Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 50 of 145
Found at i:16328067 original size:22 final size:22
Alignment explanation
Indices: 16328041--16328091 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
16328031 CTAATTTTTC
*
16328041 CTCTCAATTTCCTTCTAAAATT
1 CTCTCAATTTCCTTCCAAAATT
16328063 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
16328085 CTCTCAA
1 CTCTCAA
16328092 ACTCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:16328174 original size:29 final size:31
Alignment explanation
Indices: 16328137--16328199 Score: 103
Period size: 29 Copynumber: 2.1 Consensus size: 31
16328127 CTCAAATCCA
16328137 TTTTTTAAAATAATTAT-AA-TTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTATAT
*
16328166 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTATAT
16328197 TTT
1 TTT
16328200 CATCAATGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 16 0.52
30 2 0.06
31 13 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTTTTAAAATAATTATAAATTTTTTTATAT
Found at i:16329969 original size:18 final size:18
Alignment explanation
Indices: 16329948--16329982 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16329938 AGGTATGTTT
* *
16329948 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
16329966 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
16329983 TCCTTTTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:16330267 original size:22 final size:24
Alignment explanation
Indices: 16330241--16330294 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
16330231 ATGCGGAACC
*
16330241 GGAAGAACCACAACCA-C-CTTGA
1 GGAAGAACCACAACCACCACTAGA
* *
16330263 GGAAGGACCACAATCACCACTAGA
1 GGAAGAACCACAACCACCACTAGA
16330287 GGAAGAAC
1 GGAAGAAC
16330295 AACCGCCGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 14 0.54
23 1 0.04
24 11 0.42
ACGTcount: A:0.43, C:0.28, G:0.22, T:0.07
Consensus pattern (24 bp):
GGAAGAACCACAACCACCACTAGA
Found at i:16330565 original size:28 final size:28
Alignment explanation
Indices: 16330524--16331120 Score: 717
Period size: 28 Copynumber: 20.6 Consensus size: 28
16330514 AAAACCTTAA
*
16330524 CCTAACACTAACCTAAATTAATTAAAAAA
1 CCTAAC-CTAACCTAAATTAATTAAAAAC
* *
16330553 CCTAATCTAACCTAAATTAACTAAAAACCC
1 CCTAACCTAACCTAAATTAATTAAAAA--C
*
16330583 TAACCTAACCCTAACCTAAATTAACTAAAAAC
1 ---CCTAA-CCTAACCTAAATTAATTAAAAAC
* * *
16330615 CTTAATCTAACCTAAATTAATTTAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
*
16330643 CCTAACCCAAACCTAAATTAATTAAAAAC
1 CCTAA-CCTAACCTAAATTAATTAAAAAC
* *
16330672 CCTAAACTAACCTAAATTAACTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
* *
16330700 CCTAATCTAACCTAAATTAATTTAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
*
16330728 CCTAACCCTAACCTAAATTAATTAAAAAA
1 CCTAA-CCTAACCTAAATTAATTAAAAAC
* *
16330757 CCTAATCTAACCTAAATTAACTAAAAACCC
1 CCTAACCTAACCTAAATTAATTAAAAA--C
*
16330787 TAACCTAACCCTAACCTAAATTAACTAAAAAC
1 ---CCTAA-CCTAACCTAAATTAATTAAAAAC
* *
16330819 CCTAATCTAACCTAAATTAATTTAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
*
16330847 CCTAACCCAAACCTAAATTAATTAAAAAC
1 CCTAA-CCTAACCTAAATTAATTAAAAAC
* *
16330876 CCTAAACTAACCTAAATTAACTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
* *
16330904 CCTAATCTAACCTAAATTAATTTAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
*
16330932 CCTAACCCAAACCTAAATTAATTAAAAAC
1 CCTAA-CCTAACCTAAATTAATTAAAAAC
* *
16330961 CCTAAACTAACCTAAATTAACTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
* *
16330989 CCTAATCTAACCTAAATTAATTTAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
*
16331017 CCTAATCTAACCTAAATTAATTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
*
16331045 CCTAAACCAAACCTAAATTAATTAAAAAC
1 CCT-AACCTAACCTAAATTAATTAAAAAC
*
16331074 CCAAAACCTAACCTAAATTAATTAAAAAC
1 CC-TAACCTAACCTAAATTAATTAAAAAC
* * *
16331103 CCAAAACTAAGCTAAATT
1 CCTAACCTAACCTAAATT
16331121 TTTTTGGTAG
Statistics
Matches: 497, Mismatches: 53, Indels: 37
0.85 0.09 0.06
Matches are distributed among these distances:
28 278 0.56
29 165 0.33
32 2 0.00
33 10 0.02
34 42 0.08
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (28 bp):
CCTAACCTAACCTAAATTAATTAAAAAC
Found at i:16330706 original size:85 final size:84
Alignment explanation
Indices: 16330531--16331120 Score: 730
Period size: 85 Copynumber: 6.8 Consensus size: 84
16330521 TAACCTAACA
* *
16330531 CTAACCTAAATTAATTAAAAAACCTAATCTAACCTAAATTAACTAAAAACCCTAACCTAACCCTA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCT-A---AA--CTA
*
16330596 ACCTAAATTAACTAAAAACCTTAAT
60 ACCTAAATTAACTAAAAACCCTAAT
* * *
16330621 CTAACCTAAATTAATTTAAAACCCTAACCCAAACCTAAATTAATTAAAAACCCTAAACTAACCTA
1 CTAACCTAAATTAATTAAAAACCCTAA-TCTAACCTAAATTAATTAAAAACCCTAAACTAACCTA
16330686 AATTAACTAAAAACCCTAAT
65 AATTAACTAAAAACCCTAAT
* * * *
16330706 CTAACCTAAATTAATTTAAAACCCTAACCCTAACCTAAATTAATTAAAAAACCTAATCTAACCTA
1 CTAACCTAAATTAATTAAAAACCCTAA-TCTAACCTAAATTAATTAAAAACCCTAAACTAACCTA
16330771 AATTAACTAAAAACCCTAACCT
65 AATTAACTAAAAACCCTAA--T
* * * *
16330793 AACCCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAACCCAAA
1 ----CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAA-ACTAA
* *
16330858 CCTAAATTAATTAAAAACCCTAAA
61 CCTAAATTAACTAAAAACCCTAAT
* * * *
16330882 CTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAACCCAAACCTA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAA-ACTAACCTA
* *
16330947 AATTAATTAAAAACCCTAAA
65 AATTAACTAAAAACCCTAAT
* * *
16330967 CTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAATCTAACCTAA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACTAACCTAA
* *
16331032 ATTAATTAAAAACCCTAAAC
66 ATTAACTAAAAACCCT-AAT
* * * * *
16331052 CAAACCTAAATTAATTAAAAACCCAAAACCTAACCTAAATTAATTAAAAACCCAAAACTAAGCTA
1 CTAACCTAAATTAATTAAAAACCC-TAATCTAACCTAAATTAATTAAAAACCCTAAACTAACCTA
16331117 AATT
65 AATT
16331121 TTTTTGGTAG
Statistics
Matches: 461, Mismatches: 29, Indels: 24
0.90 0.06 0.05
Matches are distributed among these distances:
84 24 0.05
85 272 0.59
86 38 0.08
87 3 0.01
90 51 0.11
91 73 0.16
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (84 bp):
CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACTAACCTAA
ATTAACTAAAAACCCTAAT
Found at i:16330839 original size:204 final size:204
Alignment explanation
Indices: 16330524--16331120 Score: 1017
Period size: 204 Copynumber: 3.0 Consensus size: 204
16330514 AAAACCTTAA
*
16330524 CCTAACACTAACCTAAATTAATTAAAAAACCTAATCTAACCTAAATTAACTAAAAACCCTAACCT
1 CCTAACCCTAACCTAAATTAATTAAAAAACCTAATCTAACCTAAATTAACTAAAAACCCTAACCT
*
16330589 AACCCTAACCTAAATTAACTAAAAACCTTAATCTAACCTAAATTAATTTAAAACCCTAACCCAAA
66 AACCCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAACCCAAA
16330654 CCTAAATTAATTAAAAACCCTAAACTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTA
131 CCTAAATTAATTAAAAACCCTAAACTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTA
16330719 ATTTAAAAC
196 ATTTAAAAC
16330728 CCTAACCCTAACCTAAATTAATTAAAAAACCTAATCTAACCTAAATTAACTAAAAACCCTAACCT
1 CCTAACCCTAACCTAAATTAATTAAAAAACCTAATCTAACCTAAATTAACTAAAAACCCTAACCT
16330793 AACCCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAACCCAAA
66 AACCCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAACCCAAA
16330858 CCTAAATTAATTAAAAACCCTAAACTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTA
131 CCTAAATTAATTAAAAACCCTAAACTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTA
16330923 ATTTAAAAC
196 ATTTAAAAC
* * *
16330932 CCTAACCCAAACCTAAATTAATTAAAAACCCTAAACTAACCTAAATTAACTAAAAACCCTAA--T
1 CCTAACCCTAACCTAAATTAATTAAAAAACCTAATCTAACCTAAATTAACTAAAAACCCTAACCT
* * * *
16330995 ----CTAACCTAAATTAATTTAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCAAA
66 AACCCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAACCCAAA
* * * * *
16331056 CCTAAATTAATTAAAAACCCAAAACCTAACCTAAATTAATTAAAAACCCAAAACTAAGCTAAATT
131 CCTAAATTAATTAAAAACCCTAAA-CTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATT
16331121 TTTTTGGTAG
Statistics
Matches: 378, Mismatches: 14, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
198 80 0.21
199 36 0.10
202 1 0.00
204 261 0.69
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (204 bp):
CCTAACCCTAACCTAAATTAATTAAAAAACCTAATCTAACCTAAATTAACTAAAAACCCTAACCT
AACCCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAACCCAAA
CCTAAATTAATTAAAAACCCTAAACTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTA
ATTTAAAAC
Found at i:16333546 original size:125 final size:126
Alignment explanation
Indices: 16333246--16333585 Score: 583
Period size: 125 Copynumber: 2.7 Consensus size: 126
16333236 NNNNNNNNNN
*
16333246 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTCG
*
16333311 TACAAACGATTTTATACTATTTGCTCAGAAACATCAGAAAAAAAAATTATTTCTTACATGAC
66 TACAAACGATTTTATACTATTTGCTCAGAAAAATCAG-AAAAAAAATTATTTCTTACATGAC
16333373 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTCG
16333438 TACAAACGATTTTATACTATTTGCTCAGAAAAATCAG-AAAAAAATTATTTCTTACATGAC
66 TACAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
* * * * *
16333498 CTACTGTAGCAAAATCGTGTCCATGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTCG
* *
16333563 TAGAAGCGATTTTATACTATTTG
66 TACAAACGATTTTATACTATTTG
16333586 ACCATAGACG
Statistics
Matches: 204, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
125 104 0.51
127 100 0.49
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTCG
TACAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
Found at i:16334984 original size:22 final size:22
Alignment explanation
Indices: 16334954--16334995 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
16334944 ACACCAAAAC
*
16334954 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
16334976 AGGCCTTTAGCGGCGCTTTT
1 AGGCCTTTAGCGGCGCTTTT
16334996 AGCACCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.29, T:0.40
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:16335298 original size:43 final size:43
Alignment explanation
Indices: 16335079--16335286 Score: 283
Period size: 43 Copynumber: 4.8 Consensus size: 43
16335069 TTATAGAAAA
* *
16335079 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCAC
* *
16335122 AAACGCCGCTATAGACCATGACCTTTAGCGTCGCTTTTCCCAC
1 AAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCAC
* * * *
16335165 AAACGTCGCTATAGACCATGACCTTTAGCGACGCTTTTCGCAC
1 AAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCAC
* * **
16335208 AAATGCCGCTAT-GAACCACGATCTTTAGCGGCGCTTTTCTTAC
1 AAACGCCGCTATAG-ACCACGACCTTTAGCGGCGCTTTTCCCAC
*
16335251 AAACGCCGCTATAGACCGCGACCTTTAGCGGCGCTT
1 AAACGCCGCTATAGACCACGACCTTTAGCGGCGCTT
16335287 CTCGCAAAAA
Statistics
Matches: 147, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.01
43 145 0.99
44 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCAC
Found at i:16335372 original size:23 final size:21
Alignment explanation
Indices: 16335325--16335372 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
16335315 CTTTAAAAAA
16335325 ATTATTTTAATAAAATAGTAT
1 ATTATTTTAATAAAATAGTAT
*
16335346 -TTATTTTAATGATAAATATTAT
1 ATTATTTTAAT-A-AAATAGTAT
16335368 ATTAT
1 ATTAT
16335373 GTTTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 10 0.43
21 1 0.04
22 8 0.35
23 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTATTTTAATAAAATAGTAT
Found at i:16339232 original size:96 final size:93
Alignment explanation
Indices: 16339114--16339299 Score: 259
Period size: 96 Copynumber: 2.0 Consensus size: 93
16339104 CTAACTCTTA
*
16339114 ACCCCAAACCCTAAACCACTAA-CCTCTAAACCTTATTTAATATAGAAATTAAAAAAACACTAAT
1 ACCCCAAACCCTAAACCACTAACCCT-TAAACATTATTTAATATAGAAATT-AAAAAACACTAAT
*
16339178 TAATCTAAATCATAAACCCTAACCCTAACCCG
64 TAATCTAAACCATAAACCC-AA-CCTAACCCG
* * *
16339210 ACCCCAAATCCCTAATCC-CTAACCCTTAAACATTATTTAATATATAAATTAAAATACACTAATT
1 ACCCCAAA-CCCTAAACCACTAACCCTTAAACATTATTTAATATAGAAATTAAAAAACACTAATT
*
16339274 AATCTAAACCCTAAACCCAACCTAAC
65 AATCTAAACCATAAACCCAACCTAAC
16339300 TTATTTAAGA
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
93 6 0.07
94 2 0.02
95 29 0.35
96 34 0.41
97 11 0.13
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (93 bp):
ACCCCAAACCCTAAACCACTAACCCTTAAACATTATTTAATATAGAAATTAAAAAACACTAATTA
ATCTAAACCATAAACCCAACCTAACCCG
Found at i:16339504 original size:89 final size:89
Alignment explanation
Indices: 16339392--16339566 Score: 242
Period size: 89 Copynumber: 2.0 Consensus size: 89
16339382 CTAACTCTTA
* * * *
16339392 ACCCCAAACCCCAAACTACTAACCTCTAAACCTTATTTAATATAGAAATTAAAAAACATTAATCA
1 ACCCCAAACCCCAAACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATCA
*
16339457 ATCTAAATCATAAACCCTAACTCG
66 ATCTAAACCATAAACCCTAACTCG
* * * * * *
16339481 ACCCCAAATCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTA
1 ACCCCAAACCCCAAACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATCA
*
16339546 ATCTAAACCTTAAACCCTAAC
66 ATCTAAACCATAAACCCTAAC
16339567 ATGACACTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (89 bp):
ACCCCAAACCCCAAACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATCA
ATCTAAACCATAAACCCTAACTCG
Found at i:16339565 original size:278 final size:275
Alignment explanation
Indices: 16339017--16339562 Score: 875
Period size: 278 Copynumber: 2.0 Consensus size: 275
16339007 ATTATATAAG
* *
16339017 AACTTATTTAATATATAAATTAAAAAAATACTAATTAATCTAAACCTTAAACCCTAACTCGACCC
1 AACTTATTTAAGATATAAATT-AAAAAATACTAATTAATCTAAACCTTAAAACCTAACTCGACCC
* * * *
16339082 TAAATCTTTAAACCCTAGATAACTAACTCTTAACCCCAAACCCTAAACCACTAACCTCTAAACCT
65 CAAATCTCTAAACCCTAAATAACTAACTCTTAACCCCAAACCCCAAACCACTAACCTCTAAACCT
*
16339147 TATTTAATATAGAAATTAAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCTAACCCGAC
130 TATTTAATATAGAAATTAAAAAAACACTAATCAATCTAAATCATAAACCCTAA-CCT-A--CGAC
* * *
16339212 CCCAAATCCCTAATCCCTAACCCTTAAACATTATTTAATATATAAATTAAAATACACTAATTAAT
191 CCCAAATCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAAT
16339277 CTAAACCCTAAACCCAACCT
256 CTAAACCCTAAACCCAACCT
*
16339297 AACTTATTTAAGATATAAATT-AAAAATACTAATTAATCTAAACCTTAAAACTTAACTCGACCCC
1 AACTTATTTAAGATATAAATTAAAAAATACTAATTAATCTAAACCTTAAAACCTAACTCGACCCC
* * *
16339361 GAATCTCTAAACCCTAAATCACTAACTCTTAACCCCAAACCCCAAACTACTAACCTCTAAACCTT
66 AAATCTCTAAACCCTAAATAACTAACTCTTAACCCCAAACCCCAAACCACTAACCTCTAAACCTT
*
16339426 ATTTAATATAGAAATT-AAAAAACATTAATCAATCTAAATCATAAACCCTAA-CT-CGACCCCAA
131 ATTTAATATAGAAATTAAAAAAACACTAATCAATCTAAATCATAAACCCTAACCTACGACCCCAA
16339488 ATCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAAA
196 ATCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAAA
*
16339553 CCTTAAACCC
261 CCCTAAACCC
16339563 TAACATGACA
Statistics
Matches: 250, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
271 80 0.32
275 2 0.01
277 33 0.13
278 115 0.46
280 20 0.08
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.27
Consensus pattern (275 bp):
AACTTATTTAAGATATAAATTAAAAAATACTAATTAATCTAAACCTTAAAACCTAACTCGACCCC
AAATCTCTAAACCCTAAATAACTAACTCTTAACCCCAAACCCCAAACCACTAACCTCTAAACCTT
ATTTAATATAGAAATTAAAAAAACACTAATCAATCTAAATCATAAACCCTAACCTACGACCCCAA
ATCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAAA
CCCTAAACCCAACCT
Found at i:16339590 original size:89 final size:89
Alignment explanation
Indices: 16339410--16339591 Score: 231
Period size: 89 Copynumber: 2.0 Consensus size: 89
16339400 CCCCAAACTA
* * * *
16339410 CTAACCTCTAAACCTTATTTAATATAGAAATTAAAAAACATTAATCAATCTAAATCATAAACCCT
1 CTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATCAATCTAAACCATAAACCCT
* * *
16339475 AACTCGACCCCAAATCCCTAACCC
66 AACTCGACACCAAATCCATAAACC
* * * *
16339499 CTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAAACCTTAAACCCT
1 CTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATCAATCTAAACCATAAACCCT
* *
16339564 AACAT-GACACTAAATTCATAAACC
66 AAC-TCGACACCAAATCCATAAACC
16339588 CTAA
1 CTAA
16339592 ATCCCTAACT
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
89 78 0.99
90 1 0.01
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.27
Consensus pattern (89 bp):
CTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATCAATCTAAACCATAAACCCT
AACTCGACACCAAATCCATAAACC
Found at i:16339614 original size:7 final size:7
Alignment explanation
Indices: 16339594--16339637 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
16339584 AACCCTAAAT
16339594 CCCTAAC
1 CCCTAAC
* *
16339601 TCTTAAC
1 CCCTAAC
*
16339608 CTCTAAC
1 CCCTAAC
*
16339615 CTCTAAC
1 CCCTAAC
16339622 CCCTAAC
1 CCCTAAC
16339629 CCCTAAC
1 CCCTAAC
16339636 CC
1 CC
16339638 ATAAACCTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.27, C:0.50, G:0.00, T:0.23
Consensus pattern (7 bp):
CCCTAAC
Found at i:16339690 original size:14 final size:15
Alignment explanation
Indices: 16339668--16339701 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16339658 CTTAAATAAG
*
16339668 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
16339682 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
16339697 AATCT
1 AATCT
16339702 ATAAACCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:16339774 original size:20 final size:21
Alignment explanation
Indices: 16339749--16339792 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
16339739 ATCCTAAATT
*
16339749 AACCATATATA-TATACCCTA
1 AACCATATATATTAAACCCTA
16339769 AACCATATATATTAAACCCTA
1 AACCATATATATTAAACCCTA
16339790 AAC
1 AAC
16339793 TATAATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (21 bp):
AACCATATATATTAAACCCTA
Found at i:16340136 original size:41 final size:41
Alignment explanation
Indices: 16340079--16340339 Score: 353
Period size: 41 Copynumber: 6.4 Consensus size: 41
16340069 NNNNNNNNTT
*
16340079 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTAC
1 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTC
* *
16340120 AAAAACGCCGCTAAAGAT-TGAGTATTAGTGGCGCTTTTTC
1 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTC
* * *
16340160 AAAAACGCCGCTAAAGATCTCAGCATTAGCGACGCTTTTCC
1 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTC
* * *
16340201 AAAAACGCTGCTAAAGATCTGAGCATTATCGACGCTTTTTC
1 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTC
* * * *
16340242 AAAGACGCCGCTAAAGATTTGAGCATTAGCGGCACTTCTTC
1 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTC
* * *
16340283 AAAAGCGCTGCTAAAGATCTGAGCATTAGCGGCGCTTTTTTT
1 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC-TTTTTC
*
16340325 AGAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
16340340 TCCCCGAAAG
Statistics
Matches: 189, Mismatches: 29, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
40 37 0.20
41 136 0.72
42 16 0.08
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTC
Found at i:16340467 original size:40 final size:39
Alignment explanation
Indices: 16340407--16340513 Score: 142
Period size: 40 Copynumber: 2.7 Consensus size: 39
16340397 AAAAACGCTA
* *
16340407 CTAATGCTCATTTTTAGCGGCATTTTTAGGAAAGCGCCG
1 CTAATGCTCATTTTTAGCGGCGTTTTTAGGAAAGCGACG
* ** *
16340446 CTAATGCTCGATCTTTAGCGGCGTTTTGCGTAAAGCGACG
1 CTAATGCTC-ATTTTTAGCGGCGTTTTTAGGAAAGCGACG
16340486 CTAATGCTCAATTTTTAGCGGCGTTTTT
1 CTAATGCTC-ATTTTTAGCGGCGTTTTT
16340514 TGTCCAAACG
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
39 9 0.16
40 49 0.84
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (39 bp):
CTAATGCTCATTTTTAGCGGCGTTTTTAGGAAAGCGACG
Found at i:16340536 original size:12 final size:12
Alignment explanation
Indices: 16340519--16340544 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16340509 TTTTTTGTCC
16340519 AAACGCCGCTAA
1 AAACGCCGCTAA
16340531 AAACGCCGCTAA
1 AAACGCCGCTAA
16340543 AA
1 AA
16340545 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:16340875 original size:16 final size:17
Alignment explanation
Indices: 16340844--16340876 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16340834 ATTTTAATAA
*
16340844 TTTAAATTATTTATTAC
1 TTTAAATTAATTATTAC
16340861 TTTAAA-TAATTATTAC
1 TTTAAATTAATTATTAC
16340877 ATGATGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAATTAATTATTAC
Found at i:16345756 original size:87 final size:86
Alignment explanation
Indices: 16345649--16345810 Score: 211
Period size: 87 Copynumber: 1.9 Consensus size: 86
16345639 CATGCATAAG
** * *
16345649 GTTGAGTTCTTACTCTTAATGAATTCA-TATCTTATG-TTTTAGTTGGTCCTATTTAGACGGACA
1 GTTGAGTTCTTACTCTTAATGAATT-ATTATCGCA-GAGTTTAGTTGGTCCTATTGAGACGGACA
16345712 TGATGAATTCACCGACATGTGAA
64 TGATGAATTCACCGACATGTGAA
* * * *
16345735 GTTGAGTTTCTTACTTTTAATGAGTTATTATCGCAGAGTTTAGTTGGTCCTATTGAGGCGGACTT
1 GTTGAG-TTCTTACTCTTAATGAATTATTATCGCAGAGTTTAGTTGGTCCTATTGAGACGGACAT
16345800 GATGAATTCAC
65 GATGAATTCAC
16345811 TGAATTTAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
86 8 0.12
87 57 0.88
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (86 bp):
GTTGAGTTCTTACTCTTAATGAATTATTATCGCAGAGTTTAGTTGGTCCTATTGAGACGGACATG
ATGAATTCACCGACATGTGAA
Found at i:16346414 original size:7 final size:6
Alignment explanation
Indices: 16346380--16346413 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
16346370 TACGACTTCA
*
16346380 TTTAGT TTTAGT TTTAGT TTGAGT TTTCAGT TTT
1 TTTAGT TTTAGT TTTAGT TTTAGT TTT-AGT TTT
16346414 CTTTAGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.15, C:0.03, G:0.18, T:0.65
Consensus pattern (6 bp):
TTTAGT
Found at i:16354843 original size:77 final size:77
Alignment explanation
Indices: 16354755--16354908 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
16354745 AGAGTTTGGT
* * *
16354755 TATTAAATAGGGCTATTTTGTAAAGAAGTTTTTGTTAGTTTTGAGTTTAAGTACTAAATTGATAG
1 TATTAAATAGGGCTATGTTGTAAAGAAATTTTTATTAGTTTTGAGTTTAAGTACTAAATTGATAG
16354820 AGATCTAATTTA
66 AGATCTAATTTA
16354832 TATTAAATAGGGCTATGTTGTAAAGAAATTTTTATTAGTTTTGAGTTTAAGTACTAAATTGATAG
1 TATTAAATAGGGCTATGTTGTAAAGAAATTTTTATTAGTTTTGAGTTTAAGTACTAAATTGATAG
*
16354897 AGATTTAATTTA
66 AGATCTAATTTA
16354909 ACATGAAATT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (77 bp):
TATTAAATAGGGCTATGTTGTAAAGAAATTTTTATTAGTTTTGAGTTTAAGTACTAAATTGATAG
AGATCTAATTTA
Found at i:16359228 original size:16 final size:16
Alignment explanation
Indices: 16359207--16359241 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
16359197 ATACGATGAC
16359207 TTTAGTTTATTATTAT
1 TTTAGTTTATTATTAT
16359223 TTTAGTTTATTATTAT
1 TTTAGTTTATTATTAT
16359239 TTT
1 TTT
16359242 TTAAATTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTAGTTTATTATTAT
Found at i:16366448 original size:21 final size:19
Alignment explanation
Indices: 16366422--16366471 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
16366412 TGACAAGACC
*
16366422 AAAAAATATAAAATAATTGT
1 AAAAAATATAAAA-AATAGT
*
16366442 ACAAAAATTATTAAAAATAGT
1 A-AAAAA-TATAAAAAATAGT
16366463 AAAAAATAT
1 AAAAAATAT
16366472 TTTAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.12
20 6 0.23
21 11 0.42
22 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAAATATAAAAAATAGT
Found at i:16366591 original size:21 final size:21
Alignment explanation
Indices: 16366554--16366604 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
16366544 TTTTTATTAT
*
16366554 TTTAAAATTGTTAAAACAGATA
1 TTTAAAATTGATAAAACA-ATA
*
16366576 TTTAAAATT-ATAAAACATTA
1 TTTAAAATTGATAAAACAATA
16366596 TTTAAAATT
1 TTTAAAATT
16366605 TGTAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 11 0.41
21 7 0.26
22 9 0.33
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
TTTAAAATTGATAAAACAATA
Found at i:16366610 original size:21 final size:20
Alignment explanation
Indices: 16366549--16366623 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 20
16366539 AAACTTTTTT
16366549 ATTATTTTAAAATTGTTAAAAC
1 ATTA-TTTAAAATTG-TAAAAC
* *
16366571 AGATATTTAAAATTATAAAAC
1 A-TTATTTAAAATTGTAAAAC
16366592 ATTATTTAAAATTTGTAAAA-
1 ATTATTTAAAA-TTGTAAAAC
16366612 ATTA-TTAAAATT
1 ATTATTTAAAATT
16366624 TTTGAAAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
18 2 0.04
19 6 0.13
20 13 0.28
21 14 0.30
22 10 0.21
23 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (20 bp):
ATTATTTAAAATTGTAAAAC
Found at i:16366620 original size:10 final size:10
Alignment explanation
Indices: 16366574--16366664 Score: 53
Period size: 10 Copynumber: 9.1 Consensus size: 10
16366564 TTAAAACAGA
*
16366574 TATTTAAAAT
1 TATTAAAAAT
16366584 TA-TAAAACAT
1 TATTAAAA-AT
*
16366594 TATTTAAAAT
1 TATTAAAAAT
16366604 T-TGTAAAAAT
1 TAT-TAAAAAT
16366614 TATT-AAAAT
1 TATTAAAAAT
* * *
16366623 TTTTGAAAGT
1 TATTAAAAAT
*
16366633 TATTAAAAAA
1 TATTAAAAAT
***
16366643 TGGCAAATAAT
1 TATTAAA-AAT
16366654 TATTAAAAAT
1 TATTAAAAAT
16366664 T
1 T
16366665 TGTGAACAAG
Statistics
Matches: 59, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
9 13 0.22
10 35 0.59
11 11 0.19
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (10 bp):
TATTAAAAAT
Found at i:16366621 original size:19 final size:19
Alignment explanation
Indices: 16366577--16366640 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
16366567 AAACAGATAT
16366577 TTAAAA-TTATAAAACATTA
1 TTAAAATTTATAAAA-ATTA
*
16366596 TTTAAAATTTGTAAAAATTA
1 -TTAAAATTTATAAAAATTA
* * *
16366616 TTAAAATTTTTGAAAGTTA
1 TTAAAATTTATAAAAATTA
16366635 TTAAAA
1 TTAAAA
16366641 AATGGCAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
19 22 0.56
20 10 0.26
21 7 0.18
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (19 bp):
TTAAAATTTATAAAAATTA
Found at i:16375307 original size:27 final size:27
Alignment explanation
Indices: 16375269--16375321 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
16375259 CAATTTCACC
16375269 AAAAATTCAAAAAC-AAACATGTTAAT
1 AAAAATTCAAAAACAAAACATGTTAAT
16375295 AAAAATTCAAAAACAAAACATGTTAAT
1 AAAAATTCAAAAACAAAACATGTTAAT
16375322 CTAACAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.23
Consensus pattern (27 bp):
AAAAATTCAAAAACAAAACATGTTAAT
Found at i:16376168 original size:47 final size:47
Alignment explanation
Indices: 16376105--16376214 Score: 166
Period size: 47 Copynumber: 2.3 Consensus size: 47
16376095 GACCTATGGG
* * *
16376105 TTATCCGCAACTTATTCTAGTCGGCAATCATTTGCTCGACCAGTGGT
1 TTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCGACCAGTGGT
* * *
16376152 TTATCCACAACGTATTCTAGTTGGCAGTCATCTGCTCGACCATTGGT
1 TTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCGACCAGTGGT
16376199 TTATCCACAACGTATT
1 TTATCCACAACGTATT
16376215 AGTAGCTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (47 bp):
TTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCGACCAGTGGT
Found at i:16376331 original size:90 final size:90
Alignment explanation
Indices: 16376148--16376342 Score: 228
Period size: 90 Copynumber: 2.1 Consensus size: 90
16376138 GCTCGACCAG
* * * * * * *
16376148 TGGTTTATCCACAACGTATTCTAGTTGGCAGTCATCTGCTCGACCATTGGTTTATCCACAACGTA
1 TGGTTCATCCAC--CGTATTCTAGTAGACAGTCATATGCTCAACCAATGGTTTATCCACAACATA
* * * * *
16376213 TTAGTAGCTTTTATATGCACAAATGGA
64 TTAGCAACTTTCATATACACAAACGGA
16376240 TGGTTCATCCACCGTATTCTAGTAGACAGTCATATGCTCAACCAATGGTTTATCCACAACATATT
1 TGGTTCATCCACCGTATTCTAGTAGACAGTCATATGCTCAACCAATGGTTTATCCACAACATATT
* * * *
16376305 AGCAACTTTCATCTATATAGACGGA
66 AGCAACTTTCATATACACAAACGGA
16376330 TGGTTCATCCACC
1 TGGTTCATCCACC
16376343 AATAAAATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
90 76 0.87
92 11 0.13
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (90 bp):
TGGTTCATCCACCGTATTCTAGTAGACAGTCATATGCTCAACCAATGGTTTATCCACAACATATT
AGCAACTTTCATATACACAAACGGA
Found at i:16377313 original size:19 final size:19
Alignment explanation
Indices: 16377268--16377338 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
16377258 TTATTATGAT
*
16377268 TTTTAATAATATTTAAAAA
1 TTTTAATAATGTTTAAAAA
* * * *
16377287 ATTAAATAATGTTTTATAA
1 TTTTAATAATGTTTAAAAA
* *
16377306 TTTTAATAACTCTTTAACAA
1 TTTTAATAA-TGTTTAAAAA
16377326 TTTTAA-AATGTTT
1 TTTTAATAATGTTT
16377339 TTTACAATTT
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
18 4 0.10
19 23 0.57
20 13 0.32
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (19 bp):
TTTTAATAATGTTTAAAAA
Found at i:16377357 original size:9 final size:9
Alignment explanation
Indices: 16377345--16377426 Score: 58
Period size: 9 Copynumber: 8.7 Consensus size: 9
16377335 GTTTTTTACA
16377345 ATTTTTAAT
1 ATTTTTAAT
16377354 ATTTTTTAAT
1 A-TTTTTAAT
* *
16377364 AATTTCAAT
1 ATTTTTAAT
16377373 ATTTTTACA-
1 ATTTTTA-AT
*
16377382 GTTTTTATAT
1 ATTTTTA-AT
16377392 ATTTTTAAAT
1 ATTTTT-AAT
**
16377402 AATTTTTACG
1 -ATTTTTAAT
*
16377412 ATTGTTAAT
1 ATTTTTAAT
16377421 ATTTTT
1 ATTTTT
16377427 TACAATTTTT
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
9 30 0.55
10 18 0.33
11 7 0.13
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:16377360 original size:19 final size:19
Alignment explanation
Indices: 16377322--16377397 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 19
16377312 TAACTCTTTA
* *
16377322 ACAATTTTAAAATGTTTTTT
1 ACAATTTT-TAATATTTTTT
16377342 ACAATTTTTAATATTTTTT
1 ACAATTTTTAATATTTTTT
* *
16377361 A-ATAATTTCAATA-TTTTT
1 ACA-ATTTTTAATATTTTTT
*
16377379 ACAGTTTTTATATATTTTT
1 ACAATTTTTA-ATATTTTT
16377398 AAATAATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
18 11 0.24
19 22 0.49
20 12 0.27
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
ACAATTTTTAATATTTTTT
Found at i:16377368 original size:11 final size:10
Alignment explanation
Indices: 16377346--16377437 Score: 50
Period size: 10 Copynumber: 9.5 Consensus size: 10
16377336 TTTTTTACAA
16377346 TTTTTAATAT
1 TTTTTAATAT
16377356 TTTTTAATA-
1 TTTTTAATAT
* *
16377365 ATTTCAATA-
1 TTTTTAATAT
* *
16377374 TTTTT-ACAG
1 TTTTTAATAT
16377383 TTTTTATATAT
1 TTTTTA-ATAT
* *
16377394 TTTTAAATAA
1 TTTTTAATAT
**
16377404 TTTTTACGA-
1 TTTTTAATAT
*
16377413 TTGTTAATAT
1 TTTTTAATAT
16377423 TTTTTACA-AT
1 TTTTTA-ATAT
16377433 TTTTT
1 TTTTT
16377438 GGACTGGTCA
Statistics
Matches: 61, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
8 2 0.03
9 21 0.34
10 30 0.49
11 8 0.13
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTTTAATAT
Found at i:16383469 original size:48 final size:48
Alignment explanation
Indices: 16383401--16383533 Score: 196
Period size: 48 Copynumber: 2.8 Consensus size: 48
16383391 CTAATTATCA
*
16383401 TGTA-GTTTCAACCTTAACGGGTAAACAGGCACTATTACTCATTATTTG
1 TGTAGGTTT-AACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
* * *
16383449 TGTAGGTTTAACCTTGACGGGTAACCATGCACTATTATTCATTATTTG
1 TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
**
16383497 TGTAGGTTTAACCCAAACGGGTAACCAGGCACTATTA
1 TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTA
16383534 TTTTCACTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
48 72 0.95
49 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (48 bp):
TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
Found at i:16386296 original size:27 final size:26
Alignment explanation
Indices: 16386245--16386302 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
16386235 CATATTTTCT
*
16386245 CAAAATTTTACTAGGGGTAAAATCAC
1 CAAAATTTTACGAGGGGTAAAATCAC
*
16386271 CAAAATTTTATCGA-GGGT--AATCAT
1 CAAAATTTTA-CGAGGGGTAAAATCAC
16386295 CAAAATTT
1 CAAAATTT
16386303 AAATGGGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 13 0.45
26 14 0.48
27 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (26 bp):
CAAAATTTTACGAGGGGTAAAATCAC
Found at i:16389727 original size:21 final size:21
Alignment explanation
Indices: 16389703--16389745 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
16389693 CATTGAAGCT
16389703 TAACCTACCACATTTCCATCA
1 TAACCTACCACATTTCCATCA
16389724 TAACCTACCACATTTCCATCA
1 TAACCTACCACATTTCCATCA
16389745 T
1 T
16389746 GTTACATGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (21 bp):
TAACCTACCACATTTCCATCA
Found at i:16393986 original size:20 final size:20
Alignment explanation
Indices: 16393957--16393997 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
16393947 CTTATGAGCG
*
16393957 TTGTTTTCTTGTGGCTTTTT
1 TTGTTCTCTTGTGGCTTTTT
*
16393977 TTGTTCTCTTGTTGCTTTTT
1 TTGTTCTCTTGTGGCTTTTT
16393997 T
1 T
16393998 GTCTTTGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.17, T:0.71
Consensus pattern (20 bp):
TTGTTCTCTTGTGGCTTTTT
Found at i:16404772 original size:26 final size:26
Alignment explanation
Indices: 16404743--16404833 Score: 100
Period size: 26 Copynumber: 3.6 Consensus size: 26
16404733 CTTATAAGCG
*
16404743 TCCCGA-TATATGGTTCTTCGTGAGCT
1 TCCCGATTA-ATGGCTCTTCGTGAGCT
* *
16404769 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* *
16404795 TTCTGATTAATGGCTCTTCG-GAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
16404820 TCCCGA-T-ATGGCTC
1 TCCCGATTAATGGCTC
16404834 GCTTAAACTT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
23 7 0.13
24 1 0.02
25 9 0.16
26 36 0.65
27 2 0.04
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTCGTGAGCT
Found at i:16404942 original size:24 final size:24
Alignment explanation
Indices: 16404866--16404944 Score: 85
Period size: 24 Copynumber: 3.3 Consensus size: 24
16404856 TTATCCGAAA
16404866 AGCTTCCT-ATTAATGGCTCTTCA-G
1 AGCTTCCTGATT-ATGGCTCTT-ATG
*
16404890 AGCTACCTG-TTATTGGCT-TGTATG
1 AGCTTCCTGATTA-TGGCTCT-TATG
16404914 AGCTTCCTGATTATGGCTCTTATG
1 AGCTTCCTGATTATGGCTCTTATG
16404938 AGCTTCC
1 AGCTTCC
16404945 CTATATAGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
23 3 0.06
24 40 0.85
25 4 0.09
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (24 bp):
AGCTTCCTGATTATGGCTCTTATG
Found at i:16407964 original size:44 final size:42
Alignment explanation
Indices: 16407906--16408472 Score: 348
Period size: 44 Copynumber: 12.9 Consensus size: 42
16407896 ATTTGTGGTT
* *
16407906 TTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGATTAGTAG
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAG
* * *
16407949 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTAT
1 -TTTAATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTG-TAG
* * *
16407994 TTTGAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATG
1 TTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TA-G
* * * * ** * * *
16408040 ATGTGATATGCTCTACTATAACTTTAGAGAGATAAGATATGTTAT
1 -TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-TAG
* * * *
16408085 TTTCAGTCTGTTCCACTACAACTTCAGCGAGATAAGACTTGTTATGG
1 TTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TA--G
* * * * *
16408132 TGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGAT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGT-AG
* * * **
16408176 TTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TAG
** * * * * *
16408220 TTTCGTCTGCTCCGCTACAAATTCAGGGAGATAAGACTGGA-
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAG
* * * * *
16408261 TGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGT-T
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-TGTAG
* **
16408305 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TAG
** * *
16408349 TTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGA-
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAG
* * * * *
16408390 TGTGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTAG
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTAG
* * *
16408433 TTTTAATCTACTCCACTGCAACTTCAGCGAGATAGGATTG
1 -TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTG
16408473 GCTTCTTCTG
Statistics
Matches: 400, Mismatches: 98, Indels: 51
0.73 0.18 0.09
Matches are distributed among these distances:
41 59 0.15
42 5 0.01
43 6 0.01
44 193 0.48
45 74 0.19
46 59 0.15
47 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (42 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAG
Found at i:16408093 original size:91 final size:90
Alignment explanation
Indices: 16407905--16408466 Score: 333
Period size: 91 Copynumber: 6.4 Consensus size: 90
16407895 GATTTGTGGT
* * * * * * *
16407905 TTTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGA-TTAG-TA-GCT-TCAATCTGCTCCACT
1 TTTTAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTT-GTTATGATGT-GATATGCTCTACT
* * * *
16407966 GCAACTTCAGGGAGATAAGGTTTGTTA
64 ACAACTTCAGAGAGATAAGATATGTTA
16407993 TTTTGAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATGATGTGATATGCTCTACTA
1 TTTT-AGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATGATGTGATATGCTCTACTA
* *
16408058 TAACTTTAGAGAGATAAGATATGTTA
65 CAACTTCAGAGAGATAAGATATGTTA
* * * * * *
16408084 TTTTCAGTCTGTTCCACTACAACTTCAGCGAGATAAGACTTGTTATGGTGTGATCTGCTCTACTG
1 TTTT-AGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATGATGTGATATGCTCTACTA
* *
16408149 CAACTTCAGAGAGATAAGATCTGTGA
65 CAACTTCAGAGAGATAAGATATGTTA
* * * * ** * * * **
16408175 TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGA-TTGGTT-T-CTTTCG-TCTGCTCCGCT
1 TTTTAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTT-GTTATGATGT-GATATGCTCTACT
* * * *
16408236 ACAAATTCAGGGAGATAAGA-CTG-GA
64 ACAACTTCAGAGAGATAAGATATGTTA
* * * * * * * * *
16408261 TGTGA-TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGTT-T--T-TAATCTGCTCCACT
1 TTTTAGTCTGTTCCACTGCAACTTCAGGGAGATAA-AACT-TGTTATGATGTGATATGCTCTACT
* * *
16408321 GCAACTTCAGGGAGATAGGAT-TGGTT-
64 ACAACTTCAGAGAGATAAGATAT-GTTA
* * * * * *
16408347 TCTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC-TG----GATGTGATCTGCTCTATTG
1 T-TTTAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATGATGTGATATGCTCTACTA
*
16408407 CAACTTCAGAGAGATAAGATCTG-TA
65 CAACTTCAGAGAGATAAGATATGTTA
* ** *
16408432 GTTTTAATCTACTCCACTGCAACTTCAGCGAGATA
1 -TTTTAGTCTGTTCCACTGCAACTTCAGGGAGATA
16408467 GGATTGGCTT
Statistics
Matches: 383, Mismatches: 69, Indels: 47
0.77 0.14 0.09
Matches are distributed among these distances:
84 2 0.01
85 115 0.30
86 10 0.03
87 10 0.03
88 60 0.16
89 35 0.09
90 33 0.09
91 117 0.31
92 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (90 bp):
TTTTAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATGATGTGATATGCTCTACTAC
AACTTCAGAGAGATAAGATATGTTA
Found at i:16408413 original size:85 final size:87
Alignment explanation
Indices: 16407905--16408466 Score: 308
Period size: 85 Copynumber: 6.4 Consensus size: 87
16407895 GATTTGTGGT
* * * * * *
16407905 TTTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGATTAGTAGCT-TCAATCTGCTCCACTGCA
1 TTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCA-TGGATGT-AATCTGCTCCACTGCA
* * *
16407969 ACTTCAGGGAGATAAGGTTTGTTA-
64 ACTTCAGAGAGATAAGATCTG-TAG
* * * * * * * *
16407993 TTTTGAGTCTGTTCCACTGCAACTTCAGGGAGATAA-AACTTGTTATGATGTGATATGCTCTACT
1 TTTT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCATG----GATGTAATCTGCTCCACT
** * *
16408057 ATAACTTTAGAGAGATAAGATATGTTA-
61 GCAACTTCAGAGAGATAAGATCTG-TAG
* * * * * * *
16408084 TTTTCAGTCTGTTCCACTACAACTTCAGCGAGATAAGACTTGTTATGG-TGTGATCTGCTCTACT
1 TTTT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGA----TCATGGATGTAATCTGCTCCACT
16408148 GCAACTTCAGAGAGATAAGATCTGT-G
61 GCAACTTCAGAGAGATAAGATCTGTAG
* * * * * * ** * *
16408174 ATTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGAT--TGGTTTCTTTCGTCTGCTCCGCTA
1 -TTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCATGG---ATGTAATCTGCTCCACTG
* *
16408237 CAAATTCAGGGAGATAAGA-CTG--G
62 CAACTTCAGAGAGATAAGATCTGTAG
* * * * ** *
16408260 ATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGTTTTTAATCTGCTCCACTGCAA
1 TTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATC-ATGGATGTAATCTGCTCCACTGCAA
* * *
16408325 CTTCAGGGAGATAGGAT-TGGT-T
65 CTTCAGAGAGATAAGATCT-GTAG
** * * * *
16408347 TCTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-TGGATGTGATCTGCTCTATTGCAA
1 T-TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCATGGATGTAATCTGCTCCACTGCAA
16408410 CTTCAGAGAGATAAGATCTGTAG
65 CTTCAGAGAGATAAGATCTGTAG
* *
16408433 TTTTAATCTACTCCACTGCAACTTCAGCGAGATA
1 TTTTAATCTGCTCCACTGCAACTTCAGAGAGATA
16408467 GGATTGGCTT
Statistics
Matches: 370, Mismatches: 78, Indels: 55
0.74 0.16 0.11
Matches are distributed among these distances:
84 3 0.01
85 125 0.34
86 5 0.01
87 5 0.01
88 66 0.18
89 29 0.08
90 27 0.07
91 105 0.28
92 3 0.01
96 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (87 bp):
TTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCATGGATGTAATCTGCTCCACTGCAAC
TTCAGAGAGATAAGATCTGTAG
Found at i:16408485 original size:129 final size:128
Alignment explanation
Indices: 16408090--16408485 Score: 578
Period size: 129 Copynumber: 3.0 Consensus size: 128
16408080 GTTATTTTCA
* * *
16408090 GTCTGTTCCACTACAACTTCAGCGAGATAAGACTTGTTATGGTGTGATCTGCTCTACTGCAACTT
1 GTCTGCTCCACTACAACTTCAGGGAGATAAGAC-TG----GATGTGATCTGCTCTACTGCAACTT
* *
16408155 CAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTC
61 CAGAGAGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
16408220 TTT
126 TTT
* *
16408223 CGTCTGCTCCGCTACAAATTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGA
1 -GTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGA
* *
16408288 GAGATAAGATCTATGTTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTT
65 GAGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC-TTT
* *
16408353 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTATTGCAACTTCAGAG
1 GTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
* * *
16408418 AGATAAGATCTGT-AGTTTTAATCTACTCCACTGCAACTTCAGCGAGATAGGATTGGCTTCTTCT
66 AGATAAGATCTGTGA-TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT-T
16408482 GTCT
1 GTCT
16408486 AACTGCAATG
Statistics
Matches: 241, Mismatches: 18, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
128 2 0.01
129 205 0.85
130 3 0.01
133 2 0.01
134 29 0.12
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (128 bp):
GTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTT
Found at i:16408648 original size:99 final size:99
Alignment explanation
Indices: 16408506--16408989 Score: 734
Period size: 99 Copynumber: 4.9 Consensus size: 99
16408496 TTTGGGAAGT
* * * * * *
16408506 AAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTGT
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCATTGT
16408571 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
* *
16408605 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCCATTGT
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCATTGT
* * **
16408670 AGCTTCAATCTTTTAAATTGCAATGTTAGGGAAC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
* ** *
16408704 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAAGGAAGTAAGATTCGCTGTTGC
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCATTGT
* *
16408769 AGCTTCAATCTTTTTAATTACAATGTCGGGGAAC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
* * *
16408803 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGTCAGGGAAGTAAGATTCGTCATTGC
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCATTGT
* *
16408868 GGCTTCAATCTTTTAAATTGCAATTTCGGGGAAC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
* * *
16408902 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCTTTGT
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCATTGT
16408967 GGCTTCAATCTTTTTAATTGCAA
66 GGCTTCAATCTTTTTAATTGCAA
16408990 CCTCAAGGGT
Statistics
Matches: 347, Mismatches: 38, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 347 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (99 bp):
AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCATTGT
GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
Found at i:16409921 original size:19 final size:19
Alignment explanation
Indices: 16409886--16409935 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
16409876 GGCCTCTCCT
16409886 TTTTCCTTTTTTGTTC-TTC
1 TTTT-CTTTTTTGTTCTTTC
* *
16409905 TTTTCTTTTCTTTTTCTTTT
1 TTTTCTTTT-TTGTTCTTTC
16409925 TTTTCTTTTTT
1 TTTTCTTTTTT
16409936 TCAAGTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTCTTTTTTGTTCTTTC
Found at i:16409935 original size:16 final size:16
Alignment explanation
Indices: 16409902--16409934 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
16409892 TTTTTTGTTC
16409902 TTCTTTTCTTTTCTTT
1 TTCTTTTCTTTTCTTT
16409918 TTCTTTT-TTTTCTTT
1 TTCTTTTCTTTTCTTT
16409933 TT
1 TT
16409935 TTCAAGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTCTTTTCTTTTCTTT
Found at i:16412461 original size:23 final size:23
Alignment explanation
Indices: 16412434--16412554 Score: 167
Period size: 23 Copynumber: 5.3 Consensus size: 23
16412424 AGTGTTATTG
16412434 ATCAGTGGTAGCTTCGGCTACA-
1 ATCAGTGGTAGCTTCGGCTACAT
*
16412456 ATTCAGTGGTAGCTACGGCTACAT
1 A-TCAGTGGTAGCTTCGGCTACAT
16412480 ATC-GTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
16412502 TTTAGTGGTAG-TTGCGGTTACAT
1 ATCAGTGGTAGCTT-CGGCTACAT
16412525 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16412548 ATCAGTG
1 ATCAGTG
16412555 TGGCACTTAT
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
22 22 0.26
23 61 0.71
24 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:16412509 original size:45 final size:46
Alignment explanation
Indices: 16412434--16412554 Score: 181
Period size: 45 Copynumber: 2.7 Consensus size: 46
16412424 AGTGTTATTG
*
16412434 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
* * * *
16412480 ATC-GTGGTAGCTTCGGCTACATTTTAGTGGTAGTTGCGGTTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
*
16412525 ATCAGTGGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
16412555 TGGCACTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 40 0.60
46 27 0.40
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
Found at i:16417226 original size:26 final size:26
Alignment explanation
Indices: 16417190--16417261 Score: 135
Period size: 26 Copynumber: 2.8 Consensus size: 26
16417180 TGAGCTCTCG
16417190 AACACTGTTTTAAATTCTCTTAGTAC
1 AACACTGTTTTAAATTCTCTTAGTAC
*
16417216 AACATTGTTTTAAATTCTCTTAGTAC
1 AACACTGTTTTAAATTCTCTTAGTAC
16417242 AACACTGTTTTAAATTCTCT
1 AACACTGTTTTAAATTCTCT
16417262 AATAAGGAGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (26 bp):
AACACTGTTTTAAATTCTCTTAGTAC
Found at i:16425024 original size:23 final size:24
Alignment explanation
Indices: 16424987--16425033 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
16424977 GAAGATTTTT
16424987 AATCTTAGTAGATTTGATTCTGTA
1 AATCTTAGTAGATTTGATTCTGTA
*
16425011 AATCTTA-TAGATTTGATTTTGTA
1 AATCTTAGTAGATTTGATTCTGTA
16425034 GATTGCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (24 bp):
AATCTTAGTAGATTTGATTCTGTA
Found at i:16426080 original size:5 final size:5
Alignment explanation
Indices: 16426070--16426103 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
16426060 TTTTTAAAAA
16426070 AATTT AATTT AATTT AATTT AATTT AATTT AATT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATT
16426104 CCATTTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
AATTT
Found at i:16426109 original size:15 final size:15
Alignment explanation
Indices: 16426070--16426109 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
16426060 TTTTTAAAAA
*
16426070 AATTTAATTTAATTT
1 AATTCAATTTAATTT
*
16426085 AATTTAATTTAATTT
1 AATTCAATTTAATTT
*
16426100 AATTCCATTT
1 AATTCAATTT
16426110 GTTTTGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
AATTCAATTTAATTT
Found at i:16426304 original size:29 final size:31
Alignment explanation
Indices: 16426255--16426322 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
16426245 TTGATAGTTC
* *
16426255 AAGTACCACATTGAAC-CTTT-TCAAAGTAT
1 AAGTACCACAATGAACATTTTATCAAAGTAT
* *
16426284 AAGTACCACAATGGACATTTTATGAAAGTAT
1 AAGTACCACAATGAACATTTTATCAAAGTAT
*
16426315 ATGTACCA
1 AAGTACCA
16426323 AATAATACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 14 0.44
30 3 0.09
31 15 0.47
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (31 bp):
AAGTACCACAATGAACATTTTATCAAAGTAT
Found at i:16430964 original size:37 final size:36
Alignment explanation
Indices: 16430923--16431014 Score: 107
Period size: 37 Copynumber: 2.4 Consensus size: 36
16430913 ATTCCAAAAA
*
16430923 TAATATTATTTTAATAG-ATTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATTT--TATT-AATTTAATAT
16430960 TAATATTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATATTATCTTAATAGTATTTTATTAATTTAATAT
16430996 TAAAGTGATTATCTTAATA
1 T-AA-T-ATTATCTTAATA
16431015 TTAAATTTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
35 8 0.16
36 6 0.12
37 18 0.37
38 5 0.10
39 12 0.24
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTTTATTAATTTAATAT
Found at i:16431033 original size:67 final size:65
Alignment explanation
Indices: 16430942--16431071 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 65
16430932 TTTAATAGAT
**
16430942 TTAATATTAAATTTAATTTAATA-TTATCTTAATAGTATTTTATT-AATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATTTAATATTTATC-T--T-GTATTAAATTAAATTTAATATTAAAGTGAT
16431005 TATC
62 TATC
*
16431009 TTAATATTAAATTTAATTTCATATTTATCTTGTATTAAATTAAATTTAATATTAAAGTGATTA
1 TTAATATTAAATTTAATTTAATATTTATCTTGTATTAAATTAAATTTAATATTAAAGTGATTA
16431072 GGTTTAATCA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
64 8 0.14
65 22 0.38
67 23 0.40
68 5 0.09
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (65 bp):
TTAATATTAAATTTAATTTAATATTTATCTTGTATTAAATTAAATTTAATATTAAAGTGATTATC
Found at i:16431047 original size:28 final size:29
Alignment explanation
Indices: 16431004--16431061 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
16430994 ATTAAAGTGA
* *
16431004 TTATCTTAATATTAAATTTAATTTCATAT
1 TTATCTTAATATTAAATTAAATTTAATAT
*
16431033 TTATCTT-GTATTAAATTAAATTTAATAT
1 TTATCTTAATATTAAATTAAATTTAATAT
16431061 T
1 T
16431062 AAAGTGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (29 bp):
TTATCTTAATATTAAATTAAATTTAATAT
Found at i:16435460 original size:87 final size:87
Alignment explanation
Indices: 16435314--16435487 Score: 269
Period size: 87 Copynumber: 2.0 Consensus size: 87
16435304 CGAAATAAAA
16435314 ACATAATAACATAAAGAAAAAAAAAGAGATTATCAATTCTTTTTTACTTTCTCTTCCCTATTAAA
1 ACATAATAACATAAAGAAAAAAAAAGAGATTATCAATTCTTTTTTACTTTCTCTTCCCTATTAAA
* *
16435379 ACTTGTTATCCATATGAATCAT
66 ACGTGTTATCCAAATGAATCAT
* *** *
16435401 ACATAGTAACATAAAG-AAAATGGAGAGATTATTAATTCTTTTCTTACTTTCTCTTCCCTATTAA
1 ACATAATAACATAAAGAAAAAAAAAGAGATTATCAATTCTTTT-TTACTTTCTCTTCCCTATTAA
16435465 AACGTGTTATCCAAATGAATCAT
65 AACGTGTTATCCAAATGAATCAT
16435488 TCCCTTCACT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
86 22 0.28
87 57 0.72
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (87 bp):
ACATAATAACATAAAGAAAAAAAAAGAGATTATCAATTCTTTTTTACTTTCTCTTCCCTATTAAA
ACGTGTTATCCAAATGAATCAT
Found at i:16437304 original size:21 final size:22
Alignment explanation
Indices: 16437278--16437319 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
16437268 AGATGTTTGT
16437278 TTATTATTTTCTTGCT-TTTTA
1 TTATTATTTTCTTGCTATTTTA
16437299 TTATTATTTTCTTGCTATTTT
1 TTATTATTTTCTTGCTATTTT
16437320 CTTGTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.14, C:0.10, G:0.05, T:0.71
Consensus pattern (22 bp):
TTATTATTTTCTTGCTATTTTA
Found at i:16437330 original size:11 final size:11
Alignment explanation
Indices: 16437282--16437323 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
16437272 GTTTGTTTAT
16437282 TATTTTCTTGC
1 TATTTTCTTGC
* **
16437293 T-TTTTATTAT
1 TATTTTCTTGC
16437303 TATTTTCTTGC
1 TATTTTCTTGC
16437314 TATTTTCTTG
1 TATTTTCTTG
16437324 TTTTTTTTTC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.69
Consensus pattern (11 bp):
TATTTTCTTGC
Found at i:16437990 original size:24 final size:25
Alignment explanation
Indices: 16437958--16438012 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
16437948 CACTATTTTA
* * *
16437958 AATATAAAATATTCATT-TTTATAT
1 AATAAAAAATATACATTAATTATAT
16437982 AATAAAAAATATACATTAATTATAT
1 AATAAAAAATATACATTAATTATAT
*
16438007 ATTAAA
1 AATAAA
16438013 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
AATAAAAAATATACATTAATTATAT
Found at i:16438724 original size:73 final size:74
Alignment explanation
Indices: 16438633--16438780 Score: 289
Period size: 73 Copynumber: 2.0 Consensus size: 74
16438623 TTTAATATTG
16438633 ATAATTAGATTCATTTTAATCATTAAATTATATTTCATCAAAATTTAATAACGCAACACCT-AAA
1 ATAATTAGATTCATTTTAATCATTAAATTATATTTCATCAAAATTTAATAACGCAACACCTAAAA
16438697 TTTTAATAA
66 TTTTAATAA
16438706 ATAATTAGATTCATTTTAATCATTAAATTATATTTCATCAAAATTTAATAACGCAACACCTAAAA
1 ATAATTAGATTCATTTTAATCATTAAATTATATTTCATCAAAATTTAATAACGCAACACCTAAAA
16438771 TTTTAATAA
66 TTTTAATAA
16438780 A
1 A
16438781 ATATATATTT
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 61 0.82
74 13 0.18
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (74 bp):
ATAATTAGATTCATTTTAATCATTAAATTATATTTCATCAAAATTTAATAACGCAACACCTAAAA
TTTTAATAA
Found at i:16441428 original size:1 final size:1
Alignment explanation
Indices: 16441422--16441456 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
16441412 GTGATCTCTC
16441422 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16441457 AAATTTAGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:16443881 original size:11 final size:10
Alignment explanation
Indices: 16443862--16443888 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16443852 CATATTTATA
16443862 TTGTTTTTTT
1 TTGTTTTTTT
16443872 TTGTTTTTTT
1 TTGTTTTTTT
16443882 TTGTTTT
1 TTGTTTT
16443889 GAGGCACTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTGTTTTTTT
Found at i:16472952 original size:16 final size:16
Alignment explanation
Indices: 16472931--16472965 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
16472921 GTCACACAAA
16472931 TAGTGTGTGTTGAGTG
1 TAGTGTGTGTTGAGTG
16472947 TAGTGTGTGTTGAGTG
1 TAGTGTGTGTTGAGTG
16472963 TAG
1 TAG
16472966 AACATAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (16 bp):
TAGTGTGTGTTGAGTG
Found at i:16477552 original size:6 final size:6
Alignment explanation
Indices: 16477538--16477579 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
16477528 GGTTTTATCA
* *
16477538 AAATTG AAATGG AAATGG AAATGG AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
16477580 CTTTATTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (6 bp):
AAATGG
Found at i:16492134 original size:35 final size:34
Alignment explanation
Indices: 16492086--16492158 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
16492076 TTTTCTCTAG
* **
16492086 TTTTCATAGTTTTAGGTTAGGGTTCTTTTCTTTTCTT
1 TTTTCATA-TTTTAGATTA-GGTT-TTCCCTTTTCTT
16492123 TTTTCAT-TTTTAGATTAGGTTTTCCCTTTTCTT
1 TTTTCATATTTTAGATTAGGTTTTCCCTTTTCTT
16492156 TTT
1 TTT
16492159 AGAATAGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 13 0.39
34 4 0.12
35 9 0.27
37 7 0.21
ACGTcount: A:0.11, C:0.12, G:0.12, T:0.64
Consensus pattern (34 bp):
TTTTCATATTTTAGATTAGGTTTTCCCTTTTCTT
Found at i:16504471 original size:95 final size:96
Alignment explanation
Indices: 16504308--16504506 Score: 382
Period size: 95 Copynumber: 2.1 Consensus size: 96
16504298 CTTTAAAATT
16504308 TTAAATTAATAAAGATAAAATTACTCTTTGACTCCTTTAAAAATAATAAAATTTTGATTTAATTT
1 TTAAATTAATAAAGATAAAATTACTCTTTGACTCCTTTAAAAATAATAAAATTTTGATTTAATTT
16504373 TTTAAAATTTATATTTTTAC-ATCGTAAAAA
66 TTTAAAATTTATATTTTTACTATCGTAAAAA
16504403 TTAAATTAATAAAGATAAAATTACTCTTTGACTCCTTTAAAAATAATAAAATTTTGATTTAATTT
1 TTAAATTAATAAAGATAAAATTACTCTTTGACTCCTTTAAAAATAATAAAATTTTGATTTAATTT
16504468 TTTAAAATTTATATTTTTACTATCGTAAAAA
66 TTTAAAATTTATATTTTTACTATCGTAAAAA
16504499 TTATAATT
1 TTA-AATT
16504507 TAATTTTGGC
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
95 85 0.83
96 13 0.13
97 4 0.04
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (96 bp):
TTAAATTAATAAAGATAAAATTACTCTTTGACTCCTTTAAAAATAATAAAATTTTGATTTAATTT
TTTAAAATTTATATTTTTACTATCGTAAAAA
Found at i:16504735 original size:26 final size:22
Alignment explanation
Indices: 16504679--16504735 Score: 60
Period size: 26 Copynumber: 2.4 Consensus size: 22
16504669 TCAATCTAAT
16504679 TATAATTTAGATTTTTATTATA
1 TATAATTTAGATTTTTATTATA
*
16504701 TTTAAATTTAGAATTTAATTATTATA
1 TAT-AATTTAG-ATTT--TTATTATA
16504727 TATATATTT
1 TATA-ATTT
16504736 TAGTTACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 2 0.07
23 7 0.25
24 4 0.14
25 1 0.04
26 14 0.50
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TATAATTTAGATTTTTATTATA
Found at i:16507564 original size:13 final size:13
Alignment explanation
Indices: 16507546--16507572 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16507536 TAGTGACTAT
16507546 GGCATCTAACAAG
1 GGCATCTAACAAG
16507559 GGCATCTAACAAG
1 GGCATCTAACAAG
16507572 G
1 G
16507573 AGATCGGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (13 bp):
GGCATCTAACAAG
Found at i:16507772 original size:1 final size:1
Alignment explanation
Indices: 16507768--16507792 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
16507758 GCGGCCCCCC
16507768 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
16507793 CAAGCAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16509841 original size:44 final size:42
Alignment explanation
Indices: 16509785--16509875 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 42
16509775 ATAAAATACC
16509785 AAAAAAATATATTTA-TGAAA-AAATAAAATACGAAAAGAAATA
1 AAAAAAATATATTTACTGAAAGAAATAAAATACG-AAA-AAATA
* *
16509827 AAAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAATA
1 AAAAAA-A-TATATTTACTGAAAGAAATAAAATACGAAAAAATA
16509871 AAAAA
1 AAAAA
16509876 TACGAACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
42 6 0.14
43 1 0.02
44 18 0.42
45 8 0.19
46 10 0.23
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (42 bp):
AAAAAAATATATTTACTGAAAGAAATAAAATACGAAAAAATA
Found at i:16510207 original size:27 final size:27
Alignment explanation
Indices: 16510177--16510230 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
16510167 TGAAAGTAAT
16510177 AAAATCCAAAAAGAAAAAGAAAAATACA
1 AAAATCCAAAAA-AAAAAGAAAAATACA
* *
16510205 AAAATTCAACAAAAAAAGAAAAATAC
1 AAAATCCAAAAAAAAAAGAAAAATAC
16510231 GAACAAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.74, C:0.11, G:0.06, T:0.09
Consensus pattern (27 bp):
AAAATCCAAAAAAAAAAGAAAAATACA
Found at i:16510299 original size:189 final size:192
Alignment explanation
Indices: 16510026--16510386 Score: 622
Period size: 189 Copynumber: 1.9 Consensus size: 192
16510016 ATCCAAAAAG
16510026 AAAAAGAAAAATACAAACAAAGGGCCAAAATAAGGGTTTTTTTTACTAAATTTATATAAAAAAAA
1 AAAAAGAAAAATACAAACAAAGGGCCAAAATAAGGG-TTTTTTTACTAAATTTATATAAAAAAAA
* *
16510091 ACACTAAATTAATACATTTCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAAT
65 ACACTAAATTAATACATTTCAAACTTTATGTAATAAAATAATATAAAATAATAAAATACGAAAAC
*
16510156 AGTATATTTTTTGAAAGTAATAAAATCC-AAA-AAGAAAAAGAAAAATACAAAAATTCAACAA
130 AGTATATTTTTTAAAAGTAATAAAATCCAAAATAAGAAAAAGAAAAATACAAAAATTCAACAA
* *
16510217 AAAAAGAAAAATACGAACAAATGGCCAAAATAA-GG-TTTTTTACTAAATTTATATAAAAAAAAC
1 AAAAAGAAAAATACAAACAAAGGGCCAAAATAAGGGTTTTTTTACTAAATTTATATAAAAAAAA-
16510280 ACACTAAATTAATACATTTCAAACTTTATGTAATAAAATAATATAAAATAATAAAATACGAAAAC
65 ACACTAAATTAATACATTTCAAACTTTATGTAATAAAATAATATAAAATAATAAAATACGAAAAC
16510345 AGTATATTTTTTAAAAGTAATAAAATCCGAAAATAAGAAAAA
130 AGTATATTTTTTAAAAGTAATAAAATCC-AAAATAAGAAAAA
16510387 TACGAATAAA
Statistics
Matches: 161, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
188 27 0.17
189 90 0.56
190 2 0.01
191 34 0.21
192 8 0.05
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.27
Consensus pattern (192 bp):
AAAAAGAAAAATACAAACAAAGGGCCAAAATAAGGGTTTTTTTACTAAATTTATATAAAAAAAAA
CACTAAATTAATACATTTCAAACTTTATGTAATAAAATAATATAAAATAATAAAATACGAAAACA
GTATATTTTTTAAAAGTAATAAAATCCAAAATAAGAAAAAGAAAAATACAAAAATTCAACAA
Found at i:16510434 original size:159 final size:160
Alignment explanation
Indices: 16510215--16510873 Score: 1089
Period size: 159 Copynumber: 4.1 Consensus size: 160
16510205 AAAATTCAAC
* *
16510215 AAAAAAAGAAAAATACGAACAAATGGCCAAAAT-AA-GGTTTTTTACTAAATTTATATAAAAAAA
1 AAAATAAGAAAAATACGAACAAATGGCCAAAATAAAGGGTTTTCTACTAAATTTAT-TAAAAAAA
16510278 ACACACTAAATTAATACATTTCAAACTTTATGTAATAAAATAATATAAAATAATAAAATACGAAA
65 ACACACTAAATTAATACATTTCAAACTTTATGTAATAAAATAATATAAAATAATAAAATACGAAA
16510343 ACAGTATATTTTTTAAAAGTAATAAAATCCG
130 ACAGTATATTTTTTAAAAGTAATAAAATCCG
* * *
16510374 AAAATAAGAAAAATACGAATAAAGGGCCAAAAT-AAGGGTTTTTTACTAAATTTA-T-AAAAAAA
1 AAAATAAGAAAAATACGAACAAATGGCCAAAATAAAGGGTTTTCTACTAAATTTATTAAAAAAAA
* * * *
16510436 CACAATAAATTAATACATTTCAAACTTTATGTACTAAAAGAATATAAAATAATAAAATACAAAAA
66 CACACTAAATTAATACATTTCAAACTTTATGTAATAAAATAATATAAAATAATAAAATACGAAAA
* * *
16510501 TAGTATATTTTTTGAAAGTAATAAAATTCGG
131 CAGTATATTTTTTAAAAGTAATAAAA-TCCG
*
16510532 AAAA-AAGAAAAATACGAACAAATGGCCAAAATAAAGGGTTTTCTACTAAATTTA-TATAAAAAA
1 AAAATAAGAAAAATACGAACAAATGGCCAAAATAAAGGGTTTTCTACTAAATTTATTAAAAAAAA
* * * *
16510595 TACACTAAAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAA
66 CACACTAAATTAATACATTTCAAACTTTATGTAATAAAATAATATAAAATAATAAAATACGAAAA
16510660 CAGTATATTTTTTAAAAGTAATAAAATCCG
131 CAGTATATTTTTTAAAAGTAATAAAATCCG
16510690 AAAATAAGAAAAATACGAACAAATGGCCAAAATAAAGGGTTTTCTACTAAATTTATATAAAAAAA
1 AAAATAAGAAAAATACGAACAAATGGCCAAAATAAAGGGTTTTCTACTAAATTTAT-TAAAAAAA
16510755 ACACACTAAATTAATACATTTCAAACTTTATGTAATAAAATAATATAAAATAATAAAATACGAAA
65 ACACACTAAATTAATACATTTCAAACTTTATGTAATAAAATAATATAAAATAATAAAATACGAAA
16510820 ACAGTATATTTTTTAAAAGTAATAAAATCCG
130 ACAGTATATTTTTTAAAAGTAATAAAATCCG
16510851 AAAATAAGAAAAATACGAACAAA
1 AAAATAAGAAAAATACGAACAAA
16510874 GGGGGTGCCG
Statistics
Matches: 465, Mismatches: 28, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
157 118 0.25
158 36 0.08
159 171 0.37
160 18 0.04
161 122 0.26
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.27
Consensus pattern (160 bp):
AAAATAAGAAAAATACGAACAAATGGCCAAAATAAAGGGTTTTCTACTAAATTTATTAAAAAAAA
CACACTAAATTAATACATTTCAAACTTTATGTAATAAAATAATATAAAATAATAAAATACGAAAA
CAGTATATTTTTTAAAAGTAATAAAATCCG
Found at i:16522129 original size:9 final size:9
Alignment explanation
Indices: 16522115--16522162 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
16522105 TTTGGTTAAA
16522115 AATTACCCG
1 AATTACCCG
16522124 AATTACCCG
1 AATTACCCG
*
16522133 AATTA-ACG
1 AATTACCCG
*
16522141 AAAAATACCCG
1 --AATTACCCG
16522152 AATTACCCG
1 AATTACCCG
16522161 AA
1 AA
16522163 ATTTTTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
8 2 0.06
9 24 0.75
10 4 0.12
11 2 0.06
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (9 bp):
AATTACCCG
Found at i:16525324 original size:25 final size:25
Alignment explanation
Indices: 16525290--16525344 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
16525280 CTTCCTCTCT
16525290 TCTTT-CTTTTATTATTATTT-TTTTC
1 TCTTTCCTTTTATT-TT-TTTCTTTTC
16525315 -CTTTCCTTTTATTTTTTTCTTTTC
1 TCTTTCCTTTTATTTTTTTCTTTTC
16525339 TCTTTC
1 TCTTTC
16525345 TTCTTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 3 0.11
24 11 0.41
25 13 0.48
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (25 bp):
TCTTTCCTTTTATTTTTTTCTTTTC
Found at i:16525326 original size:19 final size:20
Alignment explanation
Indices: 16525304--16525343 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
16525294 TCTTTTATTA
16525304 TTATTTTTTTCCTTTC-CTT
1 TTATTTTTTTCCTTTCTCTT
*
16525323 TTATTTTTTTCTTTTCTCTT
1 TTATTTTTTTCCTTTCTCTT
16525343 T
1 T
16525344 CTTCTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (20 bp):
TTATTTTTTTCCTTTCTCTT
Found at i:16534133 original size:19 final size:18
Alignment explanation
Indices: 16534093--16534133 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
16534083 AATATTACAC
*
16534093 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
16534111 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
16534130 ATTT
1 ATTT
16534134 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:16536619 original size:20 final size:20
Alignment explanation
Indices: 16536594--16536655 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
16536584 TCAATTAAAA
16536594 TTCAAATATTATTTCACTAT
1 TTCAAATATTATTTCACTAT
*
16536614 TTCAAATCA--CTTT-A--A-
1 TTCAAAT-ATTATTTCACTAT
*
16536629 TTCAAGTATTATTTCACTAT
1 TTCAAATATTATTTCACTAT
16536649 TTCAAAT
1 TTCAAAT
16536656 CACTTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
14 1 0.03
15 6 0.19
16 4 0.13
17 1 0.03
18 1 0.03
19 4 0.13
20 13 0.42
21 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCAAATATTATTTCACTAT
Found at i:16536631 original size:35 final size:35
Alignment explanation
Indices: 16536592--16536662 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
16536582 ATTCAATTAA
16536592 AATTCAAATATTATTTCACTATTTCAAATCACTTT
1 AATTCAAATATTATTTCACTATTTCAAATCACTTT
*
16536627 AATTCAAGTATTATTTCACTATTTCAAATCACTTT
1 AATTCAAATATTATTTCACTATTTCAAATCACTTT
16536662 A
1 A
16536663 TTTTCACTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.01, T:0.45
Consensus pattern (35 bp):
AATTCAAATATTATTTCACTATTTCAAATCACTTT
Found at i:16537272 original size:18 final size:18
Alignment explanation
Indices: 16537204--16537272 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
16537194 TTAGTAGGGT
*
16537204 ATTCAAATT-ATTTTTCTA
1 ATTCAAATTCACTTTTC-A
* *
16537222 TTTCAAATTCAC-TTTCT
1 ATTCAAATTCACTTTTCA
**
16537239 ATTC-AA-TCACAATTCA
1 ATTCAAATTCACTTTTCA
16537255 ATTCAAATTCACTTTTCA
1 ATTCAAATTCACTTTTCA
16537273 CTTTCTAATC
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
15 4 0.10
16 9 0.23
17 5 0.13
18 20 0.51
19 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCAAATTCACTTTTCA
Found at i:16537313 original size:41 final size:40
Alignment explanation
Indices: 16537229--16537306 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
16537219 CTATTTCAAA
* * *
16537229 TTCACTTTCTATTCAATCACAATTCAATTCAAATTCACTT
1 TTCACTTTCTAATCAATCACAATTCAATACAAATACACTT
*
16537269 TTCACTTTCTAATCAATACACAATTCAATACCAATACA
1 TTCACTTTCTAATCAAT-CACAATTCAATACAAATACA
16537307 TATTTCAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
40 16 0.48
41 17 0.52
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (40 bp):
TTCACTTTCTAATCAATCACAATTCAATACAAATACACTT
Found at i:16538396 original size:3 final size:3
Alignment explanation
Indices: 16538388--16538416 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
16538378 TATATTAGTT
16538388 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
16538417 TAATATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:16540282 original size:91 final size:91
Alignment explanation
Indices: 16540137--16540321 Score: 343
Period size: 91 Copynumber: 2.0 Consensus size: 91
16540127 AATTGGCCAA
* *
16540137 AATCAAGCCATTTATTTCACCCATTCAAGCATGAACCTACAAGAAACTTGCACATATAACCAAGA
1 AATCAAGCCATTTATTTCACCAATTCAAGCATGAACCTACAAGAAACTTACACATATAACCAAGA
16540202 CCTTAAAATATTCCCAAATTATGTAT
66 CCTTAAAATATTCCCAAATTATGTAT
*
16540228 AATCAAGCCATTTCTTTCACCAATTCAAGCATGAACCTACAAGAAACTTACACATATAACCAAGA
1 AATCAAGCCATTTATTTCACCAATTCAAGCATGAACCTACAAGAAACTTACACATATAACCAAGA
16540293 CCTTAAAATATTCCCAAATTATGTAT
66 CCTTAAAATATTCCCAAATTATGTAT
16540319 AAT
1 AAT
16540322 AAGACCAATT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (91 bp):
AATCAAGCCATTTATTTCACCAATTCAAGCATGAACCTACAAGAAACTTACACATATAACCAAGA
CCTTAAAATATTCCCAAATTATGTAT
Found at i:16543455 original size:62 final size:63
Alignment explanation
Indices: 16543340--16543481 Score: 187
Period size: 62 Copynumber: 2.3 Consensus size: 63
16543330 TGTGGCAAGT
* * * *
16543340 CGTGTAACTCACTGTTTTTGAATTGAGGGCATATGAGCTAGGGACACGAGTGTGTGTCCAGGC
1 CGTGTAACTCATTGTTTGTGAATTGAGGCCACATGAGCTAGGGACACGAGTGTGTGTCCAGGC
** * * *
16543403 CGTGTAACTCATTGTTTGT-AATTTTGGCCACATGGGCTAGGGACACGGGTGTGTGTCTAGGC
1 CGTGTAACTCATTGTTTGTGAATTGAGGCCACATGAGCTAGGGACACGAGTGTGTGTCCAGGC
*
16543465 CGTGTAACCCATTGTTT
1 CGTGTAACTCATTGTTT
16543482 TGGATTTAGG
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
62 52 0.75
63 17 0.25
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (63 bp):
CGTGTAACTCATTGTTTGTGAATTGAGGCCACATGAGCTAGGGACACGAGTGTGTGTCCAGGC
Found at i:16555247 original size:22 final size:22
Alignment explanation
Indices: 16555219--16555263 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16555209 GGACTGAGCA
* *
16555219 ATTAGGCTAAAGAATTCCAAAG
1 ATTAGGCCAAAGAAATCCAAAG
*
16555241 ATTAGGCCGAAGAAATCCAAAG
1 ATTAGGCCAAAGAAATCCAAAG
16555263 A
1 A
16555264 GAATCACGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.18
Consensus pattern (22 bp):
ATTAGGCCAAAGAAATCCAAAG
Found at i:16557768 original size:16 final size:15
Alignment explanation
Indices: 16557741--16557789 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
16557731 AAATTAAATT
16557741 AATTAACTAAATGCA
1 AATTAACTAAATGCA
*
16557756 AGTTAACCTAAATGCA
1 AATTAA-CTAAATGCA
*
16557772 AATTAAATGAAATGCA
1 AATTAACT-AAATGCA
16557788 AA
1 AA
16557790 GTGATGGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 6 0.21
16 23 0.79
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.24
Consensus pattern (15 bp):
AATTAACTAAATGCA
Found at i:16563431 original size:56 final size:56
Alignment explanation
Indices: 16563284--16563433 Score: 212
Period size: 56 Copynumber: 2.7 Consensus size: 56
16563274 TGATAATAAC
* * * *** **
16563284 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTTTTGTACTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCCATAATACTCAATG
16563340 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCCCATAAT-CTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCT-CCATAATACTCAATG
16563396 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
16563434 NNNNNNNNNN
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
56 83 0.98
57 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (56 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCCATAATACTCAATG
Found at i:16564282 original size:17 final size:17
Alignment explanation
Indices: 16564260--16564293 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16564250 TGGATTCCTT
16564260 CAAATTTTGGCAGCAAG
1 CAAATTTTGGCAGCAAG
16564277 CAAATTTTGGCAGCAAG
1 CAAATTTTGGCAGCAAG
16564294 TAAAGATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (17 bp):
CAAATTTTGGCAGCAAG
Found at i:16570225 original size:56 final size:56
Alignment explanation
Indices: 16570139--16570787 Score: 1289
Period size: 56 Copynumber: 11.6 Consensus size: 56
16570129 ATATATGGTA
16570139 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
16570195 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
16570251 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
16570307 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
16570363 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
16570419 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
16570475 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
16570531 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
16570587 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
16570643 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
16570699 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
*
16570755 CATGTCCCAGACATGGTCTTACATGAGATCTCT
1 CATGTCCCAGACATGGTCTTACATGAGACCTCT
16570788 TTACCCAAAT
Statistics
Matches: 592, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 592 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (56 bp):
CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
Found at i:16573143 original size:138 final size:138
Alignment explanation
Indices: 16572984--16573264 Score: 411
Period size: 138 Copynumber: 2.0 Consensus size: 138
16572974 GAGAACATAT
* * *
16572984 ATATAATTAATATATGAATTTGATTCATATAATATATTAATTGTATATATTTTACCAAATTTAGT
1 ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAGT
* * * * *
16573049 AATATAAATAATTATATTAATTAGTTTCGATC-CAAATATAAAAGACATGAAAATTAACATTCTT
66 AATATAAACAATTATATTAATTAATTTCG-GCGAAAATATAAAAGACATGAAAATTAACATTATT
*
16573113 TTGGAAAGA
130 TTGAAAAGA
* *
16573122 ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATTTATT
1 ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAGT
* * * *
16573187 AATATAAACAATTATATTAATTAATTTTGGCGAAAATATAAAAGATATGGAAATTAATATTATTT
66 AATATAAACAATTATATTAATTAATTTCGGCGAAAATATAAAAGACATGAAAATTAACATTATTT
16573252 TGAAAAGA
131 TGAAAAGA
16573260 ATATA
1 ATATA
16573265 CTTCCTGTTT
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
137 1 0.01
138 126 0.99
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (138 bp):
ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAGT
AATATAAACAATTATATTAATTAATTTCGGCGAAAATATAAAAGACATGAAAATTAACATTATTT
TGAAAAGA
Found at i:16573367 original size:75 final size:75
Alignment explanation
Indices: 16573282--16573452 Score: 236
Period size: 75 Copynumber: 2.3 Consensus size: 75
16573272 TTTTTAACTT
* * * *
16573282 TCTATTAATAAGGGAATAATCCTATATTCTTTTGGAAAAAAATATAATTCTTTTTTCTAACTTTC
1 TCTATTAATAAGGGAATAATCCTACATTATTTTCG-AAAAAATATAATTCATTTTTCTAACTTTC
*
16573347 CA-TTGCATTC
65 CATTTGCATGC
* *
16573357 TCTATTAATAAGGGAATAATCCTACATTATTTTCGAAAGAATATAATTCATTTTTCTAACTTTTC
1 TCTATTAATAAGGGAATAATCCTACATTATTTTCGAAAAAATATAATTCATTTTTCTAACTTTCC
*
16573422 ATTTGCCTGC
66 ATTTGCATGC
* *
16573432 TCTATTAATAAGAGTATAATC
1 TCTATTAATAAGGGAATAATC
16573453 TTGATTTTCC
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
74 28 0.33
75 57 0.67
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.43
Consensus pattern (75 bp):
TCTATTAATAAGGGAATAATCCTACATTATTTTCGAAAAAATATAATTCATTTTTCTAACTTTCC
ATTTGCATGC
Found at i:16575938 original size:20 final size:20
Alignment explanation
Indices: 16575903--16575951 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16575893 GTCATGGTCT
*
16575903 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
16575922 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
16575942 TTGCTTACTT
1 TTGCTTACTT
16575952 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:16576296 original size:50 final size:50
Alignment explanation
Indices: 16576206--16576348 Score: 160
Period size: 50 Copynumber: 2.9 Consensus size: 50
16576196 CCTGTACTGT
* * * ** *
16576206 CAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGC
1 CAATGCCATATCCCAGACATGGTCTTACGTGGGACCTCTCATATAGGTGC
* * * *
16576256 CCATGCCATATCCAAGACATGGTCTTACGGGGGACCTCTCATCTAGGTGC
1 CAATGCCATATCCCAGACATGGTCTTACGTGGGACCTCTCATATAGGTGC
* * * *
16576306 CAACGCCATGTCCCAGACATGGTCTTATGTGGGACCTTTCATA
1 CAATGCCATATCCCAGACATGGTCTTACGTGGGACCTCTCATA
16576349 ACCTCAATAA
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (50 bp):
CAATGCCATATCCCAGACATGGTCTTACGTGGGACCTCTCATATAGGTGC
Found at i:16582220 original size:22 final size:22
Alignment explanation
Indices: 16582195--16582239 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
16582185 GCCTCCTAGG
16582195 ATTTCACCTCAAGAAAGTTACT
1 ATTTCACCTCAAGAAAGTTACT
16582217 ATTTCACCTCAAGAAAGTTACT
1 ATTTCACCTCAAGAAAGTTACT
16582239 A
1 A
16582240 AGACAATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (22 bp):
ATTTCACCTCAAGAAAGTTACT
Found at i:16582795 original size:17 final size:16
Alignment explanation
Indices: 16582759--16582797 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16582749 TTATTGTGCA
*
16582759 TAAAATAAAATATTCC
1 TAAAATAAAAAATTCC
*
16582775 TAAAATAAAAAATGTCT
1 TAAAATAAAAAAT-TCC
16582792 TAAAAT
1 TAAAAT
16582798 TAATACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (16 bp):
TAAAATAAAAAATTCC
Found at i:16585449 original size:20 final size:21
Alignment explanation
Indices: 16585409--16585465 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
16585399 TAAACATAAC
16585409 CATTTTAGTTACAGTTTTAGTTA
1 CATTTTAGTTA-AG-TTTAGTTA
16585432 CATTTTAG-TAAGTTTAGTTA
1 CATTTTAGTTAAGTTTAGTTA
*
16585452 -AGTTTAGTTAAGTT
1 CATTTTAGTTAAGTT
16585466 ACAGATGTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.19
20 14 0.44
21 2 0.06
22 2 0.06
23 8 0.25
ACGTcount: A:0.28, C:0.05, G:0.16, T:0.51
Consensus pattern (21 bp):
CATTTTAGTTAAGTTTAGTTA
Found at i:16585455 original size:10 final size:10
Alignment explanation
Indices: 16585412--16585465 Score: 65
Period size: 10 Copynumber: 5.2 Consensus size: 10
16585402 ACATAACCAT
16585412 TTTAGTTACAG
1 TTTAGTTA-AG
*
16585423 TTTTAGTTACAT
1 -TTTAGTTA-AG
16585435 TTTAG-TAAG
1 TTTAGTTAAG
16585444 TTTAGTTAAG
1 TTTAGTTAAG
16585454 TTTAGTTAAG
1 TTTAGTTAAG
16585464 TT
1 TT
16585466 ACAGATGTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
9 6 0.15
10 18 0.46
11 5 0.13
12 10 0.26
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.52
Consensus pattern (10 bp):
TTTAGTTAAG
Found at i:16603563 original size:18 final size:19
Alignment explanation
Indices: 16603542--16603586 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
16603532 GTAAAAGAAA
*
16603542 AAGTTGTTGC-AGAAGAGG
1 AAGTTGTTACAAGAAGAGG
16603560 AAGTTGTTACTAAAGAAGAGG
1 AAGTTGTTAC--AAGAAGAGG
16603581 AAGTTG
1 AAGTTG
16603587 CTAAAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
21 14 0.61
ACGTcount: A:0.38, C:0.04, G:0.33, T:0.24
Consensus pattern (19 bp):
AAGTTGTTACAAGAAGAGG
Found at i:16603590 original size:18 final size:19
Alignment explanation
Indices: 16603552--16603591 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
16603542 AAGTTGTTGC
16603552 AGAAGAGGAAGTTGTTACTAA
1 AGAAGAGGAAGTTG-T-CTAA
16603573 AGAAGAGGAAGTTG-CTAA
1 AGAAGAGGAAGTTGTCTAA
16603591 A
1 A
16603592 AATGAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
21 14 0.74
ACGTcount: A:0.45, C:0.05, G:0.30, T:0.20
Consensus pattern (19 bp):
AGAAGAGGAAGTTGTCTAA
Found at i:16604054 original size:17 final size:17
Alignment explanation
Indices: 16604021--16604054 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16604011 GATAAGTATA
*
16604021 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
*
16604038 CATTGTCATTACCTTTT
1 CATTGTCATTACATTTT
16604055 AGTGTTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.21, G:0.09, T:0.53
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:16615835 original size:42 final size:42
Alignment explanation
Indices: 16615737--16615835 Score: 135
Period size: 42 Copynumber: 2.4 Consensus size: 42
16615727 TGAAATGGGC
* * *
16615737 CTACTCACACAAGATGTGGGTCAGAATGTAAGCTGCACGATA
1 CTACTCACACGAGCTGTGGGTCAGAATGTAAGCTACACGATA
* * *
16615779 CTGCTAACACGAGCTGTTGGTCAGAATGTAAGCTACACGATA
1 CTACTCACACGAGCTGTGGGTCAGAATGTAAGCTACACGATA
*
16615821 CTACTCACATGAGCT
1 CTACTCACACGAGCT
16615836 ATGGAGTATC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (42 bp):
CTACTCACACGAGCTGTGGGTCAGAATGTAAGCTACACGATA
Found at i:16619148 original size:2 final size:2
Alignment explanation
Indices: 16619141--16619168 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16619131 TTAAGTAATG
16619141 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16619169 CATTACTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16620608 original size:19 final size:19
Alignment explanation
Indices: 16620584--16620620 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16620574 CTAGTTATAG
16620584 GCTGAAAGTTATTAATTAA
1 GCTGAAAGTTATTAATTAA
16620603 GCTGAAAGTTATTAATTA
1 GCTGAAAGTTATTAATTA
16620621 GGTTAATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (19 bp):
GCTGAAAGTTATTAATTAA
Found at i:16627913 original size:20 final size:20
Alignment explanation
Indices: 16627871--16627927 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
16627861 ATACCCTGAA
* *
16627871 TGAAGTATCGATACTTTGGC
1 TGAAGTATCGATACATTGAC
*
16627891 TGAAGTATCGATGCATTGAC
1 TGAAGTATCGATACATTGAC
* *
16627911 TGAAGCATCAATACATT
1 TGAAGTATCGATACATT
16627928 TCTCAAGGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (20 bp):
TGAAGTATCGATACATTGAC
Found at i:16630790 original size:20 final size:20
Alignment explanation
Indices: 16630767--16630806 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
16630757 CTATCACTTT
16630767 TAATACTTTTAATTTTTAAA
1 TAATACTTTTAATTTTTAAA
** *
16630787 TAATTTTTTTATTTTTTAAA
1 TAATACTTTTAATTTTTAAA
16630807 AATTTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATACTTTTAATTTTTAAA
Found at i:16630800 original size:19 final size:19
Alignment explanation
Indices: 16630773--16630811 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16630763 CTTTTAATAC
16630773 TTTTAA-TTTTTAAATAATT
1 TTTTAATTTTTTAAA-AATT
*
16630792 TTTTTATTTTTTAAAAATT
1 TTTTAATTTTTTAAAAATT
16630811 T
1 T
16630812 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTAATTTTTTAAAAATT
Found at i:16631390 original size:2 final size:2
Alignment explanation
Indices: 16631385--16631422 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
16631375 AAATCTGTTA
*
16631385 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16631423 GCTATTCGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16633578 original size:88 final size:90
Alignment explanation
Indices: 16633430--16633638 Score: 253
Period size: 88 Copynumber: 2.4 Consensus size: 90
16633420 CCCTCAAATT
** *
16633430 TTTTCAAAAAAAGTAATTAAACTGCT-CCTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAA
1 TTTTCAAAAAAAGTAATTAAACCCCTACTTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAA
* *
16633494 ATGCATCAAAAAGGCCAT-AAAC-C
66 ATACATCAAAAAGACCATCAAACTC
* * * * * *
16633517 TTTTCAAAAAACGCAATTAAACCCCTACTTTTTTTTGCATTCAATTGGGTACTTGAACTTTCAAA
1 TTTTCAAAAAAAGTAATTAAACCCCTACTTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAA
* * *
16633582 ATATATCAAAAAGACCCTCAAACTT
66 ATACATCAAAAAGACCATCAAACTC
* *
16633607 TTTTCAAAAAAAATAATTAAGCCCCTACTTTT
1 TTTTCAAAAAAAGTAATTAAACCCCTACTTTT
16633639 ATTAAAAATT
Statistics
Matches: 101, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
87 22 0.22
88 47 0.47
89 4 0.04
90 28 0.28
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (90 bp):
TTTTCAAAAAAAGTAATTAAACCCCTACTTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAA
ATACATCAAAAAGACCATCAAACTC
Found at i:16634421 original size:39 final size:42
Alignment explanation
Indices: 16634377--16634490 Score: 101
Period size: 39 Copynumber: 2.7 Consensus size: 42
16634367 TTTTTTTATG
16634377 ATTTTTATAAAAAAATTCTAATTTTTAATAGTT-TTA-AATT
1 ATTTTTATAAAAAAATTCTAATTTTTAATAGTTATTATAATT
* * * * * **
16634417 -TTTTTAT-TAAAATTTAATAATTTTTCTAAAATTTATTATTTTTT
1 ATTTTTATAAAAAAATT-CTAA-TTTT-TAATAGTTATTA-TAATT
16634461 ATTTTTATAAAAAAATTCTAATTTTTAATA
1 ATTTTTATAAAAAAATTCTAATTTTTAATA
16634491 AAAGTAGGGG
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
38 6 0.11
39 10 0.18
40 4 0.07
41 6 0.11
42 3 0.05
43 4 0.07
44 6 0.11
45 10 0.18
46 6 0.11
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (42 bp):
ATTTTTATAAAAAAATTCTAATTTTTAATAGTTATTATAATT
Found at i:16638687 original size:3 final size:3
Alignment explanation
Indices: 16638681--16638717 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
16638671 CAACAACAAC
*
16638681 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16638718 CTATCAACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:16640177 original size:187 final size:184
Alignment explanation
Indices: 16639804--16640349 Score: 887
Period size: 183 Copynumber: 2.9 Consensus size: 184
16639794 AAAAAGGCGG
** *
16639804 AACCAAATTAGTGAAAAAAATTAAGTAACAATAGAATATTTAAGTAGAGCAAATCTGCAATTAGA
1 AACCAAATTAGTGAAAAAAA-CGAGT-A-AATAGAATATTTAAGTAGAGCAAATCTGCAATGAGA
*
16639869 ACAGAGATCTTCAACATCAACTAAACAGCTTAATGCATTTTCTCTTCACATTGATCTACTCTTTC
63 ACAGAGATCTTCAACATCAACTAAACAGCTTAATGCA-TTTCTCTTCACATTGATCTACTCTTAC
16639934 CTAAAATCAAACATGAAATTCTCACTCTTTCTCAGGAAACAAACAAACAATAAACACT
127 CTAAAATCAAACATGAAATTCTCACTCTTTCTCAGGAAACAAACAAACAATAAACACT
* * *
16639992 AACCAAATTAGTGAAAAGAAACGAGTAAGACTAGAAGATTTAAGTAGAGCACATCTGCAACGAGA
1 AACCAAATTAGTGAAAA-AAACGAGTAA-A-TAGAATATTTAAGTAGAGCAAATCTGCAATGAGA
* *
16640057 ACAGAGATCTTCAACATCAACTAAACAGCTTAACGCATTTCTCTTCACATTGATCTACTATTACC
63 ACAGAGATCTTCAACATCAACTAAACAGCTTAATGCATTTCTCTTCACATTGATCTACTCTTACC
* *
16640122 TAAAATCAAACATGAAATTCCCACTCTTTCTCAGGAAACAAACAAACACTAAACACT
128 TAAAATCAAACATGAAATTCTCACTCTTTCTCAGGAAACAAACAAACAATAAACACT
* *
16640179 AACCAAAGTAGTGAAAAAAACGAGT-AATAGATTATTTAAGTAGAGCAAATCTGCAATGAGAACA
1 AACCAAATTAGTGAAAAAAACGAGTAAATAGAATATTTAAGTAGAGCAAATCTGCAATGAGAACA
*
16640243 GAGATCTTCAACATCAACTAAGCAGCTTAATGCATTTCTCTTCACATTGATCTACTCTTACCTAA
66 GAGATCTTCAACATCAACTAAACAGCTTAATGCATTTCTCTTCACATTGATCTACTCTTACCTAA
*
16640308 AATCAAACATGAAATTCTCACTCTTTCTCAGGAAACAGACAA
131 AATCAAACATGAAATTCTCACTCTTTCTCAGGAAACAAACAA
16640350 GCAACAATTT
Statistics
Matches: 334, Mismatches: 21, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
183 135 0.40
184 1 0.00
185 1 0.00
186 9 0.03
187 99 0.30
188 86 0.26
189 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (184 bp):
AACCAAATTAGTGAAAAAAACGAGTAAATAGAATATTTAAGTAGAGCAAATCTGCAATGAGAACA
GAGATCTTCAACATCAACTAAACAGCTTAATGCATTTCTCTTCACATTGATCTACTCTTACCTAA
AATCAAACATGAAATTCTCACTCTTTCTCAGGAAACAAACAAACAATAAACACT
Found at i:16643343 original size:3 final size:3
Alignment explanation
Indices: 16643337--16643409 Score: 121
Period size: 3 Copynumber: 24.3 Consensus size: 3
16643327 TTTTAATTTT
*
16643337 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16643385 TTA TTA TTA TTA -TA CTTA TTA TTA T
1 TTA TTA TTA TTA TTA -TTA TTA TTA T
16643410 ACTTNNNNNN
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 62 0.94
4 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:16647885 original size:16 final size:16
Alignment explanation
Indices: 16647863--16647894 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
16647853 TTGATTCCAA
16647863 AAAAAAACATAAAAAAC
1 AAAAAAA-ATAAAAAAC
16647880 AAAAAAAATAAAAAA
1 AAAAAAAATAAAAAA
16647895 AAGAAGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.88, C:0.06, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAAAAATAAAAAAC
Found at i:16647895 original size:9 final size:9
Alignment explanation
Indices: 16647862--16647896 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
16647852 TTTGATTCCA
16647862 AAAAAAAAC
1 AAAAAAAAC
*
16647871 ATAAAAAAC
1 AAAAAAAAC
*
16647880 AAAAAAAAT
1 AAAAAAAAC
16647889 AAAAAAAA
1 AAAAAAAA
16647897 GAAGAAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.89, C:0.06, G:0.00, T:0.06
Consensus pattern (9 bp):
AAAAAAAAC
Done.