Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 202 of 228
Found at i:59316160 original size:41 final size:41
Alignment explanation
Indices: 59316133--59316286 Score: 290
Period size: 41 Copynumber: 3.8 Consensus size: 41
59316123 CTTATAGCTT
* *
59316133 GATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCT
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
59316174 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
59316215 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
59316256 GATTCAAATCACCGGCACGTAGCCTGCTAGG
1 GATTCAAATCACCGGCACGTAGCCTGCTAGG
59316287 CGCTTAGCCT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (41 bp):
GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
Found at i:59317876 original size:16 final size:19
Alignment explanation
Indices: 59317841--59317879 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
59317831 TATGTTTTGT
59317841 TTTATTATATTATACATTA
1 TTTATTATATTATACATTA
59317860 TTTATTA-ATT-TAC-TTA
1 TTTATTATATTATACATTA
59317876 TTTA
1 TTTA
59317880 ACCTTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 3 0.15
19 7 0.35
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTATATTATACATTA
Found at i:59322198 original size:14 final size:14
Alignment explanation
Indices: 59322167--59322234 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
59322157 AAGAATTAAA
** *
59322167 AAAATTGAGGATTA
1 AAAATTGAAAATTT
* *
59322181 AAAATTTAAAATTG
1 AAAATTGAAAATTT
59322195 AAAATT-AAAATTT
1 AAAATTGAAAATTT
*
59322208 GAAGATTGAAAATTT
1 -AAAATTGAAAATTT
*
59322223 -AAATTGGAAATT
1 AAAATTGAAAATT
59322235 GGGGATTGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
13 16 0.36
14 21 0.48
15 7 0.16
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (14 bp):
AAAATTGAAAATTT
Found at i:59322215 original size:21 final size:20
Alignment explanation
Indices: 59322181--59322235 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
59322171 TTGAGGATTA
*
59322181 AAAATTTAAAATTGAAAATT
1 AAAATTTGAAATTGAAAATT
59322201 AAAATTTGAAGATTGAAAATT
1 AAAATTTGAA-ATTGAAAATT
* *
59322222 TAAATTGGAAATTG
1 AAAATTTGAAATTG
59322236 GGGATTGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.35
Consensus pattern (20 bp):
AAAATTTGAAATTGAAAATT
Found at i:59322274 original size:28 final size:29
Alignment explanation
Indices: 59322243--59322307 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
59322233 TTGGGGATTG
*
59322243 AAGAATGAAG-ATTGAGAATTTAGGAAGA
1 AAGAATGAAGTATGGAGAATTTAGGAAGA
* *
59322271 AAGAATG-AGTATGGAGTATTTAGGAGGA
1 AAGAATGAAGTATGGAGAATTTAGGAAGA
59322299 AAGAATGAA
1 AAGAATGAA
59322308 TGTTTGAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.06
28 29 0.91
29 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.22
Consensus pattern (29 bp):
AAGAATGAAGTATGGAGAATTTAGGAAGA
Found at i:59322740 original size:21 final size:21
Alignment explanation
Indices: 59322716--59322755 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59322706 CACAAATTTT
59322716 TTTTATATTT-TTTAGTTTTAA
1 TTTTATATTTATTTA-TTTTAA
*
59322737 TTTTTTATTTATTTATTTT
1 TTTTATATTTATTTATTTT
59322756 GGAACCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTATATTTATTTATTTTAA
Found at i:59325059 original size:21 final size:21
Alignment explanation
Indices: 59325033--59325087 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
59325023 ACCATTGTTT
*
59325033 CTAATCTCACCGCTACA-GTA
1 CTAATCTCACCGCTACAGGAA
*
59325053 CTCAATCTCACCACTACAGGAA
1 CT-AATCTCACCGCTACAGGAA
59325075 CTAATCTCACCGC
1 CTAATCTCACCGC
59325088 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.07
21 24 0.80
22 4 0.13
ACGTcount: A:0.31, C:0.38, G:0.09, T:0.22
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGGAA
Found at i:59332560 original size:9 final size:9
Alignment explanation
Indices: 59332528--59332571 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
59332518 GTTTAATTCA
*
59332528 GTTAATTCG
1 GTTAATTTG
* *
59332537 GGTAATTCG
1 GTTAATTTG
*
59332546 GGTAATTTG
1 GTTAATTTG
59332555 GTTAATTTG
1 GTTAATTTG
59332564 GTTAATTT
1 GTTAATTT
59332572 TTAACCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.48
Consensus pattern (9 bp):
GTTAATTTG
Found at i:59332571 original size:18 final size:18
Alignment explanation
Indices: 59332521--59332571 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
59332511 TCAATTCGTT
* *
59332521 TAATTCAGTTAATTCGGG
1 TAATTCGGTTAATTTGGG
* *
59332539 TAATTCGGGTAATTTGGT
1 TAATTCGGTTAATTTGGG
*
59332557 TAATTTGGTTAATTT
1 TAATTCGGTTAATTT
59332572 TTAACCAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.25, C:0.06, G:0.22, T:0.47
Consensus pattern (18 bp):
TAATTCGGTTAATTTGGG
Found at i:59332749 original size:12 final size:12
Alignment explanation
Indices: 59332732--59332756 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59332722 TGTTATTTTG
59332732 GGTCGGTTAACC
1 GGTCGGTTAACC
59332744 GGTCGGTTAACC
1 GGTCGGTTAACC
59332756 G
1 G
59332757 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:59335935 original size:19 final size:18
Alignment explanation
Indices: 59335911--59335954 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
59335901 CATGAATATC
59335911 ATATTTTAAAAAAAGGAAA
1 ATATTTTAAAAAAAGG-AA
* * *
59335930 ATATTTCAAAATAAGGTA
1 ATATTTTAAAAAAAGGAA
59335948 ATATTTT
1 ATATTTT
59335955 GCGTTTGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.36
Consensus pattern (18 bp):
ATATTTTAAAAAAAGGAA
Found at i:59336342 original size:108 final size:107
Alignment explanation
Indices: 59335927--59336332 Score: 614
Period size: 108 Copynumber: 3.7 Consensus size: 107
59335917 TAAAAAAAGG
*
59335927 AAAATATTTCAAAATAAGGTAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
1 AAAAT-TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
* *
59335992 GGTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTA
65 GGTTTCGATTTCTCGTTCGACCAAATGGCTTAATATCCTTTTA
* *
59336035 AAAACTTTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCATAAGGTACT
1 AAAA-TTTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACT
* * *
59336100 GGGTTTCGATTTTTCGTTCCACCAAATGACTTAATATCCTTTTAA
64 GGGTTTCGATTTCTCGTTCGACCAAATGGCTTAATATCCTTTT-A
* * **
59336145 AAAATTTTAAAAATAAGGCAATACTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTTTTGG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
*
59336210 GTTTTGATTTCTCGTTCGACCAAATGGCTTAATATCCTTTTCA
66 GTTTCGATTTCTCGTTCGACCAAATGGCTTAATATCCTTTT-A
* * * *
59336253 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTCGGAAATTCGAGGAACGTGCTCTAAGGTGCTGG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
59336318 GTTTCGATTTCTCGT
66 GTTTCGATTTCTCGT
59336333 CTAACCAAAT
Statistics
Matches: 268, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
108 169 0.63
109 94 0.35
110 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (107 bp):
AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
GTTTCGATTTCTCGTTCGACCAAATGGCTTAATATCCTTTTA
Found at i:59340464 original size:21 final size:20
Alignment explanation
Indices: 59340440--59340491 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
59340430 AGTCAAAGTC
59340440 AAAATAGGA-AAAAAGAAAAAG
1 AAAA-AGGAGAAAAAG-AAAAG
*
59340461 AAAAAAGAAGAAAAAGAAAAG
1 -AAAAAGGAGAAAAAGAAAAG
59340482 AAAAAGGAGA
1 AAAAAGGAGA
59340492 GGTCAAGGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 9 0.33
21 8 0.30
22 10 0.37
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAAAGGAGAAAAAGAAAAG
Found at i:59340471 original size:16 final size:15
Alignment explanation
Indices: 59340448--59340485 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
59340438 TCAAAATAGG
59340448 AAAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAA
59340463 AAAAGAAGAAAAAGAA
1 AAAA-AAGAAAAAGAA
59340479 AAGAAAA
1 AA-AAAA
59340486 AGGAGAGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAGAA
Found at i:59340475 original size:11 final size:11
Alignment explanation
Indices: 59340449--59340487 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
59340439 CAAAATAGGA
59340449 AAAAAGAAAAAG
1 AAAAAG-AAAAG
*
59340461 AAAAA-AGAAG
1 AAAAAGAAAAG
59340471 AAAAAGAAAAG
1 AAAAAGAAAAG
59340482 AAAAAG
1 AAAAAG
59340488 GAGAGGTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.38
11 10 0.42
12 5 0.21
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:59341308 original size:9 final size:9
Alignment explanation
Indices: 59341296--59341328 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
59341286 CAAAAAAATG
59341296 ATGAAAAAA
1 ATGAAAAAA
59341305 ATG--AAAA
1 ATGAAAAAA
59341312 ATGAAAAAA
1 ATGAAAAAA
59341321 ATGAAAAA
1 ATGAAAAA
59341329 GTAAAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
ATGAAAAAA
Found at i:59341335 original size:16 final size:16
Alignment explanation
Indices: 59341296--59341328 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
59341286 CAAAAAAATG
59341296 ATGAAAAAAATGAAAA
1 ATGAAAAAAATGAAAA
59341312 ATGAAAAAAATGAAAA
1 ATGAAAAAAATGAAAA
59341328 A
1 A
59341329 GTAAAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
ATGAAAAAAATGAAAA
Found at i:59342847 original size:173 final size:176
Alignment explanation
Indices: 59342557--59343531 Score: 1053
Period size: 173 Copynumber: 5.6 Consensus size: 176
59342547 ATTGAAAACC
*
59342557 AAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTA
1 AAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTG
* * *
59342622 ACAGCGAAGCAGATCGAA-A-ACAAAGTCTTGCCTTCATTGGTTGCA-ATGGAGCTGGTTAAAGA
66 ACAGCGAAGCAGATCGAAGACACAAAGCCTTGCCTTC-TCGGTTG-AGATGGAGCTGGTTGAAGA
* * * * * *
59342684 -AGCAGATCTTGCTTTCTTGCATTAACAGCAAAGCAGATCGAAA-ACA
129 CAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAACACA
* * *
59342730 AAGCCTTACCTTCATTGGTTGCAATGGGGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTA
1 AAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTG
** * *
59342795 ACAATGAAGCAGATCGAA-A-ACAAAGCCTTGCCTTCATTGGTTGA-AGTGGAGCTGGTTAAAGA
66 ACAGCGAAGCAGATCGAAGACACAAAGCCTTGCCTTC-TCGGTTGAGA-TGGAGCTGGTTGAAGA
* * * * *
59342857 -AGCAGATCTTGCCTTCTTGAATTAACAGCGAAGCAGATCGAAA-ACA
129 CAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAACACA
* * *
59342903 AAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGATAAAAGATCTTGTCTTCCTGCATTG
1 AAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTG
* * * *
59342968 ACAGTGAAGCAGGTCGAAGACACAAA-CCTTGCCTTTCTCGGTTGTGATGGAGCTAGTTGAAGAC
66 ACAGCGAAGCAGATCGAAGACACAAAGCCTTGCC-TTCTCGGTTGAGATGGAGCTGGTTGAAGAC
*
59343032 AACAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACA
130 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAA-ACACA
* ** * * *
59343080 AA-CCTTGCCTTTC-TCGGTTGTGATGGAGCTAGTTGAAGACAACAGATCTTGCCTTCCTGCATT
1 AAGCCTTGCC-TTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATT
* * * *
59343143 GATAGCGAAGCGGGTCGAAGACACAAA-CCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGA
65 GACAGCGAAGCAGATCGAAGACACAAAGCCTTGCCT-TCTCGGTTGAGATGGAGCTGGTTGAAGA
* * *
59343207 CAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCAAAGACACA
129 CAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAA-ACACA
* * * *
59343256 AA-CCTTGCCTCTCTCAGTT-GTAGC-A-GGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTAC
1 AAGCCTTG-C-CT-TCA-TTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGC
* * *
59343317 ATTGACAGCGAAGCAGGTCAAAGACACAAA-CCTTGCCTCTCTCAGTTGTAGCA-GGAGCTGGTT
62 ATTGACAGCGAAGCAGATCGAAGACACAAAGCCTTGCCT-TCTCGGTTG-AG-ATGGAGCTGGTT
* * *
59343380 GAAGACAACAGATCTTGCCTTCCTGTATTGACAGTGAAGCAGGTCGAAGACACG
124 GAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAA-ACACA
** ** ** *
59343434 AA-CCTTGCCTCTC-TCAGTTGTGATGGAGCTGGTTGAAA-ACATTAGATCTTGCCTTCTTGCAT
1 AAGCCTTGCCT-TCATTGGTTGCAATGGAGCTGGTT-AAAGACAAAAGATCTTGCCTTCCTGCAT
* *
59343496 TGACAACGAAGCAGATCGAAGATAC-AAGCCTTGCCT
64 TGACAGCGAAGCAGATCGAAGACACAAAGCCTTGCCT
59343532 CCCTAAGCGG
Statistics
Matches: 709, Mismatches: 71, Indels: 40
0.86 0.09 0.05
Matches are distributed among these distances:
172 2 0.00
173 237 0.33
174 29 0.04
175 49 0.07
176 167 0.24
177 148 0.21
178 72 0.10
179 4 0.01
180 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (176 bp):
AAGCCTTGCCTTCATTGGTTGCAATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTG
ACAGCGAAGCAGATCGAAGACACAAAGCCTTGCCTTCTCGGTTGAGATGGAGCTGGTTGAAGACA
ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAACACA
Found at i:59343019 original size:88 final size:88
Alignment explanation
Indices: 59342580--59343531 Score: 1024
Period size: 88 Copynumber: 10.9 Consensus size: 88
59342570 ATTGGTTGCA
* * *
59342580 ATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-AC
1 ATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
* * **
59342643 AAAGTCTTGCC-TTCATTGGTTGCA
66 AAA-CCTTGCCTTTC-TCGGTTGTG
* * * * * *
59342667 ATGGAGCTGGTTAAAGA-AGCAGATCTTGCTTTCTTGCATTAACAGCAAAGCAGATCGAA-A-AC
1 ATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
* * **
59342729 AAAGCCTTACC-TTCATTGGTTGCA
66 AAA-CCTTGCCTTTC-TCGGTTGTG
* * * ** *
59342753 ATGGGGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTAACAATGAAGCAGATCGAA-A-AC
1 ATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
* *
59342816 AAAGCCTTGCC-TTCATTGGTTG-A
66 AAA-CCTTGCCTTTC-TCGGTTGTG
* * * * *
59342839 AGTGGAGCTGGTTAAAGA-AGCAGATCTTGCCTTCTTGAATTAACAGCGAAGCAGATCGAA-A-A
1 A-TGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACA
* *
59342901 CAAAGCCTTGCC-TTCATTGGTTG-C
65 CAAA-CCTTGCCTTTC-TCGGTTGTG
* * * *
59342925 AGTGGAGCTGGTTAAAGATAAAAGATCTTGTCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACA
1 A-TGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACA
59342990 CAAACCTTGCCTTTCTCGGTTGTG
65 CAAACCTTGCCTTTCTCGGTTGTG
* * *
59343014 ATGGAGCTAGTTGAAGACAACAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACAC
1 ATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
59343079 AAACCTTGCCTTTCTCGGTTGTG
66 AAACCTTGCCTTTCTCGGTTGTG
* * * *
59343102 ATGGAGCTAGTTGAAGACAACAGATCTTGCCTTCCTGCATTGATAGCGAAGCGGGTCGAAGACAC
1 ATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
*
59343167 AAACCTTGCCTCTCTCGGTTGTG
66 AAACCTTGCCTTTCTCGGTTGTG
* * * *
59343190 ATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCAAAGACAC
1 ATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
* *
59343255 AAACCTTGCCTCTCTCAGTTGTAG
66 AAACCTTGCCTTTCTCGGTTGT-G
* * *
59343279 CA-GGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCAAAGACA
1 -ATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACA
* *
59343343 CAAACCTTGCCTCTCTCAGTTGTAG
65 CAAACCTTGCCTTTCTCGGTTGT-G
* * *
59343368 CA-GGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGTATTGACAGTGAAGCAGGTCGAAGACA
1 -ATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACA
* * *
59343432 CGAACCTTGCCTCTCTCAGTTGTG
65 CAAACCTTGCCTTTCTCGGTTGTG
** * * * *
59343456 ATGGAGCTGGTTGAAA-ACATTAGATCTTGCCTTCTTGCATTGACAACGAAGCAGATCGAAGATA
1 ATGGAGCTGGTT-AAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACA
*
59343520 CAAGCCTTGCCT
65 CAAACCTTGCCT
59343532 CCCTAAGCGG
Statistics
Matches: 787, Mismatches: 67, Indels: 21
0.90 0.08 0.02
Matches are distributed among these distances:
86 159 0.20
87 126 0.16
88 321 0.41
89 180 0.23
90 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (88 bp):
ATGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
AAACCTTGCCTTTCTCGGTTGTG
Found at i:59343045 original size:44 final size:44
Alignment explanation
Indices: 59342995--59343222 Score: 189
Period size: 44 Copynumber: 5.2 Consensus size: 44
59342985 AGACACAAAC
59342995 CTTGCCTTTCTCGGTTGTGATGGAGCTAGTTGAAGACAACAGAT
1 CTTGCCTTTCTCGGTTGTGATGGAGCTAGTTGAAGACAACAGAT
* * ** * * * *
59343039 CTTGCCTTCCT-GCATTGACAGTGAAGC-AGGTCGAAGAC-ACAAAC
1 CTTGCCTTTCTCG-GTTGTGA-TGGAGCTA-GTTGAAGACAACAGAT
59343083 CTTGCCTTTCTCGGTTGTGATGGAGCTAGTTGAAGACAACAGAT
1 CTTGCCTTTCTCGGTTGTGATGGAGCTAGTTGAAGACAACAGAT
* ** ** * * *
59343127 CTTGCCTTCCT-GCAT-TGATAGCGAAGCGGGTCGAAGAC-ACAAAC
1 CTTGCCTTTCTCGGTTGTGAT-G-G-AGCTAGTTGAAGACAACAGAT
* * *
59343171 CTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTTCTCGGTTGTGATGGAGCTAGTTGAAGACAACAGAT
59343215 CTTGCCTT
1 CTTGCCTT
59343223 CCTACATTGA
Statistics
Matches: 138, Mismatches: 34, Indels: 24
0.70 0.17 0.12
Matches are distributed among these distances:
42 4 0.03
43 29 0.21
44 73 0.53
45 28 0.20
46 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (44 bp):
CTTGCCTTTCTCGGTTGTGATGGAGCTAGTTGAAGACAACAGAT
Found at i:59345267 original size:14 final size:16
Alignment explanation
Indices: 59345235--59345269 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
59345225 TATACTTGAC
59345235 ATATAATTTATTTAAT
1 ATATAATTTATTTAAT
* *
59345251 ATATAATTTTTTTTAT
1 ATATAATTTATTTAAT
59345267 ATA
1 ATA
59345270 CGCATATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATAATTTATTTAAT
Found at i:59345460 original size:12 final size:12
Alignment explanation
Indices: 59345413--59345483 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
59345403 TATAAATTTT
*
59345413 TTTATTTTTATG
1 TTTATTTATATG
* * *
59345425 TTCATTTATGTA
1 TTTATTTATATG
*
59345437 TTTGTTTATATG
1 TTTATTTATATG
*
59345449 TTTATTTTTATG
1 TTTATTTATATG
* *
59345461 CTTTAGTTTATTTA
1 -TTTA-TTTATATG
59345475 TTTATTTAT
1 TTTATTTAT
59345484 TTGCTATGGA
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
12 31 0.70
13 8 0.18
14 5 0.11
ACGTcount: A:0.20, C:0.03, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTATTTATATG
Found at i:59345605 original size:18 final size:18
Alignment explanation
Indices: 59345582--59345624 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
59345572 CATGAATATC
59345582 ATATTTTAAAA-AAGGAAA
1 ATATTTTAAAATAAGG-AA
* *
59345600 ATATTTCAAAATAAGGTA
1 ATATTTTAAAATAAGGAA
59345618 ATATTTT
1 ATATTTT
59345625 GCGTTTGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.37
Consensus pattern (18 bp):
ATATTTTAAAATAAGGAA
Found at i:59345902 original size:108 final size:108
Alignment explanation
Indices: 59345597--59346028 Score: 672
Period size: 108 Copynumber: 4.0 Consensus size: 108
59345587 TTAAAAAAGG
*
59345597 AAAATATTTCAAAATAAGGTAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
1 AAAAT-TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
59345662 GGTTTCGATTTCTCGTTCGACCAAAT-AGCTAAATATCCTTTTAA
65 GGTTTCGATTTCTCGTTCGACCAAATGA-CTAAATATCCTTTTAA
* *
59345706 AAACTTTTCAAAAATAAGGCAATTTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
1 AAAATTTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
* *
59345771 GGTTTCGATTTCTCGTTCCACCAAATGACTTAATATCCTTTTAA
65 GGTTTCGATTTCTCGTTCGACCAAATGACTAAATATCCTTTTAA
*
59345815 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTATTGG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
* * *
59345880 GTTTCGATTTCTCGTTCGACCAAATGGCTTAATATCCTTTTCA
66 GTTTCGATTTCTCGTTCGACCAAATGACTAAATATCCTTTTAA
* * * *
59345923 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCTCTAAGGTGCTCG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
*
59345988 GTTTCGATTTCTCG-TCTAACCAAATTGAC-AAATATCCTTTT
66 GTTTCGATTTCTCGTTC-GACCAAA-TGACTAAATATCCTTTT
59346029 GAATTTTAAT
Statistics
Matches: 300, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
107 2 0.01
108 189 0.63
109 108 0.36
110 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (108 bp):
AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
GTTTCGATTTCTCGTTCGACCAAATGACTAAATATCCTTTTAA
Found at i:59349128 original size:5 final size:5
Alignment explanation
Indices: 59349118--59349142 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
59349108 TGTTTGTTTG
59349118 GGATT GGATT GGATT GGATT GGATT
1 GGATT GGATT GGATT GGATT GGATT
59349143 AAAATCCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
GGATT
Found at i:59349744 original size:17 final size:17
Alignment explanation
Indices: 59349718--59349753 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
59349708 AGTTCTAAAG
59349718 AAAGAAAAAAAAAAGAA
1 AAAGAAAAAAAAAAGAA
* *
59349735 AAAGAGAAAAAAGAGAA
1 AAAGAAAAAAAAAAGAA
59349752 AA
1 AA
59349754 TTATATAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAAAGAA
Found at i:59349763 original size:15 final size:15
Alignment explanation
Indices: 59349745--59349774 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59349735 AAAGAGAAAA
*
59349745 AAGAGAAAATTATAT
1 AAGAGAAAATAATAT
59349760 AAGAGAAAATAATAT
1 AAGAGAAAATAATAT
59349775 TTTTTGTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.23
Consensus pattern (15 bp):
AAGAGAAAATAATAT
Found at i:59359944 original size:17 final size:18
Alignment explanation
Indices: 59359873--59359944 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 18
59359863 TCTTTAACGT
* *
59359873 TTTCTTTCCCTTTTCTTC
1 TTTCTTTTCTTTTTCTTC
59359891 TTAT-TTTTC-TTTTCTTC
1 TT-TCTTTTCTTTTTCTTC
* **
59359908 TTTC-TTTCTTCTTCACC
1 TTTCTTTTCTTTTTCTTC
59359925 TTTCTTTTCTTTTTC-TC
1 TTTCTTTTCTTTTTCTTC
59359942 TTT
1 TTT
59359945 GTTTATTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 5 0.11
17 23 0.52
18 15 0.34
19 1 0.02
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTTTTCTTTTTCTTC
Found at i:59360558 original size:63 final size:63
Alignment explanation
Indices: 59360450--59360646 Score: 209
Period size: 63 Copynumber: 3.1 Consensus size: 63
59360440 TGAGCCATAT
* * * * * * **
59360450 GGCCGTATAACTCACTGTTATGGATTTAAGGTCACATGAAG-TAGGGACACGAGCGTGTTTTTA
1 GGCCGTGTAACTCACTGTTTTGGATTTAGGGTCACACG-GGCTAGGGACACGAGCGTGTGTCCA
*
59360513 GGCCGTGTAACTCACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACAC-AGACGTCTGTCCA
1 GGCCGTGTAACTCACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACACGAG-CGTGTGTCCA
** * * * * * *
59360576 GGTTGTGTAACTTATTGTTTTGGATTTAGGGTCACACAGGCCAGGAACACGGGCGTGTGTCCA
1 GGCCGTGTAACTCACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACACGAGCGTGTGTCCA
59360639 GGCCGTGT
1 GGCCGTGT
59360647 GATGGGTTGC
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
62 3 0.03
63 107 0.96
64 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (63 bp):
GGCCGTGTAACTCACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACACGAGCGTGTGTCCA
Found at i:59363977 original size:3 final size:3
Alignment explanation
Indices: 59363969--59364005 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
59363959 TTAAGGTTGA
59363969 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
59364006 AGGTTGGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:59367437 original size:4 final size:4
Alignment explanation
Indices: 59367428--59367456 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
59367418 TTACATGATG
59367428 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
59367457 ATGTCCATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:59369497 original size:4 final size:4
Alignment explanation
Indices: 59369488--59369518 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
59369478 AATGAAAATG
*
59369488 TAAA TAAA TAAA TAAA TAAA TAAA TGAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
59369519 GATTATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:59370840 original size:35 final size:34
Alignment explanation
Indices: 59370801--59370878 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 34
59370791 GATTTGATGC
59370801 TTTAGGTTTGGG-CTGAGTGGGCTGTTAGGG-TTAGG
1 TTTAGGTTTGGGCCTG-GTGGGCT-TT-GGGTTTAGG
* *
59370836 TTTAGGTGTTGGGCCTGTTGGGCTTTGGGTTTTGG
1 TTTAGGT-TTGGGCCTGGTGGGCTTTGGGTTTAGG
59370871 TTTAGGTT
1 TTTAGGTT
59370879 ATTGGGTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
34 4 0.11
35 20 0.53
36 11 0.29
37 3 0.08
ACGTcount: A:0.08, C:0.06, G:0.42, T:0.44
Consensus pattern (34 bp):
TTTAGGTTTGGGCCTGGTGGGCTTTGGGTTTAGG
Found at i:59377197 original size:43 final size:43
Alignment explanation
Indices: 59377090--59377199 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 43
59377080 GACGCTAAAT
* * * *
59377090 CTAAAGAACATGATATTTAGCAGCGCTTTTCCTACAAACGCCA
1 CTAAAGAATATGATCTTTAGCGGCGCTTTTCCTACAAACACCA
* ** **
59377133 CTAAA-AATCAT-ATTCTATAGCGGCGCTTTTTTTACAAACACGG
1 CTAAAGAAT-ATGA-TCTTTAGCGGCGCTTTTCCTACAAACACCA
59377176 CTAAAGAATATGATCTTTAGCGGC
1 CTAAAGAATATGATCTTTAGCGGC
59377200 ATTTTTTATG
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
42 3 0.06
43 46 0.87
44 4 0.08
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (43 bp):
CTAAAGAATATGATCTTTAGCGGCGCTTTTCCTACAAACACCA
Found at i:59377265 original size:43 final size:43
Alignment explanation
Indices: 59377175--59377269 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
59377165 TACAAACACG
* * *
59377175 GCTAAAGAATATGATCTTTAGCGGCATTTTTTATGAGAAGTGTC
1 GCTAAAG-ATATGATCTTTAGCGGCAGTTTTTATGAGAAGAGCC
*
59377219 GCTAAAGATCATGTTCTTTAGCGGC-GTTTTTA-GTAGAAGAGCC
1 GCTAAAGAT-ATGATCTTTAGCGGCAGTTTTTATG-AGAAGAGCC
59377262 GCTAAAGA
1 GCTAAAGA
59377270 CCATATCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
42 1 0.02
43 23 0.51
44 21 0.47
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
GCTAAAGATATGATCTTTAGCGGCAGTTTTTATGAGAAGAGCC
Found at i:59381489 original size:28 final size:28
Alignment explanation
Indices: 59381414--59381490 Score: 73
Period size: 33 Copynumber: 2.6 Consensus size: 28
59381404 CTACAACATG
* * *
59381414 CAGTAACAATCTGGGCCTGAGCCCTATG
1 CAGTAACAATGTGGGCCTGAGCCCGATA
*
59381442 CAGTAACAGTACAGTGTGGGCCTTAGCCCGATA
1 CAGTAAC---A-A-TGTGGGCCTGAGCCCGATA
59381475 CAGTAACAATGTGGGC
1 CAGTAACAATGTGGGC
59381491 ATTTACCCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
28 14 0.35
29 1 0.03
30 1 0.03
31 1 0.03
32 1 0.03
33 22 0.55
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (28 bp):
CAGTAACAATGTGGGCCTGAGCCCGATA
Found at i:59381503 original size:28 final size:27
Alignment explanation
Indices: 59381447--59381504 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
59381437 CTATGCAGTA
* *
59381447 ACAGTACAGTGTGGGCCTTAGCCCGAT
1 ACAGTACAATGTGGGCCTTAGCCCAAT
*
59381474 ACAGTAACAATGTGGGCATTTA-CCCAAT
1 ACAGT-ACAATGTGGGC-CTTAGCCCAAT
59381502 ACA
1 ACA
59381505 ATAATAGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 18 0.69
29 3 0.12
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (27 bp):
ACAGTACAATGTGGGCCTTAGCCCAAT
Found at i:59381643 original size:26 final size:26
Alignment explanation
Indices: 59381614--59381664 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
59381604 CACCAATATT
*
59381614 GCAGCAAAACTGCCAGTAAAAGTATC
1 GCAGCAAAACTACCAGTAAAAGTATC
* * *
59381640 GCAGCGAAGCTACCAGTAATAGTAT
1 GCAGCAAAACTACCAGTAAAAGTAT
59381665 ATACGGCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
GCAGCAAAACTACCAGTAAAAGTATC
Found at i:59381973 original size:27 final size:27
Alignment explanation
Indices: 59381852--59381975 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
59381842 GGTATAACAG
59381852 TCATTTTACCCTAT-GGGGGTATTTCGA
1 TCATTTTACCCT-TCGGGGGTATTTCGA
* ** *
59381879 TCAGTTTACCCTTTAGGGGTATTTCGG
1 TCATTTTACCCTTCGGGGGTATTTCGA
* * *
59381906 TCATTTTTCCCTTTGGGGGTAGTTCGA
1 TCATTTTACCCTTCGGGGGTATTTCGA
59381933 TCATTTTACCCTTCGGGGGTATTTCGA
1 TCATTTTACCCTTCGGGGGTATTTCGA
59381960 TCATTTTACCCTTCGG
1 TCATTTTACCCTTCGG
59381976 AGGCAAGTTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 84 0.99
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTTCGGGGGTATTTCGA
Found at i:59383183 original size:95 final size:95
Alignment explanation
Indices: 59383065--59383426 Score: 240
Period size: 95 Copynumber: 3.9 Consensus size: 95
59383055 GATTTGACTT
* * * * *
59383065 GTAGCTTTAATCTATTCCACTGCAACTTCAAGGAAATAAGATTTGCATCCTCAATTTGCTCCACT
1 GTAGCTTTAATCTATTCCACTGCAACTTCAAGGAAACAAGATTTACAGCCTCAATCTACTCCACT
59383130 GCAACCTCAG-GAAGATAAGATTTATAACTC
66 GCAACCTCAGAG-AGATAAGATTTATAACTC
* * * * * *
59383160 GTAGCTTGT-ATCTATTTCACTGCAACTTCAGGGAAACAAGGTTTACAGCTTTAATCTACTCTAC
1 GTAGCTT-TAATCTATTCCACTGCAACTTCAAGGAAACAAGATTTACAGCCTCAATCTACTCCAC
*
59383224 TGCAACCTCAGAGAGATAAGA-TT-T---GC
65 TGCAACCTCAGAGAGATAAGATTTATAACTC
* ** * * * * ** *
59383250 -TATCTTCGACCTACTCCACTGCAACTTC-AGAGAGATAAGACCTATCA-CTTCAATCTACTCCA
1 GTAGCTTTAATCTATTCCACTGCAACTTCAAG-GAAACAAGATTTA-CAGCCTCAATCTACTCCA
** * * * * *
59383312 CTGCAATTTTAGGGAGATAAGATTTGTAATTT
64 CTGCAACCTCAGAGAGATAAGATTTATAACTC
* * * * * * * * * *
59383344 GTAACTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCAC
1 GTAGCTTTAATCTATTCCACTGCAACTTCAAGGAAACAAGATTTAC-AGCCTCAATCTACTCCAC
* *
59383409 TGCAACTTCAGGGAGATA
65 TGCAACCTCAGAGAGATA
59383427 CAATTTGCCA
Statistics
Matches: 206, Mismatches: 47, Indels: 27
0.74 0.17 0.10
Matches are distributed among these distances:
88 1 0.00
89 61 0.30
90 5 0.02
91 1 0.00
93 1 0.00
94 3 0.01
95 101 0.49
96 33 0.16
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (95 bp):
GTAGCTTTAATCTATTCCACTGCAACTTCAAGGAAACAAGATTTACAGCCTCAATCTACTCCACT
GCAACCTCAGAGAGATAAGATTTATAACTC
Found at i:59391462 original size:19 final size:20
Alignment explanation
Indices: 59391440--59391485 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
59391430 GTGTCTTTTT
* *
59391440 ATGAAATTTAATGCATATG-
1 ATGAAATATAATGCAGATGA
*
59391459 ATGAAATATAATGTAGATGA
1 ATGAAATATAATGCAGATGA
59391479 ATGAAAT
1 ATGAAAT
59391486 GAATGCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (20 bp):
ATGAAATATAATGCAGATGA
Found at i:59396485 original size:17 final size:17
Alignment explanation
Indices: 59396459--59396491 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59396449 ACTTTTGATA
59396459 TTTGGACTTATTTATTT
1 TTTGGACTTATTTATTT
*
59396476 TTTGGTCTTATTTATT
1 TTTGGACTTATTTATT
59396492 ATTATTGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (17 bp):
TTTGGACTTATTTATTT
Found at i:59397303 original size:98 final size:98
Alignment explanation
Indices: 59397173--59397466 Score: 536
Period size: 98 Copynumber: 3.0 Consensus size: 98
59397163 GTACAATAAA
59397173 ACTTT-AAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
59397237 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
*
59397270 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATTACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
59397335 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
*
59397368 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
* * *
59397433 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
66 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
59397466 A
1 A
59397467 TTATTTTTAA
Statistics
Matches: 190, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
97 5 0.03
98 185 0.97
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:59397756 original size:9 final size:9
Alignment explanation
Indices: 59397742--59397766 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
59397732 TGCAGATGCT
59397742 ATAATAACA
1 ATAATAACA
59397751 ATAATAACA
1 ATAATAACA
59397760 ATAATAA
1 ATAATAA
59397767 ATACATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:59401594 original size:11 final size:11
Alignment explanation
Indices: 59401567--59401601 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
59401557 TTTCAATGAT
59401567 TTTAAAGCATTG
1 TTTAAA-CATTG
*
59401579 CTTAAACATTG
1 TTTAAACATTG
59401590 TTTAAACATTG
1 TTTAAACATTG
59401601 T
1 T
59401602 AACCATTGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (11 bp):
TTTAAACATTG
Found at i:59402028 original size:34 final size:34
Alignment explanation
Indices: 59401989--59402059 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
59401979 AACAATGCAC
59401989 AAAAATGTTAGCATTGACAGCAATCGCAGCACCA
1 AAAAATGTTAGCATTGACAGCAATCGCAGCACCA
*
59402023 AAAAATGTTAGCATTGACAGCAATCGTAGCACCA
1 AAAAATGTTAGCATTGACAGCAATCGCAGCACCA
59402057 AAA
1 AAA
59402060 CCTTGGGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (34 bp):
AAAAATGTTAGCATTGACAGCAATCGCAGCACCA
Found at i:59402555 original size:23 final size:23
Alignment explanation
Indices: 59402529--59402622 Score: 143
Period size: 23 Copynumber: 4.1 Consensus size: 23
59402519 AAGTTAGAAG
59402529 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
59402552 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
59402575 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
*
59402598 AGTTAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
59402621 AG
1 AG
59402623 ATACACACAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:59407058 original size:23 final size:23
Alignment explanation
Indices: 59407032--59407125 Score: 143
Period size: 23 Copynumber: 4.1 Consensus size: 23
59407022 AAGTTAGAAG
59407032 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
59407055 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
59407078 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
*
59407101 AGTTAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
59407124 AG
1 AG
59407126 ATACACACAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:59408244 original size:21 final size:21
Alignment explanation
Indices: 59408192--59408316 Score: 67
Period size: 22 Copynumber: 5.7 Consensus size: 21
59408182 ATACACAAAT
*
59408192 ATATAGGGTTCACATAAATAATC
1 ATATAGGGTTCGCAT-AATAA-C
*
59408215 ATGTAGGGTTCGCAT-ATACAC
1 ATATAGGGTTCGCATAATA-AC
*
59408236 ATATAGGGTTCGCATCATAAAC
1 ATATAGGGTTCGCATAAT-AAC
* ** *
59408258 ATGTTTGGTTTGCATATATAAGC
1 ATATAGGGTTCGCATA-ATAA-C
* * *
59408281 ACATA-GGTTCACATATTTAAC
1 ATATAGGGTTCGCATA-ATAAC
59408302 A-ATTAGGGTTCGCAT
1 ATA-TAGGGTTCGCAT
59408317 GTATATTCCT
Statistics
Matches: 80, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
20 1 0.01
21 22 0.28
22 38 0.47
23 19 0.24
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (21 bp):
ATATAGGGTTCGCATAATAAC
Found at i:59408274 original size:43 final size:44
Alignment explanation
Indices: 59408192--59408275 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 44
59408182 ATACACAAAT
*
59408192 ATATAGGGTTCACATAAATAATCATGTAGGGTTCGCATATACAC
1 ATATAGGGTTCACATAAATAAACATGTAGGGTTCGCATATACAC
* * ** *
59408236 ATATAGGGTTCGCAT-CATAAACATGTTTGGTTTGCATATA
1 ATATAGGGTTCACATAAATAAACATGTAGGGTTCGCATATA
59408276 TAAGCACATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 20 0.59
44 14 0.41
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (44 bp):
ATATAGGGTTCACATAAATAAACATGTAGGGTTCGCATATACAC
Found at i:59408485 original size:28 final size:28
Alignment explanation
Indices: 59408399--59408466 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
59408389 AGTTCGCATA
* * * *
59408399 TATGGGGGTTTGCATACATA-GGCTCGCG
1 TATGGGGGTTCGCATGCA-AGGGTTCGCC
*
59408427 TACGGGGGTTCGCATGCAAGGGTTCGCC
1 TATGGGGGTTCGCATGCAAGGGTTCGCC
59408455 TATGGGGGTTCG
1 TATGGGGGTTCG
59408467 TATGTAGGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.15, C:0.19, G:0.40, T:0.26
Consensus pattern (28 bp):
TATGGGGGTTCGCATGCAAGGGTTCGCC
Found at i:59415197 original size:41 final size:40
Alignment explanation
Indices: 59415140--59415292 Score: 198
Period size: 41 Copynumber: 3.7 Consensus size: 40
59415130 ACCTTTCTGG
* * *
59415140 GCTTTAGCAGCGTTTTTGAAAAAGCACCGCTAATGCTCGGG
1 GCTTTAGC-GTGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* *
59415181 GCTTTAGCGATATTTTTGAAAAATCGCCGCTAATGCTCGGT
1 GCTTTAGCG-TGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* *
59415222 GCTTTAACGTCGTTTTTGAAAAAGTGCCGCTAATGCTCGGT
1 GCTTTAGCGT-GTTTTTGAAAAAGCGCCGCTAATGCTCGGT
*
59415263 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 GCTTTAGC-GTGTTTTTGAAAAAGCGCCGC
59415293 AAAAAACATT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
40 2 0.02
41 94 0.97
42 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (40 bp):
GCTTTAGCGTGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
Found at i:59415617 original size:14 final size:14
Alignment explanation
Indices: 59415598--59415747 Score: 79
Period size: 14 Copynumber: 10.4 Consensus size: 14
59415588 TATCATTATA
*
59415598 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAGG
*
59415612 GTTTAGGAG-TTAGT
1 GTTTAGG-GTTTAGG
* * *
59415626 ATCTTAAGGTTTATG
1 GT-TTAGGGTTTAGG
*
59415641 GATTATGGGTTTAGG
1 GTTTA-GGGTTTAGG
* * * *
59415656 GATTATGATTTATG
1 GTTTAGGGTTTAGG
* * *
59415670 GTTTAAGGATTGGG
1 GTTTAGGGTTTAGG
*
59415684 GTTTAAGGTTTAGGG
1 GTTTAGGGTTTA-GG
* *
59415699 GTTAAGGG-TTAAG
1 GTTTAGGGTTTAGG
*
59415712 GTTTATGGTTTAGGG
1 GTTTAGGGTTTA-GG
59415727 GTTTAGGGGTTTAGG
1 GTTTA-GGGTTTAGG
59415742 GTTTAG
1 GTTTAG
59415748 ATTAATTACT
Statistics
Matches: 100, Mismatches: 28, Indels: 16
0.69 0.19 0.11
Matches are distributed among these distances:
13 7 0.07
14 46 0.46
15 41 0.41
16 6 0.06
ACGTcount: A:0.21, C:0.01, G:0.36, T:0.42
Consensus pattern (14 bp):
GTTTAGGGTTTAGG
Found at i:59415624 original size:21 final size:21
Alignment explanation
Indices: 59415600--59415747 Score: 68
Period size: 21 Copynumber: 6.9 Consensus size: 21
59415590 TCATTATAGT
59415600 TTAGGGTTTAAGGTTTAGGAG
1 TTAGGGTTTAAGGTTTAGGAG
**
59415621 TTAGTATCTTAAGGTTTATGGA-
1 TTAGGGT-TTAAGGTTTA-GGAG
* * * *
59415643 TTATGGGTTTAGGGATTATGAT
1 TTA-GGGTTTAAGGTTTAGGAG
* * *
59415665 TTATGGTTTAAGGATT-GGGG
1 TTAGGGTTTAAGGTTTAGGAG
* * *
59415685 TTTAAGGTTTAGGGGTTAAGG-G
1 -TTAGGGTTTA-AGGTTTAGGAG
* * *
59415707 TTAAGGTTTATGGTTTAGGGG
1 TTAGGGTTTAAGGTTTAGGAG
*
59415728 TTTAGGGGTTTAGGGTTTAG
1 -TTA-GGGTTTAAGGTTTAG
59415748 ATTAATTACT
Statistics
Matches: 97, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
20 8 0.08
21 38 0.39
22 31 0.32
23 20 0.21
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.42
Consensus pattern (21 bp):
TTAGGGTTTAAGGTTTAGGAG
Found at i:59415653 original size:15 final size:15
Alignment explanation
Indices: 59415633--59415662 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59415623 AGTATCTTAA
*
59415633 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
59415648 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
59415663 ATTTATGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:59415693 original size:7 final size:7
Alignment explanation
Indices: 59415633--59415747 Score: 70
Period size: 7 Copynumber: 16.0 Consensus size: 7
59415623 AGTATCTTAA
*
59415633 GGTTTAT
1 GGTTTAG
*
59415640 GGATTATG
1 GGTTTA-G
59415648 GGTTTAG
1 GGTTTAG
* *
59415655 GGATTAT
1 GGTTTAG
* *
59415662 GATTTAT
1 GGTTTAG
*
59415669 GGTTTAA
1 GGTTTAG
* *
59415676 GGATTGG
1 GGTTTAG
*
59415683 GGTTTAA
1 GGTTTAG
59415690 GGTTTAGG
1 GGTTTA-G
*
59415698 GGTTAAG
1 GGTTTAG
*
59415705 GG-TTAA
1 GGTTTAG
*
59415711 GGTTTAT
1 GGTTTAG
59415718 GGTTTAGG
1 GGTTTA-G
59415726 GGTTTAGG
1 GGTTTA-G
59415734 GGTTTAG
1 GGTTTAG
59415741 GGTTTAG
1 GGTTTAG
59415748 ATTAATTACT
Statistics
Matches: 83, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
6 4 0.05
7 55 0.66
8 24 0.29
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:59415747 original size:15 final size:15
Alignment explanation
Indices: 59415681--59415747 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 15
59415671 TTTAAGGATT
*
59415681 GGGGTTTAAGGTTTA
1 GGGGTTTAGGGTTTA
*
59415696 GGGGTTAAGGG-TTA
1 GGGGTTTAGGGTTTA
* *
59415710 -AGGTTTATGGTTTA
1 GGGGTTTAGGGTTTA
59415724 GGGGTTTAGGGGTTTA
1 GGGGTTTA-GGGTTTA
59415740 -GGGTTTAG
1 GGGGTTTAG
59415748 ATTAATTACT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
13 7 0.17
14 7 0.17
15 22 0.52
16 6 0.14
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (15 bp):
GGGGTTTAGGGTTTA
Found at i:59415925 original size:14 final size:15
Alignment explanation
Indices: 59415906--59415965 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
59415896 GATTTAGGGA
59415906 TTAAGGGTT-GGGGT
1 TTAAGGGTTAGGGGT
*
59415920 TTAAGGTTTAGGGGT
1 TTAAGGGTTAGGGGT
* ** *
59415935 TTATGATTTA-AGGT
1 TTAAGGGTTAGGGGT
*
59415949 TTAAGGGATAGGGGT
1 TTAAGGGTTAGGGGT
59415964 TT
1 TT
59415966 GGGGTTTAGG
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
14 17 0.49
15 18 0.51
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.40
Consensus pattern (15 bp):
TTAAGGGTTAGGGGT
Found at i:59415972 original size:234 final size:241
Alignment explanation
Indices: 59415516--59416054 Score: 801
Period size: 234 Copynumber: 2.2 Consensus size: 241
59415506 CTGATTGCTT
59415516 TTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAG-T-GTATTAATTTTAAAATAT
1 TTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAAAATAT
* *
59415579 TGAATTAATTATCATTATAGTTTAGGGTTTAAGGTTTAGGAGTTAGTATCTTAAGGTTTATGGAT
66 TGAATTAATTATCATTATAGTTTAGGGTTTAAGGTTTAGGAGTTACTATCTTAAGGTTTATAGAT
* *
59415644 TATGGGTTTAGGGATTATGATTTATGGTTTAAGGATTGGGGTTTAAGGTTTAGGGGTTAAGGGTT
131 TATGGATTTAGGGATTATGA--TA-GG--T--GGATTGGGGTTTAAGGTTTAGGGGTTAAGAGTT
* ** *
59415709 AAGGTTTATGGTTTAGGGGTTTAGGGGTTTAGGGTTTAGATTAATTACTGTTA
189 AAGGTTTAAGGGATAGGGGTTTAGGGGTTTAGGGTTTAGATTAATTACTATTA
59415762 TTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAAAATAT
1 TTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAAAATAT
59415827 TGAATTAATTATCATTATAGTTTAGGGTTTAAGGTTTAGGAGTTACTATCTTAAGGTTTATAGAT
66 TGAATTAATTATCATTATAGTTTAGGGTTTAAGGTTTAGGAGTTACTATCTTAAGGTTTATAGAT
* *
59415892 TATGGATTTAGGGA-T-T-A-A-G-GG-TTGGGGTTTAAGGTTTAGGGGTTTATGATTTAAGGTT
131 TATGGATTTAGGGATTATGATAGGTGGATTGGGGTTTAAGGTTTAGGGG-TTAAGAGTTAAGGTT
* *
59415950 TAAGGGATAGGGGTTT-GGGGTTTAGGGTTTAGATTAATTAGTATTT
195 TAAGGGATAGGGGTTTAGGGGTTTAGGGTTTAGATTAATTACTATTA
* * *
59415996 TTTATTTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAATATTAATTTTA
1 TTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTA
59416055 TTATATTAAC
Statistics
Matches: 275, Mismatches: 15, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
234 104 0.38
235 27 0.10
240 1 0.00
242 1 0.00
245 1 0.00
246 45 0.16
247 2 0.01
248 94 0.34
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.45
Consensus pattern (241 bp):
TTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAAAATAT
TGAATTAATTATCATTATAGTTTAGGGTTTAAGGTTTAGGAGTTACTATCTTAAGGTTTATAGAT
TATGGATTTAGGGATTATGATAGGTGGATTGGGGTTTAAGGTTTAGGGGTTAAGAGTTAAGGTTT
AAGGGATAGGGGTTTAGGGGTTTAGGGTTTAGATTAATTACTATTA
Found at i:59415973 original size:29 final size:29
Alignment explanation
Indices: 59415917--59415980 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
59415907 TAAGGGTTGG
** *
59415917 GGTTTAAGGTTTAGGGGTTTATGATTTAA
1 GGTTTAAGGGATAGGGGTTTAGGATTTAA
* * *
59415946 GGTTTAAGGGATAGGGGTTTGGGGTTTAG
1 GGTTTAAGGGATAGGGGTTTAGGATTTAA
59415975 GGTTTA
1 GGTTTA
59415981 GATTAATTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (29 bp):
GGTTTAAGGGATAGGGGTTTAGGATTTAA
Found at i:59416815 original size:72 final size:73
Alignment explanation
Indices: 59416716--59416865 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 73
59416706 TTTTTCCCCA
*
59416716 TTTTATTTTTCCCAACCATTTCTCCCCTACCCCGATTCCCTTTA-T-CCCCAATTTCCCCAAATC
1 TTTTATTTTTCCCAACCATTTCTCCCCTACCCCGATTCCCTTTATTCCCCCAATTTCCCCAAACC
59416779 GGCAGCCC
66 GGCAGCCC
59416787 TTTTATTTTTCCCAAACCATTTCTCCCCTACCCCGATTCCCTTTATTTTCCCCCCCAATTTCCCC
1 TTTTATTTTTCCC-AACCATTTCTCCCCTACCCCGATTCCCTTTA--TT--CCCCCAATTTCCCC
59416852 AAACCGGCAGCCC
61 AAACCGGCAGCCC
59416865 T
1 T
59416866 CTGCATCTCC
Statistics
Matches: 71, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
71 13 0.18
72 31 0.44
75 1 0.01
78 26 0.37
ACGTcount: A:0.18, C:0.43, G:0.05, T:0.34
Consensus pattern (73 bp):
TTTTATTTTTCCCAACCATTTCTCCCCTACCCCGATTCCCTTTATTCCCCCAATTTCCCCAAACC
GGCAGCCC
Found at i:59417470 original size:86 final size:86
Alignment explanation
Indices: 59417294--59417506 Score: 234
Period size: 86 Copynumber: 2.5 Consensus size: 86
59417284 ACTTACACCG
** * * * *
59417294 GGTAAATGCATGAACTTGAACCATTTATTTTTGCTAATTTTTTGCATATAAGTTGTTATAAATAT
1 GGTAAATATATGAACTTGAACCATTGATTTTTGCTAATTTATTGCATATAAATCGTTATAAATAT
** ***
59417359 TGAAAAATTAGTTTGATTTTT
66 TGAAAAATTAGCCTGATTGCC
59417380 GGTAAATATATGAACTTGAACCATTGATTTTTGCTAATTTATTGCATATAAATCGTTATAGAA-A
1 GGTAAATATATGAACTTGAACCATTGATTTTTGCTAATTTATTGCATATAAATCGTTATA-AATA
* *
59417444 TTGAAGATTTAGCCCT-ATTGCC
65 TTGAAAAATTAG-CCTGATTGCC
* *
59417466 GGTAAATATATGAACTATGAA-TAGTTGATTTGTGCTAATTT
1 GGTAAATATATGAACT-TGAACCA-TTGATTTTTGCTAATTT
59417507 GTTTCACATA
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
86 85 0.79
87 23 0.21
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.42
Consensus pattern (86 bp):
GGTAAATATATGAACTTGAACCATTGATTTTTGCTAATTTATTGCATATAAATCGTTATAAATAT
TGAAAAATTAGCCTGATTGCC
Found at i:59417558 original size:40 final size:40
Alignment explanation
Indices: 59417489--59417585 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
59417479 ACTATGAATA
* * * * *
59417489 GTTGATTTGTGCTAATTTGTTTCACATAAACAATTGTAA-
1 GTTGATTTTTGATAATTTCTTGCACATAAACAATTGAAAT
* * **
59417528 GATTGATTTTTGTTAATTTCTTGCATATAAATTATTGAAAT
1 G-TTGATTTTTGATAATTTCTTGCACATAAACAATTGAAAT
59417569 GTTGATTTTTGATAATT
1 GTTGATTTTTGATAATT
59417586 CTTTACATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.02
40 45 0.96
41 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.49
Consensus pattern (40 bp):
GTTGATTTTTGATAATTTCTTGCACATAAACAATTGAAAT
Found at i:59417595 original size:40 final size:40
Alignment explanation
Indices: 59417530--59417614 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
59417520 AATTGTAAGA
* *
59417530 TTGATTTTTGTTAATTTCTTGCATA-TAAATTATTGAAATG
1 TTGATTTTTGATAATTTCTTACATATTAAA-TATTGAAATG
*
59417570 TTGATTTTTGATAA-TTCTTTACATATTAAATATTGAAGTG
1 TTGATTTTTGATAATTTC-TTACATATTAAATATTGAAATG
59417610 TTGAT
1 TTGAT
59417615 ATTCAAGCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
39 3 0.08
40 33 0.82
41 4 0.10
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.52
Consensus pattern (40 bp):
TTGATTTTTGATAATTTCTTACATATTAAATATTGAAATG
Found at i:59418247 original size:10 final size:10
Alignment explanation
Indices: 59418230--59418259 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
59418220 CCAAAAACAG
59418230 ATAA-AAATA
1 ATAATAAATA
59418239 ATAATAAATA
1 ATAATAAATA
59418249 ATAATAAATA
1 ATAATAAATA
59418259 A
1 A
59418260 AGGTCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
ATAATAAATA
Found at i:59418714 original size:18 final size:18
Alignment explanation
Indices: 59418666--59418715 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
59418656 CTAAGGTTGT
* *
59418666 TTTATATTCTGTTATTTA
1 TTTATATACTATTATTTA
* * *
59418684 TTTATCTATTATTATTTC
1 TTTATATACTATTATTTA
59418702 TTTATATACTATTA
1 TTTATATACTATTA
59418716 GTAAATAAGG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTATATACTATTATTTA
Found at i:59423741 original size:43 final size:42
Alignment explanation
Indices: 59423654--59423885 Score: 261
Period size: 43 Copynumber: 5.4 Consensus size: 42
59423644 AAATATTTTT
* * * * *
59423654 TAAAAGTCATGTTTTTAGCGGCGTTTGT-GAAAAAGCGCCAC
1 TAAAAGTCATATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
* * *
59423695 TAAAAGTCAT-TCTTTATAGTGGTGTTTGTGGTAGAAGCGTCGC
1 TAAAAGTCATATC-TT-TAGCGGCGTTTGTGGTAGAAGCGCCGC
* * *
59423738 TAAAAGTCATGATTTTTAGTGGTGTTTGTGGTAGAAGCGCCGC
1 TAAAAGTCAT-ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
* *
59423781 TAAAAGTCATGATCTTTAGCGGCGTTTTTGGTAGAAGCTCCGC
1 TAAAAGTCAT-ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
*
59423824 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
1 TAAAAGTCAT-ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
*
59423867 TAAAGGTCATGATCTTTAG
1 TAAAAGTCAT-ATCTTTAG
59423886 TGATGTTTTT
Statistics
Matches: 169, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.01
41 12 0.07
42 11 0.07
43 142 0.84
44 2 0.01
45 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (42 bp):
TAAAAGTCATATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
Found at i:59423854 original size:129 final size:127
Alignment explanation
Indices: 59423654--59423893 Score: 313
Period size: 129 Copynumber: 1.9 Consensus size: 127
59423644 AAATATTTTT
* * *
59423654 TAAAAGTCATGTTTTTAGCGGCGTTTGTGAAAAAGCGCCACTAAAAGTCATTCTTTATAGTGGTG
1 TAAAAGTCATGTCTTTAGCGGCGTTTGTGAAAAAGCGCCACTAAAAGTCATTCTTTATAGCGGCG
* * *
59423719 TTTGTGGTAGAAGCGTCGCTAAAAGTCATGATTTTTAGTGGTGTTTGTGGTAGAAGCGCCGC
66 TTTGTGGTAGAAGCGCCGCTAAAAGTCATGATCTTTAGTGATGTTTGTGGTAGAAGCGCCGC
* * * * * *
59423781 TAAAAGTCATGATCTTTAGCGGCGTTTTTGGTAGAAGCTCCGCTAAAGGTCATGATC-TT-TAGC
1 TAAAAGTCATG-TCTTTAGCGGCGTTTGT-GAAAAAGCGCCACTAAAAGTCAT--TCTTTATAGC
*
59423844 GGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTTTAGTGATGTTT
62 GGCGTTTGTGGTAGAAGCGCCGCTAAAAGTCATGATCTTTAGTGATGTTT
59423894 TTTCACATAA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
127 11 0.11
128 15 0.16
129 66 0.69
130 2 0.02
131 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.34
Consensus pattern (127 bp):
TAAAAGTCATGTCTTTAGCGGCGTTTGTGAAAAAGCGCCACTAAAAGTCATTCTTTATAGCGGCG
TTTGTGGTAGAAGCGCCGCTAAAAGTCATGATCTTTAGTGATGTTTGTGGTAGAAGCGCCGC
Found at i:59423894 original size:86 final size:86
Alignment explanation
Indices: 59423654--59423895 Score: 314
Period size: 86 Copynumber: 2.8 Consensus size: 86
59423644 AAATATTTTT
* * *
59423654 TAAAAGTCATG-TTTTTAGCGGCGTTTGT-GAAAAAGCGCCACTAAAAGTCAT--TCTTTATAGT
1 TAAAAGTCATGATTTTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAAGTCATGATC-TT-TAGT
*
59423715 GGTGTTTGTGGTAGAAGCGTCGC
64 GGTGTTTTTGGTAGAAGCGTCGC
* * *
59423738 TAAAAGTCATGATTTTTAGTGGTGTTTGTGGTAGAAGCGCCGCTAAAAGTCATGATCTTTAGCGG
1 TAAAAGTCATGATTTTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAAGTCATGATCTTTAGTGG
*
59423803 CGTTTTTGGTAGAAGC-TCCGC
66 TGTTTTTGGTAGAAGCGT-CGC
* * * *
59423824 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTTTAGTGA
1 TAAAAGTCATGATTTTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAAGTCATGATCTTTAGTGG
59423889 TGTTTTT
66 TGTTTTT
59423896 TCACATAAAC
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
84 11 0.08
85 16 0.12
86 106 0.77
87 2 0.01
88 2 0.01
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.34
Consensus pattern (86 bp):
TAAAAGTCATGATTTTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAAGTCATGATCTTTAGTGG
TGTTTTTGGTAGAAGCGTCGC
Found at i:59427636 original size:25 final size:25
Alignment explanation
Indices: 59427599--59427657 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
59427589 GGGAAAAAGT
59427599 AAGTTTCAGGAGATCTTCATTGTTTA
1 AAGTTT-AGGAGATCTTCATTGTTTA
*
59427625 AAGTTTAGGAGATCTTCGTTGTTTA
1 AAGTTTAGGAGATCTTCATTGTTTA
*
59427650 AAGCTTAG
1 AAGTTTAG
59427658 TGGTAAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 25 0.81
26 6 0.19
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (25 bp):
AAGTTTAGGAGATCTTCATTGTTTA
Found at i:59428433 original size:14 final size:14
Alignment explanation
Indices: 59428411--59428450 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
59428401 TCAATCCGGC
*
59428411 CAAATCCAAAATGT
1 CAAAACCAAAATGT
*
59428425 CAAAACCAAAATTT
1 CAAAACCAAAATGT
*
59428439 CAAAATCAAAAT
1 CAAAACCAAAAT
59428451 CCAAATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (14 bp):
CAAAACCAAAATGT
Found at i:59428674 original size:89 final size:90
Alignment explanation
Indices: 59428523--59428703 Score: 328
Period size: 89 Copynumber: 2.0 Consensus size: 90
59428513 TGACCAAAAT
*
59428523 ATCATTTTTGACAAATATTACTAAATACTCATTTGATATTATGATGTTTCACCAACTGAATTGAT
1 ATCATTTTTGACAAATATTACTAAATACTCATTTGATATTACGATGTTTCACCAACTGAATTGAT
59428588 GGCTGAGT-GAGAGTTTATTACGAC
66 GGCTGAGTAGAGAGTTTATTACGAC
59428612 ATCATTTTTGACAAATATTACTAAATACTCATTTGATATTACGATGTTTCACCAACTGAATTGAT
1 ATCATTTTTGACAAATATTACTAAATACTCATTTGATATTACGATGTTTCACCAACTGAATTGAT
*
59428677 GGCTGAGTGAGAGAGTTTGTTACGAC
66 GGCTGAGT-AGAGAGTTTATTACGAC
59428703 A
1 A
59428704 CTCTAACACG
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
89 72 0.82
91 16 0.18
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (90 bp):
ATCATTTTTGACAAATATTACTAAATACTCATTTGATATTACGATGTTTCACCAACTGAATTGAT
GGCTGAGTAGAGAGTTTATTACGAC
Found at i:59429146 original size:20 final size:20
Alignment explanation
Indices: 59429108--59429149 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
59429098 TAAACACGAT
*
59429108 AATAATCTTTTATCCTAAAA
1 AATAATCTTTTATCATAAAA
59429128 AATAATCTTTTAAT-ATAAAA
1 AATAATCTTTT-ATCATAAAA
59429148 AA
1 AA
59429150 GTTCTTCTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAATCTTTTATCATAAAA
Found at i:59430180 original size:44 final size:44
Alignment explanation
Indices: 59430121--59430211 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
59430111 GCTAATAAAA
*
59430121 AATAGAATTTATGATAATTATACATTTAAAAATAATTATAATTT
1 AATAGAAGTTATGATAATTATACATTTAAAAATAATTATAATTT
* * *
59430165 AATAGAAGTTGTGATAATTTTACATTTAAAAATATTTATAATTT
1 AATAGAAGTTATGATAATTATACATTTAAAAATAATTATAATTT
59430209 AAT
1 AAT
59430212 TTACAATGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (44 bp):
AATAGAAGTTATGATAATTATACATTTAAAAATAATTATAATTT
Found at i:59434631 original size:7 final size:6
Alignment explanation
Indices: 59434599--59434643 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
59434589 TTCTAGTTCC
* * *
59434599 TTTTCT TTCT-T TTTTCT TTTTCT TTTTCG TTTTCA TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
59434644 TTTAATCAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:59439439 original size:26 final size:25
Alignment explanation
Indices: 59439389--59439455 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
59439379 ACTGTCCTTA
* *
59439389 ATAGTATATCCTGAAATTGCTATAG
1 ATAGTATATACTGAAATTACTATAG
*
59439414 GTAGTATATACTGAGAATTACTATAG
1 ATAGTATATACTGA-AATTACTATAG
59439440 ATAG-ACTATACTGAAA
1 ATAGTA-TATACTGAAA
59439456 ACACTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.33
Consensus pattern (25 bp):
ATAGTATATACTGAAATTACTATAG
Found at i:59451739 original size:17 final size:17
Alignment explanation
Indices: 59451717--59451749 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
59451707 CTCTCTCAAC
59451717 TGAAAA-TCGGTAAAAGT
1 TGAAAAGTCGG-AAAAGT
59451734 TGAAAAGTCGGAAAAG
1 TGAAAAGTCGGAAAAG
59451750 ACGACACCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.48, C:0.06, G:0.27, T:0.18
Consensus pattern (17 bp):
TGAAAAGTCGGAAAAGT
Found at i:59451901 original size:27 final size:26
Alignment explanation
Indices: 59451871--59452119 Score: 300
Period size: 27 Copynumber: 9.3 Consensus size: 26
59451861 ATCAGGCCTC
*
59451871 AAATGACCGAAATACTCCCGAAGGGTA
1 AAATGACCGAATTAC-CCCGAAGGGTA
*
59451898 AAATGATCGAATTACCCTCGAAGGGTA
1 AAATGACCGAATTACCC-CGAAGGGTA
*
59451925 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAATTACCC-CGAAGGGTA
**
59451952 AAATGATTGAATTACCCCTGAAGGGTA
1 AAATGACCGAATTACCCC-GAAGGGTA
* * *
59451979 AAATGACTGAAATACCCCTGAAGGATA
1 AAATGACCGAATTACCCC-GAAGGGTA
59452006 AAATGACCGAATTACCCCTGAAGGGTA
1 AAATGACCGAATTACCCC-GAAGGGTA
*
59452033 AAATGATCGAATTACCCCCGAAGGGTA
1 AAATGACCGAATTA-CCCCGAAGGGTA
* * * *
59452060 AAATGATCGAAATACCCCCAAGGGAA
1 AAATGACCGAATTACCCCGAAGGGTA
*
59452086 AAATGACCGAATTACCCTCAAAGGGTA
1 AAATGACCGAATTACCC-CGAAGGGTA
59452113 AAATGAC
1 AAATGAC
59452120 TGTTATACCC
Statistics
Matches: 197, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 28 0.14
27 165 0.84
28 4 0.02
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (26 bp):
AAATGACCGAATTACCCCGAAGGGTA
Found at i:59452008 original size:81 final size:81
Alignment explanation
Indices: 59451871--59452118 Score: 335
Period size: 81 Copynumber: 3.1 Consensus size: 81
59451861 ATCAGGCCTC
* * * * *
59451871 AAATGACCGAAATACTCCCGAAGGGTAAAATGATCGAATTA-CCCTCGAAGGGTAAAATGACCGA
1 AAATGATCGAATTACCCCCGAAGGGTAAAATGATCGAAATACCCCT-GAAGGATAAAATGACCGA
*
59451935 AATACCCTCGAAGGGTA
65 ATTACCCTCGAAGGGTA
* *
59451952 AAATGATTGAATTACCCCTGAAGGGTAAAATGA-CTGAAATACCCCTGAAGGATAAAATGACCGA
1 AAATGATCGAATTACCCCCGAAGGGTAAAATGATC-GAAATACCCCTGAAGGATAAAATGACCGA
59452016 ATTACCC-CTGAAGGGTA
65 ATTACCCTC-GAAGGGTA
*
59452033 AAATGATCGAATTACCCCCGAAGGGTAAAATGATCGAAATACCCC-CAAGGGA-AAAATGACCGA
1 AAATGATCGAATTACCCCCGAAGGGTAAAATGATCGAAATACCCCTGAA-GGATAAAATGACCGA
*
59452096 ATTACCCTCAAAGGGTA
65 ATTACCCTCGAAGGGTA
59452113 AAATGA
1 AAATGA
59452119 CTGTTATACC
Statistics
Matches: 149, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
80 35 0.23
81 109 0.73
82 5 0.03
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (81 bp):
AAATGATCGAATTACCCCCGAAGGGTAAAATGATCGAAATACCCCTGAAGGATAAAATGACCGAA
TTACCCTCGAAGGGTA
Found at i:59452249 original size:13 final size:14
Alignment explanation
Indices: 59452231--59452261 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
59452221 TTTAATTTTC
59452231 AAAATTTTAAAAA-
1 AAAATTTTAAAAAT
59452244 AAAATTTTAAAAAT
1 AAAATTTTAAAAAT
59452258 AAAA
1 AAAA
59452262 ATTGCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATTTTAAAAAT
Found at i:59452323 original size:30 final size:29
Alignment explanation
Indices: 59452260--59452376 Score: 119
Period size: 30 Copynumber: 3.9 Consensus size: 29
59452250 TTAAAAATAA
* *
59452260 AAATTGCATTTTGACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGA-CCCTAAACTTTCT-TT
59452290 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCTTT
* * *
59452320 AAATTTCACTTAGACTCCTAAACTTTCATT
1 AAATTTCATTTTGAC-CCTAAACTTTCTTT
* * *
59452350 AAATTTCATTTTAATCCTAAATTTTCT
1 AAATTTCATTTTGACCCTAAACTTTCT
59452377 AAAAATTACA
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
29 13 0.18
30 57 0.78
31 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.03, T:0.45
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCTTT
Found at i:59452643 original size:10 final size:10
Alignment explanation
Indices: 59452624--59452673 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
59452614 TTTTTCGAAG
*
59452624 GAAAAAAGAA
1 GAAAAGAGAA
59452634 GAAAAGAGAA
1 GAAAAGAGAA
59452644 GAAAAGAGAA
1 GAAAAGAGAA
* *
59452654 -AGAGGAGAA
1 GAAAAGAGAA
59452663 GAAAAGA-AA
1 GAAAAGAGAA
59452672 GA
1 GA
59452674 GTACCAGCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:59452674 original size:17 final size:19
Alignment explanation
Indices: 59452627--59452669 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
59452617 TTCGAAGGAA
59452627 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
59452645 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
59452664 AAAAGA
1 AAAAGA
59452670 AAGAGTACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:59452745 original size:3 final size:3
Alignment explanation
Indices: 59452739--59452770 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
59452729 GTGTAGGAGG
59452739 AGA AGA AGA AGA AGA AGA AGAA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA A
59452771 AGAAAAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:59452767 original size:22 final size:22
Alignment explanation
Indices: 59452739--59452783 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
59452729 GTGTAGGAGG
*
59452739 AGAAGAAG-AAGAAGAAGAAGAA
1 AGAAGAAGAAAGAA-AAAAAGAA
59452761 AGAAGAAGAAAGAAAAAAAGAA
1 AGAAGAAGAAAGAAAAAAAGAA
59452783 A
1 A
59452784 AAAAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAAAAGAA
Found at i:59452947 original size:32 final size:31
Alignment explanation
Indices: 59452885--59452958 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 31
59452875 AAAATTAATT
*
59452885 AAAAAAACAACACAAAAAAAACAAATCAGCCC
1 AAAAAAA-AACACAAAAAAAACAAAGCAGCCC
*
59452917 AAAAAAAAACCCAAAGCAAAAA-AAAGCAGCCC
1 AAAAAAAAACACAAA--AAAAACAAAGCAGCCC
59452949 AAAAAGAAAA
1 AAAAA-AAAA
59452959 GGCCCCCCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
31 7 0.19
32 21 0.57
33 9 0.24
ACGTcount: A:0.70, C:0.22, G:0.07, T:0.01
Consensus pattern (31 bp):
AAAAAAAAACACAAAAAAAACAAAGCAGCCC
Found at i:59453110 original size:15 final size:13
Alignment explanation
Indices: 59453089--59453176 Score: 81
Period size: 13 Copynumber: 6.4 Consensus size: 13
59453079 GCAAGCCAGG
59453089 AAAAAAAGAGAGAA
1 AAAAAAAGA-AGAA
59453103 AGAAAAAAGAA-AA
1 A-AAAAAAGAAGAA
*
59453116 AAAGAAAGAAGAA
1 AAAAAAAGAAGAA
59453129 AAAAAGAA-AAGAGA
1 AAAAA-AAGAAGA-A
*
59453143 AAAAAAAGGAAAAA
1 AAAAAAA-GAAGAA
59453157 AGGAAAAAAGAAGAA
1 A--AAAAAAGAAGAA
59453172 AAAAA
1 AAAAA
59453177 GAAAAAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
12 8 0.13
13 19 0.31
14 12 0.19
15 17 0.27
16 6 0.10
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAGAA
Found at i:59453116 original size:8 final size:8
Alignment explanation
Indices: 59453088--59453184 Score: 92
Period size: 8 Copynumber: 12.0 Consensus size: 8
59453078 AGCAAGCCAG
59453088 GAAAAAAA
1 GAAAAAAA
* *
59453096 GAGAGAAA
1 GAAAAAAA
59453104 G-AAAAAA
1 GAAAAAAA
59453111 GAAAAAAA
1 GAAAAAAA
*
59453119 G-AAAGAA
1 GAAAAAAA
59453126 GAAAAAAA
1 GAAAAAAA
59453134 GAAAAGAGAA
1 GAAAA-A-AA
*
59453144 -AAAAAAG
1 GAAAAAAA
*
59453151 GAAAAAAG
1 GAAAAAAA
59453159 GAAAAAAGAA
1 G-AAAAA-AA
59453169 GAAAAAAA
1 GAAAAAAA
59453177 GAAAAAAA
1 GAAAAAAA
59453185 AAGAGTTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
7 12 0.16
8 43 0.58
9 15 0.20
10 4 0.05
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:59453143 original size:18 final size:17
Alignment explanation
Indices: 59453088--59453182 Score: 76
Period size: 15 Copynumber: 5.8 Consensus size: 17
59453078 AGCAAGCCAG
* *
59453088 GAAAAAAAGAGAGA-AA
1 GAAAAAAAGAAAAAGAA
59453104 G-AAAAAAGAAAAA-AA
1 GAAAAAAAGAAAAAGAA
*
59453119 G-AAAGAAGAAAAA-AA
1 GAAAAAAAGAAAAAGAA
* *
59453134 G-AAAAGAGAAAAAAAA
1 GAAAAAAAGAAAAAGAA
*
59453150 GGAAAAAAGGAAAAAAGAA
1 -GAAAAAAAG-AAAAAGAA
59453169 GAAAAAAAGAAAAA
1 GAAAAAAAGAAAAA
59453183 AAAAGAGTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
15 37 0.56
16 3 0.05
17 6 0.09
18 13 0.20
19 7 0.11
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
GAAAAAAAGAAAAAGAA
Found at i:59453145 original size:27 final size:25
Alignment explanation
Indices: 59453101--59453184 Score: 93
Period size: 25 Copynumber: 3.4 Consensus size: 25
59453091 AAAAAGAGAG
*
59453101 AAAG-AAAAAAG-AAAAA-AAGAAA
1 AAAGAAAAAAAGAAAAAAGAAAAAA
* *
59453123 GAAGAAAAAAAGAAAAGAGAAAAAA
1 AAAGAAAAAAAGAAAAAAGAAAAAA
* *
59453148 AAGGAAAAAAGGAAAAAAGAAGAAAA
1 AAAGAAAAAAAGAAAAAAGAA-AAAA
59453174 AAAGAAAAAAA
1 AAAGAAAAAAA
59453185 AAGAGTTTCA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 3 0.06
23 7 0.14
24 4 0.08
25 22 0.45
26 13 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (25 bp):
AAAGAAAAAAAGAAAAAAGAAAAAA
Found at i:59453771 original size:20 final size:22
Alignment explanation
Indices: 59453730--59453772 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
59453720 AATTTTGTGT
*
59453730 AAAAAAATCCAGTGTTTTCAAA
1 AAAAAAATCCAGTGTTTCCAAA
59453752 AAAAAAATCCA-T-TTTCCAAA
1 AAAAAAATCCAGTGTTTCCAAA
59453772 A
1 A
59453773 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAAATCCAGTGTTTCCAAA
Found at i:59453810 original size:17 final size:17
Alignment explanation
Indices: 59453768--59453953 Score: 151
Period size: 17 Copynumber: 10.6 Consensus size: 17
59453758 ATCCATTTTC
* *
59453768 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
59453786 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
59453804 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
59453820 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
59453837 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* * *
59453855 CAAAATTTTTCTTATTT
1 CAAAAATTTTCGTGTTT
** *
59453872 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
59453890 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
59453907 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
59453925 CAAAAAAAATCTCGTGTTT
1 C--AAAAATTTTCGTGTTT
*
59453944 CATAAATTTT
1 CAAAAATTTT
59453954 GGTTTTAAAA
Statistics
Matches: 135, Mismatches: 24, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
16 15 0.11
17 58 0.43
18 36 0.27
19 16 0.12
20 10 0.07
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:59453864 original size:18 final size:18
Alignment explanation
Indices: 59453763--59453930 Score: 154
Period size: 17 Copynumber: 9.6 Consensus size: 18
59453753 AAAAAATCCA
* *
59453763 TTTTCCAAAATTTTTAGTG
1 TTTT-CAAAAATTTTCGTG
* *
59453782 TCTTCTAAAAATTTTTGTG
1 TTTTC-AAAAATTTTCGTG
59453801 -TTTCAAAAATTTTC--G
1 TTTTCAAAAATTTTCGTG
*
59453816 TTTTCAAAAATTTCCGTG
1 TTTTCAAAAATTTTCGTG
59453834 -TTTCAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
59453851 TTTTCAAAATTTTTC-T-
1 TTTTCAAAAATTTTCGTG
** *
59453867 TATTTCAAAAATCCTCTTG
1 T-TTTCAAAAATTTTCGTG
59453886 TTTTCAAAAA-TTTCGGTG
1 TTTTCAAAAATTTTC-GTG
*
59453904 TTTT-GAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
59453921 TTTTCAAAAA
1 TTTTCAAAAA
59453931 AAATCTCGTG
Statistics
Matches: 122, Mismatches: 16, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.01
16 14 0.11
17 50 0.41
18 42 0.34
19 15 0.12
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:59453930 original size:35 final size:34
Alignment explanation
Indices: 59453768--59453965 Score: 161
Period size: 35 Copynumber: 5.7 Consensus size: 34
59453758 ATCCATTTTC
* * * *
59453768 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTT
59453804 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* * *
59453837 CAAAAATTTTCGTGTTTTCAAAATTTTTCTTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
59453872 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
** *
59453907 TGAAAATTTTCGTGTTTTCAAAAAAAATCTCGTGTTT
1 CAAAAATTTTCGTGTTTTC---AAAAATTTCGTGTTT
* *
59453944 CATAAATTTT-G-GTTTTAAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
59453966 AATATTATGT
Statistics
Matches: 131, Mismatches: 23, Indels: 20
0.75 0.13 0.11
Matches are distributed among these distances:
32 8 0.06
33 22 0.17
34 9 0.07
35 58 0.44
36 13 0.10
37 13 0.10
38 8 0.06
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:59453942 original size:37 final size:36
Alignment explanation
Indices: 59453891--59454017 Score: 107
Period size: 34 Copynumber: 3.4 Consensus size: 36
59453881 TCTTGTTTTC
*
59453891 AAAAATTTCGGTGTTTTGAAAATTTTCGTGTTTTCAAA
1 AAAAATCTC-GTGTTTT-AAAATTTTCGTGTTTTCAAA
*
59453929 AAAAATCTCGTGTTTCATAAATTTT-G-GTTTT-AAA
1 AAAAATCTCGTGTTTTA-AAATTTTCGTGTTTTCAAA
* ** * *
59453963 AAAAATATTATGTCTTAAAATTCTCGTGTTTTCAAAA
1 AAAAATCTCGTGTTTTAAAATTTTCGTGTTTTC-AAA
59454000 CAAGAAATTCTCGTGTTT
1 -AA-AAA-TCTCGTGTTT
59454018 CAATCGGATC
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
33 6 0.09
34 16 0.23
35 10 0.14
36 2 0.03
37 16 0.23
38 10 0.14
39 3 0.04
40 6 0.09
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.43
Consensus pattern (36 bp):
AAAAATCTCGTGTTTTAAAATTTTCGTGTTTTCAAA
Found at i:59453959 original size:70 final size:67
Alignment explanation
Indices: 59453798--59453965 Score: 183
Period size: 70 Copynumber: 2.4 Consensus size: 67
59453788 AAAAATTTTT
**
59453798 GTGTTTCAAAAATTTTCGTTTTCAAAAATTTCCGTGTTTCAAAAATTTTCGTGTTTTCAAAATTT
1 GTGTTTCAAAAATTTT-GTTTTCAAAAATTTCCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAT
*
59453863 TTC
65 CTC
* * * **
59453866 TTATTTCAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTTTGAAAATTTTCGTGTTTTCAAAAA
1 GTGTTTCAAAAAT--T-TTGTTTTCAAAAATTTCCGTGTTTCAAAAATTTTCGTGTTTTC--AAA
59453931 AAATCTC
61 AAATCTC
* *
59453938 GTGTTTCATAAATTTTGGTTTTAAAAAA
1 GTGTTTCAAAAATTTT-GTTTTCAAAAA
59453966 AATATTATGT
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
68 11 0.13
69 2 0.02
70 50 0.61
71 2 0.02
72 17 0.21
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (67 bp):
GTGTTTCAAAAATTTTGTTTTCAAAAATTTCCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAATC
TC
Found at i:59454504 original size:27 final size:26
Alignment explanation
Indices: 59454461--59454559 Score: 74
Period size: 26 Copynumber: 3.8 Consensus size: 26
59454451 AGGGGAAGTA
**
59454461 TACTG-TACTGGTGGCTTTGCCACAT
1 TACTGTTACTGGCAGCTTTGCCACAT
* ****
59454486 ATATTGTTACTGGCAGCTTTGTTGGAT
1 -TACTGTTACTGGCAGCTTTGCCACAT
**
59454513 TACTGTTACTGGCAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGCCACAT
* * *
59454539 CACTATTACTGGCACCTTTGC
1 TACTGTTACTGGCAGCTTTGC
59454560 TATGATATTG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
26 45 0.76
27 14 0.24
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCCACAT
Found at i:59454525 original size:26 final size:26
Alignment explanation
Indices: 59454490--59454560 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
59454480 CCACATATAT
* * *
59454490 TGTTACTGGCAGCTTTGTTGGATTAC
1 TGTTACTGGCAGCTTTGCTGCATCAC
59454516 TGTTACTGGCAGCTTTGCTGCATCAC
1 TGTTACTGGCAGCTTTGCTGCATCAC
* *
59454542 TATTACTGGCACCTTTGCT
1 TGTTACTGGCAGCTTTGCT
59454561 ATGATATTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTGCATCAC
Found at i:59465195 original size:15 final size:16
Alignment explanation
Indices: 59465175--59465209 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
59465165 ATATGAAGAA
59465175 TATTTTTAAAA-TTAT
1 TATTTTTAAAATTTAT
59465190 TATTTTTAAAATTTAT
1 TATTTTTAAAATTTAT
59465206 TATT
1 TATT
59465210 AACATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTTTAAAATTTAT
Found at i:59465270 original size:16 final size:16
Alignment explanation
Indices: 59465224--59465273 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
59465214 TAAAATTAAA
59465224 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
59465241 A-A--AATAATAAATT
1 ATATTAATAATTTATT
59465254 ATATTAATAATTTATT
1 ATATTAATAATTTATT
59465270 ATAT
1 ATAT
59465274 GATTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:59465290 original size:26 final size:26
Alignment explanation
Indices: 59465214--59465291 Score: 70
Period size: 29 Copynumber: 2.9 Consensus size: 26
59465204 ATTATTAACA
*
59465214 TAAAATTA-AAATATTAAATAATTTAT
1 TAAAATAATAAATA-TAAATAATTTAT
59465240 TAAAATAATAAATTATATTAATAATTTAT
1 TAAAATAATAAA-TATA--AATAATTTAT
* *
59465269 T-ATATGATTAAATATAAATAATT
1 TAAAAT-AATAAATATAAATAATT
59465292 AAATATGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
26 14 0.32
27 5 0.11
28 9 0.20
29 16 0.36
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (26 bp):
TAAAATAATAAATATAAATAATTTAT
Found at i:59475025 original size:27 final size:27
Alignment explanation
Indices: 59474975--59475026 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
59474965 TGTCGTATAA
**
59474975 CATATAATGCATTAAAATTTCCAATAT
1 CATATAATGCATTAAAATCGCCAATAT
59475002 CATATAATGCGA-TAAAATCGCCAAT
1 CATATAATGC-ATTAAAATCGCCAAT
59475027 TCTCTTGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (27 bp):
CATATAATGCATTAAAATCGCCAATAT
Found at i:59503254 original size:22 final size:22
Alignment explanation
Indices: 59503224--59503273 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
59503214 ATGACAACTT
*
59503224 CTTTGCCCTCGATTGTTCTTAA
1 CTTTACCCTCGATTGTTCTTAA
*
59503246 CTTTACCCTCGGTTGTTCTTAA
1 CTTTACCCTCGATTGTTCTTAA
59503268 CTTTAC
1 CTTTAC
59503274 TATCTTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.14, C:0.28, G:0.12, T:0.46
Consensus pattern (22 bp):
CTTTACCCTCGATTGTTCTTAA
Found at i:59512655 original size:3 final size:3
Alignment explanation
Indices: 59512647--59512738 Score: 51
Period size: 3 Copynumber: 29.3 Consensus size: 3
59512637 ATTTTAACAA
* * * * * *
59512647 TAT TAT TAT TTT TAC TAT TAT TAT TAT TTT TAAA TGT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* * *
59512693 TAT T-G TATT TAT TGT TAT TACT TAT CTCAT TAT TAT TAT AAT TAT T
1 TAT TAT TA-T TAT TAT TAT TA-T TAT -T-AT TAT TAT TAT TAT TAT T
59512739 TATTCATTCA
Statistics
Matches: 65, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
2 1 0.02
3 54 0.83
4 8 0.12
5 2 0.03
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:59512659 original size:18 final size:19
Alignment explanation
Indices: 59512611--59512679 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 19
59512601 TTAGTCCTTT
* *
59512611 TTATTATTTTT-GCTATTAA
1 TTATTATTTTTAACTAAT-A
*
59512630 TTGATTAATTTTAAC-AATA
1 TT-ATTATTTTTAACTAATA
*
59512649 TTATTATTTTT-ACTATTA
1 TTATTATTTTTAACTAATA
59512667 TTATTATTTTTAA
1 TTATTATTTTTAA
59512680 ATGTTATTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 2 0.05
18 22 0.54
19 6 0.15
20 10 0.24
21 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (19 bp):
TTATTATTTTTAACTAATA
Found at i:59516382 original size:14 final size:15
Alignment explanation
Indices: 59516363--59516395 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
59516353 ATTTTAATAC
59516363 ATATC-TATACATAT
1 ATATCATATACATAT
59516377 ATATCTATATACATAT
1 ATATC-ATATACATAT
59516393 ATA
1 ATA
59516396 CCACCATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
16 12 0.71
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATCATATACATAT
Found at i:59519275 original size:26 final size:26
Alignment explanation
Indices: 59519237--59519298 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
59519227 GCTCACCCCC
59519237 AATATAGCCTAGCCATTTCAGTGGCT
1 AATATAGCCTAGCCATTTCAGTGGCT
* *
59519263 AATATAGCTTAGCCATTTCGGTGGCT
1 AATATAGCCTAGCCATTTCAGTGGCT
*
59519289 AATGTAGCCT
1 AATATAGCCT
59519299 TCTCAATCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (26 bp):
AATATAGCCTAGCCATTTCAGTGGCT
Found at i:59526229 original size:23 final size:23
Alignment explanation
Indices: 59526200--59526390 Score: 303
Period size: 23 Copynumber: 8.3 Consensus size: 23
59526190 ATAAGTGCCA
59526200 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
59526223 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
59526246 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
59526269 CACTGAAATGT-GCCCGAAGCTAC
1 CACTGATATGTAG-CCGAAGCTAC
*
59526292 CACTGATATTTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
59526315 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
59526338 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
59526361 CACTGATATGTAGCCGAGGCTAC
1 CACTGATATGTAGCCGAAGCTAC
59526384 CACTGAT
1 CACTGAT
59526391 CAATAACACT
Statistics
Matches: 155, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
22 1 0.01
23 153 0.99
24 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:59529424 original size:22 final size:23
Alignment explanation
Indices: 59529394--59529442 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
59529384 CCTTCCCTCC
59529394 TTTTCTTATTTTTAT-TTTAAAA
1 TTTTCTTATTTTTATATTTAAAA
* *
59529416 TTTTTTTATTTTTATATTTCAAA
1 TTTTCTTATTTTTATATTTAAAA
59529439 TTTT
1 TTTT
59529443 AAAATTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTCTTATTTTTATATTTAAAA
Found at i:59543594 original size:548 final size:547
Alignment explanation
Indices: 59542518--59543613 Score: 2120
Period size: 548 Copynumber: 2.0 Consensus size: 547
59542508 AGACACTAGG
59542518 TGTTTTGATGTTCTTAGGATGCCCTAGTCGTAGTAGAAATAAAAAAAAGTTACGTGCATGAGTGG
1 TGTTTTGATGTTCTTAGGATGCCCTAGTCGTAGTAGAAATAAAAAAAAGTTACGTGCATGAGTGG
59542583 TGTTGTGAAGAGAAAAATAAGTCAACTTCCTAATTTTGGCGTAACTGCCCTTTGGCTACTCCTAA
66 TGTTGTGAAGAGAAAAATAAGTCAACTTCCTAATTTTGGCGTAACTGCCCTTTGGCTACTCCTAA
59542648 TTTTAGTCATCGATCCAATCCATTGATCATAGCTCACCTGATTCACTGGCATCCACAGCTCGCCA
131 TTTTAGTCATCGATCCAATCCATTGATCATAGCTCACCTGATTCACTGGCATCCACAGCTCGCCA
59542713 ATCCCACTGGCGACCCCAACTCGCCTGGCTCAAACTTCAAGTGTCACATCCCGAAAACTACGTTA
196 ATCCCACTGGCGACCCCAACTCGCCTGGCTCAAACTTCAAGTGTCACATCCCGAAAACTACGTTA
59542778 GGAGAATCGGGTAAGTAAATCAGGGGTTAGTGAATCAAAAACCTTAATTATATTATATAATTAAG
261 GGAGAATCGGGTAAGTAAATCAGGGGTTAGTGAATCAAAAACCTTAATTATATTATATAATTAAG
*
59542843 TAATTAGGAGTTAATTAAATAAAATATTAGAATAATTGGAATTAATAATTTTAGGTTAGGAAATT
326 TAATTAGGAGTTAATTAAATAAAATATTAGAATAATTGGAATTAATAATTTTAGGTTACGAAATT
59542908 AAAATTAGGTGTCTGGGCATTAATTTGATGAAGAAGGATTTAAAAAAACAAAGAGGTTTGATTTA
391 AAAATTAGGTGTCTGGGCATTAATTTGATGAAGAAGGATTTAAAAAAACAAAGAGGTTTGATTTA
*
59542973 AAAATAATTTTGAAATTGGTTTTAATTGAAAAGTAAGGACCTATTTGAAAAAGGGAAGAAACTGG
456 AAAATAATTTTGAAATTGGTTTTAATTGAAAAGTAAGGACCTATTTGAAAAAAGGAAGAAACTGG
59543038 AGATGGTTAAATGTGCAATGGCCCAAT
521 AGATGGTTAAATGTGCAATGGCCCAAT
59543065 TGTTTTGATGTTCTTAGGATGCCCTAGTCGTAGTAGAAATAAAAAAAAAGTTACGTGCATGAGTG
1 TGTTTTGATGTTCTTAGGATGCCCTAGTCGTAGTAGAAAT-AAAAAAAAGTTACGTGCATGAGTG
*
59543130 GTGTTGTGAAGAGGAAAATAAGTCAACTTCCTAATTTTGGCGTAACTGCCCTTTGGCTACTCCTA
65 GTGTTGTGAAGAGAAAAATAAGTCAACTTCCTAATTTTGGCGTAACTGCCCTTTGGCTACTCCTA
59543195 ATTTTAGTCATCGATCCAATCCATTGATCATAGCTCACCTGATTCACTGGCATCCACAGCTCGCC
130 ATTTTAGTCATCGATCCAATCCATTGATCATAGCTCACCTGATTCACTGGCATCCACAGCTCGCC
*
59543260 AATCCCACTGGCGACCCCAACTCGCCTGGCTCAAACTTCAAGTGTCACATCCCGAAAACTAGGTT
195 AATCCCACTGGCGACCCCAACTCGCCTGGCTCAAACTTCAAGTGTCACATCCCGAAAACTACGTT
** *
59543325 AGGAGAATCGGGTAAGTAAATCAGGGGTTAGTGAATCAAAAATTTTAATTATGTTATATAATTAA
260 AGGAGAATCGGGTAAGTAAATCAGGGGTTAGTGAATCAAAAACCTTAATTATATTATATAATTAA
59543390 GTAATTAGGAGTTAATTAAATAAAATATTAGAATAATTGGAATTAATAATTTTAGGTTACGAAAT
325 GTAATTAGGAGTTAATTAAATAAAATATTAGAATAATTGGAATTAATAATTTTAGGTTACGAAAT
59543455 TAAAATTAGGTGTCTGGGCATTAATTTGATGAAGAAGGATTTAAAAAAACAAAGAGGTTTGATTT
390 TAAAATTAGGTGTCTGGGCATTAATTTGATGAAGAAGGATTTAAAAAAACAAAGAGGTTTGATTT
59543520 AAAAATAATTTTGAAATTGGTTTTAATTGAAAAGTAAGGACCTATTTGAAAAAAGGAAGAAACTG
455 AAAAATAATTTTGAAATTGGTTTTAATTGAAAAGTAAGGACCTATTTGAAAAAAGGAAGAAACTG
59543585 GAGATGGTTAAATGTGCAATGGCCCAAT
520 GAGATGGTTAAATGTGCAATGGCCCAAT
59543613 T
1 T
59543614 TTTGAAAATG
Statistics
Matches: 541, Mismatches: 7, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
547 40 0.07
548 501 0.93
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (547 bp):
TGTTTTGATGTTCTTAGGATGCCCTAGTCGTAGTAGAAATAAAAAAAAGTTACGTGCATGAGTGG
TGTTGTGAAGAGAAAAATAAGTCAACTTCCTAATTTTGGCGTAACTGCCCTTTGGCTACTCCTAA
TTTTAGTCATCGATCCAATCCATTGATCATAGCTCACCTGATTCACTGGCATCCACAGCTCGCCA
ATCCCACTGGCGACCCCAACTCGCCTGGCTCAAACTTCAAGTGTCACATCCCGAAAACTACGTTA
GGAGAATCGGGTAAGTAAATCAGGGGTTAGTGAATCAAAAACCTTAATTATATTATATAATTAAG
TAATTAGGAGTTAATTAAATAAAATATTAGAATAATTGGAATTAATAATTTTAGGTTACGAAATT
AAAATTAGGTGTCTGGGCATTAATTTGATGAAGAAGGATTTAAAAAAACAAAGAGGTTTGATTTA
AAAATAATTTTGAAATTGGTTTTAATTGAAAAGTAAGGACCTATTTGAAAAAAGGAAGAAACTGG
AGATGGTTAAATGTGCAATGGCCCAAT
Found at i:59546009 original size:17 final size:17
Alignment explanation
Indices: 59545989--59546062 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
59545979 TTATGATGGA
*
59545989 GCATGAACTTTTATTTC
1 GCATGAACTGTTATTTC
*
59546006 GCATGAAGTGTTATTT-
1 GCATGAACTGTTATTTC
* *
59546022 GATATGAACTGATATTTC
1 G-CATGAACTGTTATTTC
** * *
59546040 ATATGAACTATTATTTT
1 GCATGAACTGTTATTTC
59546057 GCATGA
1 GCATGA
59546063 GTTGTCATTT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
16 1 0.02
17 43 0.98
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (17 bp):
GCATGAACTGTTATTTC
Found at i:59546047 original size:51 final size:51
Alignment explanation
Indices: 59545991--59546097 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 51
59545981 ATGATGGAGC
* * * *
59545991 ATGAACTTTTATTTCGCATGAAG-TGTTATTTGATATGAACTGATATTTCAT
1 ATGAACTATTATTTCGCATG-AGTTGTCATTTGATAAGAAATGATATTTCAT
* * *
59546042 ATGAACTATTATTTTGCATGAGTTGTCATTTGGTAAGAAATGTTATTTCAT
1 ATGAACTATTATTTCGCATGAGTTGTCATTTGATAAGAAATGATATTTCAT
59546093 ATGAA
1 ATGAA
59546098 TAGATGTTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.04
51 46 0.96
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (51 bp):
ATGAACTATTATTTCGCATGAGTTGTCATTTGATAAGAAATGATATTTCAT
Found at i:59553519 original size:24 final size:23
Alignment explanation
Indices: 59553474--59553522 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
59553464 ATTTTATCGT
*
59553474 ATTTTTACTGGCAACTTGTCTGC
1 ATTTTTACTGGCAAATTGTCTGC
*
59553497 ATTTTTACTGGCAGAATTTTCTGC
1 ATTTTTACTGGCA-AATTGTCTGC
59553521 AT
1 AT
59553523 ATTATTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (23 bp):
ATTTTTACTGGCAAATTGTCTGC
Found at i:59553956 original size:26 final size:26
Alignment explanation
Indices: 59553925--59553986 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
59553915 CTCACCCCCC
*
59553925 AATATAGCCTAGTCATTTCGATGGCT
1 AATATAGCCTAGCCATTTCGATGGCT
* * *
59553951 AGTATAGCTTAGCCATTTCGGTGGCT
1 AATATAGCCTAGCCATTTCGATGGCT
*
59553977 AATGTAGCCT
1 AATATAGCCT
59553987 TCTCAATCTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (26 bp):
AATATAGCCTAGCCATTTCGATGGCT
Found at i:59556280 original size:16 final size:17
Alignment explanation
Indices: 59556261--59556304 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
59556251 AAAATAAAAG
59556261 GAAAAGCTAAACT-AAT
1 GAAAAGCTAAACTGAAT
*
59556277 GAAAAACTAAACTGAAT
1 GAAAAGCTAAACTGAAT
59556294 -ACAAAGCTAAA
1 GA-AAAGCTAAA
59556305 TAAAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.59, C:0.14, G:0.11, T:0.16
Consensus pattern (17 bp):
GAAAAGCTAAACTGAAT
Found at i:59556282 original size:17 final size:17
Alignment explanation
Indices: 59556262--59556304 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
59556252 AAATAAAAGG
59556262 AAAAGCTAAACT-AATGA
1 AAAAGCTAAACTGAAT-A
59556279 AAAA-CTAAACTGAATA
1 AAAAGCTAAACTGAATA
*
59556295 CAAAGCTAAA
1 AAAAGCTAAA
59556305 TAAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.60, C:0.14, G:0.09, T:0.16
Consensus pattern (17 bp):
AAAAGCTAAACTGAATA
Found at i:59564958 original size:6 final size:6
Alignment explanation
Indices: 59564947--59564983 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
59564937 TGATCGAGCA
59564947 TATATT TATATT TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT TATATT TATATT T
59564984 TACTTGTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:59573242 original size:549 final size:547
Alignment explanation
Indices: 59572164--59573260 Score: 2149
Period size: 549 Copynumber: 2.0 Consensus size: 547
59572154 AGACACTAGG
59572164 TGTTTTGATGTTCTTAGGATGCCCTAGTCGTAGTAGAAATAAAAAAAAGTTACGTGCATGAGTGG
1 TGTTTTGATGTTCTTAGGATGCCCTAGTCGTAGTAGAAATAAAAAAAAGTTACGTGCATGAGTGG
59572229 TGTTGTGAAGAGGAAAATAAGTCAACTTCCTAATTTTGGCGTAACTGCCCTTTGGCTACTCCTAA
66 TGTTGTGAAGAGGAAAATAAGTCAACTTCCTAATTTTGGCGTAACTGCCCTTTGGCTACTCCTAA
59572294 TTTTAGTCATCGATCCAATCCATTGATCATAGCTCACCTGATTCACTGGCATCCACAGCTCGCCA
131 TTTTAGTCATCGATCCAATCCATTGATCATAGCTCACCTGATTCACTGGCATCCACAGCTCGCCA
59572359 ATCCCACTGGCGACCCCAACTCGCCTGGCTCAAACTTCAAGTGTCACATCCCGAAAACTAGGTTA
196 ATCCCACTGGCGACCCCAACTCGCCTGGCTCAAACTTCAAGTGTCACATCCCGAAAACTAGGTTA
59572424 GGAGAATCGGGTAAGTAAATCAGGGGTTAGTGAATCAAAAACCTTAATTATATTATATAATTAAG
261 GGAGAATCGGGTAAGTAAATCAGGGGTTAGTGAATCAAAAACCTTAATTATATTATATAATTAAG
*
59572489 TAATTAGGAGTTAATTAAATAAAATATTAGAATAATTGGAATTAATAATTTTAGGTTAGGAAATT
326 TAATTAGGAGTTAATTAAATAAAATATTAGAATAATTGGAATTAATAATTTTAGGTTACGAAATT
59572554 AAAATTAGGTGTCTGGGCATTAATTTGATGAAGAAGGATTTAAAAAAACAAAGAGGTTTGATTTA
391 AAAATTAGGTGTCTGGGCATTAATTTGATGAAGAAGGATTTAAAAAAACAAAGAGGTTTGATTTA
*
59572619 AAAATAATTTTGAAATTGGTTTTAATTGAAAAGTAAGGACCTATTTGAAAAAGGGAAGAAACTGG
456 AAAATAATTTTGAAATTGGTTTTAATTGAAAAGTAAGGACCTATTTGAAAAAAGGAAGAAACTGG
59572684 AGATGGTTAAATGTGCAATGGCCCAAT
521 AGATGGTTAAATGTGCAATGGCCCAAT
59572711 TGTTTTGATGTTCTTAGGATGCCCTAGTCGTAGTAGAAATAAAAAAAAAAGTTACGTGCATGAGT
1 TGTTTTGATGTTCTTAGGATGCCCTAGTCGTAGTAGAAAT--AAAAAAAAGTTACGTGCATGAGT
59572776 GGTGTTGTGAAGAGGAAAATAAGTCAACTTCCTAATTTTGGCGTAACTGCCCTTTGGCTACTCCT
64 GGTGTTGTGAAGAGGAAAATAAGTCAACTTCCTAATTTTGGCGTAACTGCCCTTTGGCTACTCCT
59572841 AATTTTAGTCATCGATCCAATCCATTGATCATAGCTCACCTGATTCACTGGCATCCACAGCTCGC
129 AATTTTAGTCATCGATCCAATCCATTGATCATAGCTCACCTGATTCACTGGCATCCACAGCTCGC
59572906 CAATCCCACTGGCGACCCCAACTCGCCTGGCTCAAACTTCAAGTGTCACATCCCGAAAACTAGGT
194 CAATCCCACTGGCGACCCCAACTCGCCTGGCTCAAACTTCAAGTGTCACATCCCGAAAACTAGGT
*
59572971 TAGGAGAATCGGGTAAGTAAATCAGGGGTTAGTGAATCAAAAACCTTAATTATGTTATATAATTA
259 TAGGAGAATCGGGTAAGTAAATCAGGGGTTAGTGAATCAAAAACCTTAATTATATTATATAATTA
59573036 AGTAATTAGGAGTTAATTAAATAAAATATTAGAATAATTGGAATTAATAATTTTAGGTTACGAAA
324 AGTAATTAGGAGTTAATTAAATAAAATATTAGAATAATTGGAATTAATAATTTTAGGTTACGAAA
59573101 TTAAAATTAGGTGTCTGGGCATTAATTTGATGAAGAAGGATTTAAAAAAACAAAGAGGTTTGATT
389 TTAAAATTAGGTGTCTGGGCATTAATTTGATGAAGAAGGATTTAAAAAAACAAAGAGGTTTGATT
59573166 TAAAAATAATTTTGAAATTGGTTTTAATTGAAAAGTAAGGACCTATTTGAAAAAAGGAAGAAACT
454 TAAAAATAATTTTGAAATTGGTTTTAATTGAAAAGTAAGGACCTATTTGAAAAAAGGAAGAAACT
59573231 GGAGATGGTTAAATGTGCAATGGCCCAAT
519 GGAGATGGTTAAATGTGCAATGGCCCAAT
59573260 T
1 T
59573261 TTTGAAAATG
Statistics
Matches: 545, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
547 40 0.07
549 505 0.93
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (547 bp):
TGTTTTGATGTTCTTAGGATGCCCTAGTCGTAGTAGAAATAAAAAAAAGTTACGTGCATGAGTGG
TGTTGTGAAGAGGAAAATAAGTCAACTTCCTAATTTTGGCGTAACTGCCCTTTGGCTACTCCTAA
TTTTAGTCATCGATCCAATCCATTGATCATAGCTCACCTGATTCACTGGCATCCACAGCTCGCCA
ATCCCACTGGCGACCCCAACTCGCCTGGCTCAAACTTCAAGTGTCACATCCCGAAAACTAGGTTA
GGAGAATCGGGTAAGTAAATCAGGGGTTAGTGAATCAAAAACCTTAATTATATTATATAATTAAG
TAATTAGGAGTTAATTAAATAAAATATTAGAATAATTGGAATTAATAATTTTAGGTTACGAAATT
AAAATTAGGTGTCTGGGCATTAATTTGATGAAGAAGGATTTAAAAAAACAAAGAGGTTTGATTTA
AAAATAATTTTGAAATTGGTTTTAATTGAAAAGTAAGGACCTATTTGAAAAAAGGAAGAAACTGG
AGATGGTTAAATGTGCAATGGCCCAAT
Found at i:59574445 original size:2 final size:2
Alignment explanation
Indices: 59574440--59574475 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
59574430 ATATGCATCT
59574440 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59574476 GTGTTGGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:59575670 original size:17 final size:17
Alignment explanation
Indices: 59575650--59575723 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
59575640 TTATGATGGA
*
59575650 GCATGAACTTTTATTTC
1 GCATGAACTGTTATTTC
*
59575667 GCATGAAGTGTTATTT-
1 GCATGAACTGTTATTTC
* *
59575683 GATATGAACTGATATTTC
1 G-CATGAACTGTTATTTC
** * *
59575701 ATATGAACTATTATTTT
1 GCATGAACTGTTATTTC
59575718 GCATGA
1 GCATGA
59575724 GTTGTCATTT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
16 1 0.02
17 43 0.98
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (17 bp):
GCATGAACTGTTATTTC
Done.