Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 117 of 204
Found at i:36386294 original size:23 final size:23
Alignment explanation
Indices: 36386263--36386309 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
36386253 GGGAAAGATA
*
36386263 AGTTCTTTCTTATCTTTCTCACG
1 AGTTCTTTCTCATCTTTCTCACG
*
36386286 AGTTGTTTCTCATCTTTCTCACG
1 AGTTCTTTCTCATCTTTCTCACG
36386309 A
1 A
36386310 AAGATTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.26, G:0.11, T:0.49
Consensus pattern (23 bp):
AGTTCTTTCTCATCTTTCTCACG
Found at i:36392960 original size:12 final size:12
Alignment explanation
Indices: 36392943--36392967 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36392933 CTGGTCTGGA
36392943 AGCTGCTTCAAC
1 AGCTGCTTCAAC
36392955 AGCTGCTTCAAC
1 AGCTGCTTCAAC
36392967 A
1 A
36392968 ATGAGGGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (12 bp):
AGCTGCTTCAAC
Found at i:36393131 original size:22 final size:21
Alignment explanation
Indices: 36393068--36393131 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
36393058 TTGCTTCCTT
*
36393068 AACACGCTCCAGGATTTCTTG
1 AACACGCTCCAGGATTTCTTC
* * *
36393089 TACATGCTTCAGGATTTCTTC
1 AACACGCTCCAGGATTTCTTC
*
36393110 AACGCGCTCCAGGATTTTCTTC
1 AACACGCTCCAGGA-TTTCTTC
36393132 TGCAGTTCAG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (21 bp):
AACACGCTCCAGGATTTCTTC
Found at i:36398724 original size:20 final size:20
Alignment explanation
Indices: 36398699--36398737 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
36398689 CACGTGGGAT
36398699 GAATGTCT-TCGATGGGACAA
1 GAATGTCTGT-GATGGGACAA
36398719 GAATGTCTGTGATGGGACA
1 GAATGTCTGTGATGGGACA
36398738 GATATTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (20 bp):
GAATGTCTGTGATGGGACAA
Found at i:36400714 original size:22 final size:22
Alignment explanation
Indices: 36400682--36400723 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36400672 TATATAAGCA
* *
36400682 ATATTATTTGAATAGTTATGAG
1 ATATTAGTTGAATAATTATGAG
36400704 ATATTAGTTGAATAATTATG
1 ATATTAGTTGAATAATTATG
36400724 TCACTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (22 bp):
ATATTAGTTGAATAATTATGAG
Found at i:36404220 original size:63 final size:63
Alignment explanation
Indices: 36404148--36404390 Score: 296
Period size: 63 Copynumber: 3.9 Consensus size: 63
36404138 TCTTCGTAGC
* * * * *
36404148 AAACATACATTCAGATAACATATATATATAATTCATACAATTAAATTCTACTTATAGAACTCA
1 AAACATACATTCGGCTAACATATTTATATAATTCATAAAATTAAATTCAACTTATAGAACTCA
* * *** *
36404211 AAAAATACATTCGGCTAACATATTTATATAATTTATAAAATTTGTTTCAACTCATAGAACTCA
1 AAACATACATTCGGCTAACATATTTATATAATTCATAAAATTAAATTCAACTTATAGAACTCA
* * ** *
36404274 AAACATACACT-GGCTAACATATTTATAT--TTCATACAATTAGTTTCAACTTATCA-AACTTA
1 AAACATACATTCGGCTAACATATTTATATAATTCATAAAATTAAATTCAACTTAT-AGAACTCA
*
36404334 AAACATACATTCGGCTAACATATTTATATAATTCATAAAATTAAATTCAGCTTATAG
1 AAACATACATTCGGCTAACATATTTATATAATTCATAAAATTAAATTCAACTTATAG
36404391 TAAAAATATA
Statistics
Matches: 152, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
60 35 0.23
61 18 0.12
62 18 0.12
63 81 0.53
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (63 bp):
AAACATACATTCGGCTAACATATTTATATAATTCATAAAATTAAATTCAACTTATAGAACTCA
Found at i:36406007 original size:27 final size:27
Alignment explanation
Indices: 36405976--36406041 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 27
36405966 TGCCCTCCTT
*
36405976 CATCTTCTCCTTCACTTTATTGCCAAC
1 CATCTTCTCCTTCACTTCATTGCCAAC
** * * *
36406003 CATC-TCTGTTTCCCTTCCTTTCCAAC
1 CATCTTCTCCTTCACTTCATTGCCAAC
36406029 CATCTTCTCCTTC
1 CATCTTCTCCTTC
36406042 TGTTCCCATA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.14, C:0.41, G:0.03, T:0.42
Consensus pattern (27 bp):
CATCTTCTCCTTCACTTCATTGCCAAC
Found at i:36408732 original size:18 final size:17
Alignment explanation
Indices: 36408706--36408741 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
36408696 TTTGGTTATA
36408706 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
36408724 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
36408741 T
1 T
36408742 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:36412347 original size:21 final size:21
Alignment explanation
Indices: 36412306--36412348 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
36412296 AATAAAGTAG
*
36412306 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
36412327 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
36412348 A
1 A
36412349 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:36412389 original size:33 final size:34
Alignment explanation
Indices: 36412331--36412406 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
36412321 TATAGTATTA
*
36412331 TATATTATGATTTTAGTAAATTCATA-TAATAAT
1 TATATTAAGATTTTAGTAAATTCATATTAATAAT
*
36412364 TATATTAAGAATTTTATTAAA-TCATATTTAATAAT
1 TATATTAAG-ATTTTAGTAAATTCATA-TTAATAAT
*
36412399 TATGTTAA
1 TATATTAA
36412407 AATATGAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 13 0.35
34 10 0.27
35 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (34 bp):
TATATTAAGATTTTAGTAAATTCATATTAATAAT
Found at i:36412443 original size:24 final size:24
Alignment explanation
Indices: 36412414--36412465 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
36412404 TAAAATATGA
36412414 ATAAATTATTTATTGTTTTTATTC
1 ATAAATTATTTATTGTTTTTATTC
36412438 ATAAATTATTTATTGTTTTTATTC
1 ATAAATTATTTATTGTTTTTATTC
36412462 ATAA
1 ATAA
36412466 TCTTATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (24 bp):
ATAAATTATTTATTGTTTTTATTC
Found at i:36412657 original size:45 final size:43
Alignment explanation
Indices: 36412575--36412660 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 43
36412565 AACATCATTC
*
36412575 CATTCAACCAAACACAAGAATACTATTACAGTTCTATTCCACT
1 CATTCAACCAAACACAAGAATACTATTACAGCTCTATTCCACT
36412618 CATTCAACCAAACA-ATTA-AATTACTTATTACAGCTCTATTCCA
1 CATTCAACCAAACACA--AGAA-TAC-TATTACAGCTCTATTCCA
36412661 TTACAGTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
42 1 0.03
43 16 0.42
44 4 0.11
45 17 0.45
ACGTcount: A:0.40, C:0.27, G:0.03, T:0.30
Consensus pattern (43 bp):
CATTCAACCAAACACAAGAATACTATTACAGCTCTATTCCACT
Found at i:36434762 original size:69 final size:69
Alignment explanation
Indices: 36434642--36434794 Score: 182
Period size: 69 Copynumber: 2.2 Consensus size: 69
36434632 TTTACTTGCA
* * *
36434642 AACCTTGATTTTACAGTTGGGAGCTTCGCTCTTACTAACTGCGTTAAAGGTCACGA-CTCTTCGC
1 AACCTTGATTTTACAGTTGGAAGCTTCGCTCTCACTAACTGCATTAAAGGTCAC-ACCTCTTCGC
36434706 CTGTG
65 CTGTG
* * * * ** * * *
36434711 AACCTTGCTTTTATAGTTGGAAGCTTTGCTCTCACTAACTGTATTGGAGGTCGCACCTCTTTGCT
1 AACCTTGATTTTACAGTTGGAAGCTTCGCTCTCACTAACTGCATTAAAGGTCACACCTCTTCGCC
36434776 TGTG
66 TGTG
36434780 AACCTTGATTTTACA
1 AACCTTGATTTTACA
36434795 ACTGAGAGCT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
68 1 0.01
69 68 0.99
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (69 bp):
AACCTTGATTTTACAGTTGGAAGCTTCGCTCTCACTAACTGCATTAAAGGTCACACCTCTTCGCC
TGTG
Found at i:36436973 original size:21 final size:21
Alignment explanation
Indices: 36436949--36436988 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
36436939 AGCATTCTAC
36436949 CATGAACTTCATCTATTCCCT
1 CATGAACTTCATCTATTCCCT
*
36436970 CATGAACTTCATCTGTTCC
1 CATGAACTTCATCTATTCC
36436989 TGGAGGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.38
Consensus pattern (21 bp):
CATGAACTTCATCTATTCCCT
Found at i:36437447 original size:40 final size:40
Alignment explanation
Indices: 36437392--36437499 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
36437382 AGCGTTAGCG
* * *
36437392 GCGTTTTTCCTATAAACACCGTAAAAGGTAAAGAAATA-AT
1 GCGTTTTTGC-ATAAACACCGCAAAAGGAAAAGAAATAGAT
* * *
36437432 GACGTTTTTGCATAAACTCCGCAAAAGGAAAAGCAATAGCT
1 G-CGTTTTTGCATAAACACCGCAAAAGGAAAAGAAATAGAT
**
36437473 GCGTTTTTGCATAAATGCCGCAAAAGG
1 GCGTTTTTGCATAAACACCGCAAAAGG
36437500 TTAAAAACGA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 48 0.83
41 10 0.17
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (40 bp):
GCGTTTTTGCATAAACACCGCAAAAGGAAAAGAAATAGAT
Found at i:36437536 original size:43 final size:41
Alignment explanation
Indices: 36437442--36437580 Score: 115
Period size: 41 Copynumber: 3.4 Consensus size: 41
36437432 GACGTTTTTG
* *
36437442 CATAAACTCCGCAAAAGG-AAAAGCAATAGCTG-CGTTTTTG--
1 CATAAACGCCGCAAAAGGTAAAA-CAATAGC-GAC-ATTTTGCC
* * * *
36437482 CATAAATGCCGCAAAAGGTTAAAAACGATAGCGACATTTTTCT
1 CATAAACGCCGCAAAAGG-T-AAAACAATAGCGACATTTTGCC
* * * *
36437525 CATAAACGCCGCTAAAGGTAAAGCAATAGTGGCATTTTGCC
1 CATAAACGCCGCAAAAGGTAAAACAATAGCGACATTTTGCC
36437566 CATAAACGCCGCAAA
1 CATAAACGCCGCAAA
36437581 TATTTTTTAA
Statistics
Matches: 79, Mismatches: 14, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
40 16 0.20
41 35 0.44
42 8 0.10
43 20 0.25
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (41 bp):
CATAAACGCCGCAAAAGGTAAAACAATAGCGACATTTTGCC
Found at i:36437573 original size:41 final size:40
Alignment explanation
Indices: 36437403--36437580 Score: 128
Period size: 40 Copynumber: 4.3 Consensus size: 40
36437393 CGTTTTTCCT
* * * * * *
36437403 ATAAACACCGTAAAAGGTAAAGAAATAATGACGTTTTTG-C
1 ATAAACGCCGCAAAAGGTAAAGCAATAGTGGC-ATTTTGCC
* * *
36437443 ATAAACTCCGCAAAAGGAAAAGCAATAGCT-GCGTTTTTG-C
1 ATAAACGCCGCAAAAGGTAAAGCAATAG-TGGC-ATTTTGCC
* * * * * *
36437483 ATAAATGCCGCAAAAGGTTAAAAACGATAGCGACATTTTTCTC
1 ATAAACGCCGCAAAAGG-T-AAAGCAATAGTGGCATTTTGC-C
*
36437526 ATAAACGCCGCTAAAGGTAAAGCAATAGTGGCATTTTGCCC
1 ATAAACGCCGCAAAAGGTAAAGCAATAGTGGCATTTTG-CC
36437567 ATAAACGCCGCAAA
1 ATAAACGCCGCAAA
36437581 TATTTTTTAA
Statistics
Matches: 108, Mismatches: 23, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
40 47 0.44
41 34 0.31
42 11 0.10
43 16 0.15
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (40 bp):
ATAAACGCCGCAAAAGGTAAAGCAATAGTGGCATTTTGCC
Found at i:36440701 original size:66 final size:67
Alignment explanation
Indices: 36440607--36440733 Score: 195
Period size: 66 Copynumber: 1.9 Consensus size: 67
36440597 AAGCGGATGC
* * *
36440607 AGCATCGAGAGAAGCAGTGGCTAAAAGAAAATATGATGAACTCCAGCTACAACTT-AAAATGGAG
1 AGCAGCGAGAGAAGCAGAGGCTAAAAGAAAATATGACGAACTCCAGCTACAACTTCAAAATGGAG
36440671 GT
66 GT
*
36440673 AGCAGCGAGGGAAGCAGAGGC-AACAAGAAAATATGACGAACTCCAGCTACAACTTCAAAAT
1 AGCAGCGAGAGAAGCAGAGGCTAA-AAGAAAATATGACGAACTCCAGCTACAACTTCAAAAT
36440734 ATGATAGAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
65 2 0.04
66 48 0.87
67 5 0.09
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.15
Consensus pattern (67 bp):
AGCAGCGAGAGAAGCAGAGGCTAAAAGAAAATATGACGAACTCCAGCTACAACTTCAAAATGGAG
GT
Found at i:36441099 original size:44 final size:44
Alignment explanation
Indices: 36441009--36441105 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
36440999 GCGTTTTCCC
* *
36441009 ACAAACGCCGCTATAGAACATGATCTTTAGCTACACTTTTTACT
1 ACAAACGCCGCTAAAGAACATGATCTTTAGCTACACTTTCTACT
* *
36441053 ACAAACGCCGCTAAAGAACATGATCTTTTGC-AGCGC-TTCTAGCT
1 ACAAACGCCGCTAAAGAACATGATCTTTAGCTA-CACTTTCTA-CT
36441097 ACAAACGCC
1 ACAAACGCC
36441106 ACAACATGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 5 0.11
44 42 0.89
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (44 bp):
ACAAACGCCGCTAAAGAACATGATCTTTAGCTACACTTTCTACT
Found at i:36443156 original size:23 final size:23
Alignment explanation
Indices: 36443130--36443176 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
36443120 CAAATAATTC
*
36443130 AAAAGTTCAAAAAATTTTAAAAT
1 AAAAGTTCAAAAAATTCTAAAAT
* *
36443153 AAAATTTTAAAAAATTCTAAAAT
1 AAAAGTTCAAAAAATTCTAAAAT
36443176 A
1 A
36443177 TATAAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAAGTTCAAAAAATTCTAAAAT
Found at i:36443165 original size:14 final size:13
Alignment explanation
Indices: 36443140--36443164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36443130 AAAAGTTCAA
36443140 AAAATTTTAAAAT
1 AAAATTTTAAAAT
36443153 AAAATTTTAAAA
1 AAAATTTTAAAA
36443165 AATTCTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATTTTAAAAT
Found at i:36443252 original size:16 final size:16
Alignment explanation
Indices: 36443231--36443286 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
36443221 AAAATTTTTA
36443231 TTTAAAAATAAAAAAT
1 TTTAAAAATAAAAAAT
*
36443247 TTTAAAAATTTAAAAA-
1 TTTAAAAA-TAAAAAAT
36443263 -TTAAAAA-AAATACAAT
1 TTTAAAAATAAA-A-AAT
36443279 TTTAAAAA
1 TTTAAAAA
36443287 ACATATTCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.06
14 1 0.03
15 9 0.27
16 8 0.24
17 13 0.39
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
TTTAAAAATAAAAAAT
Found at i:36443366 original size:19 final size:20
Alignment explanation
Indices: 36443336--36443377 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
36443326 CCAAATATTC
36443336 AAAATTCTAAAAATTCAAAA
1 AAAATTCTAAAAATTCAAAA
36443356 AAAATTC-AAAAATTCAAAA
1 AAAATTCTAAAAATTCAAAA
36443375 AAA
1 AAA
36443378 GAAGAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAATTCTAAAAATTCAAAA
Found at i:36443817 original size:4 final size:4
Alignment explanation
Indices: 36443808--36443835 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
36443798 AGTTATATTT
36443808 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
36443836 ATTATTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:36445287 original size:30 final size:30
Alignment explanation
Indices: 36445253--36445310 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
36445243 AGGTGAGATG
36445253 GGGAGGGAATAAAAGTTTTAGGAGAAAAGT
1 GGGAGGGAATAAAAGTTTTAGGAGAAAAGT
* * * *
36445283 GGGAGGGAGTAAAATTTTTGGGGGAAAA
1 GGGAGGGAATAAAAGTTTTAGGAGAAAA
36445311 TAAAAGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.21
Consensus pattern (30 bp):
GGGAGGGAATAAAAGTTTTAGGAGAAAAGT
Found at i:36445536 original size:9 final size:9
Alignment explanation
Indices: 36445522--36445549 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
36445512 TATAGTTTGA
36445522 TATTCGAAT
1 TATTCGAAT
36445531 TATTCGAAT
1 TATTCGAAT
36445540 TATTCGAAT
1 TATTCGAAT
36445549 T
1 T
36445550 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:36448222 original size:18 final size:17
Alignment explanation
Indices: 36448181--36448215 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
36448171 TAATATGTAT
*
36448181 TAATTCATATTTTAATAA
1 TAATT-ATATTTTAAAAA
36448199 TAATTATATTTTAAAAA
1 TAATTATATTTTAAAAA
36448216 ATGATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATTATATTTTAAAAA
Found at i:36456621 original size:15 final size:15
Alignment explanation
Indices: 36456603--36456635 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36456593 TTTTATTTTA
*
36456603 TAAATTATTATAAGG
1 TAAACTATTATAAGG
36456618 TAAACTATTATAAGG
1 TAAACTATTATAAGG
36456633 TAA
1 TAA
36456636 TTTTGCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (15 bp):
TAAACTATTATAAGG
Found at i:36484694 original size:19 final size:20
Alignment explanation
Indices: 36484647--36484695 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
36484637 ATTCTTGTCG
36484647 AAAAATAATT-AATTATGTT
1 AAAAATAATTAAATTATGTT
36484666 -AAAATAATTAAATTATGTT
1 AAAAATAATTAAATTATGTT
36484685 AAAAAT-ATTAA
1 AAAAATAATTAA
36484696 CATGATGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.32
19 14 0.50
20 5 0.18
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
AAAAATAATTAAATTATGTT
Found at i:36486190 original size:26 final size:26
Alignment explanation
Indices: 36486159--36486210 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
36486149 TTAAACCTTA
36486159 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
36486185 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
36486211 TATTTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (26 bp):
GTTGAAATCGGGCATGAGAACCTTTT
Found at i:36494572 original size:26 final size:26
Alignment explanation
Indices: 36494543--36494604 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
36494533 TACCCCCAGC
* *
36494543 AAAATTTTGATAATTTTATCCT-TGGT
1 AAAATTTTGACAATTTT-GCCTCTGGT
*
36494569 AAAATTTTGACGATTTTGCCTCTGGT
1 AAAATTTTGACAATTTTGCCTCTGGT
36494595 AAAATTTTGA
1 AAAATTTTGA
36494605 GAAAATATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 3 0.09
26 29 0.91
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.45
Consensus pattern (26 bp):
AAAATTTTGACAATTTTGCCTCTGGT
Found at i:36496538 original size:26 final size:27
Alignment explanation
Indices: 36496502--36496556 Score: 103
Period size: 26 Copynumber: 2.1 Consensus size: 27
36496492 AAAGGGAGGT
36496502 AAGTCTTATTTAACCGCTTAAAAA-CC
1 AAGTCTTATTTAACCGCTTAAAAATCC
36496528 AAGTCTTATTTAACCGCTTAAAAATCC
1 AAGTCTTATTTAACCGCTTAAAAATCC
36496555 AA
1 AA
36496557 AGAGTCAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (27 bp):
AAGTCTTATTTAACCGCTTAAAAATCC
Found at i:36497075 original size:11 final size:11
Alignment explanation
Indices: 36497059--36497084 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36497049 TATGAAAAAA
36497059 ATAAAAAATAT
1 ATAAAAAATAT
36497070 ATAAAAAATAT
1 ATAAAAAATAT
36497081 ATAA
1 ATAA
36497085 TATTGCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:36520144 original size:18 final size:18
Alignment explanation
Indices: 36520121--36520160 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
36520111 CAAAAAACAA
36520121 AGTGTTATAGCAAGAAGT
1 AGTGTTATAGCAAGAAGT
36520139 AGTGTTATAGCAAGAAGT
1 AGTGTTATAGCAAGAAGT
36520157 AGTG
1 AGTG
36520161 CAGAGGCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.28
Consensus pattern (18 bp):
AGTGTTATAGCAAGAAGT
Found at i:36531952 original size:17 final size:17
Alignment explanation
Indices: 36531932--36531973 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
36531922 TCAAATTAAA
*
36531932 TTAATTCAATAATCAAT
1 TTAATTCAACAATCAAT
*
36531949 TTAATTCAACAATTAAT
1 TTAATTCAACAATCAAT
36531966 TTAATTCA
1 TTAATTCA
36531974 TGTGATAGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTCAACAATCAAT
Found at i:36535349 original size:26 final size:25
Alignment explanation
Indices: 36535298--36535349 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
36535288 TTTGGTTCAT
* *
36535298 ATGTGTATATGTGTGTAAACTATGA
1 ATGTGTATATGAGTGCAAACTATGA
36535323 ATGTGGTATATGAGTAGCAAACT-TGA
1 ATGT-GTATATGAGT-GCAAACTATGA
36535349 A
1 A
36535350 AGTGAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.17
26 13 0.57
27 6 0.26
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.35
Consensus pattern (25 bp):
ATGTGTATATGAGTGCAAACTATGA
Found at i:36538091 original size:12 final size:12
Alignment explanation
Indices: 36538074--36538100 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36538064 TACACGCCCG
36538074 TGTGCTAGGCCA
1 TGTGCTAGGCCA
36538086 TGTGCTAGGCCA
1 TGTGCTAGGCCA
36538098 TGT
1 TGT
36538101 AACAGCCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.30
Consensus pattern (12 bp):
TGTGCTAGGCCA
Found at i:36539341 original size:50 final size:50
Alignment explanation
Indices: 36539278--36539396 Score: 125
Period size: 50 Copynumber: 2.4 Consensus size: 50
36539268 CATGTACATG
* * * *
36539278 TATGCTCAT-ACAAGCTGTGAATCGATATGTTCATT-CGAGCTGTAAATCGA
1 TATGCTC-TCACAAGCTATAAATCGATATGCTC-TTACGAGCTATAAATCGA
* * * *
36539328 TATGCTCTCACAAGCTATAAATTGGTTTGCTCTTACGAGCTATAAATCGG
1 TATGCTCTCACAAGCTATAAATCGATATGCTCTTACGAGCTATAAATCGA
*
36539378 TATGCTCTCACGAGCTATA
1 TATGCTCTCACAAGCTATA
36539397 GAGTATCCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
49 3 0.05
50 55 0.95
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (50 bp):
TATGCTCTCACAAGCTATAAATCGATATGCTCTTACGAGCTATAAATCGA
Found at i:36539343 original size:25 final size:25
Alignment explanation
Indices: 36539297--36539396 Score: 105
Period size: 25 Copynumber: 4.0 Consensus size: 25
36539287 ACAAGCTGTG
*
36539297 AATCGATATG-T-TCATTCGAGCTGTA
1 AATCGATATGCTCTCA--CGAGCTATA
*
36539322 AATCGATATGCTCTCACAAGCTATA
1 AATCGATATGCTCTCACGAGCTATA
* * * *
36539347 AATTGGTTTGCTCTTACGAGCTATA
1 AATCGATATGCTCTCACGAGCTATA
*
36539372 AATCGGTATGCTCTCACGAGCTATA
1 AATCGATATGCTCTCACGAGCTATA
36539397 GAGTATCCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
25 59 0.94
26 1 0.02
27 3 0.05
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (25 bp):
AATCGATATGCTCTCACGAGCTATA
Found at i:36550813 original size:25 final size:25
Alignment explanation
Indices: 36550785--36550833 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
36550775 TACATTGATC
36550785 CATTCACATTATG-ATAACA-TAATAA
1 CATTCA-ATT-TGAATAACATTAATAA
36550810 CATTCAATTTGAATAACATTAATA
1 CATTCAATTTGAATAACATTAATA
36550834 CAATAACTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 2 0.09
24 9 0.41
25 11 0.50
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (25 bp):
CATTCAATTTGAATAACATTAATAA
Found at i:36560215 original size:18 final size:18
Alignment explanation
Indices: 36560173--36560211 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
36560163 ATTAATTAAA
*
36560173 ATTTAT-TAAATTTATAT
1 ATTTATATAAATTTATAC
36560190 ATTTATATAAA-TTATAC
1 ATTTATATAAATTTATAC
36560207 ATTTA
1 ATTTA
36560212 ATATGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTATATAAATTTATAC
Found at i:36560944 original size:15 final size:14
Alignment explanation
Indices: 36560896--36560933 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
36560886 ATATATTCAA
36560896 ATATATTTT-AAAT
1 ATATATTTTAAAAT
36560909 A-AT-TTTTAAAAT
1 ATATATTTTAAAAT
36560921 ATATATTTTAAAA
1 ATATATTTTAAAA
36560934 CTGATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.18
12 7 0.32
13 3 0.14
14 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATATTTTAAAAT
Found at i:36561069 original size:8 final size:8
Alignment explanation
Indices: 36561056--36561080 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36561046 TTTTCTATAA
36561056 TACATTTT
1 TACATTTT
36561064 TACATTTT
1 TACATTTT
36561072 TACATTTT
1 TACATTTT
36561080 T
1 T
36561081 GATAGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (8 bp):
TACATTTT
Found at i:36561976 original size:24 final size:24
Alignment explanation
Indices: 36561918--36561976 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
36561908 ATTATTACCT
* *
36561918 TAATTTAAATTATACATATATATG
1 TAATTTAAAATATACATATATAAG
36561942 T-ATTTACAAAATATA-ATATATAAG
1 TAATTT--AAAATATACATATATAAG
36561966 TAAATTTAAAA
1 T-AATTTAAAA
36561977 AAAATGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.14
24 14 0.48
25 7 0.24
26 4 0.14
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (24 bp):
TAATTTAAAATATACATATATAAG
Found at i:36562906 original size:17 final size:18
Alignment explanation
Indices: 36562873--36562906 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36562863 ACAAGATAGA
*
36562873 AAATAAAAAAGGAAAAAC
1 AAATAAAAAAGAAAAAAC
36562891 AAAT-AAAAAGAAAAAA
1 AAATAAAAAAGAAAAAA
36562907 ATGAACAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.82, C:0.03, G:0.09, T:0.06
Consensus pattern (18 bp):
AAATAAAAAAGAAAAAAC
Found at i:36563903 original size:100 final size:100
Alignment explanation
Indices: 36563784--36564056 Score: 411
Period size: 100 Copynumber: 2.7 Consensus size: 100
36563774 AAACAAGATT
* * *
36563784 CGCCGCCGTGACTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTC
1 CGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTC
36563849 AATCTTTTAAATTACAATGCCGGAGAAACCAGAGC
66 AATCTTTTAAATTACAATGCCGGAGAAACCAGAGC
* * * **
36563884 TGCCGTCGTGGCTTCAATCTGCTCCACTACACCGCTAGGGAAGTAAGATATGCCGTTGTGGCTTC
1 CGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTC
* * * * *
36563949 AATCTTTTTAATTGCAATGTCGGGGAAACCAGATC
66 AATCTTTTAAATTACAATGCCGGAGAAACCAGAGC
**
36563984 CGCCGTTATGGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTC
1 CGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTC
36564049 AATCTTTT
66 AATCTTTT
36564057 CCACTGTAAT
Statistics
Matches: 153, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 153 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (100 bp):
CGCCGTCGTGGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTC
AATCTTTTAAATTACAATGCCGGAGAAACCAGAGC
Found at i:36564059 original size:50 final size:50
Alignment explanation
Indices: 36563795--36564061 Score: 248
Period size: 50 Copynumber: 5.3 Consensus size: 50
36563785 GCCGCCGTGA
*
36563795 CTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTTTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
** * ** *** * * *
36563845 CTTCAATCTTTTAAATTACAATGCC-GGAGAAACCAGAGCTGCCGTCGTGG
1 CTTCAATCTTTTCCACTACACCGCCAGG-GAAGTAAGATCCGCCGTTGTGG
** * **
36563895 CTTCAATCTGCTCCACTACACCGCTAGGGAAGTAAGATATGCCGTTGTGG
1 CTTCAATCTTTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
** * * ** * * *** *
36563945 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACCAGATCCGCCGTTATGG
1 CTTCAATCTTTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
*
36563995 CTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTTTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
36564045 CTTCAATCTTTTCCACT
1 CTTCAATCTTTTCCACT
36564062 GTAATGCTAA
Statistics
Matches: 158, Mismatches: 57, Indels: 4
0.72 0.26 0.02
Matches are distributed among these distances:
49 2 0.01
50 154 0.97
51 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
CTTCAATCTTTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
Found at i:36564398 original size:88 final size:88
Alignment explanation
Indices: 36564249--36564569 Score: 439
Period size: 88 Copynumber: 3.6 Consensus size: 88
36564239 GGCGATAGGA
* * * * * * *
36564249 CTGATGTCTTCGATCTACTTCGCTACCAGTACAGGAAGGCAAGATTTGCCATTTTCGACCTACTC
1 CTGATATCTTCGATCTGCTTCTCTATCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
36564314 CACTACTGCCCAGAGAGACAAGG
66 CACTACTGCCCAGAGAGACAAGG
*
36564337 CTGATATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
1 CTGATATCTTCGATCTGCTTCTCTATCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
* *
36564402 CACTACTGCCTAGGGAGACAAGG
66 CACTACTGCCCAGAGAGACAAGG
* * * * * **
36564425 TTGGTATCTTCGATCTGCTTCTCTGTCAGTACAGGAATGCAAGATCTACTATTTTCAACCCGCTC
1 CTGATATCTTCGATCTGCTTCTCTATCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
36564490 CACTACTGCCCA-AGGAGACAAGG
66 CACTACTGCCCAGA-GAGACAAGG
* *
36564513 CTGGTATCTTTC-ATCTGCTTCTCTATCAGTACAGGAAGGCAAGATCTGCTATCTTCA
1 CTGATATC-TTCGATCTGCTTCTCTATCAGTACAGGAAGGCAAGATCTGCTATTTTCA
36564570 GTCTGCTCTG
Statistics
Matches: 208, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
88 205 0.99
89 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (88 bp):
CTGATATCTTCGATCTGCTTCTCTATCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
CACTACTGCCCAGAGAGACAAGG
Found at i:36569340 original size:24 final size:25
Alignment explanation
Indices: 36569309--36569372 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 25
36569299 ATTATGAAAT
*
36569309 GAATAAAAGAATGATGTA-G-AAAAA
1 GAATAAAAGAATAAT-TACGAAAAAA
36569333 GAATAAAAGAATAATTACTCGAAAAAA
1 GAATAAAAGAATAATTA--CGAAAAAA
36569360 GAATAAAAGAATA
1 GAATAAAAGAATA
36569373 CTAGCTCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
23 2 0.06
24 14 0.40
26 1 0.03
27 18 0.51
ACGTcount: A:0.64, C:0.03, G:0.16, T:0.17
Consensus pattern (25 bp):
GAATAAAAGAATAATTACGAAAAAA
Found at i:36569384 original size:27 final size:27
Alignment explanation
Indices: 36569328--36569384 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
36569318 AATGATGTAG
* *
36569328 AAAAAGAATAAAAGAATAATTACTCGA
1 AAAAAGAATAAAAGAATAACTACTCAA
36569355 AAAAAGAATAAAAGAAT-ACTAGCTCAA
1 AAAAAGAATAAAAGAATAACTA-CTCAA
36569382 AAA
1 AAA
36569385 TGCATACGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.65, C:0.09, G:0.11, T:0.16
Consensus pattern (27 bp):
AAAAAGAATAAAAGAATAACTACTCAA
Found at i:36576568 original size:24 final size:24
Alignment explanation
Indices: 36576510--36576568 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
36576500 ATTATTACCT
* *
36576510 TAATTTAAATTATACATATATATG
1 TAATTTAAAATATACATATATAAG
36576534 T-ATTTACAAAATATA-ATATATAAG
1 TAATTT--AAAATATACATATATAAG
36576558 TAAATTTAAAA
1 T-AATTTAAAA
36576569 AAAATGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.14
24 14 0.48
25 7 0.24
26 4 0.14
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (24 bp):
TAATTTAAAATATACATATATAAG
Found at i:36577494 original size:17 final size:16
Alignment explanation
Indices: 36577466--36577503 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
36577456 AACAAGATAG
36577466 AAAATAAAAAAGGAAAA
1 AAAATAAAAAA-GAAAA
36577483 ACAAAT-AAAAAGAAAA
1 A-AAATAAAAAAGAAAA
36577499 AAAAT
1 AAAAT
36577504 GAACAGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 6 0.30
18 4 0.20
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAATAAAAAAGAAAA
Found at i:36579942 original size:16 final size:15
Alignment explanation
Indices: 36579923--36579969 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 15
36579913 TTTATTACCT
36579923 TTTTATTAATTTTATA
1 TTTTATTAATTTTA-A
36579939 TTTTATTAATTTTAA
1 TTTTATTAATTTTAA
36579954 --TT-TTAATTTTAA
1 TTTTATTAATTTTAA
36579966 TTTT
1 TTTT
36579970 CTATAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 10 0.34
13 2 0.07
14 2 0.07
15 1 0.03
16 14 0.48
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTATTAATTTTAA
Found at i:36579943 original size:27 final size:24
Alignment explanation
Indices: 36579898--36579946 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 24
36579888 TTTCTAGAAT
36579898 TTTTTATTTTTTATTTTTATTACC
1 TTTTTATTTTTTATTTTTATTACC
36579922 TTTTTATTAATTTTATATTTTATTA
1 TTTTTATT--TTTTAT-TTTTATTA
36579947 ATTTTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.36
26 6 0.27
27 8 0.36
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTATTTTTTATTTTTATTACC
Found at i:36579955 original size:6 final size:6
Alignment explanation
Indices: 36579928--36579969 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
36579918 TACCTTTTTA
36579928 TTAATT TTATATT TT-A-- TTAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTA-ATT TTAATT TTAATT TTAATT TTAATT TTAATT TT
36579970 CTATAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
3 2 0.06
4 1 0.03
5 1 0.03
6 23 0.72
7 5 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:36579959 original size:28 final size:26
Alignment explanation
Indices: 36579928--36579990 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
36579918 TACCTTTTTA
36579928 TTAATTTTATATTTTAT-TAATTTTAATT
1 TTAATTTTA-ATTTTATATAA-TTT-ATT
*
36579956 TTAATTTTAATTTTCTATAATTTATT
1 TTAATTTTAATTTTATATAATTTATT
36579982 TTATATTTT
1 TTA-ATTTT
36579991 TTACTTTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 6 0.19
27 14 0.44
28 12 0.38
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (26 bp):
TTAATTTTAATTTTATATAATTTATT
Found at i:36580052 original size:17 final size:17
Alignment explanation
Indices: 36580030--36580088 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
36580020 GAAAATAAAA
36580030 AATTTTATAATTTTTTT
1 AATTTTATAATTTTTTT
* *
36580047 AATTTTAT-ATATTTCT
1 AATTTTATAATTTTTTT
* *
36580063 AATTTTTTATTTTTTTT
1 AATTTTATAATTTTTTT
36580080 AATTATTAT
1 AATT-TTAT
36580089 CATTATTTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
16 13 0.39
17 17 0.52
18 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
AATTTTATAATTTTTTT
Found at i:36580175 original size:9 final size:10
Alignment explanation
Indices: 36580132--36580177 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
36580122 TTCTATAAAT
36580132 TTTTTTATAA
1 TTTTTTATAA
***
36580142 TTTTAGGTAA
1 TTTTTTATAA
36580152 TTTTTTATAA
1 TTTTTTATAA
*
36580162 TTTTTTATGA
1 TTTTTTATAA
36580172 TTTTTT
1 TTTTTT
36580178 TATTAAATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:36580188 original size:21 final size:21
Alignment explanation
Indices: 36580130--36580189 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
36580120 GTTTCTATAA
36580130 ATTTTTTTAT-AATTTTAGGT
1 ATTTTTTTATAAATTTTAGGT
* * *
36580150 AATTTTTTATAATTTTTTATG-
1 ATTTTTTTATAA-ATTTTAGGT
36580171 ATTTTTTTATTAAATTTTA
1 ATTTTTTTA-TAAATTTTA
36580190 ATAATCATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 9 0.28
21 14 0.44
22 9 0.28
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
ATTTTTTTATAAATTTTAGGT
Found at i:36584750 original size:22 final size:22
Alignment explanation
Indices: 36584727--36584769 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
36584717 ATAAACTAAT
36584727 AATAATACAGTAATAATAATATA
1 AATAA-ACAGTAATAATAATATA
* *
36584750 AATAAACAGTATTAGTAATA
1 AATAAACAGTAATAATAATA
36584770 AAAAATTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (22 bp):
AATAAACAGTAATAATAATATA
Found at i:36603688 original size:16 final size:16
Alignment explanation
Indices: 36603667--36603735 Score: 104
Period size: 16 Copynumber: 4.3 Consensus size: 16
36603657 TTGGTTCGCT
36603667 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGAC
*
36603683 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGAC
36603699 GTAATGGAATAGA-AGC
1 GTAATGGAATAGAGA-C
*
36603715 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGAC
36603731 GTAAT
1 GTAAT
36603736 AGCAATTCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (16 bp):
GTAATGGAATAGAGAC
Found at i:36603703 original size:32 final size:32
Alignment explanation
Indices: 36603667--36603735 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
36603657 TTGGTTCGCT
36603667 GTAATGGAATAG-AGACGTAATGGAATAGAGGC
1 GTAATGGAATAGAAG-CGTAATGGAATAGAGGC
36603699 GTAATGGAATAGAAGCGTAATGGAATAGAGGC
1 GTAATGGAATAGAAGCGTAATGGAATAGAGGC
36603731 GTAAT
1 GTAAT
36603736 AGCAATTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 34 0.94
33 2 0.06
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (32 bp):
GTAATGGAATAGAAGCGTAATGGAATAGAGGC
Found at i:36603776 original size:45 final size:45
Alignment explanation
Indices: 36603715--36603828 Score: 160
Period size: 44 Copynumber: 2.6 Consensus size: 45
36603705 GAATAGAAGC
36603715 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGCAATTC-ATGTGTTTGGTTGAAT
* *
36603760 GTAATGGAATAGAGGCGTAATAG-TATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGCAATTCATGTGTTTGGTTGAAT
* * *
36603804 GGAATGGAATGGAGGTGTAATAGCA
1 GTAATGGAATAGAGGCGTAATAGCA
36603829 TAAGGGAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 37 0.61
45 23 0.38
ACGTcount: A:0.32, C:0.05, G:0.31, T:0.32
Consensus pattern (45 bp):
GTAATGGAATAGAGGCGTAATAGCAATTCATGTGTTTGGTTGAAT
Found at i:36603992 original size:18 final size:17
Alignment explanation
Indices: 36603970--36604004 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36603960 TAATTATTAA
*
36603970 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
36603988 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
36604005 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:36604097 original size:16 final size:14
Alignment explanation
Indices: 36604067--36604118 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
36604057 CTATAAAATA
36604067 TAATTTAAAATAAT
1 TAATTTAAAATAAT
36604081 TAATATTAAATATAAT
1 TAAT-TTAAA-ATAAT
* *
36604097 TTAGTTAAAAT-AT
1 TAATTTAAAATAAT
36604110 ATAATTTAA
1 -TAATTTAA
36604119 TAAAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 2 0.06
14 12 0.39
15 10 0.32
16 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
TAATTTAAAATAAT
Found at i:36604170 original size:117 final size:120
Alignment explanation
Indices: 36603964--36604184 Score: 369
Period size: 117 Copynumber: 1.9 Consensus size: 120
36603954 TTAACATAAT
*
36603964 TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATAT
1 TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTC-TAATAATCAATATTCTTATAT
36604029 GAATTTACTAAAATCATAATATATAATACTAT-AAAATATAATTTAAAATAATTAA
65 GAATTTACTAAAATCATAATATATAATACTATGAAAATATAATTTAAAATAATTAA
*
36604084 TATTAAATATAATTTAGTTAAAATATATAATTTAATAAAATTC-AAT-AT-AATTATTCTTATAT
1 TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAA-TATTCTTATAT
*
36604146 GAATTTACTAAAATCATATTATATAATACTATGAAAATA
65 GAATTTACTAAAATCATAATATATAATACTATGAAAATA
36604185 ATATATAATC
Statistics
Matches: 96, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
116 2 0.02
117 44 0.46
118 9 0.09
120 41 0.43
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAATATTCTTATATG
AATTTACTAAAATCATAATATATAATACTATGAAAATATAATTTAAAATAATTAA
Found at i:36606912 original size:46 final size:46
Alignment explanation
Indices: 36606846--36606936 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
36606836 TCAAAGAAAG
*
36606846 AAGACTTGCAATCAGAAACTATTAGGCTTCACAGAATAAACTTTCA
1 AAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTTCA
* *
36606892 AAGACTTGCAATCAGAAACTATGATGCTTCATAGAATAAACTTTC
1 AAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTTC
36606937 TCGGATACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (46 bp):
AAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTTCA
Found at i:36607974 original size:17 final size:17
Alignment explanation
Indices: 36607933--36607982 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
36607923 AAATTAAAAA
*
36607933 ACAAAATTTATAAACATT
1 ACAAAATTTAT-AATATT
* *
36607951 TCAAAATATATAATATT
1 ACAAAATTTATAATATT
36607968 ACAAAATTTATAATA
1 ACAAAATTTATAATA
36607983 AGATTGTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (17 bp):
ACAAAATTTATAATATT
Found at i:36613152 original size:43 final size:43
Alignment explanation
Indices: 36613087--36613356 Score: 364
Period size: 43 Copynumber: 6.3 Consensus size: 43
36613077 TTATGTAAAA
* **
36613087 AAACGTCGCTAAAGAACATGACCTTTAGCGGCATTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* * *
36613130 AAACGCCGCTAAAGAACTTGACCTTTAGCAGCGCTTCACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
36613173 AAACGCCGCTAAAGAACATGACCTTTAGCGGCG-TTTCACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT-ACCCAC
* * **
36613216 AAACGCCGCTAAAGAACATCACATTTAGCGGTTCTTTACCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTA-CCCAC
* * *
36613260 AAACGCCGCTAAAGAATATGACATTTAGTGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* * *
36613303 AAATGCCGCTAAAGAACATGATCTTTAGCGGTGCTTTA-CCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
36613345 AAACGCCGCTAA
1 AAACGCCGCTAA
36613357 TTTTGACAAA
Statistics
Matches: 199, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
42 17 0.09
43 141 0.71
44 41 0.21
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
Found at i:36613274 original size:130 final size:128
Alignment explanation
Indices: 36613087--36613356 Score: 375
Period size: 130 Copynumber: 2.1 Consensus size: 128
36613077 TTATGTAAAA
* * *
36613087 AAACGTCGCTAAAGAACATGACCTTTAGCGGCATTTTACCCACAAACGCCGCTAAAGAACT-TGA
1 AAACGCCGCTAAAGAACATCACATTTAGCGGCATTTTACCCACAAACGCCGCTAAAGAA-TATGA
*
36613151 CCTTTAGCAGCGCTTCACCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCG-TTTCACCCA
65 CATTTAGCAGCGCTTCACCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT-A-CCA
36613215 C
128 C
*
36613216 AAACGCCGCTAAAGAACATCACATTTAGCGG-TTCTTTACCCCACAAACGCCGCTAAAGAATATG
1 AAACGCCGCTAAAGAACATCACATTTAGCGGCAT-TTTA-CCCACAAACGCCGCTAAAGAATATG
** * * * *
36613280 ACATTTAGTGGCGCTTTACCCACAAATGCCGCTAAAGAACATGATCTTTAGCGGTGCTTTACCAC
64 ACATTTAGCAGCGCTTCACCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCAC
36613345 AAACGCCGCTAA
1 AAACGCCGCTAA
36613357 TTTTGACAAA
Statistics
Matches: 126, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
128 1 0.01
129 49 0.39
130 73 0.58
131 3 0.02
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (128 bp):
AAACGCCGCTAAAGAACATCACATTTAGCGGCATTTTACCCACAAACGCCGCTAAAGAATATGAC
ATTTAGCAGCGCTTCACCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCAC
Found at i:36613301 original size:87 final size:84
Alignment explanation
Indices: 36613087--36613356 Score: 362
Period size: 87 Copynumber: 3.1 Consensus size: 84
36613077 TTATGTAAAA
* * *
36613087 AAACGTCGCTAAAGAACATGACCTTTAGCGGCATTTTACCCACAAACGCCGCTAAAGAACTTGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGC-GTTTACCCACAAACGCCGCTAAAGAACATGA-
* * *
36613152 CTTTAGCAGCGCTTCACCCAC
64 CTTTAGCGGTGCTTTACCCAC
*
36613173 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTTCACCCACAAACGCCGCTAAAGAACATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTT-ACCCACAAACGCCGCTAAAGAACATGAC
*
36613238 ATTTAGCGGTTCTTTACCCCAC
65 -TTTAGCGGTGCTTTA-CCCAC
* * * *
36613260 AAACGCCGCTAAAGAATATGACATTTAGTGGCGCTTTACCCACAAATGCCGCTAAAGAACATGAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCG-TTTACCCACAAACGCCGCTAAAGAACATGA-
36613325 CTTTAGCGGTGCTTTA-CCAC
64 CTTTAGCGGTGCTTTACCCAC
36613345 AAACGCCGCTAA
1 AAACGCCGCTAA
36613357 TTTTGACAAA
Statistics
Matches: 165, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
85 20 0.12
86 67 0.41
87 74 0.45
88 4 0.02
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (84 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTTACCCACAAACGCCGCTAAAGAACATGACT
TTAGCGGTGCTTTACCCAC
Found at i:36618697 original size:42 final size:42
Alignment explanation
Indices: 36618638--36618724 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
36618628 GTTTAGGAGA
*
36618638 TCTGCAGTACTCTGTCAATGCTCCAAGATGTCGTATACTCTT
1 TCTGCAGTACTCTGTCAATGCTCCAAGATGTCGCATACTCTT
36618680 TCTGCAGTACTCTGTCAATGCTCCAAGATGTCGCATACTCTT
1 TCTGCAGTACTCTGTCAATGCTCCAAGATGTCGCATACTCTT
36618722 TCT
1 TCT
36618725 TATTGATTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.36
Consensus pattern (42 bp):
TCTGCAGTACTCTGTCAATGCTCCAAGATGTCGCATACTCTT
Found at i:36627373 original size:22 final size:22
Alignment explanation
Indices: 36627348--36627397 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
36627338 GGTGCATACC
36627348 CGACGGCTCCTCAAATCCCAAG
1 CGACGGCTCCTCAAATCCCAAG
36627370 CGACGGCTCCTCAAATCCCAAG
1 CGACGGCTCCTCAAATCCCAAG
*
36627392 CAACGG
1 CGACGG
36627398 AACCCAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.40, G:0.20, T:0.12
Consensus pattern (22 bp):
CGACGGCTCCTCAAATCCCAAG
Found at i:36633561 original size:15 final size:16
Alignment explanation
Indices: 36633536--36633574 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
36633526 TTTCGGGTAT
36633536 GGGAA-AAA-TTTGAG
1 GGGAATAAATTTTGAG
36633550 GGGAATAAATTTTGAG
1 GGGAATAAATTTTGAG
36633566 GGGAATAAA
1 GGGAATAAA
36633575 ACGATAGCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 5 0.22
15 3 0.13
16 15 0.65
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (16 bp):
GGGAATAAATTTTGAG
Found at i:36633881 original size:47 final size:48
Alignment explanation
Indices: 36633823--36633921 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 48
36633813 CATAGTTTTG
*
36633823 TTTAAGTAATATTTATAAAAATTAGATAAAATTATAAATTTTAGT-TT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
36633870 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
36633918 TTTA
1 TTTA
36633922 TTTTTTATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (48 bp):
TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
Found at i:36634365 original size:15 final size:15
Alignment explanation
Indices: 36634345--36634373 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36634335 CCACTAACGT
36634345 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
36634360 CTAACCCCTAAACC
1 CTAACCCCTAAACC
36634374 TTAAATCCCA
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:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:36634682 original size:22 final size:21
Alignment explanation
Indices: 36634643--36634683 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
36634633 CCCTAAATCC
*
36634643 CTAACTCTTAACCACTAACAT
1 CTAACTCTAAACCACTAACAT
*
36634664 CTAACTCCTAAACCCCTAAC
1 CTAACT-CTAAACCACTAAC
36634684 CCCTAAACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (21 bp):
CTAACTCTAAACCACTAACAT
Found at i:36634974 original size:7 final size:7
Alignment explanation
Indices: 36634954--36635002 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
36634944 AACCTCAAAT
36634954 CCCTAAC
1 CCCTAAC
* *
36634961 TCTTAAC
1 CCCTAAC
36634968 CCCTAAC
1 CCCTAAC
**
36634975 ATCTAAC
1 CCCTAAC
36634982 CCCTAAAC
1 CCCT-AAC
36634990 CCCTAAC
1 CCCTAAC
36634997 CCCTAA
1 CCCTAA
36635003 ACTTTAAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:36634997 original size:15 final size:15
Alignment explanation
Indices: 36634964--36635004 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
36634954 CCCTAACTCT
*
36634964 TAACCCCT-AACATC
1 TAACCCCTAAACACC
*
36634978 TAACCCCTAAACCCC
1 TAACCCCTAAACACC
36634993 TAACCCCTAAAC
1 TAACCCCTAAAC
36635005 TTTAAATCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (15 bp):
TAACCCCTAAACACC
Found at i:36635060 original size:15 final size:15
Alignment explanation
Indices: 36635025--36635062 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
36635015 AACCCTTAAT
36635025 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
36635039 T-AATCCATAATCCC
1 TAAATCCATAATCCC
36635053 TAAATCCATA
1 TAAATCCATA
36635063 TATATATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:36636552 original size:208 final size:205
Alignment explanation
Indices: 36636185--36636631 Score: 605
Period size: 208 Copynumber: 2.2 Consensus size: 205
36636175 GTGTTTTAAC
*
36636185 AAAAACGACGCTAAAACCGCA-AGCATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAACCCCGAG
1 AAAAACGACGCTAAAACC-CAGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAACCCCGAG
* ** ** * *
36636249 CATTAGCAGCGCTTTTCAGAAAATTCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTAGAAAAC
65 CATTAGCAGCGCTTTTCAAAAAACGCCGCTAAAACCAAGAGCATTAGCGACGCTTCTTAAAAAAC
* * *
36636314 GCCGCTAAAACCCAGAGCATTAGTGGCGCTTTTTA-GAAAACGCCGCTAAAACCCAGAGCATTAG
130 GCCGCTAAAACCCAGAGCATTAGCGGCGC-TTTCACAAAAACGCCGCTAAAACCCAGAGCATTAG
36636378 CGGCGC-TTCTTA
194 CGGCGCTTTC-TA
* * *
36636390 TTAGAAAATGCCGCTAAAACCCAGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAACCCTG
1 --A-AAAACGACGCTAAAACCCAGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAACCCCG
* *
36636455 AGCATTAGCGGCGC-TTTCACAAAAACGCCGCTAAAACCAAGAGCATTAGCGATGCTTCTTAAAA
63 AGCATTAGCAGCGCTTTTCA-AAAAACGCCGCTAAAACCAAGAGCATTAGCGACGCTTCTTAAAA
* * *
36636519 AACGTCGCTAAAACCCCGAGCATTAGCGGCGCTTTCACAAAAATGCCGCTAAAACCCAGAGCATT
127 AACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATT
*
36636584 AGCGGTGCTTTCTA
192 AGCGGCGCTTTCTA
* *
36636598 AAAAACGACGCTAAAACTCTGAGCATTAGCGGCG
1 AAAAACGACGCTAAAACCCAGAGCATTAGCGGCG
36636632 ATTTCTCAAA
Statistics
Matches: 211, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
205 29 0.14
206 1 0.00
207 12 0.06
208 166 0.79
209 3 0.01
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (205 bp):
AAAAACGACGCTAAAACCCAGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAACCCCGAGC
ATTAGCAGCGCTTTTCAAAAAACGCCGCTAAAACCAAGAGCATTAGCGACGCTTCTTAAAAAACG
CCGCTAAAACCCAGAGCATTAGCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTAGCG
GCGCTTTCTA
Found at i:36636637 original size:41 final size:41
Alignment explanation
Indices: 36636185--36636653 Score: 524
Period size: 41 Copynumber: 11.4 Consensus size: 41
36636175 GTGTTTTAAC
*
36636185 AAAAACGACGCTAAAACCGCA-AGCATTAGCGGCGC-TTCTTA
1 AAAAACGCCGCTAAAACC-CAGAGCATTAGCGGCGCTTTC-TA
* *
36636226 AAAAACGCCGCTAAAACCCCGAGCATTAGCAGCGCTTT-TCA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTCT-A
* ** *
36636267 GAAAATTCCGCTAAAACCCCGAGCATTAGCGGCGC-TTCTTA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTC-TA
* * *
36636308 GAAAACGCCGCTAAAACCCAGAGCATTAGTGGCGCTTTTTA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTCTA
*
36636349 GAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGC-TTCTTA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTC-TA
*
36636390 TTAGAAAATGCCGCTAAAACCCAGAGCATTAGCGGCGCTTAT-TA
1 --A-AAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTT-TCTA
*
36636434 AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTC-A
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTCTA
* **
36636474 CAAAAACGCCGCTAAAACCAAGAGCATTAGCGATGC-TTCTTA
1 -AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTC-TA
* *
36636516 AAAAACGTCGCTAAAACCCCGAGCATTAGCGGCGCTTTC-A
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTCTA
* *
36636556 CAAAAATGCCGCTAAAACCCAGAGCATTAGCGGTGCTTTCTA
1 -AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTCTA
* * * * *
36636598 AAAAACGACGCTAAAACTCTGAGCATTAGCGGCGATTTCTC
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTCTA
* *
36636639 AAAAATGCCACTAAA
1 AAAAACGCCGCTAAA
36636654 GCCACCGAAG
Statistics
Matches: 368, Mismatches: 41, Indels: 38
0.82 0.09 0.09
Matches are distributed among these distances:
40 12 0.03
41 308 0.84
42 11 0.03
44 35 0.10
45 1 0.00
46 1 0.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (41 bp):
AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTCTA
Found at i:36640286 original size:8 final size:8
Alignment explanation
Indices: 36640273--36640298 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
36640263 CAAAATTCAG
36640273 AATAATAA
1 AATAATAA
36640281 AATAATAA
1 AATAATAA
36640289 AATAATAA
1 AATAATAA
36640297 AA
1 AA
36640299 CTTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:36642564 original size:17 final size:17
Alignment explanation
Indices: 36642542--36642579 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
36642532 CACACTGCCT
*
36642542 TGTGAGCCATACGGGCG
1 TGTGAGCCATACGAGCG
36642559 TGTGAGCCATACGAGCG
1 TGTGAGCCATACGAGCG
36642576 TGTG
1 TGTG
36642580 CTAGACCGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.21, G:0.39, T:0.21
Consensus pattern (17 bp):
TGTGAGCCATACGAGCG
Found at i:36644469 original size:29 final size:29
Alignment explanation
Indices: 36644361--36644469 Score: 92
Period size: 29 Copynumber: 3.8 Consensus size: 29
36644351 GAGATGCATT
* **
36644361 GAAGTGCAATAAGAAAACAAAGTGATGTC
1 GAAGTGCAATAACAAAACAAAGTGACATC
* * *
36644390 GAAGTGCAATACCAAAACAAAATGACATT
1 GAAGTGCAATAACAAAACAAAGTGACATC
** * * * *
36644419 GAAGTGCTTTAGCAGAATAAAGTGACACC
1 GAAGTGCAATAACAAAACAAAGTGACATC
* *
36644448 GAAGTGCATTAACTAAACAAAG
1 GAAGTGCAATAACAAAACAAAG
36644470 AGCGTGCCAA
Statistics
Matches: 61, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (29 bp):
GAAGTGCAATAACAAAACAAAGTGACATC
Found at i:36645878 original size:42 final size:42
Alignment explanation
Indices: 36645746--36645974 Score: 232
Period size: 43 Copynumber: 5.4 Consensus size: 42
36645736 ACGTCGCTAA
* * *
36645746 CTTTTGCGGCGCTTACAGAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-TGAAAAAACGCCGCTAAAGATCATGTT
* * * *
36645789 CTTTAGCGGCACTAAGGAAATAAACGCCGTTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAA-AAACGCCGCTAAAGATCATGTT
*
36645832 CTTTAGCGGCGCTTATGAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
*
36645874 CTTTAGCGGCGCTT-TGGAAGAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAT-GAA-AAAACGCCGCTAAAGA-TCATGTT
* * ** * *
36645917 CTATAGCGGCGCTTGTTCAAAAACACCGTTAACAG-T-AGTGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAA-AGATCA-TGTT
36645959 CTTTAGCGGCGCTTAT
1 CTTTAGCGGCGCTTAT
36645975 TTCACAAATG
Statistics
Matches: 158, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
41 2 0.01
42 72 0.46
43 83 0.53
44 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (42 bp):
CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
Found at i:36645939 original size:85 final size:85
Alignment explanation
Indices: 36645751--36645973 Score: 247
Period size: 85 Copynumber: 2.6 Consensus size: 85
36645741 GCTAACTTTT
* * * *
36645751 GCGGCGCTTACAGAAAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCACTAAGGAAATAAACGC
1 GCGGCGCTTA-TGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAATAAACGC
* * *
36645816 CGTTAAAGATCATGTTCTTTA
65 CGTAAAAGATAATGTTCTATA
* *
36645837 GCGGCGCTTATGAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGGAAGA-AAACGC
1 GCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAA-ATAAACGC
36645901 CGCTAAAAG-TAATGTTCTATA
65 CG-TAAAAGATAATGTTCTATA
* ** * *
36645922 GCGGCGCTTGTTCAAAAACACCGTTAACAG-T-AGTGTTCTTTAGCGGCGCTTA
1 GCGGCGCTTATGAAAAAACGCCGCTAA-AGATCA-TGTTCTTTAGCGGCGCTTA
36645974 TTTCACAAAT
Statistics
Matches: 117, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
84 1 0.01
85 98 0.84
86 18 0.15
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (85 bp):
GCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAATAAACGCC
GTAAAAGATAATGTTCTATA
Found at i:36646425 original size:12 final size:12
Alignment explanation
Indices: 36646408--36646447 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
36646398 TTTTGAACCT
*
36646408 CTGCTTCTATCG
1 CTGCTTCTCTCG
*
36646420 CTGCTTCTCTCA
1 CTGCTTCTCTCG
36646432 CTGCTTCTCTCG
1 CTGCTTCTCTCG
36646444 CTGC
1 CTGC
36646448 GGGCTCTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.05, C:0.40, G:0.15, T:0.40
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:36646497 original size:21 final size:21
Alignment explanation
Indices: 36646405--36646500 Score: 84
Period size: 21 Copynumber: 4.4 Consensus size: 21
36646395 TTCTTTTGAA
* **
36646405 CCTCTGCTTCTATCGCTGCTT
1 CCTCTGCTTCTCTCGCTGCAG
*
36646426 CTCTCACTGCTTCTCTCGCTGCGG
1 C-CT--CTGCTTCTCTCGCTGCAG
* * *
36646450 GCTCTACTTCTCTCGCTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
* *
36646471 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
36646492 CCTCTGCTT
1 CCTCTGCTT
36646501 TAAGTTGTTG
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
21 41 0.68
22 2 0.03
23 2 0.03
24 15 0.25
ACGTcount: A:0.04, C:0.42, G:0.18, T:0.36
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:36652003 original size:7 final size:7
Alignment explanation
Indices: 36651993--36652043 Score: 66
Period size: 7 Copynumber: 6.7 Consensus size: 7
36651983 ATATATTTTA
36651993 ATGTATT
1 ATGTATT
36652000 ATGTAAGTT
1 ATGT-A-TT
36652009 ATGTAAGTT
1 ATGT-A-TT
36652018 ATGTATT
1 ATGTATT
36652025 ATGTATT
1 ATGTATT
36652032 ATGTATT
1 ATGTATT
36652039 ATGTA
1 ATGTA
36652044 AGTACTGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 25 0.60
8 2 0.05
9 15 0.36
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (7 bp):
ATGTATT
Found at i:36652012 original size:9 final size:9
Alignment explanation
Indices: 36651998--36652392 Score: 358
Period size: 9 Copynumber: 43.8 Consensus size: 9
36651988 TTTTAATGTA
36651998 TTATGTAAG
1 TTATGTAAG
36652007 TTATGTAAG
1 TTATGTAAG
36652016 TTATGT-A-
1 TTATGTAAG
36652023 TTATGT-A-
1 TTATGTAAG
36652030 TTATGT-A-
1 TTATGTAAG
36652037 TTATGTAAG
1 TTATGTAAG
36652046 -TACTGTAAG
1 TTA-TGTAAG
* *
36652055 TAATGTACG
1 TTATGTAAG
* *
36652064 TTATTTAAT
1 TTATGTAAG
*
36652073 TTATGTAGG
1 TTATGTAAG
36652082 TTATGTAAG
1 TTATGTAAG
* * * *
36652091 TCCACGGAAT
1 T-TATGTAAG
36652101 TTATGTAAG
1 TTATGTAAG
* *
36652110 TTATTTAAT
1 TTATGTAAG
36652119 TTATGTAAG
1 TTATGTAAG
36652128 TTATGTAAG
1 TTATGTAAG
* *
36652137 TTATTTAAT
1 TTATGTAAG
*
36652146 TTATGTAGG
1 TTATGTAAG
36652155 TTATGTAAG
1 TTATGTAAG
36652164 TTATGTAAG
1 TTATGTAAG
* *
36652173 TTATTTAAT
1 TTATGTAAG
*
36652182 TTATGCAAG
1 TTATGTAAG
36652191 TTTATGTAAG
1 -TTATGTAAG
36652201 TTATGTAAG
1 TTATGTAAG
* *
36652210 TTATTTAAT
1 TTATGTAAG
*
36652219 TTATGTAGG
1 TTATGTAAG
36652228 TTATGTAAG
1 TTATGTAAG
*
36652237 TTACGTAAG
1 TTATGTAAG
* *
36652246 TTATTTAAT
1 TTATGTAAG
*
36652255 TTATGCAAG
1 TTATGTAAG
36652264 TTTATGTAAG
1 -TTATGTAAG
36652274 TTATGTAAG
1 TTATGTAAG
*
36652283 TTAAT-TAAT
1 TT-ATGTAAG
*
36652292 TTATGCAAG
1 TTATGTAAG
36652301 TTTATGTAAG
1 -TTATGTAAG
36652311 TTATGTAAG
1 TTATGTAAG
*
36652320 TTACT-TAAT
1 TTA-TGTAAG
36652329 TTATGTAAG
1 TTATGTAAG
36652338 TTATGTAAG
1 TTATGTAAG
* *
36652347 TTATTTAAT
1 TTATGTAAG
36652356 TTATGTAAG
1 TTATGTAAG
*
36652365 TTATGCAAG
1 TTATGTAAG
*
36652374 CTTATATACAAG
1 -TTATGT--AAG
36652386 TTATGTA
1 TTATGTA
36652393 TTATAACATA
Statistics
Matches: 309, Mismatches: 62, Indels: 30
0.77 0.15 0.07
Matches are distributed among these distances:
7 20 0.06
8 7 0.02
9 237 0.77
10 37 0.12
11 5 0.02
12 3 0.01
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:36652125 original size:37 final size:36
Alignment explanation
Indices: 36652110--36652392 Score: 368
Period size: 37 Copynumber: 7.7 Consensus size: 36
36652100 TTTATGTAAG
* *
36652110 TTATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
*
36652146 TTATGTAGGTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
*
36652182 TTATGCAAGTTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAG-TTATGTAAGTTATGTAAGTTATTTAAT
* *
36652219 TTATGTAGGTTATGTAAGTTACGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
* *
36652255 TTATGCAAGTTTATGTAAGTTATGTAAGTTAATTAAT
1 TTATGTAAG-TTATGTAAGTTATGTAAGTTATTTAAT
* *
36652292 TTATGCAAGTTTATGTAAGTTATGTAAGTTACTTAAT
1 TTATGTAAG-TTATGTAAGTTATGTAAGTTATTTAAT
* * * *
36652329 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
* *
36652365 TTATGCAAGCTTATATACAAGTTATGTA
1 TTATGTAAG-TTATGT--AAGTTATGTA
36652393 TTATAACATA
Statistics
Matches: 220, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
36 103 0.47
37 108 0.49
39 9 0.04
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
Found at i:36652141 original size:73 final size:73
Alignment explanation
Indices: 36652049--36652369 Score: 378
Period size: 73 Copynumber: 4.4 Consensus size: 73
36652039 ATGTAAGTAC
* * * *
36652049 TGTAAGTAATGTACGTTATTTAATTTATGTAGGTTATGTAAGTCCACGGAATTTATGTAAGTTAT
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGT-TACGGAAGTTATGTAAGTTAT
**
36652114 TTAA-TTTA
65 GCAAGTTTA
* * * *
36652122 TGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTTATGTAAGTTATTTAATTTATG
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTTACGGAAGTTATGTAAGTTATG
36652187 CAAGTTTA
66 CAAGTTTA
* * *
36652195 TGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTTACGTAAGTTATTTAATTTATG
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTTACGGAAGTTATGTAAGTTATG
36652260 CAAGTTTA
66 CAAGTTTA
* * * * * *
36652268 TGTAAGTTATGTAAGTTAATTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTACT-TAATTTA
1 TGTAAGTTATGTAAGTTATTTAATTTATG-TAGGTTATGTAAGTTACGGAAGTTA-TGTAAGTTA
*
36652332 TGTAAG-TTA
64 TGCAAGTTTA
* * * *
36652341 TGTAAGTTATTTAATTTATGTAAGTTATG
1 TGTAAGTTATGTAAGTTATTTAATTTATG
36652370 CAAGCTTATA
Statistics
Matches: 224, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
72 17 0.08
73 172 0.77
74 34 0.15
75 1 0.00
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.48
Consensus pattern (73 bp):
TGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTTACGGAAGTTATGTAAGTTATG
CAAGTTTA
Found at i:36652579 original size:16 final size:16
Alignment explanation
Indices: 36652554--36652591 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
36652544 GAAAACGAAG
*
36652554 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
36652569 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
36652585 TAAATTT
1 TAAATTT
36652592 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:36652606 original size:13 final size:13
Alignment explanation
Indices: 36652588--36652615 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36652578 ATACAAATAA
36652588 ATTTAGAAAACTT
1 ATTTAGAAAACTT
36652601 ATTTAGAAAACTT
1 ATTTAGAAAACTT
36652614 AT
1 AT
36652616 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:36652623 original size:17 final size:17
Alignment explanation
Indices: 36652584--36652633 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
36652574 TTTAATACAA
36652584 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
36652600 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
36652614 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
36652631 ATA
1 ATA
36652634 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:36654241 original size:191 final size:191
Alignment explanation
Indices: 36653917--36654296 Score: 580
Period size: 191 Copynumber: 2.0 Consensus size: 191
36653907 AAGCAACACA
* *
36653917 GAATTTAAAGTGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAATGA
1 GAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTACAGAAAGAAAAAATCAAACAGAAAAATGA
* * * *
36653982 ATAGCCATATACGTATTCAACGAAGAAATTAAGGATTTGGAAAGATTTTTACCAGTCAGCCCAGA
66 ACAGCCATATACGGAGTCAACGAAGAAATTAAGGATTTGGAAAGATTTTTACCAATCAGCCCAGA
* * ** *
36654047 CGAGAAGCAATATTCGATCGAAAAGAGGGGAAATCATCGTTGAAGGGGTGAATGGTCTATG
131 CGAGAAGCAATATTCAACCGAAAAGAGGGGAAATCATCGTTGAAAAGGTGAAAGGTCTATG
* ** *
36654108 GAATTTAAAGAGAAAGGAAAAACAAAGCGGGCATTACAGAAAGAAAAAATTGAACATAAAAATGA
1 GAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTACAGAAAGAAAAAATCAAACAGAAAAATGA
* * *
36654173 ACAGCCATATACGGAGTCAACGGAGAAATTAGGGATTTGGAAAGTTTTTTACCAATCAGCCCAGA
66 ACAGCCATATACGGAGTCAACGAAGAAATTAAGGATTTGGAAAGATTTTTACCAATCAGCCCAGA
* *
36654238 CGAGAAGCGATATTCAACCGAGAAGAGGGGAAATCATCGTTGAAAAGGTGAAAGGTCTA
131 CGAGAAGCAATATTCAACCGAAAAGAGGGGAAATCATCGTTGAAAAGGTGAAAGGTCTA
36654297 GGGATTTGCA
Statistics
Matches: 169, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
191 169 1.00
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (191 bp):
GAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTACAGAAAGAAAAAATCAAACAGAAAAATGA
ACAGCCATATACGGAGTCAACGAAGAAATTAAGGATTTGGAAAGATTTTTACCAATCAGCCCAGA
CGAGAAGCAATATTCAACCGAAAAGAGGGGAAATCATCGTTGAAAAGGTGAAAGGTCTATG
Found at i:36654983 original size:21 final size:21
Alignment explanation
Indices: 36654959--36655002 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
36654949 AACATCTATC
* *
36654959 CCTTAATCTCCAACC-TCTAAA
1 CCTTAAACTCAAACCAT-TAAA
36654980 CCTTAAACTCAAACCATTAAA
1 CCTTAAACTCAAACCATTAAA
36655001 CC
1 CC
36655003 AAGTACCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
CCTTAAACTCAAACCATTAAA
Found at i:36655152 original size:22 final size:22
Alignment explanation
Indices: 36655136--36655255 Score: 76
Period size: 21 Copynumber: 5.6 Consensus size: 22
36655126 CCATAATCTT
36655136 TAAACCTTAAACCCATAAACCC
1 TAAACCTTAAACCCATAAACCC
* * *
36655158 TAAACCTT-AACTCATAAAACA
1 TAAACCTTAAACCCATAAACCC
36655179 TAAA-CTATAAACCC-TAAACCCC
1 TAAACCT-TAAACCCATAAA-CCC
* *
36655201 TAACCCTT-AA-CCATTAACCC
1 TAAACCTTAAACCCATAAACCC
*
36655221 GTAACACC-TATA--CATTAAACCC
1 -TAA-ACCTTAAACCCA-TAAACCC
*
36655243 TAACCCTTAAACC
1 TAAACCTTAAACC
36655256 ATGGCCTATA
Statistics
Matches: 73, Mismatches: 13, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
20 9 0.12
21 36 0.49
22 26 0.36
23 2 0.03
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.22
Consensus pattern (22 bp):
TAAACCTTAAACCCATAAACCC
Found at i:36655824 original size:114 final size:114
Alignment explanation
Indices: 36655668--36656543 Score: 1232
Period size: 114 Copynumber: 7.7 Consensus size: 114
36655658 GTTTCGGTTT
* * * *
36655668 AAAACGATGCGTTTTGGTTAAGATTTGTTTGCGGTGCTTTGTATAATGTGCCGCTAATGATGTAC
1 AAAACGATGCGTTTTGGTTAAGATTT-TTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGC
* *
36655733 TTTAGCGGCGTTTTACTAT-AGCACCACTAATTCTAAAAATACCTCAACCA
65 TTTAGCGGCGTTTTACTATAAGCGCCACTAATTCT-AAAATACCTCAACCC
* * **
36655783 AAAATGATGCGTTTTGGTTATGATTTTTTGCGGAACTTTGTATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * *
36655848 TTAGCGGCATTTATCCT-TAAGCGCCACTAAATCTAAAATACCTCAACCC
66 TTAGCGGCGTTT-TACTATAAGCGCCACTAATTCTAAAATACCTCAACCC
* *
36655897 AAAACGATGCATTTTGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * *
36655962 TTAGTGGC-ATTTA-TCAGTAAGCGCCACTAATTCTAATATACCTCAACCC
66 TTAGCGGCGTTTTACT-A-TAAGCGCCACTAATTCTAAAATACCTCAACCC
* * *
36656011 AAAACGATGCGTTTCGGTTAAGATTTTTTGCGGCGCTTTGTATGATGCGCGGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
36656076 TTAGCGGCGTTTTTACT-TAAGCGCCACTAATTCTAAAATACCTCAACCC
66 TTAGCGGCG-TTTTACTATAAGCGCCACTAATTCTAAAATACCTCAACCC
* * * *
36656125 AGAACGATGCGTTTTGGTTATGATTTTTTGCGACGCTTTGTATAATGCGCTGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * * *
36656190 TTAGCGGC-ATTTATCCATAAGCGCCACTAATTCTAATATACCTTAACCC
66 TTAGCGGCGTTTTA-CTATAAGCGCCACTAATTCTAAAATACCTCAACCC
* * * *
36656239 AAAACGATGCATTTCGGTTAAGATTTTTTGCGGCGCTTTGTATGATGCGCCGCTAATGGTGTGCG
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
*
36656304 TTAGCGGCGTTTTTTCT-TAAGCGCCACTAATTCTAAAATACCTCAACCC
66 TTAGCGGCG-TTTTACTATAAGCGCCACTAATTCTAAAATACCTCAACCC
* *
36656353 AGAACGATGCGTTTTGGTTAAGA-TTTTTGCGGCGCTTTGTATAATGCGCCGCTAACGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
*
36656417 TTAGCGGC-ATTTATCT-TAAAGCGCCACTAATTCTAAAATACCTCAACCC
66 TTAGCGGCGTTTTA-CTAT-AAGCGCCACTAATTCTAAAATACCTCAACCC
* * *
36656466 AAAACGATGCGCTTTGGTTAAGATTTTTTGCGGCACTTTGTATAATGCGCCGCTAATGGTGTGAT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
36656531 TTAGCGGCGTTTT
66 TTAGCGGCGTTTT
36656544 TCGAAGGTCG
Statistics
Matches: 677, Mismatches: 68, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
111 4 0.01
112 8 0.01
113 101 0.15
114 512 0.76
115 44 0.06
116 7 0.01
117 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (114 bp):
AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
TTAGCGGCGTTTTACTATAAGCGCCACTAATTCTAAAATACCTCAACCC
Found at i:36656942 original size:126 final size:126
Alignment explanation
Indices: 36656797--36657023 Score: 357
Period size: 126 Copynumber: 1.8 Consensus size: 126
36656787 ATAAAAATAT
* * *
36656797 TCATAATGTTTCATGATAATTATTCTAATTGAGAAATAACTTTTTTA-TCTTTCAATATTCTCTA
1 TCATAATGTTTAATCATAATTATTCTAATTGAGAAATAACTATTTTACT-TTTCAATATTCTCTA
* *
36656861 TAATTCCTTCCTTTAATTATCACATAATTTGATAAAATTAAGATTAACAATATTCATAATTA
65 CAATTCCCTCCTTTAATTATCACATAATTTGATAAAATTAAGATTAACAATATTCATAATTA
* * *
36656923 TCATAATTTTTAATCATAATTATTTTAATTGAGAAATGACTATTTTACTTTTCAATATTCTCTAC
1 TCATAATGTTTAATCATAATTATTCTAATTGAGAAATAACTATTTTACTTTTCAATATTCTCTAC
*
36656988 AATTCCCTCCTTTAATTATCACTTAATTTGATAAAA
66 AATTCCCTCCTTTAATTATCACATAATTTGATAAAA
36657024 GTATGATTTA
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
126 90 0.99
127 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (126 bp):
TCATAATGTTTAATCATAATTATTCTAATTGAGAAATAACTATTTTACTTTTCAATATTCTCTAC
AATTCCCTCCTTTAATTATCACATAATTTGATAAAATTAAGATTAACAATATTCATAATTA
Found at i:36657538 original size:40 final size:41
Alignment explanation
Indices: 36657439--36657551 Score: 178
Period size: 39 Copynumber: 2.8 Consensus size: 41
36657429 TTTTGGGGCA
36657439 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTGCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTGCC
*
36657480 TTTAGCGGCGTTTCTGAAAAAAGCGCCGCTAAT-C-C-TGACC
1 TTTAGCGGCGTTTTTG-AAAAAGCGCCGCTAATGCTCGTG-CC
36657520 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
36657552 AATAAAATCT
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
39 18 0.26
40 18 0.26
41 16 0.24
42 16 0.24
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTGCC
Found at i:36658804 original size:31 final size:30
Alignment explanation
Indices: 36658743--36658806 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
36658733 GGGCTTGATG
36658743 TTTAATCTAAACCATTTTATATTTAAAAATA
1 TTTAATCTAAACCATTTTATATTT-AAAATA
*
36658774 TTTAATCTAAACTATTTGATATATTT-AAATA
1 TTTAATCTAAACCATTT--TATATTTAAAATA
36658805 TT
1 TT
36658807 AGATTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 23 0.77
33 7 0.23
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (30 bp):
TTTAATCTAAACCATTTTATATTTAAAATA
Found at i:36661692 original size:3 final size:3
Alignment explanation
Indices: 36661686--36661717 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
36661676 GAGATGATGT
36661686 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36661718 TGCCTTTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36663875 original size:87 final size:84
Alignment explanation
Indices: 36663706--36663981 Score: 279
Period size: 86 Copynumber: 3.2 Consensus size: 84
36663696 TTAAAAGTTA
* * * * * * *
36663706 TGTT-TTTAGCGGCGTTTCTGTGAGAAGCGCCACTAAAGGT-TTGATCTATAGCGGCGTTTTTGA
1 TGTTCTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGT-A
* * *
36663769 CGAAAAGCGCTGCTAAAGGTCA
64 -AAAAAGCGCCGCTAAAGGTCT
36663791 TGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGAAT
1 TGTTCTTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTG--T
36663856 AAAAAAGCGCCGCTAAAGGTCT
63 AAAAAAGCGCCGCTAAAGGTCT
* * * * * **
36663878 TGATT-TTTAGCGGCGTTTGTGGATAGGCGTCGCTAAAGGTCTTGGTCTTTAGCGGTGTTTGTGG
1 TG-TTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAA
* * * *
36663942 GAAAGAGTCGTTAAAGGTCT
65 AAAAGCGCCGCTAAAGGTCT
36663962 TGTTCTTTAGCGGCGTTTGT
1 TGTTCTTTAGCGGCGTTTGT
36663982 TTCTAAAAAC
Statistics
Matches: 163, Mismatches: 21, Indels: 15
0.82 0.11 0.08
Matches are distributed among these distances:
83 2 0.01
84 34 0.21
85 5 0.03
86 65 0.40
87 53 0.33
88 3 0.02
89 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (84 bp):
TGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAAA
AAAGCGCCGCTAAAGGTCT
Found at i:36663921 original size:42 final size:41
Alignment explanation
Indices: 36663706--36663981 Score: 248
Period size: 42 Copynumber: 6.5 Consensus size: 41
36663696 TTAAAAGTTA
* * *
36663706 TGTTTTTAGCGGCGTTTCTGTGAGAAGCGCCACTAAAGGT-T
1 TGTTTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCT
* * * * *
36663747 TGATCTATAGCGGCGTTTTTGACGAAAAGCGCTGCTAAAGGTCA
1 TG-TTTTTAGCGGCGTTTGTG--GAAAAGCGCCGCTAAAGGTCT
36663791 TGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAT
1 TGTT-TTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGTC-T
* * **
36663835 GGTCTTTAGCGGCGTTTGAATAAAAAAGCGCCGCTAAAGGTCT
1 TGTTTTTAGCGGCGTTTG--TGGAAAAGCGCCGCTAAAGGTCT
* * *
36663878 TGATTTTTAGCGGCGTTTGTGGATAGGCGTCGCTAAAGGTCT
1 TG-TTTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCT
* * * * * *
36663920 TGGTCTTTAGCGGTGTTTGTGGGAAAGAGTCGTTAAAGGTCT
1 T-GTTTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCT
36663962 TGTTCTTTAGCGGCGTTTGT
1 TGTT-TTTAGCGGCGTTTGT
36663982 TTCTAAAAAC
Statistics
Matches: 191, Mismatches: 33, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
41 4 0.02
42 82 0.43
43 52 0.27
44 52 0.27
45 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (41 bp):
TGTTTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCT
Found at i:36664771 original size:22 final size:24
Alignment explanation
Indices: 36664734--36664777 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
36664724 AATAATGATT
*
36664734 TAAAAATTAAAAATACTTTTAAAA
1 TAAAAATTAAAAATACTATTAAAA
36664758 TAAAAA-T-AAAATACTATTAA
1 TAAAAATTAAAAATACTATTAA
36664778 TTTTTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 1 0.05
24 6 0.32
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (24 bp):
TAAAAATTAAAAATACTATTAAAA
Found at i:36666986 original size:3 final size:3
Alignment explanation
Indices: 36666978--36667017 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
36666968 AAAATAAAAC
*
36666978 TAA TAA TAA TAAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
36667018 CATTAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:36673106 original size:124 final size:124
Alignment explanation
Indices: 36672953--36673190 Score: 395
Period size: 124 Copynumber: 1.9 Consensus size: 124
36672943 AACTTAAAAC
* *
36672953 GGGTCGGGTCAAGCTTGAGCCTTAAATGTTCAAACCCGAGCCTAACCCATATTTTAAACGAGTTT
1 GGGTCGGGCCAAGCTTGAGCCTTAAATGTTCAAACCCGAGCCTAACCCATATTTTAAACGAGCTT
* * *
36673018 AAATTTTTTGTCCAAGCTCATTTTTCGAGTCTAACATTTTTGCTCAAACCCTCTCAAAT
66 AAATTTTTTGTCCAAGCTAATTTTTCGAGGCTAACATTTTTACTCAAACCCTCTCAAAT
*
36673077 GGGTCGGGCCAAGCTTGAGCCTTGAATGTTCAAACCCGAGCCTAACCCATATTTTAAACGAGCTT
1 GGGTCGGGCCAAGCTTGAGCCTTAAATGTTCAAACCCGAGCCTAACCCATATTTTAAACGAGCTT
* * *
36673142 AATTTTTTTGTCCAAGCTAATTTTTTGAGGCTAATATTTTTACTCAAAC
66 AAATTTTTTGTCCAAGCTAATTTTTCGAGGCTAACATTTTTACTCAAAC
36673191 ATTTTCAAAT
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
124 105 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (124 bp):
GGGTCGGGCCAAGCTTGAGCCTTAAATGTTCAAACCCGAGCCTAACCCATATTTTAAACGAGCTT
AAATTTTTTGTCCAAGCTAATTTTTCGAGGCTAACATTTTTACTCAAACCCTCTCAAAT
Found at i:36674662 original size:9 final size:9
Alignment explanation
Indices: 36674648--36674759 Score: 161
Period size: 9 Copynumber: 12.2 Consensus size: 9
36674638 TTTGGTTAAA
36674648 AATTACCCG
1 AATTACCCG
*
36674657 AATTACCCA
1 AATTACCCG
36674666 AATTACCCG
1 AATTACCCG
*
36674675 ACTTACCCG
1 AATTACCCG
36674684 AATTACCCG
1 AATTACCCG
36674693 AATTACCCG
1 AATTACCCG
*
36674702 ACTTACCCG
1 AATTACCCG
36674711 AATTACCCG
1 AATTACCCG
36674720 AATTACCCG
1 AATTACCCG
* *
36674729 AAAATGACCCA
1 --AATTACCCG
36674740 AATTACCCG
1 AATTACCCG
36674749 AATTACCCG
1 AATTACCCG
36674758 AA
1 AA
36674760 AATATTTAAG
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
9 84 0.92
11 7 0.08
ACGTcount: A:0.36, C:0.34, G:0.10, T:0.21
Consensus pattern (9 bp):
AATTACCCG
Found at i:36675475 original size:16 final size:16
Alignment explanation
Indices: 36675454--36675493 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
36675444 GGTGTTGTGA
36675454 AAATTGGGCTAGATTT
1 AAATTGGGCTAGATTT
* *
36675470 AAATTGGGCTGGGTTT
1 AAATTGGGCTAGATTT
36675486 AAATTGGG
1 AAATTGGG
36675494 AGGAGTAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.33, T:0.35
Consensus pattern (16 bp):
AAATTGGGCTAGATTT
Found at i:36682729 original size:19 final size:19
Alignment explanation
Indices: 36682701--36682737 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36682691 ATGACTGCTT
36682701 TTCATATTTTTCTCCACTC
1 TTCATATTTTTCTCCACTC
*
36682720 TTCATCTTTTTCTCCACT
1 TTCATATTTTTCTCCACT
36682738 TTTTTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.32, G:0.00, T:0.54
Consensus pattern (19 bp):
TTCATATTTTTCTCCACTC
Found at i:36697472 original size:28 final size:28
Alignment explanation
Indices: 36697413--36697477 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
36697403 GTATCATGTT
* * *
36697413 TTAACATAAATATAAATTTAGTAATTAT
1 TTAACATAAATATAAATTTAGCAACTAA
*
36697441 TTAACATAAATATAATTTTA-CAACTACA
1 TTAACATAAATATAAATTTAGCAACTA-A
36697469 TTAAC-TAAA
1 TTAACATAAA
36697478 GAGTTTAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 8 0.25
28 24 0.75
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (28 bp):
TTAACATAAATATAAATTTAGCAACTAA
Found at i:36700200 original size:47 final size:47
Alignment explanation
Indices: 36700137--36700230 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
36700127 AAAAGTATAG
* *
36700137 GGACTAGTTTTGACAAATGGAAAACATAGGAAAACTATGTTAAAAGA
1 GGACTAGTTTTAACAAATGGAAAACATAGAAAAACTATGTTAAAAGA
36700184 GGACTAGTTTTAACAAATGGAAAACATAGAAAAACTATGTTAAAAGA
1 GGACTAGTTTTAACAAATGGAAAACATAGAAAAACTATGTTAAAAGA
36700231 AATGGAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (47 bp):
GGACTAGTTTTAACAAATGGAAAACATAGAAAAACTATGTTAAAAGA
Found at i:36710925 original size:21 final size:21
Alignment explanation
Indices: 36710894--36710949 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
36710884 CTACAAATTA
* *
36710894 AAGCGGAGGCAACAGCGAGGG
1 AAGCAGAGGCAACAGCAAGGG
* *
36710915 AAGTAGAGGCAGCAGCAAGGG
1 AAGCAGAGGCAACAGCAAGGG
* *
36710936 CAGCAAAGGCAACA
1 AAGCAGAGGCAACA
36710950 AGAAAATATG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.39, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCAACAGCAAGGG
Found at i:36712845 original size:18 final size:20
Alignment explanation
Indices: 36712824--36712862 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
36712814 AAATAAAAAC
*
36712824 ATAAAAA-AGAAA-TTCATA
1 ATAAAAACAAAAAGTTCATA
36712842 ATAAAAACAAAAAGTTCATA
1 ATAAAAACAAAAAGTTCATA
36712862 A
1 A
36712863 AAATGTCGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.67, C:0.08, G:0.05, T:0.21
Consensus pattern (20 bp):
ATAAAAACAAAAAGTTCATA
Found at i:36713021 original size:85 final size:85
Alignment explanation
Indices: 36712932--36713090 Score: 309
Period size: 85 Copynumber: 1.9 Consensus size: 85
36712922 AAACAAAACG
36712932 TAAAAAATAGAAACAAAAAATCAAACAAAAAAACCCATAAATCATTCAATAATTTTCACATTGAA
1 TAAAAAATAGAAACAAAAAATCAAACAAAAAAACCCATAAATCATTCAATAATTTTCACATTGAA
36712997 AAAAATGAAGTCGTTTTGTT
66 AAAAATGAAGTCGTTTTGTT
*
36713017 TAAAAAATAGAAACTAAAAATCAAACAAAAAAACCCATAAATCATTCAATAATTTTCACATTGAA
1 TAAAAAATAGAAACAAAAAATCAAACAAAAAAACCCATAAATCATTCAATAATTTTCACATTGAA
36713082 AAAAATGAA
66 AAAAATGAA
36713091 TTCAACGAAT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.57, C:0.13, G:0.06, T:0.24
Consensus pattern (85 bp):
TAAAAAATAGAAACAAAAAATCAAACAAAAAAACCCATAAATCATTCAATAATTTTCACATTGAA
AAAAATGAAGTCGTTTTGTT
Found at i:36714276 original size:12 final size:12
Alignment explanation
Indices: 36714244--36714282 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
36714234 ATGTAAAAAG
*
36714244 ATATATATATGT
1 ATATATATGTGT
*
36714256 ATATGTATGTGT
1 ATATATATGTGT
*
36714268 ATATATATGTAT
1 ATATATATGTGT
36714280 ATA
1 ATA
36714283 AAAATTATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (12 bp):
ATATATATGTGT
Found at i:36714350 original size:2 final size:2
Alignment explanation
Indices: 36714340--36714421 Score: 53
Period size: 2 Copynumber: 41.5 Consensus size: 2
36714330 AAATAAAAAA
* * * * *
36714340 AT AT GT AT AT AG AT AT AT AT AT AG AT AT GT AT AT A- AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
36714381 A- AA AT AT A- AA AT AT AT AT AT GAGT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT -A-T AT AT AT AT AT AT AT AT A
36714422 AATAAGTTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
1 3 0.05
2 56 0.90
3 2 0.03
4 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (2 bp):
AT
Found at i:36714382 original size:7 final size:7
Alignment explanation
Indices: 36714370--36714395 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36714360 ATAGATATGT
36714370 ATATAAA
1 ATATAAA
36714377 ATATAAA
1 ATATAAA
36714384 ATATAAA
1 ATATAAA
36714391 ATATA
1 ATATA
36714396 TATATGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
ATATAAA
Done.