Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 284 of 362
Found at i:95653146 original size:14 final size:14
Alignment explanation
Indices: 95653019--95653146 Score: 61
Period size: 14 Copynumber: 9.3 Consensus size: 14
95653009 GAGTTACTAT
* *
95653019 TTTAAGGTTTATGG
1 TTTATGGTTTAGGG
*
95653033 ATTATGGGTTTAGGG
1 TTTAT-GGTTTAGGG
* *
95653048 ATTATGGTTTA-AG
1 TTTATGGTTTAGGG
*
95653061 --TGTGGTTTAAGGG
1 TTTATGGTTT-AGGG
* *
95653074 -TTAGGGTTTAAGG
1 TTTATGGTTTAGGG
95653087 TTTAT-GTGTTATGGG
1 TTTATGGT-TTA-GGG
*
95653102 -TCATGGTTTAGGG
1 TTTATGGTTTAGGG
* * *
95653115 GTTATGTTTTAGGA
1 TTTATGGTTTAGGG
*
95653129 TTTATGGTTCAGGG
1 TTTATGGTTTAGGG
95653143 TTTA
1 TTTA
95653147 AGGATTATGA
Statistics
Matches: 86, Mismatches: 19, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
11 7 0.08
12 1 0.01
13 10 0.12
14 51 0.59
15 17 0.20
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.45
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:95653179 original size:18 final size:19
Alignment explanation
Indices: 95653149--95653186 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
95653139 AGGGTTTAAG
95653149 GATTATGAGTTTAAATTAT
1 GATTATGAGTTTAAATTAT
95653168 GATTAT-AGTTTAAATTAT
1 GATTATGAGTTTAAATTAT
95653186 G
1 G
95653187 TAAGAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (19 bp):
GATTATGAGTTTAAATTAT
Found at i:95653421 original size:21 final size:21
Alignment explanation
Indices: 95653374--95653415 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
95653364 TTAAATTTTT
*
95653374 GAGTTTAGGGTTTATGGTTTA
1 GAGTTTAGGGTTTATGATTTA
*
95653395 GAGTTTGGGGTTTATGATTTA
1 GAGTTTAGGGTTTATGATTTA
95653416 TTGTTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (21 bp):
GAGTTTAGGGTTTATGATTTA
Found at i:95653626 original size:21 final size:21
Alignment explanation
Indices: 95653601--95653647 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
95653591 TTAGGGTGTA
*
95653601 GGTTTATGGTCTAAGATTTAG
1 GGTTTATGGTCTAAAATTTAG
*
95653622 GGTTTATGGTCTAAAATTTGG
1 GGTTTATGGTCTAAAATTTAG
95653643 GGTTT
1 GGTTT
95653648 GAGGTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.04, G:0.30, T:0.45
Consensus pattern (21 bp):
GGTTTATGGTCTAAAATTTAG
Found at i:95654109 original size:7 final size:7
Alignment explanation
Indices: 95654094--95654151 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
95654084 AATCTTCAAA
*
95654094 AAAAATT
1 AAAATTT
95654101 AAAATTT
1 AAAATTT
*
95654108 AAAAATT
1 AAAATTT
95654115 AAAATTT
1 AAAATTT
*
95654122 AAAAACTTA
1 -AAAA-TTT
95654131 AAAATTT
1 AAAATTT
*
95654138 AATATTT
1 AAAATTT
*
95654145 AATATTT
1 AAAATTT
95654152 TAGTCCATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
7 33 0.77
8 8 0.19
9 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (7 bp):
AAAATTT
Found at i:95654112 original size:8 final size:8
Alignment explanation
Indices: 95654101--95654139 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
95654091 AAAAAAAATT
95654101 AAAATTTA
1 AAAATTTA
95654109 AAAA-TT-
1 AAAATTTA
95654115 AAAATTTA
1 AAAATTTA
*
95654123 AAAACTTA
1 AAAATTTA
95654131 AAAATTTA
1 AAAATTTA
95654139 A
1 A
95654140 TATTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 4 0.15
7 4 0.15
8 19 0.70
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATTTA
Found at i:95654113 original size:14 final size:14
Alignment explanation
Indices: 95654094--95654139 Score: 74
Period size: 14 Copynumber: 3.1 Consensus size: 14
95654084 AATCTTCAAA
95654094 AAAAATTAAAATTT
1 AAAAATTAAAATTT
95654108 AAAAATTAAAATTT
1 AAAAATTAAAATTT
95654122 AAAAACTTAAAAATTT
1 AAAAA-TT-AAAATTT
95654138 AA
1 AA
95654140 TATTTAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 19 0.63
15 2 0.07
16 9 0.30
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATTAAAATTT
Found at i:95658221 original size:16 final size:15
Alignment explanation
Indices: 95658186--95658222 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
95658176 TGTTAATTTG
*
95658186 ATTTTTGGATGTTCC
1 ATTTTTGGATGTACC
95658201 ATTTTTGGATGTACC
1 ATTTTTGGATGTACC
95658216 ATTTTTG
1 ATTTTTG
95658223 TTCATCTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.19, T:0.54
Consensus pattern (15 bp):
ATTTTTGGATGTACC
Found at i:95659231 original size:18 final size:19
Alignment explanation
Indices: 95659210--95659248 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
95659200 TATTGATATC
95659210 TTTA-TATTTAATTTAATT
1 TTTATTATTTAATTTAATT
* *
95659228 TTTATTATTTATTTTAGTT
1 TTTATTATTTAATTTAATT
95659247 TT
1 TT
95659249 GATTCTAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTATTATTTAATTTAATT
Found at i:95659530 original size:43 final size:42
Alignment explanation
Indices: 95659477--95659595 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 42
95659467 TTTAAATTTT
*
95659477 ATGACTTTTAGCGACGATTT-TAGGAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGACG-TTTGTAGGAAAAGCGCCG-TAAAGGTC
* * *
95659520 ATGACCTTTAGTGACGTTTGTGGGAAAAGCGCTGTAAAGGTC
1 ATGACCTTTAGCGACGTTTGTAGGAAAAGCGCCGTAAAGGTC
* * * *
95659562 ATGATCTTTAGTGGCGCTTGT-GTGAAAAGCGCCG
1 ATGACCTTTAGCGACGTTTGTAG-GAAAAGCGCCG
95659596 CAAATAGTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.02
42 39 0.59
43 26 0.39
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (42 bp):
ATGACCTTTAGCGACGTTTGTAGGAAAAGCGCCGTAAAGGTC
Found at i:95659571 original size:42 final size:43
Alignment explanation
Indices: 95659499--95659596 Score: 144
Period size: 42 Copynumber: 2.3 Consensus size: 43
95659489 GACGATTTTA
*
95659499 GGAAAAGCGCCGCTAAAGGTCATGACCTTTAGTGACGTTTGTG
1 GGAAAAGCGCCGCTAAAGGTCATGACCTTTAGTGACGCTTGTG
* * *
95659542 GGAAAAGCGCTG-TAAAGGTCATGATCTTTAGTGGCGCTTGTG
1 GGAAAAGCGCCGCTAAAGGTCATGACCTTTAGTGACGCTTGTG
*
95659584 TGAAAAGCGCCGC
1 GGAAAAGCGCCGC
95659597 AAATAGTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 37 0.77
43 11 0.23
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (43 bp):
GGAAAAGCGCCGCTAAAGGTCATGACCTTTAGTGACGCTTGTG
Found at i:95672698 original size:22 final size:22
Alignment explanation
Indices: 95672668--95672712 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
95672658 TGTGCTTCTC
95672668 TTTACTCTCTAT-TTATCTTATT
1 TTTACTCTCTATATTAT-TTATT
* *
95672690 TTTATTCTCTTTATTATTTATT
1 TTTACTCTCTATATTATTTATT
95672712 T
1 T
95672713 CCTAATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTACTCTCTATATTATTTATT
Found at i:95675228 original size:19 final size:19
Alignment explanation
Indices: 95675204--95675241 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
95675194 GATTTCTAGA
*
95675204 AAATGATTTATTTTTCTGG
1 AAATGATTTACTTTTCTGG
95675223 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
95675242 TGTTTGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:95680543 original size:14 final size:14
Alignment explanation
Indices: 95680505--95680547 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
95680495 TAAAATGTAC
95680505 AATATAATTAAA-T
1 AATATAATTAAATT
95680518 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
95680533 AA-ATAATTTAATT
1 AATATAATTAAATT
95680546 AA
1 AA
95680548 CTATTTACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:95684387 original size:38 final size:38
Alignment explanation
Indices: 95684336--95684625 Score: 184
Period size: 38 Copynumber: 6.9 Consensus size: 38
95684326 TTTCAAATTA
* *
95684336 ACATGTATAACCGTGGCATATCCACTTAGTACCACGTT
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCACGTT
* *
95684374 ACATGTTTAACCGTGGTATATCTACTTAGCACCACGTTAAT
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
95684415 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCATGTT
1 --A-C-ATGT-T-TAACCGTGGCATATCCACTTAGCACCACGTT
* * * *
95684459 ACATGTTTTATCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCACG-T--T
*
95684500 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGT-T-TAACCGTGGCATATCCACTTAGCACCACGTT
* *
95684544 ACATGTATCAATATGTGTAATCGTGGAATATCCACTTAGCACCACGTT
1 ACATG--------T-T-TAACCGTGGCATATCCACTTAGCACCACGTT
* * *
95684592 ACACGTATAACCGTGGTATATCCACTTAGCACCA
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCA
95684626 TGTTTTTTCA
Statistics
Matches: 199, Mismatches: 27, Indels: 52
0.72 0.10 0.19
Matches are distributed among these distances:
38 81 0.41
39 3 0.02
40 6 0.03
41 4 0.02
42 2 0.01
43 2 0.01
44 4 0.02
45 6 0.03
46 4 0.02
47 51 0.26
48 36 0.18
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTTTAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:95684435 original size:47 final size:48
Alignment explanation
Indices: 95684381--95684594 Score: 254
Period size: 47 Copynumber: 4.7 Consensus size: 48
95684371 GTTACATGTT
* *
95684381 TAACCGTGGTATATCTACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATG
*
95684428 TAACCGTGGCATATCCACTTAGCACCATGTTACATG------T-T-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * *
95684467 T-ATCATGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATG
* *
95684513 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATG
* *
95684561 TAATCGTGGAATATCCACTTAGCACCACGTTACA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACA
95684595 CGTATAACCG
Statistics
Matches: 141, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
37 3 0.02
38 26 0.18
39 1 0.01
40 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
46 1 0.01
47 56 0.40
48 48 0.34
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (48 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:95684435 original size:85 final size:85
Alignment explanation
Indices: 95684343--95684549 Score: 360
Period size: 85 Copynumber: 2.4 Consensus size: 85
95684333 TTAACATGTA
* * *
95684343 TAACCGTGGCATATCCACTTAGTACCACGTTACATGTTTAACCGTGGTATATCTACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
95684408 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* * *
95684428 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTTTTATCATGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
95684493 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
95684513 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
95684550 ATCAATATGT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 115 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:95684575 original size:48 final size:48
Alignment explanation
Indices: 95684476--95684599 Score: 196
Period size: 48 Copynumber: 2.6 Consensus size: 48
95684466 TTATCATGGT
* *
95684476 ATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCGTGGC
1 ATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACCGTGGA
* *
95684523 ATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGA
1 ATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACCGTGGA
*
95684571 ATATCCACTTAGCACCACGTTACACGTAT
1 ATATCCACTTAGCACCACGTTACATGTAT
95684600 AACCGTGGTA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
47 22 0.31
48 49 0.69
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (48 bp):
ATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACCGTGGA
Found at i:95684618 original size:133 final size:132
Alignment explanation
Indices: 95684381--95684625 Score: 373
Period size: 133 Copynumber: 1.8 Consensus size: 132
95684371 GTTACATGTT
* * *
95684381 TAACCGTGGTATATCTACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCAC
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGAATATCCAC
* * * * *
95684446 TTAGCACCATGTTACATGTTTTATCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATA
66 TTAGCACCACGTTACACGTATAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATA
95684511 TG
131 TG
* * *
95684513 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGAATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCGTGGAATATCCA
*
95684578 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCA
65 CTTAGCACCACGTTACACGTATAACCATGGTATATCCACTTAGCACCA
95684626 TGTTTTTTCA
Statistics
Matches: 100, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
132 30 0.30
133 70 0.70
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (132 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGAATATCCAC
TTAGCACCACGTTACACGTATAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATA
TG
Found at i:95687930 original size:4 final size:4
Alignment explanation
Indices: 95687921--95687945 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
95687911 AACCGAGCCT
95687921 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
95687946 GTTTGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:95689410 original size:7 final size:7
Alignment explanation
Indices: 95689400--95689513 Score: 80
Period size: 7 Copynumber: 16.1 Consensus size: 7
95689390 TTTTTATTTT
95689400 TATATTA
1 TATATTA
95689407 TATATTA
1 TATATTA
95689414 TATAATTA
1 TAT-ATTA
95689422 T-T-TTA
1 TATATTA
95689427 TATATTA
1 TATATTA
95689434 CTCATATTA
1 -T-ATATTA
*
95689443 TTTA-TA
1 TATATTA
95689449 TATATTA
1 TATATTA
95689456 TATATTA
1 TATATTA
* *
95689463 TTTTCACATA
1 -TAT-A-TTA
95689473 TATACTT-
1 TATA-TTA
95689480 TATATTA
1 TATATTA
95689487 TATATTA
1 TATATTA
95689494 TAT-TTA
1 TATATTA
95689500 T-T-TTA
1 TATATTA
95689505 TATTATTA
1 TA-TATTA
95689513 T
1 T
95689514 GTCATTTTAC
Statistics
Matches: 88, Mismatches: 6, Indels: 25
0.74 0.05 0.21
Matches are distributed among these distances:
5 9 0.10
6 12 0.14
7 40 0.45
8 16 0.18
9 9 0.10
10 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (7 bp):
TATATTA
Found at i:95689412 original size:27 final size:27
Alignment explanation
Indices: 95689362--95689447 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
95689352 ACAAATATAA
* * * *
95689362 ATTTTTATTGTTATTTTCTTTATTTTT
1 ATTTTTATTTTTATATTATATATTTTT
*
95689389 ATTTTTATTTTTATATTATATA-TTAT
1 ATTTTTATTTTTATATTATATATTTTT
**
95689415 ATAATTATTTTATATATTACTCATATTATTT
1 ATTTTTATTTT-TATATTA-T-ATATT-TTT
95689446 AT
1 AT
95689448 ATATATTATA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 12 0.26
27 25 0.54
28 1 0.02
29 3 0.07
30 1 0.02
31 4 0.09
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (27 bp):
ATTTTTATTTTTATATTATATATTTTT
Found at i:95689443 original size:29 final size:26
Alignment explanation
Indices: 95689393--95689463 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 26
95689383 ATTTTTATTT
95689393 TTATTTT-TATATTATATATTATATAA
1 TTATTTTATATATTATATATTAT-TAA
*
95689419 TTATTTTATATATTACTCATATTATTTA
1 TTATTTTATATATTA-T-ATATTATTAA
*
95689447 TATATATTATATATTAT
1 T-TATTTTATATATTAT
95689464 TTTCACATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 7 0.18
27 7 0.18
28 5 0.13
29 20 0.51
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (26 bp):
TTATTTTATATATTATATATTATTAA
Found at i:95689473 original size:22 final size:20
Alignment explanation
Indices: 95689406--95689513 Score: 86
Period size: 20 Copynumber: 5.5 Consensus size: 20
95689396 TTTTTATATT
95689406 ATATATTATATAATTATTTT-
1 ATATATTATAT-ATTATTTTA
95689426 ATATATTACTCATATTA-TTTA
1 ATATATTA-T-ATATTATTTTA
*
95689447 TATATATTATATATTATTTTC
1 -ATATATTATATATTATTTTA
* *
95689468 ACATA-TATACT-TTATATT-
1 ATATATTATA-TATTATTTTA
95689486 ATATATTATAT-TTATTTT-
1 ATATATTATATATTATTTTA
95689504 ATATTATTAT
1 ATA-TATTAT
95689514 GTCATTTTAC
Statistics
Matches: 75, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
18 14 0.19
19 20 0.27
20 22 0.29
21 9 0.12
22 10 0.13
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATATTATATATTATTTTA
Found at i:95689863 original size:17 final size:17
Alignment explanation
Indices: 95689806--95689863 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
95689796 TCTAAACCAT
*
95689806 TATATTTTATATTTTTA
1 TATATTATATATTTTTA
*
95689823 TATAATTAT-TATTCTTA
1 TAT-ATTATATATTTTTA
95689840 TA-A--ATATATTTTTA
1 TATATTATATATTTTTA
95689854 TATATTATAT
1 TATATTATAT
95689864 CATTGAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
13 2 0.06
14 9 0.27
15 2 0.06
17 16 0.48
18 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTATATATTTTTA
Found at i:95694808 original size:46 final size:46
Alignment explanation
Indices: 95694616--95694982 Score: 218
Period size: 46 Copynumber: 7.8 Consensus size: 46
95694606 TTATTTGTGT
* *
95694616 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGA-GA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-C-TATGA-GATGA
* *
95694662 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGC-ATTGAGACAAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-TGAG--ATGA
* * * * * *
95694710 GCTAGTGTATGA-CATGTTTGGGACAT-GCTTTAGCCT-CGAGATGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGC-ATCGGCTATGAGATG--A
*
95694756 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGA
* * * * * * *
95694802 GTTAGTGTAAGGCCATATCTAGGACATGGCATCAACACAGATATGTGA-GA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT-----CGGCTATGAGATGA
* * * * *
95694852 GCCAGTGTAAGACCATGTCTGGAACATGGCGTCGACCTCGATTACGAT-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCT--ATGA-GATGA
* *
95694901 G-TCAGTGTAAGACCAT-TCTGGGACATGCCATCGACTTAATG-GATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-T-ATGAGATGA
* *
95694947 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
95694983 ATTCTACCCT
Statistics
Matches: 245, Mismatches: 48, Indels: 55
0.70 0.14 0.16
Matches are distributed among these distances:
44 2 0.01
45 6 0.02
46 74 0.30
47 68 0.28
48 44 0.18
49 17 0.07
50 26 0.11
51 8 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGA
Found at i:95696735 original size:19 final size:19
Alignment explanation
Indices: 95696696--95696739 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
95696686 TGGGCTGAAG
*
95696696 ACACGGGCGTGTCCAAGCC
1 ACACGGGCGTGTCAAAGCC
* *
95696715 ACACGGGCGTGTGAAATCC
1 ACACGGGCGTGTCAAAGCC
95696734 ACACGG
1 ACACGG
95696740 TCAACCCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.25, C:0.32, G:0.32, T:0.11
Consensus pattern (19 bp):
ACACGGGCGTGTCAAAGCC
Found at i:95701073 original size:49 final size:49
Alignment explanation
Indices: 95701001--95701094 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
95700991 TGCTATGCAA
* * *
95701001 TGCTAAACTTGGTTTTCCACTGTCTACATTATTATCACTATTTATACAT
1 TGCTAAACTTGATTTTCCACTGTCTACACTATTATAACTATTTATACAT
* *
95701050 TGCTAAACTT-ATTATTTCACTGTCTACACTCTTATAACTATTTAT
1 TGCTAAACTTGATT-TTCCACTGTCTACACTATTATAACTATTTAT
95701095 CCCTTATTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 2 0.05
49 37 0.95
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.46
Consensus pattern (49 bp):
TGCTAAACTTGATTTTCCACTGTCTACACTATTATAACTATTTATACAT
Found at i:95704364 original size:23 final size:22
Alignment explanation
Indices: 95704334--95704377 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
95704324 AAAATAGTGG
*
95704334 AAATTGAG-TTAGAAGTTTAATA
1 AAATTGAGATTA-AAGCTTAATA
95704356 AAATATGAGATTAAAGCTTAAT
1 AAAT-TGAGATTAAAGCTTAAT
95704378 GAGTCTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 12 0.63
24 3 0.16
ACGTcount: A:0.48, C:0.02, G:0.16, T:0.34
Consensus pattern (22 bp):
AAATTGAGATTAAAGCTTAATA
Found at i:95711166 original size:14 final size:13
Alignment explanation
Indices: 95711146--95711182 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
95711136 AATATTTGAC
95711146 TTGTTCTTAATTA
1 TTGTTCTTAATTA
95711159 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
95711173 TTGTT-TTAAT
1 TTGTTCTTAAT
95711183 ATTCCAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:95712147 original size:42 final size:42
Alignment explanation
Indices: 95712004--95712161 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 42
95711994 CAATGCCAAC
* * * *
95712004 GTCCTAGACATGGTCTTACATG-TAATCAAATATCGATGTCACT
1 GTCCCAGACATGGTCTTACACGAAAATCAAATA-CGATG-CAAT
* * *
95712047 GTCCCAGACAGGGTCTTACACGAAAATCATAATCCGATGCCAAC
1 GTCCCAGACATGGTCTTACACGAAAATCA-AATACGATG-CAAT
* *
95712091 GTCCCAAACGTGGTCTTACACG-AAATCAAATACGATGCAAAT
1 GTCCCAGACATGGTCTTACACGAAAATCAAATACGATGC-AAT
*
95712133 GTCCCAGACATGGTCTTACACGTAAATCA
1 GTCCCAGACATGGTCTTACACGAAAATCA
95712162 CAAATCAATC
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 30 0.31
43 31 0.32
44 31 0.32
45 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAAATCAAATACGATGCAAT
Found at i:95712160 original size:86 final size:87
Alignment explanation
Indices: 95711996--95712161 Score: 237
Period size: 87 Copynumber: 1.9 Consensus size: 87
95711986 AACTCGTACA
* * * * *
95711996 ATGCCAACGTCCTAGACATGGTCTTACATGTAATCAAATATCGATGTCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAAACATGGTCTTACACGAAATCAAATATCGATGTCAATGTCCCAGACAGGGT
95712061 CTTACACGAAAATCATAATCCG
66 CTTACACGAAAATCATAATCCG
* *
95712083 ATGCCAACGTCCCAAACGTGGTCTTACACGAAATCAAATA-CGATG-CAAATGTCCCAGACATGG
1 ATGCCAACGTCCCAAACATGGTCTTACACGAAATCAAATATCGATGTC-AATGTCCCAGACAGGG
*
95712146 TCTTACACGTAAATCA
65 TCTTACACGAAAATCA
95712162 CAAATCAATC
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 1 0.01
86 34 0.49
87 35 0.50
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (87 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGAAATCAAATATCGATGTCAATGTCCCAGACAGGGT
CTTACACGAAAATCATAATCCG
Found at i:95716351 original size:18 final size:18
Alignment explanation
Indices: 95716330--95716389 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
95716320 AATCGGTTAA
*
95716330 TCAGTAATATTCATTTAT
1 TCAGTAATACTCATTTAT
*
95716348 TCAGT-ATCACTCGTTTAT
1 TCAGTAAT-ACTCATTTAT
* * * *
95716366 TCTGTAACAGTCAATTAT
1 TCAGTAATACTCATTTAT
95716384 TCAGTA
1 TCAGTA
95716390 GCAGACAGTC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 2 0.06
18 29 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (18 bp):
TCAGTAATACTCATTTAT
Found at i:95716912 original size:3 final size:3
Alignment explanation
Indices: 95716904--95716954 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
95716894 ATTCAATACC
* *
95716904 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
95716952 ATA
1 ATA
95716955 CTTATCATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:95717630 original size:22 final size:21
Alignment explanation
Indices: 95717598--95717638 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
95717588 TCCCTTGTTC
*
95717598 TTCTCTATTTCGTTTGCTTTGT
1 TTCTCTATTTCATTT-CTTTGT
*
95717620 TTCTCTTTTTCATTTCTTT
1 TTCTCTATTTCATTTCTTT
95717639 TATTTCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.05, C:0.20, G:0.07, T:0.68
Consensus pattern (21 bp):
TTCTCTATTTCATTTCTTTGT
Found at i:95721341 original size:40 final size:40
Alignment explanation
Indices: 95721279--95721496 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
95721269 AAGCCAAGTA
* * * *
95721279 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
95721318 CCTTCGGGACATAGCCCGGATATAGTACCTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
95721358 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
95721398 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
95721438 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
95721478 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
95721497 TTATCATCCA
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 13 0.08
40 151 0.92
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:95723913 original size:26 final size:26
Alignment explanation
Indices: 95723883--95723932 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
95723873 CCACTTAATC
*
95723883 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACATAGCAACCCCTT
95723909 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
95723933 CTTTTTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTT
Found at i:95724083 original size:104 final size:102
Alignment explanation
Indices: 95723850--95724113 Score: 381
Period size: 104 Copynumber: 2.6 Consensus size: 102
95723840 AACCGTTATT
* * * *
95723850 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGAA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
* *
95723915 TCAGCACATAGCAACCCCCTTTTTTTCAGAGATCAGC
66 TCAGCACATAGCAACCCCCTTTATTTCAAAGATCAGC
95723952 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCT-GGGGG
95724016 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGAT-A-C
64 AATCAGCACATAGCAACCCCCTTT---ATTTCAAAGATCAGC
* **
95724056 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
95724114 TTATGTACAA
Statistics
Matches: 147, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
101 1 0.01
102 53 0.36
103 28 0.19
104 54 0.37
105 2 0.01
106 9 0.06
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (102 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
TCAGCACATAGCAACCCCCTTTATTTCAAAGATCAGC
Found at i:95724474 original size:30 final size:29
Alignment explanation
Indices: 95724440--95724504 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
95724430 TAATCCACCA
95724440 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
95724470 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
95724500 CCCAA
1 CCCAA
95724505 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:95724478 original size:31 final size:30
Alignment explanation
Indices: 95724447--95724504 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
95724437 CCACCCAACT
95724447 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
95724477 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
95724505 GCTCGGAAAT
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:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:95731369 original size:19 final size:20
Alignment explanation
Indices: 95731345--95731382 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
95731335 AACTTTAATC
95731345 GGAATC-GCACTTAGCAACG
1 GGAATCAGCACTTAGCAACG
95731364 GGAATCAGCACTTAGCAAC
1 GGAATCAGCACTTAGCAAC
95731383 CCCTCGGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (20 bp):
GGAATCAGCACTTAGCAACG
Found at i:95731382 original size:45 final size:46
Alignment explanation
Indices: 95731292--95731382 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 46
95731282 GCACCACCAC
*
95731292 TAATCGAATCAGCACTTAGCAACCCCTGGAATCAGCACATAGCAACTT
1 TAATCGAATCAGCACTTAGCAA--CCGGGAATCAGCACATAGCAACTT
*
95731340 TAATCGGAATC-GCACTTAGCAA-CGGGAATCAGCACTTAGCAAC
1 TAATC-GAATCAGCACTTAGCAACCGGGAATCAGCACATAGCAAC
95731383 CCCTCGGGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
45 19 0.47
48 16 0.40
49 5 0.12
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (46 bp):
TAATCGAATCAGCACTTAGCAACCGGGAATCAGCACATAGCAACTT
Found at i:95731494 original size:26 final size:26
Alignment explanation
Indices: 95731464--95731514 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
95731454 CACCAATGAA
*
95731464 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
95731490 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
95731515 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:95731539 original size:102 final size:103
Alignment explanation
Indices: 95731363--95731591 Score: 399
Period size: 102 Copynumber: 2.2 Consensus size: 103
95731353 ACTTAGCAAC
95731363 GGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAA
1 GGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAA
*
95731428 GATACGGTGGATATCGCACTTAGCACCACCAATGAA-CG
66 GATACGGTGGATA-CGCACATAGCACCACCAATGAATCG
95731466 GGGAATCAGCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAA
1 GGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAA
*
95731530 GATATGGTGGATACGCACATAGCACCACCAATGAATCG
66 GATACGGTGGATACGCACATAGCACCACCAATGAATCG
**
95731568 GGGAATCAGCACACAGCAACCCCT
1 GGGAATCAGCACTTAGCAACCCCT
95731592 TTATGTACAA
Statistics
Matches: 121, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
101 21 0.17
102 75 0.62
103 25 0.21
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.17
Consensus pattern (103 bp):
GGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAA
GATACGGTGGATACGCACATAGCACCACCAATGAATCG
Found at i:95731951 original size:30 final size:29
Alignment explanation
Indices: 95731917--95731981 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
95731907 TAATCCACCA
95731917 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
95731947 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
95731977 CCCAA
1 CCCAA
95731982 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:95731955 original size:31 final size:30
Alignment explanation
Indices: 95731924--95731981 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
95731914 CCACCCAACT
95731924 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
95731954 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
95731982 GCTCGGAAAT
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:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:95742242 original size:103 final size:104
Alignment explanation
Indices: 95742063--95742424 Score: 562
Period size: 100 Copynumber: 3.6 Consensus size: 104
95742053 AACCGTTATT
* * * *
95742063 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
95742128 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
95742166 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
95742230 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
95742270 GGTGGATATCGCAC--AGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTC-GGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
95742331 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
95742370 GGTGG--ATCGCACATAGCACCACC-ATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
95742425 TTATGTACAA
Statistics
Matches: 245, Mismatches: 9, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
98 7 0.03
99 5 0.02
100 82 0.33
101 26 0.11
102 17 0.07
103 82 0.33
104 26 0.11
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:95742330 original size:26 final size:26
Alignment explanation
Indices: 95742299--95742349 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
95742289 CACCAATGAA
*
95742299 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
95742325 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
95742350 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:95742785 original size:29 final size:29
Alignment explanation
Indices: 95742752--95742815 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
95742742 TAATCCACCA
95742752 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
95742781 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
95742811 CCCAA
1 CCCAA
95742816 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:95742789 original size:30 final size:30
Alignment explanation
Indices: 95742759--95742815 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
95742749 CCACCCAACT
95742759 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
95742788 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
95742816 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:95749806 original size:103 final size:105
Alignment explanation
Indices: 95749627--95749892 Score: 403
Period size: 103 Copynumber: 2.5 Consensus size: 105
95749617 AACCGTTATT
* * * *
95749627 GGTGGATCTCGCACTTAGCACCACCACTTAA-TCGGGGAATCAGCACTTAGCAACCCCTTGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAACTCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
** *
95749691 AATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
95749730 GGTGGATATCGCACTTAGCACCACCAATGAACT-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAACTCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
95749794 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* *
95749834 GGTGGATATCGCACATAGCACCACCAATGAACCCCTCGGGGAATCAGCACATAGCAACC
1 GGTGGATATCGCACTTAGCACCACCAATGAA---CTCGGGGAATCAGCACTTAGCAACC
95749893 ACAGATACGG
Statistics
Matches: 148, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
103 82 0.55
104 43 0.29
107 2 0.01
108 21 0.14
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (105 bp):
GGTGGATATCGCACTTAGCACCACCAATGAACTCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:95750304 original size:30 final size:29
Alignment explanation
Indices: 95750270--95750334 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
95750260 TAATCCACCA
95750270 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
95750300 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
95750330 CCCAA
1 CCCAA
95750335 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:95750308 original size:31 final size:30
Alignment explanation
Indices: 95750277--95750334 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
95750267 CCACCCAACT
95750277 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
95750307 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
95750335 GCTCGGAAAT
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:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:95753532 original size:12 final size:12
Alignment explanation
Indices: 95753515--95753539 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95753505 ACCCAAAACC
95753515 CTTAGCCCAAAA
1 CTTAGCCCAAAA
95753527 CTTAGCCCAAAA
1 CTTAGCCCAAAA
95753539 C
1 C
95753540 ACTAACCCAA
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:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:95753622 original size:9 final size:9
Alignment explanation
Indices: 95753605--95753659 Score: 56
Period size: 9 Copynumber: 5.7 Consensus size: 9
95753595 CCACTAAACT
95753605 ACTCCAACC
1 ACTCCAACC
*
95753614 ACTCTAACC
1 ACTCCAACC
*
95753623 ACTCCACTAAACT
1 ACT-C-C--AACC
95753636 ACTCCAACC
1 ACTCCAACC
95753645 ACTCCAACC
1 ACTCCAACC
95753654 ACTCCA
1 ACTCCA
95753660 CTAAACCACC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 29 0.76
10 1 0.03
11 1 0.03
12 1 0.03
13 6 0.16
ACGTcount: A:0.35, C:0.49, G:0.00, T:0.16
Consensus pattern (9 bp):
ACTCCAACC
Found at i:95753627 original size:31 final size:31
Alignment explanation
Indices: 95753592--95753714 Score: 165
Period size: 31 Copynumber: 3.8 Consensus size: 31
95753582 AAATATCTTT
* *
95753592 ACTCCACTAAACTACTCCAACCACTCTAACC
1 ACTCCACTAAACCACCCCAACCACTCTAACC
* * *
95753623 ACTCCACTAAACTACTCCAACCACTCCAACC
1 ACTCCACTAAACCACCCCAACCACTCTAACC
95753654 ACTCCACTAAACCACCCCAACCACCCTACTAAACC
1 ACTCCACTAAACCACCCCAACCA--CT-CT-AACC
95753689 ACTCCACTAAACCACCCCAACCACTC
1 ACTCCACTAAACCACCCCAACCACTC
95753715 CACTTGCCTA
Statistics
Matches: 84, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
31 51 0.61
32 1 0.01
33 4 0.05
34 1 0.01
35 27 0.32
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.15
Consensus pattern (31 bp):
ACTCCACTAAACCACCCCAACCACTCTAACC
Found at i:95753666 original size:22 final size:22
Alignment explanation
Indices: 95753592--95753694 Score: 83
Period size: 22 Copynumber: 4.9 Consensus size: 22
95753582 AAATATCTTT
*
95753592 ACTCCACTAAACTACTCCAACC
1 ACTCCACTAAACCACTCCAACC
*
95753614 ACT---CT-AACCACTCC-ACT
1 ACTCCACTAAACCACTCCAACC
** * *
95753631 AAACTACTCCAACCACTCCAACC
1 ACTCCACT-AAACCACTCCAACC
*
95753654 ACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCAACC
95753676 AC-CCTACTAAACCACTCCA
1 ACTCC-ACTAAACCACTCCA
95753695 CTAAACCACC
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
17 3 0.05
18 8 0.13
19 2 0.03
20 2 0.03
21 2 0.03
22 39 0.62
23 7 0.11
ACGTcount: A:0.36, C:0.49, G:0.00, T:0.16
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:95753668 original size:13 final size:12
Alignment explanation
Indices: 95753650--95753705 Score: 64
Period size: 13 Copynumber: 4.7 Consensus size: 12
95753640 CAACCACTCC
95753650 AACCACTCCACTA
1 AACCAC-CCACTA
95753663 AACCACCC-C--
1 AACCACCCACTA
95753672 AACCACCCTACTA
1 AACCACCC-ACTA
95753685 AACCACTCCACTA
1 AACCAC-CCACTA
95753698 AACCACCC
1 AACCACCC
95753706 CAACCACTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
9 8 0.21
11 2 0.05
12 4 0.11
13 22 0.58
14 2 0.05
ACGTcount: A:0.38, C:0.52, G:0.00, T:0.11
Consensus pattern (12 bp):
AACCACCCACTA
Found at i:95754160 original size:18 final size:18
Alignment explanation
Indices: 95754125--95754339 Score: 72
Period size: 18 Copynumber: 11.9 Consensus size: 18
95754115 TTGTTTTTAT
* * *
95754125 TTTATTATTTTTACTATTT
1 TTTA-TATTATTATTATTA
95754144 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
95754162 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
*
95754183 TTTATACTATTATTA-TA
1 TTTATATTATTATTATTA
*** * *
95754200 TTATATATGCCCTCTCCA-TA
1 TT-TATAT-TATTAT-TATTA
95754220 TTTAT-TTA-TATTATTA
1 TTTATATTATTATTATTA
* * *
95754236 ---CTATCATTATTGTTA
1 TTTATATTATTATTATTA
* *
95754251 CTTCTATTATT-TT-TTA
1 TTTATATTATTATTATTA
* * *
95754267 TTTCTGACTACTATTATTA
1 TTTAT-ATTATTATTATTA
* *
95754286 TATATATATATGTATTATTG
1 TTTATAT-TAT-TATTATTA
*
95754306 TTTGTATTATTATTATTA
1 TTTATATTATTATTATTA
95754324 -TTATTATTATTATTAT
1 TTTA-TATTATTATTAT
95754340 CACCTCTATT
Statistics
Matches: 146, Mismatches: 32, Indels: 37
0.68 0.15 0.17
Matches are distributed among these distances:
13 1 0.01
14 2 0.01
15 8 0.05
16 11 0.08
17 12 0.08
18 54 0.37
19 25 0.17
20 21 0.14
21 12 0.08
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:95754284 original size:3 final size:3
Alignment explanation
Indices: 95754278--95754339 Score: 65
Period size: 3 Copynumber: 20.0 Consensus size: 3
95754268 TTCTGACTAC
*
95754278 TAT TAT TA- TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT
95754325 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
95754340 CACCTCTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 3 0.06
3 39 0.74
4 11 0.21
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:95754466 original size:16 final size:17
Alignment explanation
Indices: 95754440--95754481 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
95754430 ATATATTAGT
* *
95754440 GTATATTTTTATGTATA
1 GTATATATTTATATATA
95754457 -TATATATTTATATATA
1 GTATATATTTATATATA
95754473 GTAT-TATTT
1 GTATATATTT
95754482 TTTATTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (17 bp):
GTATATATTTATATATA
Found at i:95757058 original size:19 final size:19
Alignment explanation
Indices: 95757034--95757080 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
95757024 CTTCATTTCT
*
95757034 TTTGCATT-CATTCCGTACA
1 TTTGCATTACATTCC-AACA
*
95757053 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
95757072 TTTGCATTA
1 TTTGCATTA
95757081 AACTTTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:95765594 original size:42 final size:44
Alignment explanation
Indices: 95765547--95765659 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
95765537 AAGCTTTAAC
* * *
95765547 CCCCTAAGCAGTAGGGTAACAGGTTGA-GTTTAC-AG-ATCTAAA
1 CCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAGCCTC-AAA
* * ** *
95765589 CCCCTAAGCAGTAGGGAAACAGATCAATGATGACAAGCCTCAAC
1 CCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAGCCTCAAA
95765633 CCCCTAAGCAGTAGGGTAACAGGTTGA
1 CCCCTAAGCAGTAGGGTAACAGGTTGA
95765660 AAATCAAATA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
42 23 0.41
43 4 0.07
44 27 0.48
45 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (44 bp):
CCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAGCCTCAAA
Found at i:95765754 original size:68 final size:68
Alignment explanation
Indices: 95765670--95765939 Score: 434
Period size: 68 Copynumber: 4.0 Consensus size: 68
95765660 AAATCAAATA
*
95765670 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
95765735 ATC
66 ATC
*
95765738 TCTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
95765803 ATC
66 ATC
* * * *
95765806 TCTTCTCCCTGATATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCAGTGA
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
*
95765871 ATA
66 ATC
* * * *
95765874 TCTTCTCCCTGAAATGGCGGT-AAGCAGCTAAAAGCCACAGCAGATTTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
95765938 AT
66 AT
95765940 TAATCGAAGC
Statistics
Matches: 186, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
67 39 0.21
68 147 0.79
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (68 bp):
TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
ATC
Found at i:95766310 original size:12 final size:12
Alignment explanation
Indices: 95766293--95766317 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95766283 ACCCAAAACC
95766293 CTTAGCCCAAAA
1 CTTAGCCCAAAA
95766305 CTTAGCCCAAAA
1 CTTAGCCCAAAA
95766317 C
1 C
95766318 ACTAACCCAA
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:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:95766394 original size:9 final size:9
Alignment explanation
Indices: 95766380--95766429 Score: 55
Period size: 9 Copynumber: 5.1 Consensus size: 9
95766370 TACTCCACTA
95766380 AACCACTCC
1 AACCACTCC
95766389 AACCACTCCAC
1 AACCACT-C-C
*
95766400 TAAACTACTCC
1 --AACCACTCC
95766411 AACCACTCC
1 AACCACTCC
95766420 AACCACTCC
1 AACCACTCC
95766429 A
1 A
95766430 CTAAACCACC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
9 25 0.71
10 1 0.03
11 2 0.06
12 1 0.03
13 6 0.17
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (9 bp):
AACCACTCC
Found at i:95766396 original size:22 final size:22
Alignment explanation
Indices: 95766371--95766420 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
95766361 AAATATCTTT
95766371 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
*
95766393 ACTCCACTAAACTACTCCAACC
1 ACTCCACTAAACCACTCCAACC
95766415 ACTCCA
1 ACTCCA
95766421 ACCACTCCAC
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:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:95766417 original size:31 final size:31
Alignment explanation
Indices: 95766380--95766447 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
95766370 TACTCCACTA
* *
95766380 AACCACTCCAACCACTCCACTAAACTACTCC
1 AACCACTCCAACCACTCCACTAAACCACCCC
95766411 AACCACTCCAACCACTCCACTAAACCACCCC
1 AACCACTCCAACCACTCCACTAAACCACCCC
95766442 AACCAC
1 AACCAC
95766448 CCTACTAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.37, C:0.51, G:0.00, T:0.12
Consensus pattern (31 bp):
AACCACTCCAACCACTCCACTAAACCACCCC
Found at i:95766433 original size:53 final size:53
Alignment explanation
Indices: 95766371--95766473 Score: 154
Period size: 53 Copynumber: 1.9 Consensus size: 53
95766361 AAATATCTTT
* * *
95766371 ACTCCACTAAACCACTCCAACCACTCC-ACTAAACTACTCCAACCACTCCAACC
1 ACTCCACTAAACCACCCCAACCAC-CCTACTAAACCACCCCAACCACTCCAACC
*
95766424 ACTCCACTAAACCACCCCAACCACCCTACTAAACCACCCCAATCACTCCA
1 ACTCCACTAAACCACCCCAACCACCCTACTAAACCACCCCAACCACTCCA
95766474 CTTGCCTACA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 2 0.04
53 43 0.96
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (53 bp):
ACTCCACTAAACCACCCCAACCACCCTACTAAACCACCCCAACCACTCCAACC
Found at i:95766436 original size:22 final size:22
Alignment explanation
Indices: 95766411--95766475 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
95766401 AAACTACTCC
*
95766411 AACCACTCCAACCACTCCACTA
1 AACCACCCCAACCACTCCACTA
95766433 AACCACCCCAACCAC-CCTACTA
1 AACCACCCCAACCACTCC-ACTA
*
95766455 AACCACCCCAATCACTCCACT
1 AACCACCCCAACCACTCCACT
95766476 TGCCTACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.05
22 35 0.90
23 2 0.05
ACGTcount: A:0.35, C:0.52, G:0.00, T:0.12
Consensus pattern (22 bp):
AACCACCCCAACCACTCCACTA
Found at i:95766903 original size:3 final size:3
Alignment explanation
Indices: 95766867--95766961 Score: 56
Period size: 3 Copynumber: 31.3 Consensus size: 3
95766857 GAGCTTTGTT
* * * *
95766867 TTA TTT TTA TTT TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
*
95766911 TTA TTA TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA CTA TTA TTA
1 TTA TTA TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA
95766956 -TA TTA T
1 TTA TTA T
95766962 ATATGCCCTC
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
2 7 0.10
3 56 0.79
4 6 0.08
5 2 0.03
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:95766936 original size:21 final size:18
Alignment explanation
Indices: 95766867--95766965 Score: 82
Period size: 18 Copynumber: 5.6 Consensus size: 18
95766857 GAGCTTTGTT
* *
95766867 TTATTTTTATTTTTATT-
1 TTATTTATATTATTATTA
*
95766884 TTA-TTAT-TT-TTACTA
1 TTATTTATATTATTATTA
95766899 TTATTTATATTATTATTA
1 TTATTTATATTATTATTA
*
95766917 TTATTTCTCATGTATATATTA
1 TTATTTAT-AT-TAT-TATTA
*
95766938 TTATTTATACTATTATTA
1 TTATTTATATTATTATTA
95766956 -TATTATATAT
1 TTATT-TATAT
95766966 GCCCTCTCCA
Statistics
Matches: 67, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
14 4 0.06
15 5 0.07
16 7 0.10
17 9 0.13
18 21 0.31
19 5 0.07
20 4 0.06
21 12 0.18
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTTATATTATTATTA
Found at i:95767041 original size:3 final size:3
Alignment explanation
Indices: 95767033--95767083 Score: 50
Period size: 3 Copynumber: 16.0 Consensus size: 3
95767023 TATTTCTGAC
*
95767033 TAT TAT TAT TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT
95767081 TAT
1 TAT
95767084 CACCTCTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 1 0.02
3 31 0.72
4 11 0.26
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:95770527 original size:28 final size:28
Alignment explanation
Indices: 95770459--95770556 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
95770449 CATGAGATTG
* * * *
95770459 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
95770488 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
95770516 GCACTAAGTGTGCAAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
95770543 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
95770557 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:95770570 original size:29 final size:27
Alignment explanation
Indices: 95770487--95770570 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
95770477 TAAATTGTAC
** *
95770487 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTAATTATAT
* *
95770515 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTAATTATAT
* *
95770542 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-AACTTAAT-TATAT
95770571 TTTTGAATCA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 24 0.50
28 19 0.40
29 5 0.10
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTAATTATAT
Found at i:95780047 original size:16 final size:16
Alignment explanation
Indices: 95780018--95780090 Score: 54
Period size: 15 Copynumber: 5.0 Consensus size: 16
95780008 ATTCATCAAT
95780018 TCATA-TTT-CATTTC
1 TCATATTTTCCATTTC
95780032 TCATATTTTCCATTTC
1 TCATATTTTCCATTTC
* *
95780048 -AATATTCTCTCA--TC
1 TCATATTTTC-CATTTC
95780062 TCATA--TT-CATTTC
1 TCATATTTTCCATTTC
*
95780075 TCATCTTTTCCATTTC
1 TCATATTTTCCATTTC
95780091 AATATCAATC
Statistics
Matches: 45, Mismatches: 5, Indels: 16
0.68 0.08 0.24
Matches are distributed among these distances:
11 2 0.04
13 7 0.16
14 7 0.16
15 15 0.33
16 14 0.31
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (16 bp):
TCATATTTTCCATTTC
Found at i:95781248 original size:20 final size:20
Alignment explanation
Indices: 95781215--95781254 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
95781205 TCCTCTTTCA
*
95781215 TTTCTATTTCATTTAATTATT
1 TTTCTATTTAATTT-ATTATT
95781236 TTTC-ATTTAATTTATTATT
1 TTTCTATTTAATTTATTATT
95781255 ATTATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTCTATTTAATTTATTATT
Found at i:95787647 original size:22 final size:22
Alignment explanation
Indices: 95787620--95787672 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
95787610 GTCAGTGTCA
95787620 CACACGGCCTTAGGACACGCCT
1 CACACGGCCTTAGGACACGCCT
95787642 CACACGGCCTTAGGACACGCCT
1 CACACGGCCTTAGGACACGCCT
95787664 CACACGGCC
1 CACACGGCC
95787673 ACATCGCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.23, C:0.43, G:0.23, T:0.11
Consensus pattern (22 bp):
CACACGGCCTTAGGACACGCCT
Found at i:95797634 original size:31 final size:31
Alignment explanation
Indices: 95797596--95797661 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
95797586 AAGCTTCAGG
95797596 TGATAGTGTGATCAATGCCTCTGACGTCCCT
1 TGATAGTGTGATCAATGCCTCTGACGTCCCT
95797627 TGATAGTGTGATCAATGCCTCTGACGTCCCT
1 TGATAGTGTGATCAATGCCTCTGACGTCCCT
95797658 TGAT
1 TGAT
95797662 CCCCAATACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (31 bp):
TGATAGTGTGATCAATGCCTCTGACGTCCCT
Found at i:95798143 original size:48 final size:48
Alignment explanation
Indices: 95798081--95798349 Score: 267
Period size: 48 Copynumber: 5.6 Consensus size: 48
95798071 TGAATTGCTA
* *
95798081 ATGCCATG-CTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCTG
1 ATGCCATGTC-CCAAACATGGTCTTACACTGGCTCTCATGTCGAGGCCG
* ** * * * * *
95798129 ATGCCATGTCCCAAACATGGTCTTATACTAACTCTCGTCTCAATGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTCGAGGCCG
* *
95798177 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGAT-GTGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATG-TCGAGGCCG
** *
95798225 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAC-ATTGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTCGA-GGCCG
* * * * * * *
95798273 ATGTCATGTCCCAAACATGGTCTTACACTGCCTCTTATAAT-GTGACAG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-GTCGAGGCCG
*
95798321 ATGCCATGTTCCAAACATGGTCTTACACT
1 ATGCCATGTCCCAAACATGGTCTTACACT
95798350 AGCGCACAAT
Statistics
Matches: 182, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
48 179 0.98
49 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTCGAGGCCG
Found at i:95798245 original size:96 final size:96
Alignment explanation
Indices: 95798076--95798350 Score: 338
Period size: 96 Copynumber: 2.9 Consensus size: 96
95798066 AAGGGTGAAT
* * * *
95798076 TGCTAATGCCATG-CTCCAAACATGGTCTTACACTGGCTCACATG-TCGAGGCTGATGCCATGTC
1 TGCTGATGCCATGTC-CCAAACATGGTCTTACACTGGCTCTCATGAT-GTGGCAGATGCCATGTC
* * **
95798139 CCAAACATGGTCTTATACTAACTCTCGTCTCAA
64 CCAAACATGGTCTTACACTAACTCTCATAACAA
* *
95798172 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTCCC
1 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCAGATGCCATGTCCC
** *
95798237 AAACATGGTCTTACACTGGCTCTCATAACAT
66 AAACATGGTCTTACACTAACTCTCATAACAA
* * * * * * *
95798268 TGCCGATGTCATGTCCCAAACATGGTCTTACACTGCCTCTTATAATGTGACAGATGCCATGTTCC
1 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCAGATGCCATGTCCC
95798333 AAACATGGTCTTACACTA
66 AAACATGGTCTTACACTA
95798351 GCGCACAATC
Statistics
Matches: 155, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
96 153 0.99
97 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (96 bp):
TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCAGATGCCATGTCCC
AAACATGGTCTTACACTAACTCTCATAACAA
Found at i:95798341 original size:144 final size:144
Alignment explanation
Indices: 95798081--95798349 Score: 341
Period size: 144 Copynumber: 1.9 Consensus size: 144
95798071 TGAATTGCTA
** *
95798081 ATGCCATGCTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCAAACA
1 ATGCCATGCTCCAAACATGGTCTTACACTGGCTCACATAACGAGGCCGATGCCATGTCCCAAACA
* * * *
95798146 TGGTCTTATACTAACTCTCGTCTCAATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
66 TGGTCTTACACTAACTCTCGTATCAATGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
95798211 TCATGATGTGGCCG
131 TCATGATGTGGCCG
* * *
95798225 ATGCCATG-TCCCAAACATGGTCTTACACTGGCTCTCATAAC-ATTGCCGATGTCATGTCCCAAA
1 ATGCCATGCT-CCAAACATGGTCTTACACTGGCTCACATAACGA-GGCCGATGCCATGTCCCAAA
* * *
95798288 CATGGTCTTACACT-GC-CTCTTAT-AATGTGACAGATGCCATGTTCCAAACATGGTCTTACACT
64 CATGGTCTTACACTAACTCTCGTATCAA--TG-CAGATGCCATGTCCCAAACATGGTCTTACACT
95798350 AGCGCACAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
141 2 0.02
142 5 0.05
143 5 0.05
144 95 0.89
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (144 bp):
ATGCCATGCTCCAAACATGGTCTTACACTGGCTCACATAACGAGGCCGATGCCATGTCCCAAACA
TGGTCTTACACTAACTCTCGTATCAATGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
TCATGATGTGGCCG
Found at i:95805070 original size:32 final size:32
Alignment explanation
Indices: 95804991--95805089 Score: 108
Period size: 32 Copynumber: 3.1 Consensus size: 32
95804981 TACTCAATTG
* * * *
95804991 AATTTTCGTACATACATGTACTATATTGTACC
1 AATTTCCGCACATACCTGTACCATATTGTACC
* *
95805023 AATTTCTGTACATACCTGTACCATATTGTACC
1 AATTTCCGCACATACCTGTACCATATTGTACC
* * * *
95805055 AATTTCCGCAGATACCTGTATCATCTCGTACC
1 AATTTCCGCACATACCTGTACCATATTGTACC
95805087 AAT
1 AAT
95805090 CTCATACTCG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.36
Consensus pattern (32 bp):
AATTTCCGCACATACCTGTACCATATTGTACC
Found at i:95805198 original size:28 final size:28
Alignment explanation
Indices: 95805167--95805293 Score: 128
Period size: 28 Copynumber: 4.5 Consensus size: 28
95805157 CCGATACCTT
*
95805167 GCACACTAAGTGCCGTTCTGGATGTTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
* * * **
95805195 GCACACTAAGTGCCATCCTCGTTACTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
* *
95805223 GCACACTAAGTGCCATTCTGAATGTATC
1 GCACACTAAGTGCCATTCTGGATGTTTC
* * **
95805251 GCACACTAAGTGCCATCCTCGATACTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
**
95805279 GCACGTTAAGTGCCA
1 GCACACTAAGTGCCA
95805294 CATATAATTA
Statistics
Matches: 78, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 78 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTGGATGTTTC
Found at i:95805227 original size:56 final size:56
Alignment explanation
Indices: 95805131--95805293 Score: 215
Period size: 56 Copynumber: 2.9 Consensus size: 56
95805121 TTGAATATTC
* *
95805131 AATGTATCGCACACT-AGATGCTATACC-CGATACCTT-GCACACTAAGTGCCGTTCTG
1 AATGTATCGCACACTAAG-TGCCAT-CCTCGATA-CTTCGCACACTAAGTGCCATTCTG
* * *
95805187 GATGTTTCGCACACTAAGTGCCATCCTCGTTACTTCGCACACTAAGTGCCATTCTG
1 AATGTATCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGCCATTCTG
**
95805243 AATGTATCGCACACTAAGTGCCATCCTCGATACTTCGCACGTTAAGTGCCA
1 AATGTATCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGCCA
95805294 CATATAATTA
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
55 5 0.05
56 87 0.93
57 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (56 bp):
AATGTATCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGCCATTCTG
Found at i:95810833 original size:55 final size:55
Alignment explanation
Indices: 95810773--95810881 Score: 139
Period size: 55 Copynumber: 2.0 Consensus size: 55
95810763 AAATAGCGCG
* * **
95810773 GGCGTGCAACACGTCCGTGCCTTG-AACCCGTGGCTGAACCTGTCAAATTAACACA
1 GGCGTGCAACACGACCATGCCAAGCAA-CCGTGGCTGAACCTGTCAAATTAACACA
* * *
95810828 GGCGTGCGACACGACCATGCCAAGCAACCGTGGGTGAACCTGTTAAATTAACAC
1 GGCGTGCAACACGACCATGCCAAGCAACCGTGGCTGAACCTGTCAAATTAACAC
95810882 GGGTGTGGGC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
55 44 0.96
56 2 0.04
ACGTcount: A:0.28, C:0.29, G:0.25, T:0.18
Consensus pattern (55 bp):
GGCGTGCAACACGACCATGCCAAGCAACCGTGGCTGAACCTGTCAAATTAACACA
Found at i:95811425 original size:23 final size:23
Alignment explanation
Indices: 95811399--95811444 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
95811389 CATTCTTTTG
*
95811399 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
95811422 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
95811445 CAATGTCACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.35
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:95825963 original size:14 final size:14
Alignment explanation
Indices: 95825931--95825957 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95825921 TGAATTTAAA
95825931 GAATTAGGAGTATT
1 GAATTAGGAGTATT
95825945 GAATTAGGAGTAT
1 GAATTAGGAGTAT
95825958 CTAATTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (14 bp):
GAATTAGGAGTATT
Found at i:95836190 original size:49 final size:49
Alignment explanation
Indices: 95836119--95836392 Score: 309
Period size: 49 Copynumber: 5.5 Consensus size: 49
95836109 TGAGGTCACG
* *
95836119 TGTGTAGTAC-AAGTGCAGGCTACTACGTGTATCAGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * *
95836167 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCA
* * *
95836218 TGTGTAGTACTAAGTACAGGCTACTACATGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* ** * * *
95836267 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGAC-CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTGGTCGCA
* *
95836316 TGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
*
95836367 TGTGTAGTACTAAGTGCAGACTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
95836393 TGCGTACTAG
Statistics
Matches: 186, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
48 10 0.05
49 89 0.48
50 12 0.06
51 75 0.40
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:95836286 original size:100 final size:100
Alignment explanation
Indices: 95836114--95836399 Score: 466
Period size: 100 Copynumber: 2.9 Consensus size: 100
95836104 TATTGTGAGG
* *
95836114 TCACGTGTGTAGTAC-AAGTGCAGGCTACTACGTGTATCAGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
95836178 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
* * *
95836213 TCACGTGTGTAGTACTAAGTACAGGCTACTACATGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
95836278 AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
* * * *
95836313 CCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
95836378 AAGTGCAGACTACTATGCGTAC
66 AAGTGCAGGCTACTATGCGTAC
95836400 TAGATAGCCT
Statistics
Matches: 171, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 15 0.09
100 156 0.91
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
Found at i:95838220 original size:48 final size:48
Alignment explanation
Indices: 95838151--95838434 Score: 229
Period size: 48 Copynumber: 5.9 Consensus size: 48
95838141 GGGTGAATTA
* * *
95838151 CCGATGCCAT-ACTCCAAACATGGTCTTACACTGGCTCACATGTCAAGG
1 CCGATGCCATGTC-CCAAACATGGTCTTACACTGGCTCACATATCAACG
* * * * * * * *
95838199 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTTAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCAACG
* * **
95838247 CCGATTCCATGTCCCAAACATGGTCTTACACTAGCGGACATATCAACG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCAACG
* * * *
95838295 CCGATGCCATGTCCCAGACATGGTCTTACACTAGG-TCTCATAACATCG
1 CCGATGCCATGTCCCAAACATGGTCTTACACT-GGCTCACATATCAACG
* * * * *
95838343 CCAATGCCATGTTCCAAACATGGTCTTATACTGGCT--CTTAT-AATGTG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCAA--CG
* * * *
95838390 ACCGATGTCATGTTCCAAACATGGTCTTACATTAGCTCACA-ATCA
1 -CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCA
95838435 CCCAAATTTC
Statistics
Matches: 186, Mismatches: 41, Indels: 16
0.77 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 3 0.02
47 3 0.02
48 173 0.93
49 4 0.02
50 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCAACG
Found at i:95838402 original size:96 final size:95
Alignment explanation
Indices: 95838164--95838370 Score: 272
Period size: 96 Copynumber: 2.2 Consensus size: 95
95838154 ATGCCATACT
* * * * *
95838164 CCAAACATGGTCTTACACTGGCTCACATGTCAAGGCTGATGCCATGTCCCAGACATGGTCTTACA
1 CCAAACATGGTCTTACACTAGCGCACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACA
* * * *
95838229 CTAGCTCTCGTCTTAATGCCGATTCCATGTC
66 CTAGCTCTCG-ATAAATGCCAATGCCATGTC
*
95838260 CCAAACATGGTCTTACACTAGCGGACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACA
1 CCAAACATGGTCTTACACTAGCGCACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACA
* *
95838325 CTAGGTCTC-ATAACATCGCCAATGCCATGTT
66 CTAGCTCTCGATAA-AT-GCCAATGCCATGTC
95838356 CCAAACATGGTCTTA
1 CCAAACATGGTCTTA
95838371 TACTGGCTCT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
94 2 0.02
95 2 0.02
96 93 0.96
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (95 bp):
CCAAACATGGTCTTACACTAGCGCACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACA
CTAGCTCTCGATAAATGCCAATGCCATGTC
Found at i:95852019 original size:107 final size:107
Alignment explanation
Indices: 95851833--95852046 Score: 367
Period size: 107 Copynumber: 2.0 Consensus size: 107
95851823 ATAGATTGGC
* * *
95851833 AAGTAAAGAATGTTATTGTTTTTTTGATGGATACTTGAGATATCATTAGATTCCGAAACATACAA
1 AAGTAAAGAATGTTATTGTTTTCTGGATGGATACTTGAGATATCATTAGATTCCCAAACATACAA
95851898 ATGATCAAGAAAAACTACATTCACATGCCCTTTCAGCACATA
66 ATGATCAAGAAAAACTACATTCACATGCCCTTTCAGCACATA
95851940 AAGTAAAGAATGTTATTGTTTTCTGGATGGATACTTGAGATATCATTAGATTCCCAAACAT-CAA
1 AAGTAAAGAATGTTATTGTTTTCTGGATGGATACTTGAGATATCATTAGATTCCCAAACATAC-A
* *
95852004 AATGATCAAGAAAAACTACATTCACATGCCCTTTTAGTACATA
65 AATGATCAAGAAAAACTACATTCACATGCCCTTTCAGCACATA
95852047 CGATTTTAAA
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
106 1 0.01
107 100 0.99
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (107 bp):
AAGTAAAGAATGTTATTGTTTTCTGGATGGATACTTGAGATATCATTAGATTCCCAAACATACAA
ATGATCAAGAAAAACTACATTCACATGCCCTTTCAGCACATA
Found at i:95855328 original size:26 final size:26
Alignment explanation
Indices: 95855292--95855348 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
95855282 GCAAAATGGT
*
95855292 AGGAGTACCAATGGATTGACTGGATA
1 AGGAGTACCAAAGGATTGACTGGATA
95855318 AGGAGTACCAAAGGATTGACTGGATA
1 AGGAGTACCAAAGGATTGACTGGATA
95855344 AGGAG
1 AGGAG
95855349 ATGAAACCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.11, G:0.33, T:0.19
Consensus pattern (26 bp):
AGGAGTACCAAAGGATTGACTGGATA
Found at i:95857471 original size:24 final size:24
Alignment explanation
Indices: 95857444--95857505 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 24
95857434 CATAACCAGA
*
95857444 AAGTTCACAAAGAACCTTATCAGG
1 AAGTTCACAAAGAACCATATCAGG
* *
95857468 AAGTTGACAAAAAAACCATATCAGG
1 AAGTTCAC-AAAGAACCATATCAGG
95857493 AAGTTCACAAAGA
1 AAGTTCACAAAGA
95857506 TCCGGATAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 11 0.34
25 21 0.66
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.18
Consensus pattern (24 bp):
AAGTTCACAAAGAACCATATCAGG
Found at i:95873166 original size:18 final size:20
Alignment explanation
Indices: 95873136--95873172 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
95873126 TGAGGGTTTT
95873136 ATTCTTAAGTTTTT-CTTTC
1 ATTCTTAAGTTTTTACTTTC
95873155 ATTCTT-AGTTTTTACTTT
1 ATTCTTAAGTTTTTACTTT
95873173 GGTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.16, C:0.14, G:0.05, T:0.65
Consensus pattern (20 bp):
ATTCTTAAGTTTTTACTTTC
Found at i:95888695 original size:40 final size:40
Alignment explanation
Indices: 95888619--95888837 Score: 318
Period size: 40 Copynumber: 5.5 Consensus size: 40
95888609 AACCCAAGTA
* * *
95888619 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
95888658 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
95888698 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
95888738 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
95888778 CCTTCGGGACTTAGCCCGGATATAGTCACTAACAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
95888817 CCTTCGAGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
95888838 GTCATCCGAA
Statistics
Matches: 164, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 35 0.21
40 128 0.78
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:95892617 original size:3 final size:3
Alignment explanation
Indices: 95892609--95892653 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
95892599 GCATGAAAGT
* * *
95892609 GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA AAA GAA GAA AAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
95892654 ACTGAAGAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:95892623 original size:9 final size:9
Alignment explanation
Indices: 95892613--95892653 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
95892603 GAAAGTGAAG
*
95892613 AAGAAGAAG
1 AAGAAGAAA
95892622 AAGAAGAAA
1 AAGAAGAAA
95892631 AAGAAGAAA
1 AAGAAGAAA
95892640 AAGAAGAAA
1 AAGAAGAAA
95892649 AAGAA
1 AAGAA
95892654 ACTGAAGAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
AAGAAGAAA
Found at i:95899487 original size:46 final size:46
Alignment explanation
Indices: 95899425--95899790 Score: 536
Period size: 46 Copynumber: 8.0 Consensus size: 46
95899415 GCTCTCTAAT
** * * *
95899425 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
95899471 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
95899517 ATGAAATGAATAAGACCGTGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
95899563 AGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
95899609 AGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
95899655 AGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
95899701 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
95899747 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
95899791 TCAAAGATAA
Statistics
Matches: 300, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 299 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:95900092 original size:16 final size:17
Alignment explanation
Indices: 95900071--95900103 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
95900061 ATGATGGTGC
95900071 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
95900087 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
95900104 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:95903600 original size:19 final size:22
Alignment explanation
Indices: 95903554--95903600 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
95903544 ATTGAGTGGT
95903554 TAATTAGACTTTAATTAAGTAA
1 TAATTAGACTTTAATTAAGTAA
*
95903576 -ATTTAG-C-TTAATTAAG-AA
1 TAATTAGACTTTAATTAAGTAA
95903594 TAATTAG
1 TAATTAG
95903601 TGGAAAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.09
19 14 0.64
20 1 0.05
21 5 0.23
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (22 bp):
TAATTAGACTTTAATTAAGTAA
Found at i:95903955 original size:13 final size:14
Alignment explanation
Indices: 95903937--95903985 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 14
95903927 TTTAATAATA
95903937 AAAT-AAAGAAATG
1 AAATGAAAGAAATG
95903950 AAAT-AAAGAAAT-
1 AAATGAAAGAAATG
* *
95903962 AAATGAAATAAAAG
1 AAATGAAAGAAATG
95903976 AAATGAAAGA
1 AAATGAAAGA
95903986 GAAAAACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 4 0.13
13 18 0.58
14 9 0.29
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAATGAAAGAAATG
Found at i:95903962 original size:26 final size:26
Alignment explanation
Indices: 95903933--95904012 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
95903923 ATAGTTTAAT
*
95903933 AATAAAATAAAGAAATGAAATAAAGA
1 AATAAAATAAAGAAAAGAAATAAAGA
*
95903959 AAT-AAATGAAATAAAAGAAATGAAAGA
1 AATAAAAT-AAAGAAAAGAAAT-AAAGA
* * * *
95903986 GA-AAAACAAAGCAAACGAAACAAAGA
1 AATAAAATAAAG-AAAAGAAATAAAGA
95904012 A
1 A
95904013 GAACAGGGCA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
25 4 0.10
26 22 0.52
27 16 0.38
ACGTcount: A:0.71, C:0.05, G:0.14, T:0.10
Consensus pattern (26 bp):
AATAAAATAAAGAAAAGAAATAAAGA
Found at i:95903967 original size:17 final size:18
Alignment explanation
Indices: 95903933--95903979 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
95903923 ATAGTTTAAT
* *
95903933 AATAAAATAAAGAAATGA
1 AATAAAAGAAATAAATGA
95903951 AAT-AAAGAAATAAATGA
1 AATAAAAGAAATAAATGA
95903968 AATAAAAGAAAT
1 AATAAAAGAAAT
95903980 GAAAGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (18 bp):
AATAAAAGAAATAAATGA
Found at i:95903971 original size:9 final size:9
Alignment explanation
Indices: 95903945--95903979 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
95903935 TAAAATAAAG
95903945 AAATGAAAT
1 AAATGAAAT
95903954 AAA-GAAAT
1 AAATGAAAT
95903962 AAATGAAAT
1 AAATGAAAT
*
95903971 AAAAGAAAT
1 AAATGAAAT
95903980 GAAAGAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (9 bp):
AAATGAAAT
Found at i:95903984 original size:9 final size:8
Alignment explanation
Indices: 95903937--95903985 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 8
95903927 TTTAATAATA
95903937 AAATAAAG
1 AAATAAAG
95903945 AAAT---G
1 AAATAAAG
95903950 AAATAAAG
1 AAATAAAG
95903958 AAATAAATG
1 AAATAAA-G
95903967 AAATAAAAG
1 AAAT-AAAG
95903976 AAATGAAAG
1 AAAT-AAAG
95903985 A
1 A
95903986 GAAAAACAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
5 5 0.14
8 12 0.34
9 15 0.43
10 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (8 bp):
AAATAAAG
Found at i:95904042 original size:30 final size:30
Alignment explanation
Indices: 95903993--95904055 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
95903983 AGAGAAAAAC
95903993 AAAGCAAACGAAACAAAG-AAGAACAGGGCAG
1 AAAGCAAACGAAACAAAGAAAGAA-AGGG-AG
* *
95904024 AAAG-AAAGGAAAGAAAGAAAGAAAGGGAG
1 AAAGCAAACGAAACAAAGAAAGAAAGGGAG
95904053 AAA
1 AAA
95904056 AGGGAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.17
30 15 0.52
31 9 0.31
ACGTcount: A:0.63, C:0.08, G:0.29, T:0.00
Consensus pattern (30 bp):
AAAGCAAACGAAACAAAGAAAGAAAGGGAG
Found at i:95905365 original size:5 final size:5
Alignment explanation
Indices: 95905350--95905401 Score: 59
Period size: 5 Copynumber: 10.2 Consensus size: 5
95905340 AGTGGAAAAG
* * * *
95905350 TGAATT TGAAT TGAAT TGAAT TGAAT TGAAT GGAAT GGAAT GGAAT GGAAT
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT
95905401 T
1 T
95905402 ATGATTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 40 0.91
6 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.27, T:0.35
Consensus pattern (5 bp):
TGAAT
Found at i:95905375 original size:15 final size:15
Alignment explanation
Indices: 95905355--95905401 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
95905345 AAAAGTGAAT
*
95905355 TTGAATTGAATTGAA
1 TTGAATTGAATGGAA
95905370 TTGAATTGAATGGAA
1 TTGAATTGAATGGAA
* *
95905385 TGGAATGGAATGGAA
1 TTGAATTGAATGGAA
95905400 TT
1 TT
95905402 ATGATTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (15 bp):
TTGAATTGAATGGAA
Found at i:95905874 original size:45 final size:45
Alignment explanation
Indices: 95905810--95906004 Score: 282
Period size: 45 Copynumber: 4.3 Consensus size: 45
95905800 CTGTTAACGC
*
95905810 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
95905855 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * * *
95905900 TGCTATTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGC
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * *
95905945 TACTGTTACCGTTACCGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
95905990 TATTGTTACTGTTAC
1 TACTGTTACTGTTAC
95906005 TGTTACTATT
Statistics
Matches: 135, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 135 1.00
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:95906255 original size:36 final size:34
Alignment explanation
Indices: 95906178--95906375 Score: 128
Period size: 36 Copynumber: 5.5 Consensus size: 34
95906168 AAAGGTATAA
* * * * *
95906178 AATAACTGAATATTACTGATTAATTGACTATTACCG
1 AATAATTGAATGTTACTGAAT-ATTGA-TGTTACTG
* * *
95906214 GATAATTGACTGTTACTGGATATTAGACTGTTACTG
1 AATAATTGAATGTTACTGAATATT-GA-TGTTACTG
* *
95906250 AATAATTGAATATTACTGAATAATTGATCATTACTG
1 AATAATTGAATGTTACTGAAT-ATTGAT-GTTACTG
* * * * * *
95906286 AATAACTGATTGTCATTGAATGAATGACTGCTACTG
1 AATAATTGAATGTTACTGAAT-ATTGA-TGTTACTG
*
95906322 AATAACTT-AATAGTTACTGAATATCTGATTTTACTG
1 AATAA-TTGAAT-GTTACTGAATAT-TGATGTTACTG
*
95906358 AATAATTGACTGTTACTG
1 AATAATTGAATGTTACTG
95906376 GATAACCGAT
Statistics
Matches: 124, Mismatches: 30, Indels: 17
0.73 0.18 0.10
Matches are distributed among these distances:
35 13 0.10
36 95 0.77
37 16 0.13
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (34 bp):
AATAATTGAATGTTACTGAATATTGATGTTACTG
Found at i:95906287 original size:18 final size:17
Alignment explanation
Indices: 95906187--95906380 Score: 108
Period size: 18 Copynumber: 10.8 Consensus size: 17
95906177 AAATAACTGA
*
95906187 ATATTACTGATTAATTG
1 ATATTACTGAATAATTG
* *
95906204 ACTATTACCGGATAATTG
1 A-TATTACTGAATAATTG
* *
95906222 ACTGTTACTGGAT-ATTAG
1 A-TATTACTGAATAATT-G
*
95906240 ACTGTTACTGAATAATTG
1 A-TATTACTGAATAATTG
95906258 AATATTACTGAATAATTG
1 -ATATTACTGAATAATTG
*
95906276 ATCATTACTGAATAACTG
1 AT-ATTACTGAATAATTG
*
95906294 AT-TGTCATTGAATGAA-TG
1 ATAT-T-ACTGAAT-AATTG
** *
95906312 ACTGCTACTGAATAACTTA
1 A-TATTACTGAATAA-TTG
95906331 ATAGTTACTGAAT-ATCTG
1 ATA-TTACTGAATAAT-TG
*
95906349 ATTTTACTGAATAATTG
1 ATATTACTGAATAATTG
* *
95906366 ACTGTTACTGGATAA
1 A-TATTACTGAATAA
95906381 CCGATCAATT
Statistics
Matches: 143, Mismatches: 18, Indels: 31
0.74 0.09 0.16
Matches are distributed among these distances:
16 1 0.01
17 22 0.15
18 102 0.71
19 18 0.13
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (17 bp):
ATATTACTGAATAATTG
Found at i:95906315 original size:72 final size:72
Alignment explanation
Indices: 95906178--95906380 Score: 191
Period size: 72 Copynumber: 2.8 Consensus size: 72
95906168 AAAGGTATAA
* * * * * * * *
95906178 AATAACTGAATATTACTGATTAATTGA-CTATTACCGGATAATTGACTGTTACTGGATATTAGAC
1 AATAATTGAATATTACTGAATAATTGATC-ATTACTGAATAACTGACTGTCACTGAATAATAGAC
*
95906242 TGTTACTG
65 TGCTACTG
* *
95906250 AATAATTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCATTGAATGAAT-GAC
1 AATAATTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAAT-AATAGAC
95906314 TGCTACTG
65 TGCTACTG
* * * *
95906322 AATAACTT-AATAGTTACTGAAT-ATCTGAT-TTTACTGAATAATTGACTGTTACTGGATAA
1 AATAA-TTGAATA-TTACTGAATAAT-TGATCATTACTGAATAACTGACTGTCACTGAATAA
95906381 CCGATCAATT
Statistics
Matches: 109, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
71 2 0.02
72 89 0.82
73 18 0.17
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (72 bp):
AATAATTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAATAGACT
GCTACTG
Found at i:95906423 original size:18 final size:18
Alignment explanation
Indices: 95906397--95906456 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
95906387 AATTGATCGA
*
95906397 TACTGAATAACTGGTTGT
1 TACTGAATAACTGATTGT
* *
95906415 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTGT
* *
95906433 TACCGAATAACTGACTGT
1 TACTGAATAACTGATTGT
95906451 TACTGA
1 TACTGA
95906457 GTAAATAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:95907382 original size:28 final size:27
Alignment explanation
Indices: 95907347--95907400 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
95907337 AAACTTGGGG
95907347 AAAACAACCTAGAATATTTAATTCTCA
1 AAAACAACCTAGAATATTTAATTCTCA
* ** *
95907374 AAAATCAACTTATCATATTTGATTCTC
1 AAAA-CAACCTAGAATATTTAATTCTC
95907401 TGATGTCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.35
Consensus pattern (27 bp):
AAAACAACCTAGAATATTTAATTCTCA
Found at i:95914352 original size:24 final size:24
Alignment explanation
Indices: 95914322--95914388 Score: 134
Period size: 24 Copynumber: 2.8 Consensus size: 24
95914312 GTTCATTTGA
95914322 TTCAACATGCAATTCATTTCTGGT
1 TTCAACATGCAATTCATTTCTGGT
95914346 TTCAACATGCAATTCATTTCTGGT
1 TTCAACATGCAATTCATTTCTGGT
95914370 TTCAACATGCAATTCATTT
1 TTCAACATGCAATTCATTT
95914389 ATTCACGAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (24 bp):
TTCAACATGCAATTCATTTCTGGT
Found at i:95918586 original size:40 final size:40
Alignment explanation
Indices: 95918517--95918642 Score: 193
Period size: 40 Copynumber: 3.2 Consensus size: 40
95918507 AACCCAAGTA
* *
95918517 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
95918556 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
95918596 CCTTCGGGACTTAGCCCGGATATAGTCAC-CAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTC-GCACAAATG
95918636 CCTTCGG
1 CCTTCGG
95918643 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.17
40 67 0.83
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:95920994 original size:5 final size:5
Alignment explanation
Indices: 95920984--95921021 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
95920974 AATTTGTGTG
*
95920984 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
95921022 TTTCACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:95922969 original size:93 final size:93
Alignment explanation
Indices: 95922810--95922995 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
95922800 AAGTCAGAAG
*
95922810 GGATCATGAGACACTTGACAGTTCGTCATACTCCACAGCAAAACGGCGTTGCAGAACGAATGAAT
1 GGATCATGAGACACTTGACAGTTCGTCATACTCCACAGCAAAACGGCGTTGCAGAACAAATGAAT
*
95922875 AGAACGATCATGAAGAAGGTTCGATGTA
66 AGAACGATCATGAAGAAGCTTCGATGTA
95922903 GGATCATGAGACACTTGACAGTTCGTCATACTCCACAGCAAAACGGCGTTGCAGAACAAATGAAT
1 GGATCATGAGACACTTGACAGTTCGTCATACTCCACAGCAAAACGGCGTTGCAGAACAAATGAAT
95922968 AGAACGATCATGAAGAAGCTTCGATGTA
66 AGAACGATCATGAAGAAGCTTCGATGTA
95922996 TGTTGTCAAA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (93 bp):
GGATCATGAGACACTTGACAGTTCGTCATACTCCACAGCAAAACGGCGTTGCAGAACAAATGAAT
AGAACGATCATGAAGAAGCTTCGATGTA
Done.