Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 179 of 203
Found at i:56906493 original size:45 final size:43
Alignment explanation
Indices: 56906432--56906679 Score: 149
Period size: 44 Copynumber: 5.7 Consensus size: 43
56906422 TCGGCTTTAA
*
56906432 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAG
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACTTG-CATACTT-AG
* * *
56906477 TCTGC-CTCATTGCAACTTCAAGAGGATAAGACTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGA-GATAAGACTTGCATACTTAG
* * * *
56906521 TCTGCTCCACTGCAACTTTAAGGAGATAAGACTAG-AT-GTGA-
1 TCTGCTCCACTGCAAC-TTCAGGAGATAAGACTTGCATACTTAG
* * * * *
56906562 TCTGCT-CTCTGCAACTTCAGAGAGATAAGA--TCCAAAGTTTTAA
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGCATA--CTTAG
* * *
56906605 TCCGCTCCACTGCAACTTCAGGGAGATAGGATCATTGGC-T--TTAA
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGA-C-TT-GCATACTTAG
56906649 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGA
56906680 TTCGCCATTG
Statistics
Matches: 160, Mismatches: 25, Indels: 37
0.72 0.11 0.17
Matches are distributed among these distances:
39 5 0.03
40 17 0.11
41 6 0.04
42 4 0.03
43 6 0.04
44 83 0.52
45 37 0.23
48 1 0.01
49 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGAGATAAGACTTGCATACTTAG
Found at i:56906609 original size:217 final size:218
Alignment explanation
Indices: 56906282--56906687 Score: 645
Period size: 217 Copynumber: 1.9 Consensus size: 218
56906272 AATTTTAGGG
* * *
56906282 GGATAAGACTTGCTTTCTTGAGTCCGCCTCACTGCAACTTCAGGGAGATAAGACTGGATGCGATC
1 GGATAAGACTTGCTTACTTGAGTCCGCCTCACTGCAACTTCAAGGAGATAAGACTAGATGCGATC
* **** *
56906347 TGCTCTCTGTAACTTCAGAGAGATAAAATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGA
66 TGCTCTCTGCAACTTCAGAGAGATAAAATCCAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGA
* *
56906412 GATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
131 GATAGGATCATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAG
56906477 TCTGCCTCATTGCAACTTCAAGA
196 TCTGCCTCATTGCAACTTCAAGA
* * *
56906500 GGATAAGACTTGCTTACTT-AGTCTG-CTCCACTGCAACTTTAAGGAGATAAGACTAGATGTGAT
1 GGATAAGACTTGCTTACTTGAGTCCGCCT-CACTGCAACTTCAAGGAGATAAGACTAGATGCGAT
*
56906563 CTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGCAACTTCAGGG
65 CTGCTCTCTGCAACTTCAGAGAGATAAAATCCAAAGTTTTAATCCGCTCCACTGCAACTTCAGGG
*
56906628 AGATAGGATCATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT
130 AGATAGGATCATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT
56906688 TGCAATGTTA
Statistics
Matches: 171, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
216 2 0.01
217 151 0.88
218 18 0.11
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (218 bp):
GGATAAGACTTGCTTACTTGAGTCCGCCTCACTGCAACTTCAAGGAGATAAGACTAGATGCGATC
TGCTCTCTGCAACTTCAGAGAGATAAAATCCAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATCATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAG
TCTGCCTCATTGCAACTTCAAGA
Found at i:56906622 original size:44 final size:44
Alignment explanation
Indices: 56906524--56906680 Score: 153
Period size: 44 Copynumber: 3.7 Consensus size: 44
56906514 TACTTAGTCT
* * * * * *
56906524 GCTCCACTGCAACTTTAAGGAGATAAGA-C-T-AGATGTGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCATAAGCTTTAATCC
* * *
56906565 GCT-CTCTGCAACTTCAGAGAGATAAGATCCA-AAGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-CATAAGCTTTAATCC
* ** *
56906608 GCTCCACTGCAACTTCAGGGAGATAGGATCATTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCATAAGCTTTAATCC
56906652 GCTCCACTGCAACTTCAGGGAGATAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT
56906681 TCGCCATTGC
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
40 20 0.21
41 3 0.03
42 1 0.01
43 12 0.13
44 58 0.62
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCATAAGCTTTAATCC
Found at i:56907127 original size:9 final size:9
Alignment explanation
Indices: 56907113--56907188 Score: 82
Period size: 9 Copynumber: 8.4 Consensus size: 9
56907103 TTAGTGATTC
56907113 AATTCGGTT
1 AATTCGGTT
56907122 AATTCGAG-T
1 AATTCG-GTT
*
56907131 AATTCGGGT
1 AATTCGGTT
* *
56907140 AATCCAGTT
1 AATTCGGTT
*
56907149 AGTTCGGTT
1 AATTCGGTT
*
56907158 AATTCGGGT
1 AATTCGGTT
*
56907167 AATTCGATT
1 AATTCGGTT
56907176 AATTCGGTT
1 AATTCGGTT
56907185 AATT
1 AATT
56907189 TTTAACCAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
8 1 0.02
9 52 0.96
10 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:56907181 original size:27 final size:27
Alignment explanation
Indices: 56907113--56907188 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
56907103 TTAGTGATTC
* **
56907113 AATTCGGTTAATTCGAGTAATTCGGGT
1 AATTCGATTAATTCGGTTAATTCGGGT
* *
56907140 AA-TCCAGTTAGTTCGGTTAATTCGGGT
1 AATTCGA-TTAATTCGGTTAATTCGGGT
56907167 AATTCGATTAATTCGGTTAATT
1 AATTCGATTAATTCGGTTAATT
56907189 TTTAACCAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.05
27 35 0.88
28 3 0.08
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.39
Consensus pattern (27 bp):
AATTCGATTAATTCGGTTAATTCGGGT
Found at i:56907531 original size:50 final size:50
Alignment explanation
Indices: 56907477--56907662 Score: 156
Period size: 50 Copynumber: 3.7 Consensus size: 50
56907467 CGCCAAAGAG
* * *
56907477 ATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTATAACGCCAGGGAA
1 ATAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTACAACGCCAGGGAA
* * ** ** * * * ***
56907527 ATAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTTGGGGAA
1 ATAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTACAACGCCAGGGAA
* * * * * * *
56907577 ATGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACATCACCAGGGGA
1 ATAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTACAACGCCAGGGAA
* *
56907627 GTAAGATTCACCGTCGTGGTTTCAATCTGCTCCACT
1 ATAAGATTCACCGTCGTGGCTTCAATCTGCTCCACT
56907663 GTAATGCCAA
Statistics
Matches: 98, Mismatches: 38, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
50 98 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (50 bp):
ATAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTACAACGCCAGGGAA
Found at i:56907975 original size:88 final size:89
Alignment explanation
Indices: 56907808--56908025 Score: 280
Period size: 88 Copynumber: 2.5 Consensus size: 89
56907798 AACTGATGTC
* * * * *
56907808 TTCGATCTGCTTCACTGCCAGTATAGGAAGGCCAGATCTGCTATTTTCAACCTACTCCACTGCTG
1 TTCGATCTGCTTCACTGCCGGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCAG
*
56907873 CTCAGAGAGACAAGGCTGGAGT-T
66 CCCAGAGAGACAAGGCTGGAGTCT
* * * *
56907896 TTCGATCTGCTTCACTGCCGGTACAGGAAGACAAGCTCTGCTATTTTTAACCTGCTCCGCTGCAG
1 TTCGATCTGCTTCACTGCCGGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCAG
* *
56907961 CCCATG-GAGGCAAGGCTGGTGTCT
66 CCCA-GAGAGACAAGGCTGGAGTCT
* *
56907985 TT-GATCTGCTTCACTGCCGGTACAGGAAGGCAAAATCTGCT
1 TTCGATCTGCTTCACTGCCGGTACAGGAAGACAAGATCTGCT
56908026 GTCTTCATTG
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
88 109 0.96
89 4 0.04
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (89 bp):
TTCGATCTGCTTCACTGCCGGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCAG
CCCAGAGAGACAAGGCTGGAGTCT
Found at i:56912921 original size:21 final size:22
Alignment explanation
Indices: 56912863--56912927 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 22
56912853 TATTTACATA
*
56912863 TACATATATATA-ATAAAT-CTG
1 TACATATATATATA-AAATAATG
56912884 TACATATATATATAAAATAAT-
1 TACATATATATATAAAATAATG
56912905 TACATATATATATAAAAATAATG
1 TACATATATATAT-AAAATAATG
56912928 ATTACACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 29 0.74
22 10 0.26
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (22 bp):
TACATATATATATAAAATAATG
Found at i:56912931 original size:25 final size:23
Alignment explanation
Indices: 56912842--56912952 Score: 84
Period size: 25 Copynumber: 4.6 Consensus size: 23
56912832 ATTTTAAAAA
* * *
56912842 ATATAACAATATATTTACATATAC
1 ATATAAAAATA-AATTACATATAT
*
56912866 ATATATATAATAAATCTGTACATATAT
1 ATATA-AAAATAAA--T-TACATATAT
56912893 ATAT-AAAAT-AATTACATATAT
1 ATATAAAAATAAATTACATATAT
56912914 ATATAAAAATAATGATTACACTATAT
1 ATATAAAAATAA--ATTACA-TATAT
*
56912940 -TAAAAAAATAAAT
1 ATATAAAAATAAAT
56912953 ATGCGTGTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
21 13 0.18
22 6 0.08
23 3 0.04
24 8 0.11
25 25 0.34
26 6 0.08
27 12 0.16
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAAAAATAAATTACATATAT
Found at i:56916640 original size:21 final size:21
Alignment explanation
Indices: 56916615--56916662 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
56916605 CTAACACCGA
56916615 CAACCAG-ATCCCCTACCAGAG
1 CAACCAGAATCCCC-ACCAGAG
* *
56916636 GAACCAGAATCCCCGCCAGAG
1 CAACCAGAATCCCCACCAGAG
56916657 CAACCA
1 CAACCA
56916663 CAACTCCCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.35, C:0.42, G:0.17, T:0.06
Consensus pattern (21 bp):
CAACCAGAATCCCCACCAGAG
Found at i:56916673 original size:21 final size:21
Alignment explanation
Indices: 56916630--56916670 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
56916620 AGATCCCCTA
* *
56916630 CCAGAGGAACCAGAATCCCCG
1 CCAGAGCAACCACAATCCCCG
56916651 CCAGAGCAACCACAACTCCC
1 CCAGAGCAACCACAA-TCCC
56916671 GCCGAAAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.44, G:0.17, T:0.05
Consensus pattern (21 bp):
CCAGAGCAACCACAATCCCCG
Found at i:56916857 original size:29 final size:31
Alignment explanation
Indices: 56916791--56916852 Score: 79
Period size: 34 Copynumber: 1.9 Consensus size: 31
56916781 TATTTTGAAA
*
56916791 TTATTTGATGTAATAAAATAGAAATTTATCTATT
1 TTATTTCATGTAATAAAATAGAAATTTATC---T
*
56916825 TTATTTCATGTACTAAAATAGAAATTTA
1 TTATTTCATGTAATAAAATAGAAATTTA
56916853 CTTATACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (31 bp):
TTATTTCATGTAATAAAATAGAAATTTATCT
Found at i:56920592 original size:126 final size:126
Alignment explanation
Indices: 56920050--56920581 Score: 895
Period size: 126 Copynumber: 4.2 Consensus size: 126
56920040 CAAAACATAC
*
56920050 GCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
*
56920115 GCTTAAAGCGTTTTTGACACTATTTGCTTAGAAACATCTACTCAAAATTATTTTTTCAAGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTACTCAAAATTATTTTTTCAAGA
* *
56920176 GCAATTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
*
56920241 GCTTAAAGCGTTTTTGACACTATTTGCTTAGAAACATCTACTCAAAATTATTTTTTCAAGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTACTCAAAATTATTTTTTCAAGA
* *
56920302 GCAATTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* * * * *
56920367 GTTTAAAGCGTTTTTGACACTATTTGCTCGGAAACGTCTACTCGAAATTATTTTTTCACGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTACTCAAAATTATTTTTTCAAGA
*
56920428 GCTACTGTAGTAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* *
56920493 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTC-AGTA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTACTCAAAATTATTTTTTCAAG-A
* *
56920554 GCTACTGTAACAAAAGTGCGTCCACGTG
1 GCTACTGTAGCAAAAGCGCGTCCACGTG
56920582 AAAACTTCTT
Statistics
Matches: 387, Mismatches: 18, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
125 1 0.00
126 386 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTACTCAAAATTATTTTTTCAAGA
Found at i:56920771 original size:96 final size:94
Alignment explanation
Indices: 56920621--56920922 Score: 306
Period size: 95 Copynumber: 3.2 Consensus size: 94
56920611 ATTAACCCTA
* * *
56920621 AACCCCAAAGCCTAATTTATTTGAGTTTTTAC-TTAAAAACCCTAAACACTAAACCCTAATCTAA
1 AACCCTAAACCCTAATTTATTTGA-TTTTT-CTTTAAAAACCCTAAACACGAAACCCTAATCTAA
*
56920685 TTTTATAAAAATTTATAATTAATTTACTCAAGT
64 -TTT-TAAAATTTTATAATTAATTTACTCAAGT
* * *
56920718 AACCCTGAACCCTAATTTATTTGATTTTTCTTTAAAAACCCTTAACTCGAAACCCTAATCTAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTCTTTAAAAACCCTAAACACGAAACCCTAATCTAATT
* * **
56920783 TGT-AATTTTTTTAATTAAACTACTCAAGT
66 T-TAAAATTTTATAATTAATTTACTCAAGT
* * ** *
56920812 AACCCTAAACCCTAATTTAATTAT-TTTTTTCTTAAAAAACAATAAACACGAAA-CCTAATCCAA
1 AACCCTAAACCCTAATTT-ATT-TGATTTTTCTTTAAAAACCCTAAACACGAAACCCTAAT-CTA
* * ** **
56920875 ATTTGAAAATTTTATAATTAATTTAATTGACA
63 ATTTTAAAATTTTATAATTAATTTACTCAAGT
56920907 AACCCTAAACCCTAAT
1 AACCCTAAACCCTAAT
56920923 CTCTTATTTA
Statistics
Matches: 170, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
94 44 0.26
95 70 0.41
96 35 0.21
97 21 0.12
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.36
Consensus pattern (94 bp):
AACCCTAAACCCTAATTTATTTGATTTTTCTTTAAAAACCCTAAACACGAAACCCTAATCTAATT
TTAAAATTTTATAATTAATTTACTCAAGT
Found at i:56920829 original size:94 final size:96
Alignment explanation
Indices: 56920621--56920895 Score: 292
Period size: 94 Copynumber: 2.9 Consensus size: 96
56920611 ATTAACCCTA
* * *
56920621 AACCCCAAAGCCTAATTTATTTGAGTTTTTAC-TTAAAAACCCTAAACACTAAACCCTAATCTAA
1 AACCCTAAACCCTAATTTATTTGA-TTTTT-CTTTAAAAACCCTAAACACGAAACCCTAATCTAA
**
56920685 TTTTATAAAAATTTATAATTAATTTACTCAAGT
64 TTTTATAAAAATTTATAATTAAACTACTCAAGT
* * *
56920718 AACCCTGAACCCTAATTTATTTGATTTTTCTTTAAAAACCCTTAACTCGAAACCCTAATCTAA-T
1 AACCCTAAACCCTAATTTATTTGATTTTTCTTTAAAAACCCTAAACACGAAACCCTAATCTAATT
* ** *
56920782 TTGT-AATTTTTTTAATTAAACTACTCAAGT
66 TTATAAAAATTTATAATTAAACTACTCAAGT
* * ** *
56920812 AACCCTAAACCCTAATTTAATTAT-TTTTTTCTTAAAAAACAATAAACACGAAA-CCTAATCCAA
1 AACCCTAAACCCTAATTT-ATT-TGATTTTTCTTTAAAAACCCTAAACACGAAACCCTAATCTAA
* * *
56920875 ATTT-GAAAATTTTATAATTAA
64 TTTTATAAAAATTTATAATTAA
56920896 TTTAATTGAC
Statistics
Matches: 150, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
94 47 0.31
95 47 0.31
96 35 0.23
97 21 0.14
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.37
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGATTTTTCTTTAAAAACCCTAAACACGAAACCCTAATCTAATT
TTATAAAAATTTATAATTAAACTACTCAAGT
Found at i:56927259 original size:20 final size:21
Alignment explanation
Indices: 56927227--56927265 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
56927217 GAAGCTAGTT
56927227 GGATAGACAAACA-ATGACTG
1 GGATAGACAAACATATGACTG
56927247 GGATAGATC-AACATATGAC
1 GGATAGA-CAAACATATGAC
56927266 ATGAAGAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (21 bp):
GGATAGACAAACATATGACTG
Found at i:56929603 original size:21 final size:23
Alignment explanation
Indices: 56929579--56929624 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
56929569 TAATGATAAA
*
56929579 TATTTTAAT-GTA-AAATATTAT
1 TATTTTAATAGTATAAACATTAT
56929600 TATTTTAATAGTATAAACATTAT
1 TATTTTAATAGTATAAACATTAT
56929623 TA
1 TA
56929625 AAAATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 3 0.14
23 10 0.45
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (23 bp):
TATTTTAATAGTATAAACATTAT
Found at i:56931560 original size:47 final size:47
Alignment explanation
Indices: 56931490--56931582 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
56931480 AGTATCAAAT
* * *
56931490 CCAATATACGTCCAATAGGAGTATGGTTATTTTCATAAGGTTTGCAC
1 CCAATATACATCCAATAGGAGTATGGTCATTTTCAGAAGGTTTGCAC
* * *
56931537 CCAATATATATCCAATAGTAGTATGGTCATTTTCAGAAGTTTTGCA
1 CCAATATACATCCAATAGGAGTATGGTCATTTTCAGAAGGTTTGCA
56931583 AATATGTAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (47 bp):
CCAATATACATCCAATAGGAGTATGGTCATTTTCAGAAGGTTTGCAC
Found at i:56935895 original size:54 final size:54
Alignment explanation
Indices: 56935817--56935932 Score: 225
Period size: 54 Copynumber: 2.2 Consensus size: 54
56935807 TTAATTCTAC
56935817 CTCAAA-TTCTTAAATCTCTCTCAAATTTCACTTAATTCCCTCTTAATTTTTCA
1 CTCAAATTTCTTAAATCTCTCTCAAATTTCACTTAATTCCCTCTTAATTTTTCA
56935870 CTCAAATTTCTTAAATCTCTCTCAAATTTCACTTAATTCCCTCTTAATTTTTCA
1 CTCAAATTTCTTAAATCTCTCTCAAATTTCACTTAATTCCCTCTTAATTTTTCA
56935924 CTCAAATTT
1 CTCAAATTT
56935933 TGATTCTCTC
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 6 0.10
54 56 0.90
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (54 bp):
CTCAAATTTCTTAAATCTCTCTCAAATTTCACTTAATTCCCTCTTAATTTTTCA
Found at i:56935913 original size:22 final size:20
Alignment explanation
Indices: 56935870--56935913 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
56935860 TAATTTTTCA
*
56935870 CTCAAATTTCTTAAATCTCT
1 CTCAAATTTCTTAAATCCCT
*
56935890 CTCAAATTTCACTTAATTCCCT
1 CTCAAATTT--CTTAAATCCCT
56935912 CT
1 CT
56935914 TAATTTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
22 11 0.55
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (20 bp):
CTCAAATTTCTTAAATCCCT
Found at i:56935943 original size:54 final size:54
Alignment explanation
Indices: 56935817--56935945 Score: 210
Period size: 54 Copynumber: 2.4 Consensus size: 54
56935807 TTAATTCTAC
*
56935817 CTCAAA-TTCTTAAATCTCTCTCAAATTTCACTTAATTCCCTCTTAATTTTTCA
1 CTCAAATTTCTGAAATCTCTCTCAAATTTCACTTAATTCCCTCTTAATTTTTCA
*
56935870 CTCAAATTTCTTAAATCTCTCTCAAATTTCACTTAATTCCCTCTTAATTTTTCA
1 CTCAAATTTCTGAAATCTCTCTCAAATTTCACTTAATTCCCTCTTAATTTTTCA
*
56935924 CTCAAATTT-TG-ATTCTCTCTCA
1 CTCAAATTTCTGAAATCTCTCTCA
56935946 GCTCTCTCTT
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
52 10 0.14
53 7 0.10
54 56 0.77
ACGTcount: A:0.27, C:0.26, G:0.01, T:0.46
Consensus pattern (54 bp):
CTCAAATTTCTGAAATCTCTCTCAAATTTCACTTAATTCCCTCTTAATTTTTCA
Found at i:56937374 original size:19 final size:19
Alignment explanation
Indices: 56937350--56937389 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
56937340 TTAATTGATA
56937350 ATGTAATTATTTTATATAT
1 ATGTAATTATTTTATATAT
* *
56937369 ATGTAATTTTTTTATCTAT
1 ATGTAATTATTTTATATAT
56937388 AT
1 AT
56937390 ATGCATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATGTAATTATTTTATATAT
Found at i:56949833 original size:44 final size:44
Alignment explanation
Indices: 56949798--56950258 Score: 230
Period size: 44 Copynumber: 10.5 Consensus size: 44
56949788 GGAGTAGGTT
* * *
56949798 GAAAATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCATATC
1 GAAAATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* ** * * * * *
56949842 G-AAGTCCCCAG-CCTTA--TCCCTGAGCA-CAGCGGAGCAGACAC
1 GAAAAT-GACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TC
*
56949883 GAAGAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAA-AATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
56949928 GAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAAATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
56949972 GAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
1 GAAAATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * ** * **
56950016 G---AGGCCAGTAATCCTATCTCCCTAAAGTTGCAGTGGAGTGGAT-
1 GAAAATGACAG--ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATC
* * * * ** ** * ** *
56950059 TAAAATAAAAAAATCTTATCTCTTTGAAGTTGCAGTAAAGTAGATC
1 GAAAAT-GACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATC
* * * * ** * *
56950105 G--CAT--TAGGTCTTATCTCCCTGAGCAACAGCGGAGCAGACC
1 GAAAATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
56950145 GAAGAATTACAGATTTTATCTCTCTAAGCAGTAGTGGAGCAGATC
1 GAA-AATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * *
56950190 GATGATTG-CAGATCTTATCTCCCTAAACAGTAGTGGAGCAAGATT
1 GA-AAATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGC-AGATC
* * *
56950235 GAAGATGGCAAATCTTATCTCCCT
1 GAAAATGACAGATCTTATCTCCCT
56950259 GAGGTTACAG
Statistics
Matches: 314, Mismatches: 79, Indels: 47
0.71 0.18 0.11
Matches are distributed among these distances:
40 21 0.07
41 27 0.09
42 4 0.01
43 27 0.09
44 132 0.42
45 91 0.29
46 11 0.04
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (44 bp):
GAAAATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:56949901 original size:86 final size:88
Alignment explanation
Indices: 56949801--56950014 Score: 267
Period size: 86 Copynumber: 2.5 Consensus size: 88
56949791 GTAGGTTGAA
* *
56949801 AATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCATATCGAAG-TCCCCAG-CCTTA-TCCCT
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-CCCAGACCTTACTCCCT
*
56949863 GAGCA-CAGCGGAGCAGACACGAAG
65 AAGCAGCAGCGGAGCAGA-ACGAAG
** *
56949887 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCT
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATCCCAGACCTTA-CTCCCT
* * *
56949952 AAGCAGTAGTGGAGCAGATCGAAG
65 AAGCAGCAGCGGAGCAGAACGAAG
**
56949976 -ATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
56950015 TGAGGCCAGT
Statistics
Matches: 112, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
86 46 0.41
87 5 0.04
88 37 0.33
89 14 0.12
90 10 0.09
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (88 bp):
AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATCCCAGACCTTACTCCCTA
AGCAGCAGCGGAGCAGAACGAAG
Found at i:56950342 original size:44 final size:44
Alignment explanation
Indices: 56950245--56950342 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
56950235 GAAGATGGCA
* * * *
56950245 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCACTGAGGTTACAGCGGAGCAGATTAAAACCAAG
* * * *
56950289 AATCCTATCTCATTGAGGTTACAGCGGAGCGGATTAAAACCACG
1 AATCTTATCTCACTGAGGTTACAGCGGAGCAGATTAAAACCAAG
*
56950333 GATCTTATCT
1 AATCTTATCT
56950343 TTCTGAAGTT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCACTGAGGTTACAGCGGAGCAGATTAAAACCAAG
Found at i:56950368 original size:262 final size:261
Alignment explanation
Indices: 56949858--56950370 Score: 703
Period size: 262 Copynumber: 2.0 Consensus size: 261
56949848 CCCAGCCTTA
56949858 TCCCTGAGCACAGCGGAGCAGACACGAAGAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
1 TCCCTGAGCACAGCGGAGCAGACACGAAGAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
* *
56949923 AGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATCTT
66 AGATCGAAGATGGCAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAAATCTT
* * * * * *
56949988 ATCTCCCTAAGCAGTAGTGGAGCAGATTGAGGCCAGTAATCCTATCTCCCTAAAGTTGCAGTGGA
131 ATCTCCCTAAG-AGTAGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTAAAGTTACAGCGGA
* *
56950053 GTGGATTAAAATAAAAAAATCTTATCTCTTTGAAGTTGCAGTAAAGTAGATCGCATTAGGTCTTA
195 GCGGATTAAAATAAAAAAATCTTATCTCTTTGAAGTTGCAGTAAAGCAGATCGCATTAGGTCTTA
56950118 TC
260 TC
* *
56950120 TCCCTGAGCAACAGCGGAGCAGAC-CGAAGAATTACAGATTTTATCTCTCTAAGCAGTAGTGGAG
1 TCCCTGAGC-ACAGCGGAGCAGACACGAAGAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
* * *
56950184 CAGATCGATGATTGCAGATCTTATCTCCCTAAACAGTAGTGGAGCAAGATTGAAGATGGCAAATC
65 CAGATCGAAGATGGCAGATCTTATCTCCCTAAACAGTAGTGGAGC-AGATCGAAGATGGCAAATC
* * * *
56950249 TTATCTCCCTGAG-GTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCATTGAGGTTACAG
129 TTATCTCCCTAAGAG-T--AGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTAAAGTTACAG
** *** *
56950313 CGGAGCGGATTAAAA-CCACGGATCTTATCT-TTCTGAAGTTGCAG-AGAGCAGATCGCAT
191 CGGAGCGGATTAAAATAAAAAAATCTTATCTCTT-TGAAGTTGCAGTAAAGCAGATCGCAT
56950371 CTAACCTTAT
Statistics
Matches: 220, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
261 1 0.00
262 104 0.47
263 64 0.29
264 51 0.23
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (261 bp):
TCCCTGAGCACAGCGGAGCAGACACGAAGAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
AGATCGAAGATGGCAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAAATCTT
ATCTCCCTAAGAGTAGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTAAAGTTACAGCGGAG
CGGATTAAAATAAAAAAATCTTATCTCTTTGAAGTTGCAGTAAAGCAGATCGCATTAGGTCTTAT
C
Found at i:56952084 original size:21 final size:22
Alignment explanation
Indices: 56952060--56952103 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
56952050 TTAATTGATA
56952060 ATGTAA-TTATTATCTATATAT
1 ATGTAATTTATTATCTATATAT
*
56952081 ATGTAATTTTTTTATCTATATAT
1 ATGTAA-TTTATTATCTATATAT
56952104 GCATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATGTAATTTATTATCTATATAT
Found at i:56952137 original size:15 final size:15
Alignment explanation
Indices: 56952117--56952167 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
56952107 TATATATTTC
56952117 TATTTTTTTAATGAA
1 TATTTTTTTAATGAA
* *
56952132 TATTTTTCT-AT-ATT
1 TATTTTTTTAATGA-A
*
56952146 TATTTTTTAAATGAA
1 TATTTTTTTAATGAA
56952161 TATTTTT
1 TATTTTT
56952168 ATATTTATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 1 0.04
14 9 0.32
15 17 0.61
16 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (15 bp):
TATTTTTTTAATGAA
Found at i:56952150 original size:29 final size:27
Alignment explanation
Indices: 56952117--56952175 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 27
56952107 TATATATTTC
*
56952117 TATTTTTTTAATGAATATTTTTCTATATT
1 TATTTTTTAAATGAATA-TTTT-TATATT
56952146 TATTTTTTAAATGAATATTTTTATATT
1 TATTTTTTAAATGAATATTTTTATATT
56952173 TAT
1 TAT
56952176 ACGTATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 9 0.31
28 4 0.14
29 16 0.55
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (27 bp):
TATTTTTTAAATGAATATTTTTATATT
Found at i:56952565 original size:15 final size:15
Alignment explanation
Indices: 56952545--56952579 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
56952535 TTTCTATGCC
56952545 ATTGTTATATTTATT
1 ATTGTTATATTTATT
*
56952560 ATTGTTGTATTTATT
1 ATTGTTATATTTATT
56952575 ATTGT
1 ATTGT
56952580 GGCATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
ATTGTTATATTTATT
Found at i:56956568 original size:13 final size:13
Alignment explanation
Indices: 56956550--56956586 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
56956540 CAACGCATAT
*
56956550 AGATTATCAGATA
1 AGATTAACAGATA
56956563 AGATTAACAGATA
1 AGATTAACAGATA
56956576 AGATTAACAGA
1 AGATTAACAGA
56956587 GATTTTCGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.24
Consensus pattern (13 bp):
AGATTAACAGATA
Found at i:56959357 original size:50 final size:52
Alignment explanation
Indices: 56959255--56959452 Score: 197
Period size: 50 Copynumber: 3.8 Consensus size: 52
56959245 TTTCTTGTAC
* * * * * ** *
56959255 TGCCAATGCCATATCCCAGATATGATCTTACATGAGAGTTCT-AATAT-AGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAATCTCAGG
* *
56959305 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTC-ATCTC-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAATCTCAGG
* * *
56959355 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC--AATCTC-A-GG
* *
56959411 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
56959453 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
50 77 0.63
53 5 0.04
56 41 0.33
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (52 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAATCTCAGG
Found at i:56959372 original size:100 final size:105
Alignment explanation
Indices: 56959255--56959441 Score: 249
Period size: 100 Copynumber: 1.8 Consensus size: 105
56959245 TTTCTTGTAC
* * * * *
56959255 TGCCAATGCCATATCCCAGATATGATCTTACATGAGA-GT-TC-TAATAT-A-GGTGCCCATGCC
1 TGCCAACGCCATATCCCAGACATGATCTTACATGAGACCTCTCATAATATAATGATGCCAATGCC
56959315 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
66 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
* * * *
56959355 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGC
1 TGCCAACGCCATATCCCAGACATGATCTTACATGAGACCTCTCATAATAT-AATGATGCCAATGC
56959420 CATGTCCCAGACATGGTCTTAC
65 CATGTCCCAGACATGGTCTTAC
56959442 ATGGGATCTC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 32 0.44
101 1 0.01
102 2 0.03
103 5 0.07
105 1 0.01
106 31 0.43
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (105 bp):
TGCCAACGCCATATCCCAGACATGATCTTACATGAGACCTCTCATAATATAATGATGCCAATGCC
ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
Found at i:56962625 original size:43 final size:43
Alignment explanation
Indices: 56962576--56962672 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
56962566 TCCCAGATAT
* *
56962576 GGTCTTACATGTTATCACA-ACTCGATGCCACTGTCTCAAACAG
1 GGTCTTACATGTAATCACATA-TCGATGCCAATGTCTCAAACAG
** * * *
56962619 GGTCTTACACATAATCTCATATCGATGCCAATGTCTCAGACAT
1 GGTCTTACATGTAATCACATATCGATGCCAATGTCTCAAACAG
*
56962662 GGTGTTACATG
1 GGTCTTACATG
56962673 AAATTATACC
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
43 42 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCAATGTCTCAAACAG
Found at i:56965247 original size:123 final size:122
Alignment explanation
Indices: 56964893--56965263 Score: 440
Period size: 123 Copynumber: 3.0 Consensus size: 122
56964883 GCTAAAGAGT
* ** * * *
56964893 GAGCATTAGCAGCGTTTCCTTAAAAACGCCGCAAAAAATAAGTATTAGTGGCGCTTTTAGCAAAA
1 GAGCATTAGCAGCG-TTCCTTAAAATCGCCGCAAAAAATAACCATTAGTGGCGTTTTTTGAAAAA
* * * *
56964958 ACGCCGCAAAATTATAAAACCCAATGGCGTCGTTTGGTGGCCTTTCGGAGGATTTAGTG
65 ACGCCGC-AAATAATAAAAGCCAATGGCGTCGTTTGGTGACCTTTCGGGGGATTTAGTG
* * * **
56965017 GAGCATCAGCGGCGTTACAC-TAAAATCGCCGCAAAAAA-AATCATTAGTGGCGTTTTTTGGGAA
1 GAGCATTAGCAGCGTT-C-CTTAAAATCGCCGCAAAAAATAACCATTAGTGGCGTTTTTTGAAAA
* * * *
56965080 AATGCCGCAAATATTAAAAGCCAATGACGTCGTTTGGTGCCCTTTCGGGGGATTTAGTG
64 AACGCCGCAAATAATAAAAGCCAATGGCGTCGTTTGGTGACCTTTCGGGGGATTTAGTG
* * *
56965139 GAGCATTAGCAGCGTTCCTTTAAAATCACTGCAAAAAATAACCATTAGTAGCGTTTTTTGAAAAA
1 GAGCATTAGCAGCGTTCC-TTAAAATCGCCGCAAAAAATAACCATTAGTGGCGTTTTTTGAAAAA
* * * *
56965204 ACGCTGCAAATAATAAAAGCCAACGGCGTCGTTTAGTGACCTTTCAGGGGGAATTAGTG
65 ACGCCGCAAATAATAAAAGCCAATGGCGTCGTTTGGTGACCTTTC-GGGGGATTTAGTG
56965263 G
1 G
56965264 CATTTTTATT
Statistics
Matches: 209, Mismatches: 32, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
120 1 0.00
121 1 0.00
122 75 0.36
123 88 0.42
124 43 0.21
125 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (122 bp):
GAGCATTAGCAGCGTTCCTTAAAATCGCCGCAAAAAATAACCATTAGTGGCGTTTTTTGAAAAAA
CGCCGCAAATAATAAAAGCCAATGGCGTCGTTTGGTGACCTTTCGGGGGATTTAGTG
Found at i:56966587 original size:36 final size:37
Alignment explanation
Indices: 56966547--56966618 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 37
56966537 TATGGATTTA
* *
56966547 GGGTTTGGGATATAAGGGTTAGAGGTT-AGGGGTTAC
1 GGGTTTAGGATATAAAGGTTAGAGGTTAAGGGGTTAC
*
56966583 GGGTTTAGGATTTAAAGGTTAGAGGTTAAGGGGTTA
1 GGGTTTAGGATATAAAGGTTAGAGGTTAAGGGGTTA
56966619 ATGATTTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 24 0.75
37 8 0.25
ACGTcount: A:0.25, C:0.01, G:0.42, T:0.32
Consensus pattern (37 bp):
GGGTTTAGGATATAAAGGTTAGAGGTTAAGGGGTTAC
Found at i:56967493 original size:270 final size:270
Alignment explanation
Indices: 56967063--56967642 Score: 804
Period size: 270 Copynumber: 2.1 Consensus size: 270
56967053 TAAACGACGT
* * * * * *
56967063 CGTTTCTCTCCACGATTTTTAACTTATAAAAAGTTCAGAATTATTTACTTAAAATATCACCGTTT
1 CGTTTCTATACACGATTTTTAACTTAGAAAAATTTTAGAATTATTTACTTAAAACATCACCGTTT
** *
56967128 GGCTTAAAGTACGTTAAGTATTAGTGGCGTTTTAACATAAAACGCCAGAAACAATGCAATTTGAG
66 GGCTTAAAGTAAATTAAGTATTAGTGGCGTTTTAACATAAAACGCCAGAAACAATGCAATTTAAG
* * **
56967193 AGTAGCAAAACGGCGTCGTTTCTGTTTACAACTTTAAATATTT-GTGGCGTTTTT-GGCAAAACA
131 ACTAACAAAACGGCGTCGTTTCCCTTTACAACTTT-AATATTTAGTGGCGTTTTTAGG-AAAACA
* *
56967256 CAAGAACTTTGGAAGCAATAGCGGCGTTTGTACAGTAAACGCCGCAAAAGGGTATTAAAATAATG
194 CAAGAAATATGGAAGCAATAGCGGCGTTTGTACAGTAAACGCCGCAAAAGGGTATTAAAATAATG
*
56967321 TCTAAACGGCAC
259 GCTAAACGGCAC
*
56967333 CGTTTCTATACACGATTTTTAACTTAGAAAAATTTTAGAATTATTTATTTAAAACATCACCGTTT
1 CGTTTCTATACACGATTTTTAACTTAGAAAAATTTTAGAATTATTTACTTAAAACATCACCGTTT
* * *
56967398 GGGTTAAAGTAAATTAAGTATTAGTGGCGTTTTTACATAAAACGCCAGAAATAATGCAATTTAAG
66 GGCTTAAAGTAAATTAAGTATTAGTGGCGTTTTAACATAAAACGCCAGAAACAATGCAATTTAAG
* *
56967463 ACTAACAAAACGGCGTCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCC
131 ACTAACAAAACGGCGTCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACACA
* * * * * * *
56967528 GGAAATATGGAAGCAATAGCGGTGTTTTTACAGTAAATGCCGCAAAAGGGTATTAGAGTAATGGG
196 AGAAATATGGAAGCAATAGCGGCGTTTGTACAGTAAACGCCGCAAAAGGGTATTAAAATAATGGC
**
56967593 TAAACGGTGC
261 TAAACGGCAC
* * ** *
56967603 CATTTCTGTGTACGATTTTTAACTTAGGAAAATTTTAGAA
1 CGTTTCTATACACGATTTTTAACTTAGAAAAATTTTAGAA
56967643 ATCAAGTATT
Statistics
Matches: 272, Mismatches: 36, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
269 7 0.03
270 263 0.97
271 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (270 bp):
CGTTTCTATACACGATTTTTAACTTAGAAAAATTTTAGAATTATTTACTTAAAACATCACCGTTT
GGCTTAAAGTAAATTAAGTATTAGTGGCGTTTTAACATAAAACGCCAGAAACAATGCAATTTAAG
ACTAACAAAACGGCGTCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACACA
AGAAATATGGAAGCAATAGCGGCGTTTGTACAGTAAACGCCGCAAAAGGGTATTAAAATAATGGC
TAAACGGCAC
Found at i:56967823 original size:233 final size:233
Alignment explanation
Indices: 56967408--56967875 Score: 679
Period size: 233 Copynumber: 2.0 Consensus size: 233
56967398 GGGTTAAAGT
* * *
56967408 AAATTAAGTATTAGTGGCGTTTTTACATAAAACGCCAGAAATAATGCAATTTAAGACTAACAAAA
1 AAATCAAGTATTAGTGGCGTTTTTACATAAAACGCCAAAAAAAATGCAATTTAAGACTAACAAAA
* *
56967473 CGGCGTCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGGAAATATGG
66 CGGCGCCGTTTCCCTTTAAAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGGAAATATGG
* * * * * ***
56967538 AAGCAATAGCGGTGTTTTTACAGTAAATGCCGCAAAAGGGTATTAGAGTAATGGGTAAACGGTGC
131 AAGCAATAGCGGCGTTTGTACAGAAAATGCCGCAAAAGGGTATTAAAGTAATGGCTAAACAACGC
** *
56967603 CA-TTTCTGTGTACGATTTTTAACTTAGGAAAATTTTAG
196 CATTTTC-GTAAACGATTTTTAACTTAGAAAAATTTTAG
* * *
56967641 AAATCAAGTATTAGTGGCGTTTTTACGTAAAATGCCAAAAAAAATGCAATTTGAGACTAACAAAA
1 AAATCAAGTATTAGTGGCGTTTTTACATAAAACGCCAAAAAAAATGCAATTTAAGACTAACAAAA
* * *
56967706 CGGCGCCG-TTCCTCTTTAAAACTTTAATATTTAGTGGTGTTTTTAGGAAAACGCCGTAAATGTG
66 CGGCGCCGTTTCC-CTTTAAAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGGAAATATG
* *
56967770 TAAGCAATAGCGGCGTTTGTACCGAAAATGCCGCAAAAGGGTATTAAAGTAATGGCTAAACAACG
130 GAAGCAATAGCGGCGTTTGTACAGAAAATGCCGCAAAAGGGTATTAAAGTAATGGCTAAACAACG
*
56967835 CCGTTTTCGTAAACGATTTTTAACTTAGAAAAATTTTAG
195 CCATTTTCGTAAACGATTTTTAACTTAGAAAAATTTTAG
56967874 AA
1 AA
56967876 TTATTTATTT
Statistics
Matches: 208, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
232 4 0.02
233 200 0.96
234 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (233 bp):
AAATCAAGTATTAGTGGCGTTTTTACATAAAACGCCAAAAAAAATGCAATTTAAGACTAACAAAA
CGGCGCCGTTTCCCTTTAAAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGGAAATATGG
AAGCAATAGCGGCGTTTGTACAGAAAATGCCGCAAAAGGGTATTAAAGTAATGGCTAAACAACGC
CATTTTCGTAAACGATTTTTAACTTAGAAAAATTTTAG
Found at i:56968127 original size:503 final size:502
Alignment explanation
Indices: 56967143--56968131 Score: 1213
Period size: 503 Copynumber: 2.0 Consensus size: 502
56967133 AAAGTACGTT
* * * *
56967143 AAGTATTAGTGGCGTTTTAACATAAAACGCCAGAAACAATGCAATTTGAGAGTAGCAAAACGGCG
1 AAGTATTAGTGGCGTTTTAACATAAAACGCCAAAAAAAATGCAATTTGAGACTAACAAAACGGCG
* * * * * *
56967208 TCGTTTCTGTTTACAACTTTAAATATTTGTGGCGTTTTTGGCAAAACACAAGAACTTTGGAAGCA
66 CCGTTCCTCTTTAAAACTTTAAATATTTGTGGCGTTTTTGGCAAAACACAAGAAATGTGGAAGCA
* * **
56967273 ATAGCGGCGTTTGTACAGTAAACGCCGCAAAAGGGTATTAAAATAATGTCTAAACGGCACCGTTT
131 ATAGCGGCGTTTGTACAGAAAACGCCGCAAAAGGGTATTAAAATAATGGCTAAACAACACCGTTT
* * *
56967338 CTATACACGATTTTTAACTTAGAAAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGGGTT
196 CTATACACGATTTTTAACTTAGAAAAATTTTAGAATTATTTATTTAAAACATCACCATCTGGGCT
* *
56967403 AAAGTAAATTAAGTATTAGTGGCGTTTTTACATAAAACGCCAGAAATAATGCAATTTAAGACTAA
261 AAAGTAAATTAAGTATTAGTGGCGTTTTTACATAAAACGCCACAAAAAATGCAATTTAAGACTAA
* * *
56967468 CAAAACGGCGTCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGGAAA
326 CAAAACGGCGTCGTTTCCCTTTACAACTTTAATATTTAGTGGCATTTTTAGGAAAACACCAGAAA
* * *
56967533 TATGGAAGCAATAGCGGTGTTTTTACAGTAAATGCCGCAAAAGGGTATTAGAGTAATGGGTAAAC
391 TATGGAAGCAATAGCGGCGTTTTTACAG-AAATGCCGCAAAAGGGTATTAGAATAATGGCTAAAC
*** ** *
56967598 GGTGCCATTTCTGTGTACGATTTTTAACTTAGGAAAATTTTAGAAATC
455 AACGCCATTTCTCCGGACGATTTTTAACTTAGGAAAATTTTAGAAATC
* * *
56967646 AAGTATTAGTGGCGTTTTTACGTAAAATGCCAAAAAAAATGCAATTTGAGACTAACAAAACGGCG
1 AAGTATTAGTGGCGTTTTAACATAAAACGCCAAAAAAAATGCAATTTGAGACTAACAAAACGGCG
* * * *
56967711 CCGTTCCTCTTTAAAACTTT-AATATTTAGTGGTGTTTTTAGG-AAAACGC-CGTAAATGTGTAA
66 CCGTTCCTCTTTAAAACTTTAAATATTT-GTGGCGTTTTT-GGCAAAACACAAG-AAATGTGGAA
* * * *
56967773 GCAATAGCGGCGTTTGTACCGAAAATGCCGCAAAAGGGTATTAAAGTAATGGCTAAACAACGCCG
128 GCAATAGCGGCGTTTGTACAGAAAACGCCGCAAAAGGGTATTAAAATAATGGCTAAACAACACCG
*
56967838 TTTTCGTA-A-ACGATTTTTAACTTAGAAAAATTTTAGAATTATTTATTTAAAACGTCACCATCT
193 -TTTC-TATACACGATTTTTAACTTAGAAAAATTTTAGAATTATTTATTTAAAACATCACCATCT
* * * *
56967901 -GGCTAAATTAAATTAAGTGTTAGTGGCGTTTTTACATTAAACGCCACAAAAAATGCAATTTCAG
256 GGGCTAAAGTAAATTAAGTATTAGTGGCGTTTTTACATAAAACGCCACAAAAAATGCAATTTAAG
* ** * * * **
56967965 ACTAACAGAACGGCGTCGTTTCTGTTTACAAGTTTAATCTTTTGTGGCATTTTGTCTGAAAACAC
321 ACTAACAAAACGGCGTCGTTTCCCTTTACAACTTTAATATTTAGTGGCATTTT-TAGGAAAACAC
* * * * * * **
56968030 CAGAAATGTGGAA-TAAGTAGTGGCGTTTGTT-C-GAGAATCGCCGCAAATGTGTATTATAATTT
385 CAGAAATATGGAAGCAA-TAGCGGCGTTT-TTACAGA-AAT-GCCGCAAAAGGGTATTAGAATAA
* * * *
56968092 TTGCTGAACAACGCCGTTTCTCCGGACGTTTTTTAACTTA
446 TGGCTAAACAACGCCATTTCTCCGGACGATTTTTAACTTA
56968132 TCATTTACTC
Statistics
Matches: 409, Mismatches: 67, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
501 1 0.00
502 117 0.29
503 280 0.68
504 9 0.02
505 2 0.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (502 bp):
AAGTATTAGTGGCGTTTTAACATAAAACGCCAAAAAAAATGCAATTTGAGACTAACAAAACGGCG
CCGTTCCTCTTTAAAACTTTAAATATTTGTGGCGTTTTTGGCAAAACACAAGAAATGTGGAAGCA
ATAGCGGCGTTTGTACAGAAAACGCCGCAAAAGGGTATTAAAATAATGGCTAAACAACACCGTTT
CTATACACGATTTTTAACTTAGAAAAATTTTAGAATTATTTATTTAAAACATCACCATCTGGGCT
AAAGTAAATTAAGTATTAGTGGCGTTTTTACATAAAACGCCACAAAAAATGCAATTTAAGACTAA
CAAAACGGCGTCGTTTCCCTTTACAACTTTAATATTTAGTGGCATTTTTAGGAAAACACCAGAAA
TATGGAAGCAATAGCGGCGTTTTTACAGAAATGCCGCAAAAGGGTATTAGAATAATGGCTAAACA
ACGCCATTTCTCCGGACGATTTTTAACTTAGGAAAATTTTAGAAATC
Found at i:56968649 original size:60 final size:60
Alignment explanation
Indices: 56968577--56968700 Score: 207
Period size: 60 Copynumber: 2.1 Consensus size: 60
56968567 GCGAATTTTG
*
56968577 TGAATTTTGGTTACAGTGTGTGAAGGATTTAGGTATAAATTGTTTATTTAGA-AGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAAGGATTTAGGTATAAATTGTTTATTTA-ACAGTTGCCC
*
56968637 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAACAGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAAGGATTTAGGTATAAATTGTTTATTTAACAGTTGCCC
56968697 -GAAT
1 TGAAT
56968701 GAATTTTGTG
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
59 5 0.08
60 56 0.92
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.41
Consensus pattern (60 bp):
TGAATTTTGGTTACAGTGTATGAAGGATTTAGGTATAAATTGTTTATTTAACAGTTGCCC
Found at i:56969133 original size:23 final size:23
Alignment explanation
Indices: 56969081--56969133 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
56969071 GTTCATTTTT
* *
56969081 TTTGCT-TGCATTTCTTTGCTTA
1 TTTGCTCTACATTTCTTGGCTTA
56969103 TCTT-CTCTACATTTCTTGGCTTA
1 T-TTGCTCTACATTTCTTGGCTTA
56969126 TTTGCTCT
1 TTTGCTCT
56969134 CTTTTTTGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.09, C:0.23, G:0.11, T:0.57
Consensus pattern (23 bp):
TTTGCTCTACATTTCTTGGCTTA
Found at i:56970211 original size:20 final size:20
Alignment explanation
Indices: 56970169--56970221 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
56970159 ACTTATTAAT
56970169 ATATATATTTT-AA-AGTTA
1 ATATATATTTTCAATAGTTA
*
56970187 ATATATATTTTCAATATTTA
1 ATATATATTTTCAATAGTTA
*
56970207 TTATAT-TTTTACAAT
1 ATATATATTTT-CAAT
56970222 TTAATTTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 11 0.37
19 6 0.20
20 13 0.43
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (20 bp):
ATATATATTTTCAATAGTTA
Found at i:56970368 original size:13 final size:13
Alignment explanation
Indices: 56970352--56970449 Score: 83
Period size: 13 Copynumber: 7.5 Consensus size: 13
56970342 TTACTAAAAT
*
56970352 TTACTTTAATATA
1 TTACTTAAATATA
*
56970365 TTACTTGAATATA
1 TTACTTAAATATA
*
56970378 TTACTTAAATAAA
1 TTACTTAAATATA
*
56970391 TTACTTAAATACA
1 TTACTTAAATATA
56970404 TTACTTACTAA-AT-
1 TTACTTA--AATATA
** *
56970417 TTGGTTAAATTTA
1 TTACTTAAATATA
* *
56970430 TTACTTAAAAACA
1 TTACTTAAATATA
56970443 TTACTTA
1 TTACTTA
56970450 CTAAAATTTA
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
11 2 0.03
12 1 0.01
13 62 0.91
14 1 0.01
15 2 0.03
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:56970482 original size:9 final size:9
Alignment explanation
Indices: 56970468--56970844 Score: 206
Period size: 9 Copynumber: 43.4 Consensus size: 9
56970458 TAAGTATATA
*
56970468 TTACATTAC
1 TTACATAAC
56970477 TTACATAAC
1 TTACATAAC
*
56970486 TTAAATAAC
1 TTACATAAC
*
56970495 TTACACAAC
1 TTACATAAC
56970504 TTACATAAC
1 TTACATAAC
56970513 TTACATAA-
1 TTACATAAC
56970521 -TACATAAC
1 TTACATAAC
*
56970529 TCT-GATAAC
1 T-TACATAAC
* *
56970538 TAACATTA-
1 TTACATAAC
*
56970546 -TACACAAC
1 TTACATAAC
56970554 TTACATAA-
1 TTACATAAC
* *
56970562 -GACATTAC
1 TTACATAAC
56970570 TTACATAAC
1 TTACATAAC
*
56970579 TTACATTA-
1 TTACATAAC
*
56970587 -TACACAAC
1 TTACATAAC
*
56970595 TTACATAAT
1 TTACATAAC
*** *
56970604 TTTTTTAATAT
1 TTACAT-A-AC
56970615 TATACATAAC
1 T-TACATAAC
* *
56970625 GTACATTA-
1 TTACATAAC
56970633 -TACATAAC
1 TTACATAAC
56970641 TTACATAAC
1 TTACATAAC
56970650 -T-CATAAC
1 TTACATAAC
56970657 TTACATAAC
1 TTACATAAC
*
56970666 TTA-ATTACATT
1 TTACA-TA-A-C
* **
56970677 TTGCA-CCC
1 TTACATAAC
56970685 TTTACATAAC
1 -TTACATAAC
56970695 TTACATAAC
1 TTACATAAC
*
56970704 TTACATAGC
1 TTACATAAC
*
56970713 TTACAT-TC
1 TTACATAAC
*
56970721 -TACACAAC
1 TTACATAAC
56970729 TTACATAAC
1 TTACATAAC
* *
56970738 ATACATTAC
1 TTACATAAC
**
56970747 TTTGATAAC
1 TTACATAAC
56970756 TTACATAAC
1 TTACATAAC
56970765 TTACATAA-
1 TTACATAAC
*
56970773 -TACACAAC
1 TTACATAAC
*
56970781 TTACATAGC
1 TTACATAAC
*
56970790 TTACTTAA-
1 TTACATAAC
56970798 -TACATAAC
1 TTACATAAC
56970806 TTACATAAC
1 TTACATAAC
56970815 TT--ATACAC
1 TTACATA-AC
*
56970823 GTACATAAC
1 TTACATAAC
*
56970832 TTACATAAT
1 TTACATAAC
56970841 TTAC
1 TTAC
56970845 TTAATACATA
Statistics
Matches: 274, Mismatches: 62, Indels: 64
0.69 0.16 0.16
Matches are distributed among these distances:
7 52 0.19
8 8 0.03
9 197 0.72
10 8 0.03
11 6 0.02
12 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (9 bp):
TTACATAAC
Found at i:56970561 original size:25 final size:25
Alignment explanation
Indices: 56970475--56970561 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
56970465 ATATTACATT
56970475 ACTTACATAACTTAA-ATAACTTACACA
1 ACTTACATAAC-TAACATAA--TACACA
* *
56970502 ACTTACATAACTTACATAATACATA
1 ACTTACATAACTAACATAATACACA
* *
56970527 ACTCT-GATAACTAACATTATACACA
1 ACT-TACATAACTAACATAATACACA
56970552 ACTTACATAA
1 ACTTACATAA
56970562 GACATTACTT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
24 1 0.02
25 31 0.62
26 3 0.06
27 15 0.30
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.30
Consensus pattern (25 bp):
ACTTACATAACTAACATAATACACA
Found at i:56970578 original size:41 final size:41
Alignment explanation
Indices: 56970505--56970602 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
56970495 TTACACAACT
* * *
56970505 TACATAACTTACATAATACATAACTCTGATAACTAACATTA
1 TACACAACTTACATAAGACATAACTCTCATAACTAACATTA
* *
56970546 TACACAACTTACATAAGACATTACT-TACATAACTTACATTA
1 TACACAACTTACATAAGACATAACTCT-CATAACTAACATTA
56970587 TACACAACTTACATAA
1 TACACAACTTACATAA
56970603 TTTTTTTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.02
41 50 0.98
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (41 bp):
TACACAACTTACATAAGACATAACTCTCATAACTAACATTA
Found at i:56970634 original size:16 final size:16
Alignment explanation
Indices: 56970613--56970646 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
56970603 TTTTTTTAAT
56970613 ATTATACATAACGTAC
1 ATTATACATAACGTAC
*
56970629 ATTATACATAACTTAC
1 ATTATACATAACGTAC
56970645 AT
1 AT
56970647 AACTCATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTATACATAACGTAC
Found at i:56970654 original size:16 final size:16
Alignment explanation
Indices: 56970635--56970666 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56970625 GTACATTATA
56970635 CATAACTTACATAACT
1 CATAACTTACATAACT
56970651 CATAACTTACATAACT
1 CATAACTTACATAACT
56970667 TAATTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (16 bp):
CATAACTTACATAACT
Found at i:56970724 original size:25 final size:25
Alignment explanation
Indices: 56970696--56970844 Score: 129
Period size: 25 Copynumber: 5.8 Consensus size: 25
56970686 TTACATAACT
*
56970696 TACATAACTTACATAGCTTACATTC
1 TACATAACTTACATAACTTACATTC
* *
56970721 TACACAACTTACATAACATACATTAC
1 TACATAACTTACATAACTTACATT-C
** **
56970747 TTTGATAACTTACATAACTTACATAA
1 -TACATAACTTACATAACTTACATTC
* * *
56970773 TACACAACTTACATAGCTTAC-TTAA
1 TACATAACTTACATAACTTACATT-C
* **
56970798 TACATAACTTACATAACTTATACAC
1 TACATAACTTACATAACTTACATTC
*
56970823 GTACATAACTTACATAATTTAC
1 -TACATAACTTACATAACTTAC
56970845 TTAATACATA
Statistics
Matches: 97, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
24 1 0.01
25 57 0.59
26 20 0.21
27 19 0.20
ACGTcount: A:0.42, C:0.22, G:0.03, T:0.34
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATTC
Found at i:56976692 original size:85 final size:84
Alignment explanation
Indices: 56976585--56976740 Score: 224
Period size: 85 Copynumber: 1.8 Consensus size: 84
56976575 GTTTTTGGAA
** *
56976585 AAAGCACCGCTAAAAGTTATGACCTTTAGCGGCATTTGTGGGAAAAGTGCCGCTAAAGAACATGA
1 AAAGCACCGCTAAAAGACATGACCTTTAGCGGCATTTGTGGG-AAAGCGCCGCTAAAGAACATGA
56976650 CCTTTAGGGGCGATTTTGGG
65 CCTTTAGGGGCGATTTTGGG
* * * *
56976670 AAAGCACCGCT-AAAGAACATGACTTTTAGCGGCGTTTGTGGGAAAGCGCCGCTAATGAACTTGA
1 AAAGCACCGCTAAAAG-ACATGACCTTTAGCGGCATTTGTGGGAAAGCGCCGCTAAAGAACATGA
56976734 CCTTTAG
65 CCTTTAG
56976741 CGATGTTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 30 0.48
85 33 0.52
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (84 bp):
AAAGCACCGCTAAAAGACATGACCTTTAGCGGCATTTGTGGGAAAGCGCCGCTAAAGAACATGAC
CTTTAGGGGCGATTTTGGG
Found at i:56976698 original size:42 final size:43
Alignment explanation
Indices: 56976568--56976742 Score: 189
Period size: 42 Copynumber: 4.1 Consensus size: 43
56976558 CGCCAAACAA
* * **
56976568 TAGCGGCG-TTTTTGGAAAAAGCACCGCTAAA-AGTTATGACCTT
1 TAGCGGCGATTTGTGG-GAAAGCACCGCTAAAGA-ACATGACCTT
**
56976611 TAGCGGC-ATTTGTGGGAAAAGTGCCGCTAAAGAACATGACCTT
1 TAGCGGCGATTTGTGGG-AAAGCACCGCTAAAGAACATGACCTT
* *
56976654 TAGGGGCGATTT-TGGGAAAGCACCGCTAAAGAACATGACTTT
1 TAGCGGCGATTTGTGGGAAAGCACCGCTAAAGAACATGACCTT
* * *
56976696 TAGCGGCG-TTTGTGGGAAAGCGCCGCTAATGAACTTGACCTT
1 TAGCGGCGATTTGTGGGAAAGCACCGCTAAAGAACATGACCTT
56976738 TAGCG
1 TAGCG
56976743 ATGTTTTTAT
Statistics
Matches: 112, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
41 3 0.03
42 61 0.54
43 43 0.38
44 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (43 bp):
TAGCGGCGATTTGTGGGAAAGCACCGCTAAAGAACATGACCTT
Found at i:56984677 original size:11 final size:11
Alignment explanation
Indices: 56984663--56984702 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
56984653 TGTTTTCTCC
56984663 CTATTTTGCTA
1 CTATTTTGCTA
*
56984674 CTATTTTACTA
1 CTATTTTGCTA
* *
56984685 TTATGTTGCTA
1 CTATTTTGCTA
56984696 CTATTTT
1 CTATTTT
56984703 CTTGTTATTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:56984777 original size:30 final size:30
Alignment explanation
Indices: 56984743--56984802 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
56984733 TATTTTATTG
*
56984743 TTAATTTTGTTATTATTTTAAAGACATTTT
1 TTAATTTCGTTATTATTTTAAAGACATTTT
*
56984773 TTAATTTCGTTATTATTTTAAAGGCATTTT
1 TTAATTTCGTTATTATTTTAAAGACATTTT
56984803 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.58
Consensus pattern (30 bp):
TTAATTTCGTTATTATTTTAAAGACATTTT
Found at i:56991854 original size:43 final size:43
Alignment explanation
Indices: 56991801--56992162 Score: 329
Period size: 43 Copynumber: 8.4 Consensus size: 43
56991791 TTTTAGAAAT
* * * *
56991801 AAACGCCGCTAAAGGTCATGAACTTTAGCAGCGCTTCTCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
56991844 AAACGTCGCTATAGATCACGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* * ** * *
56991887 AAACGTCGCTATAGATCAAT-ACCTTTAGCGATGTTTTTCCCAG
1 AAACGCCGCTAAAGATC-ATGACCTTTAGCGGCGCTTTTCCCAC
* * *
56991930 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTACCTA-
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTT-CCCAC
* * ** * * *
56991973 ACATGCCATTATAGATCATGACTTTTAGCGGCGCTTCTT-TCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTT-TTCCCAC
** * *
56992016 AAACATCGCTAAAGGA-CATGACCTTTAGCAGCACTTTTCCCAC
1 AAACGCCGCTAAA-GATCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
56992059 AAACGCCTCTAAAGAACATGACCTTTAGCAGCGCTTTCCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
56992102 AAACGTCGCTAAAGAACATGACCTTTAGCGGCG-TTTTCCCAA
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
*
56992144 AAACGCCGCTAAAGGTCAT
1 AAACGCCGCTAAAGATCAT
56992163 AAAAATAAAA
Statistics
Matches: 261, Mismatches: 50, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
42 30 0.11
43 223 0.85
44 8 0.03
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:56993050 original size:23 final size:22
Alignment explanation
Indices: 56993024--56993297 Score: 196
Period size: 23 Copynumber: 11.9 Consensus size: 22
56993014 AATGGAAAGT
56993024 AGCACTTTAACACTTCAATTTAC
1 AGCA-TTTAACACTTCAATTTAC
*
56993047 AGCATTTAAACACTTCAATTTGC
1 AGCATTT-AACACTTCAATTTAC
*
56993070 AGCACTTTAACA-TATCAATTAAC
1 AGCA-TTTAACACT-TCAATTTAC
* * * *
56993093 AACATTTATAAACCTCAA-TAAC
1 AGCATTTA-ACACTTCAATTTAC
** *
56993115 AGCGATAAAACA-TCTCAATTTCC
1 AGC-ATTTAACACT-TCAATTTAC
* * *
56993138 AGCAACTAAACACTTCAATTTGC
1 AGC-ATTTAACACTTCAATTTAC
*
56993161 AGCACTTAAACACTTCAATTTAC
1 AGCA-TTTAACACTTCAATTTAC
**
56993184 AGCATTTAAACACTTCAATTTGTGG
1 AGCATTT-AACACTTCAA-TT-TAC
56993209 AGCACTTTAACACTTCAATTTAC
1 AGCA-TTTAACACTTCAATTTAC
* * *
56993232 AACATTTAAACACTTGAATTTGC
1 AGCATTT-AACACTTCAATTTAC
56993255 AGCACTTTAACA-TATCAATTTAC
1 AGCA-TTTAACACT-TCAATTTAC
*
56993278 AACATTTAAACACTTCAATT
1 AGCATTT-AACACTTCAATT
56993298 ACTTGTAATT
Statistics
Matches: 201, Mismatches: 31, Indels: 38
0.74 0.11 0.14
Matches are distributed among these distances:
22 30 0.15
23 141 0.70
24 12 0.06
25 15 0.07
26 3 0.01
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (22 bp):
AGCATTTAACACTTCAATTTAC
Found at i:56993099 original size:46 final size:46
Alignment explanation
Indices: 56993024--56993297 Score: 308
Period size: 46 Copynumber: 5.9 Consensus size: 46
56993014 AATGGAAAGT
*
56993024 AGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGC
1 AGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATTTGC
* * **
56993070 AGCACTTTAACA-TATCAATTAACAACATTTATAA-ACCTCAA-TAAC
1 AGCACTTTAACACT-TCAATTTACAACATTTA-AACACTTCAATTTGC
** * * **
56993115 AGCGA-TAAAACA-TCTCAATTTCCAGCAACTAAACACTTCAATTTGC
1 AGC-ACTTTAACACT-TCAATTTACAACATTTAAACACTTCAATTTGC
* * *
56993161 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTGG
1 AGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAA-TT-TGC
*
56993209 AGCACTTTAACACTTCAATTTACAACATTTAAACACTTGAATTTGC
1 AGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATTTGC
56993255 AGCACTTTAACA-TATCAATTTACAACATTTAAACACTTCAATT
1 AGCACTTTAACACT-TCAATTTACAACATTTAAACACTTCAATT
56993298 ACTTGTAATT
Statistics
Matches: 192, Mismatches: 26, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
44 2 0.01
45 32 0.17
46 111 0.58
47 7 0.04
48 40 0.21
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (46 bp):
AGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATTTGC
Found at i:56997236 original size:21 final size:21
Alignment explanation
Indices: 56997220--56997272 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
56997210 CACTAACTCT
*
56997220 TAACCTCTAACATCTAACCCC
1 TAACCCCTAACATCTAACCCC
*
56997241 TAACCCCTAAC-CCTTAACCCC
1 TAACCCCTAACATC-TAACCCC
*
56997262 AAACCCCTAAC
1 TAACCCCTAAC
56997273 CCCTAACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.19
Consensus pattern (21 bp):
TAACCCCTAACATCTAACCCC
Found at i:56997243 original size:7 final size:7
Alignment explanation
Indices: 56997233--56997279 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
56997223 CCTCTAACAT
56997233 CTAACCC
1 CTAACCC
56997240 CTAACCC
1 CTAACCC
56997247 CTAACCC
1 CTAACCC
*
56997254 TTAACCC
1 CTAACCC
*
56997261 CAAACCC
1 CTAACCC
56997268 CTAACCC
1 CTAACCC
56997275 CTAAC
1 CTAAC
56997280 TACTAGCCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.32, C:0.53, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAACCC
Found at i:56997605 original size:14 final size:14
Alignment explanation
Indices: 56997586--56997619 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
56997576 CTAAATTAAT
*
56997586 CATATACCCTAAAC
1 CATATACCCTAAAA
56997600 CATATACCCTAAAA
1 CATATACCCTAAAA
56997614 CATATA
1 CATATA
56997620 TATTAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (14 bp):
CATATACCCTAAAA
Found at i:56997911 original size:20 final size:19
Alignment explanation
Indices: 56997878--56997923 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
56997868 ATTGAATTTT
56997878 AATT-AATATAAATAAACA
1 AATTAAATATAAATAAACA
*
56997896 AATTAAATAGTAAATAGACA
1 AATTAAATA-TAAATAAACA
*
56997916 AATAAAAT
1 AATTAAAT
56997924 GTTTTTGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 16 0.67
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (19 bp):
AATTAAATATAAATAAACA
Found at i:56998287 original size:41 final size:41
Alignment explanation
Indices: 56997932--56998290 Score: 388
Period size: 41 Copynumber: 8.8 Consensus size: 41
56997922 ATGTTTTTGA
* **
56997932 GGCGCTTTTTTAAAAACGTTGCTAAAG-CTCGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCTCGAGCATTAGC
** ** * *
56997972 GGCGCTTCCTGGAAAACGTCGCTAAA-ACTCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCTC-GAGCATTAGC
* *
56998013 GGCGC-TTTTGAAAAACGCTGCTAAAGCCTCGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCTCGAGCATTAGC
* *
56998053 GGCGCTTTTTTAAAAACGCCGCTAAAGCCCCGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCTCGAGCATTAGC
* *
56998094 GGCGCTTTCTCAAAAACGCCGCTAAATCC-CTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCTC-GAGCATTAGC
* * * *
56998135 GGTAG-TTTTTTAAAAATGCCGCGAAAGCC-CTGAGCATTAGC
1 GG-CGCTTTTTCAAAAACGCCGCTAAAGCCTC-GAGCATTAGC
* * * * *
56998176 GGCGCATTTTCAAAAATGCCGCGAAAGCCACAAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCTCGAGCATTAGC
* * *
56998217 GGCACTTTTTCAAAAACACCGCGAAAGCCTCGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCTCGAGCATTAGC
*
56998258 GGCGCTTTCTCAAAAACGCCGCTAAAGCCTCGA
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCTCGA
56998291 AAGGTCAGAT
Statistics
Matches: 274, Mismatches: 37, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
40 56 0.20
41 216 0.79
42 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (41 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAGCCTCGAGCATTAGC
Found at i:57003048 original size:3 final size:3
Alignment explanation
Indices: 57003040--57003067 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
57003030 CTAATTGCTG
57003040 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
57003068 TTCCCTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:57003340 original size:16 final size:16
Alignment explanation
Indices: 57003319--57003353 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57003309 CTAAAAAAAA
**
57003319 CCCCAAATCGTGAAAT
1 CCCCAAATCACGAAAT
57003335 CCCCAAATCACGAAAT
1 CCCCAAATCACGAAAT
57003351 CCC
1 CCC
57003354 TAAAAACTTT
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:0.37, C:0.40, G:0.09, T:0.14
Consensus pattern (16 bp):
CCCCAAATCACGAAAT
Found at i:57003447 original size:30 final size:30
Alignment explanation
Indices: 57003406--57003470 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
57003396 AATTTTCTAC
*
57003406 ATCTTTAATCCCTTATTCCCAAATCATGAA
1 ATCTCTAATCCCTTATTCCCAAATCATGAA
* *
57003436 ATCTCTAATCCCTTATTCTCAAATCGTGAA
1 ATCTCTAATCCCTTATTCCCAAATCATGAA
57003466 ATCTC
1 ATCTC
57003471 ATAAACTCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.37
Consensus pattern (30 bp):
ATCTCTAATCCCTTATTCCCAAATCATGAA
Found at i:57004400 original size:63 final size:63
Alignment explanation
Indices: 57004328--57004470 Score: 286
Period size: 63 Copynumber: 2.3 Consensus size: 63
57004318 CTTCATGTTA
57004328 TGTTGTTTATGTAATTTGGAACCTTGATATACATTATGTTTGGAACTAATGACCAATTTTGGT
1 TGTTGTTTATGTAATTTGGAACCTTGATATACATTATGTTTGGAACTAATGACCAATTTTGGT
57004391 TGTTGTTTATGTAATTTGGAACCTTGATATACATTATGTTTGGAACTAATGACCAATTTTGGT
1 TGTTGTTTATGTAATTTGGAACCTTGATATACATTATGTTTGGAACTAATGACCAATTTTGGT
57004454 TGTTGTTTATGTAATTT
1 TGTTGTTTATGTAATTT
57004471 AATTTAGCTT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 80 1.00
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (63 bp):
TGTTGTTTATGTAATTTGGAACCTTGATATACATTATGTTTGGAACTAATGACCAATTTTGGT
Found at i:57012104 original size:3 final size:3
Alignment explanation
Indices: 57012096--57012121 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
57012086 TGTAGACTGC
57012096 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
57012122 GTCAATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:57017484 original size:13 final size:12
Alignment explanation
Indices: 57017468--57017497 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
57017458 AAAATAACTA
57017468 ATATATTAATACT
1 ATATATTAAT-CT
57017481 ATATATTAATCT
1 ATATATTAATCT
57017493 ATATA
1 ATATA
57017498 AGTAGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATTAATCT
Found at i:57017867 original size:15 final size:16
Alignment explanation
Indices: 57017849--57017891 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
57017839 ATAAAAGAGG
57017849 AATTTTAAAATAACT-
1 AATTTTAAAATAACTA
57017864 AA-TTTAAAGATAACTA
1 AATTTTAAA-ATAACTA
57017880 AATTTTAAAATA
1 AATTTTAAAATA
57017892 TCATATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.24
15 8 0.32
16 5 0.20
17 6 0.24
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (16 bp):
AATTTTAAAATAACTA
Found at i:57018894 original size:23 final size:24
Alignment explanation
Indices: 57018841--57018903 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 24
57018831 TGGAGGGGAC
* * *
57018841 GTGGCGTGTACGGAGGCAGTGGGT
1 GTGGCATGTACGGAGGCAGCGGAT
57018865 GTGGCATGTACGGAGGC-GCGGAT
1 GTGGCATGTACGGAGGCAGCGGAT
57018888 GTGGCATGTACGGAGG
1 GTGGCATGTACGGAGG
57018904 TGCTCATGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 20 0.56
24 16 0.44
ACGTcount: A:0.16, C:0.14, G:0.51, T:0.19
Consensus pattern (24 bp):
GTGGCATGTACGGAGGCAGCGGAT
Found at i:57019121 original size:27 final size:27
Alignment explanation
Indices: 57019090--57019141 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
57019080 TTGGACTATT
57019090 TTTA-TTGGACTTTTGATTTTAATTTTA
1 TTTATTTGG-CTTTTGATTTTAATTTTA
* *
57019117 TTTATTTGGCTTTTTATTTTTATTT
1 TTTATTTGGCTTTTGATTTTAATTT
57019142 ACTTGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.17, C:0.04, G:0.10, T:0.69
Consensus pattern (27 bp):
TTTATTTGGCTTTTGATTTTAATTTTA
Found at i:57019152 original size:22 final size:22
Alignment explanation
Indices: 57019106--57019155 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
57019096 GGACTTTTGA
* *
57019106 TTTTAATTTTATTTATTTGGCT
1 TTTTATTTTTATTTACTTGGCT
**
57019128 TTTTATTTTTATTTACTTGTTT
1 TTTTATTTTTATTTACTTGGCT
57019150 TTTTAT
1 TTTTAT
57019156 ATGCATGTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTATTTACTTGGCT
Found at i:57019479 original size:50 final size:50
Alignment explanation
Indices: 57019416--57019642 Score: 170
Period size: 50 Copynumber: 4.5 Consensus size: 50
57019406 TGATGTCGGA
*
57019416 GAAGCAAGATTCGCC-ATTGTGGCTTTAATCTGTTCCACTGCACCGCCAGG
1 GAAGCAAGATTCGCCGA-TGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
* * * * * * * ** * *
57019466 GAAGTAAGATTCG-CTATTATAGCTTTAATCTTTTTAACCGCAATGTCGGG
1 GAAGCAAGATTCGCCGA-TGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
* * * *
57019516 GAAGCGAGATTCACCGATGTGGCTTTAATCCTGCTCTACTGCACCGCCAGG
1 GAAGCAAGATTCGCCGATGTGGCTTTAAT-CTGTTCAACTGCACCGCCAGG
* * * * * ** * *
57019567 GAAGTAGGATTCGCCGATGTGGCTTTAATCTTTTTAACTGTAATGTCGGG
1 GAAGCAAGATTCGCCGATGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
**
57019617 GAAGCAAGATTCATCGATGTGGCTTT
1 GAAGCAAGATTCGCCGATGTGGCTTT
57019643 GACCTGCTCC
Statistics
Matches: 131, Mismatches: 43, Indels: 6
0.73 0.24 0.03
Matches are distributed among these distances:
49 1 0.01
50 91 0.69
51 39 0.30
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (50 bp):
GAAGCAAGATTCGCCGATGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
Found at i:57019596 original size:101 final size:101
Alignment explanation
Indices: 57019408--57019676 Score: 343
Period size: 101 Copynumber: 2.7 Consensus size: 101
57019398 CTTAACTGTG
* * *
57019408 ATGTCGGAGAAGCAAGATTCGCC-ATTGTGGCTTTAAT-CTGTTCCACTGCACCGCCAGGGAAGT
1 ATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCCTGCTCCACTGCACCGCCAGGGAAGT
*
57019471 AAGATTCGCTATTATAGCTTTAATCTTTTTAACCGCA
65 AAGATTCGCGATTATAGCTTTAATCTTTTTAACCGCA
* *
57019508 ATGTCGGGGAAGCGAGATTCACCGATGTGGCTTTAATCCTGCTCTACTGCACCGCCAGGGAAGTA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCCTGCTCCACTGCACCGCCAGGGAAGTA
* * * * *
57019573 GGATTCGCCGA-TGTGGCTTTAATCTTTTTAACTGTA
66 AGATTCG-CGATTATAGCTTTAATCTTTTTAACCGCA
* * *
57019609 ATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTGA-CCTGCTCCACTGTACCG-CAGGG-AGAT
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCCTGCTCCACTGCACCGCCAGGGAAG-T
57019671 AAGATT
65 AAGATT
57019677 TCTGGCTTCA
Statistics
Matches: 148, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
98 2 0.01
99 11 0.07
100 47 0.32
101 86 0.58
102 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (101 bp):
ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCCTGCTCCACTGCACCGCCAGGGAAGTA
AGATTCGCGATTATAGCTTTAATCTTTTTAACCGCA
Found at i:57019657 original size:50 final size:50
Alignment explanation
Indices: 57019507--57019658 Score: 142
Period size: 50 Copynumber: 3.0 Consensus size: 50
57019497 TTTTAACCGC
* * *
57019507 AATGTCGGGGAAGCGAGATTCACCGATGTGGCTTTAATCCTGCTCTACTGC
1 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAA-CCTGCTCAACTGT
** * * * * * * ** *
57019558 ACCGCCAGGGAAGTAGGATTCGCCGATGTGGCTTTAATCTTTTTAACTGT
1 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAACCTGCTCAACTGT
* * *
57019608 AATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTGACCTGCTCCACTGT
1 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAACCTGCTCAACTGT
57019658 A
1 A
57019659 CCGCAGGGAG
Statistics
Matches: 73, Mismatches: 28, Indels: 1
0.72 0.27 0.01
Matches are distributed among these distances:
50 44 0.60
51 29 0.40
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (50 bp):
AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAACCTGCTCAACTGT
Found at i:57019898 original size:44 final size:44
Alignment explanation
Indices: 57019831--57019953 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
57019821 CCTTTATTTT
* * * *
57019831 AATCCGCTCCATTGTAACTTCAAGGAGATAGGATTATC-GGCTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATT-TCTGGCTTC
* *
57019875 AATCTGCTCTACTGTAATCTCAAGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATTTCTGGCTTC
*
57019919 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATT
57019954 CACCATTTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 2 0.03
44 67 0.97
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGTAACCTCAAGGAGATAAGATTTCTGGCTTC
Found at i:57019932 original size:233 final size:233
Alignment explanation
Indices: 57019665--57020113 Score: 844
Period size: 233 Copynumber: 1.9 Consensus size: 233
57019655 TGTACCGCAG
*
57019665 GGAGATAAGATTTCTGGCTTCAATCTGTTCCACTGTAACCTCAGGGAGATAAGATTCACCATTTT
1 GGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTCACCATTTT
* *
57019730 CGATTAGGAGTTCTTCGGTCTATTTCACTGTAATCTCAGAGAGATAAGACCTGATGCAATCTACT
66 CGATTAGGAATTCTTCGGTCTATTCCACTGTAATCTCAGAGAGATAAGACCTGATGCAATCTACT
57019795 CTACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCATTGTAACTTCAAGGAGAT
131 CTACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCATTGTAACTTCAAGGAGAT
57019860 AGGATTATCGGCTTCAATCTGCTCTACTGTAATCTCAA
196 AGGATTATCGGCTTCAATCTGCTCTACTGTAATCTCAA
57019898 GGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTCACCATTTT
1 GGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTCACCATTTT
* * *
57019963 CGATTAGGAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACT
66 CGATTAGGAATTCTTCGGTCTATTCCACTGTAATCTCAGAGAGATAAGACCTGATGCAATCTACT
57020028 CTACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCATTGTAACTTCAAGGAGAT
131 CTACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCATTGTAACTTCAAGGAGAT
57020093 AGGATTATCGGCTTCAATCTG
196 AGGATTATCGGCTTCAATCTG
57020114 TTTCCCTACT
Statistics
Matches: 210, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
233 210 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (233 bp):
GGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTCACCATTTT
CGATTAGGAATTCTTCGGTCTATTCCACTGTAATCTCAGAGAGATAAGACCTGATGCAATCTACT
CTACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCATTGTAACTTCAAGGAGAT
AGGATTATCGGCTTCAATCTGCTCTACTGTAATCTCAA
Found at i:57020356 original size:131 final size:129
Alignment explanation
Indices: 57020102--57020625 Score: 642
Period size: 131 Copynumber: 4.0 Consensus size: 129
57020092 TAGGATTATC
* * *
57020102 GGCTTCAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGCTTCCCCACT
1 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGC-TCCCTATT
* * * *
57020167 CCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGT
65 CCTAGGGAAGATAAGATCCATAATCTTCAACCTATCCCACTGCTGACCAGGGACATAGGACTTGT
* *
57020232 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTAT
1 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCG-CTTAGATCTGCTCC-CTAT
* ** * * *
57020297 TGCTTAGGG-AGATAAGATCTGTAAT-TTCCAACCTATTCCATTGCTGGCCAGGGACATAGGACT
64 T-CCTAGGGAAGATAAGATCCATAATCTT-CAACCTATCCCACTGCTGACCAGGGACATAGGACT
57020360 TGT
127 TGT
* * *
57020363 GGCTTAAATCTGTTTCCCTACTTCTGGGGAAGATAAGATTCGCCGTCTTCGATTTGCTCCACTAT
1 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCG-CTTAGATCTGCTCC-CTAT
* * * * * * *
57020428 TGCCTACGG-AGACAAGATCTATAGT-TTCCCAACCTATTCCACTGCTGGCCAGGGATATAGGAC
64 T-CCTAGGGAAGATAAGATCCATAATCTT--CAACCTATCCCACTGCTGACCAGGGACATAGGAC
57020491 TTGT
126 TTGT
* * * * *
57020495 GGCTTAAATCTGTTTCCCTACTTCTGGGGAAGGTAAGATTCACCGCTTAGATCTGTTTCCCTAAT
1 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTG-CTCCCTATT
*
57020560 CCTGGGGAAGATAAGATCCATAATCTTCAACCTATCCCACTGCTGACCAGGGACATAGGACTTGT
65 CCTAGGGAAGATAAGATCCATAATCTTCAACCTATCCCACTGCTGACCAGGGACATAGGACTTGT
57020625 G
1 G
57020626 ATTTGACCGA
Statistics
Matches: 349, Mismatches: 37, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
130 90 0.26
131 169 0.48
132 90 0.26
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (129 bp):
GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGCTCCCTATTC
CTAGGGAAGATAAGATCCATAATCTTCAACCTATCCCACTGCTGACCAGGGACATAGGACTTGT
Found at i:57021891 original size:22 final size:21
Alignment explanation
Indices: 57021866--57021915 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
57021856 TTAGCCTCTC
57021866 CATTTTT-ACTTTTTCATTTTTT
1 CATTTTTCA-TTTTTCA-TTTTT
57021888 CATTTTTCATTTTTCATTTTT
1 CATTTTTCATTTTTCATTTTT
57021909 CATTTTT
1 CATTTTT
57021916 TTAACTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.44
22 14 0.52
23 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (21 bp):
CATTTTTCATTTTTCATTTTT
Found at i:57021916 original size:8 final size:7
Alignment explanation
Indices: 57021866--57021915 Score: 75
Period size: 7 Copynumber: 7.0 Consensus size: 7
57021856 TTAGCCTCTC
57021866 CATTTTT
1 CATTTTT
57021873 -ACTTTTT
1 CA-TTTTT
57021880 CATTTTTT
1 CA-TTTTT
57021888 CATTTTT
1 CATTTTT
57021895 CATTTTT
1 CATTTTT
57021902 CATTTTT
1 CATTTTT
57021909 CATTTTT
1 CATTTTT
57021916 TTAACTCAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 1 0.03
7 31 0.77
8 8 0.20
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
CATTTTT
Found at i:57027094 original size:13 final size:12
Alignment explanation
Indices: 57027078--57027107 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
57027068 AAAATAAGTA
57027078 ATATATTAATACT
1 ATATATTAAT-CT
57027091 ATATATTAATCT
1 ATATATTAATCT
57027103 ATATA
1 ATATA
57027108 AGTAGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATTAATCT
Found at i:57027487 original size:15 final size:14
Alignment explanation
Indices: 57027463--57027502 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 14
57027453 AAAGAGGAAT
57027463 TTTAAAATAACTAA
1 TTTAAAATAACTAA
57027477 TTTAAAGATAACTAAA
1 TTTAAA-ATAACT-AA
57027493 TTTTAAAATA
1 -TTTAAAATA
57027503 TCATATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.26
15 6 0.26
16 5 0.22
17 6 0.26
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (14 bp):
TTTAAAATAACTAA
Found at i:57028732 original size:27 final size:27
Alignment explanation
Indices: 57028701--57028752 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
57028691 TTGGACTATT
57028701 TTTA-TTGGACTTTTGATTTTAATTTTA
1 TTTATTTGG-CTTTTGATTTTAATTTTA
* *
57028728 TTTATTTGGCTTTTTATTTTTATTT
1 TTTATTTGGCTTTTGATTTTAATTT
57028753 ACTTGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.17, C:0.04, G:0.10, T:0.69
Consensus pattern (27 bp):
TTTATTTGGCTTTTGATTTTAATTTTA
Found at i:57028763 original size:22 final size:22
Alignment explanation
Indices: 57028717--57028766 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
57028707 GGACTTTTGA
* *
57028717 TTTTAATTTTATTTATTTGGCT
1 TTTTATTTTTATTTACTTGGCT
**
57028739 TTTTATTTTTATTTACTTGTTT
1 TTTTATTTTTATTTACTTGGCT
57028761 TTTTAT
1 TTTTAT
57028767 ATGCATGTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTATTTACTTGGCT
Found at i:57029206 original size:23 final size:23
Alignment explanation
Indices: 57029180--57029270 Score: 119
Period size: 23 Copynumber: 4.0 Consensus size: 23
57029170 CATCACTAAT
*
57029180 TTGCACCAAAGTGCCACTGTCAA
1 TTGCACCAAAGTGCCACTTTCAA
*
57029203 TTGCACCAGAGTGCCACTTTCAA
1 TTGCACCAAAGTGCCACTTTCAA
* * **
57029226 TTGCATCGAAGTGTTACTTTCAA
1 TTGCACCAAAGTGCCACTTTCAA
*
57029249 TTGCACCGAAGTGCCACTTTCA
1 TTGCACCAAAGTGCCACTTTCA
57029271 GTTTGCGCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (23 bp):
TTGCACCAAAGTGCCACTTTCAA
Found at i:57032461 original size:11 final size:11
Alignment explanation
Indices: 57032439--57032495 Score: 60
Period size: 11 Copynumber: 4.8 Consensus size: 11
57032429 ATTTACTTTA
57032439 ATTAATTAAAAT
1 ATTAA-TAAAAT
57032451 ATTAATAAAATAT
1 ATTAAT-AAA-AT
57032464 ATTTAATAAAAT
1 A-TTAATAAAAT
*
57032476 ATTATTAAAAT
1 ATTAATAAAAT
*
57032487 ATTATTAAA
1 ATTAATAAA
57032496 TAATTTTATC
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
11 19 0.46
12 11 0.27
13 6 0.15
14 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATTAATAAAAT
Found at i:57032471 original size:14 final size:13
Alignment explanation
Indices: 57032439--57032483 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
57032429 ATTTACTTTA
*
57032439 ATTAATTAAA-AT
1 ATTAATAAAATAT
57032451 ATTAATAAAATAT
1 ATTAATAAAATAT
57032464 ATTTAATAAAATATT
1 A-TTAATAAAATA-T
57032479 ATTAA
1 ATTAA
57032484 AATATTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 9 0.31
13 3 0.10
14 15 0.52
15 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTAATAAAATAT
Found at i:57032475 original size:25 final size:26
Alignment explanation
Indices: 57032440--57032498 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
57032430 TTTACTTTAA
57032440 TTAATTAAAATATTAATAAAATA-TAT
1 TTAA-TAAAATATTAATAAAATATTAT
*
57032466 TTAATAAAATATTATTAAAATATTAT
1 TTAATAAAATATTAATAAAATATTAT
*
57032492 TAAATAA
1 TTAATAA
57032499 TTTTATCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAATAAAATATTAATAAAATATTAT
Found at i:57033839 original size:27 final size:27
Alignment explanation
Indices: 57033809--57033866 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
57033799 TCTCCTTAGG
* *
57033809 TTTTCATAGTTTTAGATTAGGTTTTCT
1 TTTTCATAGTTTTAGAATAGATTTTCT
** **
57033836 TTTTGTTTTTTTTAGAATAGATTTTCT
1 TTTTCATAGTTTTAGAATAGATTTTCT
57033863 TTTT
1 TTTT
57033867 GTTGTTTTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.66
Consensus pattern (27 bp):
TTTTCATAGTTTTAGAATAGATTTTCT
Found at i:57033867 original size:27 final size:27
Alignment explanation
Indices: 57033818--57033874 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
57033808 GTTTTCATAG
* * *
57033818 TTTTAGATTAGGTTTTCTTTTTGTTTT
1 TTTTAGAATAGATTTTCTTTTTGTTGT
57033845 TTTTAGAATAGATTTTCTTTTTGTTGT
1 TTTTAGAATAGATTTTCTTTTTGTTGT
57033872 TTT
1 TTT
57033875 CTTTCTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.04, G:0.14, T:0.68
Consensus pattern (27 bp):
TTTTAGAATAGATTTTCTTTTTGTTGT
Found at i:57039213 original size:50 final size:52
Alignment explanation
Indices: 57039087--57039218 Score: 141
Period size: 50 Copynumber: 2.6 Consensus size: 52
57039077 ATGAACAAAT
* *
57039087 GAGTTACTTAATGCA-AGACTTAATTTAATGATGCAGACTTAAACTAACATTG
1 GAGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATTG
* *
57039139 GAGTTACATAATGCATGTAA--TTATTT-ATGATGCATACTT-AACTAGCA-TG
1 GAGTTACATAATGCA--TAACTTTATTTAATGATGCAGACTTAAACTAACATTG
*
57039188 GAAGTTACATAATGCATAACTTTATTAAATG
1 G-AGTTACATAATGCATAACTTTATTTAATG
57039219 TAGAACACAC
Statistics
Matches: 68, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
48 3 0.04
49 3 0.04
50 26 0.38
51 15 0.22
52 19 0.28
54 1 0.01
55 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (52 bp):
GAGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATTG
Found at i:57042746 original size:17 final size:15
Alignment explanation
Indices: 57042724--57042767 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
57042714 GGGTGTTTTG
57042724 ATAAATTAAAATAGTT
1 ATAAATTAAAATA-TT
57042740 AATAAATTAATAATATT
1 -ATAAATTAA-AATATT
*
57042757 ATAAGTTAAAA
1 ATAAATTAAAA
57042768 ACATAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 8 0.32
17 11 0.44
18 4 0.16
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (15 bp):
ATAAATTAAAATATT
Found at i:57043823 original size:20 final size:20
Alignment explanation
Indices: 57043721--57043871 Score: 117
Period size: 20 Copynumber: 7.6 Consensus size: 20
57043711 TGCTTTCGTA
* *
57043721 CTCCTGTTAGCATTACGATG
1 CTCCTGTTAGCACTACGGTG
* *
57043741 CT-CTTTTAGCACTACAGTG
1 CTCCTGTTAGCACTACGGTG
* * *
57043760 CTCTTGATAGCAC-ACTTGTG
1 CTCCTGTTAGCACTAC-GGTG
* * * * *
57043780 CTACTGTTGGAACTATGGTT
1 CTCCTGTTAGCACTACGGTG
* *
57043800 CTCCTGTTACCACTTCGGTG
1 CTCCTGTTAGCACTACGGTG
** *
57043820 CTCCTACTAGCACTACAGTG
1 CTCCTGTTAGCACTACGGTG
57043840 CTCCTGTTAGCACTACGGTG
1 CTCCTGTTAGCACTACGGTG
*
57043860 CTCCTGATAGCA
1 CTCCTGTTAGCA
57043872 TATTTATGCT
Statistics
Matches: 96, Mismatches: 32, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
19 17 0.18
20 78 0.81
21 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.33
Consensus pattern (20 bp):
CTCCTGTTAGCACTACGGTG
Found at i:57043968 original size:20 final size:19
Alignment explanation
Indices: 57043924--57043971 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
57043914 TTGTGCCAGT
*
57043924 TATGCACTCTGGTGCCTTG
1 TATGCACTTTGGTGCCTTG
*
57043943 TTTGCACTTTGGTGCTCTTG
1 TATGCACTTTGGTGC-CTTG
57043963 TATGCACTT
1 TATGCACTT
57043972 CCATGCCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.44
Consensus pattern (19 bp):
TATGCACTTTGGTGCCTTG
Found at i:57044273 original size:60 final size:60
Alignment explanation
Indices: 57044159--57044291 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
57044149 CTGTTAACAT
* * *
57044159 TACGGTGCTCCTGTTAGCACTACAGTGCTCTTAATAGCACACTCATGCTACTGTTGGAAC
1 TACGGTGCTCCTGTTACCACTACAGTGCTCCTAATAGCACACTCATGCTACTGTTAGAAC
* * * * * * *
57044219 TATGGTTCTCCTGTTACCACTACGGTGCTCCTACTAGCAC-TTCAGTGCTCCTGTTAGCAC
1 TACGGTGCTCCTGTTACCACTACAGTGCTCCTAATAGCACACTCA-TGCTACTGTTAGAAC
57044279 TACGGTGCTCCTG
1 TACGGTGCTCCTG
57044292 ATAGCATATT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 3 0.05
60 57 0.95
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.32
Consensus pattern (60 bp):
TACGGTGCTCCTGTTACCACTACAGTGCTCCTAATAGCACACTCATGCTACTGTTAGAAC
Found at i:57044296 original size:20 final size:20
Alignment explanation
Indices: 57044146--57044297 Score: 117
Period size: 20 Copynumber: 7.6 Consensus size: 20
57044136 TGCTTTCGTA
* *
57044146 CTCCTGTTAACATTACGGTG
1 CTCCTGTTAGCACTACGGTG
*
57044166 CTCCTGTTAGCACTACAGTG
1 CTCCTGTTAGCACTACGGTG
* ** **
57044186 CTCTTAATAGCAC-ACTCATG
1 CTCCTGTTAGCACTAC-GGTG
* * * * *
57044206 CTACTGTTGGAACTATGGTT
1 CTCCTGTTAGCACTACGGTG
*
57044226 CTCCTGTTACCACTACGGTG
1 CTCCTGTTAGCACTACGGTG
** * *
57044246 CTCCTACTAGCACTTCAGTG
1 CTCCTGTTAGCACTACGGTG
57044266 CTCCTGTTAGCACTACGGTG
1 CTCCTGTTAGCACTACGGTG
*
57044286 CTCCTGATAGCA
1 CTCCTGTTAGCA
57044298 TATTTATACT
Statistics
Matches: 96, Mismatches: 34, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
19 2 0.02
20 93 0.97
21 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (20 bp):
CTCCTGTTAGCACTACGGTG
Found at i:57047788 original size:21 final size:21
Alignment explanation
Indices: 57047764--57047804 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57047754 CCATTTTAGG
*
57047764 ATTTTAAATTAGTTCTATTTT
1 ATTTTAAAATAGTTCTATTTT
*
57047785 ATTTTAAAATAGTTTTATTT
1 ATTTTAAAATAGTTCTATTT
57047805 CTTGTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
ATTTTAAAATAGTTCTATTTT
Found at i:57055669 original size:17 final size:17
Alignment explanation
Indices: 57055643--57055690 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
57055633 TGCAAATATC
57055643 ATACCCATATCTTTCTG
1 ATACCCATATCTTTCTG
**
57055660 ATACTTATATCTTTCTG
1 ATACCCATATCTTTCTG
57055677 ATACCCATATCTTT
1 ATACCCATATCTTT
57055691 GACTTTCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.46
Consensus pattern (17 bp):
ATACCCATATCTTTCTG
Found at i:57059577 original size:17 final size:17
Alignment explanation
Indices: 57059555--57059604 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
57059545 TCTCAAATTT
57059555 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
* *
57059572 TGATACCTATATCCTTC
1 TGATACCCATATCTTTC
57059589 TGATACCCATATCTTT
1 TGATACCCATATCTTT
57059605 GATTTTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:57062794 original size:6 final size:6
Alignment explanation
Indices: 57062783--57062833 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
57062773 TCTTAGGAAA
* *
57062783 TTTATG TTTATG TTTATG TTTAGG TTTACTG -TTAT- TTTAGTT TTTATG
1 TTTATG TTTATG TTTATG TTTATG TTTA-TG TTTATG TTTA-TG TTTATG
57062831 TTT
1 TTT
57062834 TATTTTTCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 4 0.11
6 29 0.76
7 5 0.13
ACGTcount: A:0.16, C:0.02, G:0.16, T:0.67
Consensus pattern (6 bp):
TTTATG
Found at i:57062809 original size:18 final size:17
Alignment explanation
Indices: 57062783--57062839 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
57062773 TCTTAGGAAA
*
57062783 TTTATGTTTATGTTTAT
1 TTTAGGTTTATGTTTAT
57062800 GTTTAGGTTTACTG-TTAT
1 -TTTAGGTTTA-TGTTTAT
*
57062818 TTTAGTTTTTATGTTTTAT
1 TTTAG-GTTTATG-TTTAT
57062837 TTT
1 TTT
57062840 TCTTGTCGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
17 7 0.21
18 17 0.52
19 9 0.27
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.68
Consensus pattern (17 bp):
TTTAGGTTTATGTTTAT
Found at i:57067209 original size:50 final size:50
Alignment explanation
Indices: 57067102--57067348 Score: 210
Period size: 50 Copynumber: 4.8 Consensus size: 50
57067092 ATTTGGGTAA
* *
57067102 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
57067158 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
57067208 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * * * * *
57067258 AGAACTCCCATGCAAGACCATATCTAGGATATGACATTTGTA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
57067307 AAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
57067349 TGTTATTATC
Statistics
Matches: 156, Mismatches: 34, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 33 0.21
50 78 0.50
53 3 0.02
55 1 0.01
56 40 0.26
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:57070934 original size:51 final size:51
Alignment explanation
Indices: 57070803--57070998 Score: 191
Period size: 51 Copynumber: 3.9 Consensus size: 51
57070793 AGTGAAAGTG
* * * *
57070803 ATGGTAACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGGT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATAGTA
* ** **
57070854 A-GGTCTCATGTGTAGTACTATGTATAGGCTACTATATGTACCGGATAGT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * ** * *
57070903 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGAATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* *
57070955 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
57070999 AACATCATTT
Statistics
Matches: 116, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 4 0.03
50 37 0.32
51 74 0.64
52 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:57070993 original size:26 final size:26
Alignment explanation
Indices: 57070913--57070993 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
57070903 TTCGATCACG
57070913 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
57070939 CGTGTATTGA--ATG-GTAATGG-TCAC-A
1 TGTGTAGT-ACTATGTG-CA-GGCT-ACTA
57070964 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
57070990 TGTG
1 TGTG
57070994 AACCGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:57071051 original size:45 final size:45
Alignment explanation
Indices: 57070995--57071089 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
57070985 TACTATGTGA
* * *
57070995 ACCGAACATCATTTATTAGTAAAGTGGTTGTTATATGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATATGCTGAATCC
* * *
57071040 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATATGCTGAATCC
57071085 ACCGA
1 ACCGA
57071090 GTATCTATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGGTTGCTATATGCTGAATCC
Found at i:57076722 original size:19 final size:20
Alignment explanation
Indices: 57076682--57076723 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
57076672 TTTTGTGCGA
57076682 TTTTCTTTGTTCACTTACATT
1 TTTTCTTTGTTCACTTA-ATT
*
57076703 TTTTCTTTGTTCTCTT-ATT
1 TTTTCTTTGTTCACTTAATT
57076722 TT
1 TT
57076724 CTGGTTCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
21 15 0.75
ACGTcount: A:0.10, C:0.17, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTTCTTTGTTCACTTAATT
Found at i:57078561 original size:22 final size:24
Alignment explanation
Indices: 57078509--57078566 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 24
57078499 TTTGAAATGT
*
57078509 TTAGAAACTAAATAATTGAAACAA
1 TTAGAAACTAAATAATTGAAAAAA
* *
57078533 -CATAAA-TAAATAATT-AAAAAA
1 TTAGAAACTAAATAATTGAAAAAA
*
57078554 TTAGAAATTAAAT
1 TTAGAAACTAAAT
57078567 TAGAAATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
21 5 0.19
22 13 0.48
23 9 0.33
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (24 bp):
TTAGAAACTAAATAATTGAAAAAA
Found at i:57078566 original size:12 final size:12
Alignment explanation
Indices: 57078551--57078579 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
57078541 AATAATTAAA
57078551 AAATTAGAAATT
1 AAATTAGAAATT
57078563 AAATTAGAAATT
1 AAATTAGAAATT
57078575 AAATT
1 AAATT
57078580 CGGATTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
AAATTAGAAATT
Found at i:57085841 original size:22 final size:21
Alignment explanation
Indices: 57085814--57085854 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
57085804 AGTAGTACTG
*
57085814 TGTTATGCATATTTGATTATTC
1 TGTTATACATATTTG-TTATTC
*
57085836 TGTTATATATATTTGTTAT
1 TGTTATACATATTTGTTAT
57085855 CTATATGCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.24, C:0.05, G:0.12, T:0.59
Consensus pattern (21 bp):
TGTTATACATATTTGTTATTC
Found at i:57090223 original size:20 final size:19
Alignment explanation
Indices: 57090133--57090226 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 19
57090123 TACGGGATAT
* *
57090133 CACTTTGGTGCCCCTGTTAG
1 CACTTTGGTGCCTCTATT-G
* * *
57090153 CACTTTTGTGCCTCTGTTTC
1 CACTTTGGTGCCTCT-ATTG
*
57090173 CACTTTGGTGTCTCTGATTG
1 CACTTTGGTGCCTCT-ATTG
** *
57090193 CACAATCGTGCCTCTATCTG
1 CACTTTGGTGCCTCTAT-TG
57090213 CACTTTGGTGCCTC
1 CACTTTGGTGCCTC
57090227 AGTTACGCAT
Statistics
Matches: 57, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
19 2 0.04
20 53 0.93
21 2 0.04
ACGTcount: A:0.11, C:0.30, G:0.20, T:0.39
Consensus pattern (19 bp):
CACTTTGGTGCCTCTATTG
Found at i:57091356 original size:25 final size:25
Alignment explanation
Indices: 57091315--57091375 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
57091305 TTATAACACA
57091315 GGGCATAACATTCATTTTACCACATGG
1 GGGCAT-A-ATTCATTTTACCACATGG
57091342 GGGCATAATTCATTTTACCACATGG
1 GGGCATAATTCATTTTACCACATGG
57091367 GGGCATAAT
1 GGGCATAAT
57091376 AGTCATTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 27 0.79
26 1 0.03
27 6 0.18
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (25 bp):
GGGCATAATTCATTTTACCACATGG
Found at i:57097388 original size:29 final size:29
Alignment explanation
Indices: 57097341--57097403 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
57097331 AATTCACGGC
*
57097341 AACTCAGTAATTTGCTAACTTGTGAGCAT
1 AACTCAGTAATTTGCTAACTTATGAGCAT
57097370 AACTCAGTAATTT-CTTAACTTATGAGCAT
1 AACTCAGTAATTTGC-TAACTTATGAGCAT
57097399 -ACTCA
1 AACTCA
57097404 CCTATCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (29 bp):
AACTCAGTAATTTGCTAACTTATGAGCAT
Found at i:57097451 original size:13 final size:13
Alignment explanation
Indices: 57097435--57097462 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57097425 CTTGACTATA
57097435 TCTCTATGTCAAT
1 TCTCTATGTCAAT
57097448 TCTCTATGTCAAT
1 TCTCTATGTCAAT
57097461 TC
1 TC
57097463 AACCGATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.25, G:0.07, T:0.46
Consensus pattern (13 bp):
TCTCTATGTCAAT
Found at i:57098649 original size:21 final size:22
Alignment explanation
Indices: 57098619--57098663 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
57098609 TATTTAACCC
*
57098619 AAAATAAATTGGATTA-AAATT
1 AAAATAAATTAGATTATAAATT
* *
57098640 AAAATTAATTATATTATAAATT
1 AAAATAAATTAGATTATAAATT
57098662 AA
1 AA
57098664 TACTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAATAAATTAGATTATAAATT
Found at i:57100822 original size:3 final size:3
Alignment explanation
Indices: 57100814--57100869 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
57100804 CTCTGTGGGA
57100814 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
57100862 TCT TCT TC
1 TCT TCT TC
57100870 GTTGCTGGAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:57102629 original size:30 final size:29
Alignment explanation
Indices: 57102572--57102630 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
57102562 TGCCTTTGAA
*
57102572 AATATTTACAAAAAGAAACATCTAATTTTT
1 AATATTTACAAAAAGAAACA-CAAATTTTT
57102602 AATATTTACAAAAAGAGCAAC-CAAATTTT
1 AATATTTACAAAAAGA--AACACAAATTTT
57102631 GAAAATAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 23 0.88
32 3 0.12
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (29 bp):
AATATTTACAAAAAGAAACACAAATTTTT
Found at i:57102960 original size:15 final size:15
Alignment explanation
Indices: 57102937--57102976 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
57102927 AATGAACGAG
*
57102937 ATTTAATCCCGTTCA
1 ATTTTATCCCGTTCA
57102952 ATTTTATCCCGTTCA
1 ATTTTATCCCGTTCA
57102967 ATTTTATCCC
1 ATTTTATCCC
57102977 CCAATAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.23, C:0.28, G:0.05, T:0.45
Consensus pattern (15 bp):
ATTTTATCCCGTTCA
Found at i:57117950 original size:27 final size:27
Alignment explanation
Indices: 57117920--57118097 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57117910 ATATTGAGTC
* * * *
57117920 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
57117947 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
57117974 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
57118002 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
57118029 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
57118056 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
57118083 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57118098 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:57118059 original size:82 final size:81
Alignment explanation
Indices: 57117941--57118096 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57117931 TGCTATATAA
* *
57117941 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
57118006 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
57118023 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
57118087 CACTTAGTGC
65 CACTTAGTGC
57118097 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:57118596 original size:12 final size:12
Alignment explanation
Indices: 57118579--57118605 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57118569 ATGGCATACT
57118579 TATGTATATATA
1 TATGTATATATA
57118591 TATGTATATATA
1 TATGTATATATA
57118603 TAT
1 TAT
57118606 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:57124950 original size:18 final size:17
Alignment explanation
Indices: 57124910--57124950 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
57124900 TAATAAAATT
57124910 TATATTTAAAATTTTAAA
1 TATA-TTAAAATTTTAAA
*
57124928 AATATTAAAATTTTAAA
1 TATATTAAAATTTTAAA
57124945 GTATAT
1 -TATAT
57124951 CAAATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TATATTAAAATTTTAAA
Done.