Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 247 of 325
Found at i:78197491 original size:48 final size:48
Alignment explanation
Indices: 78197256--78197490 Score: 371
Period size: 48 Copynumber: 4.9 Consensus size: 48
78197246 AAACTTTGTA
* *
78197256 ATTAAAACGAGGAATAAACTTTGTAATATAAACTAGATACATTACAAC
1 ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
* *
78197304 ATTAGAACGAGGAACAAAATTTGTAATATAAATTAGATACATTACAAC
1 ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
*
78197352 ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGACACATTACAAC
1 ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
* *
78197400 ATTAAAATGAGGAACAAACTTTGTAATATAAATTAGATACATTGCAAC
1 ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
* * * *
78197448 ATTAAAATGATGAACATACTTTGTAATATAAATTAGGTACATT
1 ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATT
78197491 GGATTACATT
Statistics
Matches: 174, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 174 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (48 bp):
ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
Found at i:78203789 original size:25 final size:24
Alignment explanation
Indices: 78203747--78203813 Score: 61
Period size: 25 Copynumber: 2.9 Consensus size: 24
78203737 TTAGTTTCTC
* *
78203747 AATAAA-ATTTAATAAAAATTATT
1 AATAAATAATTAATTAAAATTATT
* *
78203770 AATAATTCAATTAATTAAAAAT-TT
1 AATAAAT-AATTAATTAAAATTATT
78203794 AATAAATAA--AATTAAAATTA
1 AATAAATAATTAATTAAAATTA
78203814 AAAAATTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
21 9 0.26
23 7 0.20
24 8 0.23
25 11 0.31
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (24 bp):
AATAAATAATTAATTAAAATTATT
Found at i:78204490 original size:22 final size:24
Alignment explanation
Indices: 78204454--78204501 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
78204444 AATTTTATGC
78204454 TAAATTGATAAAGAT-TAA-TATA
1 TAAATTGATAAAGATATAATTATA
78204476 TAAATT-ATAATAGATATAATTATA
1 TAAATTGATAA-AGATATAATTATA
78204500 TA
1 TA
78204502 TTAAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 3 0.13
24 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAATTGATAAAGATATAATTATA
Found at i:78214816 original size:4 final size:4
Alignment explanation
Indices: 78214807--78214873 Score: 75
Period size: 4 Copynumber: 16.5 Consensus size: 4
78214797 AAAATTACAT
* *
78214807 TTTC TTTC TTT- TTTT TCTTC TAT- TTTC TTTC TTTC TTTC TTTC TTCTC
1 TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC
78214855 ATTTC TTTC TTTC TTTC TT
1 -TTTC TTTC TTTC TTTC TT
78214874 CCTTATGTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
3 5 0.09
4 41 0.75
5 7 0.13
6 2 0.04
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:78214827 original size:12 final size:13
Alignment explanation
Indices: 78214806--78214865 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
78214796 TAAAATTACA
78214806 TTTTCTTTCT-TTT
1 TTTTC-TTCTATTT
78214819 TTTTCTTCTATTT
1 TTTTCTTCTATTT
*
78214832 TCTTTCTT-TCTTT
1 T-TTTCTTCTATTT
*
78214845 CTTTCTTCTCATTT
1 TTTTCTTCT-ATTT
*
78214859 CTTTCTT
1 TTTTCTT
78214866 TCTTTCTTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 10 0.25
13 14 0.35
14 16 0.40
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTCTTCTATTT
Found at i:78214859 original size:26 final size:26
Alignment explanation
Indices: 78214805--78214873 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
78214795 ATAAAATTAC
78214805 ATTTTCTTTC-TT-TTT-TTTCTTCT
1 ATTTTCTTTCTTTCTTTCTTTCTTCT
78214828 ATTTTCTTTCTTTCTTTCTTTCTTCT
1 ATTTTCTTTCTTTCTTTCTTTCTTCT
78214854 CA-TTTCTTTCTTTCTTTCTT
1 -ATTTTCTTTCTTTCTTTCTT
78214874 CCTTATGTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
23 10 0.24
24 2 0.05
25 3 0.07
26 26 0.62
27 1 0.02
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (26 bp):
ATTTTCTTTCTTTCTTTCTTTCTTCT
Found at i:78220257 original size:34 final size:35
Alignment explanation
Indices: 78220214--78220284 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 35
78220204 TTGAGACTTG
*
78220214 AAAATTTTGAAGGTGAAGACATTTTTTT-AACCTC
1 AAAATTTTGAAGATGAAGACATTTTTTTGAACCTC
* *
78220248 AAAATTTTGAAGATGACGACCTTTTTTTGAACCTC
1 AAAATTTTGAAGATGAAGACATTTTTTTGAACCTC
78220283 AA
1 AA
78220285 CTAATTGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 25 0.76
35 8 0.24
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (35 bp):
AAAATTTTGAAGATGAAGACATTTTTTTGAACCTC
Found at i:78220727 original size:3 final size:3
Alignment explanation
Indices: 78220719--78220779 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
78220709 ATGGTTAACT
* * *
78220719 GAA GAA GAA GACA -AA GAA GAA -AA GGA GAA -AGA GAA GGA GAA GGA
1 GAA GAA GAA GA-A GAA GAA GAA GAA GAA GAA GA-A GAA GAA GAA GAA
78220763 GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GA
78220780 CCCTCCTGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
2 4 0.09
3 41 0.87
4 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:78220763 original size:18 final size:18
Alignment explanation
Indices: 78220719--78220778 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
78220709 ATGGTTAACT
*
78220719 GAAGAAGAAGACA-AAGAA
1 GAAGAAGGAGA-AGAAGAA
78220737 GAA-AAGGAGAA-AGAGAA
1 GAAGAAGGAGAAGA-AGAA
*
78220754 GGAGAAGGAGAAGAAGAA
1 GAAGAAGGAGAAGAAGAA
78220772 GAAGAAG
1 GAAGAAG
78220779 ACCCTCCTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 2 0.06
17 12 0.33
18 21 0.58
19 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.37, T:0.00
Consensus pattern (18 bp):
GAAGAAGGAGAAGAAGAA
Found at i:78220833 original size:21 final size:21
Alignment explanation
Indices: 78220809--78220868 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
78220799 CAACGTGTCA
* *
78220809 AGTTAATTGGCCACGTCAGTT
1 AGTTAACTGGCCACGTCAGCT
* *
78220830 AGTTAACTAGCCACATCAGCT
1 AGTTAACTGGCCACGTCAGCT
78220851 AGTTAACTGGCCACGTCA
1 AGTTAACTGGCCACGTCA
78220869 ACTGTCCCGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (21 bp):
AGTTAACTGGCCACGTCAGCT
Found at i:78222414 original size:25 final size:24
Alignment explanation
Indices: 78222372--78222423 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
78222362 CACAAATGCA
78222372 GCTCTTTATGAGCGTCCTAATATAG
1 GCTCTTTATGAGCGTCCTAATAT-G
* ** *
78222397 GCTCTTTGTGAGTTTCCTGATATG
1 GCTCTTTATGAGCGTCCTAATATG
78222421 GCT
1 GCT
78222424 TGCTTGAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.40
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCTAATATG
Found at i:78222533 original size:45 final size:47
Alignment explanation
Indices: 78222469--78222557 Score: 121
Period size: 45 Copynumber: 1.9 Consensus size: 47
78222459 GCCTGATAAT
*
78222469 AACTCTTTAGAGTTACCTGTTA-AGCTC-AATAAGCTTCCTATTTTA
1 AACTCTTTAGAGTTACCTGTTATAGCCCGAATAAGCTTCCTATTTTA
* *
78222514 AACTC-TTATGAGTTTCCTGTTATAGCCCGGATAAGCTTCCTATT
1 AACTCTTTA-GAGTTACCTGTTATAGCCCGAATAAGCTTCCTATT
78222558 ACATGGCTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 3 0.08
45 17 0.45
46 4 0.11
47 14 0.37
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (47 bp):
AACTCTTTAGAGTTACCTGTTATAGCCCGAATAAGCTTCCTATTTTA
Found at i:78225756 original size:6 final size:5
Alignment explanation
Indices: 78225706--78225755 Score: 73
Period size: 5 Copynumber: 9.4 Consensus size: 5
78225696 TGTGTGCTCC
78225706 TTATT TTATT TTATCT TTATCT TTATCT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTAT-T TTAT-T TTAT-T TTATT TTATT TTATT TTATT
78225754 TT
1 TT
78225756 TTCACAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 27 0.61
6 17 0.39
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:78234497 original size:26 final size:25
Alignment explanation
Indices: 78234441--78234513 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 25
78234431 GAAACCGTAC
**
78234441 TCTA-TTTTATTTTTAAAAATATTT
1 TCTATTTTTATTTTTAAAAATAACT
78234465 TCTATTTTTATTTTTAAAAAGTAGACT
1 TCTATTTTTATTTTTAAAAA-TA-ACT
* *
78234492 TCATTTTTTTAATTTTAAAAAT
1 TC-TATTTTTATTTTTAAAAAT
78234514 TAAAAAATTG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 4 0.10
25 15 0.37
26 2 0.05
27 4 0.10
28 16 0.39
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (25 bp):
TCTATTTTTATTTTTAAAAATAACT
Found at i:78234498 original size:25 final size:24
Alignment explanation
Indices: 78234441--78234513 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 24
78234431 GAAACCGTAC
**
78234441 TCTATTTTATTTTTAAAAATATTT
1 TCTATTTTATTTTTAAAAATAACT
78234465 TCTATTTTTATTTTTAAAAAGTAGACT
1 TCTA-TTTTATTTTTAAAAA-TA-ACT
* *
78234492 TCATTTTTTTAATTTTAAAAAT
1 TC--TATTTTATTTTTAAAAAT
78234514 TAAAAAATTG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 4 0.10
25 15 0.38
26 2 0.05
27 4 0.10
28 14 0.35
29 1 0.03
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (24 bp):
TCTATTTTATTTTTAAAAATAACT
Found at i:78242753 original size:47 final size:48
Alignment explanation
Indices: 78242682--78242774 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 48
78242672 TGAATAGTGT
* * *
78242682 CACCAAAATCGCAGATAAACTGCCA-ATAATCAATATCGTGGACAAGC
1 CACCAAAATCGCAAATAAACTGCCACATAATCAAAATCGTGAACAAGC
* *
78242729 CACCAAAATCGCAAATATATTGCCACATAATCAAAATCGTGAACAA
1 CACCAAAATCGCAAATAAACTGCCACATAATCAAAATCGTGAACAA
78242775 TGTCACATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 22 0.55
48 18 0.45
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.18
Consensus pattern (48 bp):
CACCAAAATCGCAAATAAACTGCCACATAATCAAAATCGTGAACAAGC
Found at i:78243767 original size:12 final size:12
Alignment explanation
Indices: 78243746--78243784 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
78243736 GACACTTGTG
78243746 AAAA-AGAAGAA
1 AAAAGAGAAGAA
78243757 AAAAGAGAAGAA
1 AAAAGAGAAGAA
* *
78243769 AGAGGAGAAGAA
1 AAAAGAGAAGAA
78243781 AAAA
1 AAAA
78243785 TGAGTATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAAAGAGAAGAA
Found at i:78246218 original size:68 final size:69
Alignment explanation
Indices: 78246108--78246636 Score: 371
Period size: 68 Copynumber: 7.8 Consensus size: 69
78246098 ACGTGATCTA
* * * ** * *
78246108 AGCGTGATCTTAAATCACCGTGCTATGTAAATTAGTTGTGATCTTAAAACAATAG-GCTGTAAGA
1 AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAAGA
78246172 TAGG
66 TAGG
* * * * * *
78246176 AGCGTGATCTTAAATCAGCATCCTATGTAGATTAACCATGATCTTAAATCAA-CGAACTGTAAGA
1 AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAAGA
*
78246240 TATG
66 TAGG
* ** * * * *
78246244 AGCGTGATCTTAAATTGGCGTGCTATGTAGATTAGCCTTGATCTTAAATCAATAG-TCTATAAAA
1 AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAAGA
78246308 TAAGG
66 T-AGG
* * ** ** * *
78246313 -GCGCGATCTTAAAT-TGACGTGCTATGTAAATTAGTTGTGATCTTAAATC-AGCGAGCTATAAG
1 AGCGCGATCTTAAATCAG-CGTGCTATGTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAAG
78246375 ATAGG
65 ATAGG
* * * * * * * * *
78246380 AGTGCGATCTTAAATCGGTGTGCTATAT-GAGTTAACCATGATATTAAATCAGT-GAATTGTAAG
1 AGCGCGATCTTAAATCAGCGTGCTATGTAGA-TTAGCCGTGATCTTAAATCAATAGAACTGTAAG
78246443 ATAGG
65 ATAGG
* * ** * *
78246448 AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTCAATTAGCAG-ACTATAAAA
1 AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAAGA
**
78246512 TACA
66 TAGG
* * * * * * * * ** * **
78246516 AGTGTGATCTGAAAT-TGATGTGATATAG-AAATTAGTCACGATCTTAAATCAGT-GGGCTGTAA
1 AGCGCGATCTTAAATCAG-CGTGCTAT-GTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAA
78246578 GATAGG
64 GATAGG
* * *
78246584 AGCGCAATCTTAAATCAGTGTGCTATGTAGGTTAGCCGTGATCTTAAATCAAT
1 AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAAT
78246637 GGACTATAAA
Statistics
Matches: 352, Mismatches: 93, Indels: 32
0.74 0.19 0.07
Matches are distributed among these distances:
67 11 0.03
68 332 0.94
69 9 0.03
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (69 bp):
AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAAGA
TAGG
Found at i:78246354 original size:136 final size:136
Alignment explanation
Indices: 78246108--78246645 Score: 469
Period size: 136 Copynumber: 4.0 Consensus size: 136
78246098 ACGTGATCTA
** * * * *
78246108 AGCGTGATCTTAAATCACCGTGCTATGTAAATTAG-TTGTGATCTTAAAACAATAGGCTGTAAGA
1 AGCGTGATCTTAAATCGGCGTGCTATGTAGATTAGCCT-TGATCTTAAATCAATAGTCTGTAAGA
* * * * * *
78246172 TAGGAGCGTGATCTTAAATCAGCATCCTATGTAGATTAACCATGATCTTAAATCAACGAACTGTA
65 TAGGAGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGAACTATA
*
78246237 AGATATG
130 AGATAGG
* * *
78246244 AGCGTGATCTTAAATTGGCGTGCTATGTAGATTAGCCTTGATCTTAAATCAATAGTCTATAAAAT
1 AGCGTGATCTTAAATCGGCGTGCTATGTAGATTAGCCTTGATCTTAAATCAATAGTCTGTAAGAT
* * ** * *
78246309 AAGG-GCGCGATCTTAAAT-TGACGTGCTATGTAAATTAGTTGTGATCTTAAATCAGCGAGCTAT
66 -AGGAGCGCGATCTTAAATCAG-CGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGAACTAT
78246372 AAGATAGG
129 AAGATAGG
* * * * * * * * *
78246380 AGTGCGATCTTAAATCGGTGTGCTATAT-GAGTTAACCATGATATTAAATCAGTGAAT-TGTAAG
1 AGCGTGATCTTAAATCGGCGTGCTATGTAGA-TTAGCCTTGATCTTAAATCAAT-AGTCTGTAAG
* * *
78246443 ATAGGAGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTCAATTAGC-AGACTA
64 ATAGGAGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGA-ACTA
* **
78246507 TAAAATACA
128 TAAGATAGG
* * * ** * * * ** * * *
78246516 AGTGTGATCTGAAATTGATGTGATATAG-AAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGA
1 AGCGTGATCTTAAATCGGCGTGCTAT-GTAGATTAGCCTTGATCTTAAATCAATAGTCTGTAAGA
* * * * *
78246580 TAGGAGCGCAATCTTAAATCAGTGTGCTATGTAGGTTAGCCGTGATCTTAAATCAATGGACTATA
65 TAGGAGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGAACTATA
78246645 A
130 A
78246646 AACAAGGGCG
Statistics
Matches: 324, Mismatches: 66, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
135 7 0.02
136 309 0.95
137 8 0.02
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (136 bp):
AGCGTGATCTTAAATCGGCGTGCTATGTAGATTAGCCTTGATCTTAAATCAATAGTCTGTAAGAT
AGGAGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGAACTATAA
GATAGG
Found at i:78246664 original size:68 final size:67
Alignment explanation
Indices: 78246113--78246700 Score: 310
Period size: 68 Copynumber: 8.7 Consensus size: 67
78246103 ATCTAAGCGT
* * ** * * *
78246113 GATCTTAAATCACCGTGCTATGTAAATTAGTTGTGATCTTAAAACAATAGG-CTGTAAGATAGGA
1 GATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAAT-GGACTATAAGAAAGG-
*
78246177 GCGT
64 GCGC
* * * * * * * * *
78246181 GATCTTAAATCAGCATCCTATGTAGATTAACCATGATCTTAAATCAACGAACTGTAAGATATGAG
1 GATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATGGACTATAAGA-AAGGG
*
78246246 CGT
65 CGC
** * * * *
78246249 GATCTTAAATTGGCGTGCTATGTAGATTAGCCTTGATCTTAAATCAATAGTCTATAAAATAAGGG
1 GATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATGGACTATAAGA-AAGGG
78246314 CGC
65 CGC
* * ** *
78246317 GATCTTAAAT-TGACGTGCTATGTAAATTAGTTGTGATCTTAAATC-A-GCGAGCTATAAGATAG
1 GATCTTAAATCAG-CGTGCTATGTAGATTAGCCGTGATCTTAAATCAATG-GA-CTATAAGAAAG
*
78246379 GAGTGC
63 G-GCGC
* * * * * * * * * * *
78246385 GATCTTAAATCGGTGTGCTATAT-GAGTTAACCATGATATTAAATCAGTGAATTGTAAGATAGGA
1 GATCTTAAATCAGCGTGCTATGTAGA-TTAGCCGTGATCTTAAATCAATGGACTATAAGAAAGG-
78246449 GCGC
64 GCGC
* * *** **
78246453 GATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTCAATTAGCAGACTATAA-AATACAA
1 GATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATGGACTATAAGAA-A-GG
* *
78246517 GTGT
64 GCGC
* * * * * * ** * * * *
78246521 GATCTGAAAT-TGATGTGATATAG-AAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAGG
1 GATCTTAAATCAG-CGTGCTAT-GTAGATTAGCCGTGATCTTAAATCAATGGACTATAAGAAAGG
78246584 AGCGC
64 -GCGC
* * * *
78246589 AATCTTAAATCAGTGTGCTATGTAGGTTAGCCGTGATCTTAAATCAATGGACTATAAAACAAGGG
1 GATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATGGACTATAAGA-AAGGG
78246654 CGC
65 CGC
* ** * * * * *
78246657 AATCTTAAATTGGTGTACTATGTAAATTAGTCGTGATATTAAAT
1 GATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAAT
78246701 TAGCTGGCTG
Statistics
Matches: 389, Mismatches: 111, Indels: 40
0.72 0.21 0.07
Matches are distributed among these distances:
67 11 0.03
68 366 0.94
69 11 0.03
70 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (67 bp):
GATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATGGACTATAAGAAAGGGC
GC
Found at i:78246664 original size:204 final size:203
Alignment explanation
Indices: 78246126--78246704 Score: 588
Period size: 204 Copynumber: 2.8 Consensus size: 203
78246116 CTTAAATCAC
* *** * * * *
78246126 CGTGCTATGTAAATTAGTTGTGATCTTAAAACAATAGGCTGTAAGATAGGAGCGTGATCTTAAAT
1 CGTGATATGTAAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAGGAGCGCGATCTTAAAT
** * * * * * *
78246191 CAGCATCCTATGTAGATTAACCATGATCTTAAATCAACGAACTGTAAGATATGAGCGTGATCTTA
66 CAGTGTGCTATGTAGGTTAACCATGATCTTAAATCAATGAACTGTAAGA-AAGGGCGCGATCTTA
* * ** * *
78246256 AATTGGCGTGCTATGTAGATTAGCCTTGATCTTAAATCAATAGTCTATAAAATAAGGGCGCGATC
130 AATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATTAGCAGACTATAAAATAAGAGCGCGATC
*
78246321 TTAAATTGA
195 TGAAATTGA
* *** * * * *
78246330 CGTGCTATGTAAATTAGTTGTGATCTTAAATCAGCGAGCTATAAGATAGGAGTGCGATCTTAAAT
1 CGTGATATGTAAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAGGAGCGCGATCTTAAAT
* * * * * *
78246395 CGGTGTGCTATAT-GAGTTAACCATGATATTAAATCAGTGAATTGTAAGATAGGAGCGCGATCTT
66 CAGTGTGCTATGTAG-GTTAACCATGATCTTAAATCAATGAACTGTAAGAAAGG-GCGCGATCTT
** * * *
78246459 AAATCAGCGTGCTATGTAGATTAGCCGTGATCTTCAATTAGCAGACTATAAAATACA-AGTGTGA
129 AAATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATTAGCAGACTATAAAATA-AGAGCGCGA
78246523 TCTGAAATTGA
193 TCTGAAATTGA
* *
78246534 TGTGATATAG-AAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAGGAGCGCAATCTTAAA
1 CGTGATAT-GTAAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAGGAGCGCGATCTTAAA
* * * * * *
78246598 TCAGTGTGCTATGTAGGTTAGCCGTGATCTTAAATCAATGGACTATAAAACAAGGGCGCAATCTT
65 TCAGTGTGCTATGTAGGTTAACCATGATCTTAAATCAATGAACTGTAAGA-AAGGGCGCGATCTT
* * * * *
78246663 AAATTGGTGTACTATGTAAATTAGTCGTGATATTAAATTAGC
129 AAATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATTAGC
78246705 TGGCTGTAAG
Statistics
Matches: 305, Mismatches: 64, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
203 2 0.01
204 297 0.97
205 6 0.02
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (203 bp):
CGTGATATGTAAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAGGAGCGCGATCTTAAAT
CAGTGTGCTATGTAGGTTAACCATGATCTTAAATCAATGAACTGTAAGAAAGGGCGCGATCTTAA
ATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATTAGCAGACTATAAAATAAGAGCGCGATCT
GAAATTGA
Found at i:78246684 original size:136 final size:136
Alignment explanation
Indices: 78246130--78246714 Score: 461
Period size: 136 Copynumber: 4.3 Consensus size: 136
78246120 AATCACCGTG
** * * *
78246130 CTATGTAAATTAGTTGTGATCTTAAAACAATAGGCTGTAAGATAGGAGCGTGATCTTAAATCAGC
1 CTATGTAAATTAGTCATGATCTTAAATCAGTAGGCTGTAAGATAGGAGCGCGATCTTAAATCAGC
* * * * * * * * * * *
78246195 ATCCTATGTAGATTAACCATGATCTTAAATCAACGAACTGTAAGATATGAGCGTGATCTTAAATT
66 GTGCTATGTAGATTAGCCGTGATCTTAAATCAACGGACTATAAAACAAGGGCGCGATCTTAAATT
* *
78246260 GGCGTG
131 GGTGTA
* * * * * * * *
78246266 CTATGTAGATTAGCCTTGATCTTAAATCAATAGTCTATAAAATAAGG-GCGCGATCTTAAAT-TG
1 CTATGTAAATTAGTCATGATCTTAAATCAGTAGGCTGTAAGAT-AGGAGCGCGATCTTAAATCAG
* ** * * * *
78246329 ACGTGCTATGTAAATTAGTTGTGATCTTAAATCAGC-GAGCTATAAGA-TAGGAGTGCGATCTTA
65 -CGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGGA-CTATAAAACAAGG-GCGCGATCTTA
* *
78246392 AATCGGTGTG
127 AATTGGTGTA
* * * ** * **
78246402 CTATATGAGTTAACCATGATATTAAATCAGT-GAATTGTAAGATAGGAGCGCGATCTTAAATCAG
1 CTATGTAAATTAGTCATGATCTTAAATCAGTAG-GCTGTAAGATAGGAGCGCGATCTTAAATCAG
* * * * * * *
78246466 CGTGCTATGTAGATTAGCCGTGATCTTCAATTAGCAGACTATAAAATACAA--GTGTGATCTGAA
65 CGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGGACTAT-AAA-ACAAGGGCGCGATCTTAA
*
78246529 ATTGATGTGA
128 ATTGGTGT-A
* * *
78246539 -TATAG-AAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAGGAGCGCAATCTTAAATCAG
1 CTAT-GTAAATTAGTCATGATCTTAAATCAGTAGGCTGTAAGATAGGAGCGCGATCTTAAATCAG
* * * *
78246602 TGTGCTATGTAGGTTAGCCGTGATCTTAAATCAATGGACTATAAAACAAGGGCGCAATCTTAAAT
65 CGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGGACTATAAAACAAGGGCGCGATCTTAAAT
78246667 TGGTGTA
130 TGGTGTA
* * *
78246674 CTATGTAAATTAGTCGTGATATTAAATTAGCT-GGCTGTAAG
1 CTATGTAAATTAGTCATGATCTTAAATCAG-TAGGCTGTAAG
78246715 GTATAAGTGT
Statistics
Matches: 352, Mismatches: 78, Indels: 38
0.75 0.17 0.08
Matches are distributed among these distances:
134 4 0.01
135 12 0.03
136 324 0.92
137 10 0.03
138 1 0.00
139 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (136 bp):
CTATGTAAATTAGTCATGATCTTAAATCAGTAGGCTGTAAGATAGGAGCGCGATCTTAAATCAGC
GTGCTATGTAGATTAGCCGTGATCTTAAATCAACGGACTATAAAACAAGGGCGCGATCTTAAATT
GGTGTA
Found at i:78257101 original size:46 final size:46
Alignment explanation
Indices: 78256999--78257218 Score: 191
Period size: 46 Copynumber: 4.7 Consensus size: 46
78256989 GGTAGTATGC
* * *
78256999 CGATGTCATGTCCCAGACATGGTCTCACACTGGCTC--ATCTCGTA-GT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTTGTCTC-AAGGT
* *
78257045 CGATGCATGTCTCGGACATGTCTTACACTGGCT-TACT-TCTCAAGGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT--TGTCTCAAGGT
* * *
78257091 CGATGTATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTTGTCTCAAGGT
* ** * **
78257137 CGATGCCATGTCCCAGACATGGTCTTACACTGTCTCTCATAAT-GTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTTGT-CTCAAGGT
*
78257185 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTC
78257219 ACAATAACCC
Statistics
Matches: 144, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
44 13 0.09
45 14 0.10
46 66 0.46
47 28 0.19
48 22 0.15
49 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTTGTCTCAAGGT
Found at i:78263611 original size:46 final size:45
Alignment explanation
Indices: 78263526--78263748 Score: 222
Period size: 46 Copynumber: 4.8 Consensus size: 45
78263516 GGTAAGATGC
* *
78263526 CGATGCCATGTCCCAGAGATGGTCTTACACTA-CCT-CATCTCATAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCA-AGT
* *
78263572 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTC-AAGT
*
78263618 CGATGCATGTCCCACACATGTCTTACACTAGCTCTA-ATCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCAA-GT
* * * *
78263664 CGATGCCATGTCCCAGACATGGTCTTATACTGGCTTTCAT-T-ATGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCAAGT
*
78263709 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTTACA
1 ---CGATGCATGTCCCAGACATGTCTTACACTAGCTTACA
78263749 ATAACCCGTA
Statistics
Matches: 150, Mismatches: 16, Indels: 22
0.80 0.09 0.12
Matches are distributed among these distances:
44 11 0.07
45 18 0.12
46 71 0.47
47 31 0.21
48 19 0.13
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGT
Found at i:78263717 original size:94 final size:92
Alignment explanation
Indices: 78263524--78263744 Score: 279
Period size: 94 Copynumber: 2.4 Consensus size: 92
78263514 GAGGTAAGAT
* *
78263524 GCCGATGCCATGTCCCAGAGATGGTCTTACACTA-C-CTCATCTCATAGTCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTAATCTCATAGTCGATGCATGTCCCAG
78263587 ACATGTCTTACACTAGCTTACATCTCGAG
64 ACATGTCTTACACTAGCTTACATCTCGAG
*
78263616 GCCGATGCATGTCCCACACATGTCTTACACTAGCTCTAATCTCA-ATGTCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTAATCTCATA-GTCGATG-CATGTCCCAG
* * * * *
78263680 ACATGGTCTTATACTGGCTTTCAT-TATGTG
64 ACAT-GTCTTACACTAGCTTACATCT-CGAG
*
78263710 GCCGATGCATGTCCTAGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
78263745 TACAATAACC
Statistics
Matches: 113, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
90 11 0.10
91 14 0.12
92 22 0.19
93 15 0.13
94 51 0.45
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTAATCTCATAGTCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTTACATCTCGAG
Found at i:78273669 original size:12 final size:12
Alignment explanation
Indices: 78273652--78273676 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78273642 ATCCAATCAA
78273652 CTTTCATCAGAC
1 CTTTCATCAGAC
78273664 CTTTCATCAGAC
1 CTTTCATCAGAC
78273676 C
1 C
78273677 ATGAAAAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.08, T:0.32
Consensus pattern (12 bp):
CTTTCATCAGAC
Found at i:78286479 original size:26 final size:26
Alignment explanation
Indices: 78286450--78286510 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
78286440 ATGTTTAAAT
*
78286450 ACAATCATAC-ATCACATAGGGGCAAA
1 ACAATCAT-CTATCACAGAGGGGCAAA
* *
78286476 ACAATCATCTTATCATAGAGGGGCATA
1 ACAATCATC-TATCACAGAGGGGCAAA
78286503 ACAATCAT
1 ACAATCAT
78286511 TTTATCAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 1 0.03
26 8 0.27
27 21 0.70
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (26 bp):
ACAATCATCTATCACAGAGGGGCAAA
Found at i:78292405 original size:44 final size:44
Alignment explanation
Indices: 78292357--78292443 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
78292347 ATAAGATAGT
78292357 ACCCTTTAAAAACCATAAACACTTCATTGAATTTTCATTAGAGA
1 ACCCTTTAAAAACCATAAACACTTCATTGAATTTTCATTAGAGA
78292401 ACCCTTTAAAAACCATAAACACTTCATTGAATTTTCATTAGAG
1 ACCCTTTAAAAACCATAAACACTTCATTGAATTTTCATTAGAG
78292444 CCATAGGTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (44 bp):
ACCCTTTAAAAACCATAAACACTTCATTGAATTTTCATTAGAGA
Found at i:78294614 original size:27 final size:27
Alignment explanation
Indices: 78294584--78294635 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
78294574 ATTGTCACTT
78294584 TACCCTACAAGGGTATTTCGGTAATCC
1 TACCCTACAAGGGTATTTCGGTAATCC
* * * *
78294611 TACCGTACAGGGGTGTTTCTGTAAT
1 TACCCTACAAGGGTATTTCGGTAAT
78294636 TTTATAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGGTAATCC
Found at i:78294651 original size:27 final size:27
Alignment explanation
Indices: 78294621--78294840 Score: 196
Period size: 27 Copynumber: 8.1 Consensus size: 27
78294611 TACCGTACAG
* *
78294621 GGGTGTTTCTGTAATTTTATAAATCGA
1 GGGTATTTCAGTAATTTTATAAATCGA
78294648 GGGTATTTCAGTAATTTTATAAATC-A
1 GGGTATTTCAGTAATTTTATAAATCGA
*
78294674 GGGGTATTTCAGTAATTTTACAAATCGA
1 -GGGTATTTCAGTAATTTTATAAATCGA
* *
78294702 GGGTATTTCAGTAATTTTACAAGTCG-
1 GGGTATTTCAGTAATTTTATAAATCGA
* * *
78294728 GGAGTATTTCGGTAATTTCATAAATCAA
1 GG-GTATTTCAGTAATTTTATAAATCGA
* ** * *
78294756 TGGTATTTGGGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTATAAATCGA
* * * *
78294782 GGGGTATTTCAATAATTTCACAAATCAA
1 -GGGTATTTCAGTAATTTTATAAATCGA
* * *
78294810 GGGTATCTC-GATAATTTTACAAATCGG
1 GGGTATTTCAG-TAATTTTATAAATCGA
78294837 GGGT
1 GGGT
78294841 CTTAACAATC
Statistics
Matches: 165, Mismatches: 21, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
26 4 0.02
27 158 0.96
28 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTATAAATCGA
Found at i:78294676 original size:54 final size:54
Alignment explanation
Indices: 78294618--78294840 Score: 252
Period size: 54 Copynumber: 4.1 Consensus size: 54
78294608 TCCTACCGTA
* * * * * *
78294618 CAGGGGTGTTTCTGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTATAAAT
1 CAGGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTCAGTAATTTTACAAAT
* * *
78294672 CAGGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAGT
1 CAGGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTCAGTAATTTTACAAAT
* * * ** *
78294726 C-GGGAGTATTTCGGTAATTTCATAAATCAATGGTATTTGGGTAATTTCACAAAT
1 CAGGG-GTATTTCAGTAATTTCACAAATCAAGGGTATTTCAGTAATTTTACAAAT
* *
78294780 CAGGGGTATTTCAATAATTTCACAAATCAAGGGTATCTC-GATAATTTTACAAAT
1 CAGGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTCAG-TAATTTTACAAAT
*
78294834 CGGGGGT
1 CAGGGGT
78294841 CTTAACAATC
Statistics
Matches: 144, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
53 4 0.03
54 137 0.95
55 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (54 bp):
CAGGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTCAGTAATTTTACAAAT
Found at i:78294716 original size:81 final size:80
Alignment explanation
Indices: 78294618--78294840 Score: 243
Period size: 81 Copynumber: 2.8 Consensus size: 80
78294608 TCCTACCGTA
* * *
78294618 CAGGGGTGTTTCTGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTATAAATCAGGGGTATTT
1 CAGGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTC-GTAATTTTATAAATCAGGGGTATTT
*
78294683 CAGTAATTTTACAAAT
65 CAGTAATTTCACAAAT
* * **
78294699 C-GAGGGTATTTCAGTAATTTTACAAGTCG-GGAGTATTTCGGTAATTTCATAAATCAATGGTAT
1 CAG-GGGTATTTCAGTAATTTTACAAATCGAGG-GTATTTC-GTAATTTTATAAATCAGGGGTAT
**
78294762 TTGGGTAATTTCACAAAT
63 TTCAGTAATTTCACAAAT
* * * * * *
78294780 CAGGGGTATTTCAATAATTTCACAAATCAAGGGTATCTCGATAATTTTACAAATCGGGGGT
1 CAGGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCG-TAATTTTATAAATCAGGGGT
78294841 CTTAACAATC
Statistics
Matches: 116, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
80 4 0.03
81 109 0.94
82 3 0.03
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (80 bp):
CAGGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGTAATTTTATAAATCAGGGGTATTTC
AGTAATTTCACAAAT
Found at i:78296562 original size:11 final size:11
Alignment explanation
Indices: 78296546--78296577 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
78296536 CTAACTCTCC
78296546 ATTCAAATTCA
1 ATTCAAATTCA
*
78296557 ATTCAAATTTA
1 ATTCAAATTCA
78296568 ATTCAAATTC
1 ATTCAAATTC
78296578 TTATAGCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.41
Consensus pattern (11 bp):
ATTCAAATTCA
Found at i:78298553 original size:22 final size:22
Alignment explanation
Indices: 78298528--78298583 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
78298518 TTTGGCGCAA
*
78298528 AGCCATAGTCAAGATGGCACAG
1 AGCCATAATCAAGATGGCACAG
** * * *
78298550 AGCCATTTTTAGGTTGGCACAG
1 AGCCATAATCAAGATGGCACAG
78298572 AGCCATAATCAA
1 AGCCATAATCAA
78298584 ATTGCGCAAC
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (22 bp):
AGCCATAATCAAGATGGCACAG
Found at i:78298992 original size:27 final size:27
Alignment explanation
Indices: 78298962--78299013 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
78298952 ACGATCATTT
*
78298962 TACCCTACAGGGGTATTTCGGTAATCC
1 TACCCCACAGGGGTATTTCGGTAATCC
*
78298989 TACCCCATAGGGGTATTTCGGTAAT
1 TACCCCACAGGGGTATTTCGGTAAT
78299014 TTTATAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (27 bp):
TACCCCACAGGGGTATTTCGGTAATCC
Found at i:78299026 original size:27 final size:27
Alignment explanation
Indices: 78298969--78299182 Score: 175
Period size: 27 Copynumber: 8.0 Consensus size: 27
78298959 TTTTACCCTA
** **
78298969 CAGGGGTATTTCGGTAATCCTACCCCAT
1 CAGGGGTATTTCGGTAATTTTA-CAAAT
*
78298997 -AGGGGTATTTCGGTAATTTTATAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* ** *
78299023 TAGGGGTATTTTTGTAATTTTACAAGT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* *
78299050 CA-GGATATTTTGGTAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
** *
78299076 C-GGGTGTATTTTAGTAATTTTACAAGT
1 CAGGG-GTATTTCGGTAATTTTACAAAT
* *
78299103 CGGGGGTATTTCGGTAATTTCACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* * *
78299130 CAAGGGTATTTCGATAATTTTAC-AAC
1 CAGGGGTATTTCGGTAATTTTACAAAT
* * * *
78299156 CTGGGATATTTCAGTAATTTTTCAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
78299183 TGGGGGTCTT
Statistics
Matches: 149, Mismatches: 32, Indels: 11
0.78 0.17 0.06
Matches are distributed among these distances:
26 45 0.30
27 101 0.68
28 3 0.02
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTACAAAT
Found at i:78299139 original size:54 final size:53
Alignment explanation
Indices: 78298998--78299182 Score: 196
Period size: 53 Copynumber: 3.5 Consensus size: 53
78298988 CTACCCCATA
* * *
78298998 GGGGTATTTCGGTAATTTTATAAATTAGGGGTATTTTTGTAATTTTACAAGTC
1 GGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAGTC
* * *
78299051 AGGATATTTTGGTAATTTTACAAATC-GGGTGTATTTTAGTAATTTTACAAGTC
1 GGGGTATTTCGGTAATTTTACAAATCAGGG-GTATTTTAGTAATTTTACAAGTC
* * * *
78299104 GGGGGTATTTCGGTAATTTCACAAATCAAGGGTA-TTTCGATAATTTTACAA-CC
1 -GGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTAG-TAATTTTACAAGTC
* * *
78299157 TGGGATATTTCAGTAATTTTTCAAAT
1 -GGGGTATTTCGGTAATTTTACAAAT
78299183 TGGGGGTCTT
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 3 0.03
53 69 0.63
54 36 0.33
55 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (53 bp):
GGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAGTC
Found at i:78299188 original size:80 final size:80
Alignment explanation
Indices: 78299002--78299189 Score: 193
Period size: 80 Copynumber: 2.4 Consensus size: 80
78298992 CCCATAGGGG
* * ** * * * *
78299002 TATTTCGGTAATTTTAT-AAATTAGGGGTATTTTTGTAATTTTACAAGTCAGGATATTTTGGTAA
1 TATTTCAGTAATTTT-TCAAATTGGGGGTATTTCGGTAATTTCACAAATCAGGATATTTCGATAA
*
78299066 TTTTACAAATCGGGTG
65 TTTTACAAATCGGGTA
* * * * *
78299082 TATTTTAGTAATTTTACAAGTCGGGGGTATTTCGGTAATTTCACAAATCAAGGGTATTTCGATAA
1 TATTTCAGTAATTTTTCAAATTGGGGGTATTTCGGTAATTTCACAAATC-AGGATATTTCGATAA
*
78299147 TTTTAC-AACCTGGG-A
65 TTTTACAAATC-GGGTA
78299162 TATTTCAGTAATTTTTCAAATTGGGGGT
1 TATTTCAGTAATTTTTCAAATTGGGGGT
78299190 CTTAACGACC
Statistics
Matches: 86, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
80 65 0.76
81 21 0.24
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (80 bp):
TATTTCAGTAATTTTTCAAATTGGGGGTATTTCGGTAATTTCACAAATCAGGATATTTCGATAAT
TTTACAAATCGGGTA
Found at i:78300930 original size:6 final size:6
Alignment explanation
Indices: 78300921--78300952 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
78300911 CCAACTCCCC
78300921 ATTCAA ATTC-A ATTCAA ATTC-A ATTCAA ATTC
1 ATTCAA ATTCAA ATTCAA ATTCAA ATTCAA ATTC
78300953 TTATGACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.42
6 14 0.58
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (6 bp):
ATTCAA
Found at i:78300937 original size:11 final size:11
Alignment explanation
Indices: 78300921--78300952 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
78300911 CCAACTCCCC
78300921 ATTCAAATTCA
1 ATTCAAATTCA
78300932 ATTCAAATTCA
1 ATTCAAATTCA
78300943 ATTCAAATTC
1 ATTCAAATTC
78300953 TTATGACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTCAAATTCA
Found at i:78305610 original size:93 final size:93
Alignment explanation
Indices: 78305497--78305668 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
78305487 CGCCCATAAG
* *
78305497 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
78305562 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
* *
78305590 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
78305655 ACAAGTTCGGATGC
66 ACAAGTTCGGATGC
78305669 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:78305665 original size:46 final size:46
Alignment explanation
Indices: 78305490--78305665 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
78305480 TGTAACCCGC
* * *
78305490 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
78305536 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
78305586 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
78305629 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
78305666 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:78313177 original size:93 final size:93
Alignment explanation
Indices: 78313065--78313236 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
78313055 CGCCCATAAG
* *
78313065 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78313130 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
78313158 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78313223 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
78313237 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:78313233 original size:46 final size:46
Alignment explanation
Indices: 78313058--78313233 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
78313048 TGTAACCCGC
* * *
78313058 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
78313104 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
78313154 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
78313197 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
78313234 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:78326546 original size:12 final size:12
Alignment explanation
Indices: 78326529--78326553 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78326519 GAATGTTATG
78326529 TTTTAATATATT
1 TTTTAATATATT
78326541 TTTTAATATATT
1 TTTTAATATATT
78326553 T
1 T
78326554 GAAAGTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTAATATATT
Found at i:78330468 original size:49 final size:49
Alignment explanation
Indices: 78330163--78330450 Score: 440
Period size: 49 Copynumber: 5.9 Consensus size: 49
78330153 TATATAATCC
* * * *
78330163 AATGTACCTAATTTA-AATTACAAAGTTTGTTCCTCA-TTTTAATGTTGT
1 AATGTATCTAATTTATGATCACAAAGTTTGTTCC-AAGTTTTAATGTTGT
*
78330211 AATGTACCTAATTTATGATCACAAAGTTTGTTCCAAGTTTTAATGTTGT
1 AATGTATCTAATTTATGATCACAAAGTTTGTTCCAAGTTTTAATGTTGT
78330260 AATGTATCTAATTTATGA-CAACAAAGTTTGTTCCAAGTTTTAATGTTGT
1 AATGTATCTAATTTATGATC-ACAAAGTTTGTTCCAAGTTTTAATGTTGT
* * *
78330309 AATGTATTTAATTTATGATCACAAAGTTTATTCTAAGTTTTAATGTTGT
1 AATGTATCTAATTTATGATCACAAAGTTTGTTCCAAGTTTTAATGTTGT
*
78330358 AATGTATCTAATTTATGATCACAAAGTTTGTTCCAAGTTTTAATATTGT
1 AATGTATCTAATTTATGATCACAAAGTTTGTTCCAAGTTTTAATGTTGT
78330407 AATGTATCTAATTTATGA-CTACAAAGTTTGTTCCAAGTTTTAAT
1 AATGTATCTAATTTATGATC-ACAAAGTTTGTTCCAAGTTTTAAT
78330451 ATTACAATTA
Statistics
Matches: 224, Mismatches: 11, Indels: 9
0.92 0.05 0.04
Matches are distributed among these distances:
48 18 0.08
49 205 0.92
50 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.45
Consensus pattern (49 bp):
AATGTATCTAATTTATGATCACAAAGTTTGTTCCAAGTTTTAATGTTGT
Found at i:78331548 original size:19 final size:19
Alignment explanation
Indices: 78331524--78331563 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
78331514 ACATGTTAGA
78331524 ATAGTATTGCTAGAATAGT
1 ATAGTATTGCTAGAATAGT
78331543 ATAGTATTGCTAGAATAGT
1 ATAGTATTGCTAGAATAGT
78331562 AT
1 AT
78331564 CATTAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (19 bp):
ATAGTATTGCTAGAATAGT
Found at i:78333221 original size:49 final size:49
Alignment explanation
Indices: 78333187--78333299 Score: 154
Period size: 49 Copynumber: 2.3 Consensus size: 49
78333177 CATGCCAATT
* * *
78333187 AAATTATATAAAAAATAAATCTAATAAACCTAAAACACATATGACAAAC
1 AAATTACATAAAAAATAAATCTAATAAACCTAAAACAAACATGACAAAC
* * * * *
78333236 AAATTACATAAAGATTAAATCTAATAAACCTAAAACACACATGAAAAAT
1 AAATTACATAAAAAATAAATCTAATAAACCTAAAACAAACATGACAAAC
78333285 AAATTACATAAAAAA
1 AAATTACATAAAAAA
78333300 AATAAAATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.62, C:0.13, G:0.03, T:0.22
Consensus pattern (49 bp):
AAATTACATAAAAAATAAATCTAATAAACCTAAAACAAACATGACAAAC
Found at i:78338991 original size:15 final size:15
Alignment explanation
Indices: 78338973--78339003 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
78338963 ATAACTAAAG
78338973 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
78338988 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
78339003 A
1 A
78339004 GATGAGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:78353958 original size:22 final size:22
Alignment explanation
Indices: 78353933--78353977 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
78353923 TTTACATAGG
78353933 AACTTACTAAGCTATATAGCTT
1 AACTTACTAAGCTATATAGCTT
78353955 AACTTACTAAGCTATATAGCTT
1 AACTTACTAAGCTATATAGCTT
78353977 A
1 A
78353978 CTCCGCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (22 bp):
AACTTACTAAGCTATATAGCTT
Found at i:78356298 original size:14 final size:14
Alignment explanation
Indices: 78356279--78356311 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
78356269 AAACCCAGAA
78356279 CTTGCTCTACCATT
1 CTTGCTCTACCATT
78356293 CTTGCTCTACCATT
1 CTTGCTCTACCATT
*
78356307 ATTGC
1 CTTGC
78356312 CCTTTCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.33, G:0.09, T:0.42
Consensus pattern (14 bp):
CTTGCTCTACCATT
Found at i:78358142 original size:7 final size:7
Alignment explanation
Indices: 78358130--78358195 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
78358120 ATTTACTTAT
78358130 TATAATA
1 TATAATA
78358137 TATAATA
1 TATAATA
78358144 TAATATATA
1 T-ATA-ATA
78358153 TACTTAATA
1 TA--TAATA
*
78358162 -ATTAAGA
1 TA-TAATA
78358169 TATAATA
1 TATAATA
78358176 TTATAATA
1 -TATAATA
78358184 TTATAATA
1 -TATAATA
78358192 TATA
1 TATA
78358196 TTTTTTAACT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
7 21 0.41
8 21 0.41
9 7 0.14
10 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:78358157 original size:30 final size:31
Alignment explanation
Indices: 78358117--78358195 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 31
78358107 TTTTATTTAT
*
78358117 TATATTTACTTATTATAATATATA-ATATAA
1 TATATATACTTATTATAATATATAGATATAA
78358147 TATATATACTTA--ATAAT-TA-AGATATAA
1 TATATATACTTATTATAATATATAGATATAA
*
78358174 TAT-TATA-ATATTATAATATATA
1 TATATATACTTATTATAATATATA
78358196 TTTTTTAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
27 16 0.38
28 7 0.17
29 1 0.02
30 11 0.26
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (31 bp):
TATATATACTTATTATAATATATAGATATAA
Found at i:78358182 original size:8 final size:8
Alignment explanation
Indices: 78358127--78358192 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
78358117 TATATTTACT
78358127 TATTATAA
1 TATTATAA
78358135 TA-TATAA
1 TATTATAA
*
78358142 TATAAT-A
1 TATTATAA
78358149 TATATACTTAA
1 TAT-TA--TAA
*
78358160 TAAT-TAA
1 TATTATAA
*
78358167 GA-TATAA
1 TATTATAA
78358174 TATTATAA
1 TATTATAA
78358182 TATTATAA
1 TATTATAA
78358190 TAT
1 TAT
78358193 ATATTTTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
6 1 0.02
7 19 0.41
8 21 0.46
10 2 0.04
11 3 0.07
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (8 bp):
TATTATAA
Found at i:78373790 original size:40 final size:40
Alignment explanation
Indices: 78373727--78373937 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
78373717 TCTTCAGAAT
* * *
78373727 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAAGCACTAGCACAAATGCCTTCGGGTC
* *
78373766 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAAGCACTAGCACAAATGCCTTCGGGTC
* * * *
78373806 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAAGC-ACTAGCACAAATGCCTTCGGGTC
* *
78373846 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAAGCACTAGCACAAATGCCTTCGGGTC
* * * *
78373886 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAAGC-ACTAGCACAAATGCCTTCGGGTC
78373926 TTAGCCCGGATA
1 TTAGCCCGGATA
78373938 TCATTCAAAT
Statistics
Matches: 143, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
39 10 0.07
40 130 0.91
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAAGCACTAGCACAAATGCCTTCGGGTC
Found at i:78373880 original size:80 final size:80
Alignment explanation
Indices: 78373747--78373937 Score: 382
Period size: 80 Copynumber: 2.4 Consensus size: 80
78373737 ATAACCACAA
78373747 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACC
78373812 CGGGTATAGCAACTC
66 CGGGTATAGCAACTC
78373827 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACC
78373892 CGGGTATAGCAACTC
66 CGGGTATAGCAACTC
78373907 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
78373938 TCATTCAAAT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 111 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACC
CGGGTATAGCAACTC
Found at i:78382220 original size:3 final size:3
Alignment explanation
Indices: 78382212--78382239 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
78382202 CAACATTCTA
78382212 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
78382240 TATGGAATCA
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:78383926 original size:42 final size:42
Alignment explanation
Indices: 78383867--78383988 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
78383857 TAGCGTTTGT
* *
78383867 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATG
1 TGAGATCACATGTAAGACCATATCTGGGATATGACATCGATG
* * * *
78383909 TGAGA-CTTCGTGTAAGACCATAACTGGGCTATTGACATCGATG
1 TGAGATC-ACATGTAAGACCATATCTGGGATA-TGACATCGATG
* *
78383952 TGAGATCACATGTCAGACCATATCTGAGATATGACAT
1 TGAGATCACATGTAAGACCATATCTGGGATATGACAT
78383989 TGGTATGGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 31 0.48
43 33 0.51
44 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
TGAGATCACATGTAAGACCATATCTGGGATATGACATCGATG
Found at i:78390869 original size:28 final size:28
Alignment explanation
Indices: 78390829--78390898 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
78390819 ATTGTAAGTC
*
78390829 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
78390857 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
78390885 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78390899 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:78398738 original size:28 final size:28
Alignment explanation
Indices: 78398698--78398768 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
78398688 ATATAGTAAG
*
78398698 TCGCACACTTAGTGCT-TAATAATCAAAC
1 TCGCACACTTAGTGCTAT-ACAATCAAAC
*
78398726 TCGCACACTTAGTGCTATACAATTAAAC
1 TCGCACACTTAGTGCTATACAATCAAAC
78398754 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
78398769 CAATCTCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATACAATCAAAC
Found at i:78403434 original size:20 final size:20
Alignment explanation
Indices: 78403383--78403426 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
78403373 TGATGATGAA
78403383 ATATGAAAGTTTGGTGTTTG
1 ATATGAAAGTTTGGTGTTTG
78403403 ATATGAAAGTTTGGTGTTTG
1 ATATGAAAGTTTGGTGTTTG
78403423 ATAT
1 ATAT
78403427 ACATGTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (20 bp):
ATATGAAAGTTTGGTGTTTG
Found at i:78404137 original size:43 final size:42
Alignment explanation
Indices: 78403994--78404160 Score: 160
Period size: 43 Copynumber: 4.0 Consensus size: 42
78403984 GGCTATCGAG
*
78403994 ATGTGATTACATGTAAGACCATGT-TGGGACCTTGGCATTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTAT
* * *
78404035 ATTGTGATTACCTATAAGACCATGTCTGGGACATTGGCATCATT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTA-T
*** * *
78404079 AT-TCGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATTGAT
1 ATGT-GATTACATGTAAGACCATGTCTGGGACATTGGCATT-AT
* * * *
78404122 ATGTGATAACATGTAAGACTATATCTGGGATA-TGGCATT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
78404161 GTACGAGCCT
Statistics
Matches: 101, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 67 0.66
44 4 0.04
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTAT
Found at i:78408144 original size:13 final size:13
Alignment explanation
Indices: 78408126--78408150 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78408116 TTTAATGAAC
78408126 TGTATTTTCAGAT
1 TGTATTTTCAGAT
78408139 TGTATTTTCAGA
1 TGTATTTTCAGA
78408151 CCGTATCTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (13 bp):
TGTATTTTCAGAT
Found at i:78412124 original size:43 final size:43
Alignment explanation
Indices: 78412028--78412193 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
78412018 ATCGAGATGT
* *
78412028 GATTACATGTAAGACCATGT-TGGGACATTGGCATTGTATTGT
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTATTGC
78412070 GATTACCTGTAAGACCATGTCTGGGACATTGGCATCAT-TATT-C
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCAT--TGTATTGC
*** * * *
78412113 GATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATTG-ATATGT
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGC
* * * * *
78412156 GATAACATGTAAGACTATATCTGGGATA-TGGCATTGTA
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTA
78412194 CGAGCCTTAT
Statistics
Matches: 101, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
41 3 0.03
42 28 0.28
43 65 0.64
44 4 0.04
45 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTATTGC
Found at i:78412251 original size:310 final size:310
Alignment explanation
Indices: 78411683--78412292 Score: 977
Period size: 310 Copynumber: 2.0 Consensus size: 310
78411673 CTTAGGATAG
* *
78411683 GATACAAATGTCATGACATTAGGTTATCGAGATGTGACTACATGTAAAATCATGTTGGGACATTG
1 GATACAAATGTCATGACATTAGGCTATCGAGATGTGACTACATGTAAAACCATGTTGGGACATTG
* *
78411748 GCATTGTATTGTGAATACGTGTAAGACCATGTATGGGACATTGGCATCGTTATTCGATTTTGAGT
66 GCATTGTATTGTGAATACCTGTAAGACCATGTATGGGACATTGGCATCATTATTCGATTTTGAGT
*
78411813 AAGACCCTGCCTAAGACAGTGGCATCGATATGTGATAACATGTAATACCATATCTGGGATATGGC
131 AAGACCCTGCCTAAGACAGTGGCATCGATATGTGATAACATGTAAGACCATATCTGGGATATGGC
* ** *
78411878 ATTGTACGAGCTTTATGTGATTCCAAGTATCCTTAACAATTCTGAATGGTTCAAAGGGCAAAGAT
196 ATTGTACGAGCCTTATGTGATTCCAAGTATCCTTAACAATTCCAAATGGTTCAAAGGGCAAAGAC
78411943 AAATTGAGAAAGAATGTGTTAATGACTTAAATAACTCAGGAATAGTATAA
261 AAATTGAGAAAGAATGTGTTAATGACTTAAATAACTCAGGAATAGTATAA
* * *
78411993 GATACGAATGTCATGACATTAGGCTATCGAGATGTGATTACATGTAAGACCATGTTGGGACATTG
1 GATACAAATGTCATGACATTAGGCTATCGAGATGTGACTACATGTAAAACCATGTTGGGACATTG
* * *
78412058 GCATTGTATTGTGATTACCTGTAAGACCATGTCTGGGACATTGGCATCATTATTCGATTTTGTGT
66 GCATTGTATTGTGAATACCTGTAAGACCATGTATGGGACATTGGCATCATTATTCGATTTTGAGT
* ** * *
78412123 AAGACCCTGTCTGGGACAGTGGCATTGATATGTGATAACATGTAAGACTATATCTGGGATATGGC
131 AAGACCCTGCCTAAGACAGTGGCATCGATATGTGATAACATGTAAGACCATATCTGGGATATGGC
** * * *
78412188 ATTGTACGAGCCTTATGTGATTCTGAGTATCCTTCACGATTCCAAATGGTTCAACGGGCAAAGAC
196 ATTGTACGAGCCTTATGTGATTCCAAGTATCCTTAACAATTCCAAATGGTTCAAAGGGCAAAGAC
* *
78412253 AAGTTGAGAAAGAATGTGTTAATGAGTTAAATAACTCAGG
261 AAATTGAGAAAGAATGTGTTAATGACTTAAATAACTCAGG
78412293 TATGTACGAG
Statistics
Matches: 273, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
310 273 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (310 bp):
GATACAAATGTCATGACATTAGGCTATCGAGATGTGACTACATGTAAAACCATGTTGGGACATTG
GCATTGTATTGTGAATACCTGTAAGACCATGTATGGGACATTGGCATCATTATTCGATTTTGAGT
AAGACCCTGCCTAAGACAGTGGCATCGATATGTGATAACATGTAAGACCATATCTGGGATATGGC
ATTGTACGAGCCTTATGTGATTCCAAGTATCCTTAACAATTCCAAATGGTTCAAAGGGCAAAGAC
AAATTGAGAAAGAATGTGTTAATGACTTAAATAACTCAGGAATAGTATAA
Found at i:78415017 original size:27 final size:27
Alignment explanation
Indices: 78414987--78415041 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
78414977 TAGGTAATCC
78414987 TCGAGCAATGTTATCTTTAAAGGAACT
1 TCGAGCAATGTTATCTTTAAAGGAACT
**
78415014 TCGAGTGATGTTATCTTTAAAGGAACT
1 TCGAGCAATGTTATCTTTAAAGGAACT
78415041 T
1 T
78415042 GTGCATGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (27 bp):
TCGAGCAATGTTATCTTTAAAGGAACT
Found at i:78418300 original size:36 final size:36
Alignment explanation
Indices: 78418253--78418325 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
78418243 TTCATGAAAG
*
78418253 TAAGAAGAATTCTCTTGTAATCAAATGACAATTGGA
1 TAAGAAGAATTCTCTTGTAATCAAATAACAATTGGA
78418289 TAAGAAGAATTCTCTTGTAATCAAATAACAATTGGA
1 TAAGAAGAATTCTCTTGTAATCAAATAACAATTGGA
78418325 T
1 T
78418326 TGTCCTTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (36 bp):
TAAGAAGAATTCTCTTGTAATCAAATAACAATTGGA
Found at i:78423256 original size:21 final size:20
Alignment explanation
Indices: 78423228--78423267 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
78423218 TAGTACACGG
*
78423228 CCTAACCATACGGGCGCGTC
1 CCTAACCAGACGGGCGCGTC
*
78423248 CCTAGACCAGATGGGCGCGT
1 CCTA-ACCAGACGGGCGCGT
78423268 GAGCCCTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (20 bp):
CCTAACCAGACGGGCGCGTC
Found at i:78424234 original size:25 final size:25
Alignment explanation
Indices: 78424200--78424258 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
78424190 AGAAAAAAGG
78424200 CAAGCAAAAAGGGAAGCTCGGGTTA
1 CAAGCAAAAAGGGAAGCTCGGGTTA
78424225 CAAGCAAAAAGGGAAGCTCGGGTTA
1 CAAGCAAAAAGGGAAGCTCGGGTTA
*
78424250 CGAGCAAAA
1 CAAGCAAAA
78424259 GATTTATGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.17, G:0.31, T:0.10
Consensus pattern (25 bp):
CAAGCAAAAAGGGAAGCTCGGGTTA
Found at i:78424983 original size:30 final size:30
Alignment explanation
Indices: 78424907--78424992 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
78424897 TTCAGCTCAC
*
78424907 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTTAG
*
78424937 GAG-TATAATCC-CAGCTCAACTTTAGCTTAAG
1 GAGCTA-AA-CCTTAGCTCAACTTTAGCTT-AG
* *
78424968 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAACCTTAGCTCAACTTTAGCT
78424993 CAAACCTGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
29 11 0.24
30 28 0.61
31 7 0.15
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (30 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTTAG
Found at i:78426505 original size:11 final size:11
Alignment explanation
Indices: 78426491--78426530 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
78426481 AAAAAGTGTA
78426491 AAAAAAATTTC
1 AAAAAAATTTC
*
78426502 AAAAAAAATTC
1 AAAAAAATTTC
*
78426513 AAAAAAATTTG
1 AAAAAAATTTC
78426524 AAAAAAA
1 AAAAAAA
78426531 AGGTGTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (11 bp):
AAAAAAATTTC
Found at i:78426505 original size:12 final size:12
Alignment explanation
Indices: 78426490--78426531 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
78426480 AAAAAAGTGT
78426490 AAAAAAAATTTC
1 AAAAAAAATTTC
78426502 AAAAAAAA-TTC
1 AAAAAAAATTTC
*
78426513 -AAAAAAATTTG
1 AAAAAAAATTTC
78426524 AAAAAAAA
1 AAAAAAAA
78426532 GGTGTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 7 0.26
11 5 0.19
12 15 0.56
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (12 bp):
AAAAAAAATTTC
Found at i:78427465 original size:16 final size:15
Alignment explanation
Indices: 78427446--78427502 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
78427436 AAGATAAAAC
*
78427446 AAAGAAAAGAAAAGAA
1 AAAGAAAAG-AAATAA
78427462 AAAGCAAAAG-AATAA
1 AAAG-AAAAGAAATAA
78427477 AAAGAAAATGAAATAA
1 AAAGAAAA-GAAATAA
78427493 AAAGAAAAGA
1 AAAGAAAAGA
78427503 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 11 0.30
16 17 0.46
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (15 bp):
AAAGAAAAGAAATAA
Found at i:78427469 original size:21 final size:21
Alignment explanation
Indices: 78427435--78427502 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
78427425 ACATTCTTGT
78427435 AAAGATAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAAGAAAAGA
*
78427456 AAAGAAAAAGCAAAAGAATA-A
1 AAAGAAAAAGC-AAAGAAAAGA
* *
78427477 AAAGAAAATG-AAATAAAAAGA
1 AAAGAAAAAGCAAA-GAAAAGA
78427498 AAAGA
1 AAAGA
78427503 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.08
20 7 0.18
21 22 0.56
22 7 0.18
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (21 bp):
AAAGAAAAAGCAAAGAAAAGA
Found at i:78427470 original size:6 final size:5
Alignment explanation
Indices: 78427446--78427502 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
78427436 AAGATAAAAC
*
78427446 AAAGA AAAGA AAAGAA AAAGCA AAAGA ATA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
78427493 AAAGA AAAGA
1 AAAGA AAAGA
78427503 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (5 bp):
AAAGA
Found at i:78427587 original size:12 final size:12
Alignment explanation
Indices: 78427570--78427594 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78427560 CTTTGAAAGC
78427570 AAAAAGAAAATG
1 AAAAAGAAAATG
78427582 AAAAAGAAAATG
1 AAAAAGAAAATG
78427594 A
1 A
78427595 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:78427606 original size:30 final size:31
Alignment explanation
Indices: 78427570--78427655 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 31
78427560 CTTTGAAAGC
* *
78427570 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAAAGTG
* * *
78427600 AAAAAGAGAACG-AAAAGAAATTTGAAAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAAAGTG
*
78427630 AAAAAGAAGATGAAAAA-AAAT-TGAAA
1 AAAAAGAAAATGAAAAAGAAATATGAAA
78427656 CATAAGGAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
29 13 0.28
30 29 0.63
31 4 0.09
ACGTcount: A:0.66, C:0.01, G:0.20, T:0.13
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAAAGTG
Found at i:78431359 original size:14 final size:13
Alignment explanation
Indices: 78431342--78431374 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
78431332 AAAAAAGTAT
*
78431342 AAAAAACTTTCGA
1 AAAAAAATTTCGA
78431355 AAAAAAATTTCGA
1 AAAAAAATTTCGA
78431368 AAAAAAA
1 AAAAAAA
78431375 GGTGTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.67, C:0.09, G:0.06, T:0.18
Consensus pattern (13 bp):
AAAAAAATTTCGA
Found at i:78432293 original size:9 final size:10
Alignment explanation
Indices: 78432286--78432348 Score: 56
Period size: 11 Copynumber: 6.0 Consensus size: 10
78432276 AAGAGAAAAC
78432286 AAAGAAAAGA
1 AAAGAAAAGA
78432296 AAAGAAAAAGTA
1 AAAG-AAAAG-A
*
78432308 AAAGAAGA-A
1 AAAGAAAAGA
78432317 AAAGAAAAAGA
1 AAAG-AAAAGA
* *
78432328 AAACAAAATAA
1 AAAGAAAA-GA
78432339 AAAGAAAAGA
1 AAAGAAAAGA
78432349 GAGGCAAGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
9 5 0.12
10 12 0.29
11 20 0.48
12 5 0.12
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.03
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:78432310 original size:6 final size:5
Alignment explanation
Indices: 78432286--78432348 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
78432276 AAGAGAAAAC
* *
78432286 AAAGA AAAGA AAAGAA AAAGTA AAAGA AGA-A AAAGAA AAAGA AAACA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAG-A AAAGA AAAGA
*
78432333 AAATAA AAAGA AAAGA
1 AAA-GA AAAGA AAAGA
78432349 GAGGCAAGAG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 3 0.06
5 26 0.54
6 19 0.40
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:78432317 original size:15 final size:15
Alignment explanation
Indices: 78432286--78432344 Score: 64
Period size: 16 Copynumber: 3.8 Consensus size: 15
78432276 AAGAGAAAAC
*
78432286 AAAGAAAAGAAAAGAA
1 AAAGAAAA-AGAAGAA
*
78432302 AAAGTAAAAGAAGAA
1 AAAGAAAAAGAAGAA
*
78432317 AAAGAAAAAGAAAACA
1 AAAGAAAAAGAAGA-A
*
78432333 AAATAAAAAGAA
1 AAAGAAAAAGAA
78432345 AAGAGAGGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 18 0.49
16 19 0.51
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAGAAGAA
Found at i:78432342 original size:31 final size:30
Alignment explanation
Indices: 78432286--78432344 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
78432276 AAGAGAAAAC
*
78432286 AAAGAAAAGAAAAGAAAAAGTAAAAGAAGAA
1 AAAGAAAAGAAAACAAAAAG-AAAAGAAGAA
78432317 AAAGAAAAAGAAAACAAAATA-AAAAGAA
1 AAAG-AAAAGAAAACAAAA-AGAAAAGAA
78432345 AAGAGAGGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 11 0.44
32 13 0.52
33 1 0.04
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.03
Consensus pattern (30 bp):
AAAGAAAAGAAAACAAAAAGAAAAGAAGAA
Found at i:78432438 original size:12 final size:12
Alignment explanation
Indices: 78432423--78432447 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78432413 CTTTGAAAGC
78432423 AAAAAGAAAATG
1 AAAAAGAAAATG
78432435 AAAAAGAAAATG
1 AAAAAGAAAATG
78432447 A
1 A
78432448 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:78432459 original size:30 final size:30
Alignment explanation
Indices: 78432423--78432504 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
78432413 CTTTGAAAGC
*
78432423 AAAAAGAAAATGAAAAAGAAAATGAGATTG
1 AAAAAGAAAATGAAAAAGAAAATGAGAGTG
* * *
78432453 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAA-ATGAGAGTG
* *
78432483 AAAAAGAAGATCAAAAA-AAAAT
1 AAAAAGAAAATGAAAAAGAAAAT
78432505 TGAAACAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
29 9 0.22
30 28 0.68
31 4 0.10
ACGTcount: A:0.66, C:0.02, G:0.20, T:0.12
Consensus pattern (30 bp):
AAAAAGAAAATGAAAAAGAAAATGAGAGTG
Found at i:78436216 original size:13 final size:13
Alignment explanation
Indices: 78436200--78436231 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
78436190 AAAAAAGTAT
*
78436200 AAAAAACTTTCGA
1 AAAAAAATTTCGA
78436213 AAAAAAATTTCGA
1 AAAAAAATTTCGA
78436226 AAAAAA
1 AAAAAA
78436232 GGTGTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.66, C:0.09, G:0.06, T:0.19
Consensus pattern (13 bp):
AAAAAAATTTCGA
Found at i:78437166 original size:21 final size:20
Alignment explanation
Indices: 78437132--78437197 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
78437122 TACATTTTTT
78437132 AAAGAGAAAACAAAGAAAAG-A
1 AAAGA-AAAACAAA-AAAAGAA
*
78437153 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAA-CAAAAAAAGAA
*
78437174 AAAGAAAACAAAATAAAAAGAA
1 AAAGAAAA-ACAA-AAAAAGAA
78437196 AA
1 AA
78437198 GAGAGGCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.21
21 20 0.53
22 10 0.26
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.02
Consensus pattern (20 bp):
AAAGAAAAACAAAAAAAGAA
Found at i:78437167 original size:6 final size:5
Alignment explanation
Indices: 78437143--78437199 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
78437133 AAGAGAAAAC
* * *
78437143 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACA AAATAA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAAGA AAA-GA
78437190 AAAGA AAAGA
1 AAAGA AAAGA
78437200 GAGGCAAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 3 0.07
5 26 0.60
6 14 0.33
ACGTcount: A:0.79, C:0.04, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:78437192 original size:25 final size:25
Alignment explanation
Indices: 78437147--78437195 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
78437137 GAAAACAAAG
*
78437147 AAAAGAAAAGAAAAAGCAAAAGAAGA
1 AAAAGAAAACAAAAA-CAAAAGAAGA
78437173 AAAAGAAAACAAAATA-AAAAGAA
1 AAAAGAAAACAAAA-ACAAAAGAA
78437196 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 13 0.62
27 1 0.05
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (25 bp):
AAAAGAAAACAAAAACAAAAGAAGA
Found at i:78437310 original size:30 final size:30
Alignment explanation
Indices: 78437274--78437355 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
78437264 CTTTGAAAGC
*
78437274 AAAAAGAAAAAGAAAAAGAAAATGAGATTG
1 AAAAAGAAAAAGAAAAAGAAAATGAGAGTG
* * *
78437304 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAAAGAAAAAGAAA-ATGAGAGTG
* *
78437334 AAAAAGAAGATGAAAAA-AAAAT
1 AAAAAGAAAAAGAAAAAGAAAAT
78437356 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
29 9 0.21
30 29 0.69
31 4 0.10
ACGTcount: A:0.67, C:0.01, G:0.21, T:0.11
Consensus pattern (30 bp):
AAAAAGAAAAAGAAAAAGAAAATGAGAGTG
Found at i:78437328 original size:24 final size:24
Alignment explanation
Indices: 78437279--78437348 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
78437269 AAAGCAAAAA
*
78437279 GAAAAAGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAATGAAATT
* *
78437303 GAAAAAGAGAACGAAAA-GAAATTT
1 GAAAAAGAAAAAGAAAATGAAA-TT
* ** *
78437327 GAGAGTGAAAAAGAAGATGAAA
1 GAAAAAGAAAAAGAAAATGAAA
78437349 AAAAAATTGA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
23 3 0.09
24 28 0.80
25 4 0.11
ACGTcount: A:0.63, C:0.01, G:0.24, T:0.11
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAATGAAATT
Found at i:78439669 original size:30 final size:30
Alignment explanation
Indices: 78439593--78439678 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
78439583 TTCAGCTCAC
*
78439593 GAGCTAAACCTTAGCTCAACTTTAGCTTAG
1 GAGCTAAAGCTTAGCTCAACTTTAGCTTAG
* *
78439623 GAG-TATAGTCTCAGCTCAACTTTAGCTTAAG
1 GAGCTAAAG-CTTAGCTCAACTTTAGCTT-AG
*
78439654 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAAGCTTAGCTCAACTTTAGCT
78439679 CAAACCCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 11 0.23
30 29 0.62
31 7 0.15
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (30 bp):
GAGCTAAAGCTTAGCTCAACTTTAGCTTAG
Found at i:78456743 original size:49 final size:49
Alignment explanation
Indices: 78456671--78456851 Score: 238
Period size: 49 Copynumber: 3.7 Consensus size: 49
78456661 TCTAGTAGCA
* * * *
78456671 TAGTAGCCTGTATTTAGTACTACACATGTGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * ** * *
78456720 TAGTAGCATGCACTTAGTACTACACACGCGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
*
78456770 TAGTAGCCTGCACTTAGTACTACACATGCT-ACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACG-TGACCAATTATCCGGTACACG
78456819 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
78456852 TCATAATAGA
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 70 0.63
50 40 0.36
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:78456842 original size:99 final size:99
Alignment explanation
Indices: 78456671--78456852 Score: 303
Period size: 99 Copynumber: 1.8 Consensus size: 99
78456661 TCTAGTAGCA
* * *
78456671 TAGTAGCCTGTATTTAGTACTACACATGTGACCAATTATCCGGTACATGTAGTAGCATGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCATGCACTTA
78456736 GTACTACACACGCGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
*
78456770 TAGTAGCCTGCACTTAGTACTACACATGCT-ACCAATTATCCGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATG-TGACCAATTATCCGGTACACGTAGTAGCATGCACTT
*
78456834 AGTACTACACACGTGACCT
65 AGTACTACACACGCGACCT
78456853 CATAATAGAT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 76 0.99
100 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCATGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:78461656 original size:29 final size:29
Alignment explanation
Indices: 78461614--78461676 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
78461604 CAAGTTTGTG
*
78461614 ATGTGAATTGATGAATATGAATAGAGATA
1 ATGTGAATTGATGAATATGAACAGAGATA
* *
78461643 ATGTGACTTGATGAATATGAACAGAGATG
1 ATGTGAATTGATGAATATGAACAGAGATA
78461672 ATGTG
1 ATGTG
78461677 CATTAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.30
Consensus pattern (29 bp):
ATGTGAATTGATGAATATGAACAGAGATA
Found at i:78468613 original size:29 final size:29
Alignment explanation
Indices: 78468571--78468629 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
78468561 AGCACACGAG
78468571 TAGAGACACGGGAGTGTGTCTCAGTCGTA
1 TAGAGACACGGGAGTGTGTCTCAGTCGTA
78468600 TAGAGACACGGGAGTGTGTCTCAGTCGTA
1 TAGAGACACGGGAGTGTGTCTCAGTCGTA
78468629 T
1 T
78468630 GGATGGCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TAGAGACACGGGAGTGTGTCTCAGTCGTA
Found at i:78469678 original size:18 final size:19
Alignment explanation
Indices: 78469651--78469689 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
78469641 TGTAAGTTTC
78469651 AAAAATTGGAAATAGAAAT
1 AAAAATTGGAAATAGAAAT
*
78469670 AAAAA-TGGAAATGGAAAT
1 AAAAATTGGAAATAGAAAT
78469688 AA
1 AA
78469690 TAAAGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (19 bp):
AAAAATTGGAAATAGAAAT
Found at i:78469900 original size:26 final size:26
Alignment explanation
Indices: 78469852--78469913 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
78469842 ACATATTTTC
** * **
78469852 TCAAAATTTTATTAGGGGCAAAATTG
1 TCAAAATTTTACCAAGGGCAAAATCA
*
78469878 TCAAAATTTTACCAAGGGTAAAATCA
1 TCAAAATTTTACCAAGGGCAAAATCA
78469904 TCAAAATTTT
1 TCAAAATTTT
78469914 GTTGAGGGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGCAAAATCA
Found at i:78477929 original size:40 final size:40
Alignment explanation
Indices: 78477865--78477953 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
78477855 CCGTCTTCAT
* * * * *
78477865 AACCCGTGTTCCCCATACGGCCAGGACATGCTCGTGTCTC
1 AACCCGTGTTCCCCACACGACCAGGACACGCCCATGTCTC
78477905 AACCCGTGTTCCCCACACGACCAGGACACGCCCATGTCTC
1 AACCCGTGTTCCCCACACGACCAGGACACGCCCATGTCTC
78477945 AACCCGTGT
1 AACCCGTGT
78477954 GCAAAAACCT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.19
Consensus pattern (40 bp):
AACCCGTGTTCCCCACACGACCAGGACACGCCCATGTCTC
Found at i:78483327 original size:39 final size:39
Alignment explanation
Indices: 78483273--78483553 Score: 463
Period size: 39 Copynumber: 7.2 Consensus size: 39
78483263 GAAATGTGTA
78483273 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
*
78483312 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
*
78483351 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
78483390 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
* * *
78483429 TGGAAATATATCCAGGCTAAAGACCCGTAGGCTTCGTGT
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
* *
78483468 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
* * *
78483507 TGGAAATTTATCCGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
*
78483546 TGGTAATA
1 TGGAAATA
78483554 AAATTTCGGG
Statistics
Matches: 228, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 228 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
Found at i:78489049 original size:21 final size:21
Alignment explanation
Indices: 78489025--78489067 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
78489015 CTGGAACAGG
*
78489025 ATACGAGGTGTTACCGGACTT
1 ATACGAGGTGTTACCGAACTT
78489046 ATACGAGGTGTTACCGAACTT
1 ATACGAGGTGTTACCGAACTT
78489067 A
1 A
78489068 AGCACATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (21 bp):
ATACGAGGTGTTACCGAACTT
Found at i:78490646 original size:96 final size:96
Alignment explanation
Indices: 78490482--78490655 Score: 244
Period size: 96 Copynumber: 1.8 Consensus size: 96
78490472 GTGAATTGTC
* * *
78490482 GATGCCATGTACCAAACATGGTCTTACACTAGCACACATATCGACGCCGATGCCGTGTCCTAGAC
1 GATGCCATGTACCAAACATGGTCTTACACTAGCACACATATCGACGCCGACGCCATGTCCCAGAC
*
78490547 ATGGTCTTACACTGACTCTCACAACATTGCT
66 ATGGTCTAACACTGACTCTCACAACATTGCT
* * * *
78490578 GATGCCATGTTCCAAACATGGTCTTACACT-GGATCTCATATTGTA-GCCGACGCCATGTCCCAG
1 GATGCCATGTACCAAACATGGTCTTACACTAGCA-CACATATCG-ACGCCGACGCCATGTCCCAG
78490641 ACATGGTCTAACACT
64 ACATGGTCTAACACT
78490656 AGCGCACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
95 2 0.03
96 65 0.96
97 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (96 bp):
GATGCCATGTACCAAACATGGTCTTACACTAGCACACATATCGACGCCGACGCCATGTCCCAGAC
ATGGTCTAACACTGACTCTCACAACATTGCT
Found at i:78490666 original size:48 final size:48
Alignment explanation
Indices: 78490481--78490666 Score: 155
Period size: 48 Copynumber: 3.9 Consensus size: 48
78490471 GGTGAATTGT
* * *
78490481 CGATGCCATGTACCAAACATGGTCTTACACTAGCACACATATCG-ACGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATTGTA-GC
* * * * *
78490529 CGATGCCGTGTCCTAGACATGGTCTTACACTGACTCTCACA-ACAT-T-GC
1 CGATGCCATGTCCCAAACATGGTCTTACACT-A-GCTCACATA-TTGTAGC
* * * * *
78490577 TGATGCCATGTTCCAAACATGGTCTTACACTGGATCTCATATTGTAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATTGTAGC
* * * *
78490625 CGACGCCATGTCCCAGACATGGTCTAACACTAGCGCACATAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
78490667 CACCCAAATG
Statistics
Matches: 104, Mismatches: 27, Indels: 14
0.72 0.19 0.10
Matches are distributed among these distances:
46 5 0.05
47 2 0.02
48 90 0.87
49 2 0.02
50 5 0.05
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATTGTAGC
Found at i:78492275 original size:37 final size:37
Alignment explanation
Indices: 78492225--78492298 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
78492215 TTTGAAAGTA
78492225 GAAATTAAATTAATTAGTCATCGCATTTTTATTGAGC
1 GAAATTAAATTAATTAGTCATCGCATTTTTATTGAGC
78492262 GAAATTAAATTAATTAGTCATCGCATTTTTATTGAGC
1 GAAATTAAATTAATTAGTCATCGCATTTTTATTGAGC
78492299 AAGACAATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (37 bp):
GAAATTAAATTAATTAGTCATCGCATTTTTATTGAGC
Found at i:78493578 original size:22 final size:23
Alignment explanation
Indices: 78493551--78493594 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
78493541 TAATTGAGTG
* *
78493551 AATTAATTAAAT-TTATTTTAAT
1 AATTAAATAAATAATATTTTAAT
78493573 AATTAAATAAATAATATTTTAA
1 AATTAAATAAATAATATTTTAA
78493595 GAAATAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AATTAAATAAATAATATTTTAAT
Found at i:78498661 original size:19 final size:18
Alignment explanation
Indices: 78498623--78498661 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
78498613 TAATTTTTTT
* *
78498623 AAATATAAAAATATTTTA
1 AAATATAAAAAAATTCTA
78498641 AAATATAAAAAAAATTCTA
1 AAATAT-AAAAAAATTCTA
78498660 AA
1 AA
78498662 TTTCAATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATATAAAAAAATTCTA
Found at i:78500394 original size:16 final size:17
Alignment explanation
Indices: 78500370--78500404 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
78500360 TATTATAATT
78500370 TTATAATATAATAATAG
1 TTATAATATAATAATAG
*
78500387 TTAT-ATATATTAATAG
1 TTATAATATAATAATAG
78500403 TT
1 TT
78500405 TGTCATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
TTATAATATAATAATAG
Found at i:78501588 original size:15 final size:17
Alignment explanation
Indices: 78501568--78501606 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
78501558 AAGTCAGTCC
78501568 TACTATATTATA-TA-A
1 TACTATATTATATTATA
*
78501583 TACTATCTTATATTATA
1 TACTATATTATATTATA
78501600 TACTATA
1 TACTATA
78501607 AAATATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 11 0.55
16 2 0.10
17 7 0.35
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (17 bp):
TACTATATTATATTATA
Found at i:78502495 original size:16 final size:17
Alignment explanation
Indices: 78502476--78502520 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
78502466 GGGCTTAAGA
78502476 TTTCTCAAGCTTGGA-T
1 TTTCTCAAGCTTGGACT
*
78502492 TTTCTCAAGTTTGGACT
1 TTTCTCAAGCTTGGACT
*
78502509 TTT-TCAGGCTTG
1 TTTCTCAAGCTTG
78502521 TTGGAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.47
Consensus pattern (17 bp):
TTTCTCAAGCTTGGACT
Found at i:78516786 original size:43 final size:42
Alignment explanation
Indices: 78516724--78516845 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
78516714 TATCGTACCA
*
78516724 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCCTATAG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATAG
* * * *
78516766 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATATAG
*
78516809 -TGTCATATCCCAGATATGGTCTTACATGTAAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGT-AATCTCA
78516846 GTAACCCTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
41 21 0.31
42 15 0.22
43 31 0.46
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATAG
Found at i:78518483 original size:19 final size:19
Alignment explanation
Indices: 78518449--78518522 Score: 53
Period size: 20 Copynumber: 3.8 Consensus size: 19
78518439 CCACAACAAA
*
78518449 AAAGTGCAATCAGGGGTACT
1 AAAGTACAA-CAGGGGTACT
*
78518469 AAAGTACAACAGGGGCACGT
1 AAAGTACAACAGGGGTAC-T
* *
78518489 -AAGTGCGATCAGGGGTA-T
1 AAAGTAC-AACAGGGGTACT
*
78518507 CGAAGTACAACAGGGG
1 -AAAGTACAACAGGGG
78518523 CATGTAAGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.02
19 20 0.47
20 22 0.51
ACGTcount: A:0.35, C:0.16, G:0.34, T:0.15
Consensus pattern (19 bp):
AAAGTACAACAGGGGTACT
Found at i:78518503 original size:20 final size:20
Alignment explanation
Indices: 78518478--78518581 Score: 63
Period size: 20 Copynumber: 5.3 Consensus size: 20
78518468 TAAAGTACAA
78518478 CAGGGGCACGTAAGTGCGAT
1 CAGGGGCACGTAAGTGCGAT
* * *
78518498 CAGGGGTATCG-AAGTAC-AA
1 CAGGGGCA-CGTAAGTGCGAT
* *
78518517 CAGGGGCATGTAAGTGTGAT
1 CAGGGGCACGTAAGTGCGAT
* * *
78518537 CAGGGGTACCG-AAGTACAAT
1 CAGGGGCA-CGTAAGTGCGAT
* *
78518557 -AAGGGCATGTAAGTGCGAT
1 CAGGGGCACGTAAGTGCGAT
*
78518576 TAGGGG
1 CAGGGG
78518582 TACCGAATTA
Statistics
Matches: 59, Mismatches: 19, Indels: 12
0.66 0.21 0.13
Matches are distributed among these distances:
18 2 0.03
19 24 0.41
20 30 0.51
21 3 0.05
ACGTcount: A:0.30, C:0.14, G:0.38, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTAAGTGCGAT
Found at i:78518504 original size:39 final size:39
Alignment explanation
Indices: 78518450--78518661 Score: 289
Period size: 39 Copynumber: 5.4 Consensus size: 39
78518440 CACAACAAAA
* ** * *
78518450 AAGTGCAATCAGGGGTACTAAAGTACAACAGGGGCACGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAAGGGCATGT
* *
78518489 AAGTGCGATCAGGGGTATCGAAGTACAACAGGGGCATGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAAGGGCATGT
* *
78518528 AAGTGTGATCAGGGGTACCGAAGTACAATAAGGGCATGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAAGGGCATGT
* * *
78518567 AAGTGCGATTAGGGGTACCGAATTACAACAAAGGCATGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAAGGGCATGT
* * *
78518606 AAGTGCGATTAGGGGTACCGAATTACAACAAAGGCATGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAAGGGCATGT
78518645 AAGTGCGATCAGGGGTA
1 AAGTGCGATCAGGGGTA
78518662 TAATTATATA
Statistics
Matches: 158, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 158 1.00
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.19
Consensus pattern (39 bp):
AAGTGCGATCAGGGGTACCGAAGTACAACAAGGGCATGT
Found at i:78518531 original size:19 final size:19
Alignment explanation
Indices: 78518470--78518531 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
78518460 AGGGGTACTA
*
78518470 AAGTACAACAGGGGCACGT
1 AAGTACAACAGGGGCATGT
* * *
78518489 AAGTGCGATCAGGGGTATCG-
1 AAGTAC-AACAGGGGCAT-GT
78518509 AAGTACAACAGGGGCATGT
1 AAGTACAACAGGGGCATGT
78518528 AAGT
1 AAGT
78518532 GTGATCAGGG
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 1 0.03
19 18 0.55
20 13 0.39
21 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.34, T:0.16
Consensus pattern (19 bp):
AAGTACAACAGGGGCATGT
Found at i:78522849 original size:14 final size:14
Alignment explanation
Indices: 78522832--78522937 Score: 90
Period size: 14 Copynumber: 7.6 Consensus size: 14
78522822 GTCTGTAAGC
*
78522832 ATGAATCTGTATCT
1 ATGAATCTGCATCT
* *
78522846 ATGAATCTGGATAT
1 ATGAATCTGCATCT
*
78522860 ATGAATCTGTA-CTT
1 ATGAATCTGCATC-T
* *
78522874 ATGAATCCGCATAT
1 ATGAATCTGCATCT
* *
78522888 ATGATTCTACATCT
1 ATGAATCTGCATCT
*
78522902 ATGAATCTGCATAT
1 ATGAATCTGCATCT
*
78522916 ATGAATCTGTA-CTT
1 ATGAATCTGCATC-T
78522930 ATGAATCT
1 ATGAATCT
78522938 TCATATGTGA
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
14 73 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (14 bp):
ATGAATCTGCATCT
Found at i:78522863 original size:28 final size:28
Alignment explanation
Indices: 78522832--78522943 Score: 140
Period size: 28 Copynumber: 4.0 Consensus size: 28
78522822 GTCTGTAAGC
*
78522832 ATGAATCTGTA-TCTATGAATCTGGATAT
1 ATGAATCTGTACT-TATGAATCTGCATAT
*
78522860 ATGAATCTGTACTTATGAATCCGCATAT
1 ATGAATCTGTACTTATGAATCTGCATAT
*
78522888 ATG-AT-TCTACATCTATGAATCTGCATAT
1 ATGAATCTGTAC-T-TATGAATCTGCATAT
*
78522916 ATGAATCTGTACTTATGAATCTTCATAT
1 ATGAATCTGTACTTATGAATCTGCATAT
78522944 GTGATTCATA
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.05
27 3 0.04
28 58 0.79
29 4 0.05
30 4 0.05
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (28 bp):
ATGAATCTGTACTTATGAATCTGCATAT
Found at i:78522928 original size:56 final size:56
Alignment explanation
Indices: 78522842--78522950 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
78522832 ATGAATCTGT
*
78522842 ATCTATGAATCTGGATATATGAATCTGTACTTATGAATCCGCATATATGATTCTAC
1 ATCTATGAATCTGCATATATGAATCTGTACTTATGAATCCGCATATATGATTCTAC
** *
78522898 ATCTATGAATCTGCATATATGAATCTGTACTTATGAATCTTCATATGTGATTC
1 ATCTATGAATCTGCATATATGAATCTGTACTTATGAATCCGCATATATGATTC
78522951 ATATGTGATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (56 bp):
ATCTATGAATCTGCATATATGAATCTGTACTTATGAATCCGCATATATGATTCTAC
Found at i:78523071 original size:30 final size:30
Alignment explanation
Indices: 78523037--78523096 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
78523027 TATTCAATGA
* *
78523037 GTATGAATCCACAAGTTTAAGATTGCCAAG
1 GTATGAATCCACAAATCTAAGATTGCCAAG
* * *
78523067 GTATGATTCCGCAAATCTAAGTTTGCCAAG
1 GTATGAATCCACAAATCTAAGATTGCCAAG
78523097 AACAAGTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (30 bp):
GTATGAATCCACAAATCTAAGATTGCCAAG
Found at i:78526370 original size:58 final size:58
Alignment explanation
Indices: 78526180--78526352 Score: 319
Period size: 58 Copynumber: 3.0 Consensus size: 58
78526170 AATTTGGATT
* * *
78526180 ACCCGTCCGGGCTAAATCCAATTTGTTACCTAAGCTCAAGAGGGCTTACATTAGAATC
1 ACCCTTCCAGGCTAAATCCAATTTGTAACCTAAGCTCAAGAGGGCTTACATTAGAATC
78526238 ACCCTTCCAGGCTAAATCCAATTTGTAACCTAAGCTCAAGAGGGCTTACATTAGAATC
1 ACCCTTCCAGGCTAAATCCAATTTGTAACCTAAGCTCAAGAGGGCTTACATTAGAATC
78526296 ACCCTTCCAGGCTAAATCCAATTTGTAACCTAAGCTCAAGAGGGCTTACATTAGAAT
1 ACCCTTCCAGGCTAAATCCAATTTGTAACCTAAGCTCAAGAGGGCTTACATTAGAAT
78526353 TATCTGTCCG
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 112 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (58 bp):
ACCCTTCCAGGCTAAATCCAATTTGTAACCTAAGCTCAAGAGGGCTTACATTAGAATC
Found at i:78529579 original size:18 final size:18
Alignment explanation
Indices: 78529540--78529594 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
78529530 ATTACAAAAA
*
78529540 AAAAATCAAAATAAATTT-T
1 AAAATTCAAAAT--ATTTAT
78529559 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
*
78529577 AAAATTCTAAA-ATTTAT
1 AAAATTCAAAATATTTAT
78529594 A
1 A
78529595 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 11 0.33
18 11 0.33
19 11 0.33
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:78529591 original size:17 final size:17
Alignment explanation
Indices: 78529552--78529594 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
78529542 AAATCAAAAT
78529552 AAATTT-TAAAATTCAA
1 AAATTTATAAAATTCAA
*
78529568 AATATTTATAAAATTCTA
1 AA-ATTTATAAAATTCAA
78529586 AAATTTATA
1 AAATTTATA
78529595 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.08
17 11 0.46
18 11 0.46
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATTTATAAAATTCAA
Done.