Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 111 of 125
Found at i:34052812 original size:3 final size:3
Alignment explanation
Indices: 34052804--34052828 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
34052794 TCACTTAATT
34052804 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
34052829 ACTAAACACA
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:34057151 original size:20 final size:20
Alignment explanation
Indices: 34057109--34057151 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
34057099 AATATAAAAA
*
34057109 AAAACATAGAAAAAATAATT
1 AAAACATAGAAAAAATAAAT
34057129 AAAACATA-AAAAAATAACAT
1 AAAACATAGAAAAAATAA-AT
34057149 AAA
1 AAA
34057152 TACAATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAACATAGAAAAAATAAAT
Found at i:34071415 original size:12 final size:12
Alignment explanation
Indices: 34071401--34071467 Score: 73
Period size: 12 Copynumber: 5.7 Consensus size: 12
34071391 AATCAAGCAG
* *
34071401 CAAAATTAACAG
1 CAAAAATAACAA
*
34071413 C-AAAACAACAA
1 CAAAAATAACAA
*
34071424 CAAAAATAATAA
1 CAAAAATAACAA
*
34071436 CAAAAACAACAA
1 CAAAAATAACAA
*
34071448 CAAAAATAACAG
1 CAAAAATAACAA
34071460 CAAAAATA
1 CAAAAATA
34071468 GCACCAAAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
11 8 0.18
12 37 0.82
ACGTcount: A:0.70, C:0.18, G:0.03, T:0.09
Consensus pattern (12 bp):
CAAAAATAACAA
Found at i:34071445 original size:21 final size:21
Alignment explanation
Indices: 34071376--34071458 Score: 71
Period size: 24 Copynumber: 3.8 Consensus size: 21
34071366 AAAACATCCA
*
34071376 AACAACAAAAATAAC--AATC
1 AACAACAAAAATAACAAAAAC
* *
34071395 AAGCAGCAAAATTAACAGCAAAAC
1 AA-CAACAAAAATAACA--AAAAC
34071419 AACAACAAAAATAATAACAAAAAC
1 AACAAC--AAA-AATAACAAAAAC
34071443 AACAACAAAAATAACA
1 AACAACAAAAATAACA
34071459 GCAAAAATAG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.04
20 11 0.22
21 7 0.14
22 3 0.06
23 3 0.06
24 16 0.31
25 3 0.06
26 6 0.12
ACGTcount: A:0.69, C:0.19, G:0.04, T:0.08
Consensus pattern (21 bp):
AACAACAAAAATAACAAAAAC
Found at i:34071465 original size:24 final size:24
Alignment explanation
Indices: 34071401--34071465 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
34071391 AATCAAGCAG
*
34071401 CAAAATTAACAGC-AAAACAACAA
1 CAAAAATAACAGCAAAAACAACAA
* *
34071424 CAAAAATAATAACAAAAACAACAA
1 CAAAAATAACAGCAAAAACAACAA
34071448 CAAAAATAACAGCAAAAA
1 CAAAAATAACAGCAAAAA
34071466 TAGCACCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 10 0.28
24 26 0.72
ACGTcount: A:0.71, C:0.18, G:0.03, T:0.08
Consensus pattern (24 bp):
CAAAAATAACAGCAAAAACAACAA
Found at i:34071475 original size:12 final size:12
Alignment explanation
Indices: 34071401--34071476 Score: 55
Period size: 12 Copynumber: 6.4 Consensus size: 12
34071391 AATCAAGCAG
* *
34071401 CAAAATTAACAG
1 CAAAAATAACAC
* *
34071413 C-AAAACAACAA
1 CAAAAATAACAC
* *
34071424 CAAAAATAATAA
1 CAAAAATAACAC
* *
34071436 CAAAAACAACAA
1 CAAAAATAACAC
*
34071448 CAAAAATAACAG
1 CAAAAATAACAC
*
34071460 CAAAAATAGCAC
1 CAAAAATAACAC
34071472 CAAAA
1 CAAAA
34071477 CAGTAAAAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
11 8 0.15
12 44 0.85
ACGTcount: A:0.68, C:0.20, G:0.04, T:0.08
Consensus pattern (12 bp):
CAAAAATAACAC
Found at i:34071475 original size:24 final size:23
Alignment explanation
Indices: 34071395--34071476 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 23
34071385 AATAACAATC
* *
34071395 AAGCAGCAAAATTAACAGCAAAA
1 AAGCAACAAAAATAACAGCAAAA
* *
34071418 CAA-CAACAAAAATAATAACAAAA
1 -AAGCAACAAAAATAACAGCAAAA
*
34071441 ACAACAACAAAAATAACAGCAAAA
1 A-AGCAACAAAAATAACAGCAAAA
*
34071465 ATAGCACCAAAA
1 A-AGCAACAAAA
34071477 CAGTAAAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 1 0.02
23 17 0.36
24 29 0.62
ACGTcount: A:0.67, C:0.20, G:0.06, T:0.07
Consensus pattern (23 bp):
AAGCAACAAAAATAACAGCAAAA
Found at i:34071484 original size:20 final size:20
Alignment explanation
Indices: 34071455--34071498 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34071445 CAACAAAAAT
34071455 AACAGC-AAAAATAGCACCAA
1 AACAGCAAAAAATAGCA-CAA
*
34071475 AACAGTAAAAAATAGCACAA
1 AACAGCAAAAAATAGCACAA
34071495 AACA
1 AACA
34071499 ACAATCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.64, C:0.20, G:0.09, T:0.07
Consensus pattern (20 bp):
AACAGCAAAAAATAGCACAA
Found at i:34071496 original size:32 final size:32
Alignment explanation
Indices: 34071449--34071530 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 32
34071439 AAACAACAAC
34071449 AAAAATAACAGCAAAAATAGC-ACCAAAACAGT-A
1 AAAAATAACA-CAAAAA-A-CAACCAAAACAGTAA
* *
34071482 AAAAATAGCACAAAACAACAATCAAAACAGTAA
1 AAAAATAACACAAAA-AACAACCAAAACAGTAA
34071515 AAAAATAACACAAAAA
1 AAAAATAACACAAAAA
34071531 CATCAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 1 0.02
32 17 0.40
33 25 0.58
ACGTcount: A:0.68, C:0.17, G:0.06, T:0.09
Consensus pattern (32 bp):
AAAAATAACACAAAAAACAACCAAAACAGTAA
Found at i:34071518 original size:22 final size:22
Alignment explanation
Indices: 34071493--34071562 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
34071483 AAAATAGCAC
*
34071493 AAAACAACAATCAAAACAGTAA
1 AAAAAAACAATCAAAACAGTAA
*
34071515 AAAAATAAC-A-CAAAAACA-TCA
1 AAAAA-AACAATC-AAAACAGTAA
*
34071536 AAAAAAGCAATCAAAACAGTAA
1 AAAAAAACAATCAAAACAGTAA
34071558 AAAAA
1 AAAAA
34071563 CAGCACTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
20 2 0.05
21 15 0.38
22 19 0.49
23 3 0.08
ACGTcount: A:0.71, C:0.16, G:0.04, T:0.09
Consensus pattern (22 bp):
AAAAAAACAATCAAAACAGTAA
Found at i:34071567 original size:23 final size:23
Alignment explanation
Indices: 34071493--34071564 Score: 80
Period size: 21 Copynumber: 3.3 Consensus size: 23
34071483 AAAATAGCAC
34071493 AAAACAACAATCAAAACAGTAAA
1 AAAACAACAATCAAAACAGTAAA
* *
34071516 AAAATAAC-A-CAAAAACA-TCAA
1 AAAACAACAATC-AAAACAGTAAA
*
34071537 AAAA-AGCAATCAAAACAGTAAA
1 AAAACAACAATCAAAACAGTAAA
34071559 AAAACA
1 AAAACA
34071565 GCACTAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
20 2 0.05
21 15 0.38
22 15 0.38
23 8 0.20
ACGTcount: A:0.71, C:0.17, G:0.04, T:0.08
Consensus pattern (23 bp):
AAAACAACAATCAAAACAGTAAA
Found at i:34071573 original size:22 final size:21
Alignment explanation
Indices: 34071505--34071575 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
34071495 AACAACAATC
* *
34071505 AAAACAGTAAAAAAATAACACA
1 AAAACAGTAAAAAAA-AGCACT
* *
34071527 AAAACA-TCAAAAAAAGCAAT
1 AAAACAGTAAAAAAAAGCACT
34071547 CAAAACAGTAAAAAAACAGCACT
1 -AAAACAGTAAAAAAA-AGCACT
34071570 AAAACA
1 AAAACA
34071576 ACAATATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
20 3 0.08
21 13 0.32
22 19 0.47
23 5 0.12
ACGTcount: A:0.69, C:0.17, G:0.06, T:0.08
Consensus pattern (21 bp):
AAAACAGTAAAAAAAAGCACT
Found at i:34071574 original size:43 final size:42
Alignment explanation
Indices: 34071492--34071575 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 42
34071482 AAAAATAGCA
* *
34071492 CAAAACAACAATCAAAACAGTAAAAAAATAACACAAAAACAT
1 CAAAAAAACAATCAAAACAGTAAAAAAACAACACAAAAACAT
* *
34071534 CAAAAAAAGCAATCAAAACAGTAAAAAAACAGCACTAAAACA
1 CAAAAAAA-CAATCAAAACAGTAAAAAAACAACACAAAAACA
34071576 ACAATATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 7 0.19
43 30 0.81
ACGTcount: A:0.68, C:0.19, G:0.05, T:0.08
Consensus pattern (42 bp):
CAAAAAAACAATCAAAACAGTAAAAAAACAACACAAAAACAT
Found at i:34073449 original size:13 final size:14
Alignment explanation
Indices: 34073429--34073462 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
34073419 GCTTAGTTAG
34073429 GTGAAAAAATGGAA
1 GTGAAAAAATGGAA
34073443 G-G-AAAAATGGAA
1 GTGAAAAAATGGAA
34073455 GTGAAAAA
1 GTGAAAAA
34073463 GTAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
12 11 0.61
13 2 0.11
14 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.29, T:0.12
Consensus pattern (14 bp):
GTGAAAAAATGGAA
Found at i:34073640 original size:18 final size:17
Alignment explanation
Indices: 34073607--34073640 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34073597 AGCAAGTTAA
34073607 TTCAAAATTATATATTT
1 TTCAAAATTATATATTT
*
34073624 TTCAAATATTTTATATT
1 TTCAAA-ATTATATATT
34073641 ATTTTCTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TTCAAAATTATATATTT
Found at i:34076286 original size:17 final size:17
Alignment explanation
Indices: 34076264--34076318 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
34076254 CATACCAATG
34076264 AACCCCATTAGTAAACA
1 AACCCCATTAGTAAACA
* ** **
34076281 AACCCC-TT-TTGGATG
1 AACCCCATTAGTAAACA
34076296 AACCCCATTAGTAAACA
1 AACCCCATTAGTAAACA
34076313 AACCCC
1 AACCCC
34076319 TAAACTCCTC
Statistics
Matches: 26, Mismatches: 10, Indels: 4
0.65 0.25 0.10
Matches are distributed among these distances:
15 8 0.31
16 4 0.15
17 14 0.54
ACGTcount: A:0.38, C:0.33, G:0.09, T:0.20
Consensus pattern (17 bp):
AACCCCATTAGTAAACA
Found at i:34079723 original size:30 final size:30
Alignment explanation
Indices: 34079626--34079724 Score: 78
Period size: 30 Copynumber: 3.2 Consensus size: 30
34079616 TGTCATCACC
* *
34079626 TATTTTACACAAGCACCATAACATGCGCAA
1 TATTTTACACAAACACCATAACATGCCCAA
* *
34079656 TCATTCTCTACACCAACA-CAGT--CATCCCCAA
1 T-ATT-T-TACACAAACACCA-TAACATGCCCAA
*
34079687 TTTATTTTACACAAACACCATAACATGCTCAA
1 --TATTTTACACAAACACCATAACATGCCCAA
34079719 TATTTT
1 TATTTT
34079725 CCTGCACTGG
Statistics
Matches: 53, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
30 17 0.32
31 13 0.25
32 13 0.25
33 10 0.19
ACGTcount: A:0.36, C:0.29, G:0.05, T:0.29
Consensus pattern (30 bp):
TATTTTACACAAACACCATAACATGCCCAA
Found at i:34079993 original size:36 final size:36
Alignment explanation
Indices: 34079946--34080070 Score: 178
Period size: 36 Copynumber: 3.5 Consensus size: 36
34079936 CGGAGGGAGG
* *
34079946 AGATGAGGCCGAAGGTCAACCCCGACGTGCACGTGA
1 AGATGAGGCCGAAGATCAACCCCGACGTGCACATGA
* * *
34079982 AGATGAGGCCGAAGATTAACTCCAACGTGCACATGA
1 AGATGAGGCCGAAGATCAACCCCGACGTGCACATGA
* * *
34080018 AGACGAGGCCGAAGATCAATCCTGACGTGCACATGA
1 AGATGAGGCCGAAGATCAACCCCGACGTGCACATGA
34080054 AGATGAGGCCGAAGATC
1 AGATGAGGCCGAAGATC
34080071 CAATGAAGTT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 77 1.00
ACGTcount: A:0.33, C:0.24, G:0.30, T:0.14
Consensus pattern (36 bp):
AGATGAGGCCGAAGATCAACCCCGACGTGCACATGA
Found at i:34085842 original size:22 final size:21
Alignment explanation
Indices: 34085817--34085873 Score: 51
Period size: 25 Copynumber: 2.5 Consensus size: 21
34085807 CTCTTCATGA
*
34085817 ATTTAAAATTAATTTCTTATAT
1 ATTTAAAATTAATTTATT-TAT
34085839 ATTTTTTAAAATTTAATTTATTTAT
1 A---TTTAAAA-TTAATTTATTTAT
*
34085864 TTTTAAAATT
1 ATTTAAAATT
34085874 TTAAAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 2 0.07
22 8 0.28
25 10 0.34
26 9 0.31
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAAAATTAATTTATTTAT
Found at i:34100428 original size:3 final size:3
Alignment explanation
Indices: 34100420--34100445 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34100410 ATTTATTTAT
34100420 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
34100446 TTCAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:34102075 original size:33 final size:31
Alignment explanation
Indices: 34102038--34102116 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 31
34102028 TAGAATTACA
*
34102038 AATATTTTACTTTTTTAAAATATTTGA-ATTCTC
1 AATATTTTACTTTTTT-AAATA--CGAGATTCTC
* *
34102071 AATATTTTGACTATTTTGAATACGAGATTCTC
1 AATATTTT-ACTTTTTTAAATACGAGATTCTC
34102103 AATATTCTTACTTT
1 AATATT-TTACTTT
34102117 CCCAAGTATC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
31 2 0.05
32 16 0.41
33 14 0.36
34 7 0.18
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (31 bp):
AATATTTTACTTTTTTAAATACGAGATTCTC
Found at i:34105600 original size:21 final size:21
Alignment explanation
Indices: 34105569--34105615 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
34105559 TTATTTTCTT
* *
34105569 AATAAATTATAT-TAT-TTTG
1 AATATATTATATATATATTTA
34105588 AATATATTATATATATATTTA
1 AATATATTATATATATATTTA
34105609 AATATAT
1 AATATAT
34105616 CTCAATTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 3 0.12
21 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AATATATTATATATATATTTA
Found at i:34107424 original size:6 final size:6
Alignment explanation
Indices: 34107413--34107448 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
34107403 GGATGGAGGT
34107413 GGGGGA GGGGGA GGGGGA GGGGGA GGGGGA GGGGGA
1 GGGGGA GGGGGA GGGGGA GGGGGA GGGGGA GGGGGA
34107449 ATTTTTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.83, T:0.00
Consensus pattern (6 bp):
GGGGGA
Found at i:34115079 original size:58 final size:58
Alignment explanation
Indices: 34114991--34115136 Score: 183
Period size: 58 Copynumber: 2.5 Consensus size: 58
34114981 ATATATTATA
* *
34114991 ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACAT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAAATAAATTA-AT
* *
34115048 ATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATAAATTAAT
1 A-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
34115108 ATTTTTATTAAATTATATTTAATAATAAT
1 ATTTTTATTAAATTATATTTAATAATAAT
34115137 CATTAAAATT
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
57 1 0.01
58 48 0.62
59 11 0.14
60 10 0.13
61 8 0.10
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
Found at i:34115327 original size:16 final size:16
Alignment explanation
Indices: 34115306--34115343 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
34115296 TGAATTACTG
34115306 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
**
34115322 ATTACAGTTCTATTCC
1 ATTACAACTCTATTCC
34115338 ATTACA
1 ATTACA
34115344 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:34115344 original size:16 final size:16
Alignment explanation
Indices: 34115314--34115344 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34115304 TGATTACAAC
34115314 TCTATTCCATTACAGT
1 TCTATTCCATTACAGT
34115330 TCTATTCCATTACAG
1 TCTATTCCATTACAG
34115345 CGAACCAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (16 bp):
TCTATTCCATTACAGT
Found at i:34121619 original size:22 final size:22
Alignment explanation
Indices: 34121592--34121635 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34121582 TCTTTCAATC
34121592 GTTAATCGATTAATCGAAATTT
1 GTTAATCGATTAATCGAAATTT
34121614 GTTAATCGATTAATCGAAATTT
1 GTTAATCGATTAATCGAAATTT
34121636 ATATGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (22 bp):
GTTAATCGATTAATCGAAATTT
Found at i:34125955 original size:27 final size:29
Alignment explanation
Indices: 34125925--34125981 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
34125915 TATTACGGCG
*
34125925 TAAGTTG-TGAATT-TAATTTTTATATTT
1 TAAGTTGATGAATTGTAATTATTATATTT
*
34125952 TAAGTTGATTAATTGTAATTATTATATTT
1 TAAGTTGATGAATTGTAATTATTATATTT
34125981 T
1 T
34125982 TTAGTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 7 0.27
28 5 0.19
29 14 0.54
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (29 bp):
TAAGTTGATGAATTGTAATTATTATATTT
Found at i:34132072 original size:17 final size:18
Alignment explanation
Indices: 34132050--34132099 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
34132040 TTTATCTAGA
34132050 TAATATTAAATTAT-ATT
1 TAATATTAAATTATCATT
* *
34132067 TAATATTAAGATAATCGTTT
1 TAATATTAA-ATTATC-ATT
34132087 TAATATTAAATTA
1 TAATATTAAATTA
34132100 ATAGAATACT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 9 0.33
18 4 0.15
19 3 0.11
20 11 0.41
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (18 bp):
TAATATTAAATTATCATT
Found at i:34138972 original size:19 final size:19
Alignment explanation
Indices: 34138948--34138993 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
34138938 AATTTGATAT
34138948 AAATTTAGATT-ATTAATTA
1 AAATTTA-ATTAATTAATTA
* *
34138967 AAATTTAATTAATTTATTG
1 AAATTTAATTAATTAATTA
34138986 AAATTTAA
1 AAATTTAA
34138994 AAAGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (19 bp):
AAATTTAATTAATTAATTA
Found at i:34145786 original size:24 final size:23
Alignment explanation
Indices: 34145733--34145786 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
34145723 TCCTCTTTTA
* *
34145733 AATA-TATTTTTATTTTTTATTT
1 AATATTATTTTAATTTTTTAATT
* *
34145755 CATGTTATTTTAATTTTTTAATT
1 AATATTATTTTAATTTTTTAATT
34145778 AATAATTAT
1 AAT-ATTAT
34145787 ATTTTTTTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 2 0.08
23 18 0.75
24 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
AATATTATTTTAATTTTTTAATT
Found at i:34146271 original size:12 final size:11
Alignment explanation
Indices: 34146238--34146271 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
34146228 ATATAATAAA
34146238 TATATATTTAT
1 TATATATTTAT
*
34146249 TATATAATTAT
1 TATATATTTAT
34146260 TAATATATTTAT
1 T-ATATATTTAT
34146272 ATGAATAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATATTTAT
Found at i:34146582 original size:6 final size:7
Alignment explanation
Indices: 34146562--34146589 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
34146552 TTAATTCTAT
34146562 AATAAAA
1 AATAAAA
34146569 AATAAAA
1 AATAAAA
34146576 AATAAAA
1 AATAAAA
34146583 AATAAAA
1 AATAAAA
34146590 CGAACTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AATAAAA
Found at i:34156872 original size:23 final size:23
Alignment explanation
Indices: 34156831--34156897 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
34156821 CAATTTAAAT
* *
34156831 AATAATAAATATTTTAAAT-TCA
1 AATAAAAAATATTTAAAATATCA
* *
34156853 AATATGAAAATATATAAAATATCA
1 AATA-AAAAATATTTAAAATATCA
*
34156877 ACTAAAAAATATTTAAAATAT
1 AATAAAAAATATTTAAAATAT
34156898 TTTATTAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 4 0.11
23 26 0.72
24 6 0.17
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (23 bp):
AATAAAAAATATTTAAAATATCA
Found at i:34177721 original size:26 final size:25
Alignment explanation
Indices: 34177703--34177751 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
34177693 ACAATAAGGT
*
34177703 TGATTTTATATTATGAACATAAAAAA
1 TGATTTTATATTATGAACAT-AAGAA
*
34177729 TGATTTTTTATTATGAACATAAG
1 TGATTTTATATTATGAACATAAG
34177752 CTTTACTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (25 bp):
TGATTTTATATTATGAACATAAGAA
Found at i:34178618 original size:27 final size:28
Alignment explanation
Indices: 34178588--34178641 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
34178578 TATTTTTTTA
*
34178588 TTTTA-ATATTTAATAATTTT-ATATATG
1 TTTTATATA-TTAAAAATTTTCATATATG
*
34178615 TTTTATTTATTAAAAATTTTCATATAT
1 TTTTATATATTAAAAATTTTCATATAT
34178642 TCATCTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTTATATATTAAAAATTTTCATATATG
Found at i:34180593 original size:37 final size:37
Alignment explanation
Indices: 34180552--34180625 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
34180542 GAAAGAAAGA
*
34180552 ATGTGATTTTCCATGGAAGGAAGGGATGTAATTTAAT
1 ATGTGATTTTCCATAGAAGGAAGGGATGTAATTTAAT
34180589 ATGTGATTTTCCATAGAAGGAAGGGATGTAATTTAAT
1 ATGTGATTTTCCATAGAAGGAAGGGATGTAATTTAAT
34180626 GGATTCTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (37 bp):
ATGTGATTTTCCATAGAAGGAAGGGATGTAATTTAAT
Found at i:34185011 original size:23 final size:22
Alignment explanation
Indices: 34184937--34185026 Score: 92
Period size: 23 Copynumber: 4.0 Consensus size: 22
34184927 TGTGCTGGGG
34184937 AAACAGTAAGCACACACAGTGC
1 AAACAGTAAGCACACACAGTGC
* * * * *
34184959 AATCAGTAGGCGCACATAGCGC
1 AAACAGTAAGCACACACAGTGC
*
34184981 AAATCAGTAGGCACACGA-AGTGC
1 AAA-CAGTAAGCACAC-ACAGTGC
34185004 GAAACAGTAAGCACACACAGTGC
1 -AAACAGTAAGCACACACAGTGC
34185027 TGAACGGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
22 20 0.36
23 31 0.56
24 4 0.07
ACGTcount: A:0.40, C:0.26, G:0.23, T:0.11
Consensus pattern (22 bp):
AAACAGTAAGCACACACAGTGC
Found at i:34191176 original size:23 final size:22
Alignment explanation
Indices: 34191102--34191191 Score: 92
Period size: 23 Copynumber: 4.0 Consensus size: 22
34191092 TGTGCTGGGG
34191102 AAACAGTAAGCACACACAGTGC
1 AAACAGTAAGCACACACAGTGC
* * * * *
34191124 AATCAGTAGGCGCACATAGCGC
1 AAACAGTAAGCACACACAGTGC
*
34191146 AAATCAGTAGGCACACGA-AGTGC
1 AAA-CAGTAAGCACAC-ACAGTGC
34191169 GAAACAGTAAGCACACACAGTGC
1 -AAACAGTAAGCACACACAGTGC
34191192 TGAACGGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
22 20 0.36
23 31 0.56
24 4 0.07
ACGTcount: A:0.40, C:0.26, G:0.23, T:0.11
Consensus pattern (22 bp):
AAACAGTAAGCACACACAGTGC
Found at i:34207722 original size:15 final size:16
Alignment explanation
Indices: 34207692--34207730 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
34207682 AATAAAAAAT
34207692 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
34207709 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
34207724 ATAATTT
1 ATAATTT
34207731 TTAAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:34207760 original size:16 final size:16
Alignment explanation
Indices: 34207736--34207785 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
34207726 AATTTTTAAA
*
34207736 TTATTAATTTAAAATT
1 TTATAAATTTAAAATT
* *
34207752 TTATAAATTATAAACTA
1 TTATAAATT-TAAAATT
34207769 TT-TAAA-TTAAAATT
1 TTATAAATTTAAAATT
34207783 TTA
1 TTA
34207786 CTATTTTAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
14 7 0.26
15 1 0.04
16 12 0.44
17 7 0.26
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATAAATTTAAAATT
Found at i:34207779 original size:31 final size:30
Alignment explanation
Indices: 34207720--34207785 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
34207710 TAATTTATAT
* * * *
34207720 TTTTATAATTTTTAAATTATTAATTTAAAA
1 TTTTATAAATTATAAACTATTAAATTAAAA
34207750 TTTTATAAATTATAAACTATTTAAATTAAAA
1 TTTTATAAATTATAAACTA-TTAAATTAAAA
34207781 TTTTA
1 TTTTA
34207786 CTATTTTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTTATAAATTATAAACTATTAAATTAAAA
Found at i:34212447 original size:17 final size:17
Alignment explanation
Indices: 34212417--34212459 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
34212407 CTGAAATTTA
34212417 AATATTTT-ATTAAAAT
1 AATATTTTAATTAAAAT
34212433 AATATTTTAATTAAAAT
1 AATATTTTAATTAAAAT
*
34212450 -ATTTTTTAAT
1 AATATTTTAAT
34212460 AAATTATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATATTTTAATTAAAAT
Found at i:34214621 original size:8 final size:8
Alignment explanation
Indices: 34214607--34214636 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
34214597 CTCTAAATGG
34214607 TTCTTTTT
1 TTCTTTTT
*
34214615 CTCTTTTT
1 TTCTTTTT
34214623 TTCTTTTT
1 TTCTTTTT
34214631 TTCTTT
1 TTCTTT
34214637 GAAAAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTCTTTTT
Found at i:34225498 original size:23 final size:23
Alignment explanation
Indices: 34225454--34225498 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
34225444 TTCATTTAAG
* * *
34225454 TTAAACGAACATGTTTATGAATA
1 TTAAACAAACATGTTCACGAATA
34225477 TTAAACAAACATGTTCACGAAT
1 TTAAACAAACATGTTCACGAAT
34225499 TGTTCATTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (23 bp):
TTAAACAAACATGTTCACGAATA
Found at i:34229047 original size:26 final size:25
Alignment explanation
Indices: 34229018--34229075 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
34229008 TAAAAATTCA
*
34229018 TACAAAGTTTAAATTTTCAAAATAAG
1 TACAAAGTTTAAAATTT-AAAATAAG
* *
34229044 TACAAAATTTTAAAATTTAAAATTAG
1 TAC-AAAGTTTAAAATTTAAAATAAG
34229070 TACAAA
1 TACAAA
34229076 AATAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 3 0.11
26 13 0.46
27 12 0.43
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.34
Consensus pattern (25 bp):
TACAAAGTTTAAAATTTAAAATAAG
Found at i:34229078 original size:27 final size:27
Alignment explanation
Indices: 34229025--34229076 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
34229015 TCATACAAAG
*
34229025 TTTAAATTTTCAAAATAAGTACAAAAT
1 TTTAAAATTTCAAAATAAGTACAAAAT
*
34229052 TTTAAAATTT-AAAATTAGTACAAAA
1 TTTAAAATTTCAAAATAAGTACAAAA
34229077 ATAAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (27 bp):
TTTAAAATTTCAAAATAAGTACAAAAT
Found at i:34235416 original size:31 final size:30
Alignment explanation
Indices: 34235378--34235564 Score: 115
Period size: 31 Copynumber: 6.3 Consensus size: 30
34235368 TTAATATAAT
34235378 ATTTGGTACTTGAACTTGATGCTTTTTCCTA
1 ATTTGGTACTTGAACTTGAT-CTTTTTCCTA
*
34235409 ATTTGGTACTT-AAATT--T-TTTTAGTCC-A
1 ATTTGGTACTTGAACTTGATCTTTT--TCCTA
* *
34235436 ATTTGGTA-TTCGAACTTGACACTTTTTTCTA
1 ATTTGGTACTT-GAACTTGA-TCTTTTTCCTA
* * * **
34235467 ATTTGGTACCTAAACTTGACACTTTTTTTTA
1 ATTTGGTACTTGAACTTGA-TCTTTTTCCTA
* **
34235498 AGTTGGTACTTGAACTT--T-TTGGGGTCC-A
1 ATTTGGTACTTGAACTTGATCTT--TTTCCTA
*
34235526 ATTTGGTACTTGAACTTGACTCTTTTTCTTA
1 ATTTGGTACTTGAACTTGA-TCTTTTTCCTA
34235557 ATTTGGTA
1 ATTTGGTA
34235565 TCTAATCTTT
Statistics
Matches: 120, Mismatches: 19, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
26 6 0.05
27 11 0.09
28 25 0.21
29 1 0.01
30 8 0.07
31 62 0.52
32 7 0.06
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.48
Consensus pattern (30 bp):
ATTTGGTACTTGAACTTGATCTTTTTCCTA
Found at i:34235504 original size:89 final size:90
Alignment explanation
Indices: 34235378--34235569 Score: 228
Period size: 90 Copynumber: 2.1 Consensus size: 90
34235368 TTAATATAAT
* * ** * **
34235378 ATTTGGTACTTGAACTTGATGCTTTTTCCTAATTTGGTACTT-AAATTTTTTTAGTCCAATTTGG
1 ATTTGGTACCTAAACTTGACACTTTTTCCTAAGTTGGTACTTGAAATTTTTGGAGTCCAATTTGG
34235442 TA-TTCGAACTTGACACTTTTT-TCTA
66 TACTT-GAACTTGACACTTTTTCT-TA
** * *
34235467 ATTTGGTACCTAAACTTGACACTTTTTTTTAAGTTGGTACTTGAACTTTTTGGGGTCCAATTTGG
1 ATTTGGTACCTAAACTTGACACTTTTTCCTAAGTTGGTACTTGAAATTTTTGGAGTCCAATTTGG
*
34235532 TACTTGAACTTGACTCTTTTTCTTA
66 TACTTGAACTTGACACTTTTTCTTA
*
34235557 ATTTGGTATCTAA
1 ATTTGGTACCTAA
34235570 TCTTTTATAA
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
89 35 0.40
90 49 0.56
91 3 0.03
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (90 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCTAAGTTGGTACTTGAAATTTTTGGAGTCCAATTTGG
TACTTGAACTTGACACTTTTTCTTA
Found at i:34238752 original size:38 final size:38
Alignment explanation
Indices: 34238694--34238766 Score: 87
Period size: 37 Copynumber: 1.9 Consensus size: 38
34238684 ACACATTAAA
* *
34238694 AAATATTTATATTAAAAAAAACTAC-CATAAATATAAT
1 AAATATTTATATTAAAAAAAAATACAAATAAATATAAT
*
34238731 AAATATTT-TATTATATTAAAAAATACAAATAAATAT
1 AAATATTTATATTA-A-AAAAAAATACAAATAAATAT
34238767 TTTATTGTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 5 0.17
37 9 0.30
38 8 0.27
39 8 0.27
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (38 bp):
AAATATTTATATTAAAAAAAAATACAAATAAATATAAT
Found at i:34239132 original size:21 final size:23
Alignment explanation
Indices: 34239108--34239156 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
34239098 TTTTTTGATG
34239108 ATTTTTGCTGCT-ATTT-TCACT
1 ATTTTTGCTGCTGATTTATCACT
* *
34239129 ATTTTTGTTGTTGATTTATCACT
1 ATTTTTGCTGCTGATTTATCACT
34239152 ATTTT
1 ATTTT
34239157 GGTGTTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 4 0.17
23 10 0.42
ACGTcount: A:0.16, C:0.12, G:0.10, T:0.61
Consensus pattern (23 bp):
ATTTTTGCTGCTGATTTATCACT
Found at i:34239154 original size:23 final size:23
Alignment explanation
Indices: 34239120--34239165 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
34239110 TTTTGCTGCT
34239120 ATTTTCACTATTTT-TGTTGTTG
1 ATTTTCACTATTTTGTGTTGTTG
34239142 ATTTATCACTATTTTGGTGTTGTT
1 ATTT-TCACTATTTT-GTGTTGTT
34239166 TCGCTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.19
23 10 0.48
25 7 0.33
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.61
Consensus pattern (23 bp):
ATTTTCACTATTTTGTGTTGTTG
Found at i:34239157 original size:22 final size:22
Alignment explanation
Indices: 34239120--34239163 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
34239110 TTTTGCTGCT
*
34239120 ATTTTCACTATTTTTGTTGTTG
1 ATTTTCACTATTTTTGGTGTTG
34239142 ATTTATCACTA-TTTTGGTGTTG
1 ATTT-TCACTATTTTTGGTGTTG
34239164 TTTCGCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (22 bp):
ATTTTCACTATTTTTGGTGTTG
Found at i:34241109 original size:54 final size:52
Alignment explanation
Indices: 34240986--34241229 Score: 226
Period size: 52 Copynumber: 4.7 Consensus size: 52
34240976 ATGAAAAAAG
* * * *
34240986 GGTCCGATGACTAAGTGTCATCATGAGTAAATG-AATCCTTTACGGATTAGA
1 GGTCCAATGACTAAGTGTCATCGTGAGTATATGAAATCCTTTACGGATTAAA
** * *
34241037 GGTTTAATGATTAAGTGTCATCGTGAGTATATGAAATCCTTTTATGGATTTAAA
1 GGTCCAATGACTAAGTGTCATCGTGAGTATATGAAATCC-TTTACGGA-TTAAA
* *
34241091 GGTTCAATGACTAAGTGTCATCGTGAGTATAT-AGATCCTTTACGGATTAAGA
1 GGTCCAATGACTAAGTGTCATCGTGAGTATATGAAATCCTTTACGGATTAA-A
* * * * * * * *
34241143 GGTCCGATGACTCTA-TGTCATCGTGAGTGTATG-AGTCCCTCATGGGTTATAA
1 GGTCCAATGACT-AAGTGTCATCGTGAGTATATGAAATCCTTTACGGATTA-AA
* * *
34241195 GGTCCAGTGGCTATGTGTCATCGTGAGTATATGAA
1 GGTCCAATGACTAAGTGTCATCGTGAGTATATGAA
34241230 TGAAGTGAAA
Statistics
Matches: 156, Mismatches: 28, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
51 31 0.20
52 76 0.49
53 15 0.10
54 34 0.22
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (52 bp):
GGTCCAATGACTAAGTGTCATCGTGAGTATATGAAATCCTTTACGGATTAAA
Found at i:34241988 original size:21 final size:21
Alignment explanation
Indices: 34241923--34241988 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
34241913 GAAGTTTTTA
**
34241923 GTATCGGTAGATGC-ATAACAT
1 GTATCGGTAGAAACTAT-ACAT
* *
34241944 GTATCGGTAGAAATTATACTT
1 GTATCGGTAGAAACTATACAT
34241965 GTATCGGTAG-AACTAGTACAT
1 GTATCGGTAGAAACTA-TACAT
34241986 GTA
1 GTA
34241989 CTTGTAGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 31 0.84
22 2 0.05
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (21 bp):
GTATCGGTAGAAACTATACAT
Found at i:34242380 original size:30 final size:29
Alignment explanation
Indices: 34242346--34242407 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
34242336 TCAACTTCAA
34242346 AAAGTTACAAAATGGTCACTGAACTATTTC
1 AAAGTTACAAAATGGTCACTGAACTA-TTC
** ** *
34242376 AAAGTTTTAATTTGGTCACTGAATTATTC
1 AAAGTTACAAAATGGTCACTGAACTATTC
34242405 AAA
1 AAA
34242408 AGTTTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (29 bp):
AAAGTTACAAAATGGTCACTGAACTATTC
Found at i:34242410 original size:30 final size:30
Alignment explanation
Indices: 34242358--34242418 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
34242348 AGTTACAAAA
34242358 TGGTCACTGAACTATTTCAAAGTTTTAATT
1 TGGTCACTGAACTATTTCAAAGTTTTAATT
* *
34242388 TGGTCACTGAATTA-TTCAAAAGTTTTTATT
1 TGGTCACTGAACTATTTC-AAAGTTTTAATT
34242418 T
1 T
34242419 TAAGTCATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 3 0.11
30 25 0.89
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (30 bp):
TGGTCACTGAACTATTTCAAAGTTTTAATT
Found at i:34254078 original size:23 final size:23
Alignment explanation
Indices: 34254048--34254092 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
34254038 ACGATCCAAC
34254048 AGAGTGTTTTCATTGGTCCTAGG
1 AGAGTGTTTTCATTGGTCCTAGG
34254071 AGAGTGTTTTCATTGGTCCTAG
1 AGAGTGTTTTCATTGGTCCTAG
34254093 TCGACTTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.40
Consensus pattern (23 bp):
AGAGTGTTTTCATTGGTCCTAGG
Found at i:34255771 original size:31 final size:31
Alignment explanation
Indices: 34255736--34255798 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
34255726 AAATGGTCAA
* *
34255736 GAACTATT-AAATAATTTTCATTTAAATTATT
1 GAACTATTCAAAAAAATTT-ATTTAAATTATT
34255767 GAACTATTCAAAAAAATTTATTTAAATTATT
1 GAACTATTCAAAAAAATTTATTTAAATTATT
34255798 G
1 G
34255799 GGTTGTTGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.44
Consensus pattern (31 bp):
GAACTATTCAAAAAAATTTATTTAAATTATT
Found at i:34256092 original size:31 final size:31
Alignment explanation
Indices: 34256056--34256120 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
34256046 TTTTTAACCC
*
34256056 AATTTGAAACCTGAACTTGACACTTTTTT-CT
1 AATTTGAAACCTAAACTTGACA-TTTTTTCCT
**
34256087 AATTTGGTACCTAAACTTGACATTTTTTCCT
1 AATTTGAAACCTAAACTTGACATTTTTTCCT
34256118 AAT
1 AAT
34256121 CTGGTACCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.43
Consensus pattern (31 bp):
AATTTGAAACCTAAACTTGACATTTTTTCCT
Found at i:34256115 original size:30 final size:32
Alignment explanation
Indices: 34256064--34256131 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 32
34256054 CCAATTTGAA
* *
34256064 ACCTGAACTTGACACTTTTTT-CTAATTTGGT
1 ACCTAAACTTGACACTTTTTTCCTAATCTGGT
34256095 ACCTAAACTTGACA-TTTTTTCCTAATCTGGT
1 ACCTAAACTTGACACTTTTTTCCTAATCTGGT
34256126 ACCTAA
1 ACCTAA
34256132 GCTTTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 6 0.18
31 28 0.82
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.41
Consensus pattern (32 bp):
ACCTAAACTTGACACTTTTTTCCTAATCTGGT
Found at i:34256458 original size:31 final size:30
Alignment explanation
Indices: 34256354--34256464 Score: 106
Period size: 31 Copynumber: 3.7 Consensus size: 30
34256344 TAAAAGAAAG
*
34256354 TGTCAAGTTTAGGTACCAAATTAGGGAAAAA
1 TGTCAAGTTTAGATACCAAATTA-GGAAAAA
34256385 TGTCAAGTTT-GAGTACCAAATT-GGACCAAAA
1 TGTCAAGTTTAGA-TACCAAATTAGGA--AAAA
*
34256416 ---AAAGTTTAGATACCAAATTAGGAAAAA
1 TGTCAAGTTTAGATACCAAATTAGGAAAAA
* *
34256443 GTGTCAAGTTCAGATACTAAAT
1 -TGTCAAGTTTAGATACCAAAT
34256465 GTTATATTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
27 4 0.06
28 15 0.23
29 8 0.12
30 1 0.02
31 38 0.58
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (30 bp):
TGTCAAGTTTAGATACCAAATTAGGAAAAA
Found at i:34258916 original size:20 final size:18
Alignment explanation
Indices: 34258873--34258923 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
34258863 TTTTAGAAAA
34258873 TTTTAATATTTTTAACTT
1 TTTTAATATTTTTAACTT
34258891 TCTTTATATATTTTTTAGA-TT
1 T-TTTA-ATA-TTTTTA-ACTT
*
34258912 TTTTAAAATTTT
1 TTTTAATATTTT
34258924 ATATTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 5 0.18
19 6 0.21
20 7 0.25
21 9 0.32
22 1 0.04
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTAATATTTTTAACTT
Found at i:34258939 original size:19 final size:17
Alignment explanation
Indices: 34258903--34258936 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34258893 TTTATATATT
34258903 TTTTAGATTTTTTAAAA
1 TTTTAGATTTTTTAAAA
*
34258920 TTTTATATTTTTTAAAA
1 TTTTAGATTTTTTAAAA
34258937 AATAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTAGATTTTTTAAAA
Found at i:34258964 original size:18 final size:19
Alignment explanation
Indices: 34258941--34258982 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
34258931 TTAAAAAATA
*
34258941 AATTTTATAAA-TATTTTG
1 AATTTTAAAAATTATTTTG
34258959 AATTTTAAAAATTATTTTG
1 AATTTTAAAAATTATTTTG
34258978 -ATTTT
1 AATTTT
34258983 TTTTTTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTG
Found at i:34259150 original size:39 final size:39
Alignment explanation
Indices: 34259105--34259196 Score: 148
Period size: 39 Copynumber: 2.3 Consensus size: 39
34259095 ACTCAATTTA
34259105 AACTCAAAACTCGAATTACTTATTTGAGTGAACTCAAAT
1 AACTCAAAACTCGAATTACTTATTTGAGTGAACTCAAAT
* *
34259144 AACTCAAAACTTGAATTACTTATTTGAGTGGACTCAAAT
1 AACTCAAAACTCGAATTACTTATTTGAGTGAACTCAAAT
34259183 AACTCGAATAACTC
1 AACTC-AA-AACTC
34259197 AAACAACTCG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
39 42 0.88
40 2 0.04
41 4 0.08
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (39 bp):
AACTCAAAACTCGAATTACTTATTTGAGTGAACTCAAAT
Found at i:34260577 original size:21 final size:21
Alignment explanation
Indices: 34260552--34260592 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34260542 CGTTATTTTT
*
34260552 TAAAAACAT-TTTATATATATG
1 TAAAAA-ATATTTATAAATATG
34260573 TAAAAAATATTTATAAATAT
1 TAAAAAATATTTATAAATAT
34260593 CAAAATAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAAAATATTTATAAATATG
Found at i:34263058 original size:281 final size:281
Alignment explanation
Indices: 34262555--34263113 Score: 1118
Period size: 281 Copynumber: 2.0 Consensus size: 281
34262545 TTTCCACTTA
34262555 AAGCTCAAATTTCTTCATCAATGGCAAAGGAGGGTAACCTTAAAACAAATACATGTAATGATGTT
1 AAGCTCAAATTTCTTCATCAATGGCAAAGGAGGGTAACCTTAAAACAAATACATGTAATGATGTT
34262620 GGTGAACCACTTGAGTGCTTTGGTCATTTAGTAACCAAAGACAAGTCATCCCCCAATCATTAGTC
66 GGTGAACCACTTGAGTGCTTTGGTCATTTAGTAACCAAAGACAAGTCATCCCCCAATCATTAGTC
34262685 TCTTTCTGTTTCTTAATCTGCACTATGTTTCTGGTTTTGTCCAAGTGGTGAAGTCAATGTTATCT
131 TCTTTCTGTTTCTTAATCTGCACTATGTTTCTGGTTTTGTCCAAGTGGTGAAGTCAATGTTATCT
34262750 GTCGATAATATAAGTAAACCCAATTATCCAAATCTTGCCCACTTGTCCAACTGCTGTCAACTTCT
196 GTCGATAATATAAGTAAACCCAATTATCCAAATCTTGCCCACTTGTCCAACTGCTGTCAACTTCT
34262815 TTTGTTTGGGTTGGCACTGTC
261 TTTGTTTGGGTTGGCACTGTC
34262836 AAGCTCAAATTTCTTCATCAATGGCAAAGGAGGGTAACCTTAAAACAAATACATGTAATGATGTT
1 AAGCTCAAATTTCTTCATCAATGGCAAAGGAGGGTAACCTTAAAACAAATACATGTAATGATGTT
34262901 GGTGAACCACTTGAGTGCTTTGGTCATTTAGTAACCAAAGACAAGTCATCCCCCAATCATTAGTC
66 GGTGAACCACTTGAGTGCTTTGGTCATTTAGTAACCAAAGACAAGTCATCCCCCAATCATTAGTC
34262966 TCTTTCTGTTTCTTAATCTGCACTATGTTTCTGGTTTTGTCCAAGTGGTGAAGTCAATGTTATCT
131 TCTTTCTGTTTCTTAATCTGCACTATGTTTCTGGTTTTGTCCAAGTGGTGAAGTCAATGTTATCT
34263031 GTCGATAATATAAGTAAACCCAATTATCCAAATCTTGCCCACTTGTCCAACTGCTGTCAACTTCT
196 GTCGATAATATAAGTAAACCCAATTATCCAAATCTTGCCCACTTGTCCAACTGCTGTCAACTTCT
34263096 TTTGTTTGGGTTGGCACT
261 TTTGTTTGGGTTGGCACT
34263114 ATCAGTTGAG
Statistics
Matches: 278, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
281 278 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (281 bp):
AAGCTCAAATTTCTTCATCAATGGCAAAGGAGGGTAACCTTAAAACAAATACATGTAATGATGTT
GGTGAACCACTTGAGTGCTTTGGTCATTTAGTAACCAAAGACAAGTCATCCCCCAATCATTAGTC
TCTTTCTGTTTCTTAATCTGCACTATGTTTCTGGTTTTGTCCAAGTGGTGAAGTCAATGTTATCT
GTCGATAATATAAGTAAACCCAATTATCCAAATCTTGCCCACTTGTCCAACTGCTGTCAACTTCT
TTTGTTTGGGTTGGCACTGTC
Found at i:34263760 original size:24 final size:23
Alignment explanation
Indices: 34263700--34263761 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
34263690 GAAAAAGCTA
*
34263700 ATAATTTATATATAGTATATAAT
1 ATAATTTATATATAGCATATAAT
* *
34263723 AT-ATATAATGATATAGCATATCAT
1 ATAAT-TTAT-ATATAGCATATAAT
34263747 ATAATTTATAATATA
1 ATAATTTAT-ATATA
34263762 TTAATAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 2 0.06
23 5 0.16
24 22 0.71
25 2 0.06
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (23 bp):
ATAATTTATATATAGCATATAAT
Found at i:34264372 original size:17 final size:16
Alignment explanation
Indices: 34264333--34264378 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
34264323 ATCATTAAAG
34264333 TTTAAT-TTTA-TATAT
1 TTTAATATTTATTA-AT
34264348 TTTAATATTTATTAAT
1 TTTAATATTTATTAAT
34264364 TTTATATATTTATTA
1 TTTA-ATATTTATTA
34264379 TACATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.21
16 10 0.36
17 12 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATATTTATTAAT
Found at i:34273514 original size:46 final size:45
Alignment explanation
Indices: 34273415--34273528 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 45
34273405 AAGTGCTGGG
* * *
34273415 GAAACAGTAAGCACACACAGTGCAATCAGTAGGCGCACATAGCGC
1 GAAACAGTAAGCACACACAGTGCAAACAGTAGGCACACAAAGCGC
* *
34273460 -AAATCAGTAGGCACACGA-AGTGCAAAACAGTAGGCACACAAAGTGC
1 GAAA-CAGTAAGCACAC-ACAGTGC-AAACAGTAGGCACACAAAGCGC
34273506 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAAGCACACACAGTGC
34273529 TGAACGGTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
44 3 0.05
45 17 0.29
46 35 0.60
47 3 0.05
ACGTcount: A:0.41, C:0.25, G:0.24, T:0.11
Consensus pattern (45 bp):
GAAACAGTAAGCACACACAGTGCAAACAGTAGGCACACAAAGCGC
Found at i:34273540 original size:23 final size:23
Alignment explanation
Indices: 34273391--34273528 Score: 111
Period size: 23 Copynumber: 5.9 Consensus size: 23
34273381 CGAAGTACTT
34273391 AACAGTAAGCACAC-AAGTGCTGGGGA
1 AACAGTAAGCACACAAAGTGC----GA
*
34273417 AACAGTAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * * *
34273439 ATCAGTAGGCGCACATAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * *
34273461 AATCAGTAGGCACACGAAGTGCAA
1 AA-CAGTAAGCACACAAAGTGCGA
*
34273485 AACAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
34273508 AACAGTAAGCACACACAGTGC
1 AACAGTAAGCACACAAAGTGC
34273529 TGAACGGTAA
Statistics
Matches: 94, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
22 19 0.20
23 53 0.56
24 3 0.03
26 14 0.15
27 5 0.05
ACGTcount: A:0.41, C:0.24, G:0.25, T:0.11
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:34276411 original size:24 final size:22
Alignment explanation
Indices: 34276364--34276412 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
34276354 GTCCCTAATG
* *
34276364 CTTATTCTTTTATCATTTTCAC
1 CTTATTCTTTTATCAATTTAAC
34276386 CTTATTCTTTTTAATCAATTTAAC
1 CTTATTC-TTTT-ATCAATTTAAC
34276410 CTT
1 CTT
34276413 TAACTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
23 4 0.17
24 12 0.52
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.57
Consensus pattern (22 bp):
CTTATTCTTTTATCAATTTAAC
Found at i:34278313 original size:109 final size:111
Alignment explanation
Indices: 34278117--34278335 Score: 279
Period size: 109 Copynumber: 2.0 Consensus size: 111
34278107 GAAAGAGTTG
* *
34278117 AAATTAAATTGTAAAATATTTAGGGGTTAAAAGAAAATTTCATCCTTTTTATTAATTATAAAATT
1 AAATTAAATTGTAAAATATTTAGGGGTGAAAAGAAAATTTCATCCATTTTATTAATTATAAAATT
*
34278182 ACAAATGTTAAGGGCCTAAAAGATAATTCCACCAAATCAA-GGGGA
66 ACAAATGTTAAAGGCCTAAAAGATAATTCCACCAAATCAATGGGGA
*
34278227 AAATTGAATTGTAAAAT-TTTAGGGG-GACAAAGTAAAAAATTT-A-CCATTTTATT-ATTATAA
1 AAATTAAATTGTAAAATATTTAGGGGTGA-AAAG---AAAATTTCATCCATTTTATTAATTATAA
* * * * *
34278287 AATTATAAATGTTAAAGGCTTGAAAGATAATTCGACCGAATCAATGGGG
62 AATTACAAATGTTAAAGGCCTAAAAGATAATTCCACCAAATCAATGGGG
34278336 CCAAGTTTCT
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
108 1 0.01
109 57 0.60
110 29 0.31
111 1 0.01
112 7 0.07
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.32
Consensus pattern (111 bp):
AAATTAAATTGTAAAATATTTAGGGGTGAAAAGAAAATTTCATCCATTTTATTAATTATAAAATT
ACAAATGTTAAAGGCCTAAAAGATAATTCCACCAAATCAATGGGGA
Found at i:34278545 original size:16 final size:17
Alignment explanation
Indices: 34278524--34278558 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34278514 GATGTTGTTA
34278524 ATTTTA-GATTTTTCTT
1 ATTTTACGATTTTTCTT
*
34278540 ATTTTACGATTTTTTTT
1 ATTTTACGATTTTTCTT
34278557 AT
1 AT
34278559 ATATAAACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (17 bp):
ATTTTACGATTTTTCTT
Found at i:34280902 original size:15 final size:15
Alignment explanation
Indices: 34280876--34280906 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
34280866 CTATTTAAAA
34280876 TTTCACTATTTTTAC
1 TTTCACTATTTTTAC
34280891 TTTCACTATTTTTAC
1 TTTCACTATTTTTAC
34280906 T
1 T
34280907 GTTAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTCACTATTTTTAC
Found at i:34290520 original size:3 final size:3
Alignment explanation
Indices: 34290512--34290546 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
34290502 ATGATTGGGT
34290512 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
34290547 TTCAATTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:34303520 original size:19 final size:19
Alignment explanation
Indices: 34303496--34303535 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
34303486 CCGGTTAGAT
34303496 TGATGGATCAAATTAATGA
1 TGATGGATCAAATTAATGA
34303515 TGATGGATCAAATTAATGA
1 TGATGGATCAAATTAATGA
34303534 TG
1 TG
34303536 TAATTGGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (19 bp):
TGATGGATCAAATTAATGA
Found at i:34304408 original size:22 final size:22
Alignment explanation
Indices: 34304382--34304425 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34304372 AGATAATTTT
34304382 TAATATTATTATCTAATTATGA
1 TAATATTATTATCTAATTATGA
34304404 TAATATTATTATCTAATTATGA
1 TAATATTATTATCTAATTATGA
34304426 ATTTTCATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (22 bp):
TAATATTATTATCTAATTATGA
Found at i:34311188 original size:174 final size:174
Alignment explanation
Indices: 34310867--34311188 Score: 378
Period size: 174 Copynumber: 1.9 Consensus size: 174
34310857 TCAATTTTAG
* * * *
34310867 AAAAATAAGAAAACAGTCACTAACGCTATCAAAAAGTGACAAATCAGTCATTTATTAACATTTTC
1 AAAAATAAGAAAACAATCACTAACGCTATCAAAAAGCGACAAATCAGTCACTCATTAACATTTTC
** * ***
34310932 CGTTACTGTCTTAACGAGACAGGTGATGTGGCTAGTTAACTAGTTGTCATGGCCAATTAACTTGC
66 CGTTACAATCTTAACGAGACAGGTGATGTGGCTAGTAAACTACCCGTCATGGCCAATTAACTTGC
* *
34310997 CACGTTGGACAAGGCAAAATTTCAATTCAGTCACTTAACTTTCA
131 CACATTAGACAAGGCAAAATTTCAATTCAGTCACTTAACTTTCA
* * * * * * *
34311041 AAAAATAATAAATCAATCACTAACGTTATCGAAAAGCGATAAATTAGTCACTCATTAACATTTTT
1 AAAAATAAGAAAACAATCACTAACGCTATCAAAAAGCGACAAATCAGTCACTCATTAACATTTTC
* * * * *
34311106 CGTTACAATAC-TAACGAGACAGGTGATGTGGCTAGTAAATTACCCGAT-GTGGCTAGTTAATTT
66 CGTTACAAT-CTTAACGAGACAGGTGATGTGGCTAGTAAACTACCCG-TCATGGCCAATTAACTT
* *
34311169 GTCACATTAGACGAGGCAAA
129 GCCACATTAGACAAGGCAAA
34311189 GTTGAGTGAT
Statistics
Matches: 120, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
174 118 0.98
175 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (174 bp):
AAAAATAAGAAAACAATCACTAACGCTATCAAAAAGCGACAAATCAGTCACTCATTAACATTTTC
CGTTACAATCTTAACGAGACAGGTGATGTGGCTAGTAAACTACCCGTCATGGCCAATTAACTTGC
CACATTAGACAAGGCAAAATTTCAATTCAGTCACTTAACTTTCA
Found at i:34315835 original size:18 final size:20
Alignment explanation
Indices: 34315786--34315835 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
34315776 TAAGCGTGGG
*
34315786 TTATTATATTATTATATATT
1 TTATTATATAATTATATATT
*
34315806 TAATT-TATAATTA-ATATT
1 TTATTATATAATTATATATT
34315824 TTATTATA-AATT
1 TTATTATATAATT
34315836 TTCATATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 13 0.50
19 9 0.35
20 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTATATAATTATATATT
Found at i:34330196 original size:58 final size:58
Alignment explanation
Indices: 34330084--34330208 Score: 142
Period size: 58 Copynumber: 2.2 Consensus size: 58
34330074 AAGTTTGGAG
* ** * * *
34330084 AAAAAAATTTTAGATTCTTTAAAAGTTGATAAAAAAAATTTTAGACCCTCAAAAGCTC
1 AAAAAAATTTTAAACCCCTTAAAAGTTGATAAAAAAAACTTTAGACCCTCAAAAGCTA
* * * * * *
34330142 AAAAAAATTTTAAACCCCTTAAAAGTTGGTAAAAAAAACTTTCGGCCTTTAAAAGTTA
1 AAAAAAATTTTAAACCCCTTAAAAGTTGATAAAAAAAACTTTAGACCCTCAAAAGCTA
34330200 AAAAAAATT
1 AAAAAAATT
34330209 GGGGCCCTTA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.30
Consensus pattern (58 bp):
AAAAAAATTTTAAACCCCTTAAAAGTTGATAAAAAAAACTTTAGACCCTCAAAAGCTA
Found at i:34331153 original size:3 final size:3
Alignment explanation
Indices: 34331145--34331169 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
34331135 TGCTCGTCAT
34331145 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
34331170 TGGTATGTGT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:34332660 original size:29 final size:30
Alignment explanation
Indices: 34332621--34332677 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
34332611 ACTTATTTTA
34332621 TTCATTTTAATAATAACAAA-ATTAAATTAT
1 TTCATTTTAATAATAA-AAAGATTAAATTAT
34332651 TTCA-TTTAATAATAAAAAGATTAAATT
1 TTCATTTTAATAATAAAAAGATTAAATT
34332678 TAATTTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 3 0.12
29 19 0.73
30 4 0.15
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (30 bp):
TTCATTTTAATAATAAAAAGATTAAATTAT
Found at i:34332683 original size:26 final size:28
Alignment explanation
Indices: 34332626--34332686 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
34332616 TTTTATTCAT
*
34332626 TTTAATAATAACAAAATTAAATTATTTCA
1 TTTAATAATAACAAAATTAAA-TATTTAA
34332655 TTTAATAATAA-AAAGATT-AA-ATTTAA
1 TTTAATAATAACAAA-ATTAAATATTTAA
34332681 TTTAAT
1 TTTAAT
34332687 CCCTATAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 11 0.37
28 5 0.17
29 14 0.47
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (28 bp):
TTTAATAATAACAAAATTAAATATTTAA
Found at i:34345291 original size:21 final size:21
Alignment explanation
Indices: 34345243--34345294 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
34345233 ATATATTATA
34345243 ACTATTCATG-ACTTGATTCT
1 ACTATTCATGAACTTGATTCT
* *
34345263 ATTGTTCATGAACTTGA-TCT
1 ACTATTCATGAACTTGATTCT
34345283 CACTATTCATGA
1 -ACTATTCATGA
34345295 GACCAACATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACTATTCATGAACTTGATTCT
Found at i:34349621 original size:28 final size:27
Alignment explanation
Indices: 34349561--34349625 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
34349551 ACATTAAAAT
*
34349561 AATATTAAGATAATTATATAAAAATTTTC
1 AATATTAA-A-AATTATATAAAAATTTTA
*
34349590 AATAATTAAAAATTGTAT-AAAATTATTA
1 AAT-ATTAAAAATTATATAAAAATT-TTA
34349618 AATATTAA
1 AATATTAA
34349626 TATAATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 11 0.34
28 12 0.38
29 4 0.12
30 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (27 bp):
AATATTAAAAATTATATAAAAATTTTA
Found at i:34351039 original size:55 final size:53
Alignment explanation
Indices: 34350977--34351179 Score: 157
Period size: 53 Copynumber: 3.8 Consensus size: 53
34350967 ACACGAGCAA
*
34350977 GACACACGTCTATGTCAAGGTGTGTGTGTGTATACTATTTTGAGGCACACGGGCT
1 GACACACGGCTATGTCAA-G-GTGTGTGTGTATACTATTTTGAGGCACACGGGCT
* * * * *
34351032 GACACACGAGCATGTGTC-AGAGTGTATGTATATACTGTTTTGAGGCACACAGGCT
1 GACACACG-GC-TATGTCAAG-GTGTGTGTGTATACTATTTTGAGGCACACGGGCT
* * *
34351087 GAAACACAGGC-ATGT-ATCAGG-GTGTGTGTATGCTATTTTGAGGCACACGAGCT
1 GACACAC-GGCTATGTCA--AGGTGTGTGTGTATACTATTTTGAGGCACACGGGCT
* ** *
34351140 GACACAAGGGC-ATGTGTTAGG-GTGTGTGTATACTGTTTTG
1 GACAC-ACGGCTATGT-CAAGGTGTGTGTGTATACTATTTTG
34351180 TTATTTAATG
Statistics
Matches: 119, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
53 60 0.50
54 2 0.02
55 49 0.41
56 3 0.03
57 5 0.04
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (53 bp):
GACACACGGCTATGTCAAGGTGTGTGTGTATACTATTTTGAGGCACACGGGCT
Found at i:34351141 original size:53 final size:53
Alignment explanation
Indices: 34351000--34351179 Score: 213
Period size: 53 Copynumber: 3.4 Consensus size: 53
34350990 GTCAAGGTGT
*
34351000 GTGTGTGTATACTATTTTGAGGCACACGGGCTGACACAC-GAGCATGTGTCAGAG
1 GTGTGTGTATACTATTTTGAGGCACACGAGCTGACACACAG-GCATGTGTCAG-G
* * * * *
34351054 TGTATGTATATACTGTTTTGAGGCACAC-AGGCTGAAACACAGGCATGTATCAGG
1 -GTGTGTGTATACTATTTTGAGGCACACGA-GCTGACACACAGGCATGTGTCAGG
* *
34351108 GTGTGTGTATGCTATTTTGAGGCACACGAGCTGACACA-AGGGCATGTGTTAGG
1 GTGTGTGTATACTATTTTGAGGCACACGAGCTGACACACA-GGCATGTGTCAGG
*
34351161 GTGTGTGTATACTGTTTTG
1 GTGTGTGTATACTATTTTG
34351180 TTATTTAATG
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
52 1 0.01
53 59 0.56
54 2 0.02
55 43 0.41
56 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.30
Consensus pattern (53 bp):
GTGTGTGTATACTATTTTGAGGCACACGAGCTGACACACAGGCATGTGTCAGG
Found at i:34351818 original size:24 final size:23
Alignment explanation
Indices: 34351783--34351841 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
34351773 TTTTAAATTT
*
34351783 AATTTATATATTTTTATTTTTAA
1 AATTTATATATTTTAATTTTTAA
34351806 GAATTTAGT-TATTTTAATTTTTAA
1 -AATTTA-TATATTTTAATTTTTAA
34351830 AATTTA-ATATTT
1 AATTTATATATTT
34351842 AAGTTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.16
23 6 0.19
24 20 0.62
25 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (23 bp):
AATTTATATATTTTAATTTTTAA
Found at i:34352026 original size:23 final size:22
Alignment explanation
Indices: 34351992--34352060 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
34351982 CTTAACAGTT
*
34351992 AAATCAAAAAATTAAAATCTAAA
1 AAAT-AAAAAATTAAAATATAAA
* *
34352015 AAATAAAGAAATTAAATTATTAA
1 AAATAAA-AAATTAAAATATAAA
* *
34352038 AAATAAAAATATAAAAATTTAAA
1 AAATAAAAA-ATTAAAATATAAA
34352061 TTTAAATTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 5 0.14
23 32 0.86
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (22 bp):
AAATAAAAAATTAAAATATAAA
Found at i:34354220 original size:23 final size:22
Alignment explanation
Indices: 34354187--34354242 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
34354177 TTAGTATGTA
*
34354187 TTTA-TCT-ATTTAAATTTTAT
1 TTTACTCTAATTTAAACTTTAT
*
34354207 TTTACTCATAATTTAAACTTTCT
1 TTTACTC-TAATTTAAACTTTAT
*
34354230 TTTATTCTAATTT
1 TTTACTCTAATTT
34354243 CGTACATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 4 0.13
21 2 0.07
22 7 0.23
23 17 0.57
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTACTCTAATTTAAACTTTAT
Found at i:34355383 original size:18 final size:17
Alignment explanation
Indices: 34355340--34355384 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
34355330 ATATTACGTT
*
34355340 AATAAATAA-ATTAAAA
1 AATAAAAAATATTAAAA
34355356 AATATAAAAATATTCAAAA
1 AATA-AAAAATATT-AAAA
34355375 AATAAAAAAT
1 AATAAAAAAT
34355385 CAGAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 4 0.16
17 4 0.16
18 9 0.36
19 8 0.32
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAAAAATATTAAAA
Found at i:34355577 original size:22 final size:23
Alignment explanation
Indices: 34355536--34355580 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
34355526 AATTTAAGGG
34355536 TCAAATTTAATTAAAAATATAAA
1 TCAAATTTAATTAAAAATATAAA
34355559 TCAAA-TTAA-TAAAAGATATAAA
1 TCAAATTTAATTAAAA-ATATAAA
34355581 CATTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 11 0.52
23 5 0.24
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
TCAAATTTAATTAAAAATATAAA
Found at i:34357292 original size:30 final size:31
Alignment explanation
Indices: 34357251--34357317 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
34357241 ACTTACATTT
*
34357251 CAGTCCTTCAAC-TTTAAAAATGTGACAAAA
1 CAGTCCCTCAACTTTTAAAAATGTGACAAAA
*
34357281 CAGTCCCTCAACTTTTGAAAATGTGACAAAA
1 CAGTCCCTCAACTTTTAAAAATGTGACAAAA
*
34357312 TAGTCC
1 CAGTCC
34357318 TTTTCCATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (31 bp):
CAGTCCCTCAACTTTTAAAAATGTGACAAAA
Found at i:34358816 original size:30 final size:31
Alignment explanation
Indices: 34358752--34358823 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
34358742 ATAACAAGAG
* * * * *
34358752 GACTATTTTGTCACTTTTTGATAATTTTAGT
1 GACTGTTTTGTCACATTTTCATAAGTTGAGT
34358783 GACTGTTTTGTCACATTTTCA-AAGTTGAGT
1 GACTGTTTTGTCACATTTTCATAAGTTGAGT
34358813 GACTGTTTTGT
1 GACTGTTTTGT
34358824 TACACGTAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 18 0.50
31 18 0.50
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.50
Consensus pattern (31 bp):
GACTGTTTTGTCACATTTTCATAAGTTGAGT
Found at i:34371498 original size:17 final size:15
Alignment explanation
Indices: 34371464--34371512 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 15
34371454 TTTCTTTTAA
34371464 CTTTCTCCTTTTTTTT
1 CTTT-TCCTTTTTTTT
34371480 CTTTTCCTTTTGTTCTT
1 CTTTTCCTTTT-TT-TT
34371497 CTTTTCCATTTTTTTT
1 CTTTTCC-TTTTTTTT
34371513 TTCTGTTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.23
16 8 0.27
17 11 0.37
18 4 0.13
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.73
Consensus pattern (15 bp):
CTTTTCCTTTTTTTT
Found at i:34372337 original size:16 final size:16
Alignment explanation
Indices: 34372316--34372347 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34372306 GCAAGGAAAC
34372316 TAAAGTACCTTCCACA
1 TAAAGTACCTTCCACA
*
34372332 TAAAGTATCTTCCACA
1 TAAAGTACCTTCCACA
34372348 CTTTCCTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (16 bp):
TAAAGTACCTTCCACA
Found at i:34374846 original size:22 final size:23
Alignment explanation
Indices: 34374804--34374851 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
34374794 GGGTTAAAGT
*
34374804 TAAATAATATATATTTCTAATAG
1 TAAATAATATATATTTATAATAG
*
34374827 TAAA-AATATA-ATTTTATAATTG
1 TAAATAATATATA-TTTATAATAG
34374849 TAA
1 TAA
34374852 TAGTTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 1 0.05
22 17 0.77
23 4 0.18
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (23 bp):
TAAATAATATATATTTATAATAG
Found at i:34381526 original size:29 final size:29
Alignment explanation
Indices: 34381494--34381701 Score: 141
Period size: 29 Copynumber: 7.2 Consensus size: 29
34381484 TTAAAATGAG
*
34381494 ATTTTGGAAAGTTCAGGGGCAAAATGGTA
1 ATTTTGGAAAGTTCAGGGGTAAAATGGTA
*
34381523 ATTTTTGGTGAAA--T-AGGGGTTAAAATGG-G
1 A-TTTT-G-GAAAGTTCAGGGG-TAAAATGGTA
*
34381552 ATTTTGGAAAGTTTAGGGGTAAAATGGTA
1 ATTTTGGAAAGTTCAGGGGTAAAATGGTA
* * * *
34381581 TTTTTTTG-AAGTTTTAGGGTTAAAATGG-A
1 -ATTTTGGAAAG-TTCAGGGGTAAAATGGTA
*
34381610 ATTTTGAAAAGTTCAGGGGTAAAATGGTA
1 ATTTTGGAAAGTTCAGGGGTAAAATGGTA
34381639 ATTTTGGGTGAAA--TC-GGGGTTAAAATGG-A
1 ATTTT--G-GAAAGTTCAGGGG-TAAAATGGTA
* * *
34381668 ATTTTTGAAAGTTTAGGGGCAAAAAT-GTA
1 ATTTTGGAAAGTTCAGGGG-TAAAATGGTA
34381697 ATTTT
1 ATTTT
34381702 TGGAGGTTTC
Statistics
Matches: 143, Mismatches: 16, Indels: 40
0.72 0.08 0.20
Matches are distributed among these distances:
26 8 0.06
27 1 0.01
28 33 0.23
29 50 0.35
30 42 0.29
31 2 0.01
32 7 0.05
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.36
Consensus pattern (29 bp):
ATTTTGGAAAGTTCAGGGGTAAAATGGTA
Found at i:34381576 original size:58 final size:58
Alignment explanation
Indices: 34381441--34381704 Score: 313
Period size: 58 Copynumber: 4.5 Consensus size: 58
34381431 GTAAACTTGA
* * *
34381441 GAAAATTTAGGGTTAAAATGGTAATTTTTGGTGAAATCGGGGTTTAAAAT-GAGATTTTG
1 GAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATAGGGG-TTAAAATGGA-ATTTTG
* * *
34381500 GAAAGTTCAGGGGCAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGGATTTTG
1 GAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTG
* *
34381558 GAAAGTTTAGGGGTAAAATGGT-ATTTTT-TTGAAGTTTTA-GGGTTAAAATGGAATTTTG
1 GAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAA---ATAGGGGTTAAAATGGAATTTTG
* * * * *
34381616 AAAAGTTCAGGGGTAAAATGGTAATTTTGGGTGAAATCGGGGTTAAAATGGAATTTTT
1 GAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTG
*
34381674 GAAAGTTTAGGGGCAAAAAT-GTAATTTTTGG
1 GAAAGTTTAGGGG-TAAAATGGTAATTTTTGG
34381705 AGGTTTCGAG
Statistics
Matches: 175, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
56 4 0.02
57 7 0.04
58 110 0.63
59 50 0.29
60 4 0.02
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.35
Consensus pattern (58 bp):
GAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTG
Found at i:34381710 original size:29 final size:29
Alignment explanation
Indices: 34381660--34381744 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
34381650 AATCGGGGTT
* *
34381660 AAAATGGAATTTTTGAAAGTTTAGGGGCA
1 AAAATGTAATTTTTGGAAGTTTAGGGGCA
* * *
34381689 AAAATGTAATTTTTGGAGGTTTCGAGGTCA
1 AAAATGTAATTTTTGGAAGTTTAG-GGGCA
34381719 AAACA--TAATTTTTGGATAGTTTAGGG
1 AAA-ATGTAATTTTTGGA-AGTTTAGGG
34381745 ACCTCTAGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
29 33 0.72
30 12 0.26
31 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTAGGGGCA
Found at i:34381729 original size:116 final size:116
Alignment explanation
Indices: 34381494--34381730 Score: 307
Period size: 116 Copynumber: 2.0 Consensus size: 116
34381484 TTAAAATGAG
* * *
34381494 ATTTTGGAAAGTTCAGGGGCAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGGATTTTGG
1 ATTTTGAAAAGTTCAGGGGCAAAATGGTAATTTTGGGTGAAATAGGGGTTAAAATGGAATTTTGG
* * * * * **
34381559 AAAGTTTAGGGGTAAAATGGTATTTTTTTGAAGTTTTAGGGTTAAAATGGA
66 AAAGTTTAGGGGAAAAATGGTAATTTTTGGAAGTTTGAGGGTCAAAACAGA
* * *
34381610 ATTTTGAAAAGTTCAGGGGTAAAATGGTAATTTTGGGTGAAATCGGGGTTAAAATGGAATTTTTG
1 ATTTTGAAAAGTTCAGGGGCAAAATGGTAATTTTGGGTGAAATAGGGGTTAAAATGGAATTTTGG
* *
34381675 AAAGTTTAGGGGCAAAAAT-GTAATTTTTGGAGGTTTCGA-GGTCAAAACATA
66 AAAGTTTAGGGG-AAAAATGGTAATTTTTGGAAGTTT-GAGGGTCAAAACAGA
34381726 ATTTT
1 ATTTT
34381731 TGGATAGTTT
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
116 98 0.94
117 6 0.06
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.35
Consensus pattern (116 bp):
ATTTTGAAAAGTTCAGGGGCAAAATGGTAATTTTGGGTGAAATAGGGGTTAAAATGGAATTTTGG
AAAGTTTAGGGGAAAAATGGTAATTTTTGGAAGTTTGAGGGTCAAAACAGA
Found at i:34382725 original size:3 final size:3
Alignment explanation
Indices: 34382719--34382766 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
34382709 TATTTAATAA
* *
34382719 TAT TAT TAA TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
34382765 TA
1 TA
34382767 AAAGTTTTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:34383484 original size:17 final size:17
Alignment explanation
Indices: 34383462--34383533 Score: 83
Period size: 17 Copynumber: 4.2 Consensus size: 17
34383452 TAATTTTAAT
*
34383462 TTTAAATTTATAATAAA
1 TTTAAATTTAAAATAAA
* * *
34383479 TTTAAATTTTATACAAA
1 TTTAAATTTAAAATAAA
34383496 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
34383513 TCT-AATTTAAAATTAAA
1 TTTAAATTTAAAA-TAAA
34383530 TTTA
1 TTTA
34383534 CCTCATTGAG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
16 9 0.20
17 35 0.80
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:34383526 original size:7 final size:6
Alignment explanation
Indices: 34383448--34383533 Score: 56
Period size: 6 Copynumber: 15.0 Consensus size: 6
34383438 AATTTTATTC
* * * **
34383448 AATTTA ATTTTA ATTTTA AATTTA TAA--TA AATTTA AATTT- TATACA
1 AATTTA AATTTA AATTTA AATTTA -AATTTA AATTTA AATTTA AATTTA
* * *
34383494 AATTTA AATTTA AA-ATA AATCT- AATTTA AAATTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
34383534 CCTCATTGAG
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
4 2 0.03
5 12 0.20
6 45 0.74
7 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTTA
Found at i:34389724 original size:16 final size:16
Alignment explanation
Indices: 34389705--34389738 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
34389695 AAAAAACACC
34389705 AGAGA-AAAAGAGAGAG
1 AGAGAGAAAA-AGAGAG
34389721 AGAGAGAAAAAGAGAG
1 AGAGAGAAAAAGAGAG
34389737 AG
1 AG
34389739 TCGTTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
AGAGAGAAAAAGAGAG
Found at i:34390578 original size:91 final size:91
Alignment explanation
Indices: 34390433--34390617 Score: 370
Period size: 91 Copynumber: 2.0 Consensus size: 91
34390423 ATTTTATTTA
34390433 TTTTTATCTGTTTTCATTTTCATCAGCTAATGATGATAAACTTATGAGGTGAACTGGTAGAATCA
1 TTTTTATCTGTTTTCATTTTCATCAGCTAATGATGATAAACTTATGAGGTGAACTGGTAGAATCA
34390498 TAGTTATTTGCTTTACTTATTTTCAT
66 TAGTTATTTGCTTTACTTATTTTCAT
34390524 TTTTTATCTGTTTTCATTTTCATCAGCTAATGATGATAAACTTATGAGGTGAACTGGTAGAATCA
1 TTTTTATCTGTTTTCATTTTCATCAGCTAATGATGATAAACTTATGAGGTGAACTGGTAGAATCA
34390589 TAGTTATTTGCTTTACTTATTTTCAT
66 TAGTTATTTGCTTTACTTATTTTCAT
34390615 TTT
1 TTT
34390618 AAAGAAGAAT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 94 1.00
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (91 bp):
TTTTTATCTGTTTTCATTTTCATCAGCTAATGATGATAAACTTATGAGGTGAACTGGTAGAATCA
TAGTTATTTGCTTTACTTATTTTCAT
Found at i:34395676 original size:22 final size:22
Alignment explanation
Indices: 34395648--34395706 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
34395638 ATTAGAGTAA
*
34395648 TCATCTCTAATTTCATCATGGT
1 TCATCTCTAATTTCATCATGAT
34395670 TCATCTCTAATTTCATCATGAT
1 TCATCTCTAATTTCATCATGAT
34395692 TCATCTCTAATTTCA
1 TCATCTCTAATTTCA
34395707 ACAGTTTCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.24, G:0.05, T:0.46
Consensus pattern (22 bp):
TCATCTCTAATTTCATCATGAT
Found at i:34410827 original size:94 final size:95
Alignment explanation
Indices: 34410666--34410928 Score: 368
Period size: 95 Copynumber: 2.8 Consensus size: 95
34410656 TCCATTCACG
* * * * * * * *
34410666 AAAATTACAAGTATTCTCTATCAACATTTATC-ATATTGGCATGTTAATCAAGTTATGAAATATA
1 AAAATTATAAGTATTTTCCATCAATATTTATCAAT-TTGACATGTTGATTAAGTTATAAAATATA
34410730 TAACTATTTT-TCACTTGGTTTATAATCATT
65 TAACTATTTTCTCACTTGGTTTATAATCATT
34410760 AAAATTATAAGTATTTTCCATCAATATTTATCAATTTGACATGTTGATTAAGTTATAAAATATAT
1 AAAATTATAAGTATTTTCCATCAATATTTATCAATTTGACATGTTGATTAAGTTATAAAATATAT
*
34410825 AACTATTTTCTGACTTGGTTTATAATCATT
66 AACTATTTTCTCACTTGGTTTATAATCATT
* * * * * *
34410855 AAGATTATAAATATTTTCCATCAATATTTATCAATTTGATATATTGATTAAATTATAAGATATAT
1 AAAATTATAAGTATTTTCCATCAATATTTATCAATTTGACATGTTGATTAAGTTATAAAATATAT
34410920 AACTATTTT
66 AACTATTTT
34410929 GCTTAAAACT
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
94 63 0.41
95 89 0.59
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (95 bp):
AAAATTATAAGTATTTTCCATCAATATTTATCAATTTGACATGTTGATTAAGTTATAAAATATAT
AACTATTTTCTCACTTGGTTTATAATCATT
Found at i:34417474 original size:13 final size:13
Alignment explanation
Indices: 34417456--34417482 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34417446 ATATTTATTC
34417456 CACATTTATAAGA
1 CACATTTATAAGA
34417469 CACATTTATAAGA
1 CACATTTATAAGA
34417482 C
1 C
34417483 GCTTATTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (13 bp):
CACATTTATAAGA
Found at i:34420494 original size:156 final size:154
Alignment explanation
Indices: 34420212--34420520 Score: 453
Period size: 156 Copynumber: 2.0 Consensus size: 154
34420202 ACTTGCAAGT
* * * *
34420212 ATCTCGATCCTAAACCGTAAGTATTTAAAATTTTCAGTATCATTTCTTTAGCATATGCTTACTAA
1 ATCTCGATCCTAAACCGTAAGCATTTAAAACTTTCAATATCATTTCTTTAGCATATACTTACTAA
* * *
34420277 CAAAGGGAACAGAACAACTATTTATATTATTATCAGGAAATTTTCCAAAGATCTATCATATTCA-
66 CAAAGGGAACAGAACAAATATTTATATTATTATCAGAAAATTCTCCAAAGATCTATCATATTCAT
34420341 AGTATGGAAAAACTTGAGCCTAAAC
131 A-TATGGAAAAACTTGAGCCTAAAC
* * *
34420366 ATCTCGATCCTCAACCTTAAGCACTTT-AAACTTTGAATATCATTTCTTTAGCATATACTTCACT
1 ATCTCGATCCTAAACCGTAAGCA-TTTAAAACTTTCAATATCATTTCTTTAGCATATACTT-ACT
*
34420430 AACAAAGGGAAC-GAACAAAGATTTTTATATTATTATCAGAAAATTCTCCAAAGATCTATCATAT
64 AACAAAGGGAACAGAAC-AA-ATATTTATATTATTATCAGAAAATTCTCCAAAGATCTATCATAT
34420494 TCATATATGGAAAAACTTGAGCCTAAA
127 TCATATATGGAAAAACTTGAGCCTAAA
34420521 GAAAGCGACA
Statistics
Matches: 139, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
154 53 0.38
155 20 0.14
156 65 0.47
157 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (154 bp):
ATCTCGATCCTAAACCGTAAGCATTTAAAACTTTCAATATCATTTCTTTAGCATATACTTACTAA
CAAAGGGAACAGAACAAATATTTATATTATTATCAGAAAATTCTCCAAAGATCTATCATATTCAT
ATATGGAAAAACTTGAGCCTAAAC
Found at i:34432398 original size:222 final size:222
Alignment explanation
Indices: 34432012--34432456 Score: 863
Period size: 222 Copynumber: 2.0 Consensus size: 222
34432002 CACAAATTTA
34432012 TTATCTAAGATAGTTATTTTTACATTATTTCGAAAACCCAATGATACAATAGTATGAATATGTAA
1 TTATCTAAGATAGTTATTTTTACATTATTTCGAAAACCCAATGATACAATAGTATGAATATGTAA
34432077 AATACAAGATTTTCAATCCTAATAGGAAAGGGATGGAAACAAATACTCAATTTAAAGCGAGTAAA
66 AATACAAGATTTTCAATCCTAATAGGAAAGGGATGGAAACAAATACTCAATTTAAAGCGAGTAAA
34432142 CAGGATCCATACTCGATCTCATAGATACATATGGAATTCTGTGGAAAATCGTATTCGATGAAAGT
131 CAGGATCCATACTCGATCTCATAGATACATATGGAATTCTGTGGAAAATCGTATTCGATGAAAGT
*
34432207 TATATGTACGGCTTGGAGGAAGATCTT
196 CATATGTACGGCTTGGAGGAAGATCTT
*
34432234 TTATCTAAGATAGTTATTTTTACATTATTTCGAAAACCCAATGATTCAATAGTATGAATATGTAA
1 TTATCTAAGATAGTTATTTTTACATTATTTCGAAAACCCAATGATACAATAGTATGAATATGTAA
*
34432299 AATACAAGATTTTCAATCCTAATAGGAAAGGGATGGAAACAAATACTCGATTTAAAGCGAGTAAA
66 AATACAAGATTTTCAATCCTAATAGGAAAGGGATGGAAACAAATACTCAATTTAAAGCGAGTAAA
34432364 CAGGATCCATACTCGATCTCATAGATACATATGGAATTCTGTGGAAAATCGTATTCGATGAAAGT
131 CAGGATCCATACTCGATCTCATAGATACATATGGAATTCTGTGGAAAATCGTATTCGATGAAAGT
34432429 CATATGTACGGCTTGGAGGAAGATCTT
196 CATATGTACGGCTTGGAGGAAGATCTT
34432456 T
1 T
34432457 CATATCTTTC
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
222 220 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (222 bp):
TTATCTAAGATAGTTATTTTTACATTATTTCGAAAACCCAATGATACAATAGTATGAATATGTAA
AATACAAGATTTTCAATCCTAATAGGAAAGGGATGGAAACAAATACTCAATTTAAAGCGAGTAAA
CAGGATCCATACTCGATCTCATAGATACATATGGAATTCTGTGGAAAATCGTATTCGATGAAAGT
CATATGTACGGCTTGGAGGAAGATCTT
Found at i:34433235 original size:17 final size:17
Alignment explanation
Indices: 34433213--34433261 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
34433203 TACCTATTAA
34433213 TGAAATTAATATTTTTT
1 TGAAATTAATATTTTTT
* * *
34433230 TGAAA-TATTAGTATTT
1 TGAAATTAATATTTTTT
*
34433246 CGAAATTAATATTTTT
1 TGAAATTAATATTTTT
34433262 ATTAAATAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (17 bp):
TGAAATTAATATTTTTT
Found at i:34438885 original size:18 final size:18
Alignment explanation
Indices: 34438844--34438885 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
34438834 AGAGTCAAAT
*
34438844 TGTTTTTTTAAACAAAAA
1 TGTTTTATTAAACAAAAA
**
34438862 TG-TTTATTAAACATTAA
1 TGTTTTATTAAACAAAAA
34438879 TGTTTTA
1 TGTTTTA
34438886 ACGTGTGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (18 bp):
TGTTTTATTAAACAAAAA
Found at i:34443504 original size:16 final size:16
Alignment explanation
Indices: 34443483--34443516 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
34443473 ACATGTAGAC
34443483 AACAGTATAAAGTGAG
1 AACAGTATAAAGTGAG
34443499 AACAGTATAAAGTGAG
1 AACAGTATAAAGTGAG
34443515 AA
1 AA
34443517 TTTCATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18
Consensus pattern (16 bp):
AACAGTATAAAGTGAG
Found at i:34451613 original size:23 final size:23
Alignment explanation
Indices: 34451587--34451745 Score: 145
Period size: 23 Copynumber: 7.2 Consensus size: 23
34451577 AGTGTTGGGC
34451587 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
34451610 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
*
34451629 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
34451649 ATCAGAGAGCACACAAAGTACTA
1 AACAGAGAGCACACAAAGTGCTA
* * *
34451672 ATCAGAGAGCACGA-GACGTGCTA
1 AACAGAGAGCAC-ACAAAGTGCTA
** * *
34451695 AACAGAGAGTGCACACAGTGCTG
1 AACAGAGAGCACACAAAGTGCTA
*
34451718 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
34451741 AACAG
1 AACAG
34451746 TTTCGACCTT
Statistics
Matches: 108, Mismatches: 19, Indels: 18
0.74 0.13 0.12
Matches are distributed among these distances:
16 10 0.09
18 3 0.03
19 1 0.01
20 1 0.01
21 2 0.02
22 1 0.01
23 89 0.82
24 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.11
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:34451647 original size:39 final size:39
Alignment explanation
Indices: 34451593--34451670 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
34451583 GGGCAACAGA
*
34451593 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
*
34451632 GAGCACACAAAGTGCTAATCAGAGAGCACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
34451671 AATCAGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.13
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:34453168 original size:2 final size:2
Alignment explanation
Indices: 34453161--34453187 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34453151 ACTCAACGTT
34453161 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
34453188 TTATCAATTT
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:34462503 original size:15 final size:16
Alignment explanation
Indices: 34462478--34462511 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
34462468 AAAATGTAAT
34462478 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
34462494 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
34462509 TTT
1 TTT
34462512 TTAAAAGATT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Done.