Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 54 of 64
Found at i:10931632 original size:181 final size:182
Alignment explanation
Indices: 10931256--10931728 Score: 716
Period size: 181 Copynumber: 2.6 Consensus size: 182
10931246 GATCCAAATT
* * * * *
10931256 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGATATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * **
10931320 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGCACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
*
10931385 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTAA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
10931438 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* * *
10931503 AAACCGATAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
10931567 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
10931619 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
10931684 AAACCGGTAAAATGATACCAGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
10931729 CGTAAGTACG
Statistics
Matches: 265, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
181 170 0.64
182 95 0.36
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:10931672 original size:20 final size:19
Alignment explanation
Indices: 10931635--10931695 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
10931625 ATATCGATCC
* * *
10931635 AAAACGATATAACAGGTAA
1 AAAATGATAAAACCGGTAA
*
10931654 AAATATGATAAAACCGGTATC
1 AAA-ATGATAAAACCGGTA-A
10931675 AAAATGATAAAACCGGTAA
1 AAAATGATAAAACCGGTAA
10931694 AA
1 AA
10931696 TGATACCAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 5 0.14
20 27 0.77
21 3 0.09
ACGTcount: A:0.56, C:0.11, G:0.15, T:0.18
Consensus pattern (19 bp):
AAAATGATAAAACCGGTAA
Found at i:10931697 original size:17 final size:19
Alignment explanation
Indices: 10931658--10931700 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
10931648 AGGTAAAAAT
10931658 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
10931678 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
10931695 ATGATA
1 ATGATA
10931701 CCAGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:10933913 original size:21 final size:21
Alignment explanation
Indices: 10933887--10933951 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
10933877 AAGACAATCA
*
10933887 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
10933908 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
10933929 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
10933950 AG
1 AG
10933952 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:10934027 original size:33 final size:33
Alignment explanation
Indices: 10933985--10934050 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
10933975 AAATAGATGG
*
10933985 AGTGGTGAAAGAAGTAGAGGTGTTGAGAGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGAGGTGA
* * *
10934018 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGAGGTGA
10934051 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGAGGTGA
Found at i:10935868 original size:19 final size:19
Alignment explanation
Indices: 10935844--10935892 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
10935834 AATGTAGGGT
10935844 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
10935863 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
10935882 TATTTTTGTAT
1 TAATTTTGTAT
10935893 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:10936354 original size:200 final size:200
Alignment explanation
Indices: 10936011--10936989 Score: 1823
Period size: 200 Copynumber: 4.9 Consensus size: 200
10936001 CAATATGGCC
* * *
10936011 AACAGGGTGCAACAATAAAGTGTCGAACCATATATAAAAAATGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
10936076 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
10936141 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
10936206 TGGAA
196 TGGAA
*
10936211 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTTGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
10936276 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
10936341 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
10936406 TGGAA
196 TGGAA
*
10936411 AACAAGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
10936476 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATATCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
**
10936541 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTAATTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
10936606 TGGAA
196 TGGAA
*
10936611 AACAGGGTGCAACCATAAAGTGTTGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
10936676 CCAAAAGTATAATTTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
10936741 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
10936806 TGGAA
196 TGGAA
10936811 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
10936876 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
10936941 GCATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATT
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATT
10936990 AATTTAAATA
Statistics
Matches: 755, Mismatches: 24, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 755 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
TGGAA
Found at i:10938443 original size:6 final size:6
Alignment explanation
Indices: 10938432--10938519 Score: 68
Period size: 6 Copynumber: 14.7 Consensus size: 6
10938422 CAAGCGGTCA
* * * * *
10938432 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * *
10938480 CTGACG ATGAAG ATGATG ACGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
10938520 TCCAAACAAG
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:10938469 original size:3 final size:3
Alignment explanation
Indices: 10938449--10938520 Score: 72
Period size: 3 Copynumber: 24.0 Consensus size: 3
10938439 TGAAGCTGAC
* * * * * * *
10938449 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
10938497 GAC GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT
10938521 CCAAACAAGT
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:10938484 original size:36 final size:36
Alignment explanation
Indices: 10938432--10938513 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
10938422 CAAGCGGTCA
*
10938432 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
* *
10938468 ATGACGATGAAGCTGACGATGAAGATGATGACGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
*
10938504 ATGATGATGA
1 ATGAAGATGA
10938514 TGATGATCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.38, C:0.09, G:0.33, T:0.21
Consensus pattern (36 bp):
ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
Found at i:10938520 original size:12 final size:12
Alignment explanation
Indices: 10938432--10938519 Score: 95
Period size: 12 Copynumber: 7.3 Consensus size: 12
10938422 CAAGCGGTCA
*
10938432 ATGAAGATGAAG
1 ATGACGATGAAG
*
10938444 CTGACGATGAAG
1 ATGACGATGAAG
*
10938456 ATGACGATGATG
1 ATGACGATGAAG
10938468 ATGACGATGAAG
1 ATGACGATGAAG
*
10938480 CTGACGATGAAG
1 ATGACGATGAAG
* * *
10938492 ATGATGACGATG
1 ATGACGATGAAG
* *
10938504 ATGATGATGATG
1 ATGACGATGAAG
10938516 ATGA
1 ATGA
10938520 TCCAAACAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:10940642 original size:183 final size:184
Alignment explanation
Indices: 10940367--10940859 Score: 814
Period size: 183 Copynumber: 2.7 Consensus size: 184
10940357 GCAATGCTAT
*** * *
10940367 CGGTATAAATATATATGTTTTATGAGCGAATAGGTCTACAACCTATATCAACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
* * *
10940432 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTTGATA-CATTGTCAAAACGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCGAC
10940496 AGTTACACATCGGAACCCAGAA-TTATAATGTAATAGATAATTTTGTAATATAAC
131 AGTTACACATCGGAACCCA-AATTTATAATGTAATAGATAATTTTGTAATATAAC
10940550 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
10940615 GTGTCGGTACTTAATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCGAC
* *
10940679 ATTTTCACATCGGAACCCAAATTTATAATGTAATAGATAATTTTGTAATATAAC
131 AGTTACACATCGGAACCCAAATTTATAATGTAATAGATAATTTTGTAATATAAC
* * *
10940733 CAGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACTTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
10940798 GTGTCTGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTG-AAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCG
10940860 GTAATTTTAA
Statistics
Matches: 291, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
182 2 0.01
183 285 0.98
184 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (184 bp):
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCGAC
AGTTACACATCGGAACCCAAATTTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:10943731 original size:23 final size:21
Alignment explanation
Indices: 10943705--10943761 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 21
10943695 AATAGGTAAA
10943705 ATATGATGTAATAGATAGCGCT
1 ATAT-ATGTAATAGATAGCGCT
* * *
10943727 -TATATGTAATAGGTATCGTTT
1 ATATATGTAATAGATAGCG-CT
10943748 ATATAATGTAATAG
1 ATAT-ATGTAATAG
10943762 GTAGTGGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 13 0.45
21 4 0.14
22 3 0.10
23 9 0.31
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (21 bp):
ATATATGTAATAGATAGCGCT
Found at i:10943772 original size:23 final size:23
Alignment explanation
Indices: 10943730--10943774 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10943720 TAGCGCTTAT
*
10943730 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTATCGGTTATATA
10943753 ATGTAATAGGTAGT-GGTTATAT
1 ATGTAATAGGTA-TCGGTTATAT
10943775 TGTAAAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.42
Consensus pattern (23 bp):
ATGTAATAGGTATCGGTTATATA
Found at i:10944160 original size:23 final size:23
Alignment explanation
Indices: 10944129--10944201 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
10944119 ATAGGTAAAA
* *
10944129 ATATGATGTAATAGGTAGCGATT
1 ATATAATGTAATAGGTAGTGATT
* *
10944152 ATATAATGTAATAGGTATTGTTT
1 ATATAATGTAATAGGTAGTGATT
*
10944175 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGATT
10944198 ATAT
1 ATAT
10944202 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.01, G:0.22, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGATT
Found at i:10944333 original size:427 final size:424
Alignment explanation
Indices: 10943501--10944489 Score: 1847
Period size: 427 Copynumber: 2.3 Consensus size: 424
10943491 TTGGTTAATG
10943501 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
1 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
10943566 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAAC
66 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAAC
10943631 ATAAATTACATAACTTTAAACAAAGTATCGATCTTTTTATAAAAAGTATGGACACTTTCAATATA
130 ATAAATTACATAACTTTAAACAAAGTATCGATCTTTTTATAAAAAGTATGGACACTTTCAATATA
10943696 ATAGGTAAAATATGATGTAATAGATAGCGCTTATATGTAATAGGTATCGTTTATATAATGTAATA
195 ATAGGTAAAATATGATGTAATAGATAGCGCTTATATGTAATAGGTATCGTTTATATAATGTAATA
10943761 GGTAGTGGTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCTATACTTTTTTCAATGTGG
260 GGTAGTGGTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCTATACTTTTTTCAATGTGG
*
10943826 AAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGCGT
325 AAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGT
10943891 CTAATAATTTATTTTTTACGTTACGATATATATTA
390 CTAATAATTTATTTTTTACGTTACGATATATATTA
10943926 TTGTTAAATTTAAATTCTAAATATTATTTTAT-AAATATC-AAACAATCAAATAATTTTTTGTGT
1 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
10943989 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
66 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
10944054 TAAATTACATAACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATA
131 TAAATTACATAACTTTAAACAAAGTATCGATC-TTTTTATAAAAAGTATGGACACTTTCAATATA
* * *
10944119 ATAGGTAAAAATATGATGTAATAGGTAGCGATTATATAATGTAATAGGTATTGTTTATATAATGT
195 ATAGGT-AAAATATGATGTAATAGATAGCG-CT-TAT-ATGTAATAGGTATCGTTTATATAATGT
* *
10944184 AATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
256 AATAGGTAGTGGTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCTATACTTTTTTCAAT
10944249 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
321 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
*
10944314 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTA
386 GCGTCTAATAATTTATTTTTTACGTTACGATATATATTA
10944353 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
1 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
10944418 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
66 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
10944483 TAAATTA
131 TAAATTA
10944490 GTATCGATAA
Statistics
Matches: 550, Mismatches: 7, Indels: 10
0.97 0.01 0.02
Matches are distributed among these distances:
422 47 0.09
423 112 0.20
424 29 0.05
425 33 0.06
426 3 0.01
427 223 0.41
428 7 0.01
429 96 0.17
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (424 bp):
TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
TAAATTACATAACTTTAAACAAAGTATCGATCTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAATATGATGTAATAGATAGCGCTTATATGTAATAGGTATCGTTTATATAATGTAATAG
GTAGTGGTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCTATACTTTTTTCAATGTGGA
AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTC
TAATAATTTATTTTTTACGTTACGATATATATTA
Found at i:10944527 original size:23 final size:23
Alignment explanation
Indices: 10944497--10944552 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
10944487 TTAGTATCGA
10944497 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
* *
10944520 TAATAGGTATCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
10944543 TAATAGGTAG
1 TAATAGGTAG
10944553 TGGTTATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATG
Found at i:10944559 original size:23 final size:23
Alignment explanation
Indices: 10944497--10944559 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
10944487 TTAGTATCGA
*
10944497 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGTGCTTATATAATG
*
10944520 TAATAGGTA-TCGTTTATATAATG
1 TAATAGGTAGT-GCTTATATAATG
*
10944543 TAATAGGTAGTGGTTAT
1 TAATAGGTAGTGCTTAT
10944560 TGTAAAGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (23 bp):
TAATAGGTAGTGCTTATATAATG
Found at i:10946162 original size:27 final size:27
Alignment explanation
Indices: 10946078--10946164 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
10946068 GGTCAATTTA
* *
10946078 ACCTAACCCGAAAATTATACA-CTCTCC
1 ACCTAACCCGAAAAATATACACCT-TTC
* *
10946105 ACCCAACCCGAAAAATATACATCATTT-
1 ACCTAACCCGAAAAATATACA-CCTTTC
10946132 ACCTAACCCGAAAAATATACACCTTTC
1 ACCTAACCCGAAAAATATACACCTTTC
10946159 ACCTAA
1 ACCTAA
10946165 TCCGTCTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
26 4 0.08
27 45 0.88
28 1 0.02
29 1 0.02
ACGTcount: A:0.41, C:0.33, G:0.03, T:0.22
Consensus pattern (27 bp):
ACCTAACCCGAAAAATATACACCTTTC
Found at i:10949080 original size:3 final size:3
Alignment explanation
Indices: 10949065--10949122 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
10949055 GCAAGACTTG
* *
10949065 TAA TAA -AA AAA TAA TAG TAA TAA TTAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
10949110 TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TA
10949123 TCCGGGCGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
2 4 0.08
3 42 0.86
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:10949593 original size:2 final size:2
Alignment explanation
Indices: 10949586--10949716 Score: 255
Period size: 2 Copynumber: 66.0 Consensus size: 2
10949576 CAAGACAAGC
10949586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10949628 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10949669 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10949711 AT AT AT
1 AT AT AT
10949717 TGGACGATAT
Statistics
Matches: 128, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 127 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10954156 original size:21 final size:21
Alignment explanation
Indices: 10954130--10954503 Score: 175
Period size: 21 Copynumber: 17.6 Consensus size: 21
10954120 GTTTCCAGAT
*
10954130 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
10954151 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
10954172 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
10954193 TCGCAATGCG-A--TCGA-TAA
1 TCGCAATGCGAACTTCGACT-A
* * * *
10954211 TTCGCAACGCGATCTCCG-GTA
1 -TCGCAATGCGAACTTCGACTA
*
10954232 TCGCAAAT-C-AATTTCCAGA-T-
1 TCGC-AATGCGAACTT-C-GACTA
* * * *
10954252 TCGCAACGCGAATTTGGAATAAA
1 TCGCAATGCGAACTTCGACT--A
* * * *
10954275 TCGCAACGCGAATTTGGAATAAA
1 TCGCAATGCGAACTTCGACT--A
* * * *
10954298 TCGCAACGCGAATTTGGAATAAA
1 TCGCAATGCGAACTTCGACT--A
* * * *
10954321 TCGCAACGCGAATTTGGAATAAA
1 TCGCAATGCGAACTTCGACT--A
* * *
10954344 TCGCAACGCGAA-TTTGAAATAA
1 TCGCAATGCGAACTTCG-ACT-A
*
10954366 ATCGCAACGCGAACTTCGACTA
1 -TCGCAATGCGAACTTCGACTA
*
10954388 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
10954408 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
*
10954429 TCGCAATGCGAACTTAGACTA
1 TCGCAATGCGAACTTCGACTA
10954450 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
10954471 TCGCAATGCAAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
10954492 TCGCAATGCGAA
1 TCGCAATGCGAA
10954504 TATGTAAATC
Statistics
Matches: 302, Mismatches: 25, Indels: 52
0.80 0.07 0.14
Matches are distributed among these distances:
17 1 0.00
18 5 0.02
19 16 0.05
20 29 0.10
21 140 0.46
22 10 0.03
23 98 0.32
24 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:10954279 original size:23 final size:23
Alignment explanation
Indices: 10954252--10954378 Score: 245
Period size: 23 Copynumber: 5.5 Consensus size: 23
10954242 ATTTCCAGAT
10954252 TCGCAACGCGAATTTGGAATAAA
1 TCGCAACGCGAATTTGGAATAAA
10954275 TCGCAACGCGAATTTGGAATAAA
1 TCGCAACGCGAATTTGGAATAAA
10954298 TCGCAACGCGAATTTGGAATAAA
1 TCGCAACGCGAATTTGGAATAAA
10954321 TCGCAACGCGAATTTGGAATAAA
1 TCGCAACGCGAATTTGGAATAAA
*
10954344 TCGCAACGCGAATTTGAAATAAA
1 TCGCAACGCGAATTTGGAATAAA
10954367 TCGCAACGCGAA
1 TCGCAACGCGAA
10954379 CTTCGACTAT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
23 103 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.20
Consensus pattern (23 bp):
TCGCAACGCGAATTTGGAATAAA
Found at i:10954441 original size:62 final size:61
Alignment explanation
Indices: 10954366--10954564 Score: 178
Period size: 62 Copynumber: 3.2 Consensus size: 61
10954356 TTTGAAATAA
*
10954366 ATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACT
1 ATCGCAATGCGAACTT-GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACT
* * *
10954428 ATCGCAATGCGAACTTAGACTATCGCAATGCGAACT-TCG-ACTATCGCAATGC-AAACTTCGAC
1 ATCGCAATGCGAACTT-GACTATCGCAATGCGAA-TAT-GTA-AATCGCAATGCGATA-GTCGAC
10954490 T
61 T
* * *
10954491 ATCGCAATGCGAA-TATGTA-AATCGCAATGCG-ATA-GTCGAAGTTCGCATTGCGATAGTCGAC
1 ATCGCAATGCGAACT-TG-ACTATCGCAATGCGAATATGT--AA-ATCGCAATGCGATAGTCGAC
10954552 T
61 T
*
10954553 ATCGCATTGCGA
1 ATCGCAATGCGA
10954565 TTTACATATT
Statistics
Matches: 113, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
59 1 0.01
60 1 0.01
61 1 0.01
62 75 0.66
63 35 0.31
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (61 bp):
ATCGCAATGCGAACTTGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACT
Found at i:10954542 original size:21 final size:21
Alignment explanation
Indices: 10954512--10954606 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
10954502 AATATGTAAA
*
10954512 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
10954533 TCGCATTGCGATAGTCG-ACT
1 TCGCATTGCGATAGTCGAAGT
*
10954553 ATCGCATTGCGAT-TTAC-ATA-T
1 -TCGCATTGCGATAGT-CGA-AGT
10954574 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
10954595 TCGCGTTGCGAT
1 TCGCATTGCGAT
10954607 TTATTCCAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
20 17 0.27
21 44 0.71
22 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:10954553 original size:104 final size:104
Alignment explanation
Indices: 10954366--10954564 Score: 303
Period size: 104 Copynumber: 1.9 Consensus size: 104
10954356 TTTGAAATAA
*
10954366 ATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACTATC
1 ATCGCAACGCAAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACTATC
*
10954431 GCAATGCGAACTTAGACTATCGCAATGCGAACTTCGACT
66 GCAATGCGAACGTAGACTATCGCAATGCGAACTTCGACT
* *
10954470 ATCGCAATGCAAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGT-T
1 ATCGCAACGCAAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCG-ACTAT
* * *
10954534 CGCATTGCGATA-GTCGACTATCGCATTGCGA
65 CGCAATGCGA-ACGTAGACTATCGCAATGCGA
10954565 TTTACATATT
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
104 83 0.97
105 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (104 bp):
ATCGCAACGCAAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACTATC
GCAATGCGAACGTAGACTATCGCAATGCGAACTTCGACT
Found at i:10954577 original size:41 final size:41
Alignment explanation
Indices: 10954532--10954609 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
10954522 ATAGTCGAAG
10954532 TTCGCATTGCGATAGTCG-ACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATAGTCGAACT-TCGCATTGCGATTTACATA
* *
10954573 TTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATTTA
1 TTCGCATTGCGATAGTCGAACTTCGCATTGCGATTTA
10954610 TTCCAAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
41 32 0.94
42 2 0.06
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (41 bp):
TTCGCATTGCGATAGTCGAACTTCGCATTGCGATTTACATA
Found at i:10954766 original size:21 final size:21
Alignment explanation
Indices: 10954740--10954840 Score: 157
Period size: 21 Copynumber: 4.8 Consensus size: 21
10954730 ACCACGACCA
*
10954740 CGACTATCACAATGCGAACTT
1 CGACTATCGCAATGCGAACTT
10954761 CGACTATCGCAATGCGAACTT
1 CGACTATCGCAATGCGAACTT
* *
10954782 GGACTATCGCAACGCGAACTT
1 CGACTATCGCAATGCGAACTT
*
10954803 GGACTATCGCAATGCGAACTT
1 CGACTATCGCAATGCGAACTT
*
10954824 CGACTATCGCATTGCGA
1 CGACTATCGCAATGCGA
10954841 TTTACATATT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
CGACTATCGCAATGCGAACTT
Found at i:10954855 original size:20 final size:20
Alignment explanation
Indices: 10954830--10954881 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
10954820 ACTTCGACTA
10954830 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
10954850 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
10954870 TCGCATTGCGAT
1 TCGCATTGCGAT
10954882 AGTCCAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:10954895 original size:21 final size:21
Alignment explanation
Indices: 10954869--10955006 Score: 197
Period size: 21 Copynumber: 6.6 Consensus size: 21
10954859 GATTTACATA
10954869 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
10954890 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
10954911 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
10954932 TTCGCATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
*
10954952 TATCGCATTACGATAGTCCAAG
1 T-TCGCATTGCGATAGTCCAAG
* *
10954974 TTTGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
10954995 TTCGCGTTGCGA
1 TTCGCATTGCGA
10955007 ATCTGGAAAC
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
20 3 0.03
21 97 0.94
22 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:10954923 original size:42 final size:42
Alignment explanation
Indices: 10954869--10955006 Score: 224
Period size: 42 Copynumber: 3.3 Consensus size: 42
10954859 GATTTACATA
10954869 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
*
10954911 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCG-AC
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
* *
10954952 TATCGCATTACGATAGTCCAAGTTTGCATTGCGATAGTCGAAG
1 T-TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
*
10954995 TTCGCGTTGCGA
1 TTCGCATTGCGA
10955007 ATCTGGAAAC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
41 2 0.02
42 84 0.95
43 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (42 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
Found at i:10958167 original size:34 final size:34
Alignment explanation
Indices: 10958124--10958207 Score: 127
Period size: 32 Copynumber: 2.5 Consensus size: 34
10958114 CCCGATTATA
*
10958124 TATATATATAATATTTTTTATTTTTTATATTAAT
1 TATATATATAATATTTTTTATATTTTATATTAAT
*
10958158 TATATATATAATA--TTGTATATTTTATATTAAT
1 TATATATATAATATTTTTTATATTTTATATTAAT
*
10958190 TATATATAAAATATTTTT
1 TATATATATAATATTTTT
10958208 GGGTTCTGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
32 29 0.66
34 15 0.34
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (34 bp):
TATATATATAATATTTTTTATATTTTATATTAAT
Found at i:10960748 original size:2 final size:2
Alignment explanation
Indices: 10960741--10960774 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
10960731 TTCGACACAA
10960741 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10960775 AAATAAAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10970171 original size:75 final size:74
Alignment explanation
Indices: 10970049--10970188 Score: 235
Period size: 75 Copynumber: 1.9 Consensus size: 74
10970039 GAAACAAGCA
* *
10970049 CTGCAAAAGATTCAAACATAATTAGAAAAAAAAATCCAAATTTCAGAAGATAGATAATGAAGCAA
1 CTGCAAAAGATTCAAAAAGAATTAGAAAAAAAAATCCAAATTTCAGAAGATAGATAATGAAGCAA
10970114 TTTTTTTCC
66 TTTTTTTCC
* *
10970123 CTGCAAAAGATTCAAAAAAGAATTAGAAAAACAAATCCAAATTTCAGAAGATATATAATGAAGCA
1 CTGCAAAAGATTC-AAAAAGAATTAGAAAAAAAAATCCAAATTTCAGAAGATAGATAATGAAGCA
10970188 A
65 A
10970189 ATCAAATAGG
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
74 13 0.21
75 48 0.79
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.24
Consensus pattern (74 bp):
CTGCAAAAGATTCAAAAAGAATTAGAAAAAAAAATCCAAATTTCAGAAGATAGATAATGAAGCAA
TTTTTTTCC
Found at i:10971358 original size:19 final size:19
Alignment explanation
Indices: 10971334--10971373 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
10971324 TGAGCTGAGT
10971334 TTGCCCACAACTTCAAGGG
1 TTGCCCACAACTTCAAGGG
10971353 TTGCCCACAACTTCAAGGG
1 TTGCCCACAACTTCAAGGG
10971372 TT
1 TT
10971374 CTGGGTTTGT
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:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (19 bp):
TTGCCCACAACTTCAAGGG
Found at i:10972183 original size:17 final size:18
Alignment explanation
Indices: 10972146--10972186 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
10972136 ATATTATGTA
*
10972146 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
10972164 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
10972181 TTTACT
1 TTTACT
10972187 AATATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:10980777 original size:11 final size:10
Alignment explanation
Indices: 10980755--10980808 Score: 65
Period size: 11 Copynumber: 5.2 Consensus size: 10
10980745 TTTATTTTTT
10980755 TAAAAATAAA
1 TAAAAATAAA
10980765 TAAAAATACAA
1 TAAAAATA-AA
10980776 TAAAAATAAA
1 TAAAAATAAA
*
10980786 T-AAAATGCAA
1 TAAAAAT-AAA
10980796 TAAAAATATAA
1 TAAAAATA-AA
10980807 TA
1 TA
10980809 TAAAGTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 5 0.13
10 14 0.37
11 19 0.50
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:10980781 original size:21 final size:21
Alignment explanation
Indices: 10980755--10980808 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
10980745 TTTATTTTTT
10980755 TAAAAATAAATAAAAATACAA
1 TAAAAATAAATAAAAATACAA
*
10980776 TAAAAATAAAT-AAAATGCAA
1 TAAAAATAAATAAAAATACAA
10980796 TAAAAATATAATA
1 TAAAAATA-AATA
10980809 TAAAGTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAAAATAAATAAAAATACAA
Found at i:10980790 original size:31 final size:33
Alignment explanation
Indices: 10980755--10980825 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 33
10980745 TTTATTTTTT
10980755 TAAAAATAAATAAAAATACAATA-AAA-ATAAA
1 TAAAAATAAATAAAAATACAATATAAAGATAAA
* * *
10980786 T-AAAATGCAATAAAAATATAATATAAAGTTAAA
1 TAAAAAT-AAATAAAAATACAATATAAAGATAAA
10980819 -AAAAATA
1 TAAAAATA
10980826 TCACATCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
30 5 0.16
31 15 0.47
32 3 0.09
33 9 0.28
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (33 bp):
TAAAAATAAATAAAAATACAATATAAAGATAAA
Found at i:10982093 original size:10 final size:10
Alignment explanation
Indices: 10982068--10982125 Score: 71
Period size: 10 Copynumber: 5.6 Consensus size: 10
10982058 TTTATATTAT
*
10982068 ATTTTTATTG
1 ATTTTTATTC
*
10982078 AATTTTATTC
1 ATTTTTATTC
10982088 ATTTTTAATTC
1 ATTTTT-ATTC
10982099 ATTTTTATTAC
1 ATTTTTATT-C
*
10982110 ATTTTTATTT
1 ATTTTTATTC
10982120 ATTTTT
1 ATTTTT
10982126 TAAATAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
10 22 0.52
11 20 0.48
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:10982123 original size:21 final size:21
Alignment explanation
Indices: 10982062--10982125 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
10982052 ATTAGCTTTA
* * *
10982062 TATTATATTTTTATTGAATTT
1 TATTACATTTTTATTCATTTT
10982083 TATT-CATTTTTAATTCATTTT
1 TATTACATTTTT-ATTCATTTT
*
10982104 TATTACATTTTTATTTATTTT
1 TATTACATTTTTATTCATTTT
10982125 T
1 T
10982126 TAAATAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.16
21 24 0.65
22 7 0.19
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (21 bp):
TATTACATTTTTATTCATTTT
Found at i:10987113 original size:26 final size:26
Alignment explanation
Indices: 10987077--10987130 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
10987067 ACCGCAGGCT
10987077 GTGATGAACTTAGTGAAGAGATTAAG
1 GTGATGAACTTAGTGAAGAGATTAAG
10987103 GTGATGAACTTAGTGAAGAGATTAAG
1 GTGATGAACTTAGTGAAGAGATTAAG
10987129 GT
1 GT
10987131 TGGTTTCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.31, T:0.28
Consensus pattern (26 bp):
GTGATGAACTTAGTGAAGAGATTAAG
Found at i:10994312 original size:60 final size:59
Alignment explanation
Indices: 10994244--10994395 Score: 175
Period size: 60 Copynumber: 2.6 Consensus size: 59
10994234 TTTGAGTTGG
*
10994244 TCCTTAAACTTTTGAATATTCCAATTTCATCCCTAAACTATGA-CTCTGATTCTAAATT-A
1 TCCTTAAACTTTTGAATATTCCAATTTCATCCCTAAACTACGACCTCT--TTCTAAATTGA
* * * *
10994303 GTTCTTAAACTTTT-TATCATTCTAATTTTATCCCTAAACTACGACCTCTTTCTAAATTGA
1 -TCCTTAAACTTTTGAAT-ATTCCAATTTCATCCCTAAACTACGACCTCTTTCTAAATTGA
* * *
10994363 TCCCTAAACTTTTGAATGTTCCAAGTTCATCCC
1 TCCTTAAACTTTTGAATATTCCAATTTCATCCC
10994396 CAAATTCATC
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
59 34 0.45
60 38 0.50
61 4 0.05
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (59 bp):
TCCTTAAACTTTTGAATATTCCAATTTCATCCCTAAACTACGACCTCTTTCTAAATTGA
Found at i:10994613 original size:60 final size:59
Alignment explanation
Indices: 10994522--10994634 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 59
10994512 GTATATACGT
* * * * *
10994522 ATAGTTTGGGCTGAAATTGTAATGCTAAAAAGTTTGGGGA-TCAATTTAGAATGCATGTC
1 ATAGTTTGGGATGAAATTGAAATACTAAAAAGTTTGAGAAGT-AATTTAGAATGCATGTC
* *
10994581 ATAGTTTGAGGATGAAATTGAAATATTCAAAAGTTTGAGAAGTAATTTAGAATG
1 ATAGTTTG-GGATGAAATTGAAATACTAAAAAGTTTGAGAAGTAATTTAGAATG
10994635 ATAGTTATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
59 8 0.18
60 36 0.80
61 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (59 bp):
ATAGTTTGGGATGAAATTGAAATACTAAAAAGTTTGAGAAGTAATTTAGAATGCATGTC
Found at i:10994659 original size:60 final size:61
Alignment explanation
Indices: 10994564--10994681 Score: 136
Period size: 60 Copynumber: 2.0 Consensus size: 61
10994554 TTTGGGGATC
* * *
10994564 AATTTAGAATGCATGTCATAGTTTGAGGATGAAATT-GAAATATTCAAAAGTTT-GAGAAGT
1 AATTTAGAATGCATGTCATACTTTGAGGATAAAATTAG-AATATTCAAAAATTTAGAGAAGT
* *
10994624 AATTTAGAATG-ATAGTTATACTTT-AGGAATAAAATTAGAATATTTAAAAATTTAGAGA
1 AATTTAGAATGCAT-GTCATACTTTGAGG-ATAAAATTAGAATATTCAAAAATTTAGAGA
10994682 CCAATTTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
59 5 0.10
60 39 0.80
61 5 0.10
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (61 bp):
AATTTAGAATGCATGTCATACTTTGAGGATAAAATTAGAATATTCAAAAATTTAGAGAAGT
Found at i:10994792 original size:12 final size:13
Alignment explanation
Indices: 10994755--10994784 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
10994745 AGTTCCCTCC
10994755 ACAAAGGAACAAT
1 ACAAAGGAACAAT
10994768 ACAAAGGAACAAT
1 ACAAAGGAACAAT
10994781 ACAA
1 ACAA
10994785 GGATCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.17, G:0.13, T:0.07
Consensus pattern (13 bp):
ACAAAGGAACAAT
Found at i:10996482 original size:21 final size:21
Alignment explanation
Indices: 10996457--10996496 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10996447 TTATTACATA
10996457 TATTATATTCTTAACTTAAAT
1 TATTATATTCTTAACTTAAAT
* *
10996478 TATTATGTTCTTACCTTAA
1 TATTATATTCTTAACTTAA
10996497 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.53
Consensus pattern (21 bp):
TATTATATTCTTAACTTAAAT
Found at i:10996548 original size:82 final size:80
Alignment explanation
Indices: 10996385--10996557 Score: 195
Period size: 82 Copynumber: 2.1 Consensus size: 80
10996375 TAAATTCACA
* *
10996385 TCTTAACTTAAAATATATTTATTATCTTAACTTTTAAAAATATATTTCATTTTTATCTTAACTTA
1 TCTTAACTTAAAATATATTTATTACCTTAACTTTTAAAAATATATTTCATTCTTATCTTAACTTA
**
10996450 TTACATATATTATAT
66 AAACATATATTATAT
* * * * *
10996465 TCTTAACTTAAATTATTATGTTCTTACCTTAATTTTTTAAAATATTATTT-ATTCTTATTTTAAC
1 TCTTAACTTAAAATA-TAT-TTATTACCTTAACTTTTAAAAATA-TATTTCATTCTTATCTTAAC
* * *
10996529 TTAAAATATATGTTCTAT
63 TTAAAACATATATTATAT
*
10996547 TCTTATCTTAA
1 TCTTAACTTAA
10996558 CTTAAAAAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 14 0.18
81 3 0.04
82 55 0.71
83 5 0.06
ACGTcount: A:0.35, C:0.10, G:0.01, T:0.54
Consensus pattern (80 bp):
TCTTAACTTAAAATATATTTATTACCTTAACTTTTAAAAATATATTTCATTCTTATCTTAACTTA
AAACATATATTATAT
Found at i:10996550 original size:30 final size:29
Alignment explanation
Indices: 10996384--10996571 Score: 107
Period size: 30 Copynumber: 6.7 Consensus size: 29
10996374 TTAAATTCAC
10996384 ATCTTAACTT-AAA-ATATATTTA---TT
1 ATCTTAACTTAAAATATATATTTATTCTT
*
10996408 ATCTTAACTTTTAAAA-ATATATTTCATTTTT
1 ATCTTAAC--TTAAAATATATATTT-ATTCTT
** * *
10996439 ATCTTAACTTATTACATATA-TTA-T-AT
1 ATCTTAACTTAAAATATATATTTATTCTT
* *
10996465 -TCTTAACTT-AAAT-TAT-TATGTTCTT
1 ATCTTAACTTAAAATATATATTTATTCTT
* *
10996490 ACCTTAATTTTTTAAAATAT-TATTTATTCTT
1 ATCTTAA---CTTAAAATATATATTTATTCTT
* *
10996521 ATTTTAACTTAAAATATATGTTCTATTCTT
1 ATCTTAACTTAAAATATATATT-TATTCTT
*
10996551 ATCTTAACTTAAAAAATATAT
1 ATCTTAACTTAAAATATATAT
10996572 ATTTTATTTT
Statistics
Matches: 124, Mismatches: 20, Indels: 34
0.70 0.11 0.19
Matches are distributed among these distances:
23 4 0.03
24 10 0.08
25 10 0.08
26 8 0.06
27 12 0.10
28 11 0.09
29 11 0.09
30 35 0.28
31 23 0.19
ACGTcount: A:0.37, C:0.10, G:0.01, T:0.52
Consensus pattern (29 bp):
ATCTTAACTTAAAATATATATTTATTCTT
Found at i:10996608 original size:35 final size:36
Alignment explanation
Indices: 10996566--10996660 Score: 113
Period size: 36 Copynumber: 2.7 Consensus size: 36
10996556 AACTTAAAAA
* * *
10996566 ATATATATTTTATTTTAATTTTGA-TTAATATATAT
1 ATATATATTTTATTTTAATTTTAATTTAAGAAATAT
*
10996601 ATATATATATTATTTTAATTTTAATTTAAGAAATAT
1 ATATATATTTTATTTTAATTTTAATTTAAGAAATAT
* *
10996637 AT-TTTATTTTTATCTTAATTTTAA
1 ATATATA-TTTTATTTTAATTTTAA
10996661 AATATTATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
35 25 0.49
36 26 0.51
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (36 bp):
ATATATATTTTATTTTAATTTTAATTTAAGAAATAT
Found at i:10997768 original size:20 final size:20
Alignment explanation
Indices: 10997724--10997769 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
10997714 CTTAAAGTTA
* *
10997724 TAATTTTAAAAAATATTTTG
1 TAATTTTAAAAAAAATTGTG
10997744 TAATTTTAAAAACAAATTGTG
1 TAATTTTAAAAA-AAATTGTG
10997765 -AATTT
1 TAATTT
10997770 ATATATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (20 bp):
TAATTTTAAAAAAAATTGTG
Found at i:11000207 original size:117 final size:116
Alignment explanation
Indices: 10999981--11000217 Score: 316
Period size: 117 Copynumber: 2.0 Consensus size: 116
10999971 TTATAGCTAA
* * * * * *
10999981 AAATGATGTTCTTTTGAAAGCTAAAATAGATTTTGAAAATCAAAATGAAATGTTGAAAAAGGAGT
1 AAATGATCTTCTTCTAAAAACTAAAATAGATTTTGAAAATCAAAACGAAATATTGAAAAAGGAGT
*
11000046 TAGAGCTTTCAAAAATGAAATCTGAAAAACTTTGAAAAAGAAATTTTGAATT
66 TAGAGCTTTCAAAAATGAAATCTGAAAAAC-TTGAAAAAGAAATTTCGAATT
* *
11000098 AAATGATCTTCTTCTAAAAACTAAAATAGATTTTGAGAATCAAAACGAAATATTGAAGAAGGA-T
1 AAATGATCTTCTTCTAAAAACTAAAATAGATTTTGAAAATCAAAACGAAATATTGAAAAAGGAGT
* * *
11000162 CTAGAGCTTTCAAAAATGAAATTTGAAAGTA-TTGAAAAAGAAAATTTCGATTT
66 -TAGAGCTTTCAAAAATGAAATCTGAAA-AACTTGAAAAAG-AAATTTCGAATT
11000215 AAA
1 AAA
11000218 AGTGTCAGAA
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
116 10 0.10
117 94 0.90
118 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (116 bp):
AAATGATCTTCTTCTAAAAACTAAAATAGATTTTGAAAATCAAAACGAAATATTGAAAAAGGAGT
TAGAGCTTTCAAAAATGAAATCTGAAAAACTTGAAAAAGAAATTTCGAATT
Found at i:11000728 original size:22 final size:20
Alignment explanation
Indices: 11000674--11000730 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
11000664 AACATAAACA
11000674 AAATGAAAATAAAGAAATAAG
1 AAAT-AAAATAAAGAAATAAG
*
11000695 AAAAAGAGAATAAAGACAATAAG
1 AAATA-A-AATAAAGA-AATAAG
11000718 TAAATAAAATAAA
1 -AAATAAAATAAA
11000731 CTAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 1 0.03
21 4 0.13
22 14 0.47
23 7 0.23
24 4 0.13
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.14
Consensus pattern (20 bp):
AAATAAAATAAAGAAATAAG
Found at i:11000737 original size:14 final size:14
Alignment explanation
Indices: 11000718--11000755 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
11000708 AGACAATAAG
11000718 TAAATAAAATAAAC
1 TAAATAAAATAAAC
11000732 TAAATAAAATAAAC
1 TAAATAAAATAAAC
*
11000746 AAAATGAAAA
1 TAAAT-AAAA
11000756 GAAATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (14 bp):
TAAATAAAATAAAC
Found at i:11000871 original size:2 final size:2
Alignment explanation
Indices: 11000864--11000902 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
11000854 AATAAAAATA
11000864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11000903 CCAAATAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11001020 original size:18 final size:18
Alignment explanation
Indices: 11000992--11001033 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
11000982 AGAAAGAGAT
11000992 AAAAT-AATAATAATAAA
1 AAAATAAATAATAATAAA
11001009 AAAATAAATAATAATAAA
1 AAAATAAATAATAATAAA
*
11001027 GAAATAA
1 AAAATAA
11001034 TTAAACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAATAAATAATAATAAA
Found at i:11002317 original size:19 final size:19
Alignment explanation
Indices: 11002293--11002329 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11002283 AATAGATACA
11002293 TATATTATATAATATAATT
1 TATATTATATAATATAATT
*
11002312 TATATTATATAATGTAAT
1 TATATTATATAATATAAT
11002330 AACATTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTATATAATATAATT
Found at i:11003152 original size:251 final size:249
Alignment explanation
Indices: 11002709--11003303 Score: 812
Period size: 251 Copynumber: 2.4 Consensus size: 249
11002699 GAAGTTGGGT
* * * * *
11002709 ACGATATCATTCGTTGTAAAGTTAAAATCGTAGATAGCTCATTCGTTGTGAAGTTGAGCTTTGAA
1 ACGATATCATTCATTGTGAAGTTGAAATCGTAGATGGCTCATTCGTTGTGAAGTTGAGCCTTGAA
* * * *
11002774 TTGGATATCCTTAGTCGTGAAGTTGAAATCTAATTTTATGTAAGTTGCGTTGTTTTGAGTCCAAT
66 TTGGATATCCTTCGTCGTGAAGTTGAAATCTAATCTTATGTAAGTTGCATTGTTTCGAGTCCAAT
*
11002839 ATCCTTCACCGTGAAGTTGAAATTGGCTTTGAATGAAACTGGGAAGCCCCTTCGCTGTGAAGTTG
131 ATCCTTCACCGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGAAGTTG
* * * * *
11002904 AGCTTTGAATTGGATATCCTTCGTCGTGAAGTTCAAATCCAATTTTGTGTATAAGC
196 AGCTTTGAATTGGATATACTTCGTCATGAAATTAAAATCCAATTTTGAGT-T-AGC
* * * * *
11002960 ACGATATCATTCCTCGTGAAGTTGAAATTGTAGATGGCTCGTTCGTTGAGAAGTTGAGCCTTGAA
1 ACGATATCATTCATTGTGAAGTTGAAATCGTAGATGGCTCATTCGTTGTGAAGTTGAGCCTTGAA
* * **
11003025 TTGGATATCCTTCGTCGTGAAGTTGAAATTTAATCTTGTGTAAGTTTTATTGTTTCGAGTCCAAT
66 TTGGATATCCTTCGTCGTGAAGTTGAAATCTAATCTTATGTAAGTTGCATTGTTTCGAGTCCAAT
**
11003090 ATCCTTTGCCGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGAAGTTG
131 ATCCTTCACCGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGAAGTTG
* * * *
11003155 AGCTTTGAATTGGATATATTTCTTCATGAAATTAAAATCTAATTTTGAGTTGGC
196 AGCTTTGAATTGGATATACTTCGTCATGAAATTAAAATCCAATTTTGAGTTAGC
** * * * * * * *
11003209 ATAATATCCTTCATTGCGAAGTTGAAATCGTGGATGGCCCCTTCATTGTGAAGTTAAGCCTTGAA
1 ACGATATCATTCATTGTGAAGTTGAAATCGTAGATGGCTCATTCGTTGTGAAGTTGAGCCTTGAA
*
11003274 TTGGATATCCTTCATCGTGAAGTTGAAATC
66 TTGGATATCCTTCGTCGTGAAGTTGAAATC
11003304 CAATATAAAG
Statistics
Matches: 300, Mismatches: 44, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
249 82 0.27
250 1 0.00
251 217 0.72
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (249 bp):
ACGATATCATTCATTGTGAAGTTGAAATCGTAGATGGCTCATTCGTTGTGAAGTTGAGCCTTGAA
TTGGATATCCTTCGTCGTGAAGTTGAAATCTAATCTTATGTAAGTTGCATTGTTTCGAGTCCAAT
ATCCTTCACCGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGAAGTTG
AGCTTTGAATTGGATATACTTCGTCATGAAATTAAAATCCAATTTTGAGTTAGC
Found at i:11009949 original size:12 final size:12
Alignment explanation
Indices: 11009932--11009962 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11009922 ACTTTCAACA
11009932 GTGCCTCCCAAT
1 GTGCCTCCCAAT
*
11009944 GTGCCTCCCGAT
1 GTGCCTCCCAAT
11009956 GTGCCTC
1 GTGCCTC
11009963 TGAGTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.42, G:0.23, T:0.26
Consensus pattern (12 bp):
GTGCCTCCCAAT
Found at i:11015488 original size:57 final size:55
Alignment explanation
Indices: 11015405--11015525 Score: 163
Period size: 57 Copynumber: 2.2 Consensus size: 55
11015395 AACGAGTAAC
* *
11015405 GAAAGATAAAGAAAAGAATAAAAATAAAGATAACAAGTAAATAACATAAACAAAAT
1 GAAA-ATAAAGAAAAGAATAAAAATAAAGACAACAAGTAAATAAAATAAACAAAAT
* * *
11015461 GAAAATAAAGAAACAAGAATAAGAATAAAGACAATAAGTAAATAAAATAAACTAAAT
1 GAAAATAAAG-AA-AAGAATAAAAATAAAGACAACAAGTAAATAAAATAAACAAAAT
11015518 -AAAATAAA
1 GAAAATAAA
11015526 CTAAATGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
55 6 0.10
56 14 0.24
57 38 0.66
ACGTcount: A:0.70, C:0.05, G:0.10, T:0.15
Consensus pattern (55 bp):
GAAAATAAAGAAAAGAATAAAAATAAAGACAACAAGTAAATAAAATAAACAAAAT
Found at i:11015544 original size:14 final size:14
Alignment explanation
Indices: 11015442--11015536 Score: 68
Period size: 14 Copynumber: 6.6 Consensus size: 14
11015432 AGATAACAAG
*
11015442 TAAATAACATAAAC
1 TAAATAAAATAAAC
*
11015456 AAAATGAAAATAAA-
1 TAAAT-AAAATAAAC
* * *
11015470 GAAACAAGAATAAGAA
1 TAAATAA-AATAA-AC
* * *
11015486 TAAAGACAAT-AAG
1 TAAATAAAATAAAC
11015499 TAAATAAAATAAAC
1 TAAATAAAATAAAC
11015513 TAAATAAAATAAAC
1 TAAATAAAATAAAC
11015527 TAAATGAAAA
1 TAAAT-AAAA
11015537 CAAATAAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
13 11 0.17
14 34 0.53
15 15 0.23
16 4 0.06
ACGTcount: A:0.69, C:0.06, G:0.07, T:0.17
Consensus pattern (14 bp):
TAAATAAAATAAAC
Found at i:11015643 original size:23 final size:23
Alignment explanation
Indices: 11015586--11015650 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
11015576 TAATAGTGAA
*
11015586 AATAATATATACATATAAATAAAT
1 AATAA-ATATAAATATAAATAAAT
*
11015610 AGGATAGATATAAATA-AAATAAAAT
1 A--ATAAATATAAATATAAAT-AAAT
*
11015635 AATAAATATATATATA
1 AATAAATATAAATATA
11015651 TATATATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
23 11 0.33
24 6 0.18
25 13 0.39
26 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (23 bp):
AATAAATATAAATATAAATAAAT
Found at i:11015647 original size:2 final size:2
Alignment explanation
Indices: 11015640--11015666 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11015630 AAAATAATAA
11015640 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11015667 CAAAATAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11015802 original size:22 final size:19
Alignment explanation
Indices: 11015759--11015804 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
11015749 TAAAGAGGGA
*
11015759 AAATAATAATAAATAAAAT
1 AAATAATAATAAAAAAAAT
11015778 AAATAATAATAAAGAAATAATT
1 AAATAATAATAAA-AAA-AA-T
11015800 AAATA
1 AAATA
11015805 TATATATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 13 0.57
20 2 0.09
21 2 0.09
22 6 0.26
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AAATAATAATAAAAAAAAT
Found at i:11016236 original size:23 final size:23
Alignment explanation
Indices: 11016204--11016253 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
11016194 TCCAAATGAA
11016204 GAACAACAGCCTGGGTTCTTGAT
1 GAACAACAGCCTGGGTTCTTGAT
*
11016227 GAACAGCAGCCTGGGTTCTTGAT
1 GAACAACAGCCTGGGTTCTTGAT
11016250 GAAC
1 GAAC
11016254 CCAGAATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (23 bp):
GAACAACAGCCTGGGTTCTTGAT
Found at i:11017110 original size:19 final size:19
Alignment explanation
Indices: 11017086--11017122 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11017076 AATAGATACA
11017086 TATATTATATAATATAATT
1 TATATTATATAATATAATT
*
11017105 TATATTATATAATGTAAT
1 TATATTATATAATATAAT
11017123 AACATTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTATATAATATAATT
Found at i:11021106 original size:21 final size:21
Alignment explanation
Indices: 11021082--11021133 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
11021072 CCCTTGCTAG
11021082 GTATCGATACTGC-TTCAACGT
1 GTATCGATACT-CTTTCAACGT
* *
11021103 GTATCGATAACTCTTTGAATGT
1 GTATCGAT-ACTCTTTCAACGT
11021125 GTATCGATA
1 GTATCGATA
11021134 TCCCTCAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (21 bp):
GTATCGATACTCTTTCAACGT
Found at i:11025205 original size:87 final size:87
Alignment explanation
Indices: 11025054--11025232 Score: 322
Period size: 87 Copynumber: 2.1 Consensus size: 87
11025044 AAACTCAAAT
* *
11025054 TTTAGGATATTATTTTAAATATTATATTTTATCTTATCTTTGTTTTATGTATTTTAGTTAAAATA
1 TTTATGATATTATTTTAAATATTATATTTTATCTTATCTTTGTTTTAGGTATTTTAGTTAAAATA
*
11025119 GTTTTAAGTATTTTAATTAGGA
66 GTTTTAAGTATTTTAATTAGAA
*
11025141 TTTATGATATTATTTTAAATATTATATTTTATCTTATCTTTGTTTTAGGTATTTTAGTTTAAATA
1 TTTATGATATTATTTTAAATATTATATTTTATCTTATCTTTGTTTTAGGTATTTTAGTTAAAATA
11025206 GTTTTAAGTATTTTAATTAGAA
66 GTTTTAAGTATTTTAATTAGAA
11025228 TTTAT
1 TTTAT
11025233 TTTCTTTATT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (87 bp):
TTTATGATATTATTTTAAATATTATATTTTATCTTATCTTTGTTTTAGGTATTTTAGTTAAAATA
GTTTTAAGTATTTTAATTAGAA
Found at i:11032332 original size:20 final size:20
Alignment explanation
Indices: 11032303--11032340 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11032293 TTTCAAAGGG
11032303 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
11032323 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
11032341 GAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:11040009 original size:65 final size:64
Alignment explanation
Indices: 11039933--11040112 Score: 218
Period size: 65 Copynumber: 2.8 Consensus size: 64
11039923 GAATAAATTG
* * *
11039933 AACATCGAATGCATTTTATGCATCGATGCACTCTCTATGCATCGATGCACTCAGGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACTCTATGCATCGATGCACTCAGG-CTTAATCAA
* * * * * *
11039998 AACATCAAATGCATTTTATGCATCGATGCACACACCAAGCATCGATGCACTTAGGCTTATTCAA
1 AACATCGAATGCATTTTATGCATCGATGCACACTCTATGCATCGATGCACTCAGGCTTAATCAA
* * * *
11040062 AACATTGAATGCATTTTATACATTGATGCACACT-TAGTGCACCGATGCACT
1 AACATCGAATGCATTTTATGCATCGATGCACACTCTA-TGCATCGATGCACT
11040113 AAGTGTTCCA
Statistics
Matches: 97, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
63 1 0.01
64 47 0.48
65 49 0.51
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACACTCTATGCATCGATGCACTCAGGCTTAATCAA
Found at i:11040181 original size:54 final size:54
Alignment explanation
Indices: 11040091--11040217 Score: 211
Period size: 54 Copynumber: 2.4 Consensus size: 54
11040081 ACATTGATGC
11040091 ACACTT-AGTGCACCGATGCACTAAGTGTTCCAACGGTCAAAATATTTGAATTTT
1 ACACTTGA-TGCACCGATGCACTAAGTGTTCCAACGGTCAAAATATTTGAATTTT
* * *
11040145 ACATTTGATGCACCGATGTACTAAGTGTTCCAACGGTCAAAATATTTGATTTTT
1 ACACTTGATGCACCGATGCACTAAGTGTTCCAACGGTCAAAATATTTGAATTTT
11040199 ACACTTGATGCACCGATGC
1 ACACTTGATGCACCGATGC
11040218 TCCTTGTGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
54 66 0.99
55 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (54 bp):
ACACTTGATGCACCGATGCACTAAGTGTTCCAACGGTCAAAATATTTGAATTTT
Found at i:11045529 original size:35 final size:35
Alignment explanation
Indices: 11045483--11045558 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
11045473 AACACACACA
11045483 CAACATATTACCTTTAAGGAACTGCCAATGGGATT
1 CAACATATTACCTTTAAGGAACTGCCAATGGGATT
11045518 CAACATATTACCTTTAAGGAACTGCCAATGGGATT
1 CAACATATTACCTTTAAGGAACTGCCAATGGGATT
11045553 CAACAT
1 CAACAT
11045559 CCATCACCTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (35 bp):
CAACATATTACCTTTAAGGAACTGCCAATGGGATT
Found at i:11047178 original size:52 final size:52
Alignment explanation
Indices: 11047100--11047203 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
11047090 TTATTTTATT
* * * *
11047100 GAGTCATTCGACTATTAAAAGTTACACAATAGTCTCAAACTATGGAGAGTTG
1 GAGTCACTCAACTATTAAAAGTTACACAATAATCCCAAACTATGGAGAGTTG
11047152 GAGTCACTCAACTATTAAAAGTTACACAATAATCCCAAACTATGGAGAGTTG
1 GAGTCACTCAACTATTAAAAGTTACACAATAATCCCAAACTATGGAGAGTTG
11047204 TTTCGTTGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27
Consensus pattern (52 bp):
GAGTCACTCAACTATTAAAAGTTACACAATAATCCCAAACTATGGAGAGTTG
Found at i:11047927 original size:3 final size:3
Alignment explanation
Indices: 11047913--11047977 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
11047903 ATCATTCTAA
*
11047913 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT -TGT ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* *
11047956 ATGT GTC ATT ATT ATT ATT ATT
1 AT-T ATT ATT ATT ATT ATT ATT
11047978 TAATATAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 5 0.10
3 44 0.86
4 2 0.04
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:11048001 original size:12 final size:11
Alignment explanation
Indices: 11047979--11048018 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
11047969 ATTATTATTT
*
11047979 AATATAAAAAA
1 AATAAAAAAAA
*
11047990 ATTAAAAAAAA
1 AATAAAAAAAA
*
11048001 AATAAAATAAA
1 AATAAAAAAAA
11048012 AATAAAA
1 AATAAAA
11048019 TGTGATCGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:11048468 original size:136 final size:135
Alignment explanation
Indices: 11048221--11048492 Score: 411
Period size: 136 Copynumber: 2.0 Consensus size: 135
11048211 CATTTTCTGG
* * * *
11048221 TGAAACAACTATTAGATTTAGATTTAGGGGGTCGCGACTAACCGATCCATGAAATTTGAGACTGA
1 TGAAACAACCATCAAATTTAGATTTAGGGGGTCGAGACTAACCGATCCATGAAATTTGAGACTGA
*
11048286 ACAACCTCCATTTACAGTGGTTGATGATAGCTGACGGTAGCATCCGACCACCTTTTGCTTTTTAT
66 ACAACCTCCATTTACAGTGGTTGATGATAGCCGACGGTAGCATCCGACCACCTTTTG-TTTTTAT
11048351 TTTATA
130 TTTATA
*
11048357 TGAAACAACCATCAAATTTAGATTTAGGGGGTCGAGACTAA-CGAATCCATGAAATTTGGGACTG
1 TGAAACAACCATCAAATTTAGATTTAGGGGGTCGAGACTAACCG-ATCCATGAAATTTGAGACTG
* * * * **
11048421 AACGACCTCCATTTACGGTGGTTGATGGTGGCCGACGGTAGTGTCCGACCACCTTTTGTTTTTAT
65 AACAACCTCCATTTACAGTGGTTGATGATAGCCGACGGTAGCATCCGACCACCTTTTGTTTTTAT
11048486 TTTATA
130 TTTATA
11048492 T
1 T
11048493 TTTCAATTGT
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
135 16 0.13
136 107 0.87
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (135 bp):
TGAAACAACCATCAAATTTAGATTTAGGGGGTCGAGACTAACCGATCCATGAAATTTGAGACTGA
ACAACCTCCATTTACAGTGGTTGATGATAGCCGACGGTAGCATCCGACCACCTTTTGTTTTTATT
TTATA
Found at i:11048633 original size:14 final size:14
Alignment explanation
Indices: 11048614--11048642 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11048604 AGTGAATAAA
11048614 AAGTTGAAAGTACG
1 AAGTTGAAAGTACG
11048628 AAGTTGAAAGTACG
1 AAGTTGAAAGTACG
11048642 A
1 A
11048643 TGAGGAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.21
Consensus pattern (14 bp):
AAGTTGAAAGTACG
Found at i:11049915 original size:14 final size:14
Alignment explanation
Indices: 11049896--11049922 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11049886 CAGATTGACT
11049896 AAAAATAAAAATTA
1 AAAAATAAAAATTA
11049910 AAAAATAAAAATT
1 AAAAATAAAAATT
11049923 TGAATTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATAAAAATTA
Found at i:11053270 original size:13 final size:13
Alignment explanation
Indices: 11053252--11053276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11053242 GATAGACGCG
11053252 ATAAAAAAATATT
1 ATAAAAAAATATT
11053265 ATAAAAAAATAT
1 ATAAAAAAATAT
11053277 AACATTTTAA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
ATAAAAAAATATT
Found at i:11065842 original size:1 final size:1
Alignment explanation
Indices: 11065800--11065833 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
11065790 GACAAAGAGG
* *
11065800 AAAAAAAAAAAAAAAAAAAAAAACAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11065834 GAGGAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11067196 original size:131 final size:124
Alignment explanation
Indices: 11066909--11067276 Score: 539
Period size: 131 Copynumber: 2.9 Consensus size: 124
11066899 GTTCCACTCA
* *
11066909 AGACAACACAAGTTTAACTTCACGACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTCA
1 AGACAA-ACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTCA
*
11066974 GACAACACAAGTTCAACTTCACAACGAA-GGGCCGCTGGTTGTCACAAAATTTCCCAGTC
65 AACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCACAAAATTTCCCAGTC
*
11067033 AGACACACAAGTTCAACTTCACAACGAAGGGGCC-CTGGTTGTCAACAAAATTTTCCCAGTTTCA
1 AGACAAACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAA-TTTCCCAGTTTCA
11067097 AACAACACAAGTTCAACTTCAACGAAACACGAAGGGGCCGCTGGTTGTCGA-AAAATTTCCCAGT
65 AACAACACAAGTTCAACTTC-AC---A-ACGAAGGGGCCGCTGGTTGTC-ACAAAATTTCCCAG-
11067161 ATC
123 -TC
11067164 AGACAAACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT-AA
1 AGACAAACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTCAA
* *
11067228 GACAGCACAAGTTCAA-TTCACAACGAAGGGGCCGCTGGCTGTCAACAAA
66 -ACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTC-ACAAA
11067277 CAACTTCCCA
Statistics
Matches: 223, Mismatches: 8, Indels: 24
0.87 0.03 0.09
Matches are distributed among these distances:
122 16 0.07
123 58 0.26
124 7 0.03
125 21 0.09
126 4 0.02
127 1 0.00
128 5 0.02
129 29 0.13
130 6 0.03
131 60 0.27
132 16 0.07
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (124 bp):
AGACAAACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTCAA
ACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCACAAAATTTCCCAGTC
Found at i:11067248 original size:63 final size:64
Alignment explanation
Indices: 11066908--11067276 Score: 524
Period size: 63 Copynumber: 5.8 Consensus size: 64
11066898 CGTTCCACTC
* *
11066908 AAGACAACACAAGTTTAACTTCACGACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
*
11066972 CAGACAACACAAGTTCAACTTCACAACGAA-GGGCCGCTGGTTGTC-ACAAAATTTCCCAG--T
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
*
11067032 CAGAC-ACACAAGTTCAACTTCACAACGAAGGGGCC-CTGGTTGTCAACAAAATTTTCCCAGTTT
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAA-TTTCCCAGTTT
*
11067095 CAA-ACAACACAAGTTCAACTTCAACGAAACACGAAGGGGCCGCTGGTTGTCGA-AAAATTTCCC
1 -AAGACAACACAAGTTCAACTTC-AC---A-ACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCC
*
11067158 AGTAT
60 AGTTT
*
11067163 CAGACAA-ACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
* *
11067226 AAGACAGCACAAGTTCAA-TTCACAACGAAGGGGCCGCTGGCTGTCAACAAA
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA
11067277 CAACTTCCCA
Statistics
Matches: 277, Mismatches: 12, Indels: 33
0.86 0.04 0.10
Matches are distributed among these distances:
59 33 0.12
60 17 0.06
61 8 0.03
62 36 0.13
63 70 0.25
64 54 0.19
65 2 0.01
66 2 0.01
67 15 0.05
68 15 0.05
69 15 0.05
70 10 0.04
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (64 bp):
AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
Found at i:11067311 original size:63 final size:63
Alignment explanation
Indices: 11066915--11067319 Score: 330
Period size: 63 Copynumber: 6.4 Consensus size: 63
11066905 CTCAAGACAA
* * * * * * * *
11066915 CACAAGTTTAACTTCACGACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTCAGACAA
1 CACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAAACTTCCCAATGTAAGA-AG
* * *
11066979 CACAAGTTCAACTTCACAACGAA-GGGCCGCTGGTTGTC-ACAAAATTTCCC-A-GTCAGACA-
1 CACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAAACTTCCCAATGTAAGA-AG
* * * *
11067038 CACAAGTTCAACTTCACAACGAAGGGGCC-CTGGTTGTCAACAAAATTTTCCCAGTTTCAA-ACA
1 CACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAAA-CTTCCCAATGT-AAGA-A
*
11067101 A
63 G
* * * * * *
11067102 CACAAGTTCAACTTCAACGAAACACGAAGGGGCCGCTGGTTGTCGA-AAAATTTCCCAGTATCAG
1 CACAAGTTCAACTTC-AC---A-ACGAAGGGGCCGCTGGCTGTCAACAAAACTTCCCAATGTAAG
11067166 ACA-
61 A-AG
* * * * *
11067169 AACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTAAGACAG
1 CACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAAACTTCCCAATGTAAGA-AG
*
11067233 CACAAGTTCAA-TTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATGTCAG-AG
1 CACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAAC-AA-AACTTCCCAATGTAAGAAG
* *
11067296 C-CAATTTCAACTTCACAGCGAAGG
1 CACAAGTTCAACTTCACAACGAAGG
11067320 ATATTGGACT
Statistics
Matches: 300, Mismatches: 22, Indels: 39
0.83 0.06 0.11
Matches are distributed among these distances:
59 32 0.11
60 18 0.06
61 6 0.02
62 42 0.14
63 83 0.28
64 49 0.16
65 14 0.05
66 2 0.01
67 15 0.05
68 14 0.05
69 15 0.05
70 10 0.03
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (63 bp):
CACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAAACTTCCCAATGTAAGAAG
Found at i:11067423 original size:104 final size:105
Alignment explanation
Indices: 11067227--11067442 Score: 328
Period size: 104 Copynumber: 2.1 Consensus size: 105
11067217 TCCCAGTTTA
*
11067227 AGACAGCACAAGTTCAATTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATGTC
1 AGACAACACAAGTTCAATTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATGTC
11067292 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
66 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
* * * *
11067332 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCG-TGGTTGTCAACAAAC-ACTTTCCAGTTT
1 AGACAACACAAGTTCAA-TTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATGT
* * *
11067395 CAGAGTCAATTTCAACTTCACGGCGAAGGATATTGGCCTCG
65 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
*
11067436 AAACAAC
1 AGACAAC
11067443 GCAACTTGCA
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
104 53 0.52
105 30 0.30
106 18 0.18
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (105 bp):
AGACAACACAAGTTCAATTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATGTC
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
Found at i:11068630 original size:23 final size:23
Alignment explanation
Indices: 11068600--11068647 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
11068590 GCGGCGACGA
11068600 GGTGGCATGGGTCACCGGAATCT
1 GGTGGCATGGGTCACCGGAATCT
11068623 GGTGGCATGGGTCACCGGAATCT
1 GGTGGCATGGGTCACCGGAATCT
11068646 GG
1 GG
11068648 AAATTCACGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.21, G:0.42, T:0.21
Consensus pattern (23 bp):
GGTGGCATGGGTCACCGGAATCT
Found at i:11068669 original size:27 final size:27
Alignment explanation
Indices: 11068631--11068684 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
11068621 CTGGTGGCAT
11068631 GGGTCACCGGAATCTGGAAATTCACGC
1 GGGTCACCGGAATCTGGAAATTCACGC
11068658 GGGTCACCGGAATCTGGAAATTCACGC
1 GGGTCACCGGAATCTGGAAATTCACGC
11068685 CGGCGTTCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.19
Consensus pattern (27 bp):
GGGTCACCGGAATCTGGAAATTCACGC
Found at i:11069238 original size:2 final size:2
Alignment explanation
Indices: 11069233--11069265 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11069223 GACATTACGT
11069233 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11069266 TCTAAGTCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11069627 original size:13 final size:13
Alignment explanation
Indices: 11069592--11069629 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
11069582 ATCTTATTCT
*
11069592 TTTA-TTTTTGTC
1 TTTATTTTTTTTC
*
11069604 TCTATTTTTTTTC
1 TTTATTTTTTTTC
11069617 TTTATTTTTTTTC
1 TTTATTTTTTTTC
11069630 CCTCGTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTATTTTTTTTC
Found at i:11072099 original size:21 final size:21
Alignment explanation
Indices: 11072070--11072118 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
11072060 CACATAGTGT
11072070 ATCGATGTACCTTGGCTATGC
1 ATCGATGTACCTTGGCTATGC
*
11072091 ATTGATGTACCTTGGCTATGC
1 ATCGATGTACCTTGGCTATGC
11072112 ATCGATG
1 ATCGATG
11072119 CACCCCACGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
ATCGATGTACCTTGGCTATGC
Found at i:11077864 original size:21 final size:22
Alignment explanation
Indices: 11077840--11077898 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
11077830 ATGCATCCCT
11077840 TGAATGTGCATCGATACA-CCA
1 TGAATGTGCATCGATACATCCA
* * * *
11077861 TGAAGGTGCACCGATGCATTCCT
1 TGAATGTGCATCGATACA-TCCA
11077884 TGAATGTGCATCGAT
1 TGAATGTGCATCGAT
11077899 GCACTCTGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 15 0.50
23 15 0.50
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (22 bp):
TGAATGTGCATCGATACATCCA
Found at i:11077892 original size:23 final size:22
Alignment explanation
Indices: 11077829--11077901 Score: 85
Period size: 23 Copynumber: 3.3 Consensus size: 22
11077819 AGAATGTACT
11077829 GATGCATCCCTTGAATGTGCATC
1 GATGCAT-CCTTGAATGTGCATC
* * * *
11077852 GATACA-CCATGAAGGTGCACC
1 GATGCATCCTTGAATGTGCATC
11077873 GATGCATTCCTTGAATGTGCATC
1 GATGCA-TCCTTGAATGTGCATC
11077896 GATGCA
1 GATGCA
11077902 CTCTGCTGTG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 17 0.43
23 23 0.57
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (22 bp):
GATGCATCCTTGAATGTGCATC
Found at i:11078310 original size:23 final size:23
Alignment explanation
Indices: 11078284--11078330 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
11078274 CAATTTTTCA
11078284 AAAAAAAATGAAATTTCGAA-ATT
1 AAAAAAAATG-AATTTCGAATATT
*
11078307 AAAAAAAATGATTTTCGAATATT
1 AAAAAAAATGAATTTCGAATATT
11078330 A
1 A
11078331 TTGTTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAAAAAATGAATTTCGAATATT
Found at i:11079826 original size:27 final size:27
Alignment explanation
Indices: 11079789--11079855 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
11079779 CTTAGGATTT
11079789 ATGTT-TTGGATTGTTAAAACACTTTG
1 ATGTTGTTGGATTGTTAAAACACTTTG
11079815 ATGTTGTTGGATTGTTAAAACACTTTG
1 ATGTTGTTGGATTGTTAAAACACTTTG
11079842 ATGTTGTTGGATTG
1 ATGTTGTTGGATTG
11079856 ACATGTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 5 0.12
27 35 0.88
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.46
Consensus pattern (27 bp):
ATGTTGTTGGATTGTTAAAACACTTTG
Found at i:11079898 original size:22 final size:23
Alignment explanation
Indices: 11079863--11079911 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
11079853 TTGACATGTT
*
11079863 TTTGGATTGTTTGAATTTGATGA
1 TTTGGATTGTTTGAATTGGATGA
*
11079886 TTTGGA-TGTTTGAATTGGATGT
1 TTTGGATTGTTTGAATTGGATGA
11079908 TTTG
1 TTTG
11079912 AACTTAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (23 bp):
TTTGGATTGTTTGAATTGGATGA
Found at i:11080640 original size:66 final size:64
Alignment explanation
Indices: 11080564--11080720 Score: 190
Period size: 66 Copynumber: 2.4 Consensus size: 64
11080554 CACACCCATT
* * *
11080564 TCGAATGCATTTTGTGTACCGATGCACA-AGCCATGCATCGATGCACTCTTGAATATTTTTGAAA
1 TCGAATGCATTTTGTGTACCGATGCACAGA-CCATGCATCGATGCACTCCTG--GATCTTTGAAA
11080628 CA
63 CA
* * *
11080630 TCGAATGCATTTTTTGTATCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGGATCTTTGAAACA
* * * *
11080694 TCGAATGTAATTAGTGTACTGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
11080721 CCCTAGTGTA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 31 0.40
66 46 0.59
67 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (64 bp):
TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGGATCTTTGAAACA
Found at i:11083261 original size:3 final size:3
Alignment explanation
Indices: 11083253--11083286 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
11083243 GTAACTGCTC
* *
11083253 ACG ACG ACG ATG ACG ACG ACG ATG ACG ACG ACG A
1 ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG A
11083287 TGATGATAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.35, C:0.26, G:0.32, T:0.06
Consensus pattern (3 bp):
ACG
Found at i:11083270 original size:12 final size:12
Alignment explanation
Indices: 11083253--11083289 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
11083243 GTAACTGCTC
11083253 ACGACGACGATG
1 ACGACGACGATG
11083265 ACGACGACGATG
1 ACGACGACGATG
11083277 ACGACGACGATG
1 ACGACGACGATG
11083289 A
1 A
11083290 TGATAGTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.32, T:0.08
Consensus pattern (12 bp):
ACGACGACGATG
Found at i:11084767 original size:16 final size:16
Alignment explanation
Indices: 11084737--11084767 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11084727 TTCAAGCTCA
*
11084737 ACTCGAACTCGAAAAG
1 ACTCGAACTCAAAAAG
11084753 ACTCGAACTCAAAAA
1 ACTCGAACTCAAAAA
11084768 TAATTCGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (16 bp):
ACTCGAACTCAAAAAG
Found at i:11084809 original size:11 final size:11
Alignment explanation
Indices: 11084795--11084894 Score: 78
Period size: 11 Copynumber: 9.0 Consensus size: 11
11084785 TGAAGCTCGA
*
11084795 GATTCGAGCTC
1 GATTCAAGCTC
* *
11084806 GATTAAAACTC
1 GATTCAAGCTC
** *
11084817 GATTTTGAGCTT
1 GA-TTCAAGCTC
11084829 GATTCAAGCTC
1 GATTCAAGCTC
*
11084840 GAATT-AAACTC
1 G-ATTCAAGCTC
11084851 GATTCAAGCTC
1 GATTCAAGCTC
*
11084862 GAATT-AAACTC
1 G-ATTCAAGCTC
11084873 GATTCAAGCTC
1 GATTCAAGCTC
*
11084884 GAATCAAGCTC
1 GATTCAAGCTC
11084895 AAATGCTCAC
Statistics
Matches: 69, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
10 6 0.09
11 50 0.72
12 13 0.19
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (11 bp):
GATTCAAGCTC
Found at i:11084855 original size:22 final size:22
Alignment explanation
Indices: 11084829--11084887 Score: 118
Period size: 22 Copynumber: 2.7 Consensus size: 22
11084819 TTTTGAGCTT
11084829 GATTCAAGCTCGAATTAAACTC
1 GATTCAAGCTCGAATTAAACTC
11084851 GATTCAAGCTCGAATTAAACTC
1 GATTCAAGCTCGAATTAAACTC
11084873 GATTCAAGCTCGAAT
1 GATTCAAGCTCGAAT
11084888 CAAGCTCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (22 bp):
GATTCAAGCTCGAATTAAACTC
Found at i:11087143 original size:7 final size:7
Alignment explanation
Indices: 11087127--11087165 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
11087117 GGATTAAGAT
11087127 TTTAGGG
1 TTTAGGG
*
11087134 TTTAGAG
1 TTTAGGG
**
11087141 TTTAGTA
1 TTTAGGG
11087148 TTTAGGG
1 TTTAGGG
11087155 TTTAGGG
1 TTTAGGG
11087162 TTTA
1 TTTA
11087166 AGGCTCATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:11087647 original size:19 final size:18
Alignment explanation
Indices: 11087623--11087709 Score: 77
Period size: 19 Copynumber: 4.5 Consensus size: 18
11087613 TCATATTTTT
*
11087623 ATTTTATTATATTTTTAAA
1 ATTTTA-TAAATTTTTAAA
11087642 ATTTTATAGAATTTTTAATA
1 ATTTTATA-AATTTTTAA-A
*
11087662 TATTTTGA-AAATTTTATATA
1 -ATTTT-ATAAATTTT-TAAA
*
11087682 ATTTTAATATATTTTTAAA
1 ATTTT-ATAAATTTTTAAA
11087701 ATTTTATAA
1 ATTTTATAA
11087710 TTATCAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
18 5 0.09
19 28 0.50
20 14 0.25
21 8 0.14
22 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTTTATAAATTTTTAAA
Found at i:11087666 original size:11 final size:11
Alignment explanation
Indices: 11087624--11087743 Score: 55
Period size: 11 Copynumber: 11.7 Consensus size: 11
11087614 CATATTTTTA
*
11087624 TTTTATTATAT
1 TTTTAATATAT
11087635 TTTTAA-A-A-
1 TTTTAATATAT
*
11087643 TTTT-ATAGAAT
1 TTTTAATA-TAT
11087654 TTTTAATATAT
1 TTTTAATATAT
*
11087665 TTTGAA-A-A-
1 TTTTAATATAT
*
11087673 TTTT-ATATAA
1 TTTTAATATAT
11087683 TTTTAATATAT
1 TTTTAATATAT
11087694 TTTTAA-A-AT
1 TTTTAATATAT
11087703 TTTATAAT-TAT
1 TTT-TAATATAT
*** **
11087714 CAATAACGTAT
1 TTTTAATATAT
*
11087725 TTTTAATTTAT
1 TTTTAATATAT
11087736 TTTTAATA
1 TTTTAATA
11087744 ATGTAATTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 26
0.66 0.12 0.21
Matches are distributed among these distances:
7 2 0.02
8 9 0.11
9 8 0.10
10 14 0.17
11 45 0.56
12 3 0.04
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (11 bp):
TTTTAATATAT
Found at i:11087667 original size:29 final size:29
Alignment explanation
Indices: 11087623--11087708 Score: 136
Period size: 29 Copynumber: 2.9 Consensus size: 29
11087613 TCATATTTTT
*
11087623 ATTTTATTATATTTTTAAAATTTTATAGA
1 ATTTTAATATATTTTTAAAATTTTATAGA
* *
11087652 ATTTTTAATATATTTTGAAAATTTTATATA
1 A-TTTTAATATATTTTTAAAATTTTATAGA
11087682 ATTTTAATATATTTTTAAAATTTTATA
1 ATTTTAATATATTTTTAAAATTTTATA
11087709 ATTATCAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 26 0.50
30 26 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
ATTTTAATATATTTTTAAAATTTTATAGA
Found at i:11088997 original size:85 final size:85
Alignment explanation
Indices: 11088854--11089026 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 85
11088844 AGTCTAAATT
11088854 TACAGTGCATCAACAAGACATCTGAAAGGCCAAAGTTATCAATCATAGTTAAAATATAAGATTTG
1 TACAGTGCATCAACAAGACATCTGAAAGGCCAAAGTTATCAATCATAGTTAAAATATAAGATTTG
11088919 ACGATCATATTTATTTAGCG
66 ACGATCATATTTATTTAGCG
*
11088939 TACAGTGCATCGACAAGACATCTGAAAGGCCAAAGTTATCAATCATAGTTAAAATATAAGATTTG
1 TACAGTGCATCAACAAGACATCTGAAAGGCCAAAGTTATCAATCATAGTTAAAATATAAGATTTG
11089004 ACGATCATATTTATTTAGCG
66 ACGATCATATTTATTTAGCG
11089024 TAC
1 TAC
11089027 TGACATACGA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (85 bp):
TACAGTGCATCAACAAGACATCTGAAAGGCCAAAGTTATCAATCATAGTTAAAATATAAGATTTG
ACGATCATATTTATTTAGCG
Found at i:11090795 original size:27 final size:27
Alignment explanation
Indices: 11090765--11090817 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
11090755 CGTTAGATAA
* *
11090765 AATATTAATTTAACCTTTAAATTTTAT
1 AATATCAAATTAACCTTTAAATTTTAT
**
11090792 AATATCAAATTGTCCTTTAAATTTTA
1 AATATCAAATTAACCTTTAAATTTTA
11090818 GATAAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (27 bp):
AATATCAAATTAACCTTTAAATTTTAT
Found at i:11092133 original size:44 final size:44
Alignment explanation
Indices: 11092050--11092134 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
11092040 CGTTTTATCA
* * *
11092050 CAAAAACGCCTCTAAATGTTCTAACATAAATTGGCGTTTGTTCC
1 CAAAAACGCCGCTAAATGTTATAACATAAAGTGGCGTTTGTTCC
** * *
11092094 CAAAAACGCCGCTAAATGTTATGTCATATAGTGGTGTTTGT
1 CAAAAACGCCGCTAAATGTTATAACATAAAGTGGCGTTTGT
11092135 GAATGTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (44 bp):
CAAAAACGCCGCTAAATGTTATAACATAAAGTGGCGTTTGTTCC
Found at i:11094570 original size:40 final size:40
Alignment explanation
Indices: 11094466--11094590 Score: 128
Period size: 40 Copynumber: 3.1 Consensus size: 40
11094456 GCGAATCATT
* * * * *
11094466 AAAAGCCATTAAAGTATGAGTTTTTAGCGG-AGTTTTTGCTTA
1 AAAAGCCACTAAAGTATCAGGTTTTAGCGGCA-TTTGT-C-AA
* *
11094508 AAACGCCACTAAAGTATCAGGTTTTAGTGGCATTTGTCAA
1 AAAAGCCACTAAAGTATCAGGTTTTAGCGGCATTTGTCAA
*
11094548 AAAAGCCACTAAAGTA-CTAGGTTTTAGCGGCGTTTGTCAA
1 AAAAGCCACTAAAGTATC-AGGTTTTAGCGGCATTTGTCAA
11094588 AAA
1 AAA
11094591 CGCTGCAATA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 39 0.55
41 1 0.01
42 29 0.41
43 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (40 bp):
AAAAGCCACTAAAGTATCAGGTTTTAGCGGCATTTGTCAA
Found at i:11094717 original size:42 final size:38
Alignment explanation
Indices: 11094658--11094778 Score: 91
Period size: 38 Copynumber: 3.1 Consensus size: 38
11094648 TTCTATTGCG
* *
11094658 GCGTTTGTTTAAA-AAACGCCACGAAAGTACTAATCTTTA
1 GCGTTTG-TCAAATAAACGCCACGAAAGTACGAAT-TTTA
* * * *
11094697 GCGTCGTTTGTCAAATAAACGTCACTAAAGTTCGAGTTTTA
1 --G-CGTTTGTCAAATAAACGCCACGAAAGTACGAATTTTA
* * * * *
11094738 GCGTTTGTCAAATAAACGTCACTAAAATATGAGTTTTA
1 GCGTTTGTCAAATAAACGCCACGAAAGTACGAATTTTA
11094776 GCG
1 GCG
11094779 GCGTTTGTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
38 37 0.54
39 1 0.01
41 9 0.13
42 22 0.32
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (38 bp):
GCGTTTGTCAAATAAACGCCACGAAAGTACGAATTTTA
Found at i:11094749 original size:38 final size:38
Alignment explanation
Indices: 11094701--11094778 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
11094691 TCTTTAGCGT
*
11094701 CGTTTGTCAAATAAACGTCACTAAAGT-TCGAGTTTTAG
1 CGTTTGTCAAATAAACGTCACTAAAATAT-GAGTTTTAG
11094739 CGTTTGTCAAATAAACGTCACTAAAATATGAGTTTTAG
1 CGTTTGTCAAATAAACGTCACTAAAATATGAGTTTTAG
11094777 CG
1 CG
11094779 GCGTTTGTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 37 0.97
39 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (38 bp):
CGTTTGTCAAATAAACGTCACTAAAATATGAGTTTTAG
Found at i:11096755 original size:12 final size:12
Alignment explanation
Indices: 11096740--11096779 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
11096730 CAGAGATATA
11096740 AGAAATCAGAGC
1 AGAAATCAGAGC
11096752 AGAAATCAGAGC
1 AGAAATCAGAGC
* *
11096764 AGAGATCAGAAC
1 AGAAATCAGAGC
11096776 AGAA
1 AGAA
11096780 TTAGAGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.53, C:0.15, G:0.25, T:0.07
Consensus pattern (12 bp):
AGAAATCAGAGC
Found at i:11100475 original size:41 final size:43
Alignment explanation
Indices: 11100399--11100554 Score: 149
Period size: 41 Copynumber: 3.7 Consensus size: 43
11100389 TCGCAAAAGG
* * * * * *
11100399 TAGCGGCGTTTTTCGTTCACAAACGCTGCTGAAGGTGATGTTTTT
1 TAGCGGCGTTTTT-ATT-ACAAACGCCGCTAAAGGTAATGATATT
11100444 TAGCGGCG-TTTT-TTACAAACGCCGCTAAAGGTAATGATATT
1 TAGCGGCGTTTTTATTACAAACGCCGCTAAAGGTAATGATATT
* * * *
11100485 TAACGGCGTTTTTATTACAAACGTCGCTAAATGTTATGATATT
1 TAGCGGCGTTTTTATTACAAACGCCGCTAAAGGTAATGATATT
* * *
11100528 TAGCGGTG-TATT-TTCCAAACGCCGCTA
1 TAGCGGCGTTTTTATTACAAACGCCGCTA
11100555 TTTATCTTTT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 42 0.44
42 9 0.09
43 32 0.34
44 4 0.04
45 8 0.08
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (43 bp):
TAGCGGCGTTTTTATTACAAACGCCGCTAAAGGTAATGATATT
Found at i:11100624 original size:43 final size:43
Alignment explanation
Indices: 11100572--11100669 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 43
11100562 TTTCTTTTGT
*
11100572 GGCGTTTTGTGCCAAAAACTCCGCTAAATGTCT-TGGCATATAGC
1 GGCG-TTTGTGCCAAAAACGCCGCTAAATGT-TATGGCATATAGC
* * *
11100616 GGCGTTTGTTCCCAAAAACGCCGCTAAATGTTATGTCATATAGT
1 GGCGTTTG-TGCCAAAAACGCCGCTAAATGTTATGGCATATAGC
*
11100660 GGCATTTGTG
1 GGCGTTTGTG
11100670 AATGTAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
43 6 0.13
44 40 0.87
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (43 bp):
GGCGTTTGTGCCAAAAACGCCGCTAAATGTTATGGCATATAGC
Found at i:11100656 original size:44 final size:44
Alignment explanation
Indices: 11100583--11100668 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
11100573 GCGTTTTGTG
* *
11100583 CCAAAAACTCCGCTAAATGTCTTGGCATATAGCGGCGTTTGTTC
1 CCAAAAACGCCGCTAAATGTCTTGGCATATAGCGGCATTTGTTC
* *
11100627 CCAAAAACGCCGCTAAATGT-TATGTCATATAGTGGCATTTGT
1 CCAAAAACGCCGCTAAATGTCT-TGGCATATAGCGGCATTTGT
11100669 GAATGTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.03
44 36 0.97
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CCAAAAACGCCGCTAAATGTCTTGGCATATAGCGGCATTTGTTC
Found at i:11100855 original size:21 final size:21
Alignment explanation
Indices: 11100803--11100861 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
11100793 ATTATCCAAT
*
11100803 AAACTTAACATCCATAACAAC
1 AAACTTAAAATCCATAACAAC
* *
11100824 AAACTTGAAATCCATAACAAG
1 AAACTTAAAATCCATAACAAC
* *
11100845 ATACTTAAAATCTATAA
1 AAACTTAAAATCCATAA
11100862 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.53, C:0.20, G:0.03, T:0.24
Consensus pattern (21 bp):
AAACTTAAAATCCATAACAAC
Found at i:11102203 original size:21 final size:21
Alignment explanation
Indices: 11102144--11102205 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
11102134 TAAAAATATG
*
11102144 AAAAATAAAATTGACACCCCTT
1 AAAAAT-AAATTGACACCGCTT
*
11102166 TAAAATAATATTGACACCGCTCT
1 AAAAATAA-ATTGACACCGCT-T
11102189 AAAAATAAA-TGACACCG
1 AAAAATAAATTGACACCG
11102206 TACTATAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 10 0.29
22 17 0.49
23 8 0.23
ACGTcount: A:0.48, C:0.21, G:0.08, T:0.23
Consensus pattern (21 bp):
AAAAATAAATTGACACCGCTT
Found at i:11105353 original size:41 final size:41
Alignment explanation
Indices: 11105261--11105680 Score: 328
Period size: 41 Copynumber: 10.2 Consensus size: 41
11105251 ACAATCGTCG
* * * *
11105261 CTAAAGTATGAGTCTATAGCAGCGTTTTTAAACACAAACGCCA
1 CTAAAGTACGAGTCTATAGCGGCGTTTGTATA-A-AAACGCCA
11105304 CTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
1 CTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
* * * *
11105345 CTAAAGTACGTGTCTATAGCGGCGTTTTTATAAAAATGCCG
1 CTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
* * *
11105386 CTAAAGTACGTGTCTATAGCGACGTTTGTATAAAAACGCCG
1 CTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
* * * * *
11105427 CTAAATTGCGTGTCTATAGCGGCATTTGTATAAAAACGCCG
1 CTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
* * * *
11105468 CTAAATTATGTGTCTATAGTGGCGTTTGTATAAAAACGCCA
1 CTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
* * * * * * * *
11105509 ATTAATTACGTGTCTATAGCGGCATTTATTTAAAAACGCCG
1 CTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
* * * * *
11105550 CTAAAGTTCTA--CTA-AGTCACGACGTTTGTTTAAAAAATGCCA
1 CTAAAGTACGAGTCTATAG---CGGCGTTTGTAT-AAAAACGCCA
* * * ** *
11105592 CT-ATGGATGAACCTATTGCGGCGTTTGTATAAAAACGCCA
1 CTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
* * * * * *
11105632 CTAAAGTACTACTTTGTTA-CGGCATTTTGTATAAAAACGCCG
1 CTAAAGTACGAGTCT-ATAGCGGC-GTTTGTATAAAAACGCCA
11105674 CTAAAGT
1 CTAAAGT
11105681 TATCAATTTG
Statistics
Matches: 308, Mismatches: 59, Indels: 21
0.79 0.15 0.05
Matches are distributed among these distances:
38 2 0.01
39 3 0.01
40 11 0.04
41 225 0.73
42 35 0.11
43 31 0.10
44 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (41 bp):
CTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
Found at i:11105413 original size:82 final size:82
Alignment explanation
Indices: 11105261--11105556 Score: 378
Period size: 82 Copynumber: 3.6 Consensus size: 82
11105251 ACAATCGTCG
* * * * * * *
11105261 CTAAAGTATGAGTCTATAGCAGCGTTTTTAAACACAAACGCCACTAAAGTACGAGTCTATAGCGG
1 CTAAAGTACGTGTCTATAGCGGCATTTTTATA-A-AAACGCCGCTAAAGTACGTGTCTATAGCGG
11105326 CGTTTGTATAAAAACGCCA
64 CGTTTGTATAAAAACGCCA
* * *
11105345 CTAAAGTACGTGTCTATAGCGGCGTTTTTATAAAAATGCCGCTAAAGTACGTGTCTATAGCGACG
1 CTAAAGTACGTGTCTATAGCGGCATTTTTATAAAAACGCCGCTAAAGTACGTGTCTATAGCGGCG
*
11105410 TTTGTATAAAAACGCCG
66 TTTGTATAAAAACGCCA
* * * * * *
11105427 CTAAATTGCGTGTCTATAGCGGCATTTGTATAAAAACGCCGCTAAATTATGTGTCTATAGTGGCG
1 CTAAAGTACGTGTCTATAGCGGCATTTTTATAAAAACGCCGCTAAAGTACGTGTCTATAGCGGCG
11105492 TTTGTATAAAAACGCCA
66 TTTGTATAAAAACGCCA
* * *
11105509 ATTAATTACGTGTCTATAGCGGCATTTATT-TAAAAACGCCGCTAAAGT
1 CTAAAGTACGTGTCTATAGCGGCATTT-TTATAAAAACGCCGCTAAAGT
11105557 TCTACTAAGT
Statistics
Matches: 187, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
82 157 0.84
83 2 0.01
84 28 0.15
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (82 bp):
CTAAAGTACGTGTCTATAGCGGCATTTTTATAAAAACGCCGCTAAAGTACGTGTCTATAGCGGCG
TTTGTATAAAAACGCCA
Found at i:11108417 original size:21 final size:21
Alignment explanation
Indices: 11108388--11108442 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
11108378 ATTCTGACTA
11108388 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
11108409 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
11108430 TCGCAATGCGATT
1 TCGCATTGCGATT
11108443 ACGTAAATCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:11108455 original size:20 final size:20
Alignment explanation
Indices: 11108430--11108482 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
11108420 TTTTCCTAAT
*
11108430 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
11108450 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
11108470 TCGCAATGTGAAT
1 TCGCAATGCGAAT
11108483 CTGACTATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Done.