATACTAAAAA
Found at i:13708774 original size:78 final size:78
Alignment explanation
Indices: 13708645--13708799 Score: 283
Period size: 78 Copynumber: 2.0 Consensus size: 78
13708635 AGCTTTAGCA
*
13708645 ATTATTTGTTTCAAAAAACCATGATGAAATATATATGGTGATTAGATCACTTTGTTTGGTAGGAA
1 ATTATTTGTTTCAAAAAACCATGATGAAATATATATGGTGATTAGATCACTTTGTTTGGTAAGAA
13708710 CTCAATGATACTT
66 CTCAATGATACTT
*
13708723 ATTATTTGTTTCAAAAATCCATGATGAAATATATATGGTGATTAGATCACTTTGTTTGGTAAGAA
1 ATTATTTGTTTCAAAAAACCATGATGAAATATATATGGTGATTAGATCACTTTGTTTGGTAAGAA
*
13708788 CTCAGTGATACT
66 CTCAATGATACT
13708800 AAGTGGCAGT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (78 bp):
ATTATTTGTTTCAAAAAACCATGATGAAATATATATGGTGATTAGATCACTTTGTTTGGTAAGAA
CTCAATGATACTT
Found at i:13712686 original size:14 final size:15
Alignment explanation
Indices: 13712662--13712690 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13712652 TAAGATAATA
13712662 AAGTAATTTTTTATT
1 AAGTAATTTTTTATT
13712677 AAGT-ATTTTTTATT
1 AAGTAATTTTTTATT
13712691 TTAATTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (15 bp):
AAGTAATTTTTTATT
Found at i:13713333 original size:20 final size:20
Alignment explanation
Indices: 13713294--13713336 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
13713284 TTCCTTCTTA
*
13713294 TTATTTTTAAAAATTTTATT
1 TTATTTTTAAAAATTATATT
13713314 TTATTTTTAATAAA-TATATT
1 TTATTTTTAA-AAATTATATT
13713334 TTA
1 TTA
13713337 GTATGATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTTTTAAAAATTATATT
Found at i:13715492 original size:3 final size:3
Alignment explanation
Indices: 13715477--13715517 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
13715467 GTTGTGTTTT
*
13715477 TTC TTC CTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
13715518 TTTGAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:13721918 original size:19 final size:18
Alignment explanation
Indices: 13721865--13721918 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
13721855 CATTTTAGTA
*
13721865 TAAAAATATTTAAAATTTT
1 TAAAAATA-TTAAATTTTT
* **
13721884 TATAAATATTTTATTTTT
1 TAAAAATATTAAATTTTT
13721902 TAAAAATTATTAAATTT
1 TAAAAA-TATTAAATTT
13721919 ATTTTTTTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAAAAATATTAAATTTTT
Found at i:13722132 original size:20 final size:19
Alignment explanation
Indices: 13722089--13722130 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
13722079 ATAATTTATG
*
13722089 TTTTAAAAAAGTTTATAAA
1 TTTTAAAAAAATTTATAAA
*
13722108 TTTTAAAAAAATTTATATA
1 TTTTAAAAAAATTTATAAA
13722127 TTTT
1 TTTT
13722131 TATCTTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTTAAAAAAATTTATAAA
Found at i:13722453 original size:43 final size:41
Alignment explanation
Indices: 13722400--13722512 Score: 97
Period size: 43 Copynumber: 2.7 Consensus size: 41
13722390 ATAAAAAGTT
* *
13722400 AAAATTTAAAAACATAAAAAATTCAAAAAATAATTTTTATTTA
1 AAAAATTAAAAACATAAAAAATTCAAAAAATAA-TATT-TTTA
* * *
13722443 AAAAATTAAAATA-TTAAAAAAGT--AAATATAATATTTTTA
1 AAAAATTAAAA-ACATAAAAAATTCAAAAAATAATATTTTTA
*
13722482 AAAAATTAAAAACTTTCTAAAAAATTCAAAA
1 AAAAATTAAAAAC---ATAAAAAATTCAAAA
13722513 TATTGAAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
38 1 0.02
39 15 0.27
40 3 0.05
41 7 0.12
42 8 0.14
43 18 0.32
44 4 0.07
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (41 bp):
AAAAATTAAAAACATAAAAAATTCAAAAAATAATATTTTTA
Found at i:13722632 original size:19 final size:20
Alignment explanation
Indices: 13722610--13722661 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
13722600 AACATTAAAA
*
13722610 AAATAAATTTAAAA-TTTTT
1 AAATAAATTAAAAATTTTTT
*
13722629 AAAT-AACTAAAAATTTTTT
1 AAATAAATTAAAAATTTTTT
13722648 AAA-AAATTCAAAAA
1 AAATAAATT-AAAAA
13722662 ACTTTTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.26
19 15 0.56
20 5 0.19
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATAAATTAAAAATTTTTT
Found at i:13722714 original size:31 final size:31
Alignment explanation
Indices: 13722679--13722737 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
13722669 ATATTGAAAG
13722679 ATTAAATTTTAAATTTTATGTAAATATATGA
1 ATTAAATTTTAAATTTTATGTAAATATATGA
13722710 ATTAAATTTTAAATTTTATGTAAATATA
1 ATTAAATTTTAAATTTTATGTAAATATA
13722738 AAAATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (31 bp):
ATTAAATTTTAAATTTTATGTAAATATATGA
Found at i:13722744 original size:31 final size:31
Alignment explanation
Indices: 13722679--13722744 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
13722669 ATATTGAAAG
**
13722679 ATTAAATTTTAAATTTTATGTAAATATATGA
1 ATTAAATTTTAAATTTTATGTAAATATAAAA
13722710 ATTAAATTTTAAATTTTATGTAAATATAAAA
1 ATTAAATTTTAAATTTTATGTAAATATAAAA
13722741 ATTA
1 ATTA
13722745 TTTGTAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (31 bp):
ATTAAATTTTAAATTTTATGTAAATATAAAA
Found at i:13722750 original size:19 final size:20
Alignment explanation
Indices: 13722728--13722778 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
13722718 TTAAATTTTA
13722728 TGTAAATATAAAAATT-ATT
1 TGTAAATATAAAAATTGATT
*
13722747 TGTAAAATTTAAAAATTGATT
1 TGT-AAATATAAAAATTGATT
*
13722768 T-TATATATAAA
1 TGTAAATATAAA
13722779 CTTATCACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.37
20 13 0.48
21 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (20 bp):
TGTAAATATAAAAATTGATT
Found at i:13722755 original size:31 final size:30
Alignment explanation
Indices: 13722683--13722757 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 30
13722673 TGAAAGATTA
**
13722683 AATTTTAAATTTTATGTAAATATATGAATT
1 AATTTTAAATTTTATGTAAATATAAAAATT
13722713 AAATTTTAAATTTTATGTAAATATAAAAATT
1 -AATTTTAAATTTTATGTAAATATAAAAATT
*
13722744 -ATTTGTAAAATTTA
1 AATTT-TAAATTTTA
13722758 AAAATTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.10
30 8 0.20
31 28 0.70
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (30 bp):
AATTTTAAATTTTATGTAAATATAAAAATT
Found at i:13739361 original size:37 final size:38
Alignment explanation
Indices: 13739311--13739385 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 38
13739301 CCCATGCTTT
*
13739311 AATTAAATTCATATCATAAAAG-GAAAAATCTCGGATA
1 AATTAAATTCATATCATAAAAGAGAAAAATCTCAGATA
* *
13739348 AATTAAATTCATATCATAAGAGATAAAAATCTCAGATA
1 AATTAAATTCATATCATAAAAGAGAAAAATCTCAGATA
13739386 GACAACAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 21 0.62
38 13 0.38
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (38 bp):
AATTAAATTCATATCATAAAAGAGAAAAATCTCAGATA
Found at i:13740418 original size:17 final size:18
Alignment explanation
Indices: 13740396--13740444 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
13740386 TGACTCTATC
13740396 ATAAAAATAATA-AATAA
1 ATAAAAATAATATAATAA
13740413 ATAAAATAAATAATATAATAA
1 AT--AA-AAATAATATAATAA
13740434 AT-AAAATAATA
1 ATAAAAATAATA
13740445 GCTAACATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 10 0.36
18 1 0.04
19 2 0.07
20 8 0.29
21 7 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAAAAATAATATAATAA
Found at i:13740432 original size:12 final size:12
Alignment explanation
Indices: 13740402--13740444 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
13740392 TATCATAAAA
13740402 ATAATAAATAAAT
1 ATAATAAAT-AAT
*
13740415 AAAATAAATAAT
1 ATAATAAATAAT
*
13740427 ATAATAAATAAA
1 ATAATAAATAAT
13740439 ATAATA
1 ATAATA
13740445 GCTAACATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:13743620 original size:13 final size:13
Alignment explanation
Indices: 13743593--13743646 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
13743583 GGGTTTAAAA
13743593 TTTCACTTT-GGG
1 TTTCACTTTAGGG
13743605 TTTCACTTTAGGG
1 TTTCACTTTAGGG
* *
13743618 TTTCACGTTAGGA
1 TTTCACTTTAGGG
*
13743631 TTTCAATTTAGGG
1 TTTCACTTTAGGG
13743644 TTT
1 TTT
13743647 TGTTTTAGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
12 9 0.25
13 27 0.75
ACGTcount: A:0.17, C:0.13, G:0.22, T:0.48
Consensus pattern (13 bp):
TTTCACTTTAGGG
Found at i:13745596 original size:7 final size:7
Alignment explanation
Indices: 13745551--13745596 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
13745541 TTTTTATCAT
*
13745551 TTTTAAG
1 TTTTAAA
13745558 TTTTATAA
1 TTTTA-AA
13745566 TTTTAAA
1 TTTTAAA
*
13745573 CTTTAAA
1 TTTTAAA
13745580 -TTTAAA
1 TTTTAAA
13745586 -TTTAAA
1 TTTTAAA
13745592 TTTTA
1 TTTTA
13745597 TATGTTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 12 0.34
7 17 0.49
8 6 0.17
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (7 bp):
TTTTAAA
Found at i:13745596 original size:13 final size:14
Alignment explanation
Indices: 13745559--13745596 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
13745549 ATTTTTAAGT
13745559 TTTATAATTTTAAAC
1 TTTA-AATTTTAAAC
13745574 TTTAAA-TTTAAA-
1 TTTAAATTTTAAAC
13745586 TTTAAATTTTA
1 TTTAAATTTTA
13745597 TATGTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.27
13 10 0.45
14 2 0.09
15 4 0.18
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTAAATTTTAAAC
Found at i:13746206 original size:35 final size:34
Alignment explanation
Indices: 13746160--13746366 Score: 101
Period size: 35 Copynumber: 5.9 Consensus size: 34
13746150 ACAATACTGG
*
13746160 AAGTCAAAAATAAAGGATGACTAGGACAATAACAT
1 AAGTCAGAAATAAAGGATGA-TAGGACAATAACAT
* * ** * *
13746195 AAGTTATAAATAAAATATGATCGAGACAA-CACTAT
1 AAGTCAGAAATAAAGGATGATAG-GACAATAAC-AT
* * * * * * *
13746230 AAGTCATAAATAAAAGATGATCATGATAACACCAC
1 AAGTCAGAAATAAAGGATGAT-AGGACAATAACAT
* ** * * *
13746265 AAGTTAGAAATATCGAATGATCGGGACAATATCAT
1 AAGTCAGAAATAAAGGATGAT-AGGACAATAACAT
* * * *
13746300 AAGTCAAATAATAAAGGATGACTTGGACAACACCAT
1 AAGTCAGA-AATAAAGGATGA-TAGGACAATAACAT
* *
13746336 AAGTCAGAAATAAAGAATGACTAAGACAATA
1 AAGTCAGAAATAAAGGATGA-TAGGACAATA
13746367 TCGTAATTCA
Statistics
Matches: 127, Mismatches: 39, Indels: 12
0.71 0.22 0.07
Matches are distributed among these distances:
34 4 0.03
35 95 0.75
36 27 0.21
37 1 0.01
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (34 bp):
AAGTCAGAAATAAAGGATGATAGGACAATAACAT
Found at i:13746328 original size:36 final size:35
Alignment explanation
Indices: 13746288--13746387 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
13746278 CGAATGATCG
* *
13746288 GGACAATATCATAAGTCAAATAATAAAGGATGACTT
1 GGACAATATCATAAGTCAAA-AATAAAGAATGACTA
* * *
13746324 GGACAACACCATAAGTCAGAAATAAAGAATGACTA
1 GGACAATATCATAAGTCAAAAATAAAGAATGACTA
* * *
13746359 AGACAATATCGTAATTCAAAAACTAAAGA
1 GGACAATATCATAAGTCAAAAA-TAAAGA
13746388 CAACCAGGAC
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
35 29 0.56
36 23 0.44
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (35 bp):
GGACAATATCATAAGTCAAAAATAAAGAATGACTA
Found at i:13746364 original size:71 final size:70
Alignment explanation
Indices: 13746160--13746386 Score: 219
Period size: 70 Copynumber: 3.2 Consensus size: 70
13746150 ACAATACTGG
* * * *
13746160 AAGTCAAAAATAAAGGATGACTAGGACAATAACATAAGTTATAAATAAA-ATATGATCGAGACAA
1 AAGTCAAAAATAAAGGATGACTTGGACAACACCATAAGTTAGAAATAAAGA-ATGATCGAGACAA
*
13746224 CA-CTAT
65 TATC-AT
* * * * * ** *
13746230 AAGTCATAAATAAAAGATGATCAT-GATAACACCACAAGTTAGAAATATCGAATGATCGGGACAA
1 AAGTCAAAAATAAAGGATGA-CTTGGACAACACCATAAGTTAGAAATAAAGAATGATCGAGACAA
13746294 TATCAT
65 TATCAT
* *
13746300 AAGTCAAATAATAAAGGATGACTTGGACAACACCATAAGTCAGAAATAAAGAATGA-CTAAGACA
1 AAGTCAAA-AATAAAGGATGACTTGGACAACACCATAAGTTAGAAATAAAGAATGATC-GAGACA
*
13746364 ATATCGT
64 ATATCAT
*
13746371 AATTCAAAAACTAAAG
1 AAGTCAAAAA-TAAAG
13746387 ACAACCAGGA
Statistics
Matches: 125, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
70 63 0.50
71 62 0.50
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (70 bp):
AAGTCAAAAATAAAGGATGACTTGGACAACACCATAAGTTAGAAATAAAGAATGATCGAGACAAT
ATCAT
Found at i:13746463 original size:35 final size:35
Alignment explanation
Indices: 13746411--13746517 Score: 115
Period size: 35 Copynumber: 3.1 Consensus size: 35
13746401 ACCGTAGGTA
* * * * *
13746411 AAAAATAAAGGACGATTGTGACAACACCTCAAGTT
1 AAAAATAACGAACGATTGAGACAACACCACAAGTC
* * * *
13746446 AGAAATAGCGAATGATTGAGACAACACCACAAATC
1 AAAAATAACGAACGATTGAGACAACACCACAAGTC
* *
13746481 AAAAATAACGAACGATCGGGACAACACCACAAGTC
1 AAAAATAACGAACGATTGAGACAACACCACAAGTC
13746516 AA
1 AA
13746518 GTAATTAAAG
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.49, C:0.21, G:0.17, T:0.14
Consensus pattern (35 bp):
AAAAATAACGAACGATTGAGACAACACCACAAGTC
Found at i:13746730 original size:34 final size:33
Alignment explanation
Indices: 13746657--13746744 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 33
13746647 CCAACTAAAT
*
13746657 TGGGCTTAAATCTTTTATTGGTGCCAAATAATC
1 TGGGCTTAAATCTTTTATTGGGGCCAAATAATC
** *
13746690 TGGGCTTAAATCTTTT-TGTGAGGGCCATGTGATC
1 TGGGCTTAAATCTTTTAT-TG-GGGCCAAATAATC
* *
13746724 TGGGCTTAAAACTTTCATTGG
1 TGGGCTTAAATCTTTTATTGG
13746745 ATCTAGTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
32 1 0.02
33 19 0.41
34 25 0.54
35 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.39
Consensus pattern (33 bp):
TGGGCTTAAATCTTTTATTGGGGCCAAATAATC
Found at i:13746774 original size:32 final size:33
Alignment explanation
Indices: 13746736--13746798 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
13746726 GGCTTAAAAC
*
13746736 TTTCATTGGAT-CTAGTTAA-ATTAGGCTTAAGT
1 TTTCATTGG-TGCCAGTTAATATTAGGCTTAAGT
13746768 TTTCATTGGTGCCAGTTAATATTAGGCTTAA
1 TTTCATTGGTGCCAGTTAATATTAGGCTTAA
13746799 AATCTGGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.04
32 16 0.57
33 11 0.39
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (33 bp):
TTTCATTGGTGCCAGTTAATATTAGGCTTAAGT
Found at i:13747594 original size:16 final size:17
Alignment explanation
Indices: 13747573--13747604 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13747563 AAGCCACATT
13747573 TATTTTTT-ATTTTTTC
1 TATTTTTTGATTTTTTC
13747589 TATTTTTTGATTTTTT
1 TATTTTTTGATTTTTT
13747605 ATTGATTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.81
Consensus pattern (17 bp):
TATTTTTTGATTTTTTC
Found at i:13747964 original size:42 final size:42
Alignment explanation
Indices: 13747917--13748004 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
13747907 TTCCTACCAT
* * * *
13747917 TTTTCTTTTGCTTTTCACCTATTCATTTCTTC-TTTTTTTTTC
1 TTTTCTTTT-CTTTGCACATATTCATTCCTTCATTTTTTTCTC
* *
13747959 TTTTCTTTTCTTTGCTCATCTTCATTCCTTCATTTTTTTCTC
1 TTTTCTTTTCTTTGCACATATTCATTCCTTCATTTTTTTCTC
13748001 TTTT
1 TTTT
13748005 TCCTCACCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 17 0.44
42 22 0.56
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.68
Consensus pattern (42 bp):
TTTTCTTTTCTTTGCACATATTCATTCCTTCATTTTTTTCTC
Found at i:13750093 original size:14 final size:14
Alignment explanation
Indices: 13750074--13750100 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13750064 TGGTATAATC
13750074 ATTATTATTATTAG
1 ATTATTATTATTAG
13750088 ATTATTATTATTA
1 ATTATTATTATTA
13750101 TTGTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
ATTATTATTATTAG
Found at i:13754179 original size:20 final size:19
Alignment explanation
Indices: 13754145--13754194 Score: 82
Period size: 20 Copynumber: 2.6 Consensus size: 19
13754135 GGGTTTTAAA
13754145 TAGGGTTTAGAGTTTCACC
1 TAGGGTTTAGAGTTTCACC
*
13754164 TAGGGCTTTCGAGTTTCACC
1 TAGGG-TTTAGAGTTTCACC
13754184 TAGGGTTTAGA
1 TAGGGTTTAGA
13754195 ATTTTACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (19 bp):
TAGGGTTTAGAGTTTCACC
Found at i:13754230 original size:13 final size:13
Alignment explanation
Indices: 13754208--13754262 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
13754198 TTACTTTGGG
*
13754208 TTTCACTTTAGGA
1 TTTCATTTTAGGA
* *
13754221 TTTCGTTTTAGGG
1 TTTCATTTTAGGA
* *
13754234 TTTCACTTTAGAA
1 TTTCATTTTAGGA
*
13754247 TTTCAATTTAGGA
1 TTTCATTTTAGGA
13754260 TTT
1 TTT
13754263 TGTTTTAGGG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (13 bp):
TTTCATTTTAGGA
Found at i:13754256 original size:26 final size:26
Alignment explanation
Indices: 13754189--13754258 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
13754179 TCACCTAGGG
* *
13754189 TTTAGAATTTTACTTT-GGGTTTCAC
1 TTTAGAATTTCAATTTAGGGTTTCAC
* **
13754214 TTTAGGATTTCGTTTTAGGGTTTCAC
1 TTTAGAATTTCAATTTAGGGTTTCAC
13754240 TTTAGAATTTCAATTTAGG
1 TTTAGAATTTCAATTTAGG
13754259 ATTTTGTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 12 0.32
26 25 0.68
ACGTcount: A:0.21, C:0.10, G:0.19, T:0.50
Consensus pattern (26 bp):
TTTAGAATTTCAATTTAGGGTTTCAC
Found at i:13754290 original size:19 final size:19
Alignment explanation
Indices: 13754266--13754314 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
13754256 AGGATTTTGT
* *
13754266 TTTAGGGTTTTACTTAGGG
1 TTTAGGGTTTTACCTAAGG
13754285 TTTAGGG-TTTACCTAAGG
1 TTTAGGGTTTTACCTAAGG
*
13754303 TTTTGGGTTTTA
1 TTTAGGGTTTTA
13754315 TTTTGAAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.16, C:0.06, G:0.29, T:0.49
Consensus pattern (19 bp):
TTTAGGGTTTTACCTAAGG
Found at i:13756151 original size:11 final size:10
Alignment explanation
Indices: 13756123--13756157 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
13756113 TTTTTAATAT
13756123 TATTTATTAC
1 TATTTATTAC
13756133 TATTTATTAC
1 TATTTATTAC
*
13756143 TCTTTTATTAC
1 T-ATTTATTAC
13756154 TATT
1 TATT
13756158 GTACTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (10 bp):
TATTTATTAC
Found at i:13756167 original size:19 final size:21
Alignment explanation
Indices: 13756125--13756170 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
13756115 TTTAATATTA
*
13756125 TTTATTACTATTTATTACTCT
1 TTTATTACTATTTAGTACTCT
*
13756146 TTTATTACTA-TT-GTACTTT
1 TTTATTACTATTTAGTACTCT
13756165 TTTATT
1 TTTATT
13756171 TTTATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 2 0.09
21 10 0.43
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTATTACTATTTAGTACTCT
Found at i:13756208 original size:14 final size:14
Alignment explanation
Indices: 13756189--13756234 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
13756179 TTTTTATCAT
13756189 TTTTAATTTTTTAA
1 TTTTAATTTTTTAA
*
13756203 TTTTAATTTCTT-A
1 TTTTAATTTTTTAA
*
13756216 TTTCTAA-TTTCTAA
1 TTT-TAATTTTTTAA
13756230 TTTTA
1 TTTTA
13756235 TATGTTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTAATTTTTTAA
Found at i:13756255 original size:3 final size:3
Alignment explanation
Indices: 13756247--13756277 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13756237 TGTTTATATG
13756247 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13756278 GACCATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13756847 original size:13 final size:14
Alignment explanation
Indices: 13756822--13756850 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13756812 TAACAGGCAC
13756822 AAAGAAGAAAGAAA
1 AAAGAAGAAAGAAA
13756836 AAAGAA-AAAGAAA
1 AAAGAAGAAAGAAA
13756849 AA
1 AA
13756851 GCAAAAGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAAGAAA
Found at i:13767586 original size:25 final size:25
Alignment explanation
Indices: 13767547--13767594 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
13767537 TCTATCAAAC
* *
13767547 TGTAATCATTGTCTAAAGTCTTACT
1 TGTAATCACTATCTAAAGTCTTACT
13767572 TGTAATCACTATCTAAAGTCTTA
1 TGTAATCACTATCTAAAGTCTTA
13767595 TTTATCAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (25 bp):
TGTAATCACTATCTAAAGTCTTACT
Found at i:13768841 original size:2 final size:2
Alignment explanation
Indices: 13768834--13768860 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13768824 ATACAAACAA
13768834 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13768861 AGCATACATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13771907 original size:33 final size:33
Alignment explanation
Indices: 13771870--13771955 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 33
13771860 TAGAAGCTTC
*
13771870 ACTAAATTTAGTGATGTTTTATTAAAAAAT-ATA
1 ACTAAATTTAGTGACGTTTTATTAAAAAATGA-A
** *
13771903 ACTAAATTTAACGACGTTTTATTAAAAAATGAC
1 ACTAAATTTAGTGACGTTTTATTAAAAAATGAA
* *
13771936 ACTAAATTTTGTGACTTTTT
1 ACTAAATTTAGTGACGTTTT
13771956 TCCAAAAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 43 0.98
34 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (33 bp):
ACTAAATTTAGTGACGTTTTATTAAAAAATGAA
Found at i:13775583 original size:180 final size:180
Alignment explanation
Indices: 13775281--13775643 Score: 672
Period size: 180 Copynumber: 2.0 Consensus size: 180
13775271 TATGCCCCTA
13775281 CCAAACTCTAAAAAGTTATCTCATTATATACATATAGCTAGACTGCTATATACGTATATGAGCAT
1 CCAAACTCTAAAAAGTTATCTCATTATATACATATAGCTAGACTGCTATATACGTATATGAGCAT
** *
13775346 ATATTAAAAAACATGCATGGTATACTGAATTATAATTTAAAGCCTATTCTGTCGTTCAGCGAAAG
66 ATATTAAAAAACATGCATGGTATACTGAATTATAATTTAAAGCCTATTAAGTCGTTCAGCAAAAG
*
13775411 CATATATAATTTTGTAGGATGCTAGGCTGGTTCCAGTTTTTACAGAAGGC
131 CATATATAATTTTATAGGATGCTAGGCTGGTTCCAGTTTTTACAGAAGGC
13775461 CCAAACTCTAAAAAGTTATCTCATTATATACATATAGCTAGACTGCTATATACGTATATGAGCAT
1 CCAAACTCTAAAAAGTTATCTCATTATATACATATAGCTAGACTGCTATATACGTATATGAGCAT
*
13775526 ATATTAAAAAACATGCATGGTATACTGAATTATAATTTAAAGCCTATTAAGTCGTTCAGTAAAAG
66 ATATTAAAAAACATGCATGGTATACTGAATTATAATTTAAAGCCTATTAAGTCGTTCAGCAAAAG
*
13775591 CATATATAATTTTATAGGATGCTAGGCTTGTTCCAGTTTTTACAGAAGGC
131 CATATATAATTTTATAGGATGCTAGGCTGGTTCCAGTTTTTACAGAAGGC
13775641 CCA
1 CCA
13775644 TAGTAATAAA
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
180 177 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (180 bp):
CCAAACTCTAAAAAGTTATCTCATTATATACATATAGCTAGACTGCTATATACGTATATGAGCAT
ATATTAAAAAACATGCATGGTATACTGAATTATAATTTAAAGCCTATTAAGTCGTTCAGCAAAAG
CATATATAATTTTATAGGATGCTAGGCTGGTTCCAGTTTTTACAGAAGGC
Found at i:13776008 original size:2 final size:2
Alignment explanation
Indices: 13776001--13776039 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
13775991 AATTAATGGA
* *
13776001 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13776040 GACTTTCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:13780539 original size:2 final size:2
Alignment explanation
Indices: 13780532--13780556 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13780522 TCTTATGCTG
13780532 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
13780557 TTTTTTTTTT
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:13781421 original size:19 final size:19
Alignment explanation
Indices: 13781380--13781422 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13781370 CCAAATTGAA
**
13781380 TTATATATTTTATTAGCTT
1 TTATATATTTTATTAAATT
13781399 TTATATATTTT-TTAAATT
1 TTATATATTTTATTAAATT
13781417 CTTATA
1 -TTATA
13781423 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (19 bp):
TTATATATTTTATTAAATT
Found at i:13781503 original size:14 final size:14
Alignment explanation
Indices: 13781444--13781510 Score: 53
Period size: 14 Copynumber: 4.4 Consensus size: 14
13781434 ATTATTTTAT
13781444 AATTAAATTTATTAAA
1 AATTAAATTTA--AAA
* *
13781460 AATTATATTAAAATA
1 AATTAAATTTAAA-A
**
13781475 ATATATAAAAATAAAA
1 A-AT-TAAATTTAAAA
13781491 AATTAAATTTAAAA
1 AATTAAATTTAAAA
13781505 AATTAA
1 AATTAA
13781511 TAAATCAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
14 17 0.43
15 4 0.10
16 13 0.32
17 6 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTAAATTTAAAA
Found at i:13786734 original size:416 final size:419
Alignment explanation
Indices: 13785980--13786824 Score: 1401
Period size: 416 Copynumber: 2.0 Consensus size: 419
13785970 TGGGGGGTAA
*
13785980 AATTGTATTTTTACTTAAAATTTTATTAAAAATAACAAAAAAATACTATTAAAACTTTTTATCTC
1 AATTGTATTTTTACTTAAAATTTTATTAAAAATAACAAAAAAACACTATTAAAACTTTTTATCTC
13786045 TAAAATCTGAAAAAGGAAAGGGGTTTTAGGGTTATTTCAAAATACATTGATGGTTTCTCAATCAA
66 TAAAATCTGAAAAAGGAAAGGGGTTTTAGGGTTATTTCAAAATACATTGATGG--TCT--AT--A
*
13786110 CTTCACGAGTAGATTGTAACGACAAGAGGATTGTAACATATTTAAGTTTATTAGCTAAAGCTGTA
125 CTTCACGAGTAGATTGTAACAACAAGAGGATTGTAACATATTTAAGTTTATTAGCTAAAGCTGTA
* * * * *
13786175 GCTTTGAGGTAGACTTGTTCAAGAGTCGAGTTATCCGTCTAAATTTGAAGGTTTGCTTAAGTTTT
190 GCTTTGAAGTAGACTTGTTCAAGAGTCGAGTTATCCGTCCAAACTTGAAGGTTTGCTCAAGTTAT
* * *
13786240 CGAAAAGTTTAAATAAAAAATTAAAATTCGTTAAATGAGTTTAGACATAATTTTTAGGTTCATTC
255 CGAAAAGTCTAAATAAAAAATTAAAATCCGTTAAATGAGTTTAGACATAATTTTTAGGCTCATTC
*
13786305 AAATTTTGGGTCGAGCTTTAGACAAAAGATTTAAAGATCAAATTCGGTCTAATCCAACTCGAATT
320 AAATTTTGGGTCGAGCTTTAGACAAAAGATTTAAAGATCAAATTCGGCCTAATCCAACTCGAATT
13786370 CACATATATATAAATTTTTTATTTTTATAAATGTG
385 CACATATATATAAATTTTTTATTTTTATAAATGTG
13786405 AATTGTATTTTTACTTAAAATTTTATTAAAAATAACAAAAAAACACTATTAAAACTTTTTATCTC
1 AATTGTATTTTTACTTAAAATTTTATTAAAAATAACAAAAAAACACTATTAAAACTTTTTATCTC
* *
13786470 TAAAATCTGAAAAGGGAAAGGGTTTTTAGGGTTATTTCAAAATACATTGATGG-CT-T-CTTCAC
66 TAAAATCTGAAAAAGGAAAGGGGTTTTAGGGTTATTTCAAAATACATTGATGGTCTATACTTCAC
* *
13786532 GAGTAGATTGTAACAACAAGAGGATTGTAACATATTTGAGTTTATTGGCTAAAGCTGTAGCTTTG
131 GAGTAGATTGTAACAACAAGAGGATTGTAACATATTTAAGTTTATTAGCTAAAGCTGTAGCTTTG
* *
13786597 AAGTAGACTTGTTCAAGAGTCGAGTTATTCGTCCAAACTTGAAGGTTTGCTCAAGTTATC-AGAG
196 AAGTAGACTTGTTCAAGAGTCGAGTTATCCGTCCAAACTTGAAGGTTTGCTCAAGTTATCGA-AA
* * *
13786661 AGTCTGAATAAAAAATTAAAATCCGTTAAATGGGTTTAGACATAATTTTTAGGCTCGTTCAAATT
260 AGTCTAAATAAAAAATTAAAATCCGTTAAATGAGTTTAGACATAATTTTTAGGCTCATTCAAATT
* *
13786726 TTGGGTCGAGCTTTGGACAAGAGATTTAAAGATCAAATTCGGCCTAATCCAACTCGAATTCACAT
325 TTGGGTCGAGCTTTAGACAAAAGATTTAAAGATCAAATTCGGCCTAATCCAACTCGAATTCACAT
13786791 ATATATAAATTTTTTATTTTTATAAATGTG
390 ATATATAAATTTTTTATTTTTATAAATGTG
13786821 AATT
1 AATT
13786825 ATATAAATTA
Statistics
Matches: 397, Mismatches: 22, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
415 1 0.00
416 278 0.70
419 1 0.00
422 2 0.01
425 115 0.29
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (419 bp):
AATTGTATTTTTACTTAAAATTTTATTAAAAATAACAAAAAAACACTATTAAAACTTTTTATCTC
TAAAATCTGAAAAAGGAAAGGGGTTTTAGGGTTATTTCAAAATACATTGATGGTCTATACTTCAC
GAGTAGATTGTAACAACAAGAGGATTGTAACATATTTAAGTTTATTAGCTAAAGCTGTAGCTTTG
AAGTAGACTTGTTCAAGAGTCGAGTTATCCGTCCAAACTTGAAGGTTTGCTCAAGTTATCGAAAA
GTCTAAATAAAAAATTAAAATCCGTTAAATGAGTTTAGACATAATTTTTAGGCTCATTCAAATTT
TGGGTCGAGCTTTAGACAAAAGATTTAAAGATCAAATTCGGCCTAATCCAACTCGAATTCACATA
TATATAAATTTTTTATTTTTATAAATGTG
Found at i:13786936 original size:25 final size:26
Alignment explanation
Indices: 13786888--13786941 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
13786878 TTATTAAATT
*
13786888 TAATTTTTATTTTAAATTTATATATA
1 TAATTTATATTTTAAATTTATATATA
*
13786914 TAATTTATATTTTAATTTTTATATATA
1 TAATTTATATTTTAA-ATTTATATATA
13786941 T
1 T
13786942 GTGAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TAATTTATATTTTAAATTTATATATA
Found at i:13790373 original size:16 final size:18
Alignment explanation
Indices: 13790352--13790384 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
13790342 AAGAACAATC
13790352 GTAATA-AAAT-ATTATT
1 GTAATATAAATAATTATT
13790368 GTAATATAAATAATTAT
1 GTAATATAAATAATTAT
13790385 GTTAACAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (18 bp):
GTAATATAAATAATTATT
Found at i:13793630 original size:22 final size:20
Alignment explanation
Indices: 13793605--13793649 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
13793595 TAACAAAGTG
13793605 AAAAGTGAAAAGGTAAAAAATAA
1 AAAAG-GAAAAGG-AAAAAA-AA
13793628 AAAAGGAAAAGGAAAAAAAA
1 AAAAGGAAAAGGAAAAAAAA
13793648 AA
1 AA
13793650 CTCATAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.18
21 6 0.27
22 7 0.32
23 5 0.23
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (20 bp):
AAAAGGAAAAGGAAAAAAAA
Found at i:13794217 original size:18 final size:19
Alignment explanation
Indices: 13794172--13794217 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
13794162 TATGTAATTT
13794172 AAAAATAAATGAAAAAAAGC
1 AAAAA-AAATGAAAAAAAGC
*
13794192 AAATAAAAT-AAAGAAAA-C
1 AAAAAAAATGAAA-AAAAGC
13794210 AAAAAAAA
1 AAAAAAAA
13794218 AAAACCGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 11 0.48
19 8 0.35
20 4 0.17
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (19 bp):
AAAAAAAATGAAAAAAAGC
Found at i:13794618 original size:32 final size:30
Alignment explanation
Indices: 13794549--13794624 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 30
13794539 TATATTAATG
*
13794549 TATAAATATAATACTTTTAATAAATCATGA
1 TATAAATATAAAACTTTTAATAAATCATGA
13794579 TATTAAATA-AAAACTTTATTAATAAAATACAT-A
1 TA-TAAATATAAAAC-TT-TTAAT-AAAT-CATGA
13794612 TATAAATATAAAA
1 TATAAATATAAAA
13794625 TTAAATAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
30 6 0.15
31 8 0.21
32 11 0.28
33 11 0.28
34 3 0.08
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (30 bp):
TATAAATATAAAACTTTTAATAAATCATGA
Found at i:13795003 original size:35 final size:35
Alignment explanation
Indices: 13794964--13795035 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
13794954 CCCAAATAAA
13794964 AAATGCACTTTATTGGATCCAAACAAATTAAAACC
1 AAATGCACTTTATTGGATCCAAACAAATTAAAACC
*
13794999 AAATGTACTTTATTGGATCCAAACAAATTAAAACC
1 AAATGCACTTTATTGGATCCAAACAAATTAAAACC
13795034 AA
1 AA
13795036 TCAAATGCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.26
Consensus pattern (35 bp):
AAATGCACTTTATTGGATCCAAACAAATTAAAACC
Found at i:13798171 original size:15 final size:15
Alignment explanation
Indices: 13798151--13798201 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
13798141 ATTATTATTA
*
13798151 TTATTGTTGTTGTTG
1 TTATTGTTATTGTTG
*
13798166 TTATTGTTACTGTTG
1 TTATTGTTATTGTTG
*
13798181 TTATTGTTTTTGTTG
1 TTATTGTTATTGTTG
13798196 TT-TTGT
1 TTATTGT
13798202 CATTATTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 4 0.12
15 28 0.88
ACGTcount: A:0.08, C:0.02, G:0.22, T:0.69
Consensus pattern (15 bp):
TTATTGTTATTGTTG
Found at i:13803057 original size:4 final size:4
Alignment explanation
Indices: 13803050--13803084 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
13803040 TTGCTTGTAT
13803050 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
13803085 TATATATCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:13808140 original size:46 final size:46
Alignment explanation
Indices: 13808073--13808191 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
13808063 GCGAATCTCT
** *
13808073 AAAATGTTTCAAACAAGAATCTTTGAAATTTTGGATGGGAATTCC-T-
1 AAAAT-TTTCAAATGAGAATCTTTGAAATTTTGGATGGGAA-ACCTTG
* * *
13808119 AAAATTTTTTAAATGTGAATCTTTGAAATTTTGGATGTGAAACCTTG
1 AAAA-TTTTCAAATGAGAATCTTTGAAATTTTGGATGGGAAACCTTG
13808166 AAAATTTTCAAATGAGAATCTTTGAA
1 AAAATTTTCAAATGAGAATCTTTGAA
13808192 TTCTGGAAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
45 2 0.03
46 55 0.89
47 5 0.08
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (46 bp):
AAAATTTTCAAATGAGAATCTTTGAAATTTTGGATGGGAAACCTTG
Found at i:13808156 original size:22 final size:22
Alignment explanation
Indices: 13808125--13808191 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
13808115 TCCTAAAATT
13808125 TTTTAAATGTGAATCTTTGAAA
1 TTTTAAATGTGAATCTTTGAAA
** * *
13808147 TTTTGGATGTGAAACCTTGAAAA
1 TTTTAAATGTGAATCTTTG-AAA
*
13808170 TTTTCAAATGAGAATCTTTGAA
1 TTTT-AAATGTGAATCTTTGAA
13808192 TTCTGGAAGT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
22 15 0.44
23 9 0.26
24 10 0.29
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.40
Consensus pattern (22 bp):
TTTTAAATGTGAATCTTTGAAA
Found at i:13808406 original size:17 final size:17
Alignment explanation
Indices: 13808384--13808441 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
13808374 CAAACTTTAG
* *
13808384 ATTCTTATGAACCTTAA
1 ATTCTTATGAACATGAA
**
13808401 ATTCTTACAAACATGAA
1 ATTCTTATGAACATGAA
13808418 ATTCTTATGAACATGAA
1 ATTCTTATGAACATGAA
*
13808435 GTTCTTA
1 ATTCTTA
13808442 CAAACTTGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (17 bp):
ATTCTTATGAACATGAA
Found at i:13808409 original size:34 final size:34
Alignment explanation
Indices: 13808365--13808457 Score: 114
Period size: 34 Copynumber: 2.7 Consensus size: 34
13808355 GCGAATCTAA
* * * * *
13808365 AAATTTTTACAAACTTTAGATTCTTATGAACCTT
1 AAATTCTTACAAACTTGAAATTCTTATGAACATG
*
13808399 AAATTCTTACAAACATGAAATTCTTATGAACATG
1 AAATTCTTACAAACTTGAAATTCTTATGAACATG
* *
13808433 AAGTTCTTACAAACTTGAAACTCTT
1 AAATTCTTACAAACTTGAAATTCTT
13808458 GAGAACTTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (34 bp):
AAATTCTTACAAACTTGAAATTCTTATGAACATG
Found at i:13808451 original size:17 final size:17
Alignment explanation
Indices: 13808399--13808457 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 17
13808389 TATGAACCTT
13808399 AAATTCTTACAAACATG
1 AAATTCTTACAAACATG
**
13808416 AAATTCTTATGAACATG
1 AAATTCTTACAAACATG
* *
13808433 AAGTTCTTACAAACTTG
1 AAATTCTTACAAACATG
*
13808450 AAACTCTT
1 AAATTCTT
13808458 GAGAACTTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (17 bp):
AAATTCTTACAAACATG
Found at i:13808485 original size:17 final size:17
Alignment explanation
Indices: 13808453--13808496 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
13808443 AAACTTGAAA
*
13808453 CTCTTGAGAACTTTAAG
1 CTCTTGAGAACCTTAAG
*
13808470 CTCTTGCGAACCTTAAG
1 CTCTTGAGAACCTTAAG
* *
13808487 TTCTTAAGAA
1 CTCTTGAGAA
13808497 TCTGAAGTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (17 bp):
CTCTTGAGAACCTTAAG
Found at i:13808548 original size:16 final size:16
Alignment explanation
Indices: 13808527--13808576 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
13808517 TAGATCCTTG
13808527 TGAATCTAAATTCTTA
1 TGAATCTAAATTCTTA
13808543 TGAATCTAAAAAATTCTTA
1 TGAATCT---AAATTCTTA
* *
13808562 CGAATGTAAATTCTT
1 TGAATCTAAATTCTT
13808577 GCAAATTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 15 0.52
19 14 0.48
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (16 bp):
TGAATCTAAATTCTTA
Found at i:13808558 original size:19 final size:19
Alignment explanation
Indices: 13808534--13808571 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13808524 TTGTGAATCT
*
13808534 AAATTCTTATGAATCTAAA
1 AAATTCTTACGAATCTAAA
*
13808553 AAATTCTTACGAATGTAAA
1 AAATTCTTACGAATCTAAA
13808572 TTCTTGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (19 bp):
AAATTCTTACGAATCTAAA
Found at i:13808603 original size:17 final size:17
Alignment explanation
Indices: 13808583--13808615 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13808573 TCTTGCAAAT
13808583 TTGAAAGTCTTGTGAAA
1 TTGAAAGTCTTGTGAAA
*
13808600 TTGAAATTCTTGTGAA
1 TTGAAAGTCTTGTGAA
13808616 TTTGGAACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.39
Consensus pattern (17 bp):
TTGAAAGTCTTGTGAAA
Found at i:13808748 original size:17 final size:17
Alignment explanation
Indices: 13808728--13808832 Score: 57
Period size: 17 Copynumber: 6.0 Consensus size: 17
13808718 TCTAAAAAAC
13808728 TTACGAATCTGAAACCT
1 TTACGAATCTGAAACCT
* *
13808745 TTACAAATCTGGAACCT
1 TTACGAATCTGAAACCT
* * * *
13808762 CTACGAAACTTAAAATCTT
1 TTACGAATC-TGAAA-CCT
* * *
13808781 TTACGAATTTGGAATCT
1 TTACGAATCTGAAACCT
* * * *
13808798 TTATGAAACTTAGAATCT
1 TTACGAATCTGA-AACCT
*
13808816 TTATGAATCTGAAACCT
1 TTACGAATCTGAAACCT
13808833 CTGAGAATCT
Statistics
Matches: 62, Mismatches: 23, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
17 33 0.53
18 21 0.34
19 8 0.13
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (17 bp):
TTACGAATCTGAAACCT
Found at i:13808787 original size:19 final size:19
Alignment explanation
Indices: 13808763--13808817 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
13808753 CTGGAACCTC
*
13808763 TACGAAACTTAAAATCTTT
1 TACGAAACTTAGAATCTTT
* *
13808782 TACG-AATTTGGAATC-TT
1 TACGAAACTTAGAATCTTT
*
13808799 TATGAAACTTAGAATCTTT
1 TACGAAACTTAGAATCTTT
13808818 ATGAATCTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 5 0.18
18 17 0.61
19 6 0.21
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (19 bp):
TACGAAACTTAGAATCTTT
Found at i:13808794 original size:36 final size:35
Alignment explanation
Indices: 13808743--13808834 Score: 103
Period size: 36 Copynumber: 2.6 Consensus size: 35
13808733 AATCTGAAAC
*
13808743 CTTTACAAATCTGGAACCTCTACGAAACTTAAAAT
1 CTTTACGAATCTGGAACCTCTACGAAACTTAAAAT
* * * * *
13808778 CTTTTACGAATTTGGAATCTTTATGAAACTTAGAAT
1 C-TTTACGAATCTGGAACCTCTACGAAACTTAAAAT
* *
13808814 CTTTATGAATCTGAAACCTCT
1 CTTTACGAATCTGGAACCTCT
13808835 GAGAATCTTG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
35 16 0.36
36 29 0.64
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (35 bp):
CTTTACGAATCTGGAACCTCTACGAAACTTAAAAT
Found at i:13813979 original size:74 final size:70
Alignment explanation
Indices: 13813825--13813980 Score: 161
Period size: 72 Copynumber: 2.1 Consensus size: 70
13813815 AAGGCCTACT
* * * * * *
13813825 CGATCAATCTCTTCCATGAGGGGATCGATTGTTTCAAGTTGTGATACCATTTTTCACTTGAAAAA
1 CGATCAATCCCTTCCATGAGGGGATCGATTGATTCAAGTTGTAAGACCATTTCTCACTTAAAAAA
13813890 CATGAC
66 CAT-AC
* * *
13813896 CTGATCAATCCCTTCCATGAGGGGATTGATTGATTCATGTTTTTAAGAGCCATTTCTCACTTAAA
1 C-GATCAATCCCTTCCATGAGGGGATCGATTGATTCAAG-TTGTAAGA-CCATTTCTCACTT-AA
13813961 AATAACA-ATC
62 AA-AACATA-C
13813971 CGATCAATCC
1 CGATCAATCC
13813981 TTTTATGTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
71 1 0.01
72 33 0.47
73 5 0.07
74 22 0.31
75 5 0.07
76 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (70 bp):
CGATCAATCCCTTCCATGAGGGGATCGATTGATTCAAGTTGTAAGACCATTTCTCACTTAAAAAA
CATAC
Found at i:13815001 original size:43 final size:43
Alignment explanation
Indices: 13814844--13815034 Score: 201
Period size: 43 Copynumber: 4.4 Consensus size: 43
13814834 TATTTAAAGT
* * * *
13814844 TTTTAAAGTTGTTTAGCCTCTATATAAAGGAGCTCATTTCTGA
1 TTTTAAAGTTGTTTAACTTCTATATAGAGGAGCTCATTTCTTA
* * *
13814887 ATTTAAAGTTGTTTTAA-TCTCTATATAGGGGAGCCCATTTCTTCA
1 TTTTAAAGTTG-TTTAACT-TCTATATAGAGGAGCTCATTTCTT-A
* *
13814932 TTTTAAAGTTGTTTAGCCTT-TGTATAGAGGAGAC-CATTTCTTA
1 TTTTAAAGTTGTTTA-ACTTCTATATAGAGGAG-CTCATTTCTTA
* *
13814975 TTTTAAAGTTTTTTAACTTCTATATAGAAGAGCTCATTT-TCTA
1 TTTTAAAGTTGTTTAACTTCTATATAGAGGAGCTCATTTCT-TA
13815018 TTTTAAAGTTGTTTAAC
1 TTTTAAAGTTGTTTAAC
13815035 CTTAGCCATT
Statistics
Matches: 123, Mismatches: 16, Indels: 18
0.78 0.10 0.11
Matches are distributed among these distances:
42 5 0.04
43 58 0.47
44 46 0.37
45 13 0.11
46 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.45
Consensus pattern (43 bp):
TTTTAAAGTTGTTTAACTTCTATATAGAGGAGCTCATTTCTTA
Found at i:13815016 original size:88 final size:86
Alignment explanation
Indices: 13814844--13815037 Score: 241
Period size: 88 Copynumber: 2.2 Consensus size: 86
13814834 TATTTAAAGT
*
13814844 TTTTAAAGTTGTTTAGCCTCTATATAAAGGAGCTCATTTCTGAATTTAAAGTTGTTTTAATCTCT
1 TTTTAAAGTTGTTTAGCCTTTATATAAAGGAGCTCATTTCTGAATTTAAAGTTGTTTTAATCTCT
**
13814909 ATATAGGGGAGCCCATTTCTTCA
66 ATATAGAAGAGCCCATTTC-T-A
* * * *
13814932 TTTTAAAGTTGTTTAGCCTTTGTATAGAGGAGAC-CATTTCTTATTTTAAAGTT-TTTTAA-CTT
1 TTTTAAAGTTGTTTAGCCTTTATATAAAGGAG-CTCATTTCTGAATTTAAAGTTGTTTTAATC-T
*
13814994 CTATATAGAAGAGCTCATTTTCTA
64 CTATATAGAAGAGCCCA-TTTCTA
*
13815018 TTTTAAAGTTGTTTAACCTT
1 TTTTAAAGTTGTTTAGCCTT
13815038 AGCCATTTCC
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
86 21 0.22
87 22 0.23
88 50 0.53
89 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.45
Consensus pattern (86 bp):
TTTTAAAGTTGTTTAGCCTTTATATAAAGGAGCTCATTTCTGAATTTAAAGTTGTTTTAATCTCT
ATATAGAAGAGCCCATTTCTA
Found at i:13815091 original size:36 final size:36
Alignment explanation
Indices: 13815045--13815116 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
13815035 CTTAGCCATT
13815045 TCCTATTTTAAAGTTATTTAGCCTCTATATAGAGGA
1 TCCTATTTTAAAGTTATTTAGCCTCTATATAGAGGA
* *
13815081 TCCTATTTTAAAGTTGTTTAGCCTTTATATAGAGGA
1 TCCTATTTTAAAGTTATTTAGCCTCTATATAGAGGA
13815117 GCCCATTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (36 bp):
TCCTATTTTAAAGTTATTTAGCCTCTATATAGAGGA
Found at i:13815987 original size:15 final size:15
Alignment explanation
Indices: 13815972--13816034 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 15
13815962 CTTTAAGTTA
13815972 TTTTATTTTATTTTAT
1 TTTTA-TTTATTTTAT
*
13815988 TTTTATTTATTTAACT
1 TTTTATTTATTTTA-T
* *
13816004 ATTTTACTTATTTGAT
1 -TTTTATTTATTTTAT
*
13816020 TATTTATTTTTTTTA
1 T-TTTATTTATTTTA
13816035 AAGATATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 9 0.24
16 17 0.45
17 12 0.32
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTATTTATTTTAT
Found at i:13817815 original size:2 final size:2
Alignment explanation
Indices: 13817808--13817872 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
13817798 CTTATGTATA
13817808 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
13817850 TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG T
13817873 ATCATTTGCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:13819232 original size:13 final size:13
Alignment explanation
Indices: 13819214--13819239 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13819204 CCGATGGTTA
13819214 TAATATCCTGCAC
1 TAATATCCTGCAC
13819227 TAATATCCTGCAC
1 TAATATCCTGCAC
13819240 GAGGTCCAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
TAATATCCTGCAC
Found at i:13820565 original size:70 final size:70
Alignment explanation
Indices: 13820452--13820597 Score: 283
Period size: 70 Copynumber: 2.1 Consensus size: 70
13820442 AAAAAGAAAG
13820452 AAAGAACCTATATTTTTACAAAGTGCATGATGAATAGTTGAGAGAAAATAAAAGAAATAACAAGG
1 AAAGAACCTATATTTTTACAAAGTGCATGATGAATAGTTGAGAGAAAATAAAAGAAATAACAAGG
13820517 CCAAA
66 CCAAA
13820522 AAAGAACCTATATTTTTACAAAGTGCATGATGAATAGTTGAGAGAAAATAAAAGAAATAACAAGG
1 AAAGAACCTATATTTTTACAAAGTGCATGATGAATAGTTGAGAGAAAATAAAAGAAATAACAAGG
13820587 CCAAA
66 CCAAA
13820592 AGAAGA
1 A-AAGA
13820598 GGAACTACAA
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 71 0.95
71 4 0.05
ACGTcount: A:0.52, C:0.10, G:0.18, T:0.21
Consensus pattern (70 bp):
AAAGAACCTATATTTTTACAAAGTGCATGATGAATAGTTGAGAGAAAATAAAAGAAATAACAAGG
CCAAA
Found at i:13822757 original size:3 final size:3
Alignment explanation
Indices: 13822751--13822790 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
13822741 AAACGAAAAT
*
13822751 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13822791 TCATCTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13831854 original size:20 final size:20
Alignment explanation
Indices: 13831821--13831869 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
13831811 GAAAAAAAAT
* *
13831821 GATTGTATACATTCTTTTATG
1 GATT-TATACATTCTTATATA
*
13831842 GATTTATATATTCTTATATA
1 GATTTATACATTCTTATATA
13831862 GATTTATA
1 GATTTATA
13831870 ATTGATGCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (20 bp):
GATTTATACATTCTTATATA
Found at i:13833033 original size:2 final size:2
Alignment explanation
Indices: 13833026--13833056 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13833016 AGCGAGTATT
*
13833026 TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13833057 CTCTCTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13834460 original size:13 final size:13
Alignment explanation
Indices: 13834429--13834468 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
13834419 ACAATAAATC
*
13834429 TTTTAATTTATCAA
1 TTTTAATTTAT-TA
13834443 TTTTAATTTATTA
1 TTTTAATTTATTA
13834456 TTTTAATTTATTA
1 TTTTAATTTATTA
13834469 GTTAATCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTAATTTATTA
Found at i:13849485 original size:13 final size:13
Alignment explanation
Indices: 13849467--13849492 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13849457 TAAAATCCTT
13849467 GTGCTAGCTAGTG
1 GTGCTAGCTAGTG
13849480 GTGCTAGCTAGTG
1 GTGCTAGCTAGTG
13849493 AGTTGAGACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (13 bp):
GTGCTAGCTAGTG
Found at i:13854539 original size:2 final size:2
Alignment explanation
Indices: 13854532--13854556 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13854522 TATGTACCAA
13854532 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13854557 ATCATTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13855004 original size:2 final size:2
Alignment explanation
Indices: 13854999--13855036 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13854989 ACACATGTCC
13854999 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
13855037 TTGAGTGGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13855598 original size:2 final size:2
Alignment explanation
Indices: 13855587--13855618 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
13855577 ACCTAGAATT
13855587 TA TA -A 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 TA TA TA T
13855619 TATTCTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13869098 original size:24 final size:24
Alignment explanation
Indices: 13869071--13869120 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
13869061 TCTTAATTTT
13869071 TACATTCATCAAAATACTTATTAG
1 TACATTCATCAAAATACTTATTAG
13869095 TACATTCATCAAAATACTTATTAG
1 TACATTCATCAAAATACTTATTAG
13869119 TA
1 TA
13869121 AAGCCATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (24 bp):
TACATTCATCAAAATACTTATTAG
Found at i:13871075 original size:26 final size:26
Alignment explanation
Indices: 13871039--13871091 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
13871029 TCTGACACTA
13871039 AATTCTTAGTAATCTTCCATTCAAAC
1 AATTCTTAGTAATCTTCCATTCAAAC
13871065 AATTCTTAGTAATCTTCCATTCAAAC
1 AATTCTTAGTAATCTTCCATTCAAAC
13871091 A
1 A
13871092 CAAATCCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.38
Consensus pattern (26 bp):
AATTCTTAGTAATCTTCCATTCAAAC
Found at i:13877536 original size:6 final size:6
Alignment explanation
Indices: 13877525--13877557 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
13877515 CATATCGAAT
13877525 CCTCCA CCTCCA CCTCCA CCTCCAA CC-CCA CCT
1 CCTCCA CCTCCA CCTCCA CCTCC-A CCTCCA CCT
13877558 GGTGGTTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 3 0.12
6 19 0.76
7 3 0.12
ACGTcount: A:0.18, C:0.67, G:0.00, T:0.15
Consensus pattern (6 bp):
CCTCCA
Found at i:13878866 original size:17 final size:17
Alignment explanation
Indices: 13878844--13878886 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
13878834 GGATTTATTT
* *
13878844 TTTTAAAATTTTTTTAA
1 TTTTAAAATCTTTTAAA
13878861 TTTT-AAATCTTTTAAA
1 TTTTAAAATCTTTTAAA
13878877 TTTATAAAAT
1 TTT-TAAAAT
13878887 AAATTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 13 0.59
17 5 0.23
18 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAAATCTTTTAAA
Found at i:13878943 original size:16 final size:18
Alignment explanation
Indices: 13878922--13878954 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
13878912 ATGTCCGTAC
13878922 TACTTTT-TTT-TTTTGG
1 TACTTTTCTTTGTTTTGG
13878938 TACTTTTCTTTGTTTTG
1 TACTTTTCTTTGTTTTG
13878955 TAAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.06, C:0.09, G:0.12, T:0.73
Consensus pattern (18 bp):
TACTTTTCTTTGTTTTGG
Found at i:13879331 original size:16 final size:15
Alignment explanation
Indices: 13879310--13879366 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 15
13879300 TATTTTATTA
13879310 TTAATAAAATTATTAT
1 TTAATAAAATTA-TAT
13879326 TTAAT---ATTATAT
1 TTAATAAAATTATAT
13879338 TTAATAAAAATTATAT
1 TTAAT-AAAATTATAT
13879354 TTATATAAAATTA
1 TTA-ATAAAATTA
13879367 AAATATAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 8 0.22
13 4 0.11
16 22 0.61
17 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAATAAAATTATAT
Found at i:13879359 original size:22 final size:22
Alignment explanation
Indices: 13879340--13879385 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
13879330 TATTATATTT
13879340 AATAAAAAT-TATATTTATATAA
1 AATAAAAATATA-ATTTATATAA
*
13879362 AATTAAAATATAATTTATATAA
1 AATAAAAATATAATTTATATAA
13879384 AA
1 AA
13879386 ATAATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATAAAAATATAATTTATATAA
Found at i:13879422 original size:22 final size:22
Alignment explanation
Indices: 13879308--13879422 Score: 65
Period size: 22 Copynumber: 5.0 Consensus size: 22
13879298 TATATTTTAT
* *
13879308 TATTA-ATAAAATTATTATTTAA
1 TATTATATAAAATTA-AAATTAA
** *
13879330 TATTATATTTAATAAAAATT-A
1 TATTATATAAAATTAAAATTAA
13879351 TATTTATATAAAATTAAAATATAA
1 TA-TTATATAAAATTAAAAT-TAA
*
13879375 T-TTATATAAAAATAATATTTTTATTAA
1 TATTATATAAAATTAA-A-----ATTAA
*
13879402 TATTATATTAAATTAAAATTA
1 TATTATATAAAATTAAAATTA
13879423 TCAATTAATT
Statistics
Matches: 71, Mismatches: 11, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
21 3 0.04
22 39 0.55
23 8 0.11
24 2 0.03
27 5 0.07
28 14 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTATATAAAATTAAAATTAA
Found at i:13879952 original size:16 final size:17
Alignment explanation
Indices: 13879933--13879980 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
13879923 TTATTATGAG
13879933 AATAAATTTTTA-TTTA
1 AATAAATTTTTATTTTA
13879949 AATAAA-TTTTATTTTA
1 AATAAATTTTTATTTTA
*
13879965 AA-AAATATTTAATTTT
1 AATAAAT-TTTTATTTT
13879981 TATATATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 8 0.29
16 12 0.43
17 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATAAATTTTTATTTTA
Found at i:13894623 original size:23 final size:24
Alignment explanation
Indices: 13894593--13894641 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
13894583 GTTAGGACAT
*
13894593 GGGAGAAAAAG-TAAAGATGGAGA
1 GGGAGAAAAAGAAAAAGATGGAGA
*
13894616 GGGAGAAAGAGCAAAAAGATGGAGA
1 GGGAGAAAAAG-AAAAAGATGGAGA
13894641 G
1 G
13894642 TGATGCCGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
25 12 0.55
ACGTcount: A:0.51, C:0.02, G:0.41, T:0.06
Consensus pattern (24 bp):
GGGAGAAAAAGAAAAAGATGGAGA
Found at i:13895928 original size:36 final size:36
Alignment explanation
Indices: 13895884--13895955 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
13895874 GTCAATTAGT
* *
13895884 CAATGATAATAAAATATCGTTGCAAACATAATAAGC
1 CAATGATAATAAAAAATCGTCGCAAACATAATAAGC
*
13895920 CAATGATAATAAAAAATTGTCGCAAACATAATAAGC
1 CAATGATAATAAAAAATCGTCGCAAACATAATAAGC
13895956 TTTGGTAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (36 bp):
CAATGATAATAAAAAATCGTCGCAAACATAATAAGC
Found at i:13899299 original size:31 final size:31
Alignment explanation
Indices: 13899264--13899337 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
13899254 ATCAAATTTT
* *
13899264 GTTTAGTTGGCATCAAGGA-AACTTAAGCCTA
1 GTTTAGCTAGCATCAAGGAGAA-TTAAGCCTA
*
13899295 GTTTAGCTAGCATCAAGTAGAATTAAGCCTA
1 GTTTAGCTAGCATCAAGGAGAATTAAGCCTA
* *
13899326 GTCTAACTAGCA
1 GTTTAGCTAGCA
13899338 CATAGATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 35 0.95
32 2 0.05
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (31 bp):
GTTTAGCTAGCATCAAGGAGAATTAAGCCTA
Found at i:13900156 original size:49 final size:49
Alignment explanation
Indices: 13900084--13900496 Score: 347
Period size: 49 Copynumber: 8.5 Consensus size: 49
13900074 CCAAACATTG
* * *
13900084 CAAAAATGAGATTTTTAAAGTTTCCTAACCTTACTTTAAAAGAGCTTTT
1 CAAAATTGAGATTTTTAAAGTTTCCTAGCCTTTCTTTAAAAGAGCTTTT
* * * * *
13900133 CAAAACTGATATTTTTAAAGTTTCCTAGCCTTTCCTTAAATGAGTTTTT
1 CAAAATTGAGATTTTTAAAGTTTCCTAGCCTTTCTTTAAAAGAGCTTTT
* * * *
13900182 CAAATTTTG-GTTTTTTAAAGTTTCCTAGCCTTTATTTACAAGAGCTTTT
1 CAAA-ATTGAGATTTTTAAAGTTTCCTAGCCTTTCTTTAAAAGAGCTTTT
* * ** *
13900231 TAAAATTAAGATTTTTGAAAGTTTTTTAGCCTTTCTTAAAAAGAGCTTTT
1 CAAAATTGAGATTTTT-AAAGTTTCCTAGCCTTTCTTTAAAAGAGCTTTT
* * * * * * *
13900281 CAAATTTGGGATTTTCAAA-ATTCCTAGTCTTT-TTTCAAAGGAGTTTTT
1 CAAAATTGAGATTTTTAAAGTTTCCTAGCCTTTCTTT-AAAAGAGCTTTT
* * *
13900329 CAAAATTTAGATTTTTAAAGTTTTCTTA-ACTTTC--TAAAAGAGCTTTT
1 CAAAATTGAGATTTTTAAAG-TTTCCTAGCCTTTCTTTAAAAGAGCTTTT
* * * * *
13900376 CCAAATTGGGATTTTTAAAGTTTCTTA-CCATTTTTTTAAAAGGAGCTTTC
1 CAAAATTGAGATTTTTAAAGTTTCCTAGCC-TTTCTTTAAAA-GAGCTTTT
* * * * * * *
13900426 CAAAGTTGAGATTTTTAAATTTTCGTAGCCTCTCTTTAGAGGAGTTTTT
1 CAAAATTGAGATTTTTAAAGTTTCCTAGCCTTTCTTTAAAAGAGCTTTT
* *
13900475 CAAATTTAAGA-TTTTAAAGTTT
1 CAAAATTGAGATTTTTAAAGTTT
13900497 TAAAGCCTCT
Statistics
Matches: 286, Mismatches: 66, Indels: 25
0.76 0.18 0.07
Matches are distributed among these distances:
46 8 0.03
47 32 0.11
48 47 0.16
49 115 0.40
50 82 0.29
51 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (49 bp):
CAAAATTGAGATTTTTAAAGTTTCCTAGCCTTTCTTTAAAAGAGCTTTT
Done.