Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 79 of 91
Found at i:13305235 original size:42 final size:42
Alignment explanation
Indices: 13305188--13305267 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
13305178 ATTTACAAAT
* * *
13305188 ATAATATTTTTATTAA-ATTAATATTTTAAATTAAAATATTAA
1 ATAATAATTTTATTAATA-TAATATATTAAATAAAAATATTAA
*
13305230 ATAATAATTTTATTAATATAATATATTATATAAAAATA
1 ATAATAATTTTATTAATATAATATATTAAATAAAAATA
13305268 AAATTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.97
43 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (42 bp):
ATAATAATTTTATTAATATAATATATTAAATAAAAATATTAA
Found at i:13305277 original size:42 final size:43
Alignment explanation
Indices: 13305184--13305278 Score: 99
Period size: 42 Copynumber: 2.2 Consensus size: 43
13305174 AATTATTTAC
* * *
13305184 AAATATAATATTTTTATTAAATTAATATTTTAAATTAAAATATT
1 AAAT-TAATAATTTTATTAAATTAATATATTAAATTAAAATATA
*
13305228 AAA-TAATAATTTTATT-AATATAATATATTATA-TAAAA-ATA
1 AAATTAATAATTTTATTAAAT-TAATATATTAAATTAAAATATA
13305268 AAATTTAATAA
1 AAA-TTAATAA
13305279 ATAATAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
40 5 0.11
41 8 0.18
42 28 0.64
44 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (43 bp):
AAATTAATAATTTTATTAAATTAATATATTAAATTAAAATATA
Found at i:13305712 original size:13 final size:11
Alignment explanation
Indices: 13305680--13305704 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13305670 TTATATCTTT
13305680 TATTCGTATTA
1 TATTCGTATTA
13305691 TATTCGTATTA
1 TATTCGTATTA
13305702 TAT
1 TAT
13305705 CATCGTATAT
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:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (11 bp):
TATTCGTATTA
Found at i:13306448 original size:9 final size:9
Alignment explanation
Indices: 13306425--13306461 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
13306415 CATATATACT
13306425 TATTAAAAA
1 TATTAAAAA
13306434 TA-TAAAAA
1 TATTAAAAA
13306442 TATTAAAAA
1 TATTAAAAA
*
13306451 -ATAAAAAA
1 TATTAAAAA
13306459 TAT
1 TAT
13306462 AATATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
8 15 0.60
9 10 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
TATTAAAAA
Found at i:13306461 original size:17 final size:17
Alignment explanation
Indices: 13306425--13306457 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13306415 CATATATACT
13306425 TATTAAAAATATAAAAA
1 TATTAAAAATATAAAAA
13306442 TATTAAAAA-ATAAAAA
1 TATTAAAAATATAAAAA
13306458 ATATAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TATTAAAAATATAAAAA
Found at i:13321053 original size:24 final size:24
Alignment explanation
Indices: 13321001--13321063 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 24
13320991 ATTTGATTTT
13321001 TTATTTTTATATATTATTTAATAA
1 TTATTTTTATATATTATTTAATAA
*
13321025 -AATTTTTA-ATA-TATTTAAAATAA
1 TTATTTTTATATATTATTT--AATAA
*
13321048 TTATTTTT-TATTTTAT
1 TTATTTTTATATATTAT
13321064 AAAAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
21 5 0.16
22 3 0.10
23 12 0.39
24 8 0.26
25 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATTTTTATATATTATTTAATAA
Found at i:13321092 original size:20 final size:19
Alignment explanation
Indices: 13321061--13321101 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
13321051 TTTTTTATTT
13321061 TATAAAAAATAAAAATATA
1 TATAAAAAATAAAAATATA
13321080 TATAAATAAATAAAAATATA
1 TATAAA-AAATAAAAATATA
13321100 TA
1 TA
13321102 ATTTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TATAAAAAATAAAAATATA
Found at i:13321158 original size:18 final size:19
Alignment explanation
Indices: 13321129--13321174 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
13321119 TATAGTTTTT
*
13321129 TACATTTCAATTCAAAATA
1 TACATTTAAATTCAAAATA
* *
13321148 TA-ATTTAAATTTAATATA
1 TACATTTAAATTCAAAATA
13321166 TACATTTAA
1 TACATTTAA
13321175 TATCCAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (19 bp):
TACATTTAAATTCAAAATA
Found at i:13322143 original size:12 final size:11
Alignment explanation
Indices: 13322111--13322150 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
13322101 TTTATCAGTT
13322111 TTAATTTTTTA
1 TTAATTTTTTA
*
13322122 TTAAAGTTTTTA
1 TT-AATTTTTTA
13322134 TTAATTTTTT-
1 TTAATTTTTTA
13322144 TTAATTT
1 TTAATTT
13322151 CACAAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 7 0.27
11 9 0.35
12 10 0.38
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (11 bp):
TTAATTTTTTA
Found at i:13324326 original size:23 final size:23
Alignment explanation
Indices: 13324300--13324346 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
13324290 CTTGATTTTT
*
13324300 ATTTCAAGTCAAATTTAAATTTA
1 ATTTCAAGTCAAACTTAAATTTA
* *
13324323 ATTTCAAGTCGAACTTGAATTTA
1 ATTTCAAGTCAAACTTAAATTTA
13324346 A
1 A
13324347 AAATTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
ATTTCAAGTCAAACTTAAATTTA
Found at i:13325302 original size:27 final size:27
Alignment explanation
Indices: 13325238--13325314 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 27
13325228 ATATATATGA
* *
13325238 AAATATAAAA-TATATATTTTTTATTT
1 AAATTTAAAATTATATAATTTTTATTT
* * *
13325264 -TA-TCAAATTTATATAATTTTTATTT
1 AAATTTAAAATTATATAATTTTTATTT
*
13325289 AAATTTAAAATTATATTATTTTTATT
1 AAATTTAAAATTATATAATTTTTATT
13325315 ATATATATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
24 3 0.08
25 16 0.41
26 1 0.03
27 19 0.49
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (27 bp):
AAATTTAAAATTATATAATTTTTATTT
Found at i:13325901 original size:3 final size:3
Alignment explanation
Indices: 13325893--13325934 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
13325883 AAAAGTATGC
13325893 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13325935 TGGAGTGGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13327557 original size:23 final size:22
Alignment explanation
Indices: 13327489--13327566 Score: 56
Period size: 23 Copynumber: 3.6 Consensus size: 22
13327479 AAAAATATTT
* *
13327489 TATTATTAGATAATTTATTTTAA
1 TATTATTATATAATAT-TTTTAA
* * *
13327512 TTTTA-AATAT-ATATTTATAAA
1 TATTATTATATAATATTT-TTAA
13327533 TATTATTATATAATATCTTTTAA
1 TATTATTATATAATAT-TTTTAA
13327556 TATT-TTA-ATAA
1 TATTATTATATAA
13327567 CACATTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
20 2 0.05
21 14 0.33
22 10 0.23
23 15 0.35
24 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (22 bp):
TATTATTATATAATATTTTTAA
Found at i:13328947 original size:19 final size:19
Alignment explanation
Indices: 13328925--13328963 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13328915 ATTATTAAAA
13328925 TTTTAAATTATATATATAT
1 TTTTAAATTATATATATAT
** *
13328944 TTTTGTATTATATTTATAT
1 TTTTAAATTATATATATAT
13328963 T
1 T
13328964 GTGTTAGAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTAAATTATATATATAT
Found at i:13329570 original size:14 final size:14
Alignment explanation
Indices: 13329553--13329592 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
13329543 TGTTTGTTTA
13329553 AAATTTATTTAGTT
1 AAATTTATTTAGTT
*
13329567 AAATTTATTTGGTT
1 AAATTTATTTAGTT
13329581 ATAATTTATTTA
1 A-AATTTATTTA
13329593 TTATTTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
AAATTTATTTAGTT
Found at i:13329618 original size:12 final size:12
Alignment explanation
Indices: 13329579--13329620 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
13329569 ATTTATTTGG
13329579 TTATA-ATTTAT
1 TTATATATTTAT
13329590 TTAT-TATTTAT
1 TTATATATTTAT
**
13329601 GAATATATTTAT
1 TTATATATTTAT
13329613 TTATATAT
1 TTATATAT
13329621 GTTAATAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 12 0.48
12 13 0.52
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
TTATATATTTAT
Found at i:13352247 original size:2 final size:2
Alignment explanation
Indices: 13352240--13352265 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13352230 TTAACCCAAA
13352240 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
13352266 GCATCCAATT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13353565 original size:16 final size:16
Alignment explanation
Indices: 13353546--13353597 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
13353536 ACTAAAATTT
13353546 TAATTAAAATATAATA
1 TAATTAAAATATAATA
* *
13353562 TAATTCAAATATAAAA
1 TAATTAAAATATAATA
13353578 TAA--AAAATAT-ATA
1 TAATTAAAATATAATA
*
13353591 AAATTAA
1 TAATTAA
13353598 TTATTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 2 0.07
16 17 0.59
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATTAAAATATAATA
Found at i:13354227 original size:30 final size:31
Alignment explanation
Indices: 13354170--13354236 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
13354160 TTAATTAATT
*
13354170 TATTTGAACAAAAAATATTATTTAAATT-AA
1 TATTTAAACAAAAAATATTATTTAAATTAAA
13354200 TATTTAAAC-AAAAA-ATTATTTAAAAATTAAA
1 TATTTAAACAAAAAATATTATTT--AAATTAAA
13354231 TATTTA
1 TATTTA
13354237 TAATATATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 7 0.21
29 5 0.15
30 13 0.39
31 8 0.24
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (31 bp):
TATTTAAACAAAAAATATTATTTAAATTAAA
Found at i:13355546 original size:38 final size:38
Alignment explanation
Indices: 13355490--13355569 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
13355480 TTATTCGGAG
* * * ***
13355490 TATCATTTTTTCTTTATTTCTAATTGGTTCTCTTGCAT
1 TATCATCTTATCTCTATTTCTAATCAATTCTCTTGCAT
*
13355528 TATCATCTTATCTCTATTTTTAATCAATTCTCTTGCAT
1 TATCATCTTATCTCTATTTCTAATCAATTCTCTTGCAT
13355566 TATC
1 TATC
13355570 TTAAATTTAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.20, C:0.19, G:0.05, T:0.56
Consensus pattern (38 bp):
TATCATCTTATCTCTATTTCTAATCAATTCTCTTGCAT
Found at i:13362301 original size:39 final size:39
Alignment explanation
Indices: 13362248--13362325 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
13362238 AAAATATAAG
13362248 AGCCATGTGCAGTCTATTTCATTACTAAAACAGATATAT
1 AGCCATGTGCAGTCTATTTCATTACTAAAACAGATATAT
* *
13362287 AGCCATGTGTAGTCTATTTCATTACTGAAACAGATATAT
1 AGCCATGTGCAGTCTATTTCATTACTAAAACAGATATAT
13362326 GGTAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (39 bp):
AGCCATGTGCAGTCTATTTCATTACTAAAACAGATATAT
Found at i:13367588 original size:5 final size:4
Alignment explanation
Indices: 13367572--13367617 Score: 56
Period size: 4 Copynumber: 10.5 Consensus size: 4
13367562 TTCAATAGCC
13367572 AATT AATT AATTT AATTT AATT AATT AAATT AATT AATT CAATT AA
1 AATT AATT AA-TT AA-TT AATT AATT -AATT AATT AATT -AATT AA
13367618 AATCAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
4 22 0.56
5 17 0.44
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:13367588 original size:9 final size:9
Alignment explanation
Indices: 13367574--13367617 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
13367564 CAATAGCCAA
13367574 TTAATTAAT
1 TTAATTAAT
13367583 TTAATTTAA-
1 TTAA-TTAAT
*
13367592 TTAATTAAA
1 TTAATTAAT
13367601 TTAATTAAT
1 TTAATTAAT
*
13367610 TCAATTAA
1 TTAATTAA
13367618 AATCAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 4 0.13
9 23 0.74
10 4 0.13
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (9 bp):
TTAATTAAT
Found at i:13367599 original size:13 final size:13
Alignment explanation
Indices: 13367572--13367617 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
13367562 TTCAATAGCC
13367572 AATTAATTAATTTA
1 AATTAATTAA-TTA
*
13367586 ATTTAATTAATTA
1 AATTAATTAATTA
*
13367599 AATTAATTAATTC
1 AATTAATTAATTA
13367612 AATTAA
1 AATTAA
13367618 AATCAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 20 0.69
14 9 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTAATTAATTA
Found at i:13367618 original size:18 final size:18
Alignment explanation
Indices: 13367572--13367618 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
13367562 TTCAATAGCC
*
13367572 AATTAATTAATTTAATTT
1 AATTAATTAAATTAATTT
13367590 AATTAATTAAATTAA-TT
1 AATTAATTAAATTAATTT
13367607 AATTCAATTAAA
1 AATT-AATTAAA
13367619 ATCAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTAATTAAATTAATTT
Found at i:13367895 original size:8 final size:8
Alignment explanation
Indices: 13367884--13367920 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
13367874 TTTTTATTTA
13367884 TATATATT
1 TATATATT
*
13367892 TATATAAT
1 TATATATT
13367900 TATATATT
1 TATATATT
*
13367908 TAAATATT
1 TATATATT
13367916 TATAT
1 TATAT
13367921 TTCAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATATT
Found at i:13367939 original size:22 final size:21
Alignment explanation
Indices: 13367910--13367961 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
13367900 TATATATTTA
*
13367910 AATA-TTTATATTTCAAAAAAT
1 AATATTTTATA-TTAAAAAAAT
13367931 AATATTTTATATTAAAAAAAT
1 AATATTTTATATTAAAAAAAT
13367952 AATATTTTAT
1 AATATTTTAT
13367962 TAATTTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTTTATATTAAAAAAAT
Found at i:13368082 original size:26 final size:25
Alignment explanation
Indices: 13368024--13368084 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
13368014 TAAAAAATTT
* *
13368024 TAAATCAAATTAAATTTAAATTTAA
1 TAAATAAAATTAAATTTAAATTAAA
13368049 TAATATAAAATTAAA-TTAAATTCAAAA
1 TAA-ATAAAATTAAATTTAAATT--AAA
13368076 TAAATAAAA
1 TAAATAAAA
13368085 ATTCATTCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 10 0.32
26 16 0.52
27 5 0.16
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAATAAAATTAAATTTAAATTAAA
Found at i:13376352 original size:129 final size:124
Alignment explanation
Indices: 13376158--13376444 Score: 276
Period size: 129 Copynumber: 2.3 Consensus size: 124
13376148 TTAATAGGGT
* * * *
13376158 TATTATAGTGAA-TTTAAAACAAAATTTCACATGTCAAATTTTTATTAAGCAACGGCCAAGGTAT
1 TATTATAGT-AATTTTAAAACAAAATATCACATGTCAAATTTTTATAAACCAACGGCCAAGATAT
* * * * *
13376222 TTTAGTAATTTAGTATGT-AGTTAATTTTATATGATGTTAAAATTTCATATGTAATTTAAT-CAT
65 TTTAATAATTTAATATGTGA-TTAA--TT-T-T-ATGTTAAAAATTAATATATAATTTAATACAT
13376285 G
124 G
* * *** *
13376286 ATATTATAGTAATTTTTAAATAAAATATCACATGTCAAATTTTTATAAACCAGTTG-TAATGATA
1 -TATTATAGTAATTTTAAAACAAAATATCACATGTCAAATTTTTATAAACCAACGGCCAA-GATA
* * *
13376350 TTTTAATACTTTAATATGTGATTGATTTTATGTTAAAAATTAATATATAATTTAATAGATG
64 TTTTAATAATTTAATATGTGATTAATTTTATGTTAAAAATTAATATATAATTTAATACATG
* * *
13376411 TGTTATAGTAATTTTGAAACAAAATACCACATGT
1 TATTATAGTAATTTTAAAACAAAATATCACATGT
13376445 TAACTTCTTA
Statistics
Matches: 132, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
124 54 0.41
125 4 0.03
126 1 0.01
127 2 0.02
128 4 0.03
129 66 0.50
130 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.43
Consensus pattern (124 bp):
TATTATAGTAATTTTAAAACAAAATATCACATGTCAAATTTTTATAAACCAACGGCCAAGATATT
TTAATAATTTAATATGTGATTAATTTTATGTTAAAAATTAATATATAATTTAATACATG
Found at i:13377073 original size:48 final size:50
Alignment explanation
Indices: 13376993--13377118 Score: 141
Period size: 52 Copynumber: 2.5 Consensus size: 50
13376983 ACAAGGATAT
* *
13376993 TATAATAAATAATTATAAGAGAATGTGTATTTTCT-TTATTATGATATGAGAG
1 TATAATAAATAATTATAAGAGAA--TGAATTTTCTATAATTATGATATG-GAG
*
13377045 TATAATAATTAATT-TAAGAGAA-GAATTTTCTATAATTATGATATGGAG
1 TATAATAAATAATTATAAGAGAATGAATTTTCTATAATTATGATATGGAG
*
13377093 TATTATAGTAAATAATTATAAAAGAA
1 TA-TA-A-TAAATAATTATAAGAGAA
13377119 AAAGATATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
48 13 0.20
49 14 0.22
50 1 0.02
51 16 0.25
52 20 0.31
ACGTcount: A:0.45, C:0.02, G:0.13, T:0.40
Consensus pattern (50 bp):
TATAATAAATAATTATAAGAGAATGAATTTTCTATAATTATGATATGGAG
Found at i:13384765 original size:2 final size:2
Alignment explanation
Indices: 13384758--13384789 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13384748 TTGTTCATGC
*
13384758 TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13384790 AGGTTTTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13385140 original size:11 final size:12
Alignment explanation
Indices: 13385124--13385196 Score: 53
Period size: 13 Copynumber: 6.1 Consensus size: 12
13385114 AAATAATATG
13385124 TTTTAATT-AAA
1 TTTTAATTAAAA
13385135 TTTTAATTTAAAA
1 TTTTAA-TTAAAA
*
13385148 TATTAATATAAAA
1 TTTTAAT-TAAAA
* *
13385161 TATT-ATTAACA
1 TTTTAATTAAAA
13385172 TTTTAA-TAACAA
1 TTTTAATTAA-AA
* *
13385184 ATTTAATTGAAA
1 TTTTAATTAAAA
13385196 T
1 T
13385197 AAGTAAATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
11 16 0.33
12 14 0.29
13 19 0.39
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (12 bp):
TTTTAATTAAAA
Found at i:13388173 original size:25 final size:25
Alignment explanation
Indices: 13388145--13388192 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
13388135 TAAATTTTAA
13388145 TTTTAAAATATTAATATAA-AAATAT
1 TTTTAAAATATTAA-ATAACAAATAT
* *
13388170 TTTTAACATTTTAAATAACAAAT
1 TTTTAAAATATTAAATAACAAAT
13388193 TAATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTTAAAATATTAAATAACAAATAT
Found at i:13388492 original size:19 final size:18
Alignment explanation
Indices: 13388468--13388507 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
13388458 AATAAAATAT
13388468 TATTTTTTAAAATATAAAA
1 TATTTTTT-AAATATAAAA
13388487 TATTTTTTAAATATAAAA
1 TATTTTTTAAATATAAAA
13388505 TAT
1 TAT
13388508 AAACATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTTTTTAAATATAAAA
Found at i:13388517 original size:8 final size:8
Alignment explanation
Indices: 13388497--13388541 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
13388487 TATTTTTTAA
13388497 ATATAAA-
1 ATATAAAT
*
13388504 ATATAAAC
1 ATATAAAT
*
13388512 ATATAATT
1 ATATAAAT
13388520 ATATAAAT
1 ATATAAAT
13388528 ATATAAAT
1 ATATAAAT
*
13388536 AAATAA
1 ATATAA
13388542 TTAAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
7 7 0.21
8 26 0.79
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (8 bp):
ATATAAAT
Found at i:13388541 original size:24 final size:23
Alignment explanation
Indices: 13388497--13388544 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
13388487 TATTTTTTAA
*
13388497 ATATAAAATATAAACATATAATT
1 ATATAAAATATAAACAAATAATT
*
13388520 ATATAAATATATAAATAAATAATT
1 ATATAAA-ATATAAACAAATAATT
13388544 A
1 A
13388545 AAAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATAAAATATAAACAAATAATT
Found at i:13391445 original size:18 final size:19
Alignment explanation
Indices: 13391411--13391461 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
13391401 ATTCGAAATT
13391411 AATA-AAATATTATTTTTTAA
1 AATATAAATA-TA-TTTTTAA
*
13391431 AATATAAA-ATATTTTTTA
1 AATATAAATATATTTTTAA
13391449 AATATAAATATAT
1 AATATAAATATAT
13391462 AAACATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 14 0.50
19 6 0.21
20 5 0.18
21 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATATAAATATATTTTTAA
Found at i:13391445 original size:19 final size:19
Alignment explanation
Indices: 13391411--13391461 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
13391401 ATTCGAAATT
13391411 AATA-AAATATTATTTTTTAA
1 AATATAAATA-TATTTTTT-A
13391431 AATATAAA-ATATTTTTTA
1 AATATAAATATATTTTTTA
13391449 AATATAAATATAT
1 AATATAAATATAT
13391462 AAACATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.31
19 12 0.41
20 5 0.17
21 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATATAAATATATTTTTTA
Found at i:13391463 original size:8 final size:8
Alignment explanation
Indices: 13391450--13391498 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
13391440 TATTTTTTAA
13391450 ATATAAAT
1 ATATAAAT
*
13391458 ATATAAAC
1 ATATAAAT
*
13391466 ATATAATT
1 ATATAAAT
13391474 ATATAAAT
1 ATATAAAT
* *
13391482 AAATAATT
1 ATATAAAT
*
13391490 AAATAAAT
1 ATATAAAT
13391498 A
1 A
13391499 ATTAAAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (8 bp):
ATATAAAT
Found at i:13391487 original size:16 final size:16
Alignment explanation
Indices: 13391452--13391499 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
13391442 TTTTTTAAAT
* * *
13391452 ATAAATATATAAACAT
1 ATAATTATATAAATAA
13391468 ATAATTATATAAATAA
1 ATAATTATATAAATAA
*
13391484 ATAATTAAATAAATAA
1 ATAATTATATAAATAA
13391500 TTAAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAATTATATAAATAA
Found at i:13391492 original size:12 final size:12
Alignment explanation
Indices: 13391477--13391504 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13391467 TATAATTATA
13391477 TAAATAAATAAT
1 TAAATAAATAAT
13391489 TAAATAAATAAT
1 TAAATAAATAAT
13391501 TAAA
1 TAAA
13391505 AATAATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
TAAATAAATAAT
Found at i:13393011 original size:22 final size:22
Alignment explanation
Indices: 13392986--13393051 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
13392976 AATTTTACTT
13392986 ATAAATAATATTATATTAATAA
1 ATAAATAATATTATATTAATAA
*
13393008 ATAAATATTATTATATTAAT-A
1 ATAAATAATATTATATTAATAA
** *
13393029 ATAATATTCTAATATATTAATAA
1 ATAA-ATAATATTATATTAATAA
13393052 TATTACAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 5 0.13
22 32 0.84
23 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAAATAATATTATATTAATAA
Found at i:13393016 original size:19 final size:18
Alignment explanation
Indices: 13392986--13393115 Score: 91
Period size: 19 Copynumber: 6.8 Consensus size: 18
13392976 AATTTTACTT
*
13392986 ATAAATAATATTATATTA
1 ATAAATAATATTATAATA
13393004 ATAAATAAATATTATTATATTA
1 ATAAAT-AATATTA-TA-A-TA
*
13393026 AT-AATAATATTCTAATA
1 ATAAATAATATTATAATA
* *
13393043 TATTAATAATATTACAAATAA
1 -ATAAATAATATTA-TAAT-A
* * *
13393064 ATAATATTATAATATATTA
1 ATAA-ATAATATTATAATA
*
13393083 ATAAATAATATAAATAATA
1 ATAAATAATAT-TATAATA
*
13393102 ATAAATAATTTTAT
1 ATAAATAATATTAT
13393116 TTTAAGTATT
Statistics
Matches: 87, Mismatches: 15, Indels: 20
0.71 0.12 0.16
Matches are distributed among these distances:
17 2 0.02
18 16 0.18
19 38 0.44
20 16 0.18
21 11 0.13
22 4 0.05
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATAATATTATAATA
Found at i:13393049 original size:8 final size:8
Alignment explanation
Indices: 13392997--13393094 Score: 57
Period size: 8 Copynumber: 12.5 Consensus size: 8
13392987 TAAATAATAT
13392997 TATATTAA
1 TATATTAA
*
13393005 TA-AATAA
1 TATATTAA
*
13393012 -ATATTAT
1 TATATTAA
13393019 TATATTAA
1 TATATTAA
13393027 TA-A-TAA
1 TATATTAA
13393033 TAT-TCTAA
1 TATAT-TAA
13393041 TATATTAA
1 TATATTAA
13393049 TAATATTACA
1 T-ATATTA-A
* *
13393059 AATAAATAA
1 TAT-ATTAA
13393068 TAT-TATAA
1 TATAT-TAA
13393076 TATATTAA
1 TATATTAA
*
13393084 TA-AATAA
1 TATATTAA
13393091 TATA
1 TATA
13393095 AATAATAATA
Statistics
Matches: 69, Mismatches: 9, Indels: 24
0.68 0.09 0.24
Matches are distributed among these distances:
6 6 0.09
7 14 0.20
8 32 0.46
9 13 0.19
10 4 0.06
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (8 bp):
TATATTAA
Found at i:13393077 original size:35 final size:35
Alignment explanation
Indices: 13393025--13393104 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
13393015 TTATTATATT
* *
13393025 AATAATAATATTCTAATATATTAAT-AATATTACA
1 AATAATAATATTATAATATATTAATAAATAATACA
*
13393059 AATAAATAATATTATAATATATTAATAAATAATATA
1 AAT-AATAATATTATAATATATTAATAAATAATACA
13393095 AATAATAATA
1 AATAATAATA
13393105 AATAATTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
34 3 0.07
35 28 0.68
36 10 0.24
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (35 bp):
AATAATAATATTATAATATATTAATAAATAATACA
Found at i:13393151 original size:19 final size:19
Alignment explanation
Indices: 13393129--13393167 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13393119 AAGTATTTCT
13393129 ATATTAACATAATATT-TTA
1 ATATTAA-ATAATATTATTA
*
13393148 ATATTAAATATTATTATTA
1 ATATTAAATAATATTATTA
13393167 A
1 A
13393168 AATATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTAAATAATATTATTA
Found at i:13393208 original size:16 final size:16
Alignment explanation
Indices: 13393189--13393239 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
13393179 TTTTTATATT
13393189 AATAATTTTACTAATA
1 AATAATTTTACTAATA
13393205 AATAA-TTT-C-AAT-
1 AATAATTTTACTAATA
*
13393217 -AT-ATTTTAATAATA
1 AATAATTTTACTAATA
13393231 AATAATTTT
1 AATAATTTT
13393240 TAATATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 12
0.68 0.02 0.29
Matches are distributed among these distances:
10 1 0.04
11 5 0.18
13 6 0.21
14 1 0.04
15 5 0.18
16 10 0.36
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (16 bp):
AATAATTTTACTAATA
Found at i:13393251 original size:25 final size:25
Alignment explanation
Indices: 13393187--13393252 Score: 87
Period size: 26 Copynumber: 2.6 Consensus size: 25
13393177 ATTTTTTATA
*
13393187 TTAATAATTTTACTAATAAATAATTT
1 TTAAT-ATTTTAATAATAAATAATTT
**
13393213 CAATATATTTTAATAATAAATAATTT
1 TTA-ATATTTTAATAATAAATAATTT
13393239 TTAATATTTTAATA
1 TTAATATTTTAATA
13393253 GTTATATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 11 0.32
26 21 0.62
27 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAATATTTTAATAATAAATAATTT
Found at i:13399291 original size:24 final size:24
Alignment explanation
Indices: 13399260--13399314 Score: 94
Period size: 23 Copynumber: 2.3 Consensus size: 24
13399250 TTCAAAAAAA
*
13399260 TTTATTTCCTTTTAACAA-TTAAG
1 TTTATTTTCTTTTAACAATTTAAG
13399283 TTTATTTTCTTTTAACAATTTAAG
1 TTTATTTTCTTTTAACAATTTAAG
13399307 TTTATTTT
1 TTTATTTT
13399315 TAATGATACA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 17 0.57
24 13 0.43
ACGTcount: A:0.27, C:0.09, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTATTTTCTTTTAACAATTTAAG
Found at i:13401161 original size:16 final size:17
Alignment explanation
Indices: 13401135--13401167 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
13401125 ATATATATAG
13401135 TTTTTATTTTTTATTTA
1 TTTTTATTTTTTATTTA
13401152 TTTTTA-TTTTTATTTA
1 TTTTTATTTTTTATTTA
13401168 AATTTTGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTATTTTTTATTTA
Found at i:13412695 original size:3 final size:3
Alignment explanation
Indices: 13412687--13412715 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13412677 TGACTCGCTT
13412687 GGA GGA GGA GGA GGA GGA GGA GGA GGA GG
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GG
13412716 TGTTGCACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:13415647 original size:18 final size:17
Alignment explanation
Indices: 13415619--13415653 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13415609 TATATAATTG
*
13415619 AAATATTATAATTATAT
1 AAATATTATAAATATAT
13415636 AAATATTTATAAATATAT
1 AAATA-TTATAAATATAT
13415654 GAAAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATATTATAAATATAT
Found at i:13415661 original size:18 final size:17
Alignment explanation
Indices: 13415619--13415661 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
13415609 TATATAATTG
*
13415619 AAATATTATAATTATATA
1 AAAT-TTATAAATATATA
13415637 AATATTTATAAATATATGA
1 AA-ATTTATAAATATAT-A
13415656 AAATTT
1 AAATTT
13415662 TTTATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAATTTATAAATATATA
Found at i:13416120 original size:11 final size:11
Alignment explanation
Indices: 13416088--13416125 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13416078 TATAAATGTG
13416088 AATTTCATATAA
1 AATTTCATAT-A
*
13416100 AATTT-TTATA
1 AATTTCATATA
13416110 AATTTCATATA
1 AATTTCATATA
13416121 AATTT
1 AATTT
13416126 TAATTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 6 0.26
11 12 0.52
12 5 0.22
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (11 bp):
AATTTCATATA
Found at i:13416742 original size:13 final size:14
Alignment explanation
Indices: 13416709--13416742 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
13416699 CATGGGATTT
13416709 TTTTAAAAAATATA
1 TTTTAAAAAATATA
*
13416723 TTATAAAAAATA-A
1 TTTTAAAAAATATA
13416736 TTTTAAA
1 TTTTAAA
13416743 TTGAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTTAAAAAATATA
Found at i:13418131 original size:3 final size:3
Alignment explanation
Indices: 13418118--13418166 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
13418108 TGAGTCTTTT
*
13418118 ATA ATTA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13418164 ATA
1 ATA
13418167 TTTTAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13419391 original size:19 final size:19
Alignment explanation
Indices: 13419346--13419400 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
13419336 ACTAATAATT
* *
13419346 AAAAATATTAAAAATGCTAA
1 AAAAATAATAAAAAT-TTAA
* *
13419366 AATAATAATAATAATTTAA
1 AAAAATAATAAAAATTTAA
13419385 AAAAATAATAAAAATT
1 AAAAATAATAAAAATT
13419401 GAATATTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATAATAAAAATTTAA
Found at i:13419743 original size:14 final size:15
Alignment explanation
Indices: 13419705--13419749 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
13419695 CGTTTTCTTT
*
13419705 AAACCTTAAATTTCA
1 AAACCTTAAAATTCA
13419720 AAATCC-TAAAATT-A
1 AAA-CCTTAAAATTCA
13419734 AAACCTTAAAA-TCA
1 AAACCTTAAAATTCA
13419748 AA
1 AA
13419750 CCCCAAACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 3 0.12
14 12 0.46
15 9 0.35
16 2 0.08
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.27
Consensus pattern (15 bp):
AAACCTTAAAATTCA
Found at i:13419841 original size:14 final size:14
Alignment explanation
Indices: 13419790--13419948 Score: 65
Period size: 14 Copynumber: 11.1 Consensus size: 14
13419780 CCAAACCTTC
*
13419790 AAACCCTAAAA-CA
1 AAACCCTAAAATTA
* * *
13419803 AAACCCCAAACCTTT
1 AAACCCTAAA-ATTA
*
13419818 AAACCTTAAAATTA
1 AAACCCTAAAATTA
* * *
13419832 AAACTCTAAACCTTC
1 AAACCCTAAA-ATTA
*
13419847 AAACCCTAAAATCA
1 AAACCCTAAAATTA
*
13419861 AAACCCTAAACCTTA
1 AAACCCTAAA-ATTA
* *
13419876 CAAACCCT-CAATCA
1 -AAACCCTAAAATTA
* *
13419890 AAACCC-CAAATCTT
1 AAACCCTAAAAT-TA
* *
13419904 AAACCTTAAAAGTA
1 AAACCCTAAAATTA
* *
13419918 AAACTCC-AAACTTTC
1 AAAC-CCTAAA-ATTA
13419933 AAACCCTAAAATTA
1 AAACCCTAAAATTA
13419947 AA
1 AA
13419949 CTGTAAATCC
Statistics
Matches: 101, Mismatches: 34, Indels: 21
0.65 0.22 0.13
Matches are distributed among these distances:
13 18 0.18
14 42 0.42
15 34 0.34
16 7 0.07
ACGTcount: A:0.50, C:0.30, G:0.01, T:0.20
Consensus pattern (14 bp):
AAACCCTAAAATTA
Found at i:13419844 original size:29 final size:29
Alignment explanation
Indices: 13419734--13420025 Score: 264
Period size: 28 Copynumber: 10.3 Consensus size: 29
13419724 CCTAAAATTA
* *
13419734 AAACCTTAAAATC-AAACCCCAAACCTTC
1 AAACCCTAAAATCAAAACTCCAAACCTTC
*
13419762 AAACCCTAAAA-CGAAACTCCAAACCTTC
1 AAACCCTAAAATCAAAACTCCAAACCTTC
* *
13419790 AAACCCTAAAA-CAAAACCCCAAACCTTT
1 AAACCCTAAAATCAAAACTCCAAACCTTC
* * *
13419818 AAACCTTAAAATTAAAACTCTAAACCTTC
1 AAACCCTAAAATCAAAACTCCAAACCTTC
13419847 AAACCCTAAAATCAAAAC-CCTAAACCTTAC
1 AAACCCTAAAATCAAAACTCC-AAACCTT-C
* * *
13419877 AAACCCT-CAATCAAAACCCCAAATCTT-
1 AAACCCTAAAATCAAAACTCCAAACCTTC
* *
13419904 AAACCTTAAAAGT-AAAACTCCAAACTTTC
1 AAACCCTAAAA-TCAAAACTCCAAACCTTC
* **
13419933 AAACCCTAAAAT-TAAACTGTAAATCC-TC
1 AAACCCTAAAATCAAAACTCCAAA-CCTTC
* * *
13419961 TAAACCCTAAAACCAAAACTTCAAATC-TC
1 -AAACCCTAAAATCAAAACTCCAAACCTTC
* * *
13419990 AAACCTTAAAATCAAAACCCCAAATC-TC
1 AAACCCTAAAATCAAAACTCCAAACCTTC
13420018 AAACCCTA
1 AAACCCTA
13420026 GACCCCAAAA
Statistics
Matches: 218, Mismatches: 35, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
27 7 0.03
28 116 0.53
29 77 0.35
30 18 0.08
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.20
Consensus pattern (29 bp):
AAACCCTAAAATCAAAACTCCAAACCTTC
Found at i:13419978 original size:86 final size:83
Alignment explanation
Indices: 13419734--13420025 Score: 327
Period size: 86 Copynumber: 3.4 Consensus size: 83
13419724 CCTAAAATTA
* ** *
13419734 AAACCTTAAAATCAAACCCCAAACCTTCAAACCCTAAAACGAAACTCCAAACCTTCAAACCCTAA
1 AAACCTTAAAATAAAACCCCAAACCTTCAAACCCTAAAATAAAACTCTAAACCTTCAAACCCTAA
*
13419799 AACAAAACCCCAAACCTTT
66 AACAAAACCCCAAATC-TT
* * *
13419818 AAACCTTAAAATTAAAACTCTAAACCTTCAAACCCTAAAATCAAAACCCTAAACCTTACAAACCC
1 AAACCTTAAAA-TAAAACCCCAAACCTTCAAACCCTAAAAT-AAAACTCTAAACCTT-CAAACCC
* *
13419883 TCAATCAAAACCCCAAATCTT
63 TAAAACAAAACCCCAAATCTT
* * * *
13419904 AAACCTTAAAAGTAAAACTCCAAACTTTCAAACCCTAAAATTAAACTGTAAATCC-TCTAAACCC
1 AAACCTTAAAA-TAAAACCCCAAACCTTCAAACCCTAAAATAAAACTCTAAA-CCTTC-AAACCC
** *
13419968 TAAAACCAAAACTTCAAATCTC
63 TAAAA-CAAAACCCCAAATCTT
*
13419990 AAACCTTAAAATCAAAACCCCAAATC-TCAAACCCTA
1 AAACCTTAAAAT-AAAACCCCAAACCTTCAAACCCTA
13420026 GACCCCAAAA
Statistics
Matches: 177, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
84 12 0.07
85 54 0.31
86 88 0.50
87 23 0.13
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.20
Consensus pattern (83 bp):
AAACCTTAAAATAAAACCCCAAACCTTCAAACCCTAAAATAAAACTCTAAACCTTCAAACCCTAA
AACAAAACCCCAAATCTT
Found at i:13420082 original size:28 final size:27
Alignment explanation
Indices: 13420011--13420083 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
13420001 TCAAAACCCC
13420011 AAATCTCAAACCCTAGACCCCAAAATCTA
1 AAAT-TCAAACCCTA-ACCCCAAAATCTA
* * * *
13420040 AAACTTGAAAACCTAACCCTAAAATCTG
1 AAA-TTCAAACCCTAACCCCAAAATCTA
13420068 AAATGTCAAACCCTAA
1 AAAT-TCAAACCCTAA
13420084 AATCCAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
27 1 0.03
28 23 0.64
29 11 0.31
30 1 0.03
ACGTcount: A:0.47, C:0.29, G:0.05, T:0.19
Consensus pattern (27 bp):
AAATTCAAACCCTAACCCCAAAATCTA
Found at i:13424681 original size:28 final size:28
Alignment explanation
Indices: 13424650--13424719 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
13424640 GCCTGGTTGC
* * *
13424650 AATTCAATTGGGCTTCAGGCCCGATTTT
1 AATTCAACTGGGCTTCAAGCCCAATTTT
13424678 AATTCAACTGGGCTTCAAGCCCAATTTT
1 AATTCAACTGGGCTTCAAGCCCAATTTT
*
13424706 AATTTTAACTGGGC
1 AA-TTCAACTGGGC
13424720 CAAAAGTGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 27 0.73
29 10 0.27
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (28 bp):
AATTCAACTGGGCTTCAAGCCCAATTTT
Found at i:13424836 original size:18 final size:17
Alignment explanation
Indices: 13424808--13424862 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 17
13424798 TTTATTGATT
13424808 AAATAAAAATACAAAAA
1 AAATAAAAATACAAAAA
*
13424825 AAATACAAAAT---ATAA
1 AAATA-AAAATACAAAAA
13424840 AAATAAAAATA-AAAAA
1 AAATAAAAATACAAAAA
13424856 AAA-AAAA
1 AAATAAAA
13424863 CAAAAGGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 5 0.15
15 12 0.36
16 6 0.18
17 5 0.15
18 5 0.15
ACGTcount: A:0.84, C:0.04, G:0.00, T:0.13
Consensus pattern (17 bp):
AAATAAAAATACAAAAA
Found at i:13424847 original size:6 final size:6
Alignment explanation
Indices: 13424808--13424859 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
13424798 TTTATTGATT
*
13424808 AAATAA AAATACA AAA-AA AATACAA AATATAA AAATAA AAATAA AAA-AA
1 AAATAA AAATA-A AAATAA AA-ATAA AA-ATAA AAATAA AAATAA AAATAA
13424857 AAA
1 AAA
13424860 AAACAAAAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
5 8 0.19
6 20 0.48
7 14 0.33
ACGTcount: A:0.83, C:0.04, G:0.00, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:13424860 original size:26 final size:26
Alignment explanation
Indices: 13424810--13424861 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
13424800 TATTGATTAA
* *
13424810 ATAAAAATACAAAAAAAATACAAAAT
1 ATAAAAATACAAAAAAAAAAAAAAAT
*
13424836 ATAAAAATAAAAATAAAAAAAAAAAA
1 ATAAAAATACAAA-AAAAAAAAAAAA
13424862 ACAAAAGGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.83, C:0.04, G:0.00, T:0.13
Consensus pattern (26 bp):
ATAAAAATACAAAAAAAAAAAAAAAT
Found at i:13426197 original size:20 final size:21
Alignment explanation
Indices: 13426172--13426220 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
13426162 AGTATTTATT
* *
13426172 AAAAAATTTT-CAATACAATA
1 AAAAAATTTTAAAAAACAATA
*
13426192 AAAAAATTTTAAAAAATAATA
1 AAAAAATTTTAAAAAACAATA
13426213 AAAAAATT
1 AAAAAATT
13426221 AATTAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAAATTTTAAAAAACAATA
Found at i:13427360 original size:22 final size:21
Alignment explanation
Indices: 13427335--13427382 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
13427325 ATTAATAACT
*
13427335 TAATAAGTGAATGATAATTTAA
1 TAATAAATGAATGATAA-TTAA
* *
13427357 TAATAAATTAGTGATAATTAA
1 TAATAAATGAATGATAATTAA
13427378 TAATA
1 TAATA
13427383 GTTCAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
TAATAAATGAATGATAATTAA
Found at i:13427499 original size:22 final size:22
Alignment explanation
Indices: 13427471--13427580 Score: 73
Period size: 22 Copynumber: 5.0 Consensus size: 22
13427461 GTAAATCAAT
* *
13427471 ATAACTTATTAATAAATAATTA
1 ATAACTTAATAATAAATAATGA
* *
13427493 ATAACTTAATAGTAAATTATGA
1 ATAACTTAATAATAAATAATGA
*
13427515 ATAATTTAAT-ATAAATAAGTG-
1 ATAACTTAATAATAAATAA-TGA
* * * * *
13427536 ATAAGTTGATAGTTAATCAT-A
1 ATAACTTAATAATAAATAATGA
*
13427557 GATAATTTAATAATAAATCAATGA
1 -ATAACTTAATAATAAAT-AATGA
13427581 GAATTTTATA
Statistics
Matches: 65, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
21 15 0.23
22 47 0.72
23 2 0.03
24 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAATAAATAATGA
Found at i:13427529 original size:43 final size:44
Alignment explanation
Indices: 13427455--13427574 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 44
13427445 CATTAGAAAT
* * * * *
13427455 TTAAAAGTAAATCA-ATATAACTTATTAATAAATAATTAATAAC
1 TTAATAGTAAATCATAGATAATTTAATAATAAATAAGTAATAAC
* * *
13427498 TTAATAGTAAATTAT-GAATAATTTAAT-ATAAATAAGTGATAAG
1 TTAATAGTAAATCATAG-ATAATTTAATAATAAATAAGTAATAAC
* *
13427541 TTGATAGTTAATCATAGATAATTTAATAATAAAT
1 TTAATAGTAAATCATAGATAATTTAATAATAAAT
13427575 CAATGAGAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
43 47 0.76
44 15 0.24
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (44 bp):
TTAATAGTAAATCATAGATAATTTAATAATAAATAAGTAATAAC
Found at i:13427585 original size:22 final size:23
Alignment explanation
Indices: 13427498--13427623 Score: 79
Period size: 22 Copynumber: 5.7 Consensus size: 23
13427488 AATTAATAAC
*
13427498 TTAATAGTAAAT-TAT-GAATAAT
1 TTAATAGTAAATCAATCGAA-AAT
* *
13427520 TTAATA-TAAAT-AAGT-GATAAG
1 TTAATAGTAAATCAA-TCGAAAAT
* * * *
13427541 TTGATAGTTAATC-ATAGATAAT
1 TTAATAGTAAATCAATCGAAAAT
* *
13427563 TTAATAATAAATCAAT-GAGAAT
1 TTAATAGTAAATCAATCGAAAAT
*
13427585 TTTATAGTAAAT-AATCGAAAAT
1 TTAATAGTAAATCAATCGAAAAT
*
13427607 TAAATAGTAAATCAATC
1 TTAATAGTAAATCAATC
13427624 ATAACATAGT
Statistics
Matches: 82, Mismatches: 15, Indels: 13
0.75 0.14 0.12
Matches are distributed among these distances:
21 17 0.21
22 59 0.72
23 6 0.07
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (23 bp):
TTAATAGTAAATCAATCGAAAAT
Found at i:13427592 original size:44 final size:44
Alignment explanation
Indices: 13427501--13427622 Score: 115
Period size: 44 Copynumber: 2.8 Consensus size: 44
13427491 TAATAACTTA
* *
13427501 ATAGTAAATTAT-GAATAATTTAAT-ATAAAT-AAGTGATAAGTTG
1 ATAGTAAATAATAG-ATAATTTAATAATAAATCAA-TGAGAAGTTG
* * * *
13427544 ATAGTTAATCATAGATAATTTAATAATAAATCAATGAGAATTTT
1 ATAGTAAATAATAGATAATTTAATAATAAATCAATGAGAAGTTG
* * * *
13427588 ATAGTAAATAATCGAAAATTAAATAGTAAATCAAT
1 ATAGTAAATAATAGATAATTTAATAATAAATCAAT
13427623 CATAACATAG
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
43 20 0.31
44 43 0.66
45 2 0.03
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (44 bp):
ATAGTAAATAATAGATAATTTAATAATAAATCAATGAGAAGTTG
Found at i:13427636 original size:22 final size:22
Alignment explanation
Indices: 13427611--13427662 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
13427601 GAAAATTAAA
*
13427611 TAGTAAAT-CAATCATAACATAG
1 TAGTAAATAC-ATAATAACATAG
*
13427633 TAGTAAATACATAATAATATAG
1 TAGTAAATACATAATAACATAG
13427655 TAGTAAAT
1 TAGTAAAT
13427663 TATTGACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (22 bp):
TAGTAAATACATAATAACATAG
Found at i:13427659 original size:66 final size:66
Alignment explanation
Indices: 13427589--13427724 Score: 148
Period size: 66 Copynumber: 2.1 Consensus size: 66
13427579 GAGAATTTTA
* *
13427589 TAGTAAATAATCGAAAATTAAATAGTAAATCAATCATAACATAGTAGTAAA-TACATAATAATAT
1 TAGTAAATAATCGAAAATTAAATAGTAAATCAATCATAACATAGCAGTAAATTAC-TAATAACAT
13427653 AG
65 AG
* * * *** * * * *
13427655 TAGTAAATTATTGACAATTTGGTAGTAAATTATTGATAACATAGCAGTAAATTACTAATAGCATA
1 TAGTAAATAATCGAAAATTAAATAGTAAATCAATCATAACATAGCAGTAAATTACTAATAACATA
13427720 G
66 G
13427721 TAGT
1 TAGT
13427725 TTACTAATAA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
66 54 0.95
67 3 0.05
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.32
Consensus pattern (66 bp):
TAGTAAATAATCGAAAATTAAATAGTAAATCAATCATAACATAGCAGTAAATTACTAATAACATA
G
Found at i:13427703 original size:22 final size:22
Alignment explanation
Indices: 13427624--13427724 Score: 87
Period size: 22 Copynumber: 4.6 Consensus size: 22
13427614 TAAATCAATC
* *
13427624 ATAACATAGTAGTAAA-TACATA
1 ATAACATAGTAGTAAATTA-TTG
*
13427646 ATAATATAGTAGTAAATTATTG
1 ATAACATAGTAGTAAATTATTG
* ** *
13427668 ACAATTTGGTAGTAAATTATTG
1 ATAACATAGTAGTAAATTATTG
* * *
13427690 ATAACATAGCAGTAAATTACTA
1 ATAACATAGTAGTAAATTATTG
*
13427712 ATAGCATAGTAGT
1 ATAACATAGTAGT
13427725 TTACTAATAA
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
22 61 0.97
23 2 0.03
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.34
Consensus pattern (22 bp):
ATAACATAGTAGTAAATTATTG
Found at i:13427820 original size:22 final size:22
Alignment explanation
Indices: 13427775--13427845 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
13427765 TAAATTAGTT
* * * *
13427775 AATTACTGATAATTTTATAGTA
1 AATTATTGATAAATTAATAATA
13427797 AATTATTGATAAATTAATAATA
1 AATTATTGATAAATTAATAATA
* * *
13427819 AATCAATT-ATAACTTCATAATA
1 AAT-TATTGATAAATTAATAATA
13427841 AATTA
1 AATTA
13427846 CCAATAACTT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
21 1 0.03
22 36 0.90
23 3 0.08
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (22 bp):
AATTATTGATAAATTAATAATA
Found at i:13427852 original size:22 final size:22
Alignment explanation
Indices: 13427813--13427889 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
13427803 TGATAAATTA
***
13427813 ATAATAAATCAATTATAACTTC
1 ATAATAAATCACCAATAACTTC
* *
13427835 ATAATAAATTACCAATAACTTT
1 ATAATAAATCACCAATAACTTC
** * *
13427857 ATGGTAAATCACCAATAATTTG
1 ATAATAAATCACCAATAACTTC
*
13427879 ATAGTAAATCA
1 ATAATAAATCA
13427890 TTTAGCTTAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (22 bp):
ATAATAAATCACCAATAACTTC
Found at i:13428424 original size:43 final size:43
Alignment explanation
Indices: 13428375--13428764 Score: 188
Period size: 44 Copynumber: 8.9 Consensus size: 43
13428365 AATTTGGTAA
*
13428375 TAAATCATAAATAACTT-ATAGTAAATCAGTAATAATTTAATAG
1 TAAATCATAAA-AACTTAATAGTAAATCAGTGATAATTTAATAG
* * * * * *
13428418 TTAATCACTAGAAACTTAAAAATAAATCAAT-ATAATTTAGTAG
1 TAAATCA-TAAAAACTTAATAGTAAATCAGTGATAATTTAATAG
* * *
13428461 TAAATTATTGAAAACTTAATAGTTAATCAGTGATAATTTAATAG
1 TAAATCA-TAAAAACTTAATAGTAAATCAGTGATAATTTAATAG
* * * *
13428505 TAAATCATGGATAACTTAATA-TAAATCAGTGATAACTTGATAG
1 TAAATCAT-AAAAACTTAATAGTAAATCAGTGATAATTTAATAG
* * * * * **
13428548 TGAATCATGAGATAA-TTAGGTAATAAATCTAG-AATAATTTTGTAG
1 TAAATCAT-A-AAAACTTA-ATAGTAAATC-AGTGATAATTTAATAG
* * * * *
13428593 TAAATAATCAAAAA-TTAAGTAGTACATCAATGAT-ATTATAGTAA
1 TAAATCAT-AAAAACTTAA-TAGTAAATCAGTGATAATT-TAATAG
*
13428637 TAAATGCATAATAAA-TATAATATTAAATCA-TCGATAATTTAATAG
1 TAAAT-CATAA-AAACT-TAATAGTAAATCAGT-GATAATTTAATAG
* * * * * * * *
13428682 TAAATTATTGATAACTTAGTAGTAAACCATTAATAATATAATAG
1 TAAATCA-TAAAAACTTAATAGTAAATCAGTGATAATTTAATAG
* * * ** *
13428726 GAAATTACTAATAACTTGTTA-CAAATCAGTGATAATTTA
1 TAAATCA-TAAAAACTTAATAGTAAATCAGTGATAATTTA
13428765 GCTATTAATC
Statistics
Matches: 266, Mismatches: 62, Indels: 38
0.73 0.17 0.10
Matches are distributed among these distances:
43 92 0.35
44 114 0.43
45 52 0.20
46 8 0.03
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (43 bp):
TAAATCATAAAAACTTAATAGTAAATCAGTGATAATTTAATAG
Found at i:13428685 original size:22 final size:21
Alignment explanation
Indices: 13428250--13428730 Score: 150
Period size: 22 Copynumber: 21.9 Consensus size: 21
13428240 TAAAAATAAG
* *
13428250 TGATAATTTAATAGTTAATCTC
1 TGATAATTTAATAGTAAATC-A
* *
13428272 TGATAATTTAGTAATAAATCAA
1 TGATAATTTAATAGTAAATC-A
* * *
13428294 TCACAATATAATAGTAAA-CTA
1 TGATAATTTAATAGTAAATC-A
* * *
13428315 GTGATAAGTTAATAATAAATTGA
1 -TGATAATTTAATAGTAAA-TCA
** * * *
13428338 TTTTAGTTTAATAGTAACTAA
1 TGATAATTTAATAGTAAATCA
** *
13428359 TTGATAAATTTGGTAATAAATCA
1 -TGAT-AATTTAATAGTAAATCA
* *
13428382 TAAATAACTT-ATAGTAAATCA
1 T-GATAATTTAATAGTAAATCA
* *
13428403 GTAATAATTTAATAGTTAATCA
1 -TGATAATTTAATAGTAAATCA
* * *
13428425 CTAGA-AACTTAAAAATAAATCAA
1 -T-GATAATTTAATAGTAAATC-A
* *
13428448 T-ATAATTTAGTAGTAAATTA
1 TGATAATTTAATAGTAAATCA
* * *
13428468 TTGAAAACTTAATAGTTAATCA
1 -TGATAATTTAATAGTAAATCA
13428490 GTGATAATTTAATAGTAAATCA
1 -TGATAATTTAATAGTAAATCA
*
13428512 TGGATAACTTAATA-TAAATCA
1 T-GATAATTTAATAGTAAATCA
* * *
13428533 GTGATAACTTGATAGTGAATCA
1 -TGATAATTTAATAGTAAATCA
* *
13428555 TGAGATAA-TTAGGTAATAAATC-
1 T--GATAATTTA-ATAGTAAATCA
** *
13428577 TAGAATAATTTTGTAGTAAATAA
1 T-G-ATAATTTAATAGTAAATCA
* * * *
13428600 TCAAAAATTAAGTAGTACATCAA
1 TGATAATTTAA-TAGTAAATC-A
* *
13428623 TGAT-ATTATAGTAATAAATGCA
1 TGATAATT-TAATAGTAAAT-CA
* * *
13428645 TAATAAATATAATATTAAATCA
1 TGAT-AATTTAATAGTAAATCA
*
13428667 TCGATAATTTAATAGTAAATTA
1 T-GATAATTTAATAGTAAATCA
* * *
13428689 TTGATAACTTAGTAGTAAACCA
1 -TGATAATTTAATAGTAAATCA
* * *
13428711 TTAATAATATAATAGGAAAT
1 -TGATAATTTAATAGTAAAT
13428731 TACTAATAAC
Statistics
Matches: 330, Mismatches: 99, Indels: 60
0.67 0.20 0.12
Matches are distributed among these distances:
20 2 0.01
21 59 0.18
22 218 0.66
23 49 0.15
24 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (21 bp):
TGATAATTTAATAGTAAATCA
Found at i:13428844 original size:22 final size:22
Alignment explanation
Indices: 13428819--13429036 Score: 90
Period size: 22 Copynumber: 10.0 Consensus size: 22
13428809 ATAATTTTGA
13428819 AGTAAATCAATGATAAATTAAT
1 AGTAAATCAATGATAAATTAAT
* *
13428841 AGTAAATCAATTATAACTT--T
1 AGTAAATCAATGATAAATTAAT
* * * * *
13428861 AATAAA-CTATCAGTAACTTAGT
1 AGTAAATCAATGA-TAAATTAAT
* ** * *
13428883 AGAAAATCAACAACAATTTAAT
1 AGTAAATCAATGATAAATTAAT
* * * *
13428905 AGGAAA-CTATTAAAAACTTAAT
1 AGTAAATCAATGATAAA-TTAAT
* * * *
13428927 GGTAAATTATTCATAAATTAAT
1 AGTAAATCAATGATAAATTAAT
* *
13428949 AGTAAATTAAT-ACTAATTTAAT
1 AGTAAATCAATGA-TAAATTAAT
* * * *
13428971 AATAAATTATTGATAACTTAAT
1 AGTAAATCAATGATAAATTAAT
13428993 AGTAAAT-AATTGATAACA-TAAT
1 AGTAAATCAA-TGATAA-ATTAAT
* *
13429015 AGTAAATCAATAATAACTTAAT
1 AGTAAATCAATGATAAATTAAT
13429037 TGTTAATTAT
Statistics
Matches: 147, Mismatches: 37, Indels: 24
0.71 0.18 0.12
Matches are distributed among these distances:
19 4 0.03
20 12 0.08
21 7 0.05
22 113 0.77
23 11 0.07
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (22 bp):
AGTAAATCAATGATAAATTAAT
Found at i:13428954 original size:11 final size:11
Alignment explanation
Indices: 13428922--13429036 Score: 67
Period size: 11 Copynumber: 10.5 Consensus size: 11
13428912 TATTAAAAAC
*
13428922 TTAATGGTAAA
1 TTAATAGTAAA
*
13428933 TTATTCA-TAAA
1 TTAAT-AGTAAA
13428944 TTAATAGTAAA
1 TTAATAGTAAA
* *
13428955 TTAATACTAAT
1 TTAATAGTAAA
*
13428966 TTAATAATAAA
1 TTAATAGTAAA
* *
13428977 TT-ATTGATAAC
1 TTAATAG-TAAA
13428988 TTAATAGTAAA
1 TTAATAGTAAA
*
13428999 -TAATTGATAACA
1 TTAATAG-TAA-A
13429011 -TAATAGTAAA
1 TTAATAGTAAA
* * *
13429021 TCAATAATAAC
1 TTAATAGTAAA
13429032 TTAAT
1 TTAAT
13429037 TGTTAATTAT
Statistics
Matches: 79, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
10 9 0.11
11 61 0.77
12 9 0.11
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.38
Consensus pattern (11 bp):
TTAATAGTAAA
Found at i:13428989 original size:66 final size:66
Alignment explanation
Indices: 13428919--13429052 Score: 171
Period size: 66 Copynumber: 2.0 Consensus size: 66
13428909 AACTATTAAA
* * * * *
13428919 AACTTAATGGTAAATTATTCATAA-ATTAATAGTAAATTAATACTAATTTAATAATAAATTATTG
1 AACTTAATAGTAAATAATTCATAACA-TAATAGTAAATCAATAATAACTTAATAATAAATTATTG
13428983 AT
65 AT
* ** *
13428985 AACTTAATAGTAAATAATTGATAACATAATAGTAAATCAATAATAACTTAATTGTTAATTATTGA
1 AACTTAATAGTAAATAATTCATAACATAATAGTAAATCAATAATAACTTAATAATAAATTATTGA
13429050 T
66 T
13429051 AA
1 AA
13429053 TTTTATTATA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
66 57 0.98
67 1 0.02
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (66 bp):
AACTTAATAGTAAATAATTCATAACATAATAGTAAATCAATAATAACTTAATAATAAATTATTGA
T
Found at i:13429052 original size:22 final size:22
Alignment explanation
Indices: 13428900--13429052 Score: 137
Period size: 22 Copynumber: 7.0 Consensus size: 22
13428890 CAACAACAAT
* * * *
13428900 TTAATAGGAAACTATTAAAAAC
1 TTAATAGTAAATTATTGATAAC
* * *
13428922 TTAATGGTAAATTATTCATAAA
1 TTAATAGTAAATTATTGATAAC
* *
13428944 TTAATAGTAAATTAAT-ACTAAT
1 TTAATAGTAAATTATTGA-TAAC
*
13428966 TTAATAATAAATTATTGATAAC
1 TTAATAGTAAATTATTGATAAC
*
13428988 TTAATAGTAAATAATTGATAAC
1 TTAATAGTAAATTATTGATAAC
* * * *
13429010 ATAATAGTAAATCAATAATAAC
1 TTAATAGTAAATTATTGATAAC
* *
13429032 TTAATTGTTAATTATTGATAA
1 TTAATAGTAAATTATTGATAA
13429053 TTTTATTATA
Statistics
Matches: 105, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
21 1 0.01
22 103 0.98
23 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (22 bp):
TTAATAGTAAATTATTGATAAC
Found at i:13429754 original size:21 final size:21
Alignment explanation
Indices: 13429574--13429755 Score: 81
Period size: 21 Copynumber: 8.5 Consensus size: 21
13429564 GGTATATTAT
*
13429574 AAGTTATCAAAATTATATATATGA
1 AAGTTATCAAAATTATAT-CA--A
* * *
13429598 AAGGTTATCAAAGTTACATTAA
1 AA-GTTATCAAAATTATATCAA
*
13429620 GATGTTATCAAAATT-TCATCAA
1 -AAGTTATCAAAATTAT-ATCAA
*
13429642 ATA-TTATCAAAATTATAT-TA
1 A-AGTTATCAAAATTATATCAA
*
13429662 ATGATTAGT-AAAATTATAT-AA
1 AAG-TTA-TCAAAATTATATCAA
* * **
13429683 TAAGTTA-CCAAACTA-ATCGT
1 -AAGTTATCAAAATTATATCAA
* * *
13429703 AGGTTACCAAAATTATATCGA
1 AAGTTATCAAAATTATATCAA
*
13429724 AAGTTATCAAAATTTTATCAA
1 AAGTTATCAAAATTATATCAA
*
13429745 AAGTTTTCAAA
1 AAGTTATCAAA
13429756 CTTCTAACAA
Statistics
Matches: 121, Mismatches: 24, Indels: 29
0.70 0.14 0.17
Matches are distributed among these distances:
19 7 0.06
20 13 0.11
21 62 0.51
22 20 0.17
23 1 0.01
24 4 0.03
25 14 0.12
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (21 bp):
AAGTTATCAAAATTATATCAA
Found at i:13429766 original size:21 final size:21
Alignment explanation
Indices: 13429705--13429771 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
13429695 CTAATCGTAG
* * * *
13429705 GTTACCAAAATTATATCGAAA
1 GTTATCAAAATTCTAACAAAA
* *
13429726 GTTATCAAAATTTTATCAAAA
1 GTTATCAAAATTCTAACAAAA
* * *
13429747 GTTTTCAAACTTCTAACAAAG
1 GTTATCAAAATTCTAACAAAA
13429768 GTTA
1 GTTA
13429772 CCCAAACATA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (21 bp):
GTTATCAAAATTCTAACAAAA
Found at i:13433671 original size:35 final size:36
Alignment explanation
Indices: 13433631--13433705 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 36
13433621 TTGATTAAAA
*
13433631 ATATATTTATTAACTTTAACAATTGATTTATTT-ATAT
1 ATATATATATTAACTTTAA-AATT-ATTTATTTGATAT
* * *
13433668 ATATATATATTTAGTTTTAAATTATTTATTTGATAT
1 ATATATATATTAACTTTAAAATTATTTATTTGATAT
13433704 AT
1 AT
13433706 TTCATTTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 8 0.24
36 10 0.30
37 15 0.45
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (36 bp):
ATATATATATTAACTTTAAAATTATTTATTTGATAT
Found at i:13437269 original size:14 final size:15
Alignment explanation
Indices: 13437205--13437272 Score: 61
Period size: 15 Copynumber: 4.6 Consensus size: 15
13437195 ATTAAAAAAA
13437205 TATTTTTTA-AAGTAT
1 TATTTTTTATAA-TAT
* *
13437220 TATTATTTATCATAT
1 TATTTTTTATAATAT
**
13437235 TATTCAATT-TAATAT
1 TATT-TTTTATAATAT
13437250 TATTTTTTATAATA-
1 TATTTTTTATAATAT
13437264 TATTTTTTA
1 TATTTTTTA
13437273 AGAAAATCTC
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
14 11 0.25
15 29 0.66
16 4 0.09
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (15 bp):
TATTTTTTATAATAT
Found at i:13437272 original size:27 final size:28
Alignment explanation
Indices: 13437204--13437274 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 28
13437194 AATTAAAAAA
*
13437204 ATATTTTTTAAAGTATTATTATTTATCAT
1 ATATTTTTT-AAGTATTATTATTTATAAT
* *
13437233 ATTATTCAATTTAA-TATTATTTTTTATAAT
1 A-TATT--TTTTAAGTATTATTATTTATAAT
13437263 ATATTTTTTAAG
1 ATATTTTTTAAG
13437275 AAAATCTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
27 5 0.15
29 5 0.15
30 19 0.56
31 2 0.06
32 3 0.09
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (28 bp):
ATATTTTTTAAGTATTATTATTTATAAT
Found at i:13437439 original size:15 final size:15
Alignment explanation
Indices: 13437421--13437451 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13437411 TTTTTATTCA
*
13437421 TTTTTATTTTATATT
1 TTTTTATTTCATATT
13437436 TTTTTATTTCATATT
1 TTTTTATTTCATATT
13437451 T
1 T
13437452 ATCATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATTTCATATT
Found at i:13440283 original size:12 final size:12
Alignment explanation
Indices: 13440266--13440290 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13440256 CCTTCCTTTC
13440266 TATTTTGATTTT
1 TATTTTGATTTT
13440278 TATTTTGATTTT
1 TATTTTGATTTT
13440290 T
1 T
13440291 CTTTAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TATTTTGATTTT
Found at i:13443737 original size:13 final size:12
Alignment explanation
Indices: 13443712--13443744 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
13443702 GTAATTTTTG
13443712 AAAA-AAAAAAA
1 AAAAGAAAAAAA
13443723 AAAAGAAAAAGAA
1 AAAAGAAAAA-AA
13443736 AAAAGAAAA
1 AAAAGAAAA
13443745 GACACCACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.20
12 5 0.25
13 11 0.55
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:13443739 original size:18 final size:17
Alignment explanation
Indices: 13443712--13443746 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13443702 GTAATTTTTG
13443712 AAAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAAGA
*
13443729 AAAAGAAAAAAGAAAAGA
1 AAAA-AAAAAAAAAAAGA
13443747 CACCACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAGA
Found at i:13444174 original size:39 final size:39
Alignment explanation
Indices: 13444131--13444207 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
13444121 AACAATGAAT
* **
13444131 AAAAAAATGAAAAAAAAAAGAAAGATGATGAAAAAAGAA
1 AAAAAAAAGAAAAAAAAAAGAAAGAAAATGAAAAAAGAA
* *
13444170 AAAAAAAAGAAAGAAAGAAGAAAGAAAATGAAAAAAGA
1 AAAAAAAAGAAAAAAAAAAGAAAGAAAATGAAAAAAGA
13444208 TTGAGATTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (39 bp):
AAAAAAAAGAAAAAAAAAAGAAAGAAAATGAAAAAAGAA
Found at i:13444203 original size:32 final size:29
Alignment explanation
Indices: 13444132--13444205 Score: 96
Period size: 28 Copynumber: 2.5 Consensus size: 29
13444122 ACAATGAATA
* *
13444132 AAAAAATGAAAAAAAAAAGAAAGATGATG
1 AAAAAATGAAAAAAAAAAGAAAGAAGAAG
13444161 AAAAAA-GAAAAAAAAAAGAAAGAAAGAAG
1 AAAAAATGAAAAAAAAAAGAAAG-AAGAAG
13444190 AAAGAAAATGAAAAAA
1 -AA-AAAATGAAAAAA
13444206 GATTGAGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 16 0.41
29 10 0.26
30 2 0.05
31 4 0.10
32 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (29 bp):
AAAAAATGAAAAAAAAAAGAAAGAAGAAG
Found at i:13445473 original size:42 final size:41
Alignment explanation
Indices: 13445392--13445980 Score: 805
Period size: 42 Copynumber: 14.1 Consensus size: 41
13445382 GATTGTCAAA
13445392 GAGCAATTTACTTT-CAAAGTTCGT--TGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAG
* * *
13445431 GAGCAATTTACATTTCAAAAGTCGTGGTACCTCTGTTGAGAG
1 GAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
13445473 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
13445514 GAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAG
* * *
13445556 GAGCAATTTACATACATTTCAAAAGTCGTGGTACCTCTGTTGAGAG
1 GAGCAA-TT---TAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
13445602 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
13445643 GAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAG
*
13445685 GAGCAATTTAATTTCCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTT-CCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
13445727 AAGCAATTTACTTTTCAAAGTTCGT--CGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAG
*
13445767 GAGCAATTTACTTTCCAAAAGTTGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAG
* *
13445809 GAGCAATTTAATTTCTCAAAGTCGTTGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTC-CAAAGTCGTGGTGCCTCTGTTTAGAG
*
13445851 GAGCAATTTAATTTCCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTT-CCAAAGTCGTGGTGCCTCTGTTTAGAG
13445893 GAGCAATTTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAG
1 GAGCAA-TTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAG
* * * *
13445934 GAGCAATTTATTTTGTTCAAAGTCGTTGAGCCTCTGTTTAGAG
1 GAGCAATTTA-CTT-TCCAAAGTCGTGGTGCCTCTGTTTAGAG
13445977 GAGC
1 GAGC
13445981 TTGGGTAAAA
Statistics
Matches: 497, Mismatches: 29, Indels: 44
0.87 0.05 0.08
Matches are distributed among these distances:
39 11 0.02
40 42 0.08
41 126 0.25
42 245 0.49
43 35 0.07
45 2 0.00
46 32 0.06
47 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (41 bp):
GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:13445993 original size:1 final size:1
Alignment explanation
Indices: 13445987--13446049 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
13445977 GAGCTTGGGT
* * * * * * * *
13445987 AAAAAAAAACAAAAACATAAACAAAAAAAAAAACACAAAAAAAAAACAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13446050 GTTGCCTATA
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:13446012 original size:18 final size:19
Alignment explanation
Indices: 13445986--13446038 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 19
13445976 GGAGCTTGGG
13445986 TAAAAAAAAACAAAAACA-
1 TAAAAAAAAACAAAAACAC
13446004 TAAACAAAAAA-AAAAACAC
1 TAAA-AAAAAACAAAAACAC
*
13446023 AAAAAAAAAACAAAAA
1 TAAAAAAAAACAAAAA
13446039 AAACAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.04
Consensus pattern (19 bp):
TAAAAAAAAACAAAAACAC
Found at i:13446014 original size:20 final size:19
Alignment explanation
Indices: 13445989--13446049 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
13445979 GCTTGGGTAA
13445989 AAAAAAACAAAAACATAAAC
1 AAAAAAACAAAAACA-AAAC
13446009 -AAAAAA-AAAAACACAAA-
1 AAAAAAACAAAAACA-AAAC
13446026 AAAAAAAC-AAAA-AAAAC
1 AAAAAAACAAAAACAAAAC
13446043 AAAAAAA
1 AAAAAAA
13446050 GTTGCCTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
16 3 0.08
17 8 0.22
18 20 0.54
19 6 0.16
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (19 bp):
AAAAAAACAAAAACAAAAC
Found at i:13446026 original size:25 final size:24
Alignment explanation
Indices: 13445987--13446049 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
13445977 GAGCTTGGGT
* *
13445987 AAAAAAAAACAAAAACATAAACAA
1 AAAAAAAAACAAAAAAAAAAACAA
13446011 AAAAAAAAACACAAAAAAAAAACAA
1 AAAAAAAAACA-AAAAAAAAAACAA
*
13446036 AAAAAACAA-AAAAA
1 AAAAAAAAACAAAAA
13446050 GTTGCCTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.11
24 12 0.34
25 19 0.54
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (24 bp):
AAAAAAAAACAAAAAAAAAAACAA
Found at i:13446049 original size:12 final size:12
Alignment explanation
Indices: 13445987--13446041 Score: 83
Period size: 12 Copynumber: 4.5 Consensus size: 12
13445977 GAGCTTGGGT
13445987 AAAAAAAAACAA
1 AAAAAAAAACAA
* *
13445999 AAACATAAACAA
1 AAAAAAAAACAA
13446011 AAAAAAAAACACA
1 AAAAAAAAACA-A
13446024 AAAAAAAAACAA
1 AAAAAAAAACAA
13446036 AAAAAA
1 AAAAAA
13446042 CAAAAAAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
12 26 0.68
13 12 0.32
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:13446155 original size:15 final size:15
Alignment explanation
Indices: 13446137--13446175 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
13446127 TTTTTTTATT
13446137 AAAGAAAAAAATGAA
1 AAAGAAAAAAATGAA
13446152 AAAGAAAAAAATGAA
1 AAAGAAAAAAATGAA
13446167 AAA-AAAAAA
1 AAAGAAAAAA
13446176 TCTAGTTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (15 bp):
AAAGAAAAAAATGAA
Found at i:13446346 original size:15 final size:15
Alignment explanation
Indices: 13446328--13446358 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13446318 TTTTTATTCA
*
13446328 TTTTTATTTTATATT
1 TTTTTATTTCATATT
13446343 TTTTTATTTCATATT
1 TTTTTATTTCATATT
13446358 T
1 T
13446359 ATCATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATTTCATATT
Found at i:13449228 original size:12 final size:12
Alignment explanation
Indices: 13449211--13449235 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13449201 CCTTCCTTTC
13449211 TATTTTGATTTT
1 TATTTTGATTTT
13449223 TATTTTGATTTT
1 TATTTTGATTTT
13449235 T
1 T
13449236 CTTTAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TATTTTGATTTT
Found at i:13450191 original size:11 final size:11
Alignment explanation
Indices: 13450175--13450212 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13450165 GTTATAATTA
13450175 AAATTTATATG
1 AAATTTATATG
*
13450186 AAATTTATA-A
1 AAATTTATATG
13450196 AAATTTTATATG
1 AAA-TTTATATG
13450208 AAATT
1 AAATT
13450213 CACATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 3 0.13
11 17 0.74
12 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (11 bp):
AAATTTATATG
Found at i:13453858 original size:24 final size:24
Alignment explanation
Indices: 13453786--13453858 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
13453776 TACTTATTTC
* *
13453786 AATTAAATTTGTTATTAAAATGTTAA
1 AATTAAATTT-TAATTAAAAT-ATAA
* *
13453812 AA--ATATTTTATATTAATATTATAA
1 AATTAAATTTTA-ATTAA-AATATAA
13453836 AATTAAATTTTAATTAAAATATA
1 AATTAAATTTTAATTAAAATATA
13453859 TTATTTATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
23 1 0.03
24 20 0.54
25 7 0.19
26 9 0.24
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (24 bp):
AATTAAATTTTAATTAAAATATAA
Found at i:13457264 original size:513 final size:514
Alignment explanation
Indices: 13455506--13457566 Score: 3714
Period size: 513 Copynumber: 4.0 Consensus size: 514
13455496 ATATTCATGA
13455506 TAAACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATAT
1 TAAACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATAT
13455571 CATTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAA
66 CATTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAA
*
13455636 TTTGAAGAACTTGGATTTAAGCAGCAATAGAATTGAAAGCTTTCAACCATCCAAGCAAGGTATAA
131 TTTGAAGAACTTGGATTTAAGCAGCAATAGAATTGAAAGCTTTCAACCATCAAAGCAAGGTATAA
* * * *
13455701 ATATATATTTCAATTCACTTAATTAAGTTCTTATTTACGTGACCAATGCAT-AAATTTTCCCATT
196 ATATATATTTCAATTCACTCAACTAAGTTCTTAATTACGTAACCAATGCATAAAATTTT-CCATT
*
13455765 AACAATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATGCAACTAAGGATGACCAATTT
260 AACAATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATACAACTAAGGATGACCAATTT
* * *
13455830 GGAGGTTCTTGATTTAAGTAGTAATCTCTTCAAGAACGACACTTTTGCATTCCTTTCTGGCCTTT
325 GGAGGTTCTTGATTTAACTAATAATCTCTTCAAGAACGACACTTTTGCATTCCTTTCTGGCCTTC
13455895 CAAGTCTAAAGTCCCTGAATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAA
390 CAAGTCTAAAGTCCCTGAATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAA
*
13455960 GCTATTACAGCTTTTTTTTTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATCAAATAGT
455 GCTATTACAGC---TTTTTTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATCAAATAGG
*
13456023 TAAACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAGAAAGGTGTTGCATAT
1 TAAACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATAT
13456088 CATTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAA
66 CATTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAA
*
13456153 TTTGAAGAACTTGGATTTAAGCAGCAATAGAATTGAAAGATTTCAACCATCAAAGCAAGGTATAA
131 TTTGAAGAACTTGGATTTAAGCAGCAATAGAATTGAAAGCTTTCAACCATCAAAGCAAGGTATAA
* * * * * *
13456218 ATATATATTTCAATTCACTTAATTAAGTTCTTATTTACGTGACCAATGCGTAAAATTTCCCATTA
196 ATATATATTTCAATTCACTCAACTAAGTTCTTAATTACGTAACCAATGCATAAAATTTTCCATTA
*
13456283 ACAATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATGCAACTAAGGATGACCAATTTG
261 ACAATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATACAACTAAGGATGACCAATTTG
* *
13456348 GAGGTTCTTGATTTAAGTAGTAATCTCTTCAAGAACGACACTTTTGCATTCCTTTCTGGCCTTCC
326 GAGGTTCTTGATTTAACTAATAATCTCTTCAAGAACGACACTTTTGCATTCCTTTCTGGCCTTCC
13456413 AAGTCTAAAGTCCCTGAATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAAG
391 AAGTCTAAAGTCCCTGAATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAAG
*
13456478 CTATTACAGCTTTTTTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATCAAATAGT
456 CTATTACAGCTTTTTTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATCAAATAGG
13456537 TAAACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATAT
1 TAAACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATAT
*
13456602 CATTTGCTTTAATATGAACTATTAATTATTCATTGGCACTGAATAGGATTGAATAATTTGACAAA
66 CATTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAA
*
13456667 TTTGAAGAACTTGGATTTAAGGAGCAATAGAATTGAAAGCTTTCAACCATCAAAGCAAGGTATAA
131 TTTGAAGAACTTGGATTTAAGCAGCAATAGAATTGAAAGCTTTCAACCATCAAAGCAAGGTATAA
* * * *
13456732 ATATATATTTCAATTCACTCAACTAAGTTTTTAATTATGTAATCAATGTATAAAATTTTCCATTA
196 ATATATATTTCAATTCACTCAACTAAGTTCTTAATTACGTAACCAATGCATAAAATTTTCCATTA
*
13456797 ACAATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATACAACTAAGGATGATCAATTTG
261 ACAATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATACAACTAAGGATGACCAATTTG
*
13456862 GAGGTTCTTGATTTAACTAATAATCTCTTCAAGAACGGCACTTTTGCATTCCTTTCTGGCCTTCC
326 GAGGTTCTTGATTTAACTAATAATCTCTTCAAGAACGACACTTTTGCATTCCTTTCTGGCCTTCC
13456927 AAGTCTAAAGTCCCTGAATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAAG
391 AAGTCTAAAGTCCCTGAATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAAG
13456992 CTATTACAGC-TTTTTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATCAAATAGG
456 CTATTACAGCTTTTTTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATCAAATAGG
13457050 TAAACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATAT
1 TAAACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATAT
13457115 CATTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAA
66 CATTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAA
13457180 TTTGAAGAACTTGGATTTAAGCAGCAATAGAATTGAAAGCTTTCAACCATCAAAGCAAGGTATAA
131 TTTGAAGAACTTGGATTTAAGCAGCAATAGAATTGAAAGCTTTCAACCATCAAAGCAAGGTATAA
* * * *
13457245 ATATATATTTCAATTCACTCAACTAAGTTTTTAATTATGTAATCAATGTATAAAATTTTCCATTA
196 ATATATATTTCAATTCACTCAACTAAGTTCTTAATTACGTAACCAATGCATAAAATTTTCCATTA
*
13457310 ACAATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATACAACTAAGGATGATCAATTTG
261 ACAATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATACAACTAAGGATGACCAATTTG
* *
13457375 GAGGTTCTTGATTTAACTAATAATCTCTTCAAGAATGGCACTTTTGCATTCCTTTCTGGCCTTCC
326 GAGGTTCTTGATTTAACTAATAATCTCTTCAAGAACGACACTTTTGCATTCCTTTCTGGCCTTCC
* *
13457440 GAGTCTAAAGTCCCTGTATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAAG
391 AAGTCTAAAGTCCCTGAATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAAG
13457505 CTATTACAG-TTTTTTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATCAAATAGG
456 CTATTACAGCTTTTTTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATCAAATAGG
13457563 TAAA
1 TAAA
13457567 ATCTCATATC
Statistics
Matches: 1511, Mismatches: 31, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
513 558 0.37
514 495 0.33
517 452 0.30
518 6 0.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (514 bp):
TAAACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATAT
CATTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAA
TTTGAAGAACTTGGATTTAAGCAGCAATAGAATTGAAAGCTTTCAACCATCAAAGCAAGGTATAA
ATATATATTTCAATTCACTCAACTAAGTTCTTAATTACGTAACCAATGCATAAAATTTTCCATTA
ACAATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATACAACTAAGGATGACCAATTTG
GAGGTTCTTGATTTAACTAATAATCTCTTCAAGAACGACACTTTTGCATTCCTTTCTGGCCTTCC
AAGTCTAAAGTCCCTGAATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAAG
CTATTACAGCTTTTTTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATCAAATAGG
Found at i:13463547 original size:21 final size:21
Alignment explanation
Indices: 13463522--13463561 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13463512 TAAAAGTAAA
13463522 TATAAAATAAATTAATAAATT
1 TATAAAATAAATTAATAAATT
** *
13463543 TATAATTTAAATTATTAAA
1 TATAAAATAAATTAATAAA
13463562 AAATTTTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TATAAAATAAATTAATAAATT
Found at i:13463573 original size:24 final size:24
Alignment explanation
Indices: 13463532--13463578 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13463522 TATAAAATAA
* *
13463532 ATTAATAAATTTATAATTTAAATT
1 ATTAAAAAATTTATAATTCAAATT
13463556 ATTAAAAAATTT-TAAATTCAAAT
1 ATTAAAAAATTTAT-AATTCAAAT
13463579 ACTTAGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTAAAAAATTTATAATTCAAATT
Found at i:13463866 original size:55 final size:55
Alignment explanation
Indices: 13463756--13463866 Score: 120
Period size: 55 Copynumber: 2.0 Consensus size: 55
13463746 TATTATCTAT
* ** * *
13463756 TCATACTATAATTAAGAAAATACTCATTCTTTTATAATTATTTATTATAATACCC
1 TCATACTATAATTAAGAAAATACTCATTCTTTTATAATTAATTAGAAAAAAACCC
*
13463811 TCATACTATAATTACA-AAAATACTCA-T-TTTTATTATTAAATTAGAAAAAGAACCC
1 TCATACTATAATTA-AGAAAATACTCATTCTTTTATAATT-AATTAGAAAAA-AACCC
13463866 T
1 T
13463867 TCTTTTATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
53 9 0.19
54 8 0.17
55 29 0.62
56 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (55 bp):
TCATACTATAATTAAGAAAATACTCATTCTTTTATAATTAATTAGAAAAAAACCC
Found at i:13464642 original size:131 final size:128
Alignment explanation
Indices: 13464360--13464677 Score: 338
Period size: 129 Copynumber: 2.5 Consensus size: 128
13464350 GATATGTTGC
* * * * *
13464360 ATTTTATTTTAAAATTATTATAATATCTCTATTAAATTATATATTAATTTTTAACATAATATAAA
1 ATTTTATTTAAAAATTACTATAATAAC-CTATTAAATTACATATTAAATTTTAACATAATATAAA
* * * ** *
13464425 ATTAATCATATATTAAATTATTAAAATATCATTACAATTGGTTTATAAAAATTTGACATGTGAT
65 ATTAATCACATACTAAATTATTAAAATACCATTACAATTGGTAAATAAAAATTTGACATGTGAA
* *
13464489 ATTTTATTTAAAAATTACTATAATAACACTATTAAATTACATATGAAATTTTAACATCATATAAA
1 ATTTTATTTAAAAATTACTATAATAAC-CTATTAAATTACATATTAAATTTTAACATAATATAAA
* * **
13464554 ATTTAA-CTACATACTAAATTATTAAAATACCCTTGCCGTT-GTAAACCTAAAAATTTGACATGT
65 A-TTAATC-ACATACTAAATTATTAAAATACCATTACAATTGGTAAA--TAAAAATTTGACATGT
13464617 GAA
126 GAA
* * * * *
13464620 ATTTTGTTT-GAAATTCACTATAATAGCCATATTAAATTACTTATTAAATGTTAA-ATAA
1 ATTTTATTTAAAAATT-ACTATAATAACC-TATTAAATTACATATTAAATTTTAACATAA
13464678 CATATATTAA
Statistics
Matches: 158, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
129 62 0.39
130 38 0.24
131 58 0.37
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (128 bp):
ATTTTATTTAAAAATTACTATAATAACCTATTAAATTACATATTAAATTTTAACATAATATAAAA
TTAATCACATACTAAATTATTAAAATACCATTACAATTGGTAAATAAAAATTTGACATGTGAA
Found at i:13466909 original size:14 final size:15
Alignment explanation
Indices: 13466884--13466925 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
13466874 ACTCAAATAT
13466884 AATATATATAATTAA
1 AATATATATAATTAA
13466899 AATAT-TATAATTATA
1 AATATATATAATTA-A
13466914 TAAGTATATATA
1 -AA-TATATATA
13466926 TATAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 8 0.35
15 6 0.26
16 2 0.09
17 3 0.13
18 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
AATATATATAATTAA
Found at i:13467551 original size:8 final size:8
Alignment explanation
Indices: 13467534--13467566 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
13467524 AAATATTTTT
13467534 TAAA-ATA
1 TAAATATA
13467541 TAAATATA
1 TAAATATA
*
13467549 TAAACATA
1 TAAATATA
13467557 TAAATATA
1 TAAATATA
13467565 TA
1 TA
13467567 TAAATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
TAAATATA
Found at i:13467587 original size:14 final size:15
Alignment explanation
Indices: 13467534--13467576 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
13467524 AAATATTTTT
13467534 TAAAATATAAATATA
1 TAAAATATAAATATA
13467549 TAAACATATAAATATA
1 TAAA-ATATAAATATA
*
13467565 TATAA-ATAAATA
1 TAAAATATAAATA
13467577 ATTAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 14 0.54
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAATATAAATATA
Found at i:13469107 original size:22 final size:22
Alignment explanation
Indices: 13469082--13469148 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
13469072 AATTTTACTT
13469082 ATAAATAATATTATATTAATAA
1 ATAAATAATATTATATTAATAA
* *
13469104 ATAAATATTTTTATATTAATAA
1 ATAAATAATATTATATTAATAA
** *
13469126 ATAATATTCTAATATATTAATAA
1 ATAA-ATAATATTATATTAATAA
13469149 TATTCCAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
22 24 0.63
23 14 0.37
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATAATATTATATTAATAA
Found at i:13469149 original size:19 final size:19
Alignment explanation
Indices: 13469125--13469183 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
13469115 TATATTAATA
13469125 AATAATATTCTAATATATT
1 AATAATATTCTAATATATT
* *
13469144 AATAATATTCCAA-A-A-A
1 AATAATATTCTAATATATT
*
13469160 AATAATATTATAATATATT
1 AATAATATTCTAATATATT
13469179 AATAA
1 AATAA
13469184 ATAATATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 11 0.34
17 2 0.06
18 2 0.06
19 17 0.53
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
AATAATATTCTAATATATT
Found at i:13469247 original size:19 final size:18
Alignment explanation
Indices: 13469219--13469306 Score: 60
Period size: 19 Copynumber: 5.0 Consensus size: 18
13469209 TATTTTAAGC
*
13469219 ATTTTTATATTAACATAAT
1 ATTTTAATATTAA-ATAAT
*
13469238 ATTTTAATATTAAATATT
1 ATTTTAATATTAAATAAT
* *
13469256 ATTATTAA-AATATAATTAT
1 ATT-TTAATATTA-AATAAT
*
13469275 -TTTTTATATT-AAT-A-
1 ATTTTAATATTAAATAAT
*
13469289 ATTTTAATAGTAAATAAT
1 ATTTTAATATTAAATAAT
13469307 TTCAATATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
15 9 0.17
16 6 0.11
17 4 0.08
18 14 0.26
19 20 0.38
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (18 bp):
ATTTTAATATTAAATAAT
Found at i:13469288 original size:21 final size:20
Alignment explanation
Indices: 13469219--13469288 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 20
13469209 TATTTTAAGC
*
13469219 ATTTTTATATTAACATAA-T
1 ATTTTTATATTAATATAATT
*
13469238 ATTTTAATATTAA-AT-ATT
1 ATTTTTATATTAATATAATT
*
13469256 ATTATTA-A--AATATAATT
1 ATTTTTATATTAATATAATT
13469273 ATTTTTTATATTAATA
1 A-TTTTTATATTAATA
13469289 ATTTTAATAG
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
15 2 0.05
16 2 0.05
17 6 0.15
18 13 0.32
19 13 0.32
21 4 0.10
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTTATATTAATATAATT
Found at i:13469321 original size:26 final size:26
Alignment explanation
Indices: 13469285--13469350 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
13469275 TTTTTATATT
13469285 AATA-ATTTTAATAGTAAATAATTTC
1 AATATATTTTAATAGTAAATAATTTC
* *
13469310 AATATATTTTAATAATAAATAATTTT
1 AATATATTTTAATAGTAAATAATTTC
*
13469336 TA-ATATTTTAATAGT
1 AATATATTTTAATAGT
13469351 TATATTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
25 16 0.44
26 20 0.56
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (26 bp):
AATATATTTTAATAGTAAATAATTTC
Found at i:13474172 original size:18 final size:19
Alignment explanation
Indices: 13474149--13474216 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
13474139 TAATTTGTTT
13474149 ATAAATAATAT-TATATTA
1 ATAAATAATATATATATTA
13474167 ATAAATAAATATTAATATATTA
1 ATAAAT-AATA-T-ATATATTA
* * *
13474189 ATAAATAATATAAAGAATA
1 ATAAATAATATATATATTA
13474208 ATAAATAAT
1 ATAAATAAT
13474217 TTTATTTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
18 6 0.14
19 18 0.42
20 2 0.05
21 4 0.09
22 13 0.30
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (19 bp):
ATAAATAATATATATATTA
Found at i:13474174 original size:22 final size:22
Alignment explanation
Indices: 13474149--13474201 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
13474139 TAATTTGTTT
*
13474149 ATAAATAATATTATATTAATAA
1 ATAAATAATAATATATTAATAA
*
13474171 ATAAATATTAATATATTAATAA
1 ATAAATAATAATATATTAATAA
13474193 ATAATATAA
1 ATAA-ATAA
13474202 AGAATAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAATAATAATATATTAATAA
Done.