Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 65 of 290
Found at i:19781610 original size:259 final size:260
Alignment explanation
Indices: 19781180--19781903 Score: 1000
Period size: 259 Copynumber: 2.8 Consensus size: 260
19781170 ACTTTAAACA
* * * *
19781180 GCTCGCTGATTTACAATCACAGTCTAAGTTCATTGATTTATGATCATGAACCATTTCTTCTGAGT
1 GCTCGCTGATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
** * ** * ** * *
19781245 TAATTTATTTACAATCAAAACTCCAAATAACTCGTTGATTTATGGTCACGATTGATATTATTAAG
66 TAGCTAATTTATGACCGCAACTCCAAACAACTCGTTGATTTATGATCACGATTGATATTATTAAG
* * * ** *
19781310 GCTCGTTGATTTATGATCACATCTTAAGTTCATTGATTTACGATCATGAATTATTTCTTCCAAGT
131 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACAATTTCTTCTAAGT
*
19781375 TAGTTGATTTACGATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATATTACTAAG
196 TAGTTGATTTACAATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATATTACTAAG
* * *
19781440 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAGT
1 GCTCGCTGATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
** *
19781505 TAGCTAATTTATGACCGCAACTCCAAACAACTC-TTGATTTATGAAAACGATTGATATTATTAAA
66 TAGCTAATTTATGACCGCAACTCCAAACAACTCGTTGATTTATGATCACGATTGATATTATTAAG
* * * *
19781569 GCTCGTTGATTTACGATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAGT
131 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACAATTTCTTCTAAGT
* * * * * * * * *
19781634 TGGCTAAATTACAATCGTAACTCCAAATAGCTTGTTGATTTATGATCATGATTGATATTATTAAT
196 TAGTTGATTTACAATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATATTACTAAG
* * * *
19781699 GCTCACTAATTTACGATCACAGCTTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGT
1 GCTCGCTGATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
* *
19781764 TAGCTAATTTATGACCGCAACTCCAAACAACTCGTTTATTTATGATCATGATTGATATTATTAAG
66 TAGCTAATTTATGACCGCAACTCCAAACAACTCGTTGATTTATGATCACGATTGATATTATTAAG
* **
19781829 GCTAGTTGATTTACGATCACAACCTAAGTTCATTGATTTGTGATCATGAACAATTTCTTCTAAGT
131 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACAATTTCTTCTAAGT
19781894 TAGTTGATTT
196 TAGTTGATTT
19781904 GCAAGCGTAA
Statistics
Matches: 402, Mismatches: 61, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
259 230 0.57
260 172 0.43
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (260 bp):
GCTCGCTGATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
TAGCTAATTTATGACCGCAACTCCAAACAACTCGTTGATTTATGATCACGATTGATATTATTAAG
GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACAATTTCTTCTAAGT
TAGTTGATTTACAATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATATTACTAAG
Found at i:19781676 original size:389 final size:389
Alignment explanation
Indices: 19781179--19781896 Score: 1085
Period size: 389 Copynumber: 1.8 Consensus size: 389
19781169 AACTTTAAAC
* * *
19781179 AGCTCGCTGATTTACAATCACAGTCTAAGTTCATTGATTTATGATCATGAACCATTTCTTCTGAG
1 AGCTCGCTGATTTACAATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAG
* * * *
19781244 TTAATTTATTTACAATCAAAACTCCAAATAACTCGTTGATTTATGGTCACGATTGATATTATTAA
66 TTAACTAAATTACAATCAAAACTCCAAATAACTCGTTGATTTATGATCACGATTGATATTATTAA
** * * * **
19781309 GGCTCGTTGATTTATGATCACATCTTAAGTTCATTGATTTACGATCATGAATTATTTCTTCCAAG
131 GGCTCACTAATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACAATTTCTTCCAAG
* * * * *
19781374 TTAGTTGATTTACGATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATATTACTAA
196 TTAGCTAATTTACGACCGCAACTCCAAACAACTCGTTGATTTACGATCATGATTGATATTACTAA
*
19781439 GGCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAG
261 GGCTAGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAG
19781504 TTAGCTAATTTATGACCGCAACTCCAAACAACTCTTGATTTATGAAAACGATTGATATTATTAA
326 TTAGCTAATTTATGACCGCAACTCCAAACAACTCTTGATTTATGAAAACGATTGATATTATTAA
* *
19781568 AGCTCGTTGATTTACGATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAG
1 AGCTCGCTGATTTACAATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAG
** ** * * *
19781633 TTGGCTAAATTACAATCGTAACTCCAAATAGCTTGTTGATTTATGATCATGATTGATATTATTAA
66 TTAACTAAATTACAATCAAAACTCCAAATAACTCGTTGATTTATGATCACGATTGATATTATTAA
* * * *
19781698 TGCTCACTAATTTACGATCACAGCTTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAG
131 GGCTCACTAATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACAATTTCTTCCAAG
* * * *
19781763 TTAGCTAATTTATGACCGCAACTCCAAACAACTCGTTTATTTATGATCATGATTGATATTATTAA
196 TTAGCTAATTTACGACCGCAACTCCAAACAACTCGTTGATTTACGATCATGATTGATATTACTAA
* *
19781828 GGCTAGTTGATTTACGATCACAACCTAAGTTCATTGATTTGTGATCATGAACAATTTCTTCTAAG
261 GGCTAGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAG
19781893 TTAG
326 TTAG
19781897 TTGATTTGCA
Statistics
Matches: 290, Mismatches: 39, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
389 290 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (389 bp):
AGCTCGCTGATTTACAATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAG
TTAACTAAATTACAATCAAAACTCCAAATAACTCGTTGATTTATGATCACGATTGATATTATTAA
GGCTCACTAATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACAATTTCTTCCAAG
TTAGCTAATTTACGACCGCAACTCCAAACAACTCGTTGATTTACGATCATGATTGATATTACTAA
GGCTAGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAG
TTAGCTAATTTATGACCGCAACTCCAAACAACTCTTGATTTATGAAAACGATTGATATTATTAA
Found at i:19781900 original size:63 final size:63
Alignment explanation
Indices: 19781314--19781903 Score: 172
Period size: 63 Copynumber: 9.1 Consensus size: 63
19781304 ATTAAGGCTC
* * * * * ** *
19781314 GTTGATTTATGATCACATCTTAAGTTCATTGATTTACGATCATGAATTATTTCTTCCAAGTTA
1 GTTGATTTACGATCACAACCTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGTTA
* * * * * * *** * *
19781377 GTTGATTTACGATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATAT-TACTAAGG
1 GTTGATTTACGATCACAA--CC-TA-AGTTCATTTATTTATGATCATGAACAATTTCTTCTAA-G
* *
19781441 CTC
61 TTA
* *
19781444 GTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAGTTA
1 GTTGATTTACGATCACAACCTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGTTA
* * * * * * * ** * *** * *
19781507 GCTAATTTATGACCGCAACTCCAA--ACAACTCTTGATTTATGAAAACGATTGATATTATT-AAA
1 GTTGATTTACGATCACAAC-CTAAGTTC-A-T-TT-ATTTATGATCATGAACAAT-TTCTTCTAA
* *
19781569 GCTC
60 GTTA
* * * * * *
19781573 GTTGATTTACGATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAGTTG
1 GTTGATTTACGATCACAACCTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGTTA
* * * * ** * * * * *** *
19781636 GCTAAATTACAATCGTAACTCCAAATAGCTTGTTGATTTATGATCATGATTGATATT-AT-TAAT
1 GTTGATTTACGATCACAAC-CTAAGT-TCAT-TT-ATTTATGATCATGAACAAT-TTCTTCTAA-
*
19781699 GCTCA
60 G-TTA
* * * *
19781704 -CTAATTTACGATCACAGCTTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGTTA
1 GTTGATTTACGATCACAACCTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGTTA
* * * * * * ** * *** *
19781766 GCTAATTTATGACCGCAACTCCAAACAACTCGTTTATTTATGATCATGATTGATATT-AT-TAAG
1 GTTGATTTACGATCACAA--CC-TA-AGTTCATTTATTTATGATCATGAACAAT-TTCTTCTAA-
*
19781829 GCTA
60 GTTA
* *
19781833 GTTGATTTACGATCACAACCTAAGTTCATTGATTTGTGATCATGAACAATTTCTTCTAAGTTA
1 GTTGATTTACGATCACAACCTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGTTA
19781896 GTTGATTT
1 GTTGATTT
19781904 GCAAGCGTAA
Statistics
Matches: 364, Mismatches: 130, Indels: 66
0.65 0.23 0.12
Matches are distributed among these distances:
62 11 0.03
63 145 0.40
64 24 0.07
65 15 0.04
66 46 0.13
67 118 0.32
68 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (63 bp):
GTTGATTTACGATCACAACCTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGTTA
Found at i:19782702 original size:21 final size:20
Alignment explanation
Indices: 19782654--19782702 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
19782644 TCCTCTAAGC
*
19782654 TTTTATTTTTCATCCACCAGT
1 TTTTA-TTTTCATCCACCAAT
*
19782675 TTCTTATTTTCATCCTCCAAT
1 TT-TTATTTTCATCCACCAAT
19782696 TGTTTAT
1 T-TTTAT
19782703 GCAGCTCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.18, C:0.22, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTTATTTTCATCCACCAAT
Found at i:19790282 original size:54 final size:54
Alignment explanation
Indices: 19790223--19790334 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
19790213 CATGGCTGCT
* *
19790223 AGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCGCC
1 AGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCACC
* * * *
19790277 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCACC
1 AGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACC
19790331 AGAA
1 AGAA
19790335 TGCTTCCTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (54 bp):
AGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACC
Found at i:19790283 original size:27 final size:26
Alignment explanation
Indices: 19790223--19790334 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
19790213 CATGGCTGCT
* *
19790223 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
*
19790249 AGATACAGATAATCGTGGCAGAGCCGCC
1 AGA-ACAGATAAT-GTGGCAGAGCCACC
19790277 AGAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* * *
19790304 AGATCAGATATTTGTGGCATAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
19790331 AGAA
1 AGAA
19790335 TGCTTCCTCC
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 3 0.04
27 56 0.75
28 16 0.21
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:19792036 original size:25 final size:26
Alignment explanation
Indices: 19791942--19792050 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
19791932 CATGAAATTC
19791942 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19791968 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19791994 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
19792020 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19792045 TTATCA
1 TTATCA
19792051 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19796042 original size:27 final size:26
Alignment explanation
Indices: 19796005--19796119 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
19795995 AGCATGGCTG
* *
19796005 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
19796031 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
19796059 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
19796086 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
19796113 CCAGAAC
1 CCAGAAC
19796120 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:19796064 original size:54 final size:54
Alignment explanation
Indices: 19796005--19796119 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
19795995 AGCATGGCTG
*
19796005 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
19796059 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
19796113 CCAGAAC
1 CCAGAAC
19796120 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:19797761 original size:26 final size:26
Alignment explanation
Indices: 19797725--19797834 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
19797715 CATGAAATTC
19797725 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19797751 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19797777 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
19797803 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
19797829 TTATCA
1 TTATCA
19797835 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19801643 original size:24 final size:23
Alignment explanation
Indices: 19801616--19801666 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
19801606 ACTTAAACCC
19801616 CAAAACCTGAAA-ACAAAAAATCTT
1 CAAAACCT-AAATAC-AAAAATCTT
* *
19801640 CAAAACGTAAATACAAAATTCTT
1 CAAAACCTAAATACAAAAATCTT
19801663 CAAA
1 CAAA
19801667 CATGTTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.57, C:0.20, G:0.04, T:0.20
Consensus pattern (23 bp):
CAAAACCTAAATACAAAAATCTT
Found at i:19802415 original size:14 final size:14
Alignment explanation
Indices: 19802393--19802428 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
19802383 TAAGTTTTTG
*
19802393 TTCCCAAAACATAA
1 TTCCAAAAACATAA
19802407 TTCCAAAAACATAA
1 TTCCAAAAACATAA
19802421 TTCCAAAA
1 TTCCAAAA
19802429 TATTTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (14 bp):
TTCCAAAAACATAA
Found at i:19804776 original size:13 final size:13
Alignment explanation
Indices: 19804758--19804787 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19804748 AAGTATATTA
19804758 TTTTTTTG-AATT
1 TTTTTTTGAAATT
19804770 TTTTTTTGAAATT
1 TTTTTTTGAAATT
19804783 TTTTT
1 TTTTT
19804788 CAAATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTTTTTGAAATT
Found at i:19806662 original size:32 final size:31
Alignment explanation
Indices: 19806626--19806687 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 31
19806616 TTATAAATTT
* *
19806626 ATAAATTAATTAATTTAATTTAATAACTTGTG
1 ATAAATTAATTAATTT-ATGTAACAACTTGTG
19806658 ATAAATTAATTAATTTATGTAACAACTTGT
1 ATAAATTAATTAATTTATGTAACAACTTGT
19806688 TTTTAGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (31 bp):
ATAAATTAATTAATTTATGTAACAACTTGTG
Found at i:19813910 original size:32 final size:33
Alignment explanation
Indices: 19813838--19813916 Score: 92
Period size: 32 Copynumber: 2.4 Consensus size: 33
19813828 GTTCTCAACA
* * *
19813838 AAAGAAAAGAAAATCCACGTAAAAAATCTATTCT
1 AAAGAAAAGAAAAT-CACGCAAAAAACCTAATCT
19813872 AAAGAAAAGAAAAT-A-GCAAAGAAACCTAATCT
1 AAAGAAAAGAAAATCACGCAAA-AAACCTAATCT
19813904 AAAGAAAA-AAAAT
1 AAAGAAAAGAAAAT
19813917 GAAAAAATTG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 9 0.22
32 18 0.44
34 14 0.34
ACGTcount: A:0.63, C:0.11, G:0.10, T:0.15
Consensus pattern (33 bp):
AAAGAAAAGAAAATCACGCAAAAAACCTAATCT
Found at i:19815836 original size:37 final size:37
Alignment explanation
Indices: 19815795--19815868 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
19815785 GATGAGAGAT
19815795 TCCACTATTATTAATTAAAAGTGAATTAAGCTTATTA
1 TCCACTATTATTAATTAAAAGTGAATTAAGCTTATTA
19815832 TCCACTATTATTAATTAAAAGTGAATTAAGCTTATTA
1 TCCACTATTATTAATTAAAAGTGAATTAAGCTTATTA
19815869 ATCATAGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (37 bp):
TCCACTATTATTAATTAAAAGTGAATTAAGCTTATTA
Found at i:19818424 original size:23 final size:22
Alignment explanation
Indices: 19818381--19818438 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
19818371 AAAAGGTATC
* *
19818381 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
19818402 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
19818425 TGCATATCATATCT
1 TACAAATCATATCT
19818439 AATATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:19818445 original size:19 final size:19
Alignment explanation
Indices: 19818417--19818488 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
19818407 AATCATATCT
19818417 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
19818436 TCTAATATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
19818454 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
19818471 TATAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
19818489 TGCAGATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 15 0.32
18 15 0.32
19 17 0.36
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:19818463 original size:37 final size:36
Alignment explanation
Indices: 19818410--19818488 Score: 101
Period size: 35 Copynumber: 2.2 Consensus size: 36
19818400 ATTACAAAAT
* *
19818410 CATATC-T-TCTAAGATTGCATATCATATCTAATATTG
1 CATATCATATCTAAGATTG--TATCATATATAAGATTG
19818446 CA-ATCATATCTAAGATTGTATCATATATAAGATTG
1 CATATCATATCTAAGATTGTATCATATATAAGATTG
19818481 CATATCAT
1 CATATCAT
19818489 TGCAGATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
35 20 0.53
36 8 0.21
37 10 0.26
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (36 bp):
CATATCATATCTAAGATTGTATCATATATAAGATTG
Found at i:19824342 original size:29 final size:30
Alignment explanation
Indices: 19824292--19824348 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
19824282 AAAAATCAAG
* * *
19824292 AAAATTAAAATCACTAA-TAAAATCCATTA
1 AAAATTAAAATAACAAACAAAAATCCATTA
*
19824321 AAAATTAACATAACAAACAAAAATCCAT
1 AAAATTAAAATAACAAACAAAAATCCAT
19824349 CAATTTATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 14 0.61
30 9 0.39
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.23
Consensus pattern (30 bp):
AAAATTAAAATAACAAACAAAAATCCATTA
Found at i:19826468 original size:29 final size:28
Alignment explanation
Indices: 19826435--19826490 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
19826425 CGTATAGATG
19826435 GGTAACAAATTAATTAATATATTTATATA
1 GGTAACAAATTAATT-ATATATTTATATA
*
19826464 GGTAACAAATTAGTTATATATTTATAT
1 GGTAACAAATTAATTATATATTTATAT
19826491 TTGTACTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (28 bp):
GGTAACAAATTAATTATATATTTATATA
Found at i:19829499 original size:23 final size:25
Alignment explanation
Indices: 19829473--19829519 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19829463 TATCATTCAT
*
19829473 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
19829496 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
19829520 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:19829828 original size:43 final size:45
Alignment explanation
Indices: 19829780--19829945 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 45
19829770 TTTGACGTGA
* * *
19829780 TGCCATAGTGTCTTTCAAC-T-GTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACATGGTCTTACTC-TTTTCATGTCACGT
*
19829823 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAA-CATGGTCTTACTCTTTTCATGTCACGT
* * *
19829869 TGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAA-CATGGTCTTACT-CTTTTCATGTCACGT
19829915 TGCCATGGTATTCTTTCAACCATGGTCTTAC
1 TGCCATGGTA-TCTTTCAA-CATGGTCTTAC
19829946 ACACAGGTTG
Statistics
Matches: 109, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
43 16 0.15
44 1 0.01
45 7 0.06
46 66 0.61
47 19 0.17
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACATGGTCTTACTCTTTTCATGTCACGT
Found at i:19829871 original size:46 final size:42
Alignment explanation
Indices: 19829821--19830067 Score: 294
Period size: 46 Copynumber: 5.8 Consensus size: 42
19829811 TTTCTGTCAT
*
19829821 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--C-TTTCAT-TCAG
19829867 GTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTC-T-TAC-TTTCAT-TCAG
*
19829913 GTTGCCATGGTATTCTTTCAACCATGGTCTTAC--ACA--CAG
1 GTTGCCATGGTA-TCTTTCAACCATGGTCTTACTTTCATTCAG
19829952 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTT--AC-TTTCAT-TCAG
*
19829998 GTTGCCATGGTATCTTTCAACCATGGTCTTAC--ACA--CAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACTTTCATTCAG
19830036 GTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTAC
19830068 ACATTTCATA
Statistics
Matches: 184, Mismatches: 6, Indels: 30
0.84 0.03 0.14
Matches are distributed among these distances:
38 53 0.29
39 15 0.08
40 2 0.01
41 2 0.01
42 2 0.01
43 2 0.01
44 2 0.01
45 3 0.02
46 84 0.46
47 17 0.09
48 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (42 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACTTTCATTCAG
Found at i:19829977 original size:38 final size:38
Alignment explanation
Indices: 19829910--19830070 Score: 241
Period size: 38 Copynumber: 4.0 Consensus size: 38
19829900 CATTTCATAT
19829910 CAGGTTGCCATGGTATTCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTA-TCTTTCAACCATGGTCTTACACA
19829949 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
19829994 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
19830033 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
19830071 TTTCATATCA
Statistics
Matches: 114, Mismatches: 0, Indels: 17
0.87 0.00 0.13
Matches are distributed among these distances:
38 56 0.49
39 16 0.14
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:19830067 original size:84 final size:85
Alignment explanation
Indices: 19829867--19830081 Score: 414
Period size: 84 Copynumber: 2.5 Consensus size: 85
19829857 TTCATGTCAC
*
19829867 GTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTATTCTTTC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATTCTTTC
19829932 AACCATGGTCTTACACACAG
66 AACCATGGTCTTACACACAG
19829952 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA-TCTTTC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATTCTTTC
19830016 AACCATGGTCTTACACACAG
66 AACCATGGTCTTACACACAG
19830036 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
19830082 AGAGCACACT
Statistics
Matches: 129, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 72 0.56
85 57 0.44
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (85 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATTCTTTC
AACCATGGTCTTACACACAG
Found at i:19834489 original size:13 final size:13
Alignment explanation
Indices: 19834471--19834496 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19834461 GGTTTTTGTT
19834471 TTATCTAAACTAA
1 TTATCTAAACTAA
19834484 TTATCTAAACTAA
1 TTATCTAAACTAA
19834497 GAATTCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:19839872 original size:44 final size:44
Alignment explanation
Indices: 19839806--19839896 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
19839796 AACTCTATTT
* *
19839806 TTAGTTTCTTACTTAAATTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCTACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
19839850 TTAGTTTCCTACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCTACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
19839894 TTA
1 TTA
19839897 TTTGACCTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (44 bp):
TTAGTTTCCTACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
Found at i:19841860 original size:44 final size:44
Alignment explanation
Indices: 19841794--19841880 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
19841784 TTGTTTTTAA
* * *
19841794 TTTCTCACTTAAACTCTGATTAGTATAGGTTATTTTGATATTAG
1 TTTCTCACTTAAAATCTGATTAGTATAAGTTATTTTAATATTAG
*
19841838 TTTCTCACTTAAAATCTTATTAGTATAAGTTATTTTAATATTA
1 TTTCTCACTTAAAATCTGATTAGTATAAGTTATTTTAATATTA
19841881 TTTGACCTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.49
Consensus pattern (44 bp):
TTTCTCACTTAAAATCTGATTAGTATAAGTTATTTTAATATTAG
Found at i:19846851 original size:31 final size:31
Alignment explanation
Indices: 19846813--19846915 Score: 102
Period size: 31 Copynumber: 3.4 Consensus size: 31
19846803 TAATCTCATT
* *
19846813 AATATTAAATTAATAAAATATTATCCAGATA
1 AATATTAAATTAATAAAATAATATCCACATA
** * *
19846844 AATATTAAATT--TAATTTAATATCTCATATT
1 AATATTAAATTAATAAAATAATATC-CACATA
* * *
19846874 AATAATAAATTAATAAAATACTATCTACATA
1 AATATTAAATTAATAAAATAATATCCACATA
19846905 AATATTAAATT
1 AATATTAAATT
19846916 TAATTTAATA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 9 0.16
30 14 0.25
31 24 0.43
32 9 0.16
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCCACATA
Found at i:19846906 original size:61 final size:61
Alignment explanation
Indices: 19846810--19846938 Score: 222
Period size: 61 Copynumber: 2.1 Consensus size: 61
19846800 AATTAATCTC
* * *
19846810 ATTAATATTAAATTAATAAAATATTATCCAGATAAATATTAAATTTAATTTAATATCTCAT
1 ATTAATAATAAATTAATAAAATACTATCCACATAAATATTAAATTTAATTTAATATCTCAT
*
19846871 ATTAATAATAAATTAATAAAATACTATCTACATAAATATTAAATTTAATTTAATATCTCAT
1 ATTAATAATAAATTAATAAAATACTATCCACATAAATATTAAATTTAATTTAATATCTCAT
19846932 ATTAATA
1 ATTAATA
19846939 TCTAGATAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (61 bp):
ATTAATAATAAATTAATAAAATACTATCCACATAAATATTAAATTTAATTTAATATCTCAT
Found at i:19849717 original size:25 final size:24
Alignment explanation
Indices: 19849683--19849757 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 24
19849673 GGGGTAATCA
19849683 TTAAAATTTTATCGGGGTAAAATTG
1 TTAAAATTTTA-CGGGGTAAAATTG
*
19849708 TTAAAATTTTACTGGGGTACAATTG
1 TTAAAATTTTAC-GGGGTAAAATTG
*
19849733 TTAAAATTTTACTGGGGTACAATTG
1 TTAAAATTTTAC-GGGGTAAAATTG
19849758 GGGTGAGAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
24 1 0.02
25 47 0.98
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (24 bp):
TTAAAATTTTACGGGGTAAAATTG
Found at i:19849739 original size:50 final size:48
Alignment explanation
Indices: 19849636--19849757 Score: 129
Period size: 50 Copynumber: 2.4 Consensus size: 48
19849626 AATTTTCTCG
* *
19849636 AAATTTTAACGAGAGTAAAATTGTCAAAATTTTATTGGGGGTAATCATTA
1 AAATTTT-ACG-GGGTAAAATTGTCAAAATTTTACTGGGGGTAATCATTA
* **
19849686 AAATTTTATCGGGGTAAAATTGTTAAAATTTTACT-GGGGTACAATTGTTA
1 AAATTTTA-CGGGGTAAAATTGTCAAAATTTTACTGGGGGT--AATCATTA
*
19849736 AAATTTTACTGGGGTACAATTG
1 AAATTTTAC-GGGGTAAAATTG
19849758 GGGTGAGAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
48 5 0.08
49 23 0.37
50 34 0.55
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (48 bp):
AAATTTTACGGGGTAAAATTGTCAAAATTTTACTGGGGGTAATCATTA
Found at i:19851387 original size:3 final size:3
Alignment explanation
Indices: 19851379--19851413 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
19851369 TTTTTAAAAC
*
19851379 TAT TAT TAT TAT TAT TAT TAT TACT TTT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
19851414 TATTTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.93
4 2 0.07
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:19851518 original size:33 final size:33
Alignment explanation
Indices: 19851481--19851551 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
19851471 CTGGACGTTT
*
19851481 TTTTTTGTCTCTCTTTTCTTTTGTCTCCTGATC
1 TTTTTTGTCTCTCTTTTCTTTTGGCTCCTGATC
* * *
19851514 TTTTTTTTCTCTTTTTTCTTTTGGCTCCTGTTC
1 TTTTTTGTCTCTCTTTTCTTTTGGCTCCTGATC
19851547 TTTTT
1 TTTTT
19851552 GGCTTCTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.01, C:0.21, G:0.08, T:0.69
Consensus pattern (33 bp):
TTTTTTGTCTCTCTTTTCTTTTGGCTCCTGATC
Found at i:19851572 original size:35 final size:33
Alignment explanation
Indices: 19851488--19851572 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
19851478 TTTTTTTTTG
* * *
19851488 TCTCTCTTTTCTTTTGTCTCCTGATCTTTTTTT
1 TCTCTTTTTTCTTTTGGCTCCTGATCTTTTTCT
*
19851521 TCTCTTTTTTCTTTTGGCTCCTGTTCTTTTTGGCT
1 TCTCTTTTTTCTTTTGGCTCCTGATCTTTTT--CT
19851556 TCT-TCTTTTTCTTTTGG
1 TCTCT-TTTTTCTTTTGG
19851573 AAACGGTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
33 28 0.62
34 1 0.02
35 16 0.36
ACGTcount: A:0.01, C:0.22, G:0.11, T:0.66
Consensus pattern (33 bp):
TCTCTTTTTTCTTTTGGCTCCTGATCTTTTTCT
Found at i:19852234 original size:22 final size:21
Alignment explanation
Indices: 19852187--19852235 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
19852177 TCCCTAGTTT
* **
19852187 ACACGGGCGTGTGCCTCTGCC
1 ACACGGCCGTGTGCCTCCCCC
19852208 ACACGGCCGTGTGCCTCCCCCC
1 ACACGGCCGTGTGCCT-CCCCC
19852230 ACACGG
1 ACACGG
19852236 GTGTTTTGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.12, C:0.45, G:0.29, T:0.14
Consensus pattern (21 bp):
ACACGGCCGTGTGCCTCCCCC
Found at i:19860802 original size:46 final size:46
Alignment explanation
Indices: 19860735--19861035 Score: 404
Period size: 46 Copynumber: 6.7 Consensus size: 46
19860725 TGGCAACCTG
*
19860735 TGTGTAAGACCATGGTTGAAAGATACCATGGTAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
19860781 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
19860819 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
19860865 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
19860911 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
19860957 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * * *
19861003 TGAGTAAGACCATAGTTGAGAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
19861036 TCACGTCAAA
Statistics
Matches: 231, Mismatches: 15, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
38 36 0.16
41 2 0.01
43 2 0.01
45 1 0.00
46 190 0.82
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:19860821 original size:84 final size:84
Alignment explanation
Indices: 19860686--19860991 Score: 486
Period size: 84 Copynumber: 3.5 Consensus size: 84
19860676 AGTGTGCTCT
19860686 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
*
19860751 TGAAAGATACCATGGTAAC
66 TGAAAGATACCATGGCAAC
19860770 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
19860835 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
19860854 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
19860919 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * **
19860946 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
19860992 ATGACAGAAA
Statistics
Matches: 208, Mismatches: 6, Indels: 8
0.94 0.03 0.04
Matches are distributed among these distances:
84 130 0.62
89 1 0.00
91 1 0.00
92 76 0.37
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:19861341 original size:23 final size:25
Alignment explanation
Indices: 19861296--19861342 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19861286 AATAAATATA
*
19861296 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
19861321 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
19861343 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:19865759 original size:14 final size:14
Alignment explanation
Indices: 19865726--19865768 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
19865716 ACATGAGTCT
19865726 ATAAAAATAAAGAGAA
1 ATAAAAATAAA-A-AA
*
19865742 ATAAAAGTAAAAAA
1 ATAAAAATAAAAAA
19865756 ATAAAAATAAAAA
1 ATAAAAATAAAAA
19865769 GAGTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 14 0.56
15 1 0.04
16 10 0.40
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
ATAAAAATAAAAAA
Found at i:19879343 original size:9 final size:9
Alignment explanation
Indices: 19879317--19879356 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
19879307 TCGAATCAAG
*
19879317 TTAATCGAG
1 TTAATCGAA
19879326 TTAATCGAA
1 TTAATCGAA
19879335 TTAATCGAA
1 TTAATCGAA
*
19879344 TCAACTCGAA
1 TTAA-TCGAA
19879354 TTA
1 TTA
19879357 TTTTCGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 20 0.74
10 7 0.26
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (9 bp):
TTAATCGAA
Found at i:19880456 original size:246 final size:237
Alignment explanation
Indices: 19880018--19880502 Score: 774
Period size: 246 Copynumber: 2.0 Consensus size: 237
19880008 ATTTCATAGG
19880018 GGTTTACTAATTTATAAGATTTTTTTTAAAACTTAGTTAATTAATTTTGTATTACTGGTTCAAGT
1 GGTTTACTAATTTATAAGATTTTTTTTAAAACTTAGTTAATTAATTTTGTATTACTGGTTC-A--
*
19880083 TGTACTTGTAATTAGTAAATTCTCGTATGATTTTATCCTTATGAATTAGCTAATTTTTCTTCAAT
63 --TACTTGTAATTAGTAAATTCTCGTATGATTTTATCCTTATGAATTAGCTAATTTTTCTTCAAG
* *
19880148 GATTGAAGAAGAAAAAACCTACAGCAGTGGGCGATGGGGGTTCAGGGGATTTTAGCTTTATCCAC
126 GATTGAAGAAGAAAAAACCTACAGCAGTGGGAGATGGGGGTCCAGGGGATTTTAGC--T-T----
19880213 TATTCCACTTGATGTACAATAACCCTTAACAAATATGAATTAGTATCCTTATAAT
184 TA-TCCACTTGATGTACAATAACCCTTAACAAATATGAATTAGTATCCTTATAAT
19880268 GGTTTACTAATTTATAAGAATTTTTTTTAAAACTTAGTTAATTAATTTTGTATTACTGGTTC-TA
1 GGTTTACTAATTTATAAG-ATTTTTTTTAAAACTTAGTTAATTAATTTTGTATTACTGGTTCATA
* *
19880332 GTTGTAATTAGTAAATTCTCGTATGATTTTTATCCTTATGAATTAGCTAATTTTTCTTGAAGGAT
65 CTTGTAATTAGTAAATTCTCGTATGA-TTTTATCCTTATGAATTAGCTAATTTTTCTTCAAGGAT
19880397 TGAAGAAGAAAAAACCTACAGCAGTGGGAGATGGGGGTCCAGGGGATTTTAGCTTTATCCACTTG
129 TGAAGAAGAAAAAACCTACAGCAGTGGGAGATGGGGGTCCAGGGGATTTTAGCTTTATCCACTTG
*
19880462 ATGTACAATAACCCTTAACAAATATGAATTAGTGTCCTTAT
194 ATGTACAATAACCCTTAACAAATATGAATTAGTATCCTTAT
19880503 GAATTAGCTA
Statistics
Matches: 227, Mismatches: 6, Indels: 16
0.91 0.02 0.06
Matches are distributed among these distances:
238 48 0.21
239 2 0.01
243 1 0.00
244 1 0.00
245 27 0.12
246 87 0.38
250 18 0.08
251 43 0.19
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (237 bp):
GGTTTACTAATTTATAAGATTTTTTTTAAAACTTAGTTAATTAATTTTGTATTACTGGTTCATAC
TTGTAATTAGTAAATTCTCGTATGATTTTATCCTTATGAATTAGCTAATTTTTCTTCAAGGATTG
AAGAAGAAAAAACCTACAGCAGTGGGAGATGGGGGTCCAGGGGATTTTAGCTTTATCCACTTGAT
GTACAATAACCCTTAACAAATATGAATTAGTATCCTTATAAT
Found at i:19883321 original size:27 final size:27
Alignment explanation
Indices: 19883154--19883331 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
19883144 TAAATTGTAC
*
19883154 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
19883181 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
19883207 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
19883235 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
19883263 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
19883290 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
19883317 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19883332 GGCTCAATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:19883322 original size:82 final size:81
Alignment explanation
Indices: 19883151--19883331 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
19883141 GATTAAATTG
* * * *
19883151 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19883216 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
19883232 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19883296 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
19883314 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19883332 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:19887505 original size:36 final size:36
Alignment explanation
Indices: 19887465--19887540 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
19887455 GCCACACAAT
19887465 GACGAAGCTAC-TCAAGAAGGATGTTAAGTTCGAATG
1 GACGAAGCTACTTC-AGAAGGATGTTAAGTTCGAATG
19887501 GACGAAGCTACTTCAGAAGGATGTTAAGTTCGAATG
1 GACGAAGCTACTTCAGAAGGATGTTAAGTTCGAATG
19887537 GACG
1 GACG
19887541 GAGAAATGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 37 0.95
37 2 0.05
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.22
Consensus pattern (36 bp):
GACGAAGCTACTTCAGAAGGATGTTAAGTTCGAATG
Found at i:19887553 original size:36 final size:36
Alignment explanation
Indices: 19887479--19887554 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
19887469 AAGCTACTCA
* *
19887479 AGAAGGATGTTAAGTTCGAATGGACGAAGCTACTTC
1 AGAAGGATGTTAAGTTCGAATGGACGAAGCAAATTC
*
19887515 AGAAGGATGTTAAGTTCGAATGGACGGAG-AAATGTC
1 AGAAGGATGTTAAGTTCGAATGGACGAAGCAAAT-TC
19887551 AGAA
1 AGAA
19887555 AAGCTTCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 2 0.06
36 34 0.94
ACGTcount: A:0.37, C:0.11, G:0.30, T:0.22
Consensus pattern (36 bp):
AGAAGGATGTTAAGTTCGAATGGACGAAGCAAATTC
Found at i:19891362 original size:27 final size:27
Alignment explanation
Indices: 19891195--19891372 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
19891185 TAAATTGTAC
*
19891195 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
19891222 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
19891248 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
19891276 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
19891304 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
19891331 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
19891358 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19891373 GGCTCAATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:19891363 original size:82 final size:81
Alignment explanation
Indices: 19891192--19891372 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
19891182 GATTAAATTG
* * * *
19891192 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19891257 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
19891273 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19891337 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
19891355 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19891373 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:19893017 original size:16 final size:16
Alignment explanation
Indices: 19892996--19893026 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19892986 GTAACGCCCT
*
19892996 AAAAATCCCGAAATCA
1 AAAAATCCCAAAATCA
19893012 AAAAATCCCAAAATC
1 AAAAATCCCAAAATC
19893027 CTGAATTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.26, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAATCCCAAAATCA
Found at i:19894165 original size:16 final size:16
Alignment explanation
Indices: 19894132--19894166 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19894122 ATGTATTGGC
*
19894132 AAAAGCCGAAATGCCA
1 AAAAGCCGAAAAGCCA
*
19894148 AAAAGCCGAAAAGTCA
1 AAAAGCCGAAAAGCCA
19894164 AAA
1 AAA
19894167 GTTTGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.20, G:0.17, T:0.06
Consensus pattern (16 bp):
AAAAGCCGAAAAGCCA
Found at i:19894433 original size:29 final size:28
Alignment explanation
Indices: 19894389--19894454 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
19894379 ATGAATGTTA
19894389 GGCCATATAAGTGTGATTTGGGCCTAATG
1 GGCCATATAAG-GTGATTTGGGCCTAATG
*
19894418 GGCCATATACAGGTGATTTGGGCCTAATC
1 GGCCATATA-AGGTGATTTGGGCCTAATG
*
19894447 GGCTATAT
1 GGCCATAT
19894455 GAATATGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 32 0.94
30 2 0.06
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
GGCCATATAAGGTGATTTGGGCCTAATG
Found at i:19900673 original size:16 final size:16
Alignment explanation
Indices: 19900626--19900674 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
19900616 GTAACGCCCC
*
19900626 AAAAATCTCGAAATAC-
1 AAAAATCCCGAAAT-CT
*
19900642 AAAAATCCCAAAATCT
1 AAAAATCCCGAAATCT
19900658 AAAAATCCCGAAATCT
1 AAAAATCCCGAAATCT
19900674 A
1 A
19900675 GATTTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 1 0.03
16 28 0.97
ACGTcount: A:0.55, C:0.22, G:0.04, T:0.18
Consensus pattern (16 bp):
AAAAATCCCGAAATCT
Found at i:19905134 original size:216 final size:210
Alignment explanation
Indices: 19904749--19905138 Score: 638
Period size: 216 Copynumber: 1.8 Consensus size: 210
19904739 GCACAAGAAG
19904749 TTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTGGTTAGTTA
1 TTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTGGTTAGTTA
* *
19904814 TTGTTGTTGGATAATTGAGCTTTTGTTGTGTTCTTTTTTTTTGGACTAGTGTAGGTTTCTATTGT
66 TTGTTGTTGGATAATTGAACTTTTGTTGTGTTCTTTTTTTTTGGACTAGTGTAGGTTTCTACTGT
19904879 ATTTTAGACTTTTGCTTATGTTTTTTTTACTACAATGTTGTTGTATTGTTTTTGTTGTTTATTTG
131 ATTTTAGACTTTTGCTTATGTTTTTTTTACTACAATGTTGTTGTATTGTTTTTGTTGTTTATTTG
19904944 GACTCATGAAGAAAC
196 GACTCATGAAGAAAC
19904959 TTAAACTATTCTATAAT-GTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTGGTTTGGTT
1 TTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTA-----GTTTGGTTTGGTT
* * *
19905023 AGTTATTGTTGTTGGTTAATTGAACTTTTGTTGTGTTCTTTTTTTTTTTGGAGTGGTGTAGGTTT
61 AGTTATTGTTGTTGGATAATTGAACTTTTGTTGTGTTC--TTTTTTTTTGGACTAGTGTAGGTTT
* * *
19905088 CTACTGTATTTTGGACTTTTGCTTATGTTTTTTTTATTATAATGTTGTTGT
124 CTACTGTATTTTAGACTTTTGCTTATGTTTTTTTTACTACAATGTTGTTGT
19905139 TTACTTCGAC
Statistics
Matches: 165, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
209 29 0.18
210 17 0.10
214 49 0.30
216 70 0.42
ACGTcount: A:0.18, C:0.06, G:0.21, T:0.56
Consensus pattern (210 bp):
TTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTGGTTAGTTA
TTGTTGTTGGATAATTGAACTTTTGTTGTGTTCTTTTTTTTTGGACTAGTGTAGGTTTCTACTGT
ATTTTAGACTTTTGCTTATGTTTTTTTTACTACAATGTTGTTGTATTGTTTTTGTTGTTTATTTG
GACTCATGAAGAAAC
Found at i:19905231 original size:19 final size:19
Alignment explanation
Indices: 19905207--19905250 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
19905197 GTATTTTTTT
*
19905207 TGTTGTTTTTTTGGACTAA
1 TGTTGTTTATTTGGACTAA
**
19905226 TGTTGTTTATTTGGGTTAA
1 TGTTGTTTATTTGGACTAA
19905245 TGTTGT
1 TGTTGT
19905251 GTTGCTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.14, C:0.02, G:0.25, T:0.59
Consensus pattern (19 bp):
TGTTGTTTATTTGGACTAA
Found at i:19905405 original size:5 final size:5
Alignment explanation
Indices: 19905397--19905437 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
19905387 GAACAAATAT
19905397 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
19905438 ATTCCATCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:19908896 original size:8 final size:8
Alignment explanation
Indices: 19908883--19908913 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
19908873 ATCTTTGGAT
19908883 TTTTTTTA
1 TTTTTTTA
19908891 TTTTTTTA
1 TTTTTTTA
19908899 TTTTTTTA
1 TTTTTTTA
19908907 TTTTTTT
1 TTTTTTT
19908914 CCAAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:19914893 original size:85 final size:85
Alignment explanation
Indices: 19914743--19914911 Score: 302
Period size: 85 Copynumber: 2.0 Consensus size: 85
19914733 GAAAATGATC
*
19914743 ATGTTTCAAAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATCATTTTATTA
1 ATGTTTCAAAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATCATTTGATTA
19914808 CTACCTAAGTCTTATATATT
66 CTACCTAAGTCTTATATATT
** *
19914828 ATGTTTCGTAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATTATTTGATTA
1 ATGTTTCAAAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATCATTTGATTA
19914893 CTACCTAAGTCTTATATAT
66 CTACCTAAGTCTTATATAT
19914912 GTTGAATTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (85 bp):
ATGTTTCAAAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATCATTTGATTA
CTACCTAAGTCTTATATATT
Found at i:19916604 original size:23 final size:24
Alignment explanation
Indices: 19916560--19916608 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
19916550 ATTTCGTTGT
* *
19916560 TTTCTCTTTTTTGGATTTGATTCC
1 TTTCTCTTTTTTCGATTCGATTCC
*
19916584 TTTCT-TTTTTTCTATTCGATTCC
1 TTTCTCTTTTTTCGATTCGATTCC
19916607 TT
1 TT
19916609 GTAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.08, C:0.18, G:0.08, T:0.65
Consensus pattern (24 bp):
TTTCTCTTTTTTCGATTCGATTCC
Found at i:19917893 original size:21 final size:20
Alignment explanation
Indices: 19917860--19917901 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
19917850 TTATATATTC
19917860 TTTTAAATGTAATTTT-ATA
1 TTTTAAATGTAATTTTGATA
19917879 TTTTAAATTTGTAATTTTGATA
1 TTTTAAA--TGTAATTTTGATA
19917901 T
1 T
19917902 ACAATATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTAAATGTAATTTTGATA
Found at i:19919473 original size:31 final size:31
Alignment explanation
Indices: 19919404--19919466 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
19919394 ATTTCTACTA
* *
19919404 TATTCTTAGGTTAGAATAATTTACTCCTAATG
1 TATT-TTAGGATAGAATAAATTACTCCTAATG
*
19919436 TATTTTAGGATAGAATAAATTAGCTCTTAAT
1 TATTTTAGGATAGAATAAATTA-CTCCTAAT
19919467 TTTTTTACAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.43
Consensus pattern (31 bp):
TATTTTAGGATAGAATAAATTACTCCTAATG
Found at i:19927710 original size:2 final size:2
Alignment explanation
Indices: 19927703--19927730 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19927693 TCATATAATG
19927703 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
19927731 ATGAAGAATG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:19933722 original size:9 final size:9
Alignment explanation
Indices: 19933708--19933732 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19933698 TATTATAATG
19933708 CAAATATTA
1 CAAATATTA
19933717 CAAATATTA
1 CAAATATTA
19933726 CAAATAT
1 CAAATAT
19933733 GTGAAGCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (9 bp):
CAAATATTA
Found at i:19938036 original size:13 final size:13
Alignment explanation
Indices: 19938018--19938044 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19938008 GTAAGGTCAA
19938018 TCCCACAAGGACT
1 TCCCACAAGGACT
19938031 TCCCACAAGGACT
1 TCCCACAAGGACT
19938044 T
1 T
19938045 AAGTATCTAA
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:0.30, C:0.37, G:0.15, T:0.19
Consensus pattern (13 bp):
TCCCACAAGGACT
Found at i:19938473 original size:40 final size:40
Alignment explanation
Indices: 19938429--19938516 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
19938419 TCAAAATTTG
*
19938429 AATTAAATAGTTCAATTTATTCGGATAAACTCAAATAAAA
1 AATTAAAAAGTTCAATTTATTCGGATAAACTCAAATAAAA
* ***
19938469 AATTAAAAATTTTGGTTTATTCGGATAAACTCAAATAAAA
1 AATTAAAAAGTTCAATTTATTCGGATAAACTCAAATAAAA
19938509 AATTAAAA
1 AATTAAAA
19938517 TTTTTGGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (40 bp):
AATTAAAAAGTTCAATTTATTCGGATAAACTCAAATAAAA
Found at i:19938522 original size:40 final size:40
Alignment explanation
Indices: 19938444--19938527 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
19938434 AATAGTTCAA
19938444 TTTATTCGGATAAACTCAAATAAAAAATTAAAAATTTTGG
1 TTTATTCGGATAAACTCAAATAAAAAATTAAAAATTTTGG
*
19938484 TTTATTCGGATAAACTCAAATAAAAAATTAAAATTTTTGG
1 TTTATTCGGATAAACTCAAATAAAAAATTAAAAATTTTGG
19938524 TTTA
1 TTTA
19938528 ACTAGAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (40 bp):
TTTATTCGGATAAACTCAAATAAAAAATTAAAAATTTTGG
Found at i:19938685 original size:49 final size:49
Alignment explanation
Indices: 19938576--19938685 Score: 141
Period size: 49 Copynumber: 2.2 Consensus size: 49
19938566 CCCAAATAAG
* * *
19938576 AAAAGGCAAAACTGCTTCGTTTTGATAAATATTTACCTTTTCTAAAGTT
1 AAAAGGCAAAACTGATTCGTTCTGATAAATATTTACATTTTCTAAAGTT
** * *
19938625 AAAAGAAAAAACT-ATGTCGTTCTGATAAATGTTTATATTTTCTAAAGTT
1 AAAAGGCAAAACTGAT-TCGTTCTGATAAATATTTACATTTTCTAAAGTT
19938674 AAAAGGCAAAAC
1 AAAAGGCAAAAC
19938686 CATTATACTA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 50 0.98
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (49 bp):
AAAAGGCAAAACTGATTCGTTCTGATAAATATTTACATTTTCTAAAGTT
Found at i:19939776 original size:33 final size:32
Alignment explanation
Indices: 19939704--19939776 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
19939694 GAGGTCCAAG
*
19939704 TTTGTCTTAGAAGCCTAGTTGTAATGTCCTTTT
1 TTTGT-TTAGAAGCCTAGTTGTAAGGTCCTTTT
* * * *
19939737 TGTGTTTAGAGGCCTAGTTGTGAGGTTCGTTTT
1 TTTGTTTAGAAGCCTAGTTGTAAGG-TCCTTTT
19939770 TTTGTTT
1 TTTGTTT
19939777 TAAAGACCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 17 0.52
33 16 0.48
ACGTcount: A:0.14, C:0.11, G:0.25, T:0.51
Consensus pattern (32 bp):
TTTGTTTAGAAGCCTAGTTGTAAGGTCCTTTT
Found at i:19941180 original size:43 final size:43
Alignment explanation
Indices: 19941119--19941282 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 43
19941109 TACCGAGATG
* *
19941119 TGATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTATA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTTATA
* *
19941162 TGATTTCATATAAGACCATGTCTGGGACATTGGGATCGTTATA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTTATA
*** * * ** * *
19941205 TGATTTTGTGTAAGACCTTGTCTGGGACAGAGGCATCGATATG
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTTATA
* * * *
19941248 TGATAACATATAAAACCATATCTGGGATA-TGGCAT
1 TGATTACATATAAGACCATGTCTGGGACATTGGCAT
19941283 TGTATTAGCT
Statistics
Matches: 98, Mismatches: 23, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 5 0.05
43 93 0.95
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTTATA
Found at i:19944186 original size:21 final size:21
Alignment explanation
Indices: 19944162--19944201 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19944152 ATATTGATAC
*
19944162 TTTCTTAAGGTATCGATATAT
1 TTTCCTAAGGTATCGATATAT
19944183 TTTCCTAAGGTATCGATAT
1 TTTCCTAAGGTATCGATAT
19944202 TCCTACTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (21 bp):
TTTCCTAAGGTATCGATATAT
Found at i:19950413 original size:21 final size:21
Alignment explanation
Indices: 19950388--19950430 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19950378 CGTTCCTGAT
*
19950388 TTTGGCACAACTTTAGGCATA
1 TTTGGCACAACTTTAAGCATA
* *
19950409 TTTGGCATAGCTTTAAGCATA
1 TTTGGCACAACTTTAAGCATA
19950430 T
1 T
19950431 ACACTGATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (21 bp):
TTTGGCACAACTTTAAGCATA
Found at i:19957859 original size:48 final size:48
Alignment explanation
Indices: 19957801--19957983 Score: 231
Period size: 48 Copynumber: 3.8 Consensus size: 48
19957791 AGGAGTCTTG
* * * *
19957801 CACCCTAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGTATCTCC
1 CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGTAACTCC
* *
19957849 CACCCGAAGTGCCAATATCATGGCCCAAAGTCAAATCAAAGTAACTCG
1 CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGTAACTCC
* * * *
19957897 TACCCGAAGTTCCAATATCATGGCCCAAAGCTAAATCAAAGTAACTCA
1 CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGTAACTCC
* * * **
19957945 CTCCAGAAGTGTCAATATCATGGCCTGAAGCCAAATCAA
1 CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAA
19957984 TGTATTCCCT
Statistics
Matches: 116, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.36, C:0.30, G:0.15, T:0.20
Consensus pattern (48 bp):
CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGTAACTCC
Found at i:19961515 original size:216 final size:215
Alignment explanation
Indices: 19961141--19961571 Score: 682
Period size: 216 Copynumber: 2.0 Consensus size: 215
19961131 AATTCAACCT
* * * * * *
19961141 CTCTGATCGGTGGTAACCCCGATAATTCTTCTAGAAAGACATCTGGAAACTTATAGACAACTAGC
1 CTCTGATCGGTGGTAACCCCGATAATTCTTCTAGAAACACATCCGAAAACTCACAAACAACTAGC
* * *
19961206 ACTAGTTCAATCTTAGATTTGACACTTTTGTATCTAAAAGATAAGCAAGATAAGCTTCACAACCT
66 ACTAATTCAATCTTAGATTAGACACTTTTGTATCTAAAACATAAGCAAGATAAGCTTCACAACCT
* ***
19961271 TTTCTCACATATCTCTGAGCTGACATCGATGAAATCACAACTGGCAATCAACTTGGCTCATCTGA
131 TTTCTCACATATCTCTGAGCTAACATCGATGAAATCACAACTGGCAATCAACTCAACTCATCTGA
19961336 TCCAATTCAAAGAATTTCAC
196 TCCAATTCAAAGAATTTCAC
*
19961356 CTCTGATCGGTGGTAACCCCGATAATTCTTCTAGAAACACATCCGAAAACTCACAAACAACTGGC
1 CTCTGATCGGTGGTAACCCCGATAATTCTTCTAGAAACACATCCGAAAACTCACAAACAACTAGC
* * *
19961421 ACTAATTCAATCTTAGATTCAGACCCTTTTTTATTTAAAACATAAGCAAGATAAGCTTCACAACC
66 ACTAATTCAATCTTAGATT-AGACACTTTTGTATCTAAAACATAAGCAAGATAAGCTTCACAACC
* *
19961486 TTTTCTCACATATCTCTGAGTTAACATCGATGAAATCACAACTGGCAATCCACTCAACTCATCTG
130 TTTTCTCACATATCTCTGAGCTAACATCGATGAAATCACAACTGGCAATCAACTCAACTCATCTG
19961551 ATCCAATTCAAAGAATTTCAC
195 ATCCAATTCAAAGAATTTCAC
19961572 TGTTCTGACA
Statistics
Matches: 196, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
215 76 0.39
216 120 0.61
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (215 bp):
CTCTGATCGGTGGTAACCCCGATAATTCTTCTAGAAACACATCCGAAAACTCACAAACAACTAGC
ACTAATTCAATCTTAGATTAGACACTTTTGTATCTAAAACATAAGCAAGATAAGCTTCACAACCT
TTTCTCACATATCTCTGAGCTAACATCGATGAAATCACAACTGGCAATCAACTCAACTCATCTGA
TCCAATTCAAAGAATTTCAC
Found at i:19969351 original size:55 final size:54
Alignment explanation
Indices: 19969266--19969372 Score: 151
Period size: 55 Copynumber: 2.0 Consensus size: 54
19969256 GGTCATGGTC
* * *
19969266 GAGCCTACCAAACAACACGGGCGTGAGACACACCCGTGTGGAAGAACCGTGGGT
1 GAGCCTACAAAACAACACGGGCATGAGACACACCCGTGTGGAACAACCGTGGGT
* * *
19969320 GAGCCTACTAAAACAACACGGGCATGTGACACGCCCGTGTGGAACACCCGTGG
1 GAGCCTAC-AAAACAACACGGGCATGAGACACACCCGTGTGGAACAACCGTGG
19969373 TCTAACCTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
54 8 0.17
55 38 0.83
ACGTcount: A:0.29, C:0.29, G:0.30, T:0.12
Consensus pattern (54 bp):
GAGCCTACAAAACAACACGGGCATGAGACACACCCGTGTGGAACAACCGTGGGT
Found at i:19972595 original size:43 final size:44
Alignment explanation
Indices: 19972437--19972607 Score: 179
Period size: 47 Copynumber: 3.8 Consensus size: 44
19972427 GGTTGAGCAT
* *
19972437 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
19972481 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAG-GCATC-
1 --CGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCG-AACG
19972530 CGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
19972573 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19972608 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 3 0.03
43 29 0.28
44 7 0.07
45 4 0.04
46 27 0.26
47 31 0.30
48 1 0.01
49 1 0.01
50 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (44 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:19975557 original size:15 final size:15
Alignment explanation
Indices: 19975518--19975595 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
19975508 GTATCTTGGG
*
19975518 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
19975533 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
19975548 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
*
19975561 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
19975576 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
19975590 TTTCTT
1 TTTCTT
19975596 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
12 2 0.04
13 7 0.13
14 12 0.23
15 30 0.57
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:19975584 original size:28 final size:28
Alignment explanation
Indices: 19975509--19975591 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
19975499 CATAGTATCG
* * * *
19975509 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GG-TTTCTC
19975539 TAT-TCTGGATTTCTTTATTCGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGTTTCTC
19975567 TATCTTGGATTTCTTTATTCGGTTT
1 TATCTTGGATTTCTTTATTCGGTTT
19975592 TCTTGTTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 27 0.57
29 4 0.09
30 16 0.34
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.57
Consensus pattern (28 bp):
TATCTTGGATTTCTTTATTCGGTTTCTC
Found at i:19978032 original size:46 final size:46
Alignment explanation
Indices: 19977982--19978154 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
19977972 TGGTTGAGCA
19977982 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAATG
* * * * * *
19978028 TCCGAACTCGTTTAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AA-AATG
* **
19978073 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAATG
* * *
19978121 CCCGAGCTAGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
19978155 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
44 2 0.02
45 4 0.04
46 57 0.56
47 27 0.26
48 4 0.04
50 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAATG
Found at i:19978138 original size:93 final size:93
Alignment explanation
Indices: 19977979--19978149 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
19977969 GGATGGTTGA
* * *
19977979 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAATGTCCGAACTCGTTTAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAATGCCCGAACTAGTTGAGT
*
19978044 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
19978072 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTAGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAATGCCCGAACTAGTTGAGT
19978137 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
19978150 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAATGCCCGAACTAGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19982826 original size:48 final size:48
Alignment explanation
Indices: 19982754--19982870 Score: 189
Period size: 48 Copynumber: 2.4 Consensus size: 48
19982744 CACGCGATCA
* **
19982754 CATGGCCTGAAGCCAAATCAAAGTAACTCTCACCTGAAGTGCCAATAT
1 CATGGCCTGAAGCCAAATCAAAGTAACTCGCACCCAAAGTGCCAATAT
* *
19982802 TATGGCTTGAAGCCAAATCAAAGTAACTCGCACCCAAAGTGCCAATAT
1 CATGGCCTGAAGCCAAATCAAAGTAACTCGCACCCAAAGTGCCAATAT
19982850 CATGGCCTGAAGCCAAATCAA
1 CATGGCCTGAAGCCAAATCAA
19982871 TGTATTCCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (48 bp):
CATGGCCTGAAGCCAAATCAAAGTAACTCGCACCCAAAGTGCCAATAT
Found at i:19985590 original size:27 final size:28
Alignment explanation
Indices: 19985560--19985626 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
19985550 CTTTTGTGGA
* *
19985560 GAACTCTGAAAGA-ATAACCTTTATGTC
1 GAACTCTGAAAAAGATAACCTTTATGGC
** *
19985587 GAACTCCAAAAAAGATAATCTTTATGGC
1 GAACTCTGAAAAAGATAACCTTTATGGC
*
19985615 AAACTCTGAAAA
1 GAACTCTGAAAA
19985627 GAGTGCTTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (28 bp):
GAACTCTGAAAAAGATAACCTTTATGGC
Found at i:19987214 original size:40 final size:40
Alignment explanation
Indices: 19987088--19987218 Score: 169
Period size: 41 Copynumber: 3.3 Consensus size: 40
19987078 GTCAATAAGG
*
19987088 CACTGGGTGCCAATTTACT--TTGG-TTTAACTGATGAGA
1 CACTGGGTGCCAATTTACTACTTGGATTTATCTGATGAGA
*
19987125 CACTGGGTGCCAATTTACTACTTCGGATTTATTTGATGAGA
1 CACTGGGTGCCAATTTACTACTT-GGATTTATCTGATGAGA
* * * * *
19987166 CATTGGGTGTCAATTTACTACTTGGAATTATCCGATGAGG
1 CACTGGGTGCCAATTTACTACTTGGATTTATCTGATGAGA
19987206 CACTGGGTGCCAA
1 CACTGGGTGCCAA
19987219 ACTGGTGTGT
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
37 19 0.24
39 2 0.03
40 26 0.32
41 33 0.41
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (40 bp):
CACTGGGTGCCAATTTACTACTTGGATTTATCTGATGAGA
Found at i:19989599 original size:12 final size:12
Alignment explanation
Indices: 19989584--19989612 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
19989574 AATAAGCTCA
19989584 TTTATTGACTCG
1 TTTATTGACTCG
19989596 TTTA-TGACTCG
1 TTTATTGACTCG
19989607 TTTATT
1 TTTATT
19989613 TTTTAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (12 bp):
TTTATTGACTCG
Found at i:19989615 original size:398 final size:399
Alignment explanation
Indices: 19988876--19989672 Score: 1524
Period size: 398 Copynumber: 2.0 Consensus size: 399
19988866 TGAATCTAAG
19988876 TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTACAC
1 TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTACAC
19988941 GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGTAAA
66 GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGTAAA
*
19989006 TGAACAAAACGTTCGATGAACTGTTCGTGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
131 TGAACAAAACGTTCGATGAACTGTTCATGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
*
19989071 AAGCTAAATAAACGAGTATGAACAATGTTTTTATGTTCGTTCAATAAACGAATGAACACGAATAG
196 AAGCTAAATAAACAAGTATGAACAATGTTTTTATGTTCGTTCAATAAACGAATGAACACGAATAG
19989136 TGATATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
261 TGATATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
19989201 ATGACTCGTGTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
326 ATGACTCGTGTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
19989266 ATC-TAAAA
391 ATCTTAAAA
*
19989274 TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTATAC
1 TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTACAC
19989339 GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGTAAA
66 GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGTAAA
19989404 TGAACAAAACGTTCGATGAACTGTTCATGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
131 TGAACAAAACGTTCGATGAACTGTTCATGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
* *
19989469 AAGCTAAATAAACAAGTATGAACAATTTTTTTATGTTCGTTTAATAAACGAATGAACACGAATAG
196 AAGCTAAATAAACAAGTATGAACAATGTTTTTATGTTCGTTCAATAAACGAATGAACACGAATAG
*
19989534 TGGTATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
261 TGATATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
*
19989599 ATGACTCGTTTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
326 ATGACTCGTGTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
19989664 ATCTTAAAA
391 ATCTTAAAA
19989673 CTCGTTTATT
Statistics
Matches: 391, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
398 386 0.99
399 5 0.01
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (399 bp):
TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTACAC
GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGTAAA
TGAACAAAACGTTCGATGAACTGTTCATGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
AAGCTAAATAAACAAGTATGAACAATGTTTTTATGTTCGTTCAATAAACGAATGAACACGAATAG
TGATATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
ATGACTCGTGTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
ATCTTAAAA
Found at i:19989893 original size:23 final size:22
Alignment explanation
Indices: 19989830--19989911 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 22
19989820 ACATTGTTCG
* *
19989830 TGAACATATTCAAATATATGTTCA
1 TGAACATGTTCAATTA-AT-TTCA
***
19989854 TGAACATGTTTGTTTAATATTCA
1 TGAACATGTTCAATTAAT-TTCA
**
19989877 TGAACATGTTCAATTAAGTTAAA
1 TGAACATGTTCAATTAA-TTTCA
19989900 TGAACATGTTCA
1 TGAACATGTTCA
19989912 TGAACATTAA
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
23 34 0.74
24 12 0.26
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (22 bp):
TGAACATGTTCAATTAATTTCA
Found at i:19989921 original size:23 final size:23
Alignment explanation
Indices: 19989876--19989922 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
19989866 TTTAATATTC
* *
19989876 ATGAACATGTTCAATTAAGTTAA
1 ATGAACATGTTCAATGAAATTAA
19989899 ATGAACATGTTC-ATGAACATTAA
1 ATGAACATGTTCAATGAA-ATTAA
19989922 A
1 A
19989923 CAAACGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (23 bp):
ATGAACATGTTCAATGAAATTAA
Found at i:19991894 original size:28 final size:27
Alignment explanation
Indices: 19991814--19991877 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
19991804 TAAAAAATTC
**
19991814 TATTTTTTAATAATTTTAC-ATTTTTAT
1 TATTTTTTAATAATTTT-CTAAATTTAT
19991841 TATTTTTTAATAATTTTCTAAAATTTAT
1 TATTTTTTAATAATTTTCT-AAATTTAT
19991869 TATTTTTTA
1 TATTTTTTA
19991878 TAGTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 1 0.03
27 17 0.52
28 15 0.45
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (27 bp):
TATTTTTTAATAATTTTCTAAATTTAT
Found at i:19992005 original size:89 final size:87
Alignment explanation
Indices: 19991912--19992124 Score: 259
Period size: 89 Copynumber: 2.4 Consensus size: 87
19991902 AAGTAGGGGC
* *
19991912 TTAATTGTTTTTTTAAAAAATTTTGAAAGTCTTTTTGATGCATTTTGAAAGCTCAAGTACCCAAT
1 TTAATTGTTTTTTTAAAAAAGTTTGAAAGTCTTTTT-ATGCATTTTGAAAGCTCAAGTACCCAAG
*
19991977 TGAGTG-AAAAAAAAAGGTAAGGGT
65 TGAGTGCAAAAAAAAA-AT-AGGGT
* * * * *
19992001 TTAATTGCTTTTTTTGAAGAAGTTTGAGAGTCTTTTTATGCATTTTGAAAGTTCAAGTACTCAAG
1 TTAATTG-TTTTTTTAAAAAAGTTTGAAAGTCTTTTTATGCATTTTGAAAGCTCAAGTACCCAAG
19992066 TGAGTGCAAAAAAAAAATAGGGT
65 TGAGTGCAAAAAAAAAATAGGGT
* * *
19992089 TTAATTACTTTTTTTTTAAAAAGTTTGATAG-CTTTT
1 TTAATT--GTTTTTTTAAAAAAGTTTGAAAGTCTTTT
19992125 AACATCCTTA
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
88 16 0.15
89 58 0.54
90 34 0.31
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (87 bp):
TTAATTGTTTTTTTAAAAAAGTTTGAAAGTCTTTTTATGCATTTTGAAAGCTCAAGTACCCAAGT
GAGTGCAAAAAAAAAATAGGGT
Found at i:19998273 original size:6 final size:6
Alignment explanation
Indices: 19998262--19998302 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
19998252 AGATTTCCAA
* *
19998262 AAATGG AAATGG AAATGG AAATGG AAATGA AAATAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
19998303 ATCCATTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:19998515 original size:25 final size:25
Alignment explanation
Indices: 19998450--19998520 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
19998440 ATATTTTCTT
* *
19998450 AAAATTTTACTAGGGGCAAAATGGTC
1 AAAATTTTACCAAGGG-AAAATGGTC
* *
19998476 AAAATTTTACCAAGGTAAAATTGTC
1 AAAATTTTACCAAGGGAAAATGGTC
* *
19998501 AAAATTTTGCTAAGGGAAAA
1 AAAATTTTACCAAGGGAAAA
19998521 ATGAGGATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 25 0.66
26 13 0.34
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (25 bp):
AAAATTTTACCAAGGGAAAATGGTC
Found at i:20001208 original size:127 final size:127
Alignment explanation
Indices: 20000982--20001229 Score: 415
Period size: 127 Copynumber: 2.0 Consensus size: 127
20000972 GTTGTGAAGT
* *
20000982 GTATTTTTTTGGGTTTTGCTACTGGGATAAAAGGCTATAAGTTATGGTGCCTAGAAACGAGTAAG
1 GTATTTTTCTGGGTTTTGCTACTGGGATAAAAGACTATAAGTTATGGTGCCTAGAAACGAGTAAG
* *
20001047 ATCATCGTTAATAGAGATGTTACGTTTGATGAAACATCGATGATTTTGTCAAAAAAAGGTTC
66 ATCATCGTTAATAGAGATGTTACGTTTGATGAAACATCGATGATTCTATCAAAAAAAGGTTC
* * *
20001109 GTATTTTTCTGGGTTTTGCTGCTGGGATAAAAGATTATAAGTTATGGTGCCTAGAAATGAGTAAG
1 GTATTTTTCTGGGTTTTGCTACTGGGATAAAAGACTATAAGTTATGGTGCCTAGAAACGAGTAAG
* *
20001174 ATCATCGTTAGTAGAGATTTTACGTTTGATGAAACATCGATGATTCTATCAAAAAA
66 ATCATCGTTAATAGAGATGTTACGTTTGATGAAACATCGATGATTCTATCAAAAAA
20001230 GGGGTTCACC
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 112 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (127 bp):
GTATTTTTCTGGGTTTTGCTACTGGGATAAAAGACTATAAGTTATGGTGCCTAGAAACGAGTAAG
ATCATCGTTAATAGAGATGTTACGTTTGATGAAACATCGATGATTCTATCAAAAAAAGGTTC
Found at i:20004341 original size:20 final size:20
Alignment explanation
Indices: 20004312--20004351 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20004302 ATTTAAAATT
*
20004312 TTTATTTACATATAAATATA
1 TTTATATACATATAAATATA
*
20004332 TTTATATACATATAATTATA
1 TTTATATACATATAAATATA
20004352 AAATATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTATATACATATAAATATA
Found at i:20015290 original size:205 final size:205
Alignment explanation
Indices: 20014956--20015345 Score: 708
Period size: 205 Copynumber: 1.9 Consensus size: 205
20014946 AATAAATGTG
*
20014956 TTATCCACAATTCAATCATATCCTATACAATATCACAATTTTCATTTACAAGTCGTATAATCAAT
1 TTATCCACAATTCAATCATATCCTATACAAGATCACAATTTTCATTTACAAGTCGTATAATCAAT
20015021 ACATATTCGTATTTACACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
66 ACATATTCGTATTTACACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
* *
20015086 TTCCATTTTAAAACCAATGTGTCAAATTTACTAATTCTACTAAAGTCTAATATATGTCATCACCA
131 ATCCATTTTAAAACCAATATGTCAAATTTACTAATTCTACTAAAGTCTAATATATGTCATCACCA
20015151 ATCTCTATAA
196 ATCTCTATAA
20015161 TTATCCACAATTCAATCATATCCTATACAAGATCACAATTTTCATTTACAAGTCGTATAATCAAT
1 TTATCCACAATTCAATCATATCCTATACAAGATCACAATTTTCATTTACAAGTCGTATAATCAAT
* *
20015226 ACATATTCGTATTTAGACCCTGTACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
66 ACATATTCGTATTTACACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
** *
20015291 ATCCATTTTAAAACTTATATGTCAAATTTACTAATTCTACTCAAGTCTAATATAT
131 ATCCATTTTAAAACCAATATGTCAAATTTACTAATTCTACTAAAGTCTAATATAT
20015346 AAATAAATTC
Statistics
Matches: 177, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
205 177 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (205 bp):
TTATCCACAATTCAATCATATCCTATACAAGATCACAATTTTCATTTACAAGTCGTATAATCAAT
ACATATTCGTATTTACACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
ATCCATTTTAAAACCAATATGTCAAATTTACTAATTCTACTAAAGTCTAATATATGTCATCACCA
ATCTCTATAA
Found at i:20016869 original size:23 final size:25
Alignment explanation
Indices: 20016833--20016880 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
20016823 ATTGATTATA
20016833 CTCTAATTGTTTT-CTCTTCTCATCT
1 CTCTAATTGTTTTCCT-TTCTCATCT
20016858 CTCT-ATTG-TTTCCTTTCTCATCT
1 CTCTAATTGTTTTCCTTTCTCATCT
20016881 ACCTTTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.55
24 6 0.27
25 4 0.18
ACGTcount: A:0.10, C:0.29, G:0.04, T:0.56
Consensus pattern (25 bp):
CTCTAATTGTTTTCCTTTCTCATCT
Found at i:20020818 original size:45 final size:45
Alignment explanation
Indices: 20020767--20020856 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
20020757 GTTCAAAAAA
* *
20020767 AATAACATCCACGTAAATCTCATCTGCTTCTCGCTGGACCACTTT
1 AATAACATCCACGTAAATCCCATCTGCTGCTCGCTGGACCACTTT
*
20020812 AATAACATCCACGTAAATCCCATCTGCTGCTCGTTGGACCACTTT
1 AATAACATCCACGTAAATCCCATCTGCTGCTCGCTGGACCACTTT
20020857 CTTTTTCTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.30
Consensus pattern (45 bp):
AATAACATCCACGTAAATCCCATCTGCTGCTCGCTGGACCACTTT
Found at i:20027383 original size:18 final size:18
Alignment explanation
Indices: 20027355--20027389 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20027345 GGTCTAAAGG
20027355 ACCACCGACCACCGAAACC
1 ACCACCGACCACC-AAACC
20027374 ACCA-CGACCACCAAAC
1 ACCACCGACCACCAAAC
20027390 AATATCTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.40, C:0.51, G:0.09, T:0.00
Consensus pattern (18 bp):
ACCACCGACCACCAAACC
Found at i:20034317 original size:10 final size:10
Alignment explanation
Indices: 20034304--20034335 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
20034294 ATTAATAAAA
20034304 ATATAATATT
1 ATATAATATT
20034314 ATAT-ATA-T
1 ATATAATATT
20034322 ATATAATATT
1 ATATAATATT
20034332 ATAT
1 ATAT
20034336 TTTTGTGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 5 0.25
9 6 0.30
10 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATAATATT
Found at i:20034540 original size:13 final size:13
Alignment explanation
Indices: 20034520--20034558 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
20034510 ATATTTCAAA
20034520 TTTG-GATTTTTT
1 TTTGAGATTTTTT
*
20034532 TTTGAGATTTTTG
1 TTTGAGATTTTTT
20034545 TTTGA-ATTTTTT
1 TTTGAGATTTTTT
20034557 TT
1 TT
20034559 AACAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.13, C:0.00, G:0.15, T:0.72
Consensus pattern (13 bp):
TTTGAGATTTTTT
Found at i:20036956 original size:16 final size:16
Alignment explanation
Indices: 20036913--20036957 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
20036903 AGCTTAAAAC
*
20036913 ATAATAAATTCAATAT
1 ATAATAAATTCAAGAT
* *
20036929 CTAACAAATTCAAGAT
1 ATAATAAATTCAAGAT
*
20036945 ATAATAATTTCAA
1 ATAATAAATTCAA
20036958 AATCCAACAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.33
Consensus pattern (16 bp):
ATAATAAATTCAAGAT
Found at i:20041194 original size:25 final size:26
Alignment explanation
Indices: 20041152--20041200 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
20041142 GGACTAGAAG
20041152 ATGAAGAAAGGAAGAAGGA-AAAGGA
1 ATGAAGAAAGGAAGAAGGAGAAAGGA
*
20041177 ATGAAGAACA-GAATAAGGAGAAAG
1 ATGAAGAA-AGGAAGAAGGAGAAAG
20041201 ACTTACCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.59, C:0.02, G:0.33, T:0.06
Consensus pattern (26 bp):
ATGAAGAAAGGAAGAAGGAGAAAGGA
Found at i:20043507 original size:18 final size:18
Alignment explanation
Indices: 20043467--20043521 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
20043457 ATATCATTTT
*
20043467 TAAAATAAAATAATACATA
1 TAAAAT-AAATAATATATA
20043486 -AAAATAAATAATATATA
1 TAAAATAAATAATATATA
*
20043503 T-AAA-AATTAATATATA
1 TAAAATAAATAATATATA
20043519 TAA
1 TAA
20043522 TATGAGTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 12 0.38
17 15 0.47
18 5 0.16
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATAAATAATATATA
Found at i:20043613 original size:16 final size:15
Alignment explanation
Indices: 20043592--20043621 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20043582 TATAACATAA
20043592 ATAACATATGATATAT
1 ATAACATAT-ATATAT
20043608 ATAACATATATATA
1 ATAACATATATATA
20043622 AAAATGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (15 bp):
ATAACATATATATAT
Found at i:20043614 original size:25 final size:26
Alignment explanation
Indices: 20043563--20043615 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
20043553 TTTAAAAATT
*
20043563 TAAATAATATAGTGAATACTATAACA
1 TAAATAACATAGTGAATACTATAACA
20043589 TAAATAACATA-TGATATA-TATAACA
1 TAAATAACATAGTGA-ATACTATAACA
20043614 TA
1 TA
20043616 TATATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.32
Consensus pattern (26 bp):
TAAATAACATAGTGAATACTATAACA
Found at i:20045670 original size:83 final size:83
Alignment explanation
Indices: 20045529--20045827 Score: 311
Period size: 83 Copynumber: 3.7 Consensus size: 83
20045519 AGCACGTGAA
* * * * * * *
20045529 AGCCAAATCAGCTACGT-CTCCGATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCTTAGGT
1 AGCCAAATCTGCTACGTCCT-CGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTAGGT
*
20045593 CTGTTTGAGAACA-CTTGAG
65 TTGTTTGAGAACATC-TGAG
*
20045612 AGCCAAATCTGCTACATCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTT-GAGT
1 AGCCAAATCTGCTACGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTAG-GT
20045676 TTGTTTGAGAACATCTGAG
65 TTGTTTGAGAACATCTGAG
* * *
20045695 AGTCC-AATCTGCTATGTCCTCGATTTG-----T-T---C-CAAGAATGCCAAATCATTTTAAGT
1 AG-CCAAATCTGCTACGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTAGGT
20045749 TTGTTTGAGAACATCTGAG
65 TTGTTTGAGAACATCTGAG
* * * * *
20045768 AGTCTAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAGATCATCTT
1 AGCCAAATCTGCTACGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTT
20045828 GGATCTGCTT
Statistics
Matches: 183, Mismatches: 17, Indels: 32
0.79 0.07 0.14
Matches are distributed among these distances:
72 1 0.01
73 64 0.35
74 1 0.01
77 1 0.01
78 2 0.01
79 1 0.01
82 2 0.01
83 106 0.58
84 5 0.03
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (83 bp):
AGCCAAATCTGCTACGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTAGGTT
TGTTTGAGAACATCTGAG
Found at i:20045733 original size:73 final size:73
Alignment explanation
Indices: 20045652--20045796 Score: 263
Period size: 73 Copynumber: 2.0 Consensus size: 73
20045642 CTTGTAAACA
*
20045652 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
1 CAAGAATGCCAAATCATCTTAAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
20045717 ATTTGTTC
66 ATTTGTTC
* *
20045725 CAAGAATGCCAAATCATTTTAAGTTTGTTTGAGAACATCTGAGAGTCTAATCTGCTATGTCCTCG
1 CAAGAATGCCAAATCATCTTAAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
20045790 ATTTGTT
66 ATTTGTT
20045797 TCTTGTAAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (73 bp):
CAAGAATGCCAAATCATCTTAAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
ATTTGTTC
Found at i:20046227 original size:119 final size:119
Alignment explanation
Indices: 20045754--20046198 Score: 818
Period size: 119 Copynumber: 3.7 Consensus size: 119
20045744 TAAGTTTGTT
* * *
20045754 TGAGAACATCTGAGAGTCTAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
* *
20045819 GATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
*
20045873 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
20045938 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
20045992 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
20046057 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* *
20046111 TGAGAATGTATGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
20046176 AATCATCTTGGATCTGCTTCAGT
66 AATCATCTTGGATCTGCTTCAGT
20046199 GTAATTGTCT
Statistics
Matches: 317, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 317 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (119 bp):
TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
Found at i:20047053 original size:6 final size:7
Alignment explanation
Indices: 20047036--20047069 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
20047026 GCCTCCCCAT
20047036 TTTTTTA
1 TTTTTTA
20047043 TTTTTTA
1 TTTTTTA
20047050 TTTTTTA
1 TTTTTTA
*
20047057 TTTTTTC
1 TTTTTTA
20047064 TTTTTT
1 TTTTTT
20047070 TCTCTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:20057928 original size:17 final size:16
Alignment explanation
Indices: 20057887--20057935 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
20057877 TTTTTAAAAT
* *
20057887 AAAATAATACATAAAA
1 AAAATAATATATATAA
20057903 ATAAATAATATATATAA
1 A-AAATAATATATATAA
*
20057920 AAAATTAATATGTATA
1 AAAA-TAATATATATA
20057936 TAATATGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 4 0.14
17 24 0.86
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (16 bp):
AAAATAATATATATAA
Found at i:20057935 original size:19 final size:20
Alignment explanation
Indices: 20057899--20057938 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
20057889 AATAATACAT
20057899 AAAAATAAATAATATATATA
1 AAAAATAAATAATATATATA
* *
20057919 AAAAATTAAT-ATGTATATA
1 AAAAATAAATAATATATATA
20057938 A
1 A
20057939 TATGAGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAATAAATAATATATATA
Found at i:20058031 original size:16 final size:15
Alignment explanation
Indices: 20058010--20058039 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20058000 ATAAACATAA
20058010 ATAACATATGATATAC
1 ATAACATAT-ATATAC
20058026 ATAACATATATATA
1 ATAACATATATATA
20058040 AAAATGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (15 bp):
ATAACATATATATAC
Found at i:20058213 original size:11 final size:13
Alignment explanation
Indices: 20058191--20058227 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
20058181 TAAGTGAAAA
20058191 TATAATAATAATG
1 TATAATAATAATG
20058204 -ATAA-AATAATG
1 TATAATAATAATG
20058215 TATAATAAATAAT
1 TATAAT-AATAAT
20058228 AATATTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 7 0.33
12 8 0.38
14 6 0.29
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (13 bp):
TATAATAATAATG
Found at i:20058243 original size:7 final size:7
Alignment explanation
Indices: 20058233--20058299 Score: 50
Period size: 7 Copynumber: 9.6 Consensus size: 7
20058223 ATAATAATAT
20058233 TATAAAA
1 TATAAAA
20058240 TATAAAA
1 TATAAAA
*
20058247 TGTAAAA
1 TATAAAA
*
20058254 CATAAAA
1 TATAAAA
20058261 -ATTAAAA
1 TA-TAAAA
20058268 T-TAAAGA
1 TATAAA-A
20058275 TA-AAAA
1 TATAAAA
*
20058281 AATAACAA
1 TATAA-AA
*
20058289 TATAATA
1 TATAAAA
20058296 TATA
1 TATA
20058300 TATATAAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
6 7 0.15
7 35 0.73
8 6 0.12
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (7 bp):
TATAAAA
Found at i:20058243 original size:25 final size:24
Alignment explanation
Indices: 20058187--20058244 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
20058177 AATATAAGTG
*
20058187 AAAATATAATAATAATGATAAAAT
1 AAAATATAATAATAATAATAAAAT
** **
20058211 AATGTATAATAAATAATAATATTAT
1 AAAATATAAT-AATAATAATAAAAT
20058236 AAAATATAA
1 AAAATATAA
20058245 AATGTAAAAC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (24 bp):
AAAATATAATAATAATAATAAAAT
Found at i:20062256 original size:19 final size:19
Alignment explanation
Indices: 20062234--20062270 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20062224 TATCCTTATG
20062234 TTTTTATATATATATATAT
1 TTTTTATATATATATATAT
* *
20062253 TTTTTATTTATTTATATA
1 TTTTTATATATATATATA
20062271 ACCTATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTATATATATATATAT
Found at i:20088231 original size:64 final size:65
Alignment explanation
Indices: 20088114--20088276 Score: 177
Period size: 65 Copynumber: 2.5 Consensus size: 65
20088104 CTACTATGAA
* *
20088114 TTTTAGAGTTTCAACTTTATCATTGAATCAAATCTTCATTTAATTCTTATATAAATTCCTATAAT
1 TTTTAGAGTTTCAACTTTATCATTGAATAAAATCTTCATTTAATTATTATATAAATTCCTATAAT
* * * ** *
20088179 TTTTAGTGTTTCAACTTTGTCATTAGAA-AAAATC-TCGTTTAATTATTATATAAATTTTTTATG
1 TTTTAGAGTTTCAACTTTATCATT-GAATAAAATCTTCATTTAATTATTATATAAA-TTCCTATA
20088242 AT
64 AT
* * *
20088244 TATCAGAGTTTTAACTTTATCATTTGAACTAAA
1 TTTTAGAGTTTCAACTTTATCA-TTGAA-TAAA
20088277 TGTTAGAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
64 18 0.22
65 54 0.68
66 5 0.06
67 3 0.04
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (65 bp):
TTTTAGAGTTTCAACTTTATCATTGAATAAAATCTTCATTTAATTATTATATAAATTCCTATAAT
Found at i:20089669 original size:19 final size:19
Alignment explanation
Indices: 20089629--20089672 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
20089619 AACCTAAAAT
*
20089629 AAATAA-TAAAATCATTTG
1 AAATAAGTAAAATCATTTA
**
20089647 AAATAAGTAAAATGGTTTA
1 AAATAAGTAAAATCATTTA
20089666 AAATAAG
1 AAATAAG
20089673 GTATATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (19 bp):
AAATAAGTAAAATCATTTA
Found at i:20091856 original size:89 final size:89
Alignment explanation
Indices: 20091556--20091869 Score: 269
Period size: 89 Copynumber: 3.5 Consensus size: 89
20091546 GGGACAAGGT
* * * * *
20091556 TTGTTGCTTCAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT-ATTCAATCTGCTC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCATT-GATCTGCTC
* *
20091620 CACTACAACTTTAGGGAGATAAG-G
65 CACTACAACTTCAGGGAGATAAGAC
* * * * * *
20091644 TTAGTGGGTTCGATCTGCTCCACTGCAACTTCAGGGTGATAAGATTCGTCATGGTCGATTTGATC
1 TT-GTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCG-C-T-ATC-A-TTGATC
** * * * *
20091709 TGAC-CTGCTGCAACTTCAGAGG-TATAGGAT
60 TG-CTCCACTACAACTTCAG-GGAGATAAGAC
* * *
20091739 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATCA-TGAGTCTGCTC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCATTGA-TCTGCTC
20091803 CACTACAACTTCAGGGAGATAAGAC
65 CACTACAACTTCAGGGAGATAAGAC
* * * *
20091828 TTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAG
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAG
20091870 GTCAGTGGCT
Statistics
Matches: 174, Mismatches: 39, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
88 8 0.05
89 93 0.53
90 2 0.01
91 3 0.02
92 2 0.01
93 1 0.01
94 58 0.33
95 7 0.04
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (89 bp):
TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCATTGATCTGCTCC
ACTACAACTTCAGGGAGATAAGAC
Found at i:20092032 original size:131 final size:131
Alignment explanation
Indices: 20091878--20092440 Score: 799
Period size: 131 Copynumber: 4.3 Consensus size: 131
20091868 AGGTCAGTGG
**
20091878 CTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACT
1 CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACT
* *
20091943 GCTTAAGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGGTTAGGGAGACAAGATTTGCCG
66 ACTTAAGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATTTGCCG
20092008 T
131 T
* *
20092009 CTTCGATCTGTTCCACTGTAACTTCAGGGAGACAAGATCTACAATCCTTAGCCTACTCCACTACT
1 CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACT
* * *
20092074 ACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGATAAGATTCGCCG
66 ACTTAAGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATTTGCCG
20092139 T
131 T
* * * *
20092140 CTTCAATCTGTTCCACTGCAACTTCAGAGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACT
1 CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACT
* ** *
20092205 ACTT-AGAGAGATAGGATGGTGGCTTAAATCTGCTCCACT-GTAAATTCAGAGAGACAAGATTTG
66 ACTTAAG-GAGATAGGATGGTGGCTTAAATCTGCTCCACTACT-GGTT-AGGGAGACAAGATTTG
* *
20092268 CTGC
128 CCGT
* * * *
20092272 CTTCGATCTGTTCCACTGTAAATTCAGGGAGACAAGATCTACAATATTTCA-CCTATTCCACTAC
1 CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTT-AGCCTACTCCACTAC
* * * * *
20092336 TGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGGTAGGGAGACAAGATCTGTC
65 TACTTAAGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATTTGCC
20092401 GT
130 GT
* *
20092403 CTTCGACCTGTTCCACTGCAACTTCAGAGAGACAAGAT
1 CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGAT
20092441 TTGTAAATTC
Statistics
Matches: 379, Mismatches: 47, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
130 2 0.01
131 268 0.71
132 106 0.28
133 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (131 bp):
CTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACT
ACTTAAGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATTTGCCG
T
Found at i:20092112 original size:42 final size:42
Alignment explanation
Indices: 20092064--20092243 Score: 119
Period size: 42 Copynumber: 4.2 Consensus size: 42
20092054 CCTTAGCCTA
* * *
20092064 CTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTG
1 CTCCACTACTACTTAGAGAGATAAGATGCTGGCTTAAATCTG
** * * * *
20092106 CTCCACTACTGGTTAGGGAGATAAGATTCGCCGTCTTCAATCTG
1 CTCCACTACTACTTAGAGAGATAAGA-T-GCTGGCTTAAATCTG
* * * * * * ** *
20092150 TTCCACTGCAACTTCAGAGAGACAAGAT-CTGCAATCTTCAGCCTA
1 CTCCACTACTACTT-AGAGAGATAAGATGCTG---GCTTAAATCTG
* *
20092195 CTCCACTACTACTTAGAGAGATAGGATGGTGGCTTAAATCTG
1 CTCCACTACTACTTAGAGAGATAAGATGCTGGCTTAAATCTG
20092237 CTCCACT
1 CTCCACT
20092244 GTAAATTCAG
Statistics
Matches: 102, Mismatches: 29, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
42 38 0.37
43 1 0.01
44 32 0.31
45 31 0.30
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (42 bp):
CTCCACTACTACTTAGAGAGATAAGATGCTGGCTTAAATCTG
Found at i:20092344 original size:263 final size:262
Alignment explanation
Indices: 20091889--20092440 Score: 842
Period size: 263 Copynumber: 2.1 Consensus size: 262
20091879 TTCGATCTAC
* * *
20091889 TCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACTGCTTAAGGAGA
1 TCCACTGCAACTTCAGAGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAAGGAGA
* ** * *
20091954 TAGGATGGTGGCTTAAATTTGCTCCACTACTGGTTAGGGAGACAAGATTTGCCGTCTTCGATCTG
66 TAGGATGGTGGCTTAAATCTGCTCCACTACTAATTAGAGAGACAAGATTTGCCGCCTTCGATCTG
* *
20092019 TTCCACTGTAACTTCAGGGAGACAAGATCTACAATCCTTAGCCTACTCCACTACTACTTAGGGAG
131 TTCCACTGTAAATTCAGGGAGACAAGATCTACAATACTTAGCCTACTCCACTACTACTTAGGGAG
* * *
20092084 ATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGATAAGAT-TCGCCGTCTTCAATC
196 ATAGGATGGTGGCTTAAATCTGCTCCACTACTGGGTAGGGAGACAAGATCT-GCCGTCTTCAACC
20092148 TGT
260 TGT
*
20092151 TCCACTGCAACTTCAGAGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTACTT-AGAGAG
1 TCCACTGCAACTTCAGAGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAAG-GAG
* *
20092215 ATAGGATGGTGGCTTAAATCTGCTCCACT-GTAAATTCAGAGAGACAAGATTTGCTGCCTTCGAT
65 ATAGGATGGTGGCTTAAATCTGCTCCACTACT-AATT-AGAGAGACAAGATTTGCCGCCTTCGAT
* * *
20092279 CTGTTCCACTGTAAATTCAGGGAGACAAGATCTACAATATTTCA-CCTATTCCACTACTGCTTAG
128 CTGTTCCACTGTAAATTCAGGGAGACAAGATCTACAATACTT-AGCCTACTCCACTACTACTTAG
* *
20092343 GGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGGTAGGGAGACAAGATCTGTCGTCTTCG
192 GGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGGTAGGGAGACAAGATCTGCCGTCTTCA
20092408 ACCTGT
257 ACCTGT
20092414 TCCACTGCAACTTCAGAGAGACAAGAT
1 TCCACTGCAACTTCAGAGAGACAAGAT
20092441 TTGTAAATTC
Statistics
Matches: 264, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
261 3 0.01
262 87 0.33
263 172 0.65
264 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (262 bp):
TCCACTGCAACTTCAGAGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAAGGAGA
TAGGATGGTGGCTTAAATCTGCTCCACTACTAATTAGAGAGACAAGATTTGCCGCCTTCGATCTG
TTCCACTGTAAATTCAGGGAGACAAGATCTACAATACTTAGCCTACTCCACTACTACTTAGGGAG
ATAGGATGGTGGCTTAAATCTGCTCCACTACTGGGTAGGGAGACAAGATCTGCCGTCTTCAACCT
GT
Done.