Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 186 of 190
Found at i:32021381 original size:23 final size:22
Alignment explanation
Indices: 32021355--32021404 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
32021345 TAAAACAATT
* *
32021355 TTAAAAAATAACCTTATTTTTCA
1 TTAAAAAATAA-ATCATTTTTCA
**
32021378 TTAATCAATAAATCATTTTTCA
1 TTAAAAAATAAATCATTTTTCA
32021400 TTAAA
1 TTAAA
32021405 CATATACTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAAAATAAATCATTTTTCA
Found at i:32039495 original size:21 final size:20
Alignment explanation
Indices: 32039460--32039515 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
32039450 TTGATAAAAT
* *
32039460 ATTAAAATTTTAATTTTAATA
1 ATTAAAA-TTAAAATTTAATA
*
32039481 ATTAAAATTAAAATTTGATA
1 ATTAAAATTAAAATTTAATA
32039501 ATTACAAATATAAAA
1 ATTA-AAAT-TAAAA
32039516 GAATTAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.47
21 11 0.37
22 5 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTAAAATTAAAATTTAATA
Found at i:32041765 original size:20 final size:20
Alignment explanation
Indices: 32041740--32041781 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
32041730 TGCATGTTCA
* *
32041740 ATTTGAAGTTAATTATTTAT
1 ATTTGAAGTTAAATATATAT
*
32041760 ATTTGAATTTAAATATATAT
1 ATTTGAAGTTAAATATATAT
32041780 AT
1 AT
32041782 AAGTAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTTGAAGTTAAATATATAT
Found at i:32044696 original size:2 final size:2
Alignment explanation
Indices: 32044691--32044731 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
32044681 CACACACATG
* * *
32044691 TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32044732 GCATATGTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32044732 original size:6 final size:6
Alignment explanation
Indices: 32044688--32044741 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
32044678 AAACACACAC
* * * * * *
32044688 ATGTAT ATATAT ATATAT ATATAT ATGTAT GTATAT ATGTAT ATGCAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
32044736 ATGTAT
1 ATGTAT
32044742 GTATTCTGGC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (6 bp):
ATGTAT
Found at i:32045004 original size:4 final size:4
Alignment explanation
Indices: 32044995--32045053 Score: 64
Period size: 4 Copynumber: 14.8 Consensus size: 4
32044985 GCATGTAAGT
* * * * * *
32044995 ATAC ATAC ATAC ATAC ATAC ATAT ATGC ATGC ATGC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
32045043 ATAC ATAC ATA
1 ATAC ATAC ATA
32045054 TATATATATA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:32045058 original size:2 final size:2
Alignment explanation
Indices: 32045051--32045075 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32045041 ACATACATAC
32045051 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32045076 GATAATCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32055451 original size:29 final size:27
Alignment explanation
Indices: 32055414--32055477 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 27
32055404 TAATTATAAA
*
32055414 TTTATAATTTAAATATCATATCAAAAATT
1 TTTAAAATTTAAATATCATAT-AAAAA-T
* *
32055443 TTTAAAATTTAAATATTATATTAAAAT
1 TTTAAAATTTAAATATCATATAAAAAT
32055470 TTTAAAAT
1 TTTAAAAT
32055478 AATTTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 9 0.28
28 4 0.12
29 19 0.59
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTAAAATTTAAATATCATATAAAAAT
Found at i:32057245 original size:21 final size:21
Alignment explanation
Indices: 32057221--32057263 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
32057211 ATAATAAAAA
32057221 TACTATTTAATATATTATTGT
1 TACTATTTAATATATTATTGT
* * * *
32057242 TACTTTTTTATTTTTTATTGT
1 TACTATTTAATATATTATTGT
32057263 T
1 T
32057264 TATTTTATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (21 bp):
TACTATTTAATATATTATTGT
Found at i:32069931 original size:83 final size:83
Alignment explanation
Indices: 32069792--32069958 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
32069782 GTATGATTGG
32069792 TCTTTGTGCATTTGAATATTAGCAAGTAAATACCTGTTGCTTAAAAAACTGAAAATTGTGTCAAT
1 TCTTTGTGCATTTGAATATTAGCAAGTAAATACCTGTTGCTTAAAAAACTGAAAATTGTGTCAAT
32069857 TTTGTGATATTTCTGTGT
66 TTTGTGATATTTCTGTGT
32069875 TCTTTGTGCATTTGAATATTAGCAAGTAAATACCTGTTGCTTAAAAAACTGAAAATTGTGTCAAT
1 TCTTTGTGCATTTGAATATTAGCAAGTAAATACCTGTTGCTTAAAAAACTGAAAATTGTGTCAAT
32069940 TTTGTGATATTTCTGTGT
66 TTTGTGATATTTCTGTGT
32069958 T
1 T
32069959 TGTATCCTTC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.43
Consensus pattern (83 bp):
TCTTTGTGCATTTGAATATTAGCAAGTAAATACCTGTTGCTTAAAAAACTGAAAATTGTGTCAAT
TTTGTGATATTTCTGTGT
Found at i:32079178 original size:32 final size:32
Alignment explanation
Indices: 32079134--32079197 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
32079124 TTTTCTCAAG
*
32079134 TTCAATGCGGTGTCTTACTAGTTAAATTACTT
1 TTCAATGAGGTGTCTTACTAGTTAAATTACTT
32079166 TTCAATGAGGTGTCTTACTAGTTAAATTACTT
1 TTCAATGAGGTGTCTTACTAGTTAAATTACTT
32079198 ATTCCTTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (32 bp):
TTCAATGAGGTGTCTTACTAGTTAAATTACTT
Found at i:32084202 original size:114 final size:114
Alignment explanation
Indices: 32084074--32084303 Score: 460
Period size: 114 Copynumber: 2.0 Consensus size: 114
32084064 CTTCTCAAAC
32084074 ATATATATATATATATATATATATGTTCTAGTGATAATAATTCCCAATCTCCATCACAGTTGAAT
1 ATATATATATATATATATATATATGTTCTAGTGATAATAATTCCCAATCTCCATCACAGTTGAAT
32084139 GAAGCGTCTTTTACTACTCCTTTGTAACATTTTCCCATGCATGGTTATG
66 GAAGCGTCTTTTACTACTCCTTTGTAACATTTTCCCATGCATGGTTATG
32084188 ATATATATATATATATATATATATGTTCTAGTGATAATAATTCCCAATCTCCATCACAGTTGAAT
1 ATATATATATATATATATATATATGTTCTAGTGATAATAATTCCCAATCTCCATCACAGTTGAAT
32084253 GAAGCGTCTTTTACTACTCCTTTGTAACATTTTCCCATGCATGGTTATG
66 GAAGCGTCTTTTACTACTCCTTTGTAACATTTTCCCATGCATGGTTATG
32084302 AT
1 AT
32084304 TCCAATGGCT
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 116 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (114 bp):
ATATATATATATATATATATATATGTTCTAGTGATAATAATTCCCAATCTCCATCACAGTTGAAT
GAAGCGTCTTTTACTACTCCTTTGTAACATTTTCCCATGCATGGTTATG
Found at i:32091388 original size:27 final size:27
Alignment explanation
Indices: 32091357--32091411 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
32091347 ACGGCTTCAA
32091357 ACGTCATGTAACATGCATCACAGTACC
1 ACGTCATGTAACATGCATCACAGTACC
*
32091384 ACGTCATGTAGCATGCATCACAGTACC
1 ACGTCATGTAACATGCATCACAGTACC
32091411 A
1 A
32091412 GGGCTGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (27 bp):
ACGTCATGTAACATGCATCACAGTACC
Found at i:32093046 original size:2 final size:2
Alignment explanation
Indices: 32093039--32093064 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32093029 CTACCATACA
32093039 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
32093065 GTTGGTGAAA
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:32095945 original size:20 final size:19
Alignment explanation
Indices: 32095895--32095948 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
32095885 TCCGAATTAT
32095895 ATTTAATTT-AATTTTTAAA
1 ATTT-ATTTAAATTTTTAAA
* *
32095914 ATAATATATAAATTTTTAAA
1 AT-TTATTTAAATTTTTAAA
32095934 ATTTGATTTAAATTT
1 ATTT-ATTTAAATTT
32095949 GAATAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTTATTTAAATTTTTAAA
Found at i:32096082 original size:17 final size:18
Alignment explanation
Indices: 32096051--32096089 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
32096041 TAATAAAATT
*
32096051 TTTAAATATTTAAATAAA
1 TTTAAATATTAAAATAAA
*
32096069 TTTAAATA-TAAAATAAT
1 TTTAAATATTAAAATAAA
32096086 TTTA
1 TTTA
32096090 TTTATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAAATATTAAAATAAA
Found at i:32111452 original size:29 final size:30
Alignment explanation
Indices: 32111401--32111469 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
32111391 TTAGTCCTTG
* *
32111401 AATTATAGTAAATTATTCAATGTAATATTTA
1 AATTATA-AAAATTATTCAATGTAATATCTA
* *
32111432 AATTTTAAAAATT-TTTAATGTAATATCTA
1 AATTATAAAAATTATTCAATGTAATATCTA
32111461 AATTATAAA
1 AATTATAAA
32111470 TTTGTTAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 22 0.67
30 5 0.15
31 6 0.18
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (30 bp):
AATTATAAAAATTATTCAATGTAATATCTA
Found at i:32112447 original size:77 final size:78
Alignment explanation
Indices: 32112366--32112635 Score: 251
Period size: 78 Copynumber: 3.4 Consensus size: 78
32112356 TTTATTTAAG
* * *
32112366 AAAATTGATATTTTTAACTTTTCTTTAAAAACGCATCTTGTTAAAAATATTTTTTG-AAAAAAAA
1 AAAATTGATACTTTTAACTTTTCTTTAAAAACGCATCTTGGTAAAAACA-TTTTTGAAAAAAAAA
32112430 -TTATTTTCTAAAA
65 TTTATTTTCTAAAA
* **** *
32112443 AAAATTGATACTTTCAACTTTT-TCTTAAAAATATTTCTTGGTAAATACATTTTTGAAAAAAAAA
1 AAAATTGATACTTTTAACTTTTCT-TTAAAAACGCATCTTGGTAAAAACATTTTTGAAAAAAAAA
*
32112507 TTTATTTTCTAAGA
65 TTTATTTTCTAAAA
* * ** ** * *
32112521 AAAATTAATACTTTTAACTTTTCCTTAAAAACGTTTCTTACTAAATACATTTTTAAAAAAAATAA
1 AAAATTGATACTTTTAACTTTTCTTTAAAAACGCATCTTGGTAAAAACATTTTT-----GAA-AA
*
32112586 AAAAATTTATTTTCTAAGA
60 AAAAATTTATTTTCTAAAA
32112605 AAAATTGATACTTTTCAACTTTT-TCTTAAAA
1 AAAATTGATACTTTT-AACTTTTCT-TTAAAA
32112636 CCATTATTTT
Statistics
Matches: 161, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
76 7 0.04
77 46 0.29
78 58 0.36
83 2 0.01
84 35 0.22
85 13 0.08
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (78 bp):
AAAATTGATACTTTTAACTTTTCTTTAAAAACGCATCTTGGTAAAAACATTTTTGAAAAAAAAAT
TTATTTTCTAAAA
Found at i:32112448 original size:17 final size:18
Alignment explanation
Indices: 32112408--32112448 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
32112398 GCATCTTGTT
*
32112408 AAAAA-TATTTTTTGAAA
1 AAAAATTATTTTCTGAAA
32112425 AAAAATTATTTTCT-AAA
1 AAAAATTATTTTCTGAAA
32112442 AAAAATT
1 AAAAATT
32112449 GATACTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAAATTATTTTCTGAAA
Found at i:32112524 original size:78 final size:78
Alignment explanation
Indices: 32112416--32112640 Score: 283
Period size: 78 Copynumber: 2.8 Consensus size: 78
32112406 TTAAAAATAT
* *
32112416 TTTTTG-AAAAAAAA-TTATTTTCTAAAAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTT
1 TTTTTGAAAAAAAAATTTATTTTCTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAACATTT
**
32112479 CTTGGTAAATACA
66 CTTACTAAATACA
* * * *
32112492 TTTTTGAAAAAAAAATTTATTTTCTAAGAAAAATTAATACTTTTAACTTTTCCTTAAAAACGTTT
1 TTTTTGAAAAAAAAATTTATTTTCTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAACATTT
32112557 CTTACTAAATACA
66 CTTACTAAATACA
*
32112570 TTTTTAAAAAAAATAAAAAAATTTATTTTCTAAGAAAAATTGATACTTTTCAACTTTTTCTTAAA
1 TTTTT-----GAA-AAAAAAATTTATTTTCTAAGAAAAATTGATAC-TTTCAACTTTTTCTTAAA
*
32112635 ACCATT
59 AACATT
32112641 ATTTTTTTAT
Statistics
Matches: 126, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
76 6 0.05
77 8 0.06
78 59 0.47
83 2 0.02
84 31 0.25
85 20 0.16
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (78 bp):
TTTTTGAAAAAAAAATTTATTTTCTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAACATTT
CTTACTAAATACA
Found at i:32114493 original size:17 final size:17
Alignment explanation
Indices: 32114473--32114510 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
32114463 GATTTGTAAT
* *
32114473 AATTGAAGATTCACAAG
1 AATTAAAGATTCACAAA
32114490 AATTAAAGATTCACAAA
1 AATTAAAGATTCACAAA
32114507 AATT
1 AATT
32114511 TCAAATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (17 bp):
AATTAAAGATTCACAAA
Found at i:32114546 original size:18 final size:18
Alignment explanation
Indices: 32114523--32114563 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
32114513 AAATTTATAA
*
32114523 AATTTTCA-ACTTTGCAAG
1 AATTTTCAGA-TTCGCAAG
32114541 AATTTTCAGATTCGCAAG
1 AATTTTCAGATTCGCAAG
32114559 AATTT
1 AATTT
32114564 AAGTTTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (18 bp):
AATTTTCAGATTCGCAAG
Found at i:32114806 original size:34 final size:35
Alignment explanation
Indices: 32114768--32114834 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
32114758 CAAGATTTTG
* *
32114768 AAAATTCACTAGAATTAAA-ATTTGCAAAAACTCA
1 AAAATTCACAAGAATTAAATATTCGCAAAAACTCA
** *
32114802 AAAATTTGCAAGAATTAAATATTCGTAAAAACT
1 AAAATTCACAAGAATTAAATATTCGCAAAAACT
32114835 TATATTTGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 16 0.59
35 11 0.41
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.28
Consensus pattern (35 bp):
AAAATTCACAAGAATTAAATATTCGCAAAAACTCA
Found at i:32114950 original size:46 final size:44
Alignment explanation
Indices: 32114900--32115040 Score: 124
Period size: 46 Copynumber: 3.1 Consensus size: 44
32114890 TTTGCATTTG
* *
32114900 AAAAACGTCTAGGGATTCACAACCAAAATTTTAAAGATTCTCATTC
1 AAAAACGTTTAGGG-TT-ACATCCAAAATTTTAAAGATTCTCATTC
* * * * * *
32114946 AAAAAAC-TTTAGTGTTTTACATTCAATATTTCAAAGGTTCTCCTT-
1 -AAAAACGTTTAG-G-GTTACATCCAAAATTTTAAAGATTCTCATTC
* * *
32114991 AAAAAAGTTTAGGGTTTCATCCAAAATTTTAAAGATTCTAATTC
1 AAAAACGTTTAGGGTTACATCCAAAATTTTAAAGATTCTCATTC
32115035 AAAAAC
1 AAAAAC
32115041 TTTGAGGACT
Statistics
Matches: 72, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
43 22 0.31
44 11 0.15
45 5 0.07
46 25 0.35
47 9 0.12
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (44 bp):
AAAAACGTTTAGGGTTACATCCAAAATTTTAAAGATTCTCATTC
Found at i:32116273 original size:8 final size:8
Alignment explanation
Indices: 32116262--32116291 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
32116252 ATTTAAGTAT
32116262 TTTTTTTA
1 TTTTTTTA
32116270 -TTTTTTA
1 TTTTTTTA
32116277 TTTTTTTA
1 TTTTTTTA
32116285 TTTTTTT
1 TTTTTTT
32116292 TCACATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:32116280 original size:15 final size:15
Alignment explanation
Indices: 32116262--32116290 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32116252 ATTTAAGTAT
32116262 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
32116277 TTTTTTTATTTTTT
1 TTTTTTTATTTTTT
32116291 TTCACATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTTATTTTTTA
Found at i:32116317 original size:18 final size:16
Alignment explanation
Indices: 32116270--32116328 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 16
32116260 ATTTTTTTTA
*
32116270 TTTTTTATTTTTTTATT
1 TTTTTTA-TTTTTCATT
32116287 TTTTTTCACATTTTCTCACTT
1 TTTTTT---ATTTT-TCA-TT
32116308 TTTTTTATTTTTCATT
1 TTTTTTATTTTTCATT
32116324 TTTTT
1 TTTTT
32116329 CACTTCATTC
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
16 7 0.19
17 9 0.25
18 5 0.14
19 4 0.11
20 3 0.08
21 8 0.22
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTATTTTTCATT
Found at i:32122660 original size:19 final size:19
Alignment explanation
Indices: 32122636--32122678 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
32122626 AAAAAAAAAA
32122636 TTGTCACTTTCGATGTGAG
1 TTGTCACTTTCGATGTGAG
32122655 TTGTCACTTTCGATGTGAG
1 TTGTCACTTTCGATGTGAG
32122674 TTGTC
1 TTGTC
32122679 CACGCTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.14, C:0.16, G:0.26, T:0.44
Consensus pattern (19 bp):
TTGTCACTTTCGATGTGAG
Found at i:32123125 original size:30 final size:30
Alignment explanation
Indices: 32123078--32123150 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
32123068 CAACAATTTA
* *
32123078 ATAA-TCATTTAAATTTTTAATATTTTATT
1 ATAATTCAATTAAATTTTTTATATTTTATT
*
32123107 ATAATT-AATTAAATTTTTTATTTTTTATT
1 ATAATTCAATTAAATTTTTTATATTTTATT
* *
32123136 TTGATTCAATTAAAT
1 ATAATTCAATTAAAT
32123151 CTTTAAATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 28 0.76
30 9 0.24
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (30 bp):
ATAATTCAATTAAATTTTTTATATTTTATT
Found at i:32149706 original size:27 final size:27
Alignment explanation
Indices: 32149676--32149730 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
32149666 TATTATTAAT
* *
32149676 ACATTCCATTTATGCATTAAAATACCA
1 ACATTCCATTCATACATTAAAATACCA
*
32149703 ACATTCTATTCATACATTAAAATACCA
1 ACATTCCATTCATACATTAAAATACCA
32149730 A
1 A
32149731 ACATAAAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.33
Consensus pattern (27 bp):
ACATTCCATTCATACATTAAAATACCA
Found at i:32151133 original size:69 final size:69
Alignment explanation
Indices: 32151045--32151183 Score: 199
Period size: 69 Copynumber: 2.0 Consensus size: 69
32151035 CCCATACCAG
* ** *
32151045 CTGACCCTACAACCATCTTACCTGCACACATATCAACGAGCTTTCAAACCTCAAACT-TTCATGA
1 CTGACCCCACAACCATCTTACCCACACACATATCAACCAGCTTTCAAACCTCAAACTCTT-ATGA
*
32151109 ATAGT
65 ACAGT
* *
32151114 CTGACCCCACAACTATCTTACCCACACATATATCAACCAGCTTTCAAACCTCAAACTCTTATGAA
1 CTGACCCCACAACCATCTTACCCACACACATATCAACCAGCTTTCAAACCTCAAACTCTTATGAA
32151179 CAGT
66 CAGT
32151183 C
1 C
32151184 CTAACACCCA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
69 60 0.97
70 2 0.03
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.25
Consensus pattern (69 bp):
CTGACCCCACAACCATCTTACCCACACACATATCAACCAGCTTTCAAACCTCAAACTCTTATGAA
CAGT
Found at i:32156674 original size:10 final size:10
Alignment explanation
Indices: 32156659--32156698 Score: 64
Period size: 10 Copynumber: 4.0 Consensus size: 10
32156649 TACTACACTT
32156659 AAAAAATGAAA
1 AAAAAATG-AA
32156670 AAAAAATGAA
1 AAAAAATGAA
32156680 AAAAAAT-AA
1 AAAAAATGAA
32156689 AAAAAATGAA
1 AAAAAATGAA
32156699 TGAAAAAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.32
10 11 0.39
11 8 0.29
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.10
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:32156675 original size:11 final size:11
Alignment explanation
Indices: 32156659--32156705 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
32156649 TACTACACTT
32156659 AAAAAATGAAA
1 AAAAAATGAAA
32156670 AAAAAATG-AA
1 AAAAAATGAAA
*
32156680 AAAAAATAAAA
1 AAAAAATGAAA
32156691 AAAATGAATGAAA
1 AAAA--AATGAAA
32156704 AA
1 AA
32156706 GGATGACTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 9 0.29
11 14 0.45
13 8 0.26
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.11
Consensus pattern (11 bp):
AAAAAATGAAA
Found at i:32157872 original size:43 final size:44
Alignment explanation
Indices: 32157792--32157975 Score: 189
Period size: 43 Copynumber: 4.3 Consensus size: 44
32157782 TTTAAAACCC
* * *
32157792 TTATTTTTCAAAACTTATTGAGCCTTCATTTAGAGGAGCTTTAT
1 TTATTTTTCAAAAGTTATTGAGCCTTTATTTAAAGGAGCTTTAT
*
32157836 TTATTTTTCAAAAGTT-TTGAGCCTTTTTTTAAAGGAGCTTTAT
1 TTATTTTTCAAAAGTTATTGAGCCTTTATTTAAAGGAGCTTTAT
* * * *
32157879 TTATTTTTC-AAAG-TATTAAGCCTCTATTTAAATGAG-TCTTAC
1 TTATTTTTCAAAAGTTATTGAGCCTTTATTTAAAGGAGCT-TTAT
* * * * * *
32157921 TTATTTTTCAAAAGTTGTTGAACCTCTATTGAGATGAGCTTT-T
1 TTATTTTTCAAAAGTTATTGAGCCTTTATTTAAAGGAGCTTTAT
*
32157964 ATATTTTTCAAA
1 TTATTTTTCAAA
32157976 GTGTTAAATG
Statistics
Matches: 119, Mismatches: 16, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 33 0.28
43 48 0.40
44 35 0.29
45 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (44 bp):
TTATTTTTCAAAAGTTATTGAGCCTTTATTTAAAGGAGCTTTAT
Found at i:32158290 original size:18 final size:19
Alignment explanation
Indices: 32158269--32158309 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32158259 TTTAAATTAT
*
32158269 AAAGTTT-AGGTTTAAATC
1 AAAGTTTGAAGTTTAAATC
*
32158287 AAAGTTTGAAGTTTAAATT
1 AAAGTTTGAAGTTTAAATC
32158306 AAAG
1 AAAG
32158310 GTAAATTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (19 bp):
AAAGTTTGAAGTTTAAATC
Found at i:32169691 original size:39 final size:39
Alignment explanation
Indices: 32169648--32169727 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
32169638 AAATTCAGAG
* * ** *
32169648 ATGTCGTGATGAAACATGTGGCAAGTAGTAGATTTAAAA
1 ATGTCATGACGAAACATGTGGCAAGTAACAGATTCAAAA
32169687 ATGTCATGACGAAACATGTGGCAAGTAACAGATTCAAAA
1 ATGTCATGACGAAACATGTGGCAAGTAACAGATTCAAAA
32169726 AT
1 AT
32169728 CATAAAACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (39 bp):
ATGTCATGACGAAACATGTGGCAAGTAACAGATTCAAAA
Found at i:32170594 original size:12 final size:12
Alignment explanation
Indices: 32170577--32170607 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
32170567 TTTAAAAAGT
32170577 AATTTAATAAAA
1 AATTTAATAAAA
*
32170589 ATTTTAATAAAA
1 AATTTAATAAAA
32170601 AATTTAA
1 AATTTAA
32170608 ACTAATAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATTTAATAAAA
Found at i:32172289 original size:16 final size:16
Alignment explanation
Indices: 32172265--32172295 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32172255 GATAAATGAT
32172265 TGATAATGATGATTTA
1 TGATAATGATGATTTA
*
32172281 TGATTATGATGATTT
1 TGATAATGATGATTT
32172296 GTAATGATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (16 bp):
TGATAATGATGATTTA
Found at i:32172986 original size:7 final size:7
Alignment explanation
Indices: 32172974--32173011 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
32172964 AGATTTTTCA
32172974 ATTTATT
1 ATTTATT
32172981 ATTTATT
1 ATTTATT
32172988 ATTTATT
1 ATTTATT
*
32172995 ATTT-TA
1 ATTTATT
32173001 ATTT-TT
1 ATTTATT
32173007 ATTTA
1 ATTTA
32173012 ATCATTTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 10 0.36
7 18 0.64
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTATT
Found at i:32173018 original size:20 final size:20
Alignment explanation
Indices: 32172981--32173018 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32172971 TCAATTTATT
*
32172981 ATTTATTATTTATTATTTTA
1 ATTTATTATTTATCATTTTA
32173001 ATTT-TTATTTAATCATTT
1 ATTTATTATTT-ATCATTT
32173019 CTAGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTATTATTTATCATTTTA
Found at i:32174684 original size:13 final size:13
Alignment explanation
Indices: 32174666--32174702 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
32174656 TACATTATTG
32174666 CTATATATAAATT
1 CTATATATAAATT
32174679 CTATATAT-AATT
1 CTATATATAAATT
*
32174691 TTATATA-AAATT
1 CTATATATAAATT
32174703 TACAAATGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
CTATATATAAATT
Found at i:32176620 original size:23 final size:25
Alignment explanation
Indices: 32176594--32176645 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
32176584 TTATGTCAAT
32176594 TTTTTTAACA-TCTAAAATT-TTTA
1 TTTTTTAACATTCTAAAATTATTTA
* * *
32176617 TTTTTTTATATTCTAAAATTATTTG
1 TTTTTTAACATTCTAAAATTATTTA
32176642 TTTT
1 TTTT
32176646 AATTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.33
24 9 0.38
25 7 0.29
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTTTAACATTCTAAAATTATTTA
Found at i:32177666 original size:2 final size:2
Alignment explanation
Indices: 32177659--32177685 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32177649 TCGTTACTCT
32177659 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32177686 TCAATTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32181883 original size:15 final size:15
Alignment explanation
Indices: 32181865--32181894 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32181855 TTAGTGGTAG
32181865 TTTAGAATGTGGTGC
1 TTTAGAATGTGGTGC
32181880 TTTAGAATGTGGTGC
1 TTTAGAATGTGGTGC
32181895 ATCACACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (15 bp):
TTTAGAATGTGGTGC
Found at i:32182599 original size:2 final size:2
Alignment explanation
Indices: 32182594--32182629 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
32182584 GTAGAAAAAA
*
32182594 AT AT AT GT 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
32182630 TAGAAACGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32182931 original size:89 final size:90
Alignment explanation
Indices: 32182823--32182989 Score: 203
Period size: 89 Copynumber: 1.9 Consensus size: 90
32182813 GATAAACACA
* * **
32182823 TTTTTTTTTTTAGTTTTTTGTG-GTTTAGGTTAAATTAATAAACAAAGTAACAAAAATTGCATTT
1 TTTTTTTTTTTAGTGTTTTG-GAGTTTAGATTAAATTAATAAACAAAACAACAAAAATTGCATTT
32182887 CTACTTTGATAAACTTGATCTTCATT
65 CTACTTTGATAAACTTGATCTTCATT
* ** * ** *
32182913 TTTTTTTTTTTTG-GTTTTGGAGTTTCTATTAAGTTAATAGGCAAAACAACAAAGATTGCATTTC
1 TTTTTTTTTTTAGTGTTTTGGAGTTTAGATTAAATTAATAAACAAAACAACAAAAATTGCATTTC
*
32182977 TATTTTGATAAAC
66 TACTTTGATAAAC
32182990 GTAGTCTTTG
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
88 1 0.02
89 51 0.80
90 12 0.19
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.48
Consensus pattern (90 bp):
TTTTTTTTTTTAGTGTTTTGGAGTTTAGATTAAATTAATAAACAAAACAACAAAAATTGCATTTC
TACTTTGATAAACTTGATCTTCATT
Found at i:32185017 original size:2 final size:2
Alignment explanation
Indices: 32185010--32185044 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
32185000 TTTACTTATC
*
32185010 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32185045 CAGAAACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:32191463 original size:2 final size:2
Alignment explanation
Indices: 32191458--32191501 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
32191448 GTGTGTGTGT
* *
32191458 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA CA GA GA GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
32191500 GA
1 GA
32191502 TTCTTTTCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32193516 original size:31 final size:31
Alignment explanation
Indices: 32193453--32193516 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
32193443 AACTGCTTTA
* * *
32193453 TCTGTAGCAGTTAGAATCTTGTTTGAGGGAC
1 TCTGTAGCAGTTAGAATCTTGTGTAAGAGAC
32193484 TCTGTAGCAGTTAGAATCTTGTGTAAGAGAC
1 TCTGTAGCAGTTAGAATCTTGTGTAAGAGAC
32193515 TC
1 TC
32193517 ACTGAGGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (31 bp):
TCTGTAGCAGTTAGAATCTTGTGTAAGAGAC
Found at i:32203610 original size:34 final size:34
Alignment explanation
Indices: 32203567--32203635 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
32203557 TAAATTTCAG
*
32203567 TTTGTTTTTT-ATTTTATTTCCTATTTCCTATTTT
1 TTTGTTTTTTCATTTT-TTTCCTATTTCATATTTT
* *
32203601 TTTGTTTTTTCCTTTTTTTCCTTTTTCATATTTT
1 TTTGTTTTTTCATTTTTTTCCTATTTCATATTTT
32203635 T
1 T
32203636 ATTTTTTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 27 0.87
35 4 0.13
ACGTcount: A:0.09, C:0.13, G:0.03, T:0.75
Consensus pattern (34 bp):
TTTGTTTTTTCATTTTTTTCCTATTTCATATTTT
Found at i:32203634 original size:18 final size:17
Alignment explanation
Indices: 32203571--32203635 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 17
32203561 TTTCAGTTTG
32203571 TTTTT-TATTTTATTTCC
1 TTTTTCTATTTT-TTTCC
* **
32203588 TATTTCCTATTTTTTTGT
1 T-TTTTCTATTTTTTTCC
*
32203606 TTTTTC-CTTTTTTTCC
1 TTTTTCTATTTTTTTCC
32203622 TTTTTCATATTTTT
1 TTTTTC-TATTTTT
32203636 ATTTTTTGGT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
16 13 0.36
17 5 0.14
18 12 0.33
19 6 0.17
ACGTcount: A:0.09, C:0.14, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTCTATTTTTTTCC
Found at i:32203767 original size:46 final size:45
Alignment explanation
Indices: 32203712--32203839 Score: 129
Period size: 46 Copynumber: 3.0 Consensus size: 45
32203702 TATTTATTTA
32203712 TTAT-TATTATTATTTTGCATGATTATTAATTAATTGCATGATAAT
1 TTATATATTATTATTTTGCATGATTATT-ATTAATTGCATGATAAT
32203757 TTATATATTA-TATTATTGCATGATTA-TATTATGATTGCATGAT-A-
1 TTATATATTATTATT-TTGCATGATTATTATTA--ATTGCATGATAAT
32203801 -TATA-A-TATTA--TTGCATGA-TATTATT--TTGCATGATAAT
1 TTATATATTATTATTTTGCATGATTATTATTAATTGCATGATAAT
32203838 TT
1 TT
32203840 TTGTTTGTTT
Statistics
Matches: 74, Mismatches: 0, Indels: 25
0.75 0.00 0.25
Matches are distributed among these distances:
35 9 0.12
36 1 0.01
38 3 0.04
39 12 0.16
41 2 0.03
42 3 0.04
43 4 0.05
44 4 0.05
45 10 0.14
46 26 0.35
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.52
Consensus pattern (45 bp):
TTATATATTATTATTTTGCATGATTATTATTAATTGCATGATAAT
Found at i:32203813 original size:20 final size:20
Alignment explanation
Indices: 32203759--32203821 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
32203749 ATGATAATTT
*
32203759 ATATATTATATTATTGCATG
1 ATATATAATATTATTGCATG
* *
32203779 AT-TATATTATGATTGCATG
1 ATATATAATATTATTGCATG
32203798 ATATATAATATTATTGCATG
1 ATATATAATATTATTGCATG
32203818 ATAT
1 ATAT
32203822 TATTTTGCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.48
Consensus pattern (20 bp):
ATATATAATATTATTGCATG
Found at i:32203831 original size:15 final size:16
Alignment explanation
Indices: 32203719--32203835 Score: 61
Period size: 19 Copynumber: 7.1 Consensus size: 16
32203709 TTATTATTAT
32203719 TATTATT-TTGCATGA
1 TATTATTATTGCATGA
32203734 TTATTAATTAATTGCATGA
1 -TATT-ATT-ATTGCATGA
*
32203753 TAAT-TTA-T--AT-A
1 TATTATTATTGCATGA
32203764 T-TATATTATTGCATGATTA
1 TAT-TATTATTGCATG---A
*
32203783 TATTATGATTGCATGATA
1 TATTATTATTGCATG--A
32203801 TATAATATTATTGCATGA
1 TAT--TATTATTGCATGA
32203819 TATTATT-TTGCATGA
1 TATTATTATTGCATGA
32203834 TA
1 TA
32203836 ATTTTTGTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 31
0.69 0.04 0.26
Matches are distributed among these distances:
11 3 0.04
12 5 0.06
13 1 0.01
14 1 0.01
15 13 0.16
16 10 0.12
17 3 0.04
18 12 0.15
19 21 0.26
20 12 0.15
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (16 bp):
TATTATTATTGCATGA
Found at i:32205185 original size:16 final size:16
Alignment explanation
Indices: 32205152--32205185 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32205142 ACCTTTTATG
*
32205152 TTGTTCTTTGCATTTA
1 TTGTTCTTTGCATATA
*
32205168 TTGTTCTTTGTATATA
1 TTGTTCTTTGCATATA
32205184 TT
1 TT
32205186 ATGTGTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.09, G:0.12, T:0.65
Consensus pattern (16 bp):
TTGTTCTTTGCATATA
Found at i:32208364 original size:11 final size:10
Alignment explanation
Indices: 32208339--32208363 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32208329 AAAAATGATG
32208339 AAAAATACAA
1 AAAAATACAA
32208349 AAAAATACAA
1 AAAAATACAA
32208359 AAAAA
1 AAAAA
32208364 AGAATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAATACAA
Found at i:32208373 original size:13 final size:13
Alignment explanation
Indices: 32208357--32208390 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
32208347 AAAAAAATAC
*
32208357 AAAAAAAAGAATG
1 AAAAAAAAGAAAG
32208370 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
32208383 AAAAAAAA
1 AAAAAAAA
32208391 ATTGATGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:32209818 original size:22 final size:22
Alignment explanation
Indices: 32209749--32209831 Score: 87
Period size: 22 Copynumber: 3.7 Consensus size: 22
32209739 TATGAAAAAA
* *
32209749 AATCTTTGAAACTTTGGATGTG
1 AATCTTTAAAATTTTGGATGTG
*
32209771 AAT-TTTAAAATTTTTTCGAATGTG
1 AATCTTTAAAA--TTTT-GGATGTG
32209795 AATCTTTAAAATTTTGGATGTG
1 AATCTTTAAAATTTTGGATGTG
* *
32209817 AATCCTTAAATTTTT
1 AATCTTTAAAATTTT
32209832 CAAATGAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
21 6 0.12
22 22 0.43
23 7 0.14
24 9 0.18
25 7 0.14
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.47
Consensus pattern (22 bp):
AATCTTTAAAATTTTGGATGTG
Found at i:32209846 original size:45 final size:45
Alignment explanation
Indices: 32209658--32209886 Score: 160
Period size: 45 Copynumber: 5.0 Consensus size: 45
32209648 TGAAATTTTT
* ** * * *
32209658 ATCTTTAAAATTTTAGATGCAAAACCCTAAAATCTTTTCAAATGAGA
1 ATCTTTAAAATTTTGGATG-TGAATCCTTAAAT-TTTTCAAATGAAA
* * * * * *
32209705 ATCTTTAAAATTTTAGATGTGAAGCCATAAAGTTTATGAAA-AAAA
1 ATCTTTAAAATTTTGGATGTGAATCCTTAAA-TTTTTCAAATGAAA
* * * * **
32209750 ATCTTTGAAACTTTGGATGTGAAT-TTTAAAATTTTTTCGAATGTGA
1 ATCTTTAAAATTTTGGATGTGAATCCTT-AAA-TTTTTCAAATGAAA
32209796 ATCTTTAAAATTTTGGATGTGAATCCTTAAATTTTTCAAATGAAA
1 ATCTTTAAAATTTTGGATGTGAATCCTTAAATTTTTCAAATGAAA
** * * * *
32209841 ATCTTT-AGCTTTTGGATATAAATCTCTAAAATTTTT-GAATGAAA
1 ATCTTTAAAATTTTGGATGTGAATC-CTTAAATTTTTCAAATGAAA
32209885 AT
1 AT
32209887 ATTTCAATTC
Statistics
Matches: 143, Mismatches: 34, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
44 24 0.17
45 58 0.41
46 39 0.27
47 22 0.15
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (45 bp):
ATCTTTAAAATTTTGGATGTGAATCCTTAAATTTTTCAAATGAAA
Found at i:32209871 original size:91 final size:90
Alignment explanation
Indices: 32209684--32209876 Score: 219
Period size: 91 Copynumber: 2.1 Consensus size: 90
32209674 ATGCAAAACC
* *
32209684 CTAAAATCTTTTCAAATGAGAATCTTTAAAATTTTAGATGTGAAGCCATAAAGTTTATGAAAAAA
1 CTAAAATTTTTTCAAATGAGAATCTTTAAAATTTTAGATGTGAAGCCATAAAGTTTATCAAAAAA
* *
32209749 AATCTTTGAAACTTTGGATGTGAATT
66 AATCTTT-AAACTTTGGATATAAATT
* * * * * * * *
32209775 TTAAAATTTTTTCGAATGTGAATCTTTAAAATTTTGGATGTGAATCCTTAAA-TTTTTCAAATGA
1 CTAAAATTTTTTCAAATGAGAATCTTTAAAATTTTAGATGTGAAGCCATAAAGTTTATCAAA-AA
*
32209839 AAATCTTT-AGCTTTTGGATATAAATCT
65 AAATCTTTAAAC-TTTGGATATAAAT-T
32209866 CTAAAATTTTT
1 CTAAAATTTTT
32209877 GAATGAAAAT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
89 2 0.02
90 18 0.21
91 65 0.76
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.41
Consensus pattern (90 bp):
CTAAAATTTTTTCAAATGAGAATCTTTAAAATTTTAGATGTGAAGCCATAAAGTTTATCAAAAAA
AATCTTTAAACTTTGGATATAAATT
Found at i:32210163 original size:18 final size:18
Alignment explanation
Indices: 32210140--32210175 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
32210130 TTTCTTGTGA
32210140 ATTTGAATTCTTACGAAT
1 ATTTGAATTCTTACGAAT
*
32210158 ATTTGAATTCTTGCGAAT
1 ATTTGAATTCTTACGAAT
32210176 CTTCCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (18 bp):
ATTTGAATTCTTACGAAT
Found at i:32210221 original size:17 final size:17
Alignment explanation
Indices: 32210194--32210238 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
32210184 TTTGTGAATC
*
32210194 TGAACATTCTTGTAAACT
1 TGAA-ATTCTTGCAAACT
*
32210212 TGAAATTCTTGCAAATT
1 TGAAATTCTTGCAAACT
*
32210229 TGAAAATCTT
1 TGAAATTCTT
32210239 ATGATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (17 bp):
TGAAATTCTTGCAAACT
Found at i:32210333 original size:18 final size:18
Alignment explanation
Indices: 32210295--32210339 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
32210285 AACCTTTGCA
*
32210295 AATCTTGAAATCTCTATG
1 AATCTTGAAATCTCTAAG
* *
32210313 AATCTTGAAATTTTTAAG
1 AATCTTGAAATCTCTAAG
*
32210331 AATTTTGAA
1 AATCTTGAA
32210340 TCATTTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (18 bp):
AATCTTGAAATCTCTAAG
Found at i:32210934 original size:19 final size:19
Alignment explanation
Indices: 32210896--32210948 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
32210886 TTAAATTTGA
*
32210896 TTTTAATTTAGATTTAAATT
1 TTTTAATTTAG-TTTTAATT
32210916 TTTTAATTTAGTTTTAATT
1 TTTTAATTTAGTTTTAATT
*
32210935 TTGTAATTTA-TTTT
1 TTTTAATTTAGTTTT
32210949 GGCTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.13
19 16 0.52
20 11 0.35
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (19 bp):
TTTTAATTTAGTTTTAATT
Found at i:32212247 original size:19 final size:20
Alignment explanation
Indices: 32212225--32212268 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
32212215 TTTAGTTTGA
32212225 TTTTT-ATTTTATTTCCAAT
1 TTTTTGATTTTATTTCCAAT
* * *
32212244 TTTTTGTTTTTTTTTTCAAT
1 TTTTTGATTTTATTTCCAAT
32212264 TTTTT
1 TTTTT
32212269 TTTCATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTGATTTTATTTCCAAT
Found at i:32212254 original size:20 final size:20
Alignment explanation
Indices: 32212231--32212268 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32212221 TTGATTTTTA
32212231 TTTTATTTCCAATTTTTTGT
1 TTTTATTTCCAATTTTTTGT
* *
32212251 TTTTTTTTTCAATTTTTT
1 TTTTATTTCCAATTTTTT
32212269 TTTCATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTATTTCCAATTTTTTGT
Found at i:32212266 original size:12 final size:13
Alignment explanation
Indices: 32212251--32212282 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
32212241 AATTTTTTGT
32212251 TTTTTTTTTCA-A
1 TTTTTTTTTCATA
32212263 TTTTTTTTTCATA
1 TTTTTTTTTCATA
32212276 TTTTTTT
1 TTTTTTT
32212283 CTATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTTTTCATA
Found at i:32212279 original size:20 final size:20
Alignment explanation
Indices: 32212225--32212279 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
32212215 TTTAGTTTGA
* *
32212225 TTTTTATTT-TATTTCCAAT
1 TTTTTGTTTATATTTTCAAT
* *
32212244 TTTTTGTTTTTTTTTTCAAT
1 TTTTTGTTTATATTTTCAAT
32212264 TTTTT-TTTCATATTTT
1 TTTTTGTTT-ATATTTT
32212280 TTTCTATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTGTTTATATTTTCAAT
Found at i:32212283 original size:11 final size:11
Alignment explanation
Indices: 32212253--32212290 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
32212243 TTTTTTGTTT
*
32212253 TTTTTTTCAATT
1 TTTTTTTC-ATA
32212265 TTTTTTTCATA
1 TTTTTTTCATA
32212276 TTTTTTTC-TA
1 TTTTTTTCATA
32212286 TTTTT
1 TTTTT
32212291 ATTGTATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 7 0.28
11 10 0.40
12 8 0.32
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTCATA
Found at i:32212443 original size:8 final size:8
Alignment explanation
Indices: 32212425--32212457 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
32212415 GCATAATAAT
32212425 TTATA-TA
1 TTATATTA
32212432 TTATATTA
1 TTATATTA
*
32212440 TTATATGA
1 TTATATTA
32212448 TTATATTA
1 TTATATTA
32212456 TT
1 TT
32212458 TTTGCATGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 5 0.22
8 18 0.78
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:32212452 original size:16 final size:15
Alignment explanation
Indices: 32212425--32212457 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
32212415 GCATAATAAT
32212425 TTATATATTATATTA
1 TTATATATTATATTA
32212440 TTATATGATTATATTA
1 TTATAT-ATTATATTA
32212456 TT
1 TT
32212458 TTTGCATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
TTATATATTATATTA
Found at i:32212466 original size:19 final size:19
Alignment explanation
Indices: 32212444--32212506 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
32212434 ATATTATTAT
32212444 ATGATTATATTATTTTTGC
1 ATGATTATATTATTTTTGC
**
32212463 ATGATTATATTATGATTGC
1 ATGATTATATTATTTTTGC
32212482 ATGA-TATATTATATTATTGC
1 ATGATTATATTAT-TT-TTGC
32212502 ATGAT
1 ATGAT
32212507 ATTATTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.22
19 21 0.57
20 8 0.22
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.51
Consensus pattern (19 bp):
ATGATTATATTATTTTTGC
Found at i:32212798 original size:100 final size:101
Alignment explanation
Indices: 32212686--32212875 Score: 258
Period size: 100 Copynumber: 1.9 Consensus size: 101
32212676 ATTTTTTAAA
* ** *
32212686 AATCCTACCAACATATTGGAGGATAATTTTTGATTAAAAATCTT-AACATATTGAAATATATGTC
1 AATCCTACCAACATATTGGAGAATAATTTTTGACAAAAAATCTTCAACATATTGAAAGATATGTC
*
32212750 TTA-AAATAAATTGTTTTTACAAACAAATAAAGTTTC
66 -TACAAATAAATTGTTTTCACAAACAAATAAAGTTTC
* * * *
32212786 AATCCTATCAACATATTGGAGAATAATTTTTGACAAAAAATCTTACCAATATATTGGAAGATATT
1 AATCCTACCAACATATTGGAGAATAATTTTTGACAAAAAATCTT--CAACATATTGAAAGATATG
32212851 TCTACAAATAAATTGTTTTCACAAA
64 TCTACAAATAAATTGTTTTCACAAA
32212876 TAAAAATTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
100 40 0.52
102 2 0.03
103 35 0.45
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (101 bp):
AATCCTACCAACATATTGGAGAATAATTTTTGACAAAAAATCTTCAACATATTGAAAGATATGTC
TACAAATAAATTGTTTTCACAAACAAATAAAGTTTC
Found at i:32214478 original size:26 final size:25
Alignment explanation
Indices: 32214419--32214484 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
32214409 CTACCTTGAT
*
32214419 TATATATATTAAATTATATTTTTAA
1 TATATATATTAAATTATATATTTAA
* * *
32214444 T-TATTTATTTAATTTTATATTTAGA
1 TATATATATTAAATTATATATTTA-A
* *
32214469 TATATGTATTATATTA
1 TATATATATTAAATTA
32214485 ATCAAATAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
24 18 0.58
25 3 0.10
26 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (25 bp):
TATATATATTAAATTATATATTTAA
Found at i:32218725 original size:16 final size:16
Alignment explanation
Indices: 32218700--32218741 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
32218690 TTGTTCATTT
*
32218700 AATTTAATTAAT-TAAA
1 AATTTTATTAATGT-AA
32218716 AATTTTATTAATGTAA
1 AATTTTATTAATGTAA
*
32218732 TATTTTATTA
1 AATTTTATTA
32218742 TAATTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 22 0.96
17 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
AATTTTATTAATGTAA
Found at i:32220063 original size:64 final size:64
Alignment explanation
Indices: 32219941--32220064 Score: 144
Period size: 64 Copynumber: 1.9 Consensus size: 64
32219931 CTCTTTTTGA
* * ***
32219941 ATTTCTAAATTTTTTACCATTTGGATTAATTTGAAAATTCTTTTTATTTCTCTTTTTTTATTGG
1 ATTTCTAAATTTTTCACCATTTGGATTAATTTGAAAATTATTTTTATTTCTAAATTTTTATTGG
* * *
32220005 ATTTCTAAATTTTTCACCATTTGGGTTAATTT-AGAATTATTTTCT-TTTTTGAAATTTTTA
1 ATTTCTAAATTTTTCACCATTTGGATTAATTTGAAAATTATTTT-TATTTCT-AAATTTTTA
32220065 AAATTTTCAC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
63 13 0.26
64 37 0.74
ACGTcount: A:0.25, C:0.09, G:0.08, T:0.58
Consensus pattern (64 bp):
ATTTCTAAATTTTTCACCATTTGGATTAATTTGAAAATTATTTTTATTTCTAAATTTTTATTGG
Found at i:32220513 original size:6 final size:7
Alignment explanation
Indices: 32220484--32220517 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
32220474 TCTAAAAAAA
32220484 ATATTTT
1 ATATTTT
32220491 ATATTTT
1 ATATTTT
32220498 ATATTTT
1 ATATTTT
32220505 ATA-TTT
1 ATATTTT
32220511 ATATTTT
1 ATATTTT
32220518 TTAAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATATTTT
Found at i:32220518 original size:14 final size:14
Alignment explanation
Indices: 32220484--32220517 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
32220474 TCTAAAAAAA
32220484 ATATTTTATATTTT
1 ATATTTTATATTTT
32220498 ATATTTTATA-TTT
1 ATATTTTATATTTT
32220511 ATATTTT
1 ATATTTT
32220518 TTAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:32220525 original size:15 final size:15
Alignment explanation
Indices: 32220484--32220526 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
32220474 TCTAAAAAAA
32220484 ATATTTTATATTT-T
1 ATATTTTATATTTAT
32220498 ATATTTTATATTTAT
1 ATATTTTATATTTAT
* *
32220513 ATTTTTTAAATTTA
1 ATATTTTATATTTA
32220527 ATAATGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATTTTATATTTAT
Found at i:32221369 original size:7 final size:8
Alignment explanation
Indices: 32221338--32221368 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
32221328 TTCAACCACC
32221338 TTTTTTTCA
1 TTTTTTT-A
32221347 TTTTTTTA
1 TTTTTTTA
32221355 TTTTTTTA
1 TTTTTTTA
32221363 TTTTTT
1 TTTTTT
32221369 AATTAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:32221637 original size:41 final size:41
Alignment explanation
Indices: 32221527--32221780 Score: 232
Period size: 41 Copynumber: 6.1 Consensus size: 41
32221517 TACTCATACT
* *
32221527 TCCTCTAAATAGAGGC-TCAACAACCTTGAAAAATAAAATTAAGC
1 TCCTCTAAACAGAGGCAT-AACAACTTTGAAAAAT-AAA--AAGC
*
32221571 TCCTCTAATCAGA-G-ATTCAACAACTTTGAAAAATAAAAAGC
1 TCCTCTAAACAGAGGCA-T-AACAACTTTGAAAAATAAAAAGC
* *
32221612 TCCTCTAATA-AGAGGCATAATAACTTT-AGAAAATAAAAGGC
1 TCCTCTAA-ACAGAGGCATAACAACTTTGA-AAAATAAAAAGC
* * * *
32221653 TCATCTAAACAAAGGCACAACAACTTTGAAAAATAAAAGGC
1 TCCTCTAAACAGAGGCATAACAACTTTGAAAAATAAAAAGC
* * * *
32221694 TCTTCTAAACAGGGGCACAACAACGTTGAAAAATAAAAAGC
1 TCCTCTAAACAGAGGCATAACAACTTTGAAAAATAAAAAGC
* * * *
32221735 TCCTCTAAACAAAGGTACAACAACTTTGGAAAAT-AAAAGAC
1 TCCTCTAAACAGAGGCATAACAACTTTGAAAAATAAAAAG-C
32221776 TCCTC
1 TCCTC
32221781 AACAATCATG
Statistics
Matches: 180, Mismatches: 21, Indels: 21
0.81 0.09 0.09
Matches are distributed among these distances:
40 7 0.04
41 137 0.76
42 3 0.02
43 5 0.03
44 28 0.16
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (41 bp):
TCCTCTAAACAGAGGCATAACAACTTTGAAAAATAAAAAGC
Found at i:32221687 original size:82 final size:82
Alignment explanation
Indices: 32221527--32221780 Score: 262
Period size: 82 Copynumber: 3.1 Consensus size: 82
32221517 TACTCATACT
* * * * * * ***
32221527 TCCTCTAAATAGAGGCTCAACAACCTTGAAAAATAAAATTAAGCTCCTCTAATCAGAGATTCAAC
1 TCCTCTAAACAGAGGCACAACAACGTTGAAAAAT-AAA--AAGCTCATCTAAACAAAGGCACAAC
32221592 AACTTTGAAAAATAAAAAGC
63 AACTTTGAAAAATAAAAAGC
* * * *
32221612 TCCTCTAATA-AGAGGCATAATAAC-TTTAGAAAATAAAAGGCTCATCTAAACAAAGGCACAACA
1 TCCTCTAA-ACAGAGGCACAACAACGTTGA-AAAATAAAAAGCTCATCTAAACAAAGGCACAACA
*
32221675 ACTTTGAAAAATAAAAGGC
64 ACTTTGAAAAATAAAAAGC
* * * *
32221694 TCTTCTAAACAGGGGCACAACAACGTTGAAAAATAAAAAGCTCCTCTAAACAAAGGTACAACAAC
1 TCCTCTAAACAGAGGCACAACAACGTTGAAAAATAAAAAGCTCATCTAAACAAAGGCACAACAAC
*
32221759 TTTGGAAAAT-AAAAGAC
66 TTTGAAAAATAAAAAG-C
32221776 TCCTC
1 TCCTC
32221781 AACAATCATG
Statistics
Matches: 141, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
81 5 0.04
82 102 0.72
83 3 0.02
84 6 0.04
85 24 0.17
86 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (82 bp):
TCCTCTAAACAGAGGCACAACAACGTTGAAAAATAAAAAGCTCATCTAAACAAAGGCACAACAAC
TTTGAAAAATAAAAAGC
Found at i:32233149 original size:53 final size:55
Alignment explanation
Indices: 32233064--32233168 Score: 142
Period size: 53 Copynumber: 1.9 Consensus size: 55
32233054 TTTTTATTGG
* * *
32233064 ATTTCTAAATTTTTCACCATTTTGGTCAATTT-AGAAA-TATTTTCTTTTTTGAA
1 ATTTCTAAATTTTTCACCATTTGGGCCAATTTAAAAAATTATTTTCTTTTTTGAA
* * *
32233117 ATTTCTAAATTTTTCACTATTTGGGCCTATTTAAAAAATTTTTTTCTTTTTT
1 ATTTCTAAATTTTTCACCATTTGGGCCAATTTAAAAAATTATTTTCTTTTTT
32233169 CCCTTTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
53 28 0.64
54 4 0.09
55 12 0.27
ACGTcount: A:0.27, C:0.11, G:0.07, T:0.55
Consensus pattern (55 bp):
ATTTCTAAATTTTTCACCATTTGGGCCAATTTAAAAAATTATTTTCTTTTTTGAA
Found at i:32233578 original size:6 final size:7
Alignment explanation
Indices: 32233557--32233589 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
32233547 TTTCAAAAAA
32233557 ATATTTT
1 ATATTTT
32233564 ATATTTT
1 ATATTTT
32233571 AT-TTTT
1 ATATTTT
32233577 AT-TTTT
1 ATATTTT
32233583 ATATTTT
1 ATATTTT
32233590 TTTCAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
ATATTTT
Found at i:32236065 original size:35 final size:35
Alignment explanation
Indices: 32235976--32236071 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 35
32235966 TAAGTTAAAG
*
32235976 CATGTCCATTGTTACTAAACAAAAAAATCCTACAAC
1 CATGTCCATTGTTACTAAAC-TAAAAATCCTACAAC
* * * * *
32236012 CATGTCCATTTTTACTAAACTAAACATTCTATAGC
1 CATGTCCATTGTTACTAAACTAAAAATCCTACAAC
*
32236047 CATGTCCATTGTTCCTAAA-TAAAAA
1 CATGTCCATTGTTACTAAACTAAAAA
32236072 CACTCTCCAC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 5 0.10
35 27 0.53
36 19 0.37
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (35 bp):
CATGTCCATTGTTACTAAACTAAAAATCCTACAAC
Found at i:32238007 original size:3 final size:3
Alignment explanation
Indices: 32237999--32238079 Score: 80
Period size: 3 Copynumber: 28.0 Consensus size: 3
32237989 TTTTTATTGC
* * *
32237999 TAT TAT TAT TTT TAT TAG TAT TAT TAT TGA- TAT TGT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* *
32238043 TAT TA- TAT TA- TAT TAT TAT TAT TAT CAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32238080 CCAGTATGCC
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
2 7 0.11
3 55 0.87
4 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:32238026 original size:30 final size:31
Alignment explanation
Indices: 32237992--32238079 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 31
32237982 GGATAGATTT
*
32237992 TTATTGCTATTATTAT-TT-TTATTAGTATTA
1 TTATTGATATTATTATATTATTATTA-TATTA
*
32238022 TTATTGATATTGTTATATTATTATTATATTA
1 TTATTGATATTATTATATTATTATTATATTA
*
32238053 -TATT-ATTATTATTATCATTGTTATTAT
1 TTATTGA-TATTATTAT-ATTATTATTAT
32238080 CCAGTATGCC
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
29 1 0.02
30 26 0.52
31 17 0.34
32 6 0.12
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (31 bp):
TTATTGATATTATTATATTATTATTATATTA
Found at i:32238795 original size:26 final size:26
Alignment explanation
Indices: 32238766--32238815 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
32238756 GATAGGATTT
32238766 TAGAGAGAAATGAGAGAGTATTTGGC
1 TAGAGAGAAATGAGAGAGTATTTGGC
32238792 TAGAGAGAAATGAGAGAGTATTTG
1 TAGAGAGAAATGAGAGAGTATTTG
32238816 AGGAAAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.34, T:0.24
Consensus pattern (26 bp):
TAGAGAGAAATGAGAGAGTATTTGGC
Found at i:32238954 original size:5 final size:5
Alignment explanation
Indices: 32238941--32239061 Score: 61
Period size: 5 Copynumber: 22.4 Consensus size: 5
32238931 TAATCGCAGG
* *
32238941 TTTTT TTTTA TTTTAA TTTTA -TTT- TTTGA TTTTA GTTTTTA TTTTATA
1 TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA --TTTTA -TTT-TA
**
32238989 TTTTA AGTTA TTTTA TTTTTA TTTTTA TTTTCA TTTT- TTATTCA TTTTA
1 TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A TTTTA TT-TT-A TTTTA
32239038 TTTTA TCATTTA -TTTA CTTTTA TT
1 TTTTA T--TTTA TTTTA -TTTTA TT
32239062 GAGTAGCTTA
Statistics
Matches: 94, Mismatches: 7, Indels: 30
0.72 0.05 0.23
Matches are distributed among these distances:
4 11 0.12
5 36 0.38
6 34 0.36
7 13 0.14
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:32238966 original size:12 final size:12
Alignment explanation
Indices: 32238946--32239026 Score: 64
Period size: 12 Copynumber: 6.8 Consensus size: 12
32238936 GCAGGTTTTT
32238946 TTTTA-TTTTAA
1 TTTTATTTTTAA
*
32238957 TTTTATTTTTTGA
1 TTTTA-TTTTTAA
32238970 TTTTAGTTTTT-A
1 TTTTA-TTTTTAA
32238982 TTTTATATTTTAA
1 TTTTAT-TTTTAA
* *
32238995 -GTTA-TTTTAT
1 TTTTATTTTTAA
32239005 TTTTATTTTT-A
1 TTTTATTTTTAA
32239016 TTTTCATTTTT
1 TTTT-ATTTTT
32239027 TATTCATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
10 5 0.09
11 13 0.23
12 23 0.40
13 16 0.28
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.75
Consensus pattern (12 bp):
TTTTATTTTTAA
Found at i:32239052 original size:17 final size:15
Alignment explanation
Indices: 32238941--32239061 Score: 75
Period size: 17 Copynumber: 7.5 Consensus size: 15
32238931 TAATCGCAGG
*
32238941 TTTTTTTTTATTTTA
1 TTTTTATTTATTTTA
* *
32238956 ATTTTATTT-TTTGA
1 TTTTTATTTATTTTA
*
32238970 TTTTAGTTTTTATTTTA
1 TTTT--TATTTATTTTA
*
32238987 TATTTTAAGTTATTTTA
1 T-TTTT-ATTTATTTTA
32239004 TTTTTATTTTTATTTTCA
1 TTTTTA--TTTATTTT-A
*
32239022 TTTTTTATTCATTTTA
1 -TTTTTATTTATTTTA
32239038 TTTTATCATTTA-TTTA
1 TTTT-T-ATTTATTTTA
*
32239054 CTTTTATT
1 TTTTTATT
32239062 GAGTAGCTTA
Statistics
Matches: 83, Mismatches: 12, Indels: 23
0.70 0.10 0.19
Matches are distributed among these distances:
14 10 0.12
15 13 0.16
16 18 0.22
17 32 0.39
18 4 0.05
19 6 0.07
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTTTATTTATTTTA
Found at i:32239058 original size:22 final size:22
Alignment explanation
Indices: 32239006--32239061 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
32238996 TTATTTTATT
**
32239006 TTTATTTTTATTTTCATTTTTTA
1 TTTA-TTTTATTTTCATCATTTA
*
32239029 TTCATTTTATTTT-ATCATTTA
1 TTTATTTTATTTTCATCATTTA
32239050 TTTACTTTTATT
1 TTTA-TTTTATT
32239062 GAGTAGCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.32
22 16 0.57
23 3 0.11
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTATTTTATTTTCATCATTTA
Found at i:32240136 original size:16 final size:16
Alignment explanation
Indices: 32240115--32240145 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32240105 GCTCAAGGTC
32240115 GATTTTCATACAACAA
1 GATTTTCATACAACAA
*
32240131 GATTTTCATGCAACA
1 GATTTTCATACAACA
32240146 CCAAGACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (16 bp):
GATTTTCATACAACAA
Found at i:32241600 original size:20 final size:20
Alignment explanation
Indices: 32241556--32241600 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
32241546 ATTTTAAAAA
* *
32241556 ATATTTTTTGAAATATATTT
1 ATATTTTTTAAAAAATATTT
32241576 ATATTTTTTAAAAAAATATTT
1 ATATTTTTT-AAAAAATATTT
32241597 -TATT
1 ATATT
32241601 ATTTGGATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATTTTTTAAAAAATATTT
Found at i:32241651 original size:31 final size:32
Alignment explanation
Indices: 32241578--32241651 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
32241568 ATATATTTAT
32241578 ATTTTTTAAAAAAATATTTTATTATTTGGATG
1 ATTTTTTAAAAAAATATTTTATTATTTGGATG
* ** * *
32241610 AATTAAT-AAAAAATATTTTTATTGTTTGGTTG
1 ATTTTTTAAAAAAATA-TTTTATTATTTGGATG
32241642 -TTTTTTAAAA
1 ATTTTTTAAAA
32241652 TTTTTATTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
31 11 0.34
32 21 0.66
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (32 bp):
ATTTTTTAAAAAAATATTTTATTATTTGGATG
Found at i:32242192 original size:428 final size:429
Alignment explanation
Indices: 32241677--32242539 Score: 1225
Period size: 428 Copynumber: 2.0 Consensus size: 429
32241667 ATAATATTGA
* * *
32241677 TATAATTATTAAAATTGATTTTTTATTAAAATAATAAATTTATTTTTAAATTATTAATATTTAAA
1 TATAAATATTAAAAATGATTTATTATTAAAATAATAAATTTATTTTTAAATTATTAATATTTAAA
* * **
32241742 ATTAGTTATATTATTTTAATAATATTTAGTATTAAAATATTATACACTTAAAACAAGCCTATTTA
66 ATTAGTTATATTATTATAATAATATTTAATATTAAAATATTATACACTTAAAACAAAACTATTTA
* * * *
32241807 TTTTTAATATGTTAATATTTAAAATAGTATTACAATTATTAAAATGGTGTTTCTATTAATATAAT
131 TTTTTAATATATTAATAATTAAAATAGTATTACAATTATTAAAATAGTGTTTATATTAATATAAT
* * **
32241872 AATATTAAAAAC-CATAATA-TTT-ATTACTAAATATTTAAAATATTTATACTATTAAA-AAAGT
196 AATATT-AAAACTAATAATATTTTGATTA--AAATATTAAAAATATCCATACTATTAAATAAAGT
* * *
32241933 GTATTTTATATTAAAAATA-TTATTATTAAATCATAAAAAAGTATTATTTATTTATTATTCAAAT
258 ATATTTTATATTAAAAATATTTATTATTAAATCATAAAAAAGTATAATTTACTTATTATTCAAAT
* * *
32241997 ATAAATATAAATATATTTATCACTAAAATATAAAAAATAATATATTACTGAAATTTTGGTTCCAA
323 AGAAATATAAATACATTTATCAATAAAATATAAAAAATAATATATTACTGAAATTTTGGTTCCAA
* * *
32242062 ACTTTTTATTTTTTAGGGAATGAGAAGGAAAAAGGAATAAAG
388 ACTTTTTATTTTATAGAGAAGGAGAAGGAAAAAGGAATAAAG
* * *
32242104 TATAAATATTAAAAATGATTTATTATTAAAATAATAAGTTTATTATTTAAGTTCTTAATATTTAA
1 TATAAATATTAAAAATGATTTATTATTAAAATAATAAATTTATT-TTTAAATTATTAATATTTAA
*
32242169 AATTAGTTATATT-TTAATAATAATATTTAATATTAAAATATTATACACTTAAAATAAAACTATT
65 AATTAGTTATATTATT-ATAATAATATTTAATATTAAAATATTATACACTTAAAACAAAACTATT
* * *
32242233 TATTTTTCATATATTAATAATTAAAATAGTATTACTATTATTAAAATATTGTTTATATTAATATA
129 TATTTTTAATATATTAATAATTAAAATAGTATTACAATTATTAAAATAGTGTTTATATTAATATA
* *
32242298 ATAATATTAAAACTAATAATATTTTGATTAAAATATTAAAAATATCCATACTATTAAATTAATTA
194 ATAATATTAAAACTAATAATATTTTGATTAAAATATTAAAAATATCCATACTATTAAATAAAGTA
* * **
32242363 TATTTTATATTAAAAATATTTATTGTTAAATCATAAAAAATTATAATTTACTTATTATTCAGGTA
259 TATTTTATATTAAAAATATTTATTATTAAATCATAAAAAAGTATAATTTACTTATTATTCAAATA
* * * * * * *
32242428 GCAATGTAAATACATTTATCAATAAATTTTAAAAAATAATATATTATTGAAATTTTGGTTTCAAG
324 GAAATATAAATACATTTATCAATAAAATATAAAAAATAATATATTACTGAAATTTTGGTTCCAAA
*
32242493 CTTTTTATTTTATAGAGAAGGAGAAGGAAAAAGTAATAAAG
389 CTTTTTATTTTATAGAGAAGGAGAAGGAAAAAGGAATAAAG
*
32242534 TCTAAA
1 TATAAA
32242540 AAAAAGCTCC
Statistics
Matches: 383, Mismatches: 46, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
427 47 0.12
428 171 0.45
429 24 0.06
430 141 0.37
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (429 bp):
TATAAATATTAAAAATGATTTATTATTAAAATAATAAATTTATTTTTAAATTATTAATATTTAAA
ATTAGTTATATTATTATAATAATATTTAATATTAAAATATTATACACTTAAAACAAAACTATTTA
TTTTTAATATATTAATAATTAAAATAGTATTACAATTATTAAAATAGTGTTTATATTAATATAAT
AATATTAAAACTAATAATATTTTGATTAAAATATTAAAAATATCCATACTATTAAATAAAGTATA
TTTTATATTAAAAATATTTATTATTAAATCATAAAAAAGTATAATTTACTTATTATTCAAATAGA
AATATAAATACATTTATCAATAAAATATAAAAAATAATATATTACTGAAATTTTGGTTCCAAACT
TTTTATTTTATAGAGAAGGAGAAGGAAAAAGGAATAAAG
Found at i:32242314 original size:15 final size:14
Alignment explanation
Indices: 32242287--32242320 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
32242277 AATATTGTTT
*
32242287 ATATTAATATAATA
1 ATATTAAAATAATA
32242301 ATATTAAAACTAATA
1 ATATTAAAA-TAATA
32242316 ATATT
1 ATATT
32242321 TTGATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATTAAAATAATA
Found at i:32251748 original size:36 final size:37
Alignment explanation
Indices: 32251701--32251772 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
32251691 ATTTCCTTTT
32251701 TTTAAAATATTAA-CAAAGGTAATTGATTGATGATTC
1 TTTAAAATATTAATCAAAGGTAATTGATTGATGATTC
*
32251737 TTTAAAATATTAATTAAAGGTAATTGATTGATGATT
1 TTTAAAATATTAATCAAAGGTAATTGATTGATGATT
32251773 ATTCCACTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 13 0.38
37 21 0.62
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.42
Consensus pattern (37 bp):
TTTAAAATATTAATCAAAGGTAATTGATTGATGATTC
Found at i:32253894 original size:2 final size:2
Alignment explanation
Indices: 32253887--32253911 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32253877 AGATGATTAA
32253887 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
32253912 CCGCCACAGC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:32257937 original size:72 final size:71
Alignment explanation
Indices: 32257820--32258034 Score: 342
Period size: 72 Copynumber: 3.0 Consensus size: 71
32257810 ACAAAACAAG
32257820 TAATTATAAGAATTTTACTTGTTTTGAAATACGAAGACGTGAGGATATCAAATCAAAAATTTTAA
1 TAATTATAAGAATTTTACTTGTTTTG-AATACGAAGACGTGAGGATATCAAATCAAAAATTTTAA
32257885 ATAAAAA
65 ATAAAAA
*
32257892 TAATTATAAGAATTTTACTTGTTTTGACATGCGAAGACGTGAGGATATCAAATCAAAAATTTTAA
1 TAATTATAAGAATTTTACTTGTTTTGA-ATACGAAGACGTGAGGATATCAAATCAAAAATTTTAA
*
32257957 ATAAAAG
65 ATAAAAA
* * *
32257964 TAATTATAAGAAATTTT-CTTGTTTTGAAGTACGTAGACGCGAGCATATCAAATCAAAAATTTTA
1 TAATTATAAG-AATTTTACTTGTTTTGAA-TACGAAGACGTGAGGATATCAAATCAAAAATTTTA
32258028 AATAAAA
64 AATAAAA
32258035 TTATACATGG
Statistics
Matches: 134, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
71 2 0.01
72 126 0.94
73 6 0.04
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (71 bp):
TAATTATAAGAATTTTACTTGTTTTGAATACGAAGACGTGAGGATATCAAATCAAAAATTTTAAA
TAAAAA
Found at i:32259366 original size:3 final size:3
Alignment explanation
Indices: 32259358--32259388 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
32259348 AAAAATTTAC
32259358 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32259389 AAAGAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:32259527 original size:3 final size:3
Alignment explanation
Indices: 32259519--32259567 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
32259509 GAAAAAGTTT
32259519 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32259567 T
1 T
32259568 GCATATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32260779 original size:12 final size:13
Alignment explanation
Indices: 32260756--32260786 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
32260746 GCTTTTTATC
32260756 TTTTTTATTTTTA
1 TTTTTTATTTTTA
32260769 TTTTTTA-TTTTA
1 TTTTTTATTTTTA
32260781 TTTTTT
1 TTTTTT
32260787 TAATTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:32260787 original size:13 final size:14
Alignment explanation
Indices: 32260749--32260788 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
32260739 CCCTCATGCT
*
32260749 TTTTATCTTTTTTA
1 TTTTATATTTTTTA
32260763 TTTT-TATTTTTTA
1 TTTTATATTTTTTA
32260776 TTTTAT-TTTTTTA
1 TTTTATATTTTTTA
32260789 ATTAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTATATTTTTTA
Found at i:32262325 original size:23 final size:23
Alignment explanation
Indices: 32262299--32262384 Score: 120
Period size: 23 Copynumber: 3.7 Consensus size: 23
32262289 ATTACGAGGT
*
32262299 TTTAGGGTTTAGAGATTTT-AGTA
1 TTTAGGGTTTA-AGGTTTTAAGTA
32262322 TTTAGGGTTTAAGGTTTTAAGTA
1 TTTAGGGTTTAAGGTTTTAAGTA
* *
32262345 TTTAAGGTTTAAGGTTTTGAGTA
1 TTTAGGGTTTAAGGTTTTAAGTA
*
32262368 TTTAGGGTTTAAAGTTT
1 TTTAGGGTTTAAGGTTT
32262385 AGAGTTTAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 6 0.11
23 51 0.89
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (23 bp):
TTTAGGGTTTAAGGTTTTAAGTA
Found at i:32262389 original size:23 final size:24
Alignment explanation
Indices: 32262299--32262408 Score: 97
Period size: 23 Copynumber: 4.8 Consensus size: 24
32262289 ATTACGAGGT
* *
32262299 TTTAGGGTTTAGAGATTT-TAGTA
1 TTTAGGGTTTAAAGATTTAGAGTA
* *
32262322 TTTAGGGTTTAAGGTTTTA-AGTA
1 TTTAGGGTTTAAAGATTTAGAGTA
* * *
32262345 TTTAAGGTTT-AAGGTTTTGAGTA
1 TTTAGGGTTTAAAGATTTAGAGTA
32262368 TTTAGGGTTTAAAG-TTTAGAG--
1 TTTAGGGTTTAAAGATTTAGAGTA
* *
32262389 TTTAGGTTTTGAAGATTTAG
1 TTTAGGGTTTAAAGATTTAG
32262409 GATTTTGATT
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
21 12 0.17
22 10 0.14
23 47 0.65
24 3 0.04
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (24 bp):
TTTAGGGTTTAAAGATTTAGAGTA
Found at i:32262446 original size:23 final size:22
Alignment explanation
Indices: 32262294--32262452 Score: 85
Period size: 23 Copynumber: 7.0 Consensus size: 22
32262284 TTGGGATTAC
*
32262294 GAGGTTTTAGGGTTTAGAGATTT
1 GAGGTTTTAGGGTTTA-AGGTTT
*
32262317 TA-GTATTTAGGGTTTAAGGTTT
1 GAGGT-TTTAGGGTTTAAGGTTT
* * *
32262339 TAAGTATTTAAGGTTTAAGGTTTT
1 GAGGT-TTTAGGGTTTAAGG-TTT
*
32262363 GA-GTATTTAGGGTTTAAAGTTT
1 GAGGT-TTTAGGGTTTAAGGTTT
* *
32262385 -AGAG-TTTAGGTTTTGAAGATTT
1 GAG-GTTTTAGGGTTT-AAGGTTT
***
32262407 -AGGATTTTGATTATTTAAGGTTT
1 GAGG-TTTT-AGGGTTTAAGGTTT
*
32262430 GAGGTTTTGAGGGTTTAGGGTTT
1 GAGGTTTT-AGGGTTTAAGGTTT
32262453 TAAAGGTTTA
Statistics
Matches: 109, Mismatches: 17, Indels: 20
0.75 0.12 0.14
Matches are distributed among these distances:
21 11 0.10
22 19 0.17
23 68 0.62
24 11 0.10
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (22 bp):
GAGGTTTTAGGGTTTAAGGTTT
Found at i:32262511 original size:16 final size:16
Alignment explanation
Indices: 32262490--32262531 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
32262480 GTTTAAAGTG
32262490 TTTTAGGATTTTCAAA
1 TTTTAGGATTTTCAAA
*
32262506 TTTTAGG-GTTTCAAA
1 TTTTAGGATTTTCAAA
32262521 TTTT-GGATTTT
1 TTTTAGGATTTT
32262532 TAGGGTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 2 0.09
15 14 0.61
16 7 0.30
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.55
Consensus pattern (16 bp):
TTTTAGGATTTTCAAA
Found at i:32262524 original size:55 final size:55
Alignment explanation
Indices: 32262465--32262629 Score: 165
Period size: 55 Copynumber: 3.0 Consensus size: 55
32262455 AAGGTTTAGC
* *
32262465 ATTTT-GAGTTTTAAGGTTTAAAGTGTTT-TAGGATTTTCAAATTTTAGGGTTTCAA
1 ATTTTGGAGTTTTAAGGTTTAAAGAGTTTAAAGG--TTTCAAATTTTAGGGTTTCAA
* * **
32262520 ATTTTGGATTTTTAGGGTTTTGAGAGTTTAAAGGTTTCAAATTTTAGGGTTTCAA
1 ATTTTGGAGTTTTAAGGTTTAAAGAGTTTAAAGGTTTCAAATTTTAGGGTTTCAA
* * * * ** *
32262575 AATTTAGA-TTTTTAGAGTTTGAAGAGTTTAAAGGTTTGGAATTTTATGGTTTCAA
1 ATTTTGGAGTTTTAAG-GTTTAAAGAGTTTAAAGGTTTCAAATTTTAGGGTTTCAA
32262630 GGGTTTTAGA
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
54 5 0.05
55 66 0.72
56 18 0.20
57 3 0.03
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.47
Consensus pattern (55 bp):
ATTTTGGAGTTTTAAGGTTTAAAGAGTTTAAAGGTTTCAAATTTTAGGGTTTCAA
Found at i:32262572 original size:15 final size:15
Alignment explanation
Indices: 32262552--32262581 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32262542 AGAGTTTAAA
*
32262552 GGTTTCAAATTTTAG
1 GGTTTCAAAATTTAG
32262567 GGTTTCAAAATTTAG
1 GGTTTCAAAATTTAG
32262582 ATTTTTAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (15 bp):
GGTTTCAAAATTTAG
Found at i:32262712 original size:15 final size:16
Alignment explanation
Indices: 32262687--32262720 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
32262677 TTTTTAAGAT
32262687 TTTGAGAGTTTTAGGG
1 TTTGAGAGTTTTAGGG
*
32262703 TTTG-GAGTTTTATGG
1 TTTGAGAGTTTTAGGG
32262718 TTT
1 TTT
32262721 CAATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (16 bp):
TTTGAGAGTTTTAGGG
Found at i:32262764 original size:32 final size:32
Alignment explanation
Indices: 32262723--32262783 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
32262713 TATGGTTTCA
32262723 ATTTTAAAGTTTTAAAATTTTG-AGGTTTAAG
1 ATTTTAAAGTTTTAAAATTTTGAAGGTTTAAG
32262754 ATTTTGAAAGTTTTAAAATTTTGAAGGTTT
1 ATTTT-AAAGTTTTAAAATTTTGAAGGTTT
32262784 TGATGGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 5 0.18
32 17 0.61
33 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.49
Consensus pattern (32 bp):
ATTTTAAAGTTTTAAAATTTTGAAGGTTTAAG
Found at i:32262774 original size:17 final size:17
Alignment explanation
Indices: 32262722--32262784 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
32262712 TTATGGTTTC
32262722 AATTTT-AAAGTTTTAA
1 AATTTTGAAAGTTTTAA
*
32262738 AATTTTG--AGGTTTAA
1 AATTTTGAAAGTTTTAA
*
32262753 GATTTTGAAAGTTTTAA
1 AATTTTGAAAGTTTTAA
*
32262770 AATTTTGAAGGTTTT
1 AATTTTGAAAGTTTT
32262785 GATGGTTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
15 13 0.33
16 6 0.15
17 20 0.51
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
AATTTTGAAAGTTTTAA
Found at i:32262926 original size:157 final size:156
Alignment explanation
Indices: 32262648--32262940 Score: 385
Period size: 157 Copynumber: 1.9 Consensus size: 156
32262638 GAAGTTTAGG
* * * * *
32262648 GTTTTGATTTTAGTGTTTCAAATTTTGAATTTTTAAGATTTTGAGAGTTTTAGGGTTTGGAGTTT
1 GTTTCGATTTTAGTGTTTCAAAATTTGAATTTTTAAGATTTTGAAAGTTTTAGGATTTAGAGTTT
* * *
32262713 TATGGTTTCAATTTTAAAGTTTTAAAATTTTGAGGTTTAAGATTTTGAAAGTTTTAAAATTTTGA
66 TAGGGTTTCAATTTTAAAGTTTTAAAATTTCGAGATTTAAGATTTTGAAAGTTTTAAAATTTTG-
32262778 AGGTTTTGATGGTTTTGAAGGTTGAAA
130 AGGTTTTGATGGTTTTGAAGGTTGAAA
*
32262805 GTTTCGATTTTA-TGGTTTCAAAATTTGAATTTTTAAGGTTTTGAAAGTTTTAGGATTTAGAGTT
1 GTTTCGATTTTAGT-GTTTCAAAATTTGAATTTTTAAGATTTTGAAAGTTTTAGGATTTAGAG-T
** * * * **
32262869 TTTAGGGTTTGGATTTTAAAGTTTTAAAATTTCGTA-ATTTAGGGTTTTGAATG-TTTAAGGTTT
64 TTTAGGGTTTCAATTTTAAAGTTTTAAAATTTCG-AGATTTAAGATTTTGAAAGTTTTAAAATTT
32262932 TGAGGTTTT
128 TGAGGTTTT
32262941 AGGGTTTAAA
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
156 8 0.07
157 64 0.55
158 44 0.38
159 1 0.01
ACGTcount: A:0.26, C:0.02, G:0.22, T:0.50
Consensus pattern (156 bp):
GTTTCGATTTTAGTGTTTCAAAATTTGAATTTTTAAGATTTTGAAAGTTTTAGGATTTAGAGTTT
TAGGGTTTCAATTTTAAAGTTTTAAAATTTCGAGATTTAAGATTTTGAAAGTTTTAAAATTTTGA
GGTTTTGATGGTTTTGAAGGTTGAAA
Found at i:32263004 original size:22 final size:24
Alignment explanation
Indices: 32262965--32263020 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
32262955 ATTAGGATTG
*
32262965 TAAGAGTTTTGCAATTTTAAGGTT
1 TAAGAGTTTTGCAATTTTAAAGTT
32262989 TAAG-GTTTTG-AATTTTAAAGTT
1 TAAGAGTTTTGCAATTTTAAAGTT
* *
32263011 TTAGAATTTT
1 TAAGAGTTTT
32263021 AAAATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.50
23 10 0.36
24 4 0.14
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (24 bp):
TAAGAGTTTTGCAATTTTAAAGTT
Found at i:32263005 original size:15 final size:16
Alignment explanation
Indices: 32262987--32263023 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
32262977 AATTTTAAGG
*
32262987 TTTAAGGTTTT-GAAT
1 TTTAAAGTTTTAGAAT
32263002 TTTAAAGTTTTAGAAT
1 TTTAAAGTTTTAGAAT
32263018 TTTAAA
1 TTTAAA
32263024 ATTTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTAAAGTTTTAGAAT
Found at i:32266052 original size:14 final size:15
Alignment explanation
Indices: 32266033--32266070 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
32266023 AGTTGTTAAA
32266033 ATTTATTTTCT-TTT
1 ATTTATTTTCTATTT
*
32266047 ATTTATTTTTTATTT
1 ATTTATTTTCTATTT
*
32266062 ATTAATTTT
1 ATTTATTTT
32266071 AACTATCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTATTTTCTATTT
Found at i:32266186 original size:2 final size:2
Alignment explanation
Indices: 32266179--32266216 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
32266169 GATTAAAAAT
32266179 TA TA TA TA TA TA TA TA 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 TA TA TA
32266217 CACCTATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32272035 original size:11 final size:11
Alignment explanation
Indices: 32272019--32272054 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
32272009 AAGTTTGATC
32272019 ATTTATATTAT
1 ATTTATATTAT
32272030 ATTTATATTAT
1 ATTTATATTAT
*
32272041 ATATATATATAT
1 ATTTATAT-TAT
32272053 AT
1 AT
32272055 GATGAGTGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:32272594 original size:2 final size:2
Alignment explanation
Indices: 32272581--32272610 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
32272571 CAATTCATAA
*
32272581 AT AT AT AC 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
32272611 TAGTGTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.