Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 78 of 150
Found at i:23660587 original size:14 final size:15
Alignment explanation
Indices: 23660559--23660591 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
23660549 AAGATTTATA
23660559 GATTATGGAATTAGG
1 GATTATGGAATTAGG
23660574 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
23660588 GATT
1 GATT
23660592 TTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:23660840 original size:7 final size:7
Alignment explanation
Indices: 23660825--23660917 Score: 53
Period size: 7 Copynumber: 12.9 Consensus size: 7
23660815 TAGGGATTTA
23660825 GGTTAGG
1 GGTTAGG
*
23660832 GGTTGGG
1 GGTTAGG
23660839 GGTTAGG
1 GGTTAGG
* *
23660846 GATT-CG
1 GGTTAGG
*
23660852 GGTTACG
1 GGTTAGG
*
23660859 GTTTAGG
1 GGTTAGG
23660866 GGTTTAGAG
1 GG-TTAG-G
*
23660875 GTTTAAGG
1 GGTT-AGG
* *
23660883 GTTTAAG
1 GGTTAGG
*
23660890 GTTTAGG
1 GGTTAGG
23660897 GGTTAGG
1 GGTTAGG
*
23660904 GATTTAGG
1 G-GTTAGG
23660912 GGTTAG
1 GGTTAG
23660918 ACGTTATGGG
Statistics
Matches: 67, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
6 4 0.06
7 42 0.63
8 17 0.25
9 4 0.06
ACGTcount: A:0.17, C:0.02, G:0.46, T:0.34
Consensus pattern (7 bp):
GGTTAGG
Found at i:23660871 original size:8 final size:8
Alignment explanation
Indices: 23660858--23660915 Score: 66
Period size: 8 Copynumber: 7.5 Consensus size: 8
23660848 TTCGGGTTAC
23660858 GGTTTAGG
1 GGTTTAGG
*
23660866 GGTTTAGA
1 GGTTTAGG
*
23660874 GGTTTAAG
1 GGTTTAGG
*
23660882 GGTTTA-A
1 GGTTTAGG
23660889 GGTTTAGG
1 GGTTTAGG
23660897 GG-TTAGG
1 GGTTTAGG
*
23660904 GATTTAGG
1 GGTTTAGG
23660912 GGTT
1 GGTT
23660916 AGACGTTATG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
7 12 0.29
8 29 0.71
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (8 bp):
GGTTTAGG
Found at i:23660909 original size:15 final size:14
Alignment explanation
Indices: 23660825--23660917 Score: 80
Period size: 14 Copynumber: 6.4 Consensus size: 14
23660815 TAGGGATTTA
* *
23660825 GGTTAGGGGTTGGG
1 GGTTAGGGTTTAGG
* *
23660839 GGTTAGGGATT-CG
1 GGTTAGGGTTTAGG
*
23660852 GGTTACGGTTTAGG
1 GGTTAGGGTTTAGG
23660866 GGTTTAGAGGTTTAAGG
1 GG-TTAG-GGTTT-AGG
* *
23660883 GTTTAAGGTTTAGG
1 GGTTAGGGTTTAGG
23660897 GGTTAGGGATTTAGG
1 GGTTAGGG-TTTAGG
23660912 GGTTAG
1 GGTTAG
23660918 ACGTTATGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
13 10 0.16
14 22 0.34
15 20 0.31
16 8 0.12
17 4 0.06
ACGTcount: A:0.17, C:0.02, G:0.46, T:0.34
Consensus pattern (14 bp):
GGTTAGGGTTTAGG
Found at i:23661311 original size:58 final size:58
Alignment explanation
Indices: 23661236--23661348 Score: 201
Period size: 58 Copynumber: 1.9 Consensus size: 58
23661226 TCTAAACCAT
*
23661236 TTTATATATTTAAATATTAGTTTAAATAGAATTAATAAATA-AGTTTAAATAAAATATA
1 TTTAAATATTTAAATATTAGTTTAAATAGAATTAATAAATATA-TTTAAATAAAATATA
23661294 TTTAAATATTTAAATATTAGTTTAAATAGAATTAATAAATATATTTAAATAAAAT
1 TTTAAATATTTAAATATTAGTTTAAATAGAATTAATAAATATATTTAAATAAAAT
23661349 GATTTTTGTT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
58 52 0.98
59 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (58 bp):
TTTAAATATTTAAATATTAGTTTAAATAGAATTAATAAATATATTTAAATAAAATATA
Found at i:23661316 original size:35 final size:35
Alignment explanation
Indices: 23661277--23661344 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
23661267 TTAATAAATA
* *
23661277 AGTTTAAATAAAATATATTTAA-ATATTTAAATATT
1 AGTTTAAATAAAAT-TAATAAATATATTTAAATATT
*
23661312 AGTTTAAATAGAATTAATAAATATATTTAAATA
1 AGTTTAAATAAAATTAATAAATATATTTAAATA
23661345 AAATGATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 5 0.17
35 24 0.83
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (35 bp):
AGTTTAAATAAAATTAATAAATATATTTAAATATT
Found at i:23663359 original size:9 final size:9
Alignment explanation
Indices: 23663335--23663573 Score: 99
Period size: 9 Copynumber: 27.8 Consensus size: 9
23663325 ATACATACCC
23663335 TACATAAAT
1 TACATAAAT
* *
23663344 TAAATAAGT
1 TACATAAAT
*
23663353 TACATAATAA
1 TACATAA-AT
***
23663363 TACATACCC
1 TACATAAAT
23663372 TACATAAAT
1 TACATAAAT
* *
23663381 TAAATAAGT
1 TACATAAAT
23663390 TACAT-AA-
1 TACATAAAT
*
23663397 TACACAAA-
1 TACATAAAT
* *
23663405 AACAAAAACT
1 TACATAAA-T
*
23663415 TACATAACT
1 TACATAAAT
*
23663424 TATAT-AA-
1 TACATAAAT
* *
23663431 TACACAACT
1 TACATAAAT
*
23663440 TACATAACT
1 TACATAAAT
23663449 TACAT-AA-
1 TACATAAAT
*
23663456 TACATAATT
1 TACATAAAT
*
23663465 TACATAACT
1 TACATAAAT
23663474 TACAT-AA-
1 TACATAAAT
*
23663481 TACATAATT
1 TACATAAAT
*
23663490 TACATAACT
1 TACATAAAT
23663499 TACAT-AA-
1 TACATAAAT
* *
23663506 GACATAACT
1 TACATAAAT
*
23663515 TACATAAGT
1 TACATAAAT
*
23663524 TTCAT-AA-
1 TACATAAAT
* *
23663531 TACACAACT
1 TACATAAAT
*
23663540 TACATAACT
1 TACATAAAT
* *
23663549 TACACAACT
1 TACATAAAT
*
23663558 TACATAACT
1 TACATAAAT
23663567 TACATAA
1 TACATAA
23663574 TGTATAACTT
Statistics
Matches: 170, Mismatches: 46, Indels: 28
0.70 0.19 0.11
Matches are distributed among these distances:
7 24 0.14
8 19 0.11
9 116 0.68
10 11 0.06
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.30
Consensus pattern (9 bp):
TACATAAAT
Found at i:23663369 original size:37 final size:37
Alignment explanation
Indices: 23663320--23663398 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
23663310 CATTTACTTG
23663320 TAATAATACATACCCTACATAAATTAAATAAGTTACA
1 TAATAATACATACCCTACATAAATTAAATAAGTTACA
23663357 TAATAATACATACCCTACATAAATTAAATAAGTTACA
1 TAATAATACATACCCTACATAAATTAAATAAGTTACA
23663394 TAATA
1 TAATA
23663399 CACAAAAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (37 bp):
TAATAATACATACCCTACATAAATTAAATAAGTTACA
Found at i:23663439 original size:16 final size:16
Alignment explanation
Indices: 23663415--23663564 Score: 83
Period size: 16 Copynumber: 9.0 Consensus size: 16
23663405 AACAAAAACT
* *
23663415 TACATAACTTATATAA
1 TACACAACTTACATAA
23663431 TACACAACTTACATAA
1 TACACAACTTACATAA
*
23663447 CTTACATAA--TACATAA
1 --TACACAACTTACATAA
*
23663463 TTTACATAACTTACATAA
1 --TACACAACTTACATAA
* *
23663481 TACATAATTTACATAA
1 TACACAACTTACATAA
* *
23663497 CTTACATAA--GACATAA
1 --TACACAACTTACATAA
* * *
23663513 CTTACATAAGTTTCATAA
1 --TACACAACTTACATAA
23663531 TACACAACTTACATAA
1 TACACAACTTACATAA
23663547 CTTACACAACTTACATAA
1 --TACACAACTTACATAA
23663565 CTTACATAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 18
0.80 0.08 0.13
Matches are distributed among these distances:
16 72 0.64
18 41 0.36
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.32
Consensus pattern (16 bp):
TACACAACTTACATAA
Found at i:23663439 original size:25 final size:25
Alignment explanation
Indices: 23663411--23663573 Score: 227
Period size: 25 Copynumber: 6.4 Consensus size: 25
23663401 CAAAAACAAA
* *
23663411 AACTTACATAACTTATATAATACAC
1 AACTTACATAACTTACATAATACAT
23663436 AACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
*
23663461 AATTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* *
23663486 AATTTACATAACTTACATAAGACAT
1 AACTTACATAACTTACATAATACAT
* * *
23663511 AACTTACATAAGTTTCATAATACAC
1 AACTTACATAACTTACATAATACAT
*
23663536 AACTTACATAACTTACACAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
23663563 AACTTACATAA
1 AACTTACATAA
23663574 TGTATAACTT
Statistics
Matches: 123, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
25 108 0.88
27 15 0.12
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:23663445 original size:50 final size:49
Alignment explanation
Indices: 23663389--23663573 Score: 176
Period size: 50 Copynumber: 3.7 Consensus size: 49
23663379 ATTAAATAAG
*
23663389 TTACATAA-TACACAAAAACAAAAACTTACATAACTTATATAATACACAAC
1 TTACATAACTACA-AAAAAC-ATAACTTACATAACTTATATAATACACAAC
* * * * * *
23663439 TTACATAACTTACATAATACATAATTTACATAACTTACATAATACATAAT
1 TTACATAAC-TACAAAAAACATAACTTACATAACTTATATAATACACAAC
* * *
23663489 TTACATAACTTACATAAGACATAACTTACATAAGTT-TCATAATACACAAC
1 TTACATAAC-TACAAAAAACATAACTTACATAACTTAT-ATAATACACAAC
**
23663539 TTACATAACTTACACAACTTACATAACTTACATAA
1 TTACATAAC-TACA-AA-AAACATAACTTACATAA
23663574 TGTATAACTT
Statistics
Matches: 114, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
50 90 0.79
51 5 0.04
52 19 0.17
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.30
Consensus pattern (49 bp):
TTACATAACTACAAAAAACATAACTTACATAACTTATATAATACACAAC
Found at i:23669205 original size:21 final size:21
Alignment explanation
Indices: 23669181--23669220 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23669171 GCAGAGGTGG
* *
23669181 CAGCAAGGGAAGCAGAGGCTA
1 CAGCAAGAGAAGCAAAGGCTA
*
23669202 CAGCGAGAGAAGCAAAGGC
1 CAGCAAGAGAAGCAAAGGC
23669221 CGTAGCGAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.38, T:0.03
Consensus pattern (21 bp):
CAGCAAGAGAAGCAAAGGCTA
Found at i:23669744 original size:42 final size:41
Alignment explanation
Indices: 23669685--23669808 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 41
23669675 GTTTGTGAAA
23669685 TAAGCGCCGCTAAAGAACACTACTGTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACACTACT-TTAGCGGCGTTTTT-ACC
* * * *
23669728 -AAGCGCCGTTATAGAACATTACTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACACTAC-TTTAGCGGCGTTTT-TACC
**
23669770 TAAGCGCCGCTAAAGAACAGGATCTTTAGCGGCGTTTTT
1 TAAGCGCCGCTAAAGAACACTA-CTTTAGCGGCGTTTTT
23669809 TCCCATGTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
42 35 0.51
43 33 0.48
44 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (41 bp):
TAAGCGCCGCTAAAGAACACTACTTTAGCGGCGTTTTTACC
Found at i:23669867 original size:67 final size:68
Alignment explanation
Indices: 23669751--23669877 Score: 204
Period size: 67 Copynumber: 1.9 Consensus size: 68
23669741 GAACATTACT
*
23669751 TTTAGCGGCGTTTTCTTCCTAAGCGCCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCCCATG
1 TTTAGCGGCGTTTTCTTCCTAAGCACCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCCCATG
23669816 TTC
66 TTC
* *
23669819 TTTAGCGGCGTTTT-TTCCTAAGCACCGCTAAAGAACATGAT-TTGTAGCGGTGTTTTTTC
1 TTTAGCGGCGTTTTCTTCCTAAGCACCGCTAAAGAACAGGATCTT-TAGCGGCGTTTTTTC
23669878 ATAAGCACTG
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
66 2 0.04
67 39 0.71
68 14 0.25
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (68 bp):
TTTAGCGGCGTTTTCTTCCTAAGCACCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCCCATG
TTC
Found at i:23669883 original size:42 final size:42
Alignment explanation
Indices: 23669812--23669927 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 42
23669802 CGTTTTTTCC
* *
23669812 CATGTTCTTTAGCGGCGTTTTTTCCTAAGCACCGCTAAAGAA
1 CATGATCTTTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAA
* *
23669854 CATGAT-TTGTAGCGGTGTTTTTTCATAAGCACTGCTAAAGAA
1 CATGATCTT-TAGCGGCGTTTTTTCATAAGCACCGCTAAAGAA
23669896 CATGATCTTTAGCGGCGTTTTTTTCTATAAGC
1 CATGATCTTTAGCGGCG-TTTTTTC-ATAAGC
23669928 GTCGCAAAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
41 2 0.03
42 48 0.74
43 9 0.14
44 6 0.09
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (42 bp):
CATGATCTTTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAA
Found at i:23669920 original size:110 final size:110
Alignment explanation
Indices: 23669710--23669918 Score: 289
Period size: 109 Copynumber: 1.9 Consensus size: 110
23669700 AACACTACTG
* * * * *
23669710 TTAGCGGCGTTTTTGACCAAGCGCCGTTATAGAACATTACTTTTAGCGGCGTTTTCTTCCTAAGC
1 TTAGCGGCGTTTTTGACCAAGCACCGCTAAAGAACATGACTTTTAGCGGCGTTTTCTTCATAAGC
*
23669775 GCCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCCCATGTTCT
66 ACCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCCCATGTTCT
* *
23669820 TTAGCGGCGTTTTT-TCCTAAGCACCGCTAAAGAACATGA-TTTGTAGCGGTGTTTT-TTCATAA
1 TTAGCGGCGTTTTTGACC-AAGCACCGCTAAAGAACATGACTTT-TAGCGGCGTTTTCTTCATAA
* *
23669882 GCACTGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
64 GCACCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTT
23669919 TCTATAAGCG
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
109 45 0.52
110 42 0.48
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (110 bp):
TTAGCGGCGTTTTTGACCAAGCACCGCTAAAGAACATGACTTTTAGCGGCGTTTTCTTCATAAGC
ACCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCCCATGTTCT
Found at i:23674283 original size:9 final size:9
Alignment explanation
Indices: 23674255--23674295 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
23674245 CTTATCTCTT
23674255 ATTATATT-
1 ATTATATTA
23674263 A-TATATT-
1 ATTATATTA
23674270 A-TATATTA
1 ATTATATTA
23674278 ATTATATTA
1 ATTATATTA
23674287 ATTATATTA
1 ATTATATTA
23674296 TATTTATGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 13 0.42
8 2 0.06
9 16 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTATATTA
Found at i:23674290 original size:4 final size:5
Alignment explanation
Indices: 23674254--23674299 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
23674244 TCTTATCTCT
23674254 TATTA TATTA TA-TA T-TATA TATTA -ATTA TATTA -ATTA TATTA TATT
1 TATTA TATTA TATTA TAT-TA TATTA TATTA TATTA TATTA TATTA TATT
23674300 TATGCATCGT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
4 11 0.31
5 24 0.67
6 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:23675327 original size:10 final size:10
Alignment explanation
Indices: 23675312--23675342 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
23675302 TGTTGAATAT
23675312 TATTAAAGCA
1 TATTAAAGCA
23675322 TATTAAAGCA
1 TATTAAAGCA
*
23675332 TATGAAAGCA
1 TATTAAAGCA
23675342 T
1 T
23675343 TTATAACAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (10 bp):
TATTAAAGCA
Found at i:23678548 original size:21 final size:21
Alignment explanation
Indices: 23678519--23678579 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
23678509 CCTTATGACA
23678519 AGAGTACACAACCGTGTGGCTG
1 AGAG-ACACAACCGTGTGGCTG
**
23678541 AGAGACAC-ACCAGTGTGATTG
1 AGAGACACAACC-GTGTGGCTG
* *
23678562 AGATACACAGCCGTGTGG
1 AGAGACACAACCGTGTGG
23678580 GTAGACCGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.09
21 23 0.72
22 6 0.19
ACGTcount: A:0.30, C:0.21, G:0.31, T:0.18
Consensus pattern (21 bp):
AGAGACACAACCGTGTGGCTG
Found at i:23685486 original size:137 final size:137
Alignment explanation
Indices: 23685240--23685513 Score: 381
Period size: 137 Copynumber: 2.0 Consensus size: 137
23685230 ATTTCATTAG
* *
23685240 GGTTACCATGTTTCGGGTGCTGATCCTGAACGTCCCACTGGTGGCTGCGTTCTGACATTTGTTGC
1 GGTTACCATGTTTCGAGTGCTGATCCTGAACGTCCCACTGGTGGCTGAGTTCTGACATTTGTTGC
* *
23685305 GAATACTCAACAGCTTGTGTGAGCGGCATTGTGTAGCTACGTTTCGACCGAC-AGCTTGTGTGAG
66 GAATACTCAACAGCTTGTGTGAGCAGCATTGTGTAGCTACGTTTCGACCGACAAG-TTGCGTGAG
23685369 CAGACCCA
130 CAGACCCA
* * * *
23685377 GGTTACCATGTTTCGAGTGCTGGTCCTGGATGTCCTACTGGTGGCTGAGTT-TCGACATTTGTTG
1 GGTTACCATGTTTCGAGTGCTGATCCTGAACGTCCCACTGGTGGCTGAGTTCT-GACATTTGTTG
* * * * * *
23685441 TGGATACTCGACAGCTTGTGTGAGTAGCATTGTGTAGCTATGTTTCGACTGACAAGTTGCGTGAG
65 CGAATACTCAACAGCTTGTGTGAGCAGCATTGTGTAGCTACGTTTCGACCGACAAGTTGCGTGAG
*
23685506 CAGGCCCA
130 CAGACCCA
23685514 TTTATAGCTT
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
136 1 0.01
137 117 0.98
138 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.31
Consensus pattern (137 bp):
GGTTACCATGTTTCGAGTGCTGATCCTGAACGTCCCACTGGTGGCTGAGTTCTGACATTTGTTGC
GAATACTCAACAGCTTGTGTGAGCAGCATTGTGTAGCTACGTTTCGACCGACAAGTTGCGTGAGC
AGACCCA
Found at i:23688955 original size:41 final size:41
Alignment explanation
Indices: 23688910--23688992 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
23688900 GCCATACGGG
*
23688910 CATGTG-CCAAGCCGTGTGGTAGGCCGTGTG-CGACACATGGC
1 CATGTGACCAA-CCGTGTGCTAGGCCGTGTGTC-ACACATGGC
* *
23688951 CATGTGACCGACCTTGTGCTAGGCCGTGTGTCACACATGGC
1 CATGTGACCAACCGTGTGCTAGGCCGTGTGTCACACATGGC
23688992 C
1 C
23688993 TAGGCTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 33 0.89
42 4 0.11
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.22
Consensus pattern (41 bp):
CATGTGACCAACCGTGTGCTAGGCCGTGTGTCACACATGGC
Found at i:23693758 original size:19 final size:19
Alignment explanation
Indices: 23693734--23693774 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
23693724 CATGAAAATC
23693734 TAATGGTCTAATTACCATT
1 TAATGGTCTAATTACCATT
23693753 TAATGGTCTAATTACCATT
1 TAATGGTCTAATTACCATT
23693772 TAA
1 TAA
23693775 GGACCTCTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (19 bp):
TAATGGTCTAATTACCATT
Found at i:23710561 original size:24 final size:23
Alignment explanation
Indices: 23710534--23710583 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
23710524 CGATAACAAT
*
23710534 ATGCAGAAAATTCTGCCAATAAAA
1 ATGCAGAAAAGT-TGCCAATAAAA
* *
23710558 ATGCAGACAAGTTGCCATTAAAA
1 ATGCAGAAAAGTTGCCAATAAAA
23710581 ATG
1 ATG
23710584 TGATTAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (23 bp):
ATGCAGAAAAGTTGCCAATAAAA
Found at i:23713373 original size:30 final size:29
Alignment explanation
Indices: 23713276--23713407 Score: 92
Period size: 30 Copynumber: 4.3 Consensus size: 29
23713266 TTGCATACAG
23713276 TATATATATTAGTGGGT-GTTATATATA-A-
1 TATATATA-T-GTGGGTGGTTATATATATAT
* * * *
23713304 TATATAAATGGGGGAGTTGGTAATATACATAT
1 TATATATAT-GTGG-G-TGGTTATATATATAT
*
23713336 ATATATATATGAGTGGG-GTTGTATATATATACT
1 -TATATATAT--GTGGGTGGT-TATATATATA-T
*
23713369 TATATATATGTGGGTGGTTATACATATAT
1 TATATATATGTGGGTGGTTATATATATAT
23713398 TATATATATG
1 TATATATATG
23713408 CATGACTTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 19
0.72 0.12 0.17
Matches are distributed among these distances:
27 4 0.05
28 8 0.10
29 12 0.15
30 22 0.27
31 5 0.06
32 17 0.21
33 10 0.12
34 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.42
Consensus pattern (29 bp):
TATATATATGTGGGTGGTTATATATATAT
Found at i:23713373 original size:32 final size:29
Alignment explanation
Indices: 23713276--23713407 Score: 99
Period size: 32 Copynumber: 4.3 Consensus size: 29
23713266 TTGCATACAG
* *
23713276 TATATATATTAGTGGG-TGT-TATATATAA
1 TATATATA-TGGTGGGTTGTATATATATAT
* * *
23713304 TATATAAATGGGGGAGTTGGTAATATACATAT
1 TATATATATGGTGG-GTT-GT-ATATATATAT
23713336 ATATATATATGAGTGGGGTTGTATATATATACT
1 -TATATATATG-GT-GGGTTGTATATATATA-T
* *
23713369 TATATATAT-GTGGGTGGTTATACATATAT
1 TATATATATGGTGGGTTG-TATATATATAT
23713398 TATATATATG
1 TATATATATG
23713408 CATGACTTTA
Statistics
Matches: 83, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
27 4 0.05
28 8 0.10
29 16 0.19
30 13 0.16
32 24 0.29
33 12 0.14
34 4 0.05
35 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.42
Consensus pattern (29 bp):
TATATATATGGTGGGTTGTATATATATAT
Found at i:23716000 original size:13 final size:14
Alignment explanation
Indices: 23715956--23716000 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
23715946 TCACTAAATA
*
23715956 AATATGTATATTTCT
1 AATATG-ATATTTGT
23715971 AATAT-ATATTTGT
1 AATATGATATTTGT
23715984 -ATATGAT-TTTGT
1 AATATGATATTTGT
23715996 AATAT
1 AATAT
23716001 TTATGAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 13 0.48
15 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (14 bp):
AATATGATATTTGT
Found at i:23724434 original size:2 final size:2
Alignment explanation
Indices: 23724427--23724452 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23724417 TCTCAATCGA
23724427 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
23724453 TTCAATCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23726437 original size:23 final size:23
Alignment explanation
Indices: 23726406--23726456 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
23726396 ACCTACTTTC
* *
23726406 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
23726429 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
23726452 TTACA
1 TTACA
23726457 ATATTTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:23730180 original size:43 final size:41
Alignment explanation
Indices: 23730132--23730257 Score: 119
Period size: 43 Copynumber: 3.0 Consensus size: 41
23730122 GGTGTGACTT
*
23730132 CGTGTAAGACCATGTCTGGGACATTGGCATTGTTATGAGATTA
1 CGTGTAAGACCAT-TCTGGGACA-TGGCATTGTTATGAGATAA
* * * *
23730175 CGTGTAAGACCAATACTGGGACAGTGGCATCGATATGTGATAA
1 CGTGTAAGACC-ATTCTGGGACA-TGGCATTGTTATGAGATAA
* * * *
23730218 CATGTAAGACCATATTTGGGATATGGCATTG-TATGTGATA
1 CGTGTAAGACCAT-TCTGGGACATGGCATTGTTATGAGATA
23730258 TATGTGTTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 9 0.13
42 9 0.13
43 50 0.71
44 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.30
Consensus pattern (41 bp):
CGTGTAAGACCATTCTGGGACATGGCATTGTTATGAGATAA
Found at i:23737335 original size:22 final size:22
Alignment explanation
Indices: 23737304--23737524 Score: 129
Period size: 23 Copynumber: 9.6 Consensus size: 22
23737294 ATCACCTACT
*
23737304 AAACACAACCAATTTACCCTCG
1 AAACACAACCAATTTACCCTCC
*
23737326 AAGCACAACCAATTTACCCTCC
1 AAACACAACCAATTTACCCTCC
** * ***
23737348 AAACACAATGAAATGTGTTCTCC
1 AAACACAA-CCAATTTACCCTCC
* *
23737371 AAACAAAACCATATATATAACCTCC
1 AAACACAACCA-AT-T-TACCCTCC
* * *
23737396 GAACAAAACCAAGTATACCCTCC
1 AAACACAACCAA-TTTACCCTCC
* *
23737419 AAACATAACTAATTTACCCTCC
1 AAACACAACCAATTTACCCTCC
* * **
23737441 AAACATAACCAAATGTA-CCTGTA
1 AAACACAACC-AATTTACCCT-CC
* * *
23737464 AAACACCACCAAATATATAACCTCT
1 AAACACAACC-AAT-T-TACCCTCC
*
23737489 AAACACAACCAAGTATACCCTCC
1 AAACACAACCAA-TTTACCCTCC
23737512 AAACACAACCAAT
1 AAACACAACCAAT
23737525 ATAGTCTTTA
Statistics
Matches: 152, Mismatches: 36, Indels: 22
0.72 0.17 0.10
Matches are distributed among these distances:
22 50 0.33
23 68 0.45
24 3 0.02
25 28 0.18
26 3 0.02
ACGTcount: A:0.45, C:0.32, G:0.05, T:0.19
Consensus pattern (22 bp):
AAACACAACCAATTTACCCTCC
Found at i:23737419 original size:48 final size:48
Alignment explanation
Indices: 23737367--23737527 Score: 152
Period size: 48 Copynumber: 3.4 Consensus size: 48
23737357 GAAATGTGTT
* *
23737367 CTCCAAACAAAACCATATATATAACCTCCGAACAAAACCAAGTATACC
1 CTCCAAACACAACCATATATATAACCTCCAAACAAAACCAAGTATACC
* * * * * *
23737415 CTCCAAACATAA-C-TA-ATTTACCCTCCAAACATAACCAAATGTA-C
1 CTCCAAACACAACCATATATATAACCTCCAAACAAAACCAAGTATACC
** * * * *
23737459 CTGTAAAACACCACCAAATATATAACCTCTAAACACAACCAAGTATACC
1 CT-CCAAACACAACCATATATATAACCTCCAAACAAAACCAAGTATACC
23737508 CTCCAAACACAACCA-ATATA
1 CTCCAAACACAACCATATATA
23737528 GTCTTTAACA
Statistics
Matches: 87, Mismatches: 21, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
44 3 0.03
45 28 0.32
46 3 0.03
47 7 0.08
48 43 0.49
49 3 0.03
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.19
Consensus pattern (48 bp):
CTCCAAACACAACCATATATATAACCTCCAAACAAAACCAAGTATACC
Found at i:23743304 original size:48 final size:47
Alignment explanation
Indices: 23743208--23743416 Score: 191
Period size: 48 Copynumber: 4.5 Consensus size: 47
23743198 TAAAGCTATC
* * * *
23743208 ACCCACCAAACACAACCAAT-T-TACCCTCCGAAC-AAAACAAAATGT
1 ACCCTCCAAACACAACCAATATATAACCTCCGAACTCAAAC-AAATAT
*
23743253 ACCCTCCAAACACAACCATATATATAACCTCCGAACTCAAACAAGTAT
1 ACCCTCCAAACACAACCA-ATATATAACCTCCGAACTCAAACAAATAT
* * *
23743301 ACCCTCTAAACACAACCAAT-T-T-ACCATCCGAACAT-AACCAAATGT
1 ACCCTCCAAACACAACCAATATATAACC-TCCGAAC-TCAAACAAATAT
* * * * *
23743346 A-CCTGCAAAACACCACCATATATATAACCTCTGAACACAACCAAATAT
1 ACCCT-CCAAACACAACCA-ATATATAACCTCCGAACTCAAACAAATAT
23743394 ACCCTCCAAACACAACCAATATA
1 ACCCTCCAAACACAACCAATATA
23743417 CCCTTTAACA
Statistics
Matches: 135, Mismatches: 16, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
44 6 0.04
45 44 0.33
46 6 0.04
47 9 0.07
48 60 0.44
49 10 0.07
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (47 bp):
ACCCTCCAAACACAACCAATATATAACCTCCGAACTCAAACAAATAT
Found at i:23743368 original size:93 final size:93
Alignment explanation
Indices: 23743208--23743418 Score: 298
Period size: 93 Copynumber: 2.3 Consensus size: 93
23743198 TAAAGCTATC
* * *
23743208 ACCCACCAAACACAACCAATTTACCCTCCGAACAAAACAAAATGTACCCTCCAAACACAACCATA
1 ACCCTCCAAACACAACCAATTTACCATCCGAACAAAACAAAATGTACCCTCAAAACACAACCATA
* *
23743273 TATATAACCTCCGAACTCAAACAAGTAT
66 TATATAACCTCCGAACACAAACAAATAT
* * * *
23743301 ACCCTCTAAACACAACCAATTTACCATCCGAACATAACCAAATGTA-CCTGCAAAACACCACCAT
1 ACCCTCCAAACACAACCAATTTACCATCCGAACAAAACAAAATGTACCCT-CAAAACACAACCAT
* *
23743365 ATATATAACCTCTGAACACAACCAAATAT
65 ATATATAACCTCCGAACACAAACAAATAT
*
23743394 ACCCTCCAAACACAACCAATATACC
1 ACCCTCCAAACACAACCAATTTACC
23743419 CTTTAACATA
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 3 0.03
93 101 0.97
ACGTcount: A:0.45, C:0.35, G:0.04, T:0.17
Consensus pattern (93 bp):
ACCCTCCAAACACAACCAATTTACCATCCGAACAAAACAAAATGTACCCTCAAAACACAACCATA
TATATAACCTCCGAACACAAACAAATAT
Found at i:23743393 original size:23 final size:23
Alignment explanation
Indices: 23743213--23743416 Score: 121
Period size: 23 Copynumber: 8.8 Consensus size: 23
23743203 CTATCACCCA
* *
23743213 CCAAACACAACC-AATTTACCCT
1 CCAAACACAACCAAATATAACCT
* * * * *
23743235 CCGAACAAAACAAAATGTACCCT
1 CCAAACACAACCAAATATAACCT
23743258 CCAAACACAACCATATATATAACCT
1 CCAAACACAACCA-A-ATATAACCT
* * * * *
23743283 CCGAACTCAAACAAGTATACCCT
1 CCAAACACAACCAAATATAACCT
* *
23743306 CTAAACACAACC-AAT-TTACCAT
1 CCAAACACAACCAAATATAACC-T
* * *
23743328 CCGAACATAACCAAATGT-ACCT
1 CCAAACACAACCAAATATAACCT
* *
23743350 GCAAAACACCACCATATATATAACCT
1 -CCAAACACAACCA-A-ATATAACCT
** *
23743376 CTGAACACAACCAAATATACCCT
1 CCAAACACAACCAAATATAACCT
23743399 CCAAACACAACC-AATATA
1 CCAAACACAACCAAATATA
23743417 CCCTTTAACA
Statistics
Matches: 137, Mismatches: 35, Indels: 20
0.71 0.18 0.10
Matches are distributed among these distances:
21 3 0.02
22 28 0.20
23 67 0.49
24 5 0.04
25 30 0.22
26 4 0.03
ACGTcount: A:0.45, C:0.33, G:0.04, T:0.18
Consensus pattern (23 bp):
CCAAACACAACCAAATATAACCT
Found at i:23744623 original size:67 final size:67
Alignment explanation
Indices: 23744515--23744647 Score: 248
Period size: 67 Copynumber: 2.0 Consensus size: 67
23744505 TTCAATTCAG
23744515 AGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCA
1 AGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCA
23744580 AT
66 AT
* *
23744582 AGAGCACACTCCCGCGAACCTCATTTCTTACAGTGGGATTACCAGTCCAGGCTAAATCTCCTGCA
1 AGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCA
23744647 A
66 A
23744648 CGAAAATTAC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (67 bp):
AGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCA
AT
Found at i:23744810 original size:57 final size:57
Alignment explanation
Indices: 23744712--23744829 Score: 175
Period size: 57 Copynumber: 2.1 Consensus size: 57
23744702 ACCCTAATTC
* *
23744712 AGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCCGGAGGGCTATATCA
1 AGATCACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCCGGAGGGCTATATCA
* * *
23744769 AGATCACCCATCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCA
1 AGATCACCCATCCGGGCTAAATCCATTTTC-CACATATTCTTCCGGAGGGCTATATCA
23744826 AGAT
1 AGAT
23744830 AGGATCACCC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 6 0.11
57 49 0.89
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (57 bp):
AGATCACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCCGGAGGGCTATATCA
Found at i:23746384 original size:2 final size:2
Alignment explanation
Indices: 23746377--23746401 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23746367 TTCTTTCCAC
23746377 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23746402 CAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23748427 original size:18 final size:18
Alignment explanation
Indices: 23748404--23748441 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
23748394 TAGTAAAAAG
*
23748404 TTATTTTAAATACTTTCC
1 TTATTTTAAATACTCTCC
23748422 TTATTTTAAATACTCTCC
1 TTATTTTAAATACTCTCC
23748440 TT
1 TT
23748442 TGTTTTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATTTTAAATACTCTCC
Found at i:23753974 original size:23 final size:24
Alignment explanation
Indices: 23753948--23753993 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
23753938 GATAAATTTT
*
23753948 ATTA-TCAAGAAAAATTTAAATTA
1 ATTATTCAAGAAAAATTAAAATTA
**
23753971 ATTATTTTAGAAAAATTAAAATT
1 ATTATTCAAGAAAAATTAAAATT
23753994 CATATTGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (24 bp):
ATTATTCAAGAAAAATTAAAATTA
Found at i:23755644 original size:40 final size:40
Alignment explanation
Indices: 23755576--23756390 Score: 990
Period size: 40 Copynumber: 20.4 Consensus size: 40
23755566 GTTAATTATA
* * *
23755576 CCTGATTGCACATACGTACCCCTGTTTGTATTTCAGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* **
23755616 CCTGATTGCACACACGTGCCCCAATTTGTAC-TCAGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTC-GGTACC
* * *
23755656 CCTAATTGCACATACGTGCCGCTGTTTGTACTTTGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* ** *
23755696 CCTGATTGCAAATGTGTGCCCTTGTTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
23755736 CCTGATTGCACATACGTGCCCCTATTTGTACTTCAGTGCC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
23755776 CCTGATTGCACATGCGTGCCCCTGTTTGTACTTCCGTTCC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
23755816 CCTGATTTCACATATGTGCCCCTATTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* *
23755856 CCTGATTGCACATACGTGCCCCTATTTGTAC-TAGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
23755895 CCTAATTGCACATACGTGCCGCTGTTTGTACTTTGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* ** *
23755935 CCTGATTGCAAATGTGTGCCCTTGTTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
23755975 CCTGATTGCACATACGTGCCCCTATTTGTACTTCAGTGCC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
23756015 CCTGATTGCACATGCGTGCCCCTGTTTGTACTTCTGTTCC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
23756055 CCTGATTTCACATATGTGCCCCTATTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
23756095 CC-GATTGCACATGCGTGCCCCTATTTGTACTTAGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * * * *
23756134 CCTAATTGCACATACATGCCGCTTTTTGTACTTTGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * ** *
23756174 CTTGATTGCAAATGTGTGCCCTTGTTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * * *
23756214 CCTGATTGCACATATGTGCCCCTATTTGTACTTCAGTGCC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * *
23756254 CCTAATTGCACATGCGTGCCCCTGTTTGTACTTTC-GTTCC
1 CCTGATTGCACATACGTGCCCCTGTTTGTAC-TTCGGTACC
* * *
23756294 CCTGATTTCACATATGTGCCCCTGTTTGTACTTCAGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* *
23756334 CCTGATTGCACATAGGTGCCCTTGTTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
*
23756374 CCTGATTGTACATACGT
1 CCTGATTGCACATACGT
23756391 TCCATATTTA
Statistics
Matches: 659, Mismatches: 110, Indels: 12
0.84 0.14 0.02
Matches are distributed among these distances:
39 75 0.11
40 580 0.88
41 4 0.01
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.35
Consensus pattern (40 bp):
CCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
Found at i:23755996 original size:239 final size:240
Alignment explanation
Indices: 23755576--23756390 Score: 1391
Period size: 239 Copynumber: 3.4 Consensus size: 240
23755566 GTTAATTATA
* * * * * * *
23755576 CCTGATTGCACATACGTACCCCTGTTTGTATTTCAGTACCCCTGATTGCACACACGTGCCCCAAT
1 CCTGATTTCACATATGTGCCCCTATTTGTACTTCAGTACCCCTGATTGCACATACGTGCCCCTAT
*
23755641 TTGTACTCAGGTACCCCTAATTGCACATACGTGCCGCTGTTTGTACTTTGGTACCCCTGATTGCA
66 TTGTACTTAGGTACCCCTAATTGCACATACGTGCCGCTGTTTGTACTTTGGTACCCCTGATTGCA
23755706 AATGTGTGCCCTTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCA
131 AATGTGTGCCCTTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCA
23755771 GTGCCCCTGATTGCACATGCGTGCCCCTGTTTGTACTTCCGTTCC
196 GTGCCCCTGATTGCACATGCGTGCCCCTGTTTGTACTTCCGTTCC
*
23755816 CCTGATTTCACATATGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTAT
1 CCTGATTTCACATATGTGCCCCTATTTGTACTTCAGTACCCCTGATTGCACATACGTGCCCCTAT
23755881 TTGTAC-TAGGTACCCCTAATTGCACATACGTGCCGCTGTTTGTACTTTGGTACCCCTGATTGCA
66 TTGTACTTAGGTACCCCTAATTGCACATACGTGCCGCTGTTTGTACTTTGGTACCCCTGATTGCA
23755945 AATGTGTGCCCTTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCA
131 AATGTGTGCCCTTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCA
*
23756010 GTGCCCCTGATTGCACATGCGTGCCCCTGTTTGTACTTCTGTTCC
196 GTGCCCCTGATTGCACATGCGTGCCCCTGTTTGTACTTCCGTTCC
* *
23756055 CCTGATTTCACATATGTGCCCCTATTTGTACTTCGGTACCCC-GATTGCACATGCGTGCCCCTAT
1 CCTGATTTCACATATGTGCCCCTATTTGTACTTCAGTACCCCTGATTGCACATACGTGCCCCTAT
* * *
23756119 TTGTACTTAGGTACCCCTAATTGCACATACATGCCGCTTTTTGTACTTTGGTACCCTTGATTGCA
66 TTGTACTTAGGTACCCCTAATTGCACATACGTGCCGCTGTTTGTACTTTGGTACCCCTGATTGCA
*
23756184 AATGTGTGCCCTTGTTTGTACTTCGGTACCCCTGATTGCACATATGTGCCCCTATTTGTACTTCA
131 AATGTGTGCCCTTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCA
* *
23756249 GTGCCCCTAATTGCACATGCGTGCCCCTGTTTGTACTTTCGTTCC
196 GTGCCCCTGATTGCACATGCGTGCCCCTGTTTGTACTTCCGTTCC
* * * *
23756294 CCTGATTTCACATATGTGCCCCTGTTTGTACTTCAGTACCCCTGATTGCACATAGGTGCCCTTGT
1 CCTGATTTCACATATGTGCCCCTATTTGTACTTCAGTACCCCTGATTGCACATACGTGCCCCTAT
* * *
23756359 TTGTACTTCGGTACCCCTGATTGTACATACGT
66 TTGTACTTAGGTACCCCTAATTGCACATACGT
23756391 TCCATATTTA
Statistics
Matches: 545, Mismatches: 28, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
238 27 0.05
239 409 0.75
240 109 0.20
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.35
Consensus pattern (240 bp):
CCTGATTTCACATATGTGCCCCTATTTGTACTTCAGTACCCCTGATTGCACATACGTGCCCCTAT
TTGTACTTAGGTACCCCTAATTGCACATACGTGCCGCTGTTTGTACTTTGGTACCCCTGATTGCA
AATGTGTGCCCTTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCA
GTGCCCCTGATTGCACATGCGTGCCCCTGTTTGTACTTCCGTTCC
Found at i:23756337 original size:20 final size:20
Alignment explanation
Indices: 23755711--23756384 Score: 150
Period size: 20 Copynumber: 33.8 Consensus size: 20
23755701 TTGCAAATGT
* *
23755711 GTGCCCTTGTTTGTACTTCG
1 GTGCCCCTGTTTGTACTTCA
* * * *
23755731 GTACCCCTGATTGCACAT-A
1 GTGCCCCTGTTTGTACTTCA
*
23755750 CGTGCCCCTATTTGTACTTCA
1 -GTGCCCCTGTTTGTACTTCA
* * *
23755771 GTGCCCCTGATTGCACATGC-
1 GTGCCCCTGTTTGTAC-TTCA
*
23755791 GTGCCCCTGTTTGTACTTCC
1 GTGCCCCTGTTTGTACTTCA
* * *
23755811 GTTCCCCTGATTT-CACAT-A
1 GTGCCCCTG-TTTGTACTTCA
* *
23755830 TGTGCCCCTATTTGTACTTCG
1 -GTGCCCCTGTTTGTACTTCA
* * * *
23755851 GTACCCCTGATTGCACAT-A
1 GTGCCCCTGTTTGTACTTCA
*
23755870 CGTGCCCCTATTTGTAC-T-A
1 -GTGCCCCTGTTTGTACTTCA
* ** * *
23755889 GGTACCCCTAATTGCACAT-A
1 -GTGCCCCTGTTTGTACTTCA
* **
23755909 CGTGCCGCTGTTTGTACTTTG
1 -GTGCCCCTGTTTGTACTTCA
* * * ** **
23755930 GTACCCCTGATTGCAAATGT
1 GTGCCCCTGTTTGTACTTCA
* *
23755950 GTGCCCTTGTTTGTACTTCG
1 GTGCCCCTGTTTGTACTTCA
* * * *
23755970 GTACCCCTGATTGCACAT-A
1 GTGCCCCTGTTTGTACTTCA
*
23755989 CGTGCCCCTATTTGTACTTCA
1 -GTGCCCCTGTTTGTACTTCA
* * *
23756010 GTGCCCCTGATTGCACATGC-
1 GTGCCCCTGTTTGTAC-TTCA
*
23756030 GTGCCCCTGTTTGTACTTCT
1 GTGCCCCTGTTTGTACTTCA
* * *
23756050 GTTCCCCTGATTT-CACAT-A
1 GTGCCCCTG-TTTGTACTTCA
* *
23756069 TGTGCCCCTATTTGTACTTCG
1 -GTGCCCCTGTTTGTACTTCA
* * * *
23756090 GTACCCC-GATTGCACATGC-
1 GTGCCCCTGTTTGTAC-TTCA
*
23756109 GTGCCCCTATTTGTACTT-A
1 GTGCCCCTGTTTGTACTTCA
* ** * *
23756128 GGTACCCCTAATTGCACATACA
1 -GTGCCCCTGTTTGTAC-TTCA
* * **
23756150 -TGCCGCTTTTTGTACTTTG
1 GTGCCCCTGTTTGTACTTCA
* * * * ** **
23756169 GTACCCTTGATTGCAAATGT
1 GTGCCCCTGTTTGTACTTCA
* *
23756189 GTGCCCTTGTTTGTACTTCG
1 GTGCCCCTGTTTGTACTTCA
* * * *
23756209 GTACCCCTGATTGCACAT-A
1 GTGCCCCTGTTTGTACTTCA
*
23756228 TGTGCCCCTATTTGTACTTCA
1 -GTGCCCCTGTTTGTACTTCA
** * *
23756249 GTGCCCCTAATTGCACATGC-
1 GTGCCCCTGTTTGTAC-TTCA
23756269 GTGCCCCTGTTTGTACTTTC-
1 GTGCCCCTGTTTGTAC-TTCA
* * *
23756289 GTTCCCCTGATTT-CACAT-A
1 GTGCCCCTG-TTTGTACTTCA
23756308 TGTGCCCCTGTTTGTACTTCA
1 -GTGCCCCTGTTTGTACTTCA
* * * *
23756329 GTACCCCTGATTGCACAT-A
1 GTGCCCCTGTTTGTACTTCA
* *
23756348 GGTGCCCTTGTTTGTACTTCG
1 -GTGCCCCTGTTTGTACTTCA
* *
23756369 GTACCCCTGATTGTAC
1 GTGCCCCTGTTTGTAC
23756385 ATACGTTCCA
Statistics
Matches: 449, Mismatches: 169, Indels: 72
0.65 0.24 0.10
Matches are distributed among these distances:
19 43 0.10
20 385 0.86
21 20 0.04
22 1 0.00
ACGTcount: A:0.16, C:0.30, G:0.19, T:0.36
Consensus pattern (20 bp):
GTGCCCCTGTTTGTACTTCA
Found at i:23757255 original size:12 final size:12
Alignment explanation
Indices: 23757238--23757264 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23757228 TCAGGCAGTT
23757238 ACATGGCCTAGC
1 ACATGGCCTAGC
23757250 ACATGGCCTAGC
1 ACATGGCCTAGC
23757262 ACA
1 ACA
23757265 CGGGCATGTG
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:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:23762612 original size:40 final size:40
Alignment explanation
Indices: 23762548--23762738 Score: 213
Period size: 40 Copynumber: 4.8 Consensus size: 40
23762538 ATTATACCTG
23762548 ATTGCACATACGT-CCCTCTATTTGTACTTCGGTACCCCTA
1 ATTGCACATACGTGCCC-CTATTTGTACTTCGGTACCCCTA
* * * * * * *
23762588 ATTGCACATACCTACCCTTGTTTGTACTTCGATACTCCTG
1 ATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* *
23762628 ATTGCACATGCGTGCCCCTATTTGTACTTTGGTACCCCTA
1 ATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* * * * *
23762668 ATTGCAAATACGTGCCCCTGTTTGTACATCAGTACCCCTT
1 ATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* * *
23762708 ATTGTACATATGTGCCCCTATTTATACTTCG
1 ATTGCACATACGTGCCCCTATTTGTACTTCG
23762739 ATAATTTCAA
Statistics
Matches: 121, Mismatches: 29, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
40 118 0.98
41 3 0.02
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.36
Consensus pattern (40 bp):
ATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
Found at i:23762690 original size:80 final size:80
Alignment explanation
Indices: 23762544--23762738 Score: 250
Period size: 80 Copynumber: 2.4 Consensus size: 80
23762534 GTTAATTATA
* *
23762544 CCTGATTGCACATACGT-CCCTCTATTTGTACTTCGGTACCCCTAATTGCACATACCTACCCTTG
1 CCTGATTGCACATACGTGCCC-CTATTTGTACTTCGGTACCCCTAATTGCAAATACCTACCCCTG
* *
23762608 TTTGTACTTC-GATACT
65 TTTGTACATCAG-TACC
* * * *
23762624 CCTGATTGCACATGCGTGCCCCTATTTGTACTTTGGTACCCCTAATTGCAAATACGTGCCCCTGT
1 CCTGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTAATTGCAAATACCTACCCCTGT
23762689 TTGTACATCAGTACC
66 TTGTACATCAGTACC
* * * *
23762704 CCTTATTGTACATATGTGCCCCTATTTATACTTCG
1 CCTGATTGCACATACGTGCCCCTATTTGTACTTCG
23762739 ATAATTTCAA
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 95 0.96
81 4 0.04
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (80 bp):
CCTGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTAATTGCAAATACCTACCCCTGT
TTGTACATCAGTACC
Found at i:23762725 original size:20 final size:20
Alignment explanation
Indices: 23762679--23762726 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
23762669 TTGCAAATAC
23762679 GTGCCCCTGTTTGTACATCA
1 GTGCCCCTGTTTGTACATCA
*
23762699 GTACCCCT-TATTGTACAT-A
1 GTGCCCCTGT-TTGTACATCA
23762718 TGTGCCCCT
1 -GTGCCCCT
23762727 ATTTATACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.35
Consensus pattern (20 bp):
GTGCCCCTGTTTGTACATCA
Found at i:23763816 original size:17 final size:17
Alignment explanation
Indices: 23763791--23763830 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
23763781 GTGTGAGTCA
*
23763791 CATGGGTGTGACTCAGC
1 CATGTGTGTGACTCAGC
* *
23763808 CATGTGTGTGTCTCATC
1 CATGTGTGTGACTCAGC
23763825 CATGTG
1 CATGTG
23763831 AGTCACACGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.33
Consensus pattern (17 bp):
CATGTGTGTGACTCAGC
Found at i:23763847 original size:30 final size:30
Alignment explanation
Indices: 23763813--23763906 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
23763803 TCAGCCATGT
23763813 GTGTGTCTCATCCATGTGAGTCACACGGGC
1 GTGTGTCTCATCCATGTGAGTCACACGGGC
* * *
23763843 GTGTGTCTCATTCGTGTGAGTCACACAGGC
1 GTGTGTCTCATCCATGTGAGTCACACGGGC
* * *
23763873 GTTTGTCTCAACCATGTGAGTCACACGGCC
1 GTGTGTCTCATCCATGTGAGTCACACGGGC
23763903 GTGT
1 GTGT
23763907 TACCCCTGCG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.29
Consensus pattern (30 bp):
GTGTGTCTCATCCATGTGAGTCACACGGGC
Found at i:23766149 original size:26 final size:25
Alignment explanation
Indices: 23766106--23766159 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 25
23766096 GGACGGTTGG
23766106 ATGCTTTAATTTGTTTTA-ATTAAA
1 ATGCTTTAATTTGTTTTATATTAAA
23766130 ATGCTTTACATGTTGTTTTATTATTAAA
1 ATGCTTTA-AT-TTGTTTTA-TATTAAA
23766158 AT
1 AT
23766160 ATAGATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 8 0.31
25 2 0.08
26 8 0.31
28 8 0.31
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (25 bp):
ATGCTTTAATTTGTTTTATATTAAA
Found at i:23766224 original size:35 final size:35
Alignment explanation
Indices: 23766178--23766249 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
23766168 AAGGTTAAAA
* *
23766178 ATATAAGAAAACATAAAGCTTTCTTCTTCAAATTT
1 ATATAAGAAAACATAAAACTTTATTCTTCAAATTT
23766213 ATATAAGAAAACATAAAACTTTATTCTTCAAATTT
1 ATATAAGAAAACATAAAACTTTATTCTTCAAATTT
23766248 AT
1 AT
23766250 TTCTTCTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (35 bp):
ATATAAGAAAACATAAAACTTTATTCTTCAAATTT
Found at i:23767279 original size:36 final size:36
Alignment explanation
Indices: 23767234--23767306 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
23767224 GTGTATTCTA
* * * * *
23767234 GAGGGATTGGCTCGTGTGAGCATTTGGTGTGTCTTG
1 GAGGAATTGGCTCATATGAGCATCTGATGTGTCTTG
*
23767270 GAGGAATTGGCTCATATGAGCATCTGATGTGTTTTG
1 GAGGAATTGGCTCATATGAGCATCTGATGTGTCTTG
23767306 G
1 G
23767307 TTGGACTGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.16, C:0.11, G:0.37, T:0.36
Consensus pattern (36 bp):
GAGGAATTGGCTCATATGAGCATCTGATGTGTCTTG
Found at i:23768128 original size:20 final size:20
Alignment explanation
Indices: 23768105--23768145 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
23768095 AAGTAGATAA
*
23768105 AATGGAAAGTAAGTAAATGG
1 AATGGAAAGAAAGTAAATGG
*
23768125 AATGGTAAGAAAGTAAATGG
1 AATGGAAAGAAAGTAAATGG
23768145 A
1 A
23768146 GTGGTTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (20 bp):
AATGGAAAGAAAGTAAATGG
Found at i:23781282 original size:45 final size:45
Alignment explanation
Indices: 23781231--23781321 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
23781221 ATCCGATGAG
23781231 TAAGTTCATAAATATTATTATTTAATATTCAAGAGTCAAATGTGA
1 TAAGTTCATAAATATTATTATTTAATATTCAAGAGTCAAATGTGA
23781276 TAAGTTCATAAATATTATTATTTAATATTCAAGAGTCAAATGTGA
1 TAAGTTCATAAATATTATTATTTAATATTCAAGAGTCAAATGTGA
23781321 T
1 T
23781322 TCTTAAAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.41
Consensus pattern (45 bp):
TAAGTTCATAAATATTATTATTTAATATTCAAGAGTCAAATGTGA
Found at i:23782003 original size:28 final size:29
Alignment explanation
Indices: 23781947--23782003 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
23781937 GAATCCTGCC
* *
23781947 ATTGATGAACCTTGTGATTTTAGATGTTA
1 ATTGATGAACCTTGAGATATTAGATGTTA
* *
23781976 ATTGATGAA-TTTGAGATATTAGTTGTTA
1 ATTGATGAACCTTGAGATATTAGATGTTA
23782004 TTTATAAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.46
Consensus pattern (29 bp):
ATTGATGAACCTTGAGATATTAGATGTTA
Found at i:23804669 original size:102 final size:102
Alignment explanation
Indices: 23804553--23804782 Score: 406
Period size: 102 Copynumber: 2.3 Consensus size: 102
23804543 CAGTGATTCA
* * * *
23804553 GGGAATCAGCACTTAGCAACCCCTTTCACATTTTAGATACGGTGGGATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
23804618 CAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGG
66 CAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGG
23804655 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
* *
23804720 CAATGATTCGGGGAATCAGTACTTAGCAACCCCTTGG
66 CAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGG
23804757 GGGAATCAGCACTTAGCAACCCCCTT
1 GGGAATCAGCACTTAGCAACCCCCTT
23804783 TATATTCAAA
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 122 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (102 bp):
GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
CAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGG
Found at i:23811544 original size:27 final size:27
Alignment explanation
Indices: 23811506--23811586 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
23811496 ACAATGAGTC
23811506 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
*
23811533 GGGGAATTAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
* **
23811560 TGATAATCAGCACTTAGCAATCCCCTT
1 GGGGAATCAGCACTTAGCAA-CCCCTT
23811587 TATATTCAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 42 0.88
28 6 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:23816124 original size:17 final size:18
Alignment explanation
Indices: 23816091--23816125 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23816081 GCCTCGCATT
*
23816091 CTAGAATAATAAAATTTG
1 CTAGAAAAATAAAATTTG
23816109 CTAGAAAAAT-AAATTTG
1 CTAGAAAAATAAAATTTG
23816126 TCAACTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.31
Consensus pattern (18 bp):
CTAGAAAAATAAAATTTG
Found at i:23818338 original size:16 final size:16
Alignment explanation
Indices: 23818288--23818345 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
23818278 CCTCGTCCCC
*
23818288 AATTCCTC-TCTCCCA
1 AATTCCTCATCTCTCA
*
23818303 AAATCCTCATCTCT--
1 AATTCCTCATCTCTCA
23818317 AATTCCTC-TCTCTGCA
1 AATTCCTCATCTCT-CA
23818333 AATTCCTCATCTC
1 AATTCCTCATCTC
23818346 CTTGCGTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.14
14 7 0.20
15 7 0.20
16 12 0.34
17 4 0.11
ACGTcount: A:0.22, C:0.40, G:0.02, T:0.36
Consensus pattern (16 bp):
AATTCCTCATCTCTCA
Found at i:23818342 original size:30 final size:29
Alignment explanation
Indices: 23818264--23818345 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
23818254 CTCCACTTCT
* * * *
23818264 TCTCTCCTTAAAATCCTCGTCCCCAATTCC
1 TCTCTCC-CAAAATCCTCATCTCTAATTCC
23818294 TCTCTCCCAAAATCCTCATCTCTAATTCC
1 TCTCTCCCAAAATCCTCATCTCTAATTCC
* *
23818323 TCTCTCTGCAAATTCCTCATCTC
1 TCTCTC-CCAAAATCCTCATCTC
23818346 CTTGCGTCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 24 0.53
30 21 0.47
ACGTcount: A:0.21, C:0.41, G:0.02, T:0.35
Consensus pattern (29 bp):
TCTCTCCCAAAATCCTCATCTCTAATTCC
Found at i:23825670 original size:50 final size:50
Alignment explanation
Indices: 23825612--23825712 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
23825602 AAAACATAAA
** *
23825612 CTCATTCTTTTGATTATTTCTGAGTAATCCATGTACATTTGCAAATGTAT
1 CTCATTCTTTCAATCATTTCTGAGTAATCCATGTACATTTGCAAATGTAT
23825662 CTCATTCTTTCAATCATTTCTGAGTAATCCATGTACATTTGCAAATGTAT
1 CTCATTCTTTCAATCATTTCTGAGTAATCCATGTACATTTGCAAATGTAT
23825712 C
1 C
23825713 ACTTCTCATC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.44
Consensus pattern (50 bp):
CTCATTCTTTCAATCATTTCTGAGTAATCCATGTACATTTGCAAATGTAT
Found at i:23827726 original size:23 final size:24
Alignment explanation
Indices: 23827681--23827726 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
23827671 ACCAACAAAG
**
23827681 AAATTAATTTTACTTTTGTCTTTT
1 AAATTAATTTTACTTTTCCCTTTT
*
23827705 AAATTATTTTTA-TTTTCCCTTT
1 AAATTAATTTTACTTTTCCCTTT
23827727 CAAAACATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (24 bp):
AAATTAATTTTACTTTTCCCTTTT
Found at i:23841204 original size:23 final size:23
Alignment explanation
Indices: 23841174--23841220 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
23841164 ATAGATGGCC
*
23841174 GAGATAGACTAATCTAAAAGCAT
1 GAGATAGACCAATCTAAAAGCAT
*
23841197 GAGATAGACCAATCTAAGAGCAT
1 GAGATAGACCAATCTAAAAGCAT
23841220 G
1 G
23841221 TTGTGCCAAT
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:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (23 bp):
GAGATAGACCAATCTAAAAGCAT
Found at i:23853287 original size:25 final size:25
Alignment explanation
Indices: 23853258--23853307 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
23853248 ATTTTTCTCC
*
23853258 TAAAATTT-AATTTAATTTAATTATT
1 TAAAATTTCAATTT-ATTGAATTATT
23853283 TAAAATTTCAATTTATTGAATTATT
1 TAAAATTTCAATTTATTGAATTATT
23853308 AATATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TAAAATTTCAATTTATTGAATTATT
Found at i:23854402 original size:16 final size:16
Alignment explanation
Indices: 23854381--23854418 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
23854371 CAAATATTTA
23854381 CATATCATCTTTTGGT
1 CATATCATCTTTTGGT
23854397 CATATCATCTTTTGGT
1 CATATCATCTTTTGGT
23854413 CATATC
1 CATATC
23854419 TTAAGAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (16 bp):
CATATCATCTTTTGGT
Found at i:23855045 original size:50 final size:50
Alignment explanation
Indices: 23854978--23855256 Score: 285
Period size: 50 Copynumber: 5.5 Consensus size: 50
23854968 ACTACCAATA
* * ** * * *
23854978 CCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTGCCAACG
* ** * *
23855028 CCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTGCCAACG
*
23855078 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTGCCAACG
* * * * *
23855128 CCATGTCCTAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCTACG
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTGCCAACG
** *
23855178 CCATGTCCCAGACA---TCTTACATGAGACCTCTCATAATCTCAATTATGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTC---ATCT--A-GGTGCCAACG
*
23855231 CCATGTCCCAGAAATGGTCTTACATG
1 CCATGTCCCAGACATGGTCTTACATG
23855257 GGATCTCATC
Statistics
Matches: 190, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
47 17 0.09
50 145 0.76
53 19 0.10
56 9 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGGTGCCAACG
Found at i:23855095 original size:100 final size:100
Alignment explanation
Indices: 23854978--23855212 Score: 314
Period size: 100 Copynumber: 2.4 Consensus size: 100
23854968 ACTACCAATA
* * ** * *
23854978 CCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCCAAACAT
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAAACAT
* *
23855043 GGTCTTACGGGGGACCTCTCATCTTGGTGCCAACG
66 GGTCTTACAGGGGACCTCTCATCTCGGTGCCAACG
* * * *
23855078 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGACAT
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAAACAT
* * *
23855143 GGTCTTACATGGGACCTCTCGTCTCGGTGCCTACG
66 GGTCTTACAGGGGACCTCTCATCTCGGTGCCAACG
23855178 CCATGTCCCAGACA---TCTTACATGAGACCTCTCATA
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATA
23855213 ATCTCAATTA
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
97 20 0.17
100 99 0.83
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.26
Consensus pattern (100 bp):
CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAAACAT
GGTCTTACAGGGGACCTCTCATCTCGGTGCCAACG
Found at i:23857168 original size:12 final size:11
Alignment explanation
Indices: 23857142--23857168 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23857132 TTACCGTTTG
23857142 TTTTTATTCAA
1 TTTTTATTCAA
23857153 TTTTTATTCAA
1 TTTTTATTCAA
23857164 TTTTT
1 TTTTT
23857169 GATGATTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTATTCAA
Found at i:23859721 original size:19 final size:20
Alignment explanation
Indices: 23859679--23859721 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
23859669 TCATGCTTTC
*
23859679 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
23859699 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
23859717 TATTC
1 TATTC
23859722 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:23859966 original size:51 final size:50
Alignment explanation
Indices: 23859849--23860045 Score: 175
Period size: 51 Copynumber: 3.9 Consensus size: 50
23859839 ATCAATGATG
* * * * * *
23859849 TCCAGTTCACATTGTAGCCTACACATAATACTACACATGTGACCATTACCA-
1 TCCAGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA--AACAT
* *
23859900 TCC-GATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAAC-T
1 TCCAG-TACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAACAT
* * * * * *
23859950 ATCCAGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCCATCAT
1 -TCCAGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACAT
* * *
23860001 TCCGGTACACGTAGTAGCCTGCACAAAGTACTACACACGTGACCA
1 TCCAGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA
23860046 TCGCTTTCAG
Statistics
Matches: 116, Mismatches: 24, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
50 43 0.37
51 70 0.60
52 3 0.03
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.22
Consensus pattern (50 bp):
TCCAGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACAT
Found at i:23862898 original size:26 final size:27
Alignment explanation
Indices: 23862860--23862927 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 27
23862850 CTTTTATATT
23862860 AATCATTTAATAATAAAATAATACTAAA
1 AATC-TTTAATAATAAAATAATACTAAA
23862888 AATCTTAATAATAATAAAATAATACTAAA
1 AATCTT--TAATAATAAAATAATACTAAA
23862917 AATC-TTAATAA
1 AATCTTTAATAA
23862928 AATATTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.16
27 2 0.05
28 5 0.13
29 25 0.66
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.32
Consensus pattern (27 bp):
AATCTTTAATAATAAAATAATACTAAA
Found at i:23862905 original size:29 final size:29
Alignment explanation
Indices: 23862867--23862931 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
23862857 ATTAATCATT
23862867 TAATAATAAAATAATACTAAAAATCTTAA
1 TAATAATAAAATAATACTAAAAATCTTAA
23862896 TAATAATAAAATAATACTAAAAATCTTAA
1 TAATAATAAAATAATACTAAAAATCTTAA
23862925 TAA-AATA
1 TAATAATA
23862932 TTAATTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.11
29 32 0.89
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (29 bp):
TAATAATAAAATAATACTAAAAATCTTAA
Found at i:23864155 original size:111 final size:111
Alignment explanation
Indices: 23863961--23864178 Score: 427
Period size: 111 Copynumber: 2.0 Consensus size: 111
23863951 GCGATCCTAA
23863961 CCAGACGACGGCTAATGGACATATAATTGAAATGTGCATGCTCAATTTAGATCCTAACCCGATTA
1 CCAGACGACGGCTAATGGACATATAATTGAAATGTGCATGCTCAATTTAGATCCTAACCCGATTA
23864026 AATTAGAGGTTGCATAACAACTCTGACCAAGCTCTGTTATCTACAT
66 AATTAGAGGTTGCATAACAACTCTGACCAAGCTCTGTTATCTACAT
23864072 CCAGACGACGGCTAATGGACATATAATTGAAATGTGCATGCTCAATTTAGATCCTAACCCGATTA
1 CCAGACGACGGCTAATGGACATATAATTGAAATGTGCATGCTCAATTTAGATCCTAACCCGATTA
*
23864137 AATTGGAGGTTGCATAACAACTCTGACCAAGCTCTGTTATCT
66 AATTAGAGGTTGCATAACAACTCTGACCAAGCTCTGTTATCT
23864179 GCATAGTTTT
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (111 bp):
CCAGACGACGGCTAATGGACATATAATTGAAATGTGCATGCTCAATTTAGATCCTAACCCGATTA
AATTAGAGGTTGCATAACAACTCTGACCAAGCTCTGTTATCTACAT
Found at i:23867888 original size:54 final size:54
Alignment explanation
Indices: 23867808--23867913 Score: 212
Period size: 54 Copynumber: 2.0 Consensus size: 54
23867798 ATTTGTCAAG
23867808 AATATAATTGGGAAATGAAGATGAAAACAAGAAACTTATTAAGGAAGAATTCAT
1 AATATAATTGGGAAATGAAGATGAAAACAAGAAACTTATTAAGGAAGAATTCAT
23867862 AATATAATTGGGAAATGAAGATGAAAACAAGAAACTTATTAAGGAAGAATTC
1 AATATAATTGGGAAATGAAGATGAAAACAAGAAACTTATTAAGGAAGAATTC
23867914 CTTGATGAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.52, C:0.06, G:0.19, T:0.24
Consensus pattern (54 bp):
AATATAATTGGGAAATGAAGATGAAAACAAGAAACTTATTAAGGAAGAATTCAT
Found at i:23869402 original size:20 final size:22
Alignment explanation
Indices: 23869364--23869403 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23869354 ATACAATATT
23869364 AAAAATGCTAACTAAAATGTCC
1 AAAAATGCTAACTAAAATGTCC
23869386 AAAAATGC-AAC-AAAATGT
1 AAAAATGCTAACTAAAATGT
23869404 ACTTAAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.55, C:0.15, G:0.10, T:0.20
Consensus pattern (22 bp):
AAAAATGCTAACTAAAATGTCC
Found at i:23878010 original size:21 final size:22
Alignment explanation
Indices: 23877984--23878029 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
23877974 TTAAAAACAA
23877984 ATTAAACACTTAAA-TAAATTT
1 ATTAAACACTTAAACTAAATTT
* *
23878005 ATTAAATACTTAAACTAATTTT
1 ATTAAACACTTAAACTAAATTT
23878027 ATT
1 ATT
23878030 CCAGCAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTAAACACTTAAACTAAATTT
Found at i:23878246 original size:23 final size:22
Alignment explanation
Indices: 23878203--23878246 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
23878193 ATCAAAGTCA
23878203 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
23878226 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
23878247 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:23878395 original size:45 final size:45
Alignment explanation
Indices: 23878322--23878503 Score: 287
Period size: 45 Copynumber: 4.1 Consensus size: 45
23878312 AATAGATACA
* * * *
23878322 CGGTGG-ATCAGCACACAGC-ACCACCTTTATAGTCAATGATACT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
* *
23878365 CAGTGGAATCAGTACATAGCAACCACCTTTATAATCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
23878410 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
*
23878455 CGGTGGAATCAGCGCATAGCAACCACCTTTATAATCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
23878500 CGGT
1 CGGT
23878504 ACACGTAGTA
Statistics
Matches: 128, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
43 5 0.04
44 11 0.09
45 112 0.88
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
Found at i:23897649 original size:15 final size:16
Alignment explanation
Indices: 23897615--23897656 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
23897605 AGCAACCGTT
23897615 TCTTTTCTTCTCTTTC
1 TCTTTTCTTCTCTTTC
23897631 TCTTTTCTT-T-TTCTC
1 TCTTTTCTTCTCTT-TC
23897646 TCTTTTCTTCT
1 TCTTTTCTTCT
23897657 TAAATTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 12 0.50
16 10 0.42
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TCTTTTCTTCTCTTTC
Found at i:23897652 original size:22 final size:21
Alignment explanation
Indices: 23897613--23897654 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
23897603 CCAGCAACCG
23897613 TTTCTTTTCTTCTCTTTCTCT
1 TTTCTTTTCTTCTCTTTCTCT
23897634 TTTCTTTT-TCTCTCTTT-TCT
1 TTTCTTTTCT-TCTCTTTCTCT
23897654 T
1 T
23897655 CTTAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTCTTTTCTTCTCTTTCTCT
Found at i:23906107 original size:27 final size:27
Alignment explanation
Indices: 23906079--23906419 Score: 418
Period size: 27 Copynumber: 12.6 Consensus size: 27
23906069 TACCCTATGG
*
23906079 GGGTATTTCGATAATTTTACCCATCGG
1 GGGTATTTCGATAATTTTACCCATCGA
* *
23906106 GGGTATTTCGATAATTTTACCCTTCGG
1 GGGTATTTCGATAATTTTACCCATCGA
*
23906133 GGGCATTTC-AGTAATTTTACCCATCGA
1 GGGTATTTCGA-TAATTTTACCCATCGA
* * **
23906160 AGGTATTTCGGTAATTTTACCCATTAA
1 GGGTATTTCGATAATTTTACCCATCGA
* *
23906187 GGGTATTTCGACAATTTTACCCATTGA
1 GGGTATTTCGATAATTTTACCCATCGA
*
23906214 AGGTATTTCGATAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
23906241 GGGTATTTC-AGTAATTTTACCCATCGA
1 GGGTATTTCGA-TAATTTTACCCATCGA
* *
23906268 GGGTATTTCAATAGTTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
* * *
23906295 GGGTATTTTGGTAACTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
* * *
23906322 GGGTATTT-TAGTAATTTGACCCATTGA
1 GGGTATTTCGA-TAATTTTACCCATCGA
* *
23906349 GGGCATTTCAATAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
* *
23906376 GGGTATTTCGGTAATTTTACCTATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
*
23906403 GGGCATTTCGATAATTT
1 GGGTATTTCGATAATTT
23906420 AGGCTCATTA
Statistics
Matches: 270, Mismatches: 38, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.01
27 266 0.99
28 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCCATCGA
Found at i:23911037 original size:31 final size:31
Alignment explanation
Indices: 23911002--23911060 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
23910992 CAACCAAGCC
23911002 ACTTAAATAAAAACTTTCAAATAATTCAGTG
1 ACTTAAATAAAAACTTTCAAATAATTCAGTG
* * *
23911033 ACTTAAATGAAAACTTTCGAATAGTTCA
1 ACTTAAATAAAAACTTTCAAATAATTCA
23911061 ATGGTCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAATTCAGTG
Found at i:23913178 original size:5 final size:6
Alignment explanation
Indices: 23913164--23913188 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23913154 TTCACCGAAA
23913164 TTTTGT TTTTGT TTTTGT TTTTGT T
1 TTTTGT TTTTGT TTTTGT TTTTGT T
23913189 AAAACAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTGT
Found at i:23913247 original size:9 final size:9
Alignment explanation
Indices: 23913233--23913287 Score: 62
Period size: 10 Copynumber: 6.2 Consensus size: 9
23913223 TAATGTTCAT
23913233 TTAACCAAA
1 TTAACCAAA
23913242 TTAACCAAA
1 TTAACCAAA
23913251 TT-A--AAA
1 TTAACCAAA
23913257 TTAACCGAAA
1 TTAACC-AAA
23913267 TTAACCAAAA
1 TTAACC-AAA
*
23913277 TTAACCGAA
1 TTAACCAAA
23913286 TT
1 TT
23913288 GGTAATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 5 0.12
7 1 0.03
8 1 0.03
9 15 0.38
10 18 0.45
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.25
Consensus pattern (9 bp):
TTAACCAAA
Found at i:23913259 original size:15 final size:16
Alignment explanation
Indices: 23913239--23913270 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
23913229 TCATTTAACC
23913239 AAATTAACC-AAATTA
1 AAATTAACCGAAATTA
23913254 AAATTAACCGAAATTA
1 AAATTAACCGAAATTA
23913270 A
1 A
23913271 CCAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
AAATTAACCGAAATTA
Found at i:23913269 original size:25 final size:25
Alignment explanation
Indices: 23913233--23913280 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
23913223 TAATGTTCAT
23913233 TTAACCAAATTAACC-AAATTAAAA
1 TTAACCAAATTAACCAAAATTAAAA
23913257 TTAACCGAAATTAACCAAAATTAA
1 TTAACC-AAATTAACCAAAATTAA
23913281 CCGAATTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.27
25 9 0.41
26 7 0.32
ACGTcount: A:0.56, C:0.17, G:0.02, T:0.25
Consensus pattern (25 bp):
TTAACCAAATTAACCAAAATTAAAA
Found at i:23922583 original size:22 final size:22
Alignment explanation
Indices: 23922555--23922600 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
23922545 CAATTCTTTC
23922555 TACACTCTCCCTCAGGTTGATT
1 TACACTCTCCCTCAGGTTGATT
23922577 TACACTCTCCCTCAGGTTGATT
1 TACACTCTCCCTCAGGTTGATT
23922599 TA
1 TA
23922601 AAAATATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (22 bp):
TACACTCTCCCTCAGGTTGATT
Found at i:23926310 original size:28 final size:28
Alignment explanation
Indices: 23926253--23926310 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
23926243 GTCGAGTCCT
* *
23926253 AAGGTTTCAATCTCCTTTTGATGAATTG
1 AAGGTTTCAATCTCCTTTTAATGAACTG
* *
23926281 AAGGTTTCAGTCT-CTTTTCAATGAGCTG
1 AAGGTTTCAATCTCCTTTT-AATGAACTG
23926309 AA
1 AA
23926311 TCAATCCCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (28 bp):
AAGGTTTCAATCTCCTTTTAATGAACTG
Found at i:23935287 original size:25 final size:24
Alignment explanation
Indices: 23935241--23935287 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
23935231 TATACATAGA
*
23935241 TTTTTTTTTATTTTCCATTTGAGT
1 TTTTTTTTTATTTTCCAGTTGAGT
23935265 TTTTTGTTTTATTTAT-CAGTTGA
1 TTTTT-TTTTATTT-TCCAGTTGA
23935288 AAACCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 14 0.70
26 1 0.05
ACGTcount: A:0.15, C:0.06, G:0.11, T:0.68
Consensus pattern (24 bp):
TTTTTTTTTATTTTCCAGTTGAGT
Found at i:23947584 original size:49 final size:49
Alignment explanation
Indices: 23947510--23947692 Score: 165
Period size: 51 Copynumber: 3.7 Consensus size: 49
23947500 GATAACAATA
*
23947510 TGCCAAAGCCATATCCCAGACATGGTTTTACATGGGATGTT-TCATGTAC
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGA-GTTCTCATGTAC
* * *
23947559 TGCCAACGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAT-C
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATGTAC
* * * ** ** *
23947607 GATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGGACCTCTCATCT-C
1 --TGCCAAAGCCATATCCCAGACATGGTCTTAC-ATGGGAGTTCTCATGTAC
* *
23947658 GGTGCCAACGCCATGTCCCAGACATGGTCTTACAT
1 --TGCCAAAGCCATATCCCAGACATGGTCTTACAT
23947693 AGGACCTCTC
Statistics
Matches: 112, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
48 4 0.04
49 39 0.35
50 27 0.24
51 42 0.38
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (49 bp):
TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATGTAC
Found at i:23947675 original size:51 final size:50
Alignment explanation
Indices: 23947510--23947807 Score: 294
Period size: 50 Copynumber: 5.8 Consensus size: 50
23947500 GATAACAATA
* * * ** * *
23947510 TGCCAAAGCCATATCCCAGACATGGTTTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** * *
23947559 TGCCAACGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
23947609 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGG
* * *
23947660 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
23947710 TGCCAATGTCATGTCCCAAACATGGTCGTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
*
23947765 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23947808 TTACCCAAAT
Statistics
Matches: 207, Mismatches: 33, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
48 1 0.00
49 40 0.19
50 80 0.39
51 42 0.20
53 4 0.02
55 2 0.01
56 38 0.18
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:23947685 original size:101 final size:103
Alignment explanation
Indices: 23947559--23947807 Score: 297
Period size: 101 Copynumber: 2.4 Consensus size: 103
23947549 TTTCATGTAC
* * ** *
23947559 TGCCAACGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGATGCCCATGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAATGCCATGTC
* * *
23947624 CCAGACATGGTCTTACGGGGGGACCTCTC-ATCTC-GG-
66 CCAAACATGGTCGTAC-AGGGGACCTCTCAATCTCAGGA
* * * * *
23947660 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCGTCTCGGTGCCAATGTCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAATGCCATGTC
*
23947725 CCAAACATGGTCGTACATGGGACCTCTCATGATCTCAAGGA
66 CCAAACATGGTCGTACAGGGGACCTCTCA--ATCTC-AGGA
* *
23947766 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23947808 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
100 10 0.08
101 69 0.55
103 5 0.04
105 2 0.02
106 39 0.31
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (103 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAATGCCATGTC
CCAAACATGGTCGTACAGGGGACCTCTCAATCTCAGGA
Found at i:23957712 original size:44 final size:44
Alignment explanation
Indices: 23957652--23958098 Score: 321
Period size: 44 Copynumber: 10.1 Consensus size: 44
23957642 CCACAAATCC
*
23957652 TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
* * * * ** *
23957696 TATCTGCCTAAAGTTGCAGTGGAGCAGACTGAAGAAAGTAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAGTCT
* * * * * *
23957741 TAT-TCCCTTGAAGTTGCAGTTGAGTAGACTGAAGATGGA-AAATCT
1 TATCTCCC-TGAAGTTGCAGTGGAGCAGATTAAAG-T-TACAAGTCT
* * * *
23957786 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGATA-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AGTCT
* *
23957830 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
* * * * * **
23957874 TATCTCCCTGAAGTTGTAGTAGAGTAGACTGAAGAAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAGTCT
* * * * *
23957919 TATCCCCCTGATGTTGCAGTGG-GACAGACTAAAGATGATGAA-TCT
1 TATCTCCCTGAAGTTGCAGTGGAG-CAGATTAAAG-TTA-CAAGTCT
* * * * * ** * *
23957964 TATCTTCCTAAAGTTGCAATGAAGTAGATTAAAGCCA-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AGTCT
* * * * *
23958008 TATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGTTACAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
** *
23958052 TATCTCTTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
23958096 TAT
1 TAT
23958099 TGAAGAAAAC
Statistics
Matches: 315, Mismatches: 74, Indels: 28
0.76 0.18 0.07
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 178 0.57
45 124 0.39
46 8 0.03
47 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCT
Found at i:23957965 original size:178 final size:178
Alignment explanation
Indices: 23957647--23958076 Score: 542
Period size: 178 Copynumber: 2.4 Consensus size: 178
23957637 TGAAACCACA
* * *
23957647 AATCCTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTGCCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTG
* * * * * * *
23957712 CAGTGGAGCAGACTGAAGAAAGTAAGTCTTATTCCCTTGAAGTTGCAGTTGAGTAGACTGAAGAT
66 CAGTAGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTAAAGAT
* * *
23957777 GGAAAATCTTATCTCCCTGAAGTTGCAGT-AGAGCAGATTAAAGATAAT
131 GGAAAATCTTATCTCCCTAAAGTTGCAATGA-AGCAGATTAAAGACAAT
* *
23957825 AATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTG
* * *
23957890 TAGTAGAGTAGACTGAAGAAAGCAAGTCTTATCCCCCTGATGTTGCAGTGG-GACAGACTAAAGA
66 CAGTAGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGAG-CAGACTAAAGA
* * * *
23957954 T-GATGAATCTTATCTTCCTAAAGTTGCAATGAAGTAGATTAAAGCCAAT
130 TGGA-AAATCTTATCTCCCTAAAGTTGCAATGAAGCAGATTAAAGACAAT
* * * * * **
23958003 AATCCTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGTTACAAATCCTATCTCTTTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTG
*
23958068 CAGTGGAGC
66 CAGTAGAGC
23958077 GGATTAAAGT
Statistics
Matches: 215, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
177 3 0.01
178 211 0.98
179 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (178 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTG
CAGTAGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTAAAGAT
GGAAAATCTTATCTCCCTAAAGTTGCAATGAAGCAGATTAAAGACAAT
Found at i:23958358 original size:42 final size:44
Alignment explanation
Indices: 23958247--23958365 Score: 143
Period size: 44 Copynumber: 2.8 Consensus size: 44
23958237 GATCATGGCA
*
23958247 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
* * * **
23958291 AATCCTATCTACCTGAAGTTGTAGTGGAGCGGATTAAAG-TGA-
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
* * *
23958333 AGTCTTATCTCCCTAAAGTTATAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
23958366 CTGAAGATAG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
42 27 0.43
43 1 0.02
44 35 0.56
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
Found at i:23958533 original size:225 final size:221
Alignment explanation
Indices: 23958109--23958538 Score: 540
Period size: 225 Copynumber: 1.9 Consensus size: 221
23958099 TGAAGAAAAC
* * * ** *
23958109 AAGTCTTATCCCCCTGAAGTTGCAGTGGGGAAGACTAAAGATAGTGAATCTCATTTTCCTGAAGC
1 AAGTCTTATCCCCCTAAAGTTACAGTGGAGAAGACTAAAGATAGCAAATCTCATTTCCCTGAAGC
* * * *
23958174 TGCAATGGAACAGATTAAAGCTATAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGA
66 TGCAATGGAACAGATCAAAGCTATAAATCAAAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGA
*
23958239 TCATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTACC
131 TCACGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--CAATAATCCTATCTACC
23958304 TGAAGTTGTAGTGGAGCGGATTAAAGTG
194 TGAAGTTGTAGTGGAGCGGATTAAAGTG
* * * * *
23958332 AAGTCTTATCTCCCTAAAGTTATAGTGGAGCAGACTGAAGATAGCAAATCTCGTTTCCCTGAAGA
1 AAGTCTTATCCCCCTAAAGTTACAGTGGAGAAGACTAAAGATAGCAAATCTCATTTCCCTGAAG-
* * * * *
23958397 TTGCAGTGTAATAGATCAAAGCTATAAATCATAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA
65 CTGCAATGGAACAGATCAAAGCTATAAATCA-AAAATCTTATCTCTCTAAAGTTGCAGTAGAGCA
* * * *
23958462 GATCACGTCAAA-CTTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAA-ATATCAATCTTATC
129 GATCACGGCAAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAACA-AT-AATCCTATC
*
23958525 TCCCTGAAGTTGTA
190 TACCTGAAGTTGTA
23958539 ATGAATCAGA
Statistics
Matches: 175, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
223 54 0.31
224 29 0.17
225 89 0.51
226 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (221 bp):
AAGTCTTATCCCCCTAAAGTTACAGTGGAGAAGACTAAAGATAGCAAATCTCATTTCCCTGAAGC
TGCAATGGAACAGATCAAAGCTATAAATCAAAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGA
TCACGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACAATAATCCTATCTACCTG
AAGTTGTAGTGGAGCGGATTAAAGTG
Found at i:23958553 original size:44 final size:44
Alignment explanation
Indices: 23958476--23958579 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
23958466 ACGTCAAACT
* * * *
23958476 TTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAAATA-TCAATC
1 TTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAAATACT-AATC
* * **
23958520 TTATCTCCCTGAAGTTGTAATGAATCAGATTGAAGCTACTAATC
1 TTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAAATACTAATC
*
23958564 CTATCTCCCTGAAGTT
1 TTATCTCCCTGAAGTT
23958580 TCAGTGGAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 49 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAAATACTAATC
Found at i:23958821 original size:89 final size:89
Alignment explanation
Indices: 23958677--23958948 Score: 343
Period size: 89 Copynumber: 3.1 Consensus size: 89
23958667 AAAGTTGCAT
* * *
23958677 CGGAGCAGACTAAAGATAACATATATTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGACACC
1 CGGAGCAGACTAAAGATAGCAGATATTGTCTTCCTGTATTGGCAGCGAAGCAGATCAAAGACACC
23958742 AGCCTTGCCTCCCTGGGTTTGTAG
66 AGCCTTGCCTCCCTGGGTTTGTAG
* * *
23958766 CGGAGCAGACTAAAGATAGCAGATTTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAGACACC
1 CGGAGCAGACTAAAGATAGCAGATATTGTCTTCCTGTATTGGCAGCGAAGCAGATCAAAGACACC
*
23958831 AGCCTTGCCTCCCTGAGTTTGTAG
66 AGCCTTGCCTCCCTGGGTTTGTAG
* * * * * * *
23958855 CGGAGTC-GACCGAAA-ATAGCAGATCTTGTCTTCTTGTACTAGCAGTGAAGCAGATCAAAAACA
1 CGGAG-CAGA-CTAAAGATAGCAGATATTGTCTTCCTGTATTGGCAGCGAAGCAGATCAAAGACA
* *
23958918 CTAGCCTTGCCTCTCTGAGG-TTGTAG
64 CCAGCCTTGCCTCCCTG-GGTTTGTAG
*
23958944 TGGAG
1 CGGAG
23958949 TAGGTTGAAG
Statistics
Matches: 160, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
89 154 0.96
90 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (89 bp):
CGGAGCAGACTAAAGATAGCAGATATTGTCTTCCTGTATTGGCAGCGAAGCAGATCAAAGACACC
AGCCTTGCCTCCCTGGGTTTGTAG
Found at i:23959096 original size:132 final size:131
Alignment explanation
Indices: 23958942--23959353 Score: 529
Period size: 131 Copynumber: 3.1 Consensus size: 131
23958932 CTGAGGTTGT
*
23958942 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGG
1 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGG
* * *
23959007 CAAATCTTTTCTTCCCAAGGTAGTAGGAAAGCAGATTTAAGCCACCAGTCCTATCTCCTTAAGCA
66 CGAATCTTATCTTCCCGAGGTAGTAGG-AAGCAGATTTAAGCCACCAGTCCTATCTCCTTAAGCA
23959072 GC
130 GC
* * * * *
23959074 AGTGGAGTAGGTTGAAGATTGTAGGTCCTGTCTCCCTAAGTAGTAGTGAAGTAGATTGAAGACGA
1 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGG
* * * * *
23959139 TGAATCTTATCTTCCCGAGATAGTAGGAAGCGGATTTAAGCCACCAGTCCTATCTCCCTGAGCAG
66 CGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTTAAGCAG
*
23959204 T
131 C
* **
23959205 AGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAACAGATTAAAGACGG
1 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGG
** * ** * *
23959270 CGAGGCGTATCTTCTTGAGGTAGTAGGGAAGCAAATTTAAGCCACCAG-CCTTATCTCCCTGAAG
66 CGAATCTTATCTTCCCGAGGTAGTA-GGAAGCAGATTTAAGCCACCAGTCC-TATCT-CCTTAAG
**
23959334 TTGC
128 CAGC
*
23959338 AGTGGAGCAGGTTGAA
1 AGTGGAGTAGGTTGAA
23959354 ATTACCAATT
Statistics
Matches: 238, Mismatches: 39, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
131 112 0.47
132 106 0.45
133 20 0.08
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (131 bp):
AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGG
CGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTTAAGCAG
C
Found at i:23959234 original size:131 final size:131
Alignment explanation
Indices: 23958940--23959331 Score: 527
Period size: 132 Copynumber: 3.0 Consensus size: 131
23958930 CTCTGAGGTT
* *
23958940 GTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAAGAC
1 GTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGAAGTAGATTAAAGAC
* * * * *
23959005 GGCAAATCTTTTCTTCCCAAGGTAGTAGGAAAGCAGATTTAAGCCACCAGTCCTATCTCCTTAAG
66 GGCGAATCTTATCTTCCCGAGGTAGTAGG-AAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
23959070 CA
130 CA
* * * *
23959072 GCAGTGGAGTAGGTTGAAGATTGTAGGTCCTGTCTCCCTAAGTAGTAGTGAAGTAGATTGAAGAC
1 GTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGAAGTAGATTAAAGAC
** * *
23959137 GATGAATCTTATCTTCCCGAGATAGTAGGAAGCGGATTTAAGCCACCAGTCCTATCTCCCTGAGC
66 GGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGC
23959202 A
131 A
* *
23959203 GTAGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAA-CAGATTAAAGA
1 GTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGT-GAAGTAGATTAAAGA
** * ** *
23959267 CGGCGAGGCGTATCTTCTTGAGGTAGTAGGGAAGCAAATTTAAGCCACCAG-CCTTATCTCCCTG
65 CGGCGAATCTTATCTTCCCGAGGTAGTA-GGAAGCAGATTTAAGCCACCAGTCC-TATCTCCCTG
23959331 A
128 A
23959332 AGTTGCAGTG
Statistics
Matches: 226, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
131 110 0.49
132 116 0.51
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (131 bp):
GTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGAAGTAGATTAAAGAC
GGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGC
A
Found at i:23959790 original size:17 final size:17
Alignment explanation
Indices: 23959768--23959819 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
23959758 ATGGAAACAT
23959768 AATCTT-GAAGGATATGC
1 AATCTTAGAA-GATATGC
23959785 AATCTTAGATATGATATGC
1 AATCTTAGA-A-GATATGC
*
23959804 AATATTAGAAGATATG
1 AATCTTAGAAGATATG
23959820 ATTTTGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 12 0.39
18 3 0.10
19 16 0.52
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (17 bp):
AATCTTAGAAGATATGC
Found at i:23960778 original size:35 final size:35
Alignment explanation
Indices: 23960734--23960801 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
23960724 TTGCCTTATA
23960734 TTTTTTATTTTATACTATTTGTTTGAAATTCATAT
1 TTTTTTATTTTATACTATTTGTTTGAAATTCATAT
*
23960769 TTTTTTATTTTATACTATTTGTTTTAAATTCAT
1 TTTTTTATTTTATACTATTTGTTTGAAATTCAT
23960802 TGGTCTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (35 bp):
TTTTTTATTTTATACTATTTGTTTGAAATTCATAT
Found at i:23962233 original size:9 final size:9
Alignment explanation
Indices: 23962221--23962324 Score: 129
Period size: 9 Copynumber: 11.4 Consensus size: 9
23962211 AAAATAAAAA
23962221 AATTCGGGT
1 AATTCGGGT
23962230 AATTCGGGT
1 AATTCGGGT
*
23962239 ATTTTTC-GGT
1 A--ATTCGGGT
**
23962249 AATTCGATT
1 AATTCGGGT
*
23962258 AATTCGGTT
1 AATTCGGGT
*
23962267 AATTTGGGT
1 AATTCGGGT
*
23962276 AATTCGGTT
1 AATTCGGGT
23962285 AATTCGGGT
1 AATTCGGGT
23962294 AATTCGGGT
1 AATTCGGGT
23962303 AATTCGGGT
1 AATTCGGGT
23962312 AATTCGGGT
1 AATTCGGGT
23962321 AATT
1 AATT
23962325 TTTAACCAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
8 3 0.04
9 72 0.88
10 4 0.05
11 3 0.04
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:23962501 original size:12 final size:12
Alignment explanation
Indices: 23962484--23962508 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23962474 AGTAATTTCG
23962484 GGTCGGTTAACC
1 GGTCGGTTAACC
23962496 GGTCGGTTAACC
1 GGTCGGTTAACC
23962508 G
1 G
23962509 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:23966441 original size:14 final size:14
Alignment explanation
Indices: 23966422--23966459 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
23966412 GTTTGCCAAT
*
23966422 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
23966436 AAAATGATTTCTGG
1 AAAATGATTTCCGG
23966450 AAAATGATTT
1 AAAATGATTT
23966460 ACATTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:23966467 original size:20 final size:20
Alignment explanation
Indices: 23966442--23966481 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23966432 CCGGAAAATG
23966442 ATTTCTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
23966462 ATTTCTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
23966482 TGAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
ATTTCTGGAAAATGATTTAC
Found at i:23966477 original size:34 final size:33
Alignment explanation
Indices: 23966429--23966492 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
23966419 AATAAAATGT
23966429 TTTCCGGAAAATGATTT-CTGGAAAATGATTTACA
1 TTTCCGGAAAATGATTTACT-GAAAAT-ATTTACA
*
23966463 TTTCTGGAAAATGATTTACTGAAAATATTT
1 TTTCCGGAAAATGATTTACTGAAAATATTT
23966493 TCTGGTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 22 0.79
35 2 0.07
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (33 bp):
TTTCCGGAAAATGATTTACTGAAAATATTTACA
Found at i:23966679 original size:18 final size:18
Alignment explanation
Indices: 23966656--23966691 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23966646 AATTTATTTA
23966656 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
23966674 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
23966692 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:23969101 original size:21 final size:20
Alignment explanation
Indices: 23969055--23969101 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
23969045 GACGGTTGAC
* *
23969055 GGAGATGACGGACGGAGATG
1 GGAGGTGACGAACGGAGATG
23969075 GTGAGGTGACGAACGGAGATG
1 G-GAGGTGACGAACGGAGATG
23969096 AGGAGG
1 -GGAGG
23969102 CAGAGGATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.30, C:0.09, G:0.51, T:0.11
Consensus pattern (20 bp):
GGAGGTGACGAACGGAGATG
Found at i:23970106 original size:22 final size:22
Alignment explanation
Indices: 23970037--23970138 Score: 82
Period size: 22 Copynumber: 4.6 Consensus size: 22
23970027 AGAACAGTAG
* *
23970037 GCACCGAAGTGCAAATC-ACTAA
1 GCACCAAAGTGCAAAACGA-TAA
* * *
23970059 GTACCAAAGAGCAAAAC-AGTAG
1 GCACCAAAGTGCAAAACGA-TAA
*
23970081 GCACTAAAGTGCAAAACGATAA
1 GCACCAAAGTGCAAAACGATAA
* * *
23970103 GCACCGAAGTGCGAAACGGTAA
1 GCACCAAAGTGCAAAACGATAA
*
23970125 GCACCAAAGCGCAA
1 GCACCAAAGTGCAA
23970139 GATGATAAAC
Statistics
Matches: 62, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
22 61 0.98
23 1 0.02
ACGTcount: A:0.44, C:0.24, G:0.23, T:0.10
Consensus pattern (22 bp):
GCACCAAAGTGCAAAACGATAA
Found at i:23972984 original size:84 final size:84
Alignment explanation
Indices: 23972896--23973134 Score: 338
Period size: 84 Copynumber: 2.8 Consensus size: 84
23972886 TACGTCTTTG
* *
23972896 TTTGGAAACAAAACAATATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
1 TTTGGAAACAAAATAAAATC-AATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
23972961 TTATTTAATTCAATTC-AAA
65 TTATTTAATTCAATTCTAAA
* * * * *
23972980 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTGAATCGGCAGGAATAAATCCCAAAACATATT
1 TTTGGAAACAAAATAAAATC-AATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
*
23973045 TTATTTAATTCTATTCTAAA
65 TTATTTAATTCAATTCTAAA
* * *
23973065 -TTGGAAACAAAATAAAATCAAGTAAAATCTTGTTAAATGGCGGGAATTAATCCCGAAAAAGATT
1 TTTGGAAACAAAATAAAATCAA-TAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
23973129 TTATTT
65 TTATTT
23973135 TACTTGTTTT
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
83 2 0.01
84 131 0.96
85 3 0.02
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.30
Consensus pattern (84 bp):
TTTGGAAACAAAATAAAATCAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATTT
TATTTAATTCAATTCTAAA
Found at i:23975642 original size:12 final size:12
Alignment explanation
Indices: 23975605--23975645 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
23975595 TAGAAATAAT
23975605 ATAAACAAACAA
1 ATAAACAAACAA
*
23975617 ACAAACAAACAA
1 ATAAACAAACAA
* *
23975629 ATAAATAAATAA
1 ATAAACAAACAA
23975641 ATAAA
1 ATAAA
23975646 AATCAATGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (12 bp):
ATAAACAAACAA
Found at i:23975906 original size:8 final size:10
Alignment explanation
Indices: 23975877--23975908 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
23975867 AAAGAAAAAT
23975877 ATATATATAA
1 ATATATATAA
23975887 ATATATATAA
1 ATATATATAA
23975897 AT-TATA-AA
1 ATATATATAA
23975905 ATAT
1 ATAT
23975909 GTGTTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.19
9 5 0.24
10 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATATATAA
Found at i:23976054 original size:24 final size:24
Alignment explanation
Indices: 23976027--23976098 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
23976017 TTACATGTAC
*
23976027 ATATA-AAAAAATAAATATATACAT
1 ATATATAAAAAATAAA-AAATACAT
**
23976051 ATATATAAATTATAAAAAATACAT
1 ATATATAAAAAATAAAAAATACAT
* *
23976075 ATATATAAAAAATAATAATTACAT
1 ATATATAAAAAATAAAAAATACAT
23976099 TATTGAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 32 0.80
25 8 0.20
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
ATATATAAAAAATAAAAAATACAT
Found at i:23998634 original size:39 final size:39
Alignment explanation
Indices: 23998591--23998669 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
23998581 AATGGTTTAT
23998591 TTTCATTTTCAGGCTTAAAAACAATCCAAAAACATAAAA
1 TTTCATTTTCAGGCTTAAAAACAATCCAAAAACATAAAA
*
23998630 TTTCATTTTTAGGCTTAAAAACAATCCAAAAACATAAAA
1 TTTCATTTTCAGGCTTAAAAACAATCCAAAAACATAAAA
23998669 T
1 T
23998670 CATCCTTCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.30
Consensus pattern (39 bp):
TTTCATTTTCAGGCTTAAAAACAATCCAAAAACATAAAA
Found at i:24004853 original size:53 final size:53
Alignment explanation
Indices: 24004777--24004884 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
24004767 CCATGGCAAC
* * * * * *
24004777 ATGTGATATGTGATTTCCGTATAAGACTATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATGAGATTTCCGTATAAAACCATAGCTAGGATATGGCATCAGTGTG
*
24004830 ATGTGATTATGAG-TTTCCGTATAAAACCATATCTAGGATATGGCATCAGTGTG
1 ATGTGA-TATGAGATTTCCGTATAAAACCATAGCTAGGATATGGCATCAGTGTG
24004883 AT
1 AT
24004885 ATGTGCTACT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 42 0.89
54 5 0.11
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (53 bp):
ATGTGATATGAGATTTCCGTATAAAACCATAGCTAGGATATGGCATCAGTGTG
Found at i:24007140 original size:37 final size:37
Alignment explanation
Indices: 24007089--24007164 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
24007079 TAGGCATCTT
* **
24007089 GTAACTCATTAAAACAATAAGGAATTTTGCTAGATGA
1 GTAACTCATCAAAACAATAAGGAATTGAGCTAGATGA
24007126 GTAACTCATCAAAACAATAAGGAATTGAGCTAGATGA
1 GTAACTCATCAAAACAATAAGGAATTGAGCTAGATGA
24007163 GT
1 GT
24007165 TACAAGTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.26
Consensus pattern (37 bp):
GTAACTCATCAAAACAATAAGGAATTGAGCTAGATGA
Found at i:24013124 original size:154 final size:152
Alignment explanation
Indices: 24012838--24013176 Score: 486
Period size: 154 Copynumber: 2.2 Consensus size: 152
24012828 NNNNNNTCCA
* * *
24012838 GGGAAAAAAATTCGAACAAATGGCTGAAATAAGAGTTTTTTTTTAAATTTATTTAAAAAACACAG
1 GGGAAAAAAA-TCGAACAAAAGGC-CAAATAAGAGTTTTTTTTTAAATTTATTTAAAAAACACAC
* *
24012903 TAAATTAATACATTTCAAACATAATGTGCTAAAATAATGTAAAATAATAAAATACGAAAATAATA
64 TAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
24012968 TATTTTTATTGAAAGTAATAAAATCC
129 TATTTTT-TT-AAAGTAATAAAATCC
* *
24012994 GGGAAAAAAATACGAACAAAGGGCCAAATAATG-GTTTTTTTTT-AATTTATTTTAAAAACACAC
1 GGGAAAAAAAT-CGAACAAAAGGCCAAATAA-GAGTTTTTTTTTAAATTTATTTAAAAAACACAC
*
24013057 TAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-GAAAATAGT
64 TAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-TACGAAAATAAT
*
24013121 ATATTTTTTTAAAGTAATAAAATTC
128 ATATTTTTTTAAAGTAATAAAATCC
*
24013146 GGGGAAAAAATCTGAACAAAAGGCCGAAATA
1 GGGAAAAAAATC-GAACAAAAGGCC-AAATA
24013177 CAAACATGTT
Statistics
Matches: 168, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
151 1 0.01
152 35 0.21
153 7 0.04
154 84 0.50
155 19 0.11
156 22 0.13
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (152 bp):
GGGAAAAAAATCGAACAAAAGGCCAAATAAGAGTTTTTTTTTAAATTTATTTAAAAAACACACTA
AATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATA
TTTTTTTAAAGTAATAAAATCC
Found at i:24026750 original size:18 final size:19
Alignment explanation
Indices: 24026711--24026753 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
24026701 AATTATAAAA
* *
24026711 AAAATTCAAATTAATTTTT
1 AAAATTCAAAATAATTTAT
24026730 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTAT
24026748 AAAATT
1 AAAATT
24026754 TCCAAAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAT
Found at i:24027347 original size:19 final size:18
Alignment explanation
Indices: 24027323--24027375 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
24027313 TTTCAAAAAA
*
24027323 AAAATTCAAAAAGGTTTTC
1 AAAATTCAAAAA-ATTTTC
24027342 AAAATTCAAAATAATTTTC
1 AAAATTCAAAA-AATTTTC
24027361 AAAATT--AAAAATTTT
1 AAAATTCAAAAAATTTT
24027376 TATAAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 6 0.19
17 3 0.09
19 22 0.69
20 1 0.03
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (18 bp):
AAAATTCAAAAAATTTTC
Done.