Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 10 of 126
Found at i:2342610 original size:24 final size:23
Alignment explanation
Indices: 2342583--2342639 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 23
2342573 TAATTTTAAA
2342583 TTATATTATATTTATATTTTATTT
1 TTATATTATATTTATATTTTA-TT
*
2342607 TTATATCATATTTATATTTTATT
1 TTATATTATATTTATATTTTATT
*
2342630 TTAAATTATA
1 TTATATTATA
2342640 AATCTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 10 0.33
24 20 0.67
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATATTATATTTATATTTTATT
Found at i:2342900 original size:22 final size:22
Alignment explanation
Indices: 2342862--2342911 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
2342852 GTATTTATAT
2342862 TATATTAAAAATATATATAAAA
1 TATATTAAAAATATATATAAAA
* *
2342884 TATA-TAAAATTATTATATTAAA
1 TATATTAAAAATA-TATATAAAA
*
2342906 TTTATT
1 TATATT
2342912 GTAATACATC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 7 0.30
22 15 0.65
23 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TATATTAAAAATATATATAAAA
Found at i:2348345 original size:24 final size:24
Alignment explanation
Indices: 2348316--2348364 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
2348306 TAAATATGTT
2348316 AAAAATCGTATAATTTGAGGATAA
1 AAAAATCGTATAATTTGAGGATAA
*
2348340 AAAAATCGTATAATTTGAGGCTAA
1 AAAAATCGTATAATTTGAGGATAA
2348364 A
1 A
2348365 TTACATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.29
Consensus pattern (24 bp):
AAAAATCGTATAATTTGAGGATAA
Found at i:2351528 original size:29 final size:29
Alignment explanation
Indices: 2351481--2351583 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
2351471 TAAACATGAC
* * *
2351481 ACAAATAAATACGAATAATATGGATATAT
1 ACAAATAGACACGACTAATATGGATATAT
* * *
2351510 ACAAATAGACACGCCTAATATAGATATAC
1 ACAAATAGACACGACTAATATGGATATAT
* * * * *
2351539 ACGAATAGACATGACTAAAACGAATATAT
1 ACAAATAGACACGACTAATATGGATATAT
2351568 ACAAA-A-ACACGACTAA
1 ACAAATAGACACGACTAA
2351584 AATAATAAAT
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
27 9 0.16
28 1 0.02
29 48 0.83
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.20
Consensus pattern (29 bp):
ACAAATAGACACGACTAATATGGATATAT
Found at i:2352999 original size:3 final size:3
Alignment explanation
Indices: 2352991--2353028 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2352981 GAAAATTCAA
2352991 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
2353029 GAAGAAGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:2353428 original size:26 final size:29
Alignment explanation
Indices: 2353397--2353455 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 29
2353387 ATTGATTATT
2353397 TTTATTGAAATT-AATT-AATTTTAAA-A
1 TTTATTGAAATTGAATTAAATTTTAAATA
**
2353423 TTTATTTTAATTGAATTGAAATTTTAAATA
1 TTTATTGAAATTGAATT-AAATTTTAAATA
2353453 TTT
1 TTT
2353456 TGTATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.37
27 4 0.15
29 9 0.33
30 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (29 bp):
TTTATTGAAATTGAATTAAATTTTAAATA
Found at i:2354015 original size:3 final size:3
Alignment explanation
Indices: 2354007--2354046 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
2353997 GCAAGATTTG
2354007 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
2354047 GCAACGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2362132 original size:14 final size:15
Alignment explanation
Indices: 2362113--2362154 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
2362103 TATAATTTTG
2362113 AATTATAAATAAT-T
1 AATTATAAATAATAT
*
2362127 AATTAT-AATATTAT
1 AATTATAAATAATAT
*
2362141 AATTAAAAATAATA
1 AATTATAAATAATA
2362155 AATAAAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 5 0.22
14 12 0.52
15 6 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTATAAATAATAT
Found at i:2362318 original size:2 final size:2
Alignment explanation
Indices: 2362311--2362342 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2362301 AAACAGATGA
2362311 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
2362343 TCTAATCCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2363225 original size:2 final size:2
Alignment explanation
Indices: 2363218--2363242 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2363208 TCAACATTGC
2363218 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
2363243 GTTCCATCAA
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:2363522 original size:18 final size:17
Alignment explanation
Indices: 2363494--2363527 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2363484 AGTCATTTTA
2363494 GGACATTAAAAAAAGAT
1 GGACATTAAAAAAAGAT
*
2363511 GGACACTTAAAATAAGA
1 GGACA-TTAAAAAAAGA
2363528 CAAAGGTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.56, C:0.09, G:0.18, T:0.18
Consensus pattern (17 bp):
GGACATTAAAAAAAGAT
Found at i:2363925 original size:18 final size:19
Alignment explanation
Indices: 2363902--2363943 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
2363892 TCGAATCGAA
2363902 TTATATATATTTT-AATTT
1 TTATATATATTTTAAATTT
2363920 TTATATATATTTTAAATTT
1 TTATATATATTTTAAATTT
2363939 TTATA
1 TTATA
2363944 AAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATATATTTTAAATTT
Found at i:2369545 original size:32 final size:32
Alignment explanation
Indices: 2369486--2369547 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
2369476 GTCGTATAAA
* **
2369486 ATATTAAAATTTATATATTTTTATTATATTTT
1 ATATTAAAATTTATATAATAATATTATATTTT
2369518 ATATTAAAATTATATATAATAAT-TTATATT
1 ATATTAAAATT-TATATAATAATATTATATT
2369548 ATACAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
ATATTAAAATTTATATAATAATATTATATTTT
Found at i:2369945 original size:22 final size:22
Alignment explanation
Indices: 2369907--2369956 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
2369897 GTATTTATAT
2369907 TATATTAAAAATATATATAAAA
1 TATATTAAAAATATATATAAAA
* *
2369929 TATA-TAAAATTATTATATTAAA
1 TATATTAAAAATA-TATATAAAA
*
2369951 TTTATT
1 TATATT
2369957 GTAATACATC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 7 0.30
22 15 0.65
23 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TATATTAAAAATATATATAAAA
Found at i:2375065 original size:33 final size:34
Alignment explanation
Indices: 2375028--2375099 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
2375018 TCCCTTCCAC
* *
2375028 GGTTACATTTCATCCT-CTTTTGATTTCTTCATG
1 GGTTACATGTCATCCTCCCTTTGATTTCTTCATG
* *
2375061 GGTTACATGTCATCCTCCCTTTGCTTTCTTCGTG
1 GGTTACATGTCATCCTCCCTTTGATTTCTTCATG
2375095 GGTTA
1 GGTTA
2375100 TTATATGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 15 0.44
34 19 0.56
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.47
Consensus pattern (34 bp):
GGTTACATGTCATCCTCCCTTTGATTTCTTCATG
Found at i:2375748 original size:19 final size:19
Alignment explanation
Indices: 2375707--2375750 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2375697 TATTTTATTA
*
2375707 ATTAAAATAATAAAAATAT
1 ATTAAAATAATAAAAATAG
* * *
2375726 ATTAAAATATTAAAATTCG
1 ATTAAAATAATAAAAATAG
2375745 ATTAAA
1 ATTAAA
2375751 CTCACGAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
ATTAAAATAATAAAAATAG
Found at i:2378580 original size:29 final size:27
Alignment explanation
Indices: 2378518--2378600 Score: 89
Period size: 29 Copynumber: 3.0 Consensus size: 27
2378508 GAATAATACG
*
2378518 GATATATACGAATAGATACGACTAACATA
1 GATATATACGAATAGACACGACTAA-A-A
*
2378547 GATATATACGAATAGACATGACTAAAA
1 GATATATACGAATAGACACGACTAAAA
*
2378574 CGAATATATAC-AAGA-ACACGACTAAAA
1 -G-ATATATACGAATAGACACGACTAAAA
2378601 TAATAAATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.25
28 5 0.10
29 31 0.65
ACGTcount: A:0.52, C:0.14, G:0.13, T:0.20
Consensus pattern (27 bp):
GATATATACGAATAGACACGACTAAAA
Found at i:2378721 original size:11 final size:11
Alignment explanation
Indices: 2378707--2378734 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
2378697 TTTAATACTC
2378707 ATTTAATATGT
1 ATTTAATATGT
2378718 ATTTAATATGT
1 ATTTAATATGT
2378729 ATTTAA
1 ATTTAA
2378735 ATTTATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (11 bp):
ATTTAATATGT
Found at i:2380041 original size:3 final size:3
Alignment explanation
Indices: 2380033--2380058 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2380023 GAAAATTCAA
2380033 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
2380059 GAAGCAAAAG
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:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:2380455 original size:26 final size:29
Alignment explanation
Indices: 2380424--2380482 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 29
2380414 ATTGATTATT
2380424 TTTATTGAAATT-AATT-AATTTTAAA-A
1 TTTATTGAAATTGAATTAAATTTTAAATA
**
2380450 TTTATTTTAATTGAATTGAAATTTTAAATA
1 TTTATTGAAATTGAATT-AAATTTTAAATA
2380480 TTT
1 TTT
2380483 TGTATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.37
27 4 0.15
29 9 0.33
30 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (29 bp):
TTTATTGAAATTGAATTAAATTTTAAATA
Found at i:2381055 original size:3 final size:3
Alignment explanation
Indices: 2381047--2381071 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2381037 CAAAGATTTG
2381047 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
2381072 GCAGCGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2381243 original size:12 final size:12
Alignment explanation
Indices: 2381226--2381253 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2381216 AAAGTTTTTC
2381226 TTTATAGATCGG
1 TTTATAGATCGG
2381238 TTTATAGATCGG
1 TTTATAGATCGG
2381250 TTTA
1 TTTA
2381254 CAATTTTAAT
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:0.25, C:0.07, G:0.21, T:0.46
Consensus pattern (12 bp):
TTTATAGATCGG
Found at i:2390194 original size:30 final size:29
Alignment explanation
Indices: 2390158--2390237 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 29
2390148 TAATAATATA
2390158 ATAATATTGAATAATATATTGTTTATTAAT
1 ATAATATT-AATAATATATTGTTTATTAAT
* *
2390188 ATAATA-TAAT-ATAT-TTATTTATTTAT
1 ATAATATTAATAATATATTGTTTATTAAT
*
2390214 ATATTATTAATATAATATATTGTT
1 ATAATATT-A-ATAATATATTGTT
2390238 AATAAAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
26 15 0.37
27 5 0.12
28 4 0.10
29 3 0.07
30 10 0.24
31 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (29 bp):
ATAATATTAATAATATATTGTTTATTAAT
Found at i:2390226 original size:11 final size:11
Alignment explanation
Indices: 2390180--2390477 Score: 102
Period size: 11 Copynumber: 27.5 Consensus size: 11
2390170 AATATATTGT
2390180 TTATTAATATA
1 TTATTAATATA
*
2390191 ATA-TAATATA
1 TTATTAATATA
* *
2390201 TTTATTTATTTA
1 -TTATTAATATA
2390213 TATATT-AT-TA
1 T-TATTAATATA
*
2390223 ATA-TAATATA
1 TTATTAATATA
* *
2390233 TTGTTAATAAA
1 TTATTAATATA
*
2390244 ATA-TAA-ATA
1 TTATTAATATA
2390253 -TA-TAATATAA
1 TTATTAATAT-A
* *
2390263 TAAATAATATA
1 TTATTAATATA
*
2390274 TTAATAA-ATAA
1 TTATTAATAT-A
2390285 TATATTAATAGTA
1 T-TATTAATA-TA
2390298 -TATTAATAT-
1 TTATTAATATA
2390307 TATATTAATAAATA
1 T-TATTAAT--ATA
2390321 TTA-TAGATAT-
1 TTATTA-ATATA
2390331 TATATTAATA-A
1 T-TATTAATATA
2390342 TATATTAATAT-
1 T-TATTAATATA
2390353 TATATTAATATGA
1 T-TATTAATAT-A
*
2390366 -TATAAATA-A
1 TTATTAATATA
*
2390375 TATATTAATAGA
1 T-TATTAATATA
*
2390387 -TATT-ATTTA
1 TTATTAATATA
*
2390396 TTAATAATATA
1 TTATTAATATA
2390407 TTATTAATATA
1 TTATTAATATA
* *
2390418 ATATTTATTATA
1 TTA-TTAATATA
*
2390430 TTATTTAT-TA
1 TTATTAATATA
2390440 TTACTATAATAT-
1 TTA-T-TAATATA
2390452 TTATT-ATATTA
1 TTATTAATA-TA
*
2390463 CTA-TAATATA
1 TTATTAATATA
2390473 TTATT
1 TTATT
2390478 TGTAACATCA
Statistics
Matches: 219, Mismatches: 29, Indels: 78
0.67 0.09 0.24
Matches are distributed among these distances:
8 6 0.03
9 15 0.07
10 39 0.18
11 108 0.49
12 40 0.18
13 9 0.04
14 2 0.01
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (11 bp):
TTATTAATATA
Found at i:2390305 original size:22 final size:21
Alignment explanation
Indices: 2390211--2390432 Score: 143
Period size: 22 Copynumber: 10.4 Consensus size: 21
2390201 TTTATTTATT
* *
2390211 TATATATTATTAATATAAT-A
1 TATATATTAATAATATATTAA
* * *
2390231 TAT-TGTTAATAAAATATAAA
1 TATATATTAATAATATATTAA
* *
2390251 TATATAAT-ATAATA-AATAA
1 TATATATTAATAATATATTAA
*
2390270 TATATTAATAAATAATATATTAA
1 TATA-T-ATTAATAATATATTAA
*
2390293 TAGTATATTAATATTATATTAA
1 TA-TATATTAATAATATATTAA
* *
2390315 TAAATATTATAGATATTATATTAA
1 TATATA-T-TA-ATAATATATTAA
*
2390339 TAATATATTAATATTATATTAA
1 T-ATATATTAATAATATATTAA
*
2390361 TATGATATAAATAATATATTAA
1 TAT-ATATTAATAATATATTAA
* * * *
2390383 TAGATATTATTTAT-TAATAA
1 TATATATTAATAATATATTAA
*
2390403 TATATTATTAAT-ATAATATTTA
1 TATA-TATTAATAAT-ATATTAA
2390425 T-TATATTA
1 TATATATTA
2390433 TTTATTATTA
Statistics
Matches: 159, Mismatches: 28, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
19 17 0.11
20 28 0.18
21 24 0.15
22 59 0.37
23 11 0.07
24 16 0.10
25 4 0.03
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TATATATTAATAATATATTAA
Found at i:2390379 original size:68 final size:67
Alignment explanation
Indices: 2390246--2390422 Score: 181
Period size: 68 Copynumber: 2.7 Consensus size: 67
2390236 TTAATAAAAT
* *
2390246 ATAAATA-TATAATATAATAAATAATATATTAATAAATAATATATTAATAGTATATTAATATTAT
1 ATAAATATTATAATATAATAAATAATATATTAAT-AAT-ATATATTAATAGTATATAAATAATAT
2390310 ATTA
64 ATTA
*
2390314 ATAAATATTATAGATATTATATTAATAATATATTAAT-AT-TATATTAATA-TGATATAAATAAT
1 ATAAATATTATA-ATA-TA-ATAAATAATATATTAATAATATATATTAATAGT-ATATAAATAAT
2390376 ATATTA
62 ATATTA
* * *
2390382 ATAGATATTAT--T-T-ATTAATAATATATTATTAATATAATATT
1 ATAAATATTATAATATAATAAATAATATATTAATAATAT-ATATT
2390423 TATTATATTA
Statistics
Matches: 96, Mismatches: 5, Indels: 20
0.79 0.04 0.17
Matches are distributed among these distances:
61 16 0.17
62 2 0.02
63 2 0.02
64 5 0.05
65 1 0.01
67 1 0.01
68 42 0.44
69 4 0.04
70 5 0.05
71 2 0.02
72 16 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (67 bp):
ATAAATATTATAATATAATAAATAATATATTAATAATATATATTAATAGTATATAAATAATATAT
TA
Found at i:2390462 original size:30 final size:30
Alignment explanation
Indices: 2390189--2390434 Score: 52
Period size: 27 Copynumber: 8.0 Consensus size: 30
2390179 TTTATTAATA
2390189 TAATATAATATATTTATT-TATTTATATATTAT
1 TAATAT-A-ATATTTATTATA-TTATATATTAT
* * * * *
2390221 TAATATAATATATTGTTA-ATAAAATATAAA
1 TAATATAATAT-TTATTATATTATATATTAT
* * * *
2390251 T-ATATAATA--TAATAAATAATATATTAA
1 TAATATAATATTTATTATATTATATATTAT
2390278 TAA-ATAATATATTAATAGTATATTA-ATATTATAT
1 TAATATAATAT-TT-AT--TATATTATATA-T-TAT
* *
2390312 TAATA-AATA-TTA-TAGA-TATTATATTAA
1 TAATATAATATTTATTATATTA-TATATTAT
* * *
2390339 TAATATATTA-ATATTATATTA-ATATGAT
1 TAATATAATATTTATTATATTATATATTAT
* * *
2390367 ATAA-ATAATATATTAATAGATATTATTTATTAA
1 -TAATATAATAT-TT-AT-TATATTATATATTAT
* *
2390400 TAATATATTATTAATATAATATTTATTATATTAT
1 TAATATAATATT--TATTATA-TTA-TATATTAT
2390434 T
1 T
2390435 TATTATTACT
Statistics
Matches: 155, Mismatches: 30, Indels: 56
0.64 0.12 0.23
Matches are distributed among these distances:
26 3 0.02
27 26 0.17
28 20 0.13
29 17 0.11
30 16 0.10
31 10 0.06
32 24 0.15
33 21 0.14
34 17 0.11
35 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (30 bp):
TAATATAATATTTATTATATTATATATTAT
Found at i:2390463 original size:20 final size:19
Alignment explanation
Indices: 2390419--2390478 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
2390409 ATTAATATAA
2390419 TATTTATTA-TAT--TATT
1 TATTTATTACTATAATATT
2390435 TA-TTATTACTATAATATT
1 TATTTATTACTATAATATT
2390453 TATTATATTACTATAATATAT
1 TATT-TATTACTATAATAT-T
2390474 TATTT
1 TATTT
2390479 GTAACATCAC
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.16
16 5 0.13
18 6 0.16
19 1 0.03
20 15 0.39
21 5 0.13
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTATTACTATAATATT
Found at i:2390473 original size:22 final size:21
Alignment explanation
Indices: 2390285--2390476 Score: 123
Period size: 22 Copynumber: 8.9 Consensus size: 21
2390275 TAATAAATAA
*
2390285 TATATTAATAGTATATTAATAT
1 TATATTAATAATATATT-ATAT
*
2390307 TATATTAATAAATATTATAGATAT
1 TATATTAAT-AATA-TAT-TATAT
2390331 TATATTAATAATATATTAATAT
1 TATATTAATAATATATT-ATAT
* *
2390353 TATATTAAT-ATGATATAAATAA
1 TATATTAATAAT-ATAT-TATAT
*
2390375 TATATTAAT-AGATA-T-TAT
1 TATATTAATAATATATTATAT
2390393 T-TATTAATAATATATTAT-T
1 TATATTAATAATATATTATAT
* *
2390412 AATA-TAAT-ATTTATTATAT
1 TATATTAATAATATATTATAT
*
2390431 TATTTATTATTACTATAATATT-TAT
1 TA--TATTAATA--AT-ATATTATAT
2390456 TATATTACTATAATATATTAT
1 TATATTA--ATAATATATTAT
2390477 TTGTAACATC
Statistics
Matches: 134, Mismatches: 15, Indels: 41
0.71 0.08 0.22
Matches are distributed among these distances:
17 7 0.05
18 15 0.11
19 8 0.06
20 3 0.02
21 7 0.05
22 50 0.37
23 15 0.11
24 16 0.12
25 9 0.07
26 4 0.03
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (21 bp):
TATATTAATAATATATTATAT
Found at i:2390680 original size:13 final size:13
Alignment explanation
Indices: 2390662--2390700 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
2390652 TAATTTTCCA
*
2390662 AAAAATTGAAAAC
1 AAAAATAGAAAAC
*
2390675 AAAAATGGAAAAC
1 AAAAATAGAAAAC
2390688 ATAAAATAGAAAA
1 A-AAAATAGAAAA
2390701 TGAAACAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.72, C:0.05, G:0.10, T:0.13
Consensus pattern (13 bp):
AAAAATAGAAAAC
Found at i:2393971 original size:24 final size:25
Alignment explanation
Indices: 2393934--2393980 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
2393924 ATTAAAAATA
2393934 TATATTTTATTATTTA-ATTAATTT
1 TATATTTTATTATTTATATTAATTT
2393958 TATA-TTTATATATTTATATTAAT
1 TATATTTTAT-TATTTATATTAAT
2393981 AAAATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 10 0.48
25 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TATATTTTATTATTTATATTAATTT
Found at i:2394883 original size:18 final size:16
Alignment explanation
Indices: 2394845--2394893 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
2394835 ATACAGTAAA
*
2394845 ATATATATTTTATTAT
1 ATATTTATTTTATTAT
*
2394861 TTATTTATTTTAATTTAT
1 ATATTTATTTT-A-TTAT
*
2394879 ATATTTATTATATTA
1 ATATTTATTTTATTA
2394894 ATAAAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 12 0.44
17 2 0.07
18 13 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATTTATTTTATTAT
Found at i:2394894 original size:21 final size:21
Alignment explanation
Indices: 2394853--2394895 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2394843 AAATATATAT
*
2394853 TTTATTATTTATTTATTTTAA
1 TTTATTATTTATTTATATTAA
2394874 TTTATATATTTA-TTATATTAA
1 TTTAT-TATTTATTTATATTAA
2394895 T
1 T
2394896 AAAATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATTATTTATTTATATTAA
Found at i:2394912 original size:16 final size:17
Alignment explanation
Indices: 2394883--2394916 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2394873 ATTTATATAT
2394883 TTATTATATTAATAAAA
1 TTATTATATTAATAAAA
2394900 TTATTAT-TTAATAAAA
1 TTATTATATTAATAAAA
2394916 T
1 T
2394917 ACTATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATTATATTAATAAAA
Found at i:2394924 original size:17 final size:15
Alignment explanation
Indices: 2394885--2394926 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
2394875 TTATATATTT
2394885 ATTATA-TTAATAAA
1 ATTATATTTAATAAA
2394899 ATTATTATTTAATAAA
1 ATTA-TATTTAATAAA
2394915 ATACTATATTTA
1 AT--TATATTTA
2394927 TATGTTGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.17
15 2 0.08
16 10 0.42
17 6 0.25
18 2 0.08
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATATTTAATAAA
Found at i:2408875 original size:2 final size:2
Alignment explanation
Indices: 2408868--2408894 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2408858 GGATTTTCTA
2408868 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
2408895 CTAGTTTTGT
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:2411120 original size:43 final size:44
Alignment explanation
Indices: 2411054--2411170 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 44
2411044 GATTGATAAT
* * ** * * * *
2411054 TAAATTATCATTGATTTTTTATTATGTTATTAGTAATTTATTA-
1 TAAATTATCAATAATTTACTATTAAGTTATGAATAATTTACTAC
*
2411097 TAAATTATCAATAATTTACTATTAAGTTATGAATTATTTACTAC
1 TAAATTATCAATAATTTACTATTAAGTTATGAATAATTTACTAC
** * *
2411141 TAAATTATTGATAATTTATTATAAAGTTAT
1 TAAATTATCAATAATTTACTATTAAGTTAT
2411171 AACTACTTTT
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
43 34 0.57
44 26 0.43
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (44 bp):
TAAATTATCAATAATTTACTATTAAGTTATGAATAATTTACTAC
Found at i:2411135 original size:22 final size:22
Alignment explanation
Indices: 2411073--2411202 Score: 84
Period size: 22 Copynumber: 6.0 Consensus size: 22
2411063 ATTGATTTTT
* * * *
2411073 TATTATGTTATTAGTAATTTAT
1 TATTAAGTTATCAATAATTTAC
*
2411095 TA-TAAATTATCAATAATTTAC
1 TATTAAGTTATCAATAATTTAC
* *
2411116 TATTAAGTTATGAATTATTTAC
1 TATTAAGTTATCAATAATTTAC
* * ** *
2411138 TACTAAATTATTGATAATTTAT
1 TATTAAGTTATCAATAATTTAC
* * *
2411160 TATAAAGTTAT-AACTACTTTTC
1 TATTAAGTTATCAA-TAATTTAC
* *
2411182 TATGAAGTTATCAATGATTTA
1 TATTAAGTTATCAATAATTTA
2411203 TACAAAATTA
Statistics
Matches: 80, Mismatches: 25, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
21 17 0.21
22 61 0.76
23 2 0.03
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.48
Consensus pattern (22 bp):
TATTAAGTTATCAATAATTTAC
Found at i:2411262 original size:22 final size:22
Alignment explanation
Indices: 2411237--2411294 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
2411227 CTAAATTATA
*
2411237 AGTGATTTATTAATATGCTATT
1 AGTGATTTATTAATATACTATT
* * *
2411259 AGTGATTTACTACTATATTATT
1 AGTGATTTATTAATATACTATT
2411281 A-TGCATTTATTAAT
1 AGTG-ATTTATTAAT
2411295 TACCATTGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (22 bp):
AGTGATTTATTAATATACTATT
Found at i:2411396 original size:45 final size:44
Alignment explanation
Indices: 2411324--2411419 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 44
2411314 ACATTTTAAT
* *
2411324 AATTAGCTATTAAGTTATCAATTATTTAGTACTAAGTTATCAACTA
1 AATTA-CTATTAAGTTATCAATGATTTACTACTAAGTTATCAA-TA
** ** *
2411370 AATTACTATTAAGTTATTTATGATTTACTGTTAATTTATCAATA
1 AATTACTATTAAGTTATCAATGATTTACTACTAAGTTATCAATA
2411414 AATTAC
1 AATTAC
2411420 AATATATGAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 8 0.19
45 30 0.70
46 5 0.12
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (44 bp):
AATTACTATTAAGTTATCAATGATTTACTACTAAGTTATCAATA
Found at i:2411419 original size:22 final size:22
Alignment explanation
Indices: 2411324--2411419 Score: 84
Period size: 22 Copynumber: 4.3 Consensus size: 22
2411314 ACATTTTAAT
*
2411324 AATTAGCTATTAAGTTATCAATT
1 AATTA-CTATTAAGTTATCAATA
* * *
2411347 ATTTAGTACTAAGTTATCAACTA
1 AATTACTATTAAGTTATCAA-TA
** *
2411370 AATTACTATTAAGTTATTTATG
1 AATTACTATTAAGTTATCAATA
* * *
2411392 ATTTACTGTTAATTTATCAATA
1 AATTACTATTAAGTTATCAATA
2411414 AATTAC
1 AATTAC
2411420 AATATATGAG
Statistics
Matches: 55, Mismatches: 17, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
22 35 0.64
23 20 0.36
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (22 bp):
AATTACTATTAAGTTATCAATA
Found at i:2411732 original size:66 final size:66
Alignment explanation
Indices: 2411662--2411788 Score: 148
Period size: 66 Copynumber: 1.9 Consensus size: 66
2411652 TCCTATCGTT
* * *
2411662 GATTTACAACTAAATTA-TCATCAATTTATTACTAAGCTATAGATAAATTACTATTAAGTTACAA
1 GATTTACAACTAAATTATTAAT-AATTTACTACTAAGCTATAGATAAATTACTATAAAGTTACAA
2411726 AC
65 AC
** * * * * *
2411728 GATTTATTACTAAGTTATTAATAATTTACTATTAAGTTATAGATAATTTATTATAAAGTTA
1 GATTTACAACTAAATTATTAATAATTTACTACTAAGCTATAGATAAATTACTATAAAGTTA
2411789 TTACTAGTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
66 47 0.94
67 3 0.06
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.42
Consensus pattern (66 bp):
GATTTACAACTAAATTATTAATAATTTACTACTAAGCTATAGATAAATTACTATAAAGTTACAAA
C
Found at i:2411754 original size:22 final size:21
Alignment explanation
Indices: 2411729--2411841 Score: 95
Period size: 22 Copynumber: 5.1 Consensus size: 21
2411719 GTTACAAACG
2411729 ATTTATTACTAAGTTATTAATA
1 ATTTATTA-TAAGTTATTAATA
*
2411751 ATTTACTATTAAGTTA-TAGATA
1 ATTTATTA-TAAGTTATTA-ATA
*
2411773 ATTTATTATAAAGTTATTACTA
1 ATTTATTAT-AAGTTATTAATA
* * * *
2411795 GTTTACTATGAAGTTATTGATG
1 ATTTATTAT-AAGTTATTAATA
2411817 ATTTACTT-TGAAGTTATTAATA
1 ATTTA-TTAT-AAGTTATTAATA
2411839 ATT
1 ATT
2411842 AACTAATTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
21 3 0.04
22 67 0.92
23 3 0.04
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (21 bp):
ATTTATTATAAGTTATTAATA
Found at i:2411777 original size:44 final size:44
Alignment explanation
Indices: 2411704--2411846 Score: 146
Period size: 44 Copynumber: 3.2 Consensus size: 44
2411694 TAAGCTATAG
* * * **
2411704 ATAAATTACTATTAAGTTACAAACGATTTATTACT-AAGTTATTA
1 ATAATTTACTATTAAGTTATAGATAATTTATTA-TAAAGTTATTA
2411748 ATAATTTACTATTAAGTTATAGATAATTTATTATAAAGTTATTA
1 ATAATTTACTATTAAGTTATAGATAATTTATTATAAAGTTATTA
* * * * * *
2411792 CTAGTTTACTATGAAGTTATTGATGATTTACTT-TGAAGTTATTA
1 ATAATTTACTATTAAGTTATAGATAATTTA-TTATAAAGTTATTA
*
2411836 ATAATTAACTA
1 ATAATTTACTA
2411847 ATTTATAATT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 80 0.96
45 2 0.02
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (44 bp):
ATAATTTACTATTAAGTTATAGATAATTTATTATAAAGTTATTA
Found at i:2411870 original size:22 final size:22
Alignment explanation
Indices: 2411845--2411984 Score: 102
Period size: 22 Copynumber: 6.4 Consensus size: 22
2411835 AATAATTAAC
*
2411845 TAATTTATAATTAAATTATCAT
1 TAATTTATAATTAAATTATCAA
* *
2411867 TAATTTATAACTAAATTATCAT
1 TAATTTATAATTAAATTATCAA
* * *
2411889 TGATTTACATTTAAATTATCAA
1 TAATTTATAATTAAATTATCAA
* * * ** * *
2411911 TGATTTACTGA-GACGTTATTAC
1 TAATTTA-TAATTAAATTATCAA
* *
2411933 TAATTTATTACTAAATTATCAA
1 TAATTTATAATTAAATTATCAA
* **
2411955 TAATTTATTATTAAATTATTGA
1 TAATTTATAATTAAATTATCAA
2411977 TAATTTAT
1 TAATTTAT
2411985 TATATACTGT
Statistics
Matches: 92, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
21 2 0.02
22 90 0.98
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (22 bp):
TAATTTATAATTAAATTATCAA
Found at i:2411942 original size:11 final size:11
Alignment explanation
Indices: 2411926--2411986 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
2411916 TACTGAGACG
2411926 TTATTACTAAT
1 TTATTACTAAT
*
2411937 TTATTACTAAA
1 TTATTACTAAT
* *
2411948 TTATCAATAAT
1 TTATTACTAAT
* *
2411959 TTATTATTAAA
1 TTATTACTAAT
2411970 TTATTGA-TAAT
1 TTATT-ACTAAT
2411981 TTATTA
1 TTATTA
2411987 TATACTGTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
10 1 0.02
11 39 0.95
12 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (11 bp):
TTATTACTAAT
Found at i:2411974 original size:44 final size:44
Alignment explanation
Indices: 2411830--2411988 Score: 105
Period size: 44 Copynumber: 3.6 Consensus size: 44
2411820 TACTTTGAAG
* * *
2411830 TTATT-AATAATTAACTAATTTATAATTAAATTATCATTAATTTA
1 TTATTAAATTATTAACTAATTTATTA-TAAATTATCAATAATTTA
* * * * * *
2411874 TAACTAAATTA-TCATTGATTTACATT-TAAATTATCAATGATTTA
1 TTATTAAATTATTAACTAATTT--ATTATAAATTATCAATAATTTA
* * **
2411918 CTGA-GACGTTATT-ACTAATTTATTACTAAATTATCAATAATTTA
1 -TTATTAAATTATTAACTAATTTATTA-TAAATTATCAATAATTTA
*
2411962 TTATTAAATTATTGA-TAATTTATTATA
1 TTATTAAATTATTAACTAATTTATTATA
2411989 TACTGTTATG
Statistics
Matches: 86, Mismatches: 20, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.05
44 69 0.80
45 8 0.09
46 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.48
Consensus pattern (44 bp):
TTATTAAATTATTAACTAATTTATTATAAATTATCAATAATTTA
Found at i:2412104 original size:19 final size:20
Alignment explanation
Indices: 2412063--2412110 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
2412053 AAATTATCAT
2412063 TGATTTATTGTTAAGTTATTTA
1 TGATTTATTGTTAA--TATTTA
2412085 TGATTTATTGTTAA-ATTTA
1 TGATTTATTGTTAATATTTA
*
2412104 TAATTTA
1 TGATTTA
2412111 ATTATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 11 0.44
22 14 0.56
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.58
Consensus pattern (20 bp):
TGATTTATTGTTAATATTTA
Found at i:2412183 original size:22 final size:22
Alignment explanation
Indices: 2412155--2412462 Score: 188
Period size: 22 Copynumber: 14.1 Consensus size: 22
2412145 TTATCATAAC
*
2412155 TTACTACTAAGTT-TTCATTGAT
1 TTACTATTAAGTTATT-ATTGAT
* * * * *
2412177 TTACTACTAAATTATCAATAAT
1 TTACTATTAAGTTATTATTGAT
* *
2412199 TAACTATTAAGTTATCATT--T
1 TTACTATTAAGTTATTATTGAT
* *
2412219 TT-TTATTAAGTTATTATTAAT
1 TTACTATTAAGTTATTATTGAT
* *
2412240 TTACTACTATA-TTGTTA-TGTAT
1 TTACTATTA-AGTTATTATTG-AT
* * *
2412262 TTACAATTATGTTATAATTGAT
1 TTACTATTAAGTTATTATTGAT
2412284 TTACTATTAAGTTATTA-TGCAT
1 TTACTATTAAGTTATTATTG-AT
*
2412306 TTACTATTATA-TTAGTATTGAT
1 TTACTATTA-AGTTATTATTGAT
*
2412328 TTACTACTAAGTTATTAATT-AT
1 TTACTATTAAGTTATT-ATTGAT
*
2412350 TTACTATTAAATTATTATTGAT
1 TTACTATTAAGTTATTATTGAT
** * *
2412372 AAACTATTAAGTTATTACTAAT
1 TTACTATTAAGTTATTATTGAT
* * * * *
2412394 TTATTATACTAAATTGTCACTGAT
1 TTACTAT--TAAGTTATTATTGAT
* * * *
2412418 TAACTATTAATTTATCAATGA-
1 TTACTATTAAGTTATTATTGAT
2412439 TTACTATTAAGTTA-TATTGAT
1 TTACTATTAAGTTATTATTGAT
2412460 TTA
1 TTA
2412463 GTTTTAATTT
Statistics
Matches: 220, Mismatches: 49, Indels: 35
0.72 0.16 0.12
Matches are distributed among these distances:
19 14 0.06
20 6 0.03
21 25 0.11
22 149 0.68
23 10 0.05
24 16 0.07
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (22 bp):
TTACTATTAAGTTATTATTGAT
Found at i:2412242 original size:19 final size:19
Alignment explanation
Indices: 2412203--2412242 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2412193 AATAATTAAC
**
2412203 TATTAAGTTATCATTTTTT
1 TATTAAGTTATCATTAATT
*
2412222 TATTAAGTTATTATTAATT
1 TATTAAGTTATCATTAATT
2412241 TA
1 TA
2412243 CTACTATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
TATTAAGTTATCATTAATT
Found at i:2412848 original size:11 final size:11
Alignment explanation
Indices: 2412832--2412907 Score: 55
Period size: 11 Copynumber: 7.0 Consensus size: 11
2412822 TCTTATTTAC
2412832 TATTAAATTAT
1 TATTAAATTAT
*
2412843 TATTAATTTAT
1 TATTAAATTAT
* *
2412854 TACTAAGTTAT
1 TATTAAATTAT
* * *
2412865 CATTTATTTAT
1 TATTAAATTAT
*
2412876 TATTAAGTTAT
1 TATTAAATTAT
* * *
2412887 CATT-TATTTT
1 TATTAAATTAT
2412897 TATTAAATTAT
1 TATTAAATTAT
2412908 CCTCAGTTTA
Statistics
Matches: 47, Mismatches: 17, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
10 6 0.13
11 41 0.87
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (11 bp):
TATTAAATTAT
Found at i:2412851 original size:22 final size:22
Alignment explanation
Indices: 2412824--2412908 Score: 109
Period size: 22 Copynumber: 3.9 Consensus size: 22
2412814 AAACTGAATC
* *
2412824 TTATTTACTATTAAATTATTAT
1 TTATTTATTATTAAATTATCAT
* * *
2412846 TAATTTATTACTAAGTTATCAT
1 TTATTTATTATTAAATTATCAT
*
2412868 TTATTTATTATTAAGTTATCAT
1 TTATTTATTATTAAATTATCAT
2412890 TTATTT-TTATTAAATTATC
1 TTATTTATTATTAAATTATC
2412909 CTCAGTTTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 12 0.22
22 43 0.78
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (22 bp):
TTATTTATTATTAAATTATCAT
Found at i:2419149 original size:14 final size:14
Alignment explanation
Indices: 2419130--2419159 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2419120 AGTTATACAA
*
2419130 ATTTTCAAACATTT
1 ATTTTCAAAAATTT
2419144 ATTTTCAAAAATTT
1 ATTTTCAAAAATTT
2419158 AT
1 AT
2419160 AAAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTCAAAAATTT
Found at i:2431763 original size:8 final size:8
Alignment explanation
Indices: 2431750--2431779 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2431740 CAACAAATAC
2431750 ATATATGT
1 ATATATGT
2431758 ATATATGT
1 ATATATGT
*
2431766 ATATATAT
1 ATATATGT
2431774 ATATAT
1 ATATAT
2431780 TAACAAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (8 bp):
ATATATGT
Found at i:2433516 original size:23 final size:21
Alignment explanation
Indices: 2433476--2433521 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
2433466 AAAATATCTT
*
2433476 AATTTTTTAGTTTTTATTTCA
1 AATTTTTTAATTTTTATTTCA
2433497 AATTTTTTATATTTTGTATTTCA
1 AATTTTTTA-ATTTT-TATTTCA
2433520 AA
1 AA
2433522 ATAAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 4 0.18
23 9 0.41
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (21 bp):
AATTTTTTAATTTTTATTTCA
Found at i:2433834 original size:21 final size:19
Alignment explanation
Indices: 2433810--2433867 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 19
2433800 TTATAATCTC
2433810 TTTCTCAATTTGTTTTTTTTT
1 TTTCT-AATTT-TTTTTTTTT
*
2433831 TTTCTGATTTTTTTTTTTT
1 TTTCTAATTTTTTTTTTTT
2433850 GCATTT-TAATTTTTTTTT
1 ---TTTCTAATTTTTTTTT
2433868 CTTCTTGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 9 0.28
20 4 0.12
21 16 0.50
22 3 0.09
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTCTAATTTTTTTTTTTT
Found at i:2433855 original size:15 final size:14
Alignment explanation
Indices: 2433818--2433866 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 14
2433808 TCTTTCTCAA
*
2433818 TTTGTTTTTTTTTT
1 TTTGATTTTTTTTT
2433832 TTCTGATTTTTTTTT
1 TT-TGATTTTTTTTT
2433847 TTTGCATTTTAATTTTT
1 TTTG-ATTTT--TTTTT
2433864 TTT
1 TTT
2433867 TCTTCTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 4 0.13
15 18 0.60
17 8 0.27
ACGTcount: A:0.08, C:0.04, G:0.06, T:0.82
Consensus pattern (14 bp):
TTTGATTTTTTTTT
Found at i:2433878 original size:17 final size:17
Alignment explanation
Indices: 2433822--2433881 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 17
2433812 TCTCAATTTG
2433822 TTTTTTTTTTTTC-TGA
1 TTTTTTTTTTTTCTTGA
*
2433838 TTTTTTTTTTTTGCATTTTAA
1 TTTTTTTTTTTT-C---TTGA
*
2433859 TTTTTTTTTCTTCTTGA
1 TTTTTTTTTTTTCTTGA
2433876 TTTTTT
1 TTTTTT
2433882 GCAAAAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
16 12 0.33
17 10 0.28
20 1 0.03
21 13 0.36
ACGTcount: A:0.08, C:0.07, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTTTTTTTTTTCTTGA
Found at i:2437677 original size:25 final size:23
Alignment explanation
Indices: 2437636--2437681 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
2437626 TTTTAAATAC
* *
2437636 AATACAATAATATAATATAAAACT
1 AATACAATAAAAAAATA-AAAACT
2437660 AATATCAATAAAAAAATAAAAA
1 AATA-CAATAAAAAAATAAAAA
2437682 TAACATGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (23 bp):
AATACAATAAAAAAATAAAAACT
Found at i:2437696 original size:23 final size:23
Alignment explanation
Indices: 2437652--2437696 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
2437642 ATAATATAAT
* *
2437652 ATAAAACTAATATCAATAAAAAA
1 ATAAAAATAACATCAATAAAAAA
* *
2437675 ATAAAAATAACATGAATTAAAA
1 ATAAAAATAACATCAATAAAAA
2437697 TTTTAATAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (23 bp):
ATAAAAATAACATCAATAAAAAA
Found at i:2437862 original size:33 final size:33
Alignment explanation
Indices: 2437790--2437862 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 33
2437780 TTTTTATTAA
* * *
2437790 AAATATAATACAAATATATAAATTTTTAATATT
1 AAATATAATACAAATACATAAATTATCAATATT
** *
2437823 TTATATAATACATATACATAAATTATCAGATA-T
1 AAATATAATACAAATACATAAATTATCA-ATATT
2437856 AAATATA
1 AAATATA
2437863 TCTACCATAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.40
Consensus pattern (33 bp):
AAATATAATACAAATACATAAATTATCAATATT
Found at i:2440372 original size:16 final size:15
Alignment explanation
Indices: 2440353--2440382 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2440343 TTGGATTCAC
2440353 GTTAATTTGAGTTTTT
1 GTTAATTTG-GTTTTT
2440369 GTTAATTTGGTTTT
1 GTTAATTTGGTTTT
2440383 AAATTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.63
Consensus pattern (15 bp):
GTTAATTTGGTTTTT
Found at i:2441440 original size:16 final size:16
Alignment explanation
Indices: 2441393--2441445 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
2441383 AAATTTTAAG
2441393 AATTTATAAATATT-CA
1 AATTTATAAAT-TTACA
*
2441409 AATTTATATATTTTTACA
1 AATTTATA-A-ATTTACA
*
2441427 AATTTATAAATTTATA
1 AATTTATAAATTTACA
2441443 AAT
1 AAT
2441446 CCATGAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 16 0.52
17 4 0.13
18 11 0.35
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTTATAAATTTACA
Found at i:2448065 original size:2 final size:2
Alignment explanation
Indices: 2448058--2448090 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2448048 GAATGTAGGT
2448058 TA TA TA 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
2448091 GATAAGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2450665 original size:17 final size:17
Alignment explanation
Indices: 2450643--2450675 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2450633 CTTTTTTATT
*
2450643 TTTTTATTTGGTTTTAA
1 TTTTTATTTGATTTTAA
2450660 TTTTTATTTGATTTTA
1 TTTTTATTTGATTTTA
2450676 CCTTTTATTA
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:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (17 bp):
TTTTTATTTGATTTTAA
Found at i:2450681 original size:17 final size:17
Alignment explanation
Indices: 2450644--2450684 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2450634 TTTTTTATTT
* *
2450644 TTTTATTTGGTTTTAAT
1 TTTTATTTGATTTTAAC
*
2450661 TTTTATTTGATTTTACC
1 TTTTATTTGATTTTAAC
2450678 TTTTATT
1 TTTTATT
2450685 ACATAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (17 bp):
TTTTATTTGATTTTAAC
Found at i:2451043 original size:15 final size:15
Alignment explanation
Indices: 2451009--2451046 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
2450999 CAATTACCTT
2451009 CAAAAAAAATTTTAA
1 CAAAAAAAATTTTAA
*
2451024 TAAAAAAAA-TTTATA
1 CAAAAAAAATTTTA-A
2451039 CAAAAAAA
1 CAAAAAAA
2451047 GACAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (15 bp):
CAAAAAAAATTTTAA
Found at i:2451258 original size:28 final size:28
Alignment explanation
Indices: 2451227--2451295 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
2451217 ATATTTTTTA
* *
2451227 TTATTTAAT-TAATT-TTATATTTATATAT
1 TTATTTAATAAAATTATTAT-TTAATAT-T
2451255 TTATATTAATAAAATTATTATTTAATATT
1 TTAT-TTAATAAAATTATTATTTAATATT
2451284 TTATTTTAATAA
1 TTA-TTTAATAA
2451296 GCTGTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
28 4 0.11
29 16 0.46
30 11 0.31
31 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
TTATTTAATAAAATTATTATTTAATATT
Found at i:2451996 original size:16 final size:17
Alignment explanation
Indices: 2451967--2452008 Score: 70
Period size: 16 Copynumber: 2.6 Consensus size: 17
2451957 ATTTATATAT
2451967 TTATTATATTAATAAAA
1 TTATTATATTAATAAAA
2451984 TTATTAT-TTAATAAAA
1 TTATTATATTAATAAAA
2452000 -TATTATATT
1 TTATTATATT
2452009 TATATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.25
16 11 0.46
17 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATTATATTAATAAAA
Found at i:2452009 original size:17 final size:16
Alignment explanation
Indices: 2451968--2452010 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
2451958 TTTATATATT
2451968 TATTATA-TTAATAAA
1 TATTATATTTAATAAA
2451983 -ATTATTATTTAATAAAA
1 TATTA-TATTTAAT-AAA
2452000 TATTATATTTA
1 TATTATATTTA
2452011 TATATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.17
15 2 0.08
16 5 0.21
17 9 0.38
18 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTATATTTAATAAA
Found at i:2452022 original size:16 final size:15
Alignment explanation
Indices: 2451969--2452022 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 15
2451959 TTATATATTT
2451969 ATTATA-TTAATAAA
1 ATTATATTTAATAAA
2451983 ATTATTATTTAATAAAA
1 ATTA-TATTTAAT-AAA
*
2452000 TATTATATTTATATATA
1 -ATTATATTTA-ATAAA
2452017 ATTATA
1 ATTATA
2452023 CAAATATATG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 4 0.12
15 2 0.06
16 11 0.32
17 11 0.32
18 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATATTTAATAAA
Found at i:2463947 original size:2 final size:2
Alignment explanation
Indices: 2463942--2463967 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2463932 GGATTTTTTA
2463942 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
2463968 GAAAAACAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2465390 original size:2 final size:2
Alignment explanation
Indices: 2465341--2465374 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2465331 AAAACAAGAA
2465341 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
2465375 TGTTAAACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2466424 original size:2 final size:2
Alignment explanation
Indices: 2466417--2466464 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
2466407 TGCTTATTGA
* *
2466417 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2466459 GT AT AT
1 AT AT AT
2466465 GTTTCCTACA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2471605 original size:34 final size:32
Alignment explanation
Indices: 2471544--2471612 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 32
2471534 TTATATTTTT
* *
2471544 TTACAAATTTTTTAATATTCATATTTGGTAAG
1 TTACAAATTTTTTAAAATTCATATTTGGAAAG
* *
2471576 TTACATAATTTTTTGAAAATTTATTTTTGGAAAG
1 TTACA-AATTTTTT-AAAATTCATATTTGGAAAG
2471610 TTA
1 TTA
2471613 TAAAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 5 0.16
33 8 0.26
34 18 0.58
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (32 bp):
TTACAAATTTTTTAAAATTCATATTTGGAAAG
Found at i:2471663 original size:34 final size:35
Alignment explanation
Indices: 2471616--2471690 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 35
2471606 AAAGTTATAA
* * *
2471616 AAAAATAAATTTTTAAAAGGTTATATAACTTTTC-
1 AAAATTAAATTTTTAAAAAGTCATATAACTTTTCG
* *
2471650 AAAATTAACTTTTTAAAAAGTCATATAGCTTTTCG
1 AAAATTAAATTTTTAAAAAGTCATATAACTTTTCG
2471685 AAAATT
1 AAAATT
2471691 CATTTTCGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 29 0.83
35 6 0.17
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (35 bp):
AAAATTAAATTTTTAAAAAGTCATATAACTTTTCG
Found at i:2474043 original size:17 final size:17
Alignment explanation
Indices: 2474002--2474043 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
2473992 ATTATATATA
*
2474002 AATATAAT-ATTTTATT
1 AATATAATAACTTTATT
2474018 AA-ATAATAACTTTATT
1 AATATAATAACTTTATT
2474034 AATATAATAA
1 AATATAATAA
2474044 TTATACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAATAACTTTATT
Found at i:2474561 original size:17 final size:17
Alignment explanation
Indices: 2474539--2474585 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
2474529 AATTTATTTG
*
2474539 ATAAAAAATAAAATCAA
1 ATAAAAAATAAAACCAA
* *
2474556 ATAAAAATTTAAACCAA
1 ATAAAAAATAAAACCAA
2474573 ATAAAAAATAAAA
1 ATAAAAAATAAAA
2474586 AAATACATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (17 bp):
ATAAAAAATAAAACCAA
Found at i:2482935 original size:14 final size:13
Alignment explanation
Indices: 2482918--2482952 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
2482908 TTGATATAAA
2482918 AATATTAATATTTT
1 AATATTAATA-TTT
*
2482932 AATAATAATATTT
1 AATATTAATATTT
2482945 AATATTAA
1 AATATTAA
2482953 AATATTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
AATATTAATATTT
Found at i:2482965 original size:19 final size:18
Alignment explanation
Indices: 2482930--2482981 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
2482920 TATTAATATT
*
2482930 TTAATAATAATATTTAATA
1 TTAA-AATATTATTTAATA
2482949 TTAAAATATTATGTTAATA
1 TTAAAATATTAT-TTAATA
*
2482968 -TAAAA-AATATTTAA
1 TTAAAATATTATTTAA
2482982 AAATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 4 0.13
17 4 0.13
18 12 0.40
19 10 0.33
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TTAAAATATTATTTAATA
Found at i:2483053 original size:22 final size:22
Alignment explanation
Indices: 2483011--2483068 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
2483001 TTTATATTAT
*
2483011 TTTATTAATAA--ATTATAATA
1 TTTATTAATAATTATAATAATA
2483031 TTTATTAATAATTATAATAATA
1 TTTATTAATAATTATAATAATA
*
2483053 TTAATTAATATATTAT
1 TTTATTAATA-ATTAT
2483069 TTATTAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 11 0.33
22 17 0.52
23 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTATTAATAATTATAATAATA
Found at i:2483126 original size:25 final size:23
Alignment explanation
Indices: 2483062--2483159 Score: 89
Period size: 23 Copynumber: 4.5 Consensus size: 23
2483052 ATTAATTAAT
* * *
2483062 ATATTATTTATTAATATAGTGTC
1 ATATTATTTATTAATATATTATA
* * * * *
2483085 TTAATATTGAATAAT-TAATATA
1 ATATTATTTATTAATATATTATA
2483107 ATATT-TTTATTAATATATTATA
1 ATATTATTTATTAATATATTATA
2483129 ATATTATTTATTAATATA--AT-
1 ATATTATTTATTAATATATTATA
2483149 ATATTATTTAT
1 ATATTATTTAT
2483160 GAGTAAAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
20 11 0.18
21 9 0.15
22 18 0.30
23 23 0.38
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (23 bp):
ATATTATTTATTAATATATTATA
Found at i:2483173 original size:23 final size:20
Alignment explanation
Indices: 2483107--2483173 Score: 55
Period size: 23 Copynumber: 3.1 Consensus size: 20
2483097 AATTAATATA
2483107 ATATT-TTTATTAATATATTAT
1 ATATTATTTATTAA-A-ATTAT
* *
2483128 AATATTATTTATTAATATAAT
1 -ATATTATTTATTAAAATTAT
2483149 ATATTATTTATGAGTAAAATTAT
1 ATATTATTTAT---TAAAATTAT
2483172 AT
1 AT
2483174 TCAAAAGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
20 11 0.30
21 4 0.11
22 5 0.14
23 17 0.46
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
ATATTATTTATTAAAATTAT
Found at i:2483174 original size:82 final size:80
Alignment explanation
Indices: 2483024--2483200 Score: 175
Period size: 82 Copynumber: 2.2 Consensus size: 80
2483014 ATTAATAAAT
* ***
2483024 TATAATA-TTTATTAATAATTATAATAATATTAATTAATATATTATTTATTAATATAGTGTCTTA
1 TATAATATTTTATTAATAATTATAATAATATTAATTAATATAATATTTATT-ATATAGTAAATTA
* *
2483088 ATATTGAATA-ATTAA
65 ATATTCAAAAGATTAA
* *
2483103 TATAATATTTTTATTAATATATTATAATATTATTTATTAATATAATATATTATT-TATGAGTAAA
1 TATAATA-TTTTATTAATA-ATTATAATAATATTAATTAATATAATAT-TTATTATAT-AGT-AA
2483167 ATT-ATATTCAAAAGTATTAA
61 ATTAATATTCAAAAG-ATTAA
2483187 TA-AATAATTTTATT
1 TATAAT-ATTTTATT
2483201 TATTGAAACA
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
79 7 0.09
81 13 0.16
82 36 0.44
83 17 0.21
84 8 0.10
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (80 bp):
TATAATATTTTATTAATAATTATAATAATATTAATTAATATAATATTTATTATATAGTAAATTAA
TATTCAAAAGATTAA
Found at i:2483371 original size:14 final size:14
Alignment explanation
Indices: 2483348--2483379 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2483338 TTTCACCTAC
*
2483348 AATTATTTAATTAT
1 AATTAATTAATTAT
2483362 AATTAATTAATTAT
1 AATTAATTAATTAT
2483376 AATT
1 AATT
2483380 TATATTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTAATTAATTAT
Found at i:2485834 original size:25 final size:25
Alignment explanation
Indices: 2485806--2485865 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
2485796 TCATTTTGCC
*
2485806 ACTTCAGAATAT-TTCTCATCCTCTG
1 ACTTCAGAATATGTTCTCATCCT-TA
*
2485831 ACTTCAGAAT-TGTTGTCATCCTTA
1 ACTTCAGAATATGTTCTCATCCTTA
*
2485855 ACTTCACAATA
1 ACTTCAGAATA
2485866 CCCAGATCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (25 bp):
ACTTCAGAATATGTTCTCATCCTTA
Found at i:2488519 original size:21 final size:20
Alignment explanation
Indices: 2488494--2488553 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
2488484 ATTTTAAATT
2488494 TATTATAATATTTAATTTCA
1 TATTATAATATTTAATTTCA
*
2488514 TCATTATAATAATTAATTT--
1 T-ATTATAATATTTAATTTCA
* *
2488533 TATTATTATTTTTAATTTCA
1 TATTATAATATTTAATTTCA
2488553 T
1 T
2488554 TAAAATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 14 0.42
19 1 0.03
20 2 0.06
21 16 0.48
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATAATATTTAATTTCA
Found at i:2488520 original size:24 final size:24
Alignment explanation
Indices: 2488462--2488526 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
2488452 TTTTATTACA
* *
2488462 TTCATCATTATTTTTATATTTAAT
1 TTCATCATTATTATAATATTTAAT
* *
2488486 TTTA-AATTTATTATAATATTTAAT
1 TTCATCA-TTATTATAATATTTAAT
*
2488510 TTCATCATTATAATAAT
1 TTCATCATTATTATAAT
2488527 TAATTTTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
23 1 0.03
24 30 0.94
25 1 0.03
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (24 bp):
TTCATCATTATTATAATATTTAAT
Found at i:2488547 original size:18 final size:18
Alignment explanation
Indices: 2488478--2488568 Score: 75
Period size: 18 Copynumber: 5.2 Consensus size: 18
2488468 ATTATTTTTA
*
2488478 TATT-TAAT-TTTAAATT
1 TATTATAATATTTAATTT
2488494 TATTATAATATTTAATTT
1 TATTATAATATTTAATTT
*
2488512 CATCATTATAATAATTAATTT
1 --T-ATTATAATATTTAATTT
* *
2488533 TATTATTATTTTTAATTT
1 TATTATAATATTTAATTT
*
2488551 CATTA-AA-A-TTAATTT
1 TATTATAATATTTAATTT
2488566 TAT
1 TAT
2488569 GATTCATTCG
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
15 9 0.15
16 4 0.07
17 5 0.08
18 25 0.41
19 1 0.02
20 1 0.02
21 16 0.26
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTATAATATTTAATTT
Found at i:2491183 original size:56 final size:56
Alignment explanation
Indices: 2491097--2491208 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
2491087 AAGGACATTT
*
2491097 CCGCTCCAGCTTGAACCCCATGTAAATGAAGATGTTTTGAAGTTGGCAGATGATTG
1 CCGCTCCAGATTGAACCCCATGTAAATGAAGATGTTTTGAAGTTGGCAGATGATTG
2491153 CCGCTCCAGATTGAACCCCATGTAAATGAAGATGTTTTGAAGTTGGCAGATGATTG
1 CCGCTCCAGATTGAACCCCATGTAAATGAAGATGTTTTGAAGTTGGCAGATGATTG
2491209 GAAAGAAAGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (56 bp):
CCGCTCCAGATTGAACCCCATGTAAATGAAGATGTTTTGAAGTTGGCAGATGATTG
Found at i:2501873 original size:2 final size:2
Alignment explanation
Indices: 2501866--2501905 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2501856 TGCTTATTGA
2501866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2501906 GTTTCCTACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2502952 original size:2 final size:2
Alignment explanation
Indices: 2502947--2502979 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2502937 TTCTGTTTGG
2502947 AT AT AT 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 AT AT AT A
2502980 CTTATGGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2508409 original size:21 final size:22
Alignment explanation
Indices: 2508384--2508426 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2508374 AAAGGTTTAA
*
2508384 ATAATTTA-TAGATATGCAAAT
1 ATAATTTACTAGATATGAAAAT
2508405 ATAATTTACTAGATATGAAAAT
1 ATAATTTACTAGATATGAAAAT
2508427 CCAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (22 bp):
ATAATTTACTAGATATGAAAAT
Found at i:2510571 original size:205 final size:205
Alignment explanation
Indices: 2510217--2510615 Score: 575
Period size: 205 Copynumber: 1.9 Consensus size: 205
2510207 TCGAATTTTC
* * * * * * *
2510217 AATAATTCAACTCCATTTTGATTTTAACCAGACATTGCGTTATCATTAATTGATATCTAGTCCCA
1 AATAATTCAACTCCACTTCGATTTCAACCAGACATCGAGTTATCATTAATTGATACCTAATCCCA
* * * **
2510282 GCCTATTACATATATGTATAGCCCACATCCAATTCAAATTAATAAAAAATAATTTGATAATTTTA
66 GCCTATCACATATATGTATAACCCACATCCAATCCAAATTAATAAAAAATAATTCAATAATTTTA
*
2510347 ACTTAGCATAATATTCATAAATATTTTATTTGTTAATATAAATTATATCTTAATTATATATAAAT
131 ACTTAGCATAATATTCATAAACATTTTATTTGTTAATATAAATTATATCTTAATTATATATAAAT
2510412 ATAATAATAA
196 ATAATAATAA
* * *
2510422 AATAATTCAACTCTACTTCGATTTCGACCAGACATCGAGTTATCATTAATTGATACCTAAT-CCT
1 AATAATTCAACTCCACTTCGATTTCAACCAGACATCGAGTTATCATTAATTGATACCTAATCCCA
* * *
2510486 GACCTATCACATATATGTATAATCCACATCCAATCCAAATTAATCAAAATTAATTCAATAATTTT
66 G-CCTATCACATATATGTATAACCCACATCCAATCCAAATTAATAAAAAATAATTCAATAATTTT
* * * *
2510551 AACTTAGTATAATGTTCATAAACATTTTATTTTTTAATATAAATTATATCTTAATTATGTATAAA
130 AACTTAGCATAATATTCATAAACATTTTATTTGTTAATATAAATTATATCTTAATTATATATAAA
2510616 CTTAATAGCT
Statistics
Matches: 170, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
204 3 0.02
205 167 0.98
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.39
Consensus pattern (205 bp):
AATAATTCAACTCCACTTCGATTTCAACCAGACATCGAGTTATCATTAATTGATACCTAATCCCA
GCCTATCACATATATGTATAACCCACATCCAATCCAAATTAATAAAAAATAATTCAATAATTTTA
ACTTAGCATAATATTCATAAACATTTTATTTGTTAATATAAATTATATCTTAATTATATATAAAT
ATAATAATAA
Found at i:2511255 original size:17 final size:17
Alignment explanation
Indices: 2511233--2511279 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
2511223 AAATTTATCT
*
2511233 AATAAAAAATAAAATCA
1 AATAAAAAATAAAACCA
*
2511250 AATAAAAATTAAAACCA
1 AATAAAAAATAAAACCA
2511267 AAT-AAAAATAAAA
1 AATAAAAAATAAAA
2511280 AGTACATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (17 bp):
AATAAAAAATAAAACCA
Found at i:2516039 original size:19 final size:19
Alignment explanation
Indices: 2515999--2516039 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2515989 TCATCATTAT
*
2515999 TTTTATATTTAAATATACA
1 TTTTATATTTAAATATAAA
* *
2516018 TTTTATATTTAATTTTAAA
1 TTTTATATTTAAATATAAA
2516037 TTT
1 TTT
2516040 ATTATAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTATATTTAAATATAAA
Found at i:2516064 original size:21 final size:20
Alignment explanation
Indices: 2516039--2516098 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
2516029 ATTTTAAATT
2516039 TATTATAATATTTAATTTCA
1 TATTATAATATTTAATTTCA
*
2516059 TCATTATAATAATTAATTT--
1 T-ATTATAATATTTAATTTCA
* *
2516078 TATTATTATTTTTAATTTCA
1 TATTATAATATTTAATTTCA
2516098 T
1 T
2516099 TAAAATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 14 0.42
19 1 0.03
20 2 0.06
21 16 0.48
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATAATATTTAATTTCA
Found at i:2516092 original size:18 final size:18
Alignment explanation
Indices: 2516017--2516113 Score: 76
Period size: 18 Copynumber: 5.4 Consensus size: 18
2516007 TTAAATATAC
*
2516017 ATTTTATATTTAAT-TTTA
1 ATTTTAT-TATAATATTTA
*
2516035 AATTTATTATAATATTTA
1 ATTTTATTATAATATTTA
*
2516053 ATTTCATCATTATAATAATTA
1 ATTT--T-ATTATAATATTTA
* *
2516074 ATTTTATTATTATTTTTA
1 ATTTTATTATAATATTTA
*
2516092 ATTTCATTA-AA-A-TTA
1 ATTTTATTATAATATTTA
2516107 ATTTTAT
1 ATTTTAT
2516114 GATTCATTCG
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
15 9 0.14
17 6 0.09
18 31 0.48
19 1 0.02
20 1 0.02
21 16 0.25
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTATTATAATATTTA
Found at i:2521507 original size:2 final size:2
Alignment explanation
Indices: 2521502--2521527 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2521492 TTGTTTTTTC
2521502 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
2521528 TAAAAAATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2538463 original size:3 final size:3
Alignment explanation
Indices: 2538455--2538487 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2538445 TTACAAGTTC
2538455 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2538488 ATTTGAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2540773 original size:3 final size:3
Alignment explanation
Indices: 2540758--2540831 Score: 107
Period size: 3 Copynumber: 24.7 Consensus size: 3
2540748 CATTTTATTC
2540758 ATA ATA GATA ATA ATA ATGA ATA ATA ATA ATA ATA AT- ATA ATA ATA
1 ATA ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
2540804 ATA AAA ATA ATA ATA ATA AT- ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2540832 GATGATGATG
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
2 4 0.06
3 55 0.85
4 6 0.09
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2540792 original size:29 final size:28
Alignment explanation
Indices: 2540758--2540833 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 28
2540748 CATTTTATTC
*
2540758 ATAATAGATAATAATAATGAATAATAATA
1 ATAATA-ATAATAATAATGAAAAATAATA
2540787 ATAATAATATAATAATAAT-AAAAATAATA
1 ATAAT-A-ATAATAATAATGAAAAATAATA
2540816 ATAATAAT-ATAATAATGA
1 ATAATAATAATAATAATGA
2540834 TGATGATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 8 0.19
27 3 0.07
28 1 0.02
29 19 0.44
30 12 0.28
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (28 bp):
ATAATAATAATAATAATGAAAAATAATA
Found at i:2542362 original size:19 final size:19
Alignment explanation
Indices: 2542338--2542375 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2542328 CATAGTCAAG
2542338 CCTAAAATTCAAATATAAC
1 CCTAAAATTCAAATATAAC
2542357 CCTAAAATTCAAATATAAC
1 CCTAAAATTCAAATATAAC
2542376 AAGTATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (19 bp):
CCTAAAATTCAAATATAAC
Found at i:2545379 original size:19 final size:18
Alignment explanation
Indices: 2545351--2545390 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2545341 ACAAATAAAC
2545351 ATAAAAT-A-AAAAATAG
1 ATAAAATAATAAAAATAG
*
2545367 ATAAAATAATAAAAATAT
1 ATAAAATAATAAAAATAG
2545385 ATAAAA
1 ATAAAA
2545391 ATAAATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 1 0.05
18 13 0.62
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
ATAAAATAATAAAAATAG
Found at i:2545380 original size:18 final size:16
Alignment explanation
Indices: 2545351--2545395 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
2545341 ACAAATAAAC
2545351 ATAAAATAAAAAATAG
1 ATAAAATAAAAAATAG
*
2545367 ATAAAATAATAAAAATAT
1 ATAAAAT-A-AAAAATAG
2545385 ATAAAAATAAA
1 AT-AAAATAAA
2545396 TAGAACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 7 0.28
17 3 0.12
18 10 0.40
19 5 0.20
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
ATAAAATAAAAAATAG
Found at i:2545464 original size:16 final size:16
Alignment explanation
Indices: 2545445--2545481 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
2545435 TATGAAATAC
2545445 AAAAATATAAATAAAT
1 AAAAATATAAATAAAT
*
2545461 AAAAATATAACTAAAT
1 AAAAATATAAATAAAT
2545477 AAAAA
1 AAAAA
2545482 CAATTGGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATATAAATAAAT
Found at i:2547086 original size:144 final size:144
Alignment explanation
Indices: 2546826--2547118 Score: 577
Period size: 144 Copynumber: 2.0 Consensus size: 144
2546816 CCATAAATTT
2546826 GTTGATTAATTAGTTATTCATTAGTGCAAGAGTTTTTAAGATAATTCAAGAAGCAAGACAAGTAC
1 GTTGATTAATTAGTTATTCATTAGTGCAAGAGTTTTTAAGATAATTCAAGAAGCAAGACAAGTAC
2546891 TCCATAATTTTGGCCAATCTATCTTAAATCGTTTGTTGTTTATTAGCGGTTAAAAGAGACATTGT
66 TCCATAATTTTGGCCAATCTATCTTAAATCGTTTGTTGTTTATTAGCGGTTAAAAGAGACATTGT
2546956 GATATACCATAAGA
131 GATATACCATAAGA
2546970 GTTGATTAATTAGTTATTCATTAGTGCAAGAGTTTTTAAGATAATTCAAGAAGCAAGACAAGTAC
1 GTTGATTAATTAGTTATTCATTAGTGCAAGAGTTTTTAAGATAATTCAAGAAGCAAGACAAGTAC
*
2547035 TCCATAATTTTGTCCAATCTATCTTAAATCGTTTGTTGTTTATTAGCGGTTAAAAGAGACATTGT
66 TCCATAATTTTGGCCAATCTATCTTAAATCGTTTGTTGTTTATTAGCGGTTAAAAGAGACATTGT
2547100 GATATACCATAAGA
131 GATATACCATAAGA
2547114 GTTGA
1 GTTGA
2547119 ATTTGAATCC
Statistics
Matches: 148, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 148 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (144 bp):
GTTGATTAATTAGTTATTCATTAGTGCAAGAGTTTTTAAGATAATTCAAGAAGCAAGACAAGTAC
TCCATAATTTTGGCCAATCTATCTTAAATCGTTTGTTGTTTATTAGCGGTTAAAAGAGACATTGT
GATATACCATAAGA
Found at i:2552547 original size:12 final size:12
Alignment explanation
Indices: 2552527--2552559 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
2552517 CAAATTATCT
*
2552527 CTTCTTTGACCA
1 CTTCATTGACCA
2552539 CTTCATTGACCA
1 CTTCATTGACCA
2552551 CTTCATTGA
1 CTTCATTGA
2552560 AGTTTGATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.39
Consensus pattern (12 bp):
CTTCATTGACCA
Found at i:2552602 original size:16 final size:16
Alignment explanation
Indices: 2552581--2552613 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2552571 GCCATAAACA
2552581 TGGACATCGCAGAGTT
1 TGGACATCGCAGAGTT
*
2552597 TGGACATTGCAGAGTT
1 TGGACATCGCAGAGTT
2552613 T
1 T
2552614 CAGACTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (16 bp):
TGGACATCGCAGAGTT
Found at i:2557817 original size:21 final size:23
Alignment explanation
Indices: 2557775--2557818 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2557765 AGAATAAACA
*
2557775 ATATATATTGTATATATGTGTAT
1 ATATATATTGTATATATATGTAT
*
2557798 ATATTTATTGTAT-T-TATGTAT
1 ATATATATTGTATATATATGTAT
2557819 CAAACATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (23 bp):
ATATATATTGTATATATATGTAT
Found at i:2559636 original size:36 final size:35
Alignment explanation
Indices: 2559585--2559662 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 35
2559575 ACTATCAAAT
* * *
2559585 ATATAAATTATTTCAAAATAAATATAAATCTTAATA
1 ATATATATTACTTCAAAATAAA-ATAAATATTAATA
* * *
2559621 ATATATATTACTTCAAAATGAAATAACTATTAGTA
1 ATATATATTACTTCAAAATAAAATAAATATTAATA
2559656 ATATATA
1 ATATATA
2559663 AATTATAACC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 17 0.47
36 19 0.53
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (35 bp):
ATATATATTACTTCAAAATAAAATAAATATTAATA
Found at i:2560035 original size:60 final size:62
Alignment explanation
Indices: 2559970--2560148 Score: 162
Period size: 60 Copynumber: 3.0 Consensus size: 62
2559960 ATAAAAAATC
* **
2559970 CAACAAAAATATATAACCAACAAATTTCAC-CAA-AAA-T-ATAACCAAAACCCAAATAAATTT
1 CAACAAAAATATAAAACCAACAAA-AAC-CTCAATAAATTGATAACCAAAACCCAAATAAATTT
*
2560030 CAAC--AAATATAAAACCAACAAAAACCTCAATAAATTGGTAACCAAAACCCAAATAAATTT
1 CAACAAAAATATAAAACCAACAAAAACCTCAATAAATTGATAACCAAAACCCAAATAAATTT
** ** * * *
2560090 CAAC--AAATA-AATAATTAACAAAAA-CTCAATGCATTGGTAACCAAAACCTAAACAAATTT
1 CAACAAAAATATAA-AACCAACAAAAACCTCAATAAATTGATAACCAAAACCCAAATAAATTT
2560149 TAGCAAATTC
Statistics
Matches: 104, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
56 1 0.01
57 4 0.04
58 20 0.19
59 34 0.33
60 45 0.43
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.20
Consensus pattern (62 bp):
CAACAAAAATATAAAACCAACAAAAACCTCAATAAATTGATAACCAAAACCCAAATAAATTT
Found at i:2560156 original size:59 final size:60
Alignment explanation
Indices: 2560008--2560148 Score: 205
Period size: 60 Copynumber: 2.4 Consensus size: 60
2559998 ACCAAAAATA
2560008 TAACCAAAACCCAAATAAATTTCAACAAATATAAAACCAACAAAAACCTCAATAAATTGG
1 TAACCAAAACCCAAATAAATTTCAACAAATATAAAACCAACAAAAACCTCAATAAATTGG
** **
2560068 TAACCAAAACCCAAATAAATTTCAACAAATA-AATAATTAACAAAAA-CTCAATGCATTGG
1 TAACCAAAACCCAAATAAATTTCAACAAATATAA-AACCAACAAAAACCTCAATAAATTGG
* *
2560127 TAACCAAAACCTAAACAAATTT
1 TAACCAAAACCCAAATAAATTT
2560149 TAGCAAATTC
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
59 33 0.45
60 41 0.55
ACGTcount: A:0.55, C:0.21, G:0.04, T:0.21
Consensus pattern (60 bp):
TAACCAAAACCCAAATAAATTTCAACAAATATAAAACCAACAAAAACCTCAATAAATTGG
Found at i:2565279 original size:17 final size:16
Alignment explanation
Indices: 2565234--2565280 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
2565224 GTGAATTATT
*
2565234 TATTTTAATAT-GTTA
1 TATTTTAATATAATTA
2565249 TATTTT-ATATTAATTA
1 TATTTTAATA-TAATTA
2565265 CTATTTTAATATAATT
1 -TATTTTAATATAATT
2565281 TAATATATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 3 0.11
15 7 0.26
16 3 0.11
17 11 0.41
18 3 0.11
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTTTAATATAATTA
Found at i:2570406 original size:18 final size:18
Alignment explanation
Indices: 2570383--2570418 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2570373 GCAGCTAATT
2570383 GTCCATCATGTTCCTCAA
1 GTCCATCATGTTCCTCAA
2570401 GTCCATCATGTTCCTCAA
1 GTCCATCATGTTCCTCAA
2570419 CTCATTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (18 bp):
GTCCATCATGTTCCTCAA
Found at i:2575302 original size:22 final size:23
Alignment explanation
Indices: 2575276--2575318 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2575266 ATGAATTAAA
*
2575276 AATTTAATA-AAAATTATATATT
1 AATTTAATATAAAATAATATATT
2575298 AATTTAATATAAAATAATATA
1 AATTTAATATAAAATAATATA
2575319 ATGATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTTAATATAAAATAATATATT
Found at i:2575325 original size:23 final size:22
Alignment explanation
Indices: 2575276--2575325 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
2575266 ATGAATTAAA
* *
2575276 AATTTAATAAAAATTATATATT
1 AATTTAATAAAAATAATATAAT
2575298 AATTTAATATAAAATAATATAAT
1 AATTTAATA-AAAATAATATAAT
*
2575321 GATTT
1 AATTT
2575326 TTTATCTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AATTTAATAAAAATAATATAAT
Found at i:2576321 original size:13 final size:12
Alignment explanation
Indices: 2576297--2576330 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
2576287 CCCGCAGGTA
2576297 CTCTTTTTTCTT
1 CTCTTTTTTCTT
*
2576309 CTGTTTTTCTCTT
1 CTCTTTTT-TCTT
2576322 CTCTTTTTT
1 CTCTTTTTT
2576331 TTTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (12 bp):
CTCTTTTTTCTT
Found at i:2583410 original size:17 final size:17
Alignment explanation
Indices: 2583388--2583425 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2583378 TTTCAAAATT
2583388 TTAAATAT-TAAATAACA
1 TTAAATATATAAATAA-A
*
2583405 TTAAATATATATATAAA
1 TTAAATATATAAATAAA
2583422 TTAA
1 TTAA
2583426 TTTATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAATATATAAATAAA
Found at i:2585927 original size:13 final size:12
Alignment explanation
Indices: 2585903--2585960 Score: 52
Period size: 13 Copynumber: 5.1 Consensus size: 12
2585893 CCTGCAGGTA
2585903 CTCTTTTTTCTT
1 CTCTTTTTTCTT
*
2585915 CTGTTTTTCTCTT
1 CTCTTTTT-TCTT
2585928 CTCTTTTTT-TT
1 CTCTTTTTTCTT
*
2585939 -T-TTTTTTGTT
1 CTCTTTTTTCTT
*
2585949 -TTTTTTTTCTT
1 CTCTTTTTTCTT
2585960 C
1 C
2585961 CAGGGCACCT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 6 0.15
10 4 0.10
11 10 0.26
12 8 0.21
13 11 0.28
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.79
Consensus pattern (12 bp):
CTCTTTTTTCTT
Done.