Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 52 of 56
Found at i:11851816 original size:36 final size:31
Alignment explanation
Indices: 11851693--11851841 Score: 95
Period size: 31 Copynumber: 4.5 Consensus size: 31
11851683 TATCAAACTT
* * *
11851693 AAAAAAATCTGACTCGATCCCGAAA-TTTAAA
1 AAAAAAATCCGACCCGA-CCCGAAATTTTTAA
* *
11851724 AAAAAAAACCTGACCCGACCCAAATATCTCTCTTAA
1 AAAAAAATCC-GACCCGACCCGAA-AT-T-T-TTAA
* * *
11851760 AAAAACCCGACCCAACCCGAACCCG-AATTTTTAA
1 AAAAA---AATCCGACCCG-ACCCGAAATTTTTAA
**
11851794 AAAAAAATCCGACCCGGTCCGAAATTTTTAA
1 AAAAAAATCCGACCCGACCCGAAATTTTTAA
*
11851825 AAAAAAATCTGACCCGA
1 AAAAAAATCCGACCCGA
11851842 ATACCAAAAG
Statistics
Matches: 91, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
30 3 0.03
31 45 0.49
32 7 0.08
34 10 0.11
35 2 0.02
36 9 0.10
37 2 0.02
38 6 0.07
39 7 0.08
ACGTcount: A:0.45, C:0.27, G:0.09, T:0.19
Consensus pattern (31 bp):
AAAAAAATCCGACCCGACCCGAAATTTTTAA
Found at i:11855907 original size:77 final size:79
Alignment explanation
Indices: 11855816--11855969 Score: 183
Period size: 77 Copynumber: 2.0 Consensus size: 79
11855806 GAATTAATAA
* **
11855816 AAAATCTTACTTAATTAATTC-AAATTAAATAT-ACATT-AAAGACTTATAAT-ATGAATTACAA
1 AAAATCTTACTTAATT-ATTCGAAA-TAAATATCA-ATTAAAAGAATTATAATCAAAAATTACAA
11855877 TC-TTTAATGTTTATTT
63 TCTTTTAATGTTTATTT
* * *
11855893 AAAATCTTATTTAATTATTCTGAAATAAATATCAATTAAAAGAATTGTAATCAAAAATTACATTC
1 AAAATCTTACTTAATTATTC-GAAATAAATATCAATTAAAAGAATTATAATCAAAAATTACAATC
11855958 TTTTAATGTTTA
65 TTTTAATGTTTA
11855970 CTTACTATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
76 4 0.06
77 25 0.38
78 15 0.23
79 10 0.15
80 11 0.17
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (79 bp):
AAAATCTTACTTAATTATTCGAAATAAATATCAATTAAAAGAATTATAATCAAAAATTACAATCT
TTTAATGTTTATTT
Found at i:11862324 original size:27 final size:27
Alignment explanation
Indices: 11862286--11862343 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
11862276 TAATCTCTAT
11862286 ACTGCTCCCTTGACGGTCACCAAAACA
1 ACTGCTCCCTTGACGGTCACCAAAACA
11862313 ACTGCTCCCTTGACGGTCACCAAAACA
1 ACTGCTCCCTTGACGGTCACCAAAACA
11862340 ACTG
1 ACTG
11862344 GAGGGACCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.36, G:0.16, T:0.19
Consensus pattern (27 bp):
ACTGCTCCCTTGACGGTCACCAAAACA
Found at i:11863747 original size:21 final size:21
Alignment explanation
Indices: 11863722--11863769 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
11863712 CAAAATTGGG
11863722 ACTAAAATGAACAA-AAAAGA
1 ACTAAAATGAACAATAAAAGA
* *
11863742 AGCT-AAATGCACAATAAAATA
1 A-CTAAAATGAACAATAAAAGA
11863763 ACTAAAA
1 ACTAAAA
11863770 CATTAAGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.65, C:0.12, G:0.08, T:0.15
Consensus pattern (21 bp):
ACTAAAATGAACAATAAAAGA
Found at i:11870854 original size:17 final size:17
Alignment explanation
Indices: 11870832--11870874 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
11870822 TGACTTTAAC
11870832 TGAAAAGTCAAAAATTT
1 TGAAAAGTCAAAAATTT
11870849 TGAAAAGTCAAAAATTT
1 TGAAAAGTCAAAAATTT
*
11870866 TGAATAGTC
1 TGAAAAGTC
11870875 TTATGTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (17 bp):
TGAAAAGTCAAAAATTT
Found at i:11873908 original size:30 final size:30
Alignment explanation
Indices: 11873867--11873927 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
11873857 GATACAAGTG
11873867 TAATTAAAGGGCATGTAGGTCACATTTGAT
1 TAATTAAAGGGCATGTAGGTCACATTTGAT
* *
11873897 TAATTAGAGGGCATGTGGGTCACATTTGAT
1 TAATTAAAGGGCATGTAGGTCACATTTGAT
11873927 T
1 T
11873928 TTTACACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (30 bp):
TAATTAAAGGGCATGTAGGTCACATTTGAT
Found at i:11874430 original size:21 final size:21
Alignment explanation
Indices: 11874404--11874444 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
11874394 ATGTATTTAG
11874404 TGTTTTATGTGATTATAGAGA
1 TGTTTTATGTGATTATAGAGA
11874425 TGTTTTATGTGATTATAGAG
1 TGTTTTATGTGATTATAGAG
11874445 GATTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (21 bp):
TGTTTTATGTGATTATAGAGA
Found at i:11875574 original size:14 final size:15
Alignment explanation
Indices: 11875551--11875583 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11875541 TAGTTTACTT
11875551 TTAATATATTTTATA
1 TTAATATATTTTATA
*
11875566 TTAAT-TATTTTATT
1 TTAATATATTTTATA
11875580 TTAA
1 TTAA
11875584 AAAATATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTAATATATTTTATA
Found at i:11880060 original size:16 final size:16
Alignment explanation
Indices: 11880041--11880084 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 16
11880031 AAATTTATAC
11880041 ATGTTAAATGAGTAAG
1 ATGTTAAATGAGTAAG
11880057 ATGTTAAATGAGTAAG
1 ATGTTAAATGAGTAAG
*
11880073 ATATTGAAATGA
1 ATGTT-AAATGA
11880085 TATTAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 20 0.77
17 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (16 bp):
ATGTTAAATGAGTAAG
Found at i:11880728 original size:21 final size:22
Alignment explanation
Indices: 11880698--11880739 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11880688 AGACGATTGG
*
11880698 AACATTTGACATCTT-ATCTTT
1 AACATCTGACATCTTCATCTTT
*
11880719 AACATCTGACATGTTCATCTT
1 AACATCTGACATCTTCATCTT
11880740 CGATTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (22 bp):
AACATCTGACATCTTCATCTTT
Found at i:11881206 original size:112 final size:112
Alignment explanation
Indices: 11881003--11881465 Score: 691
Period size: 112 Copynumber: 4.1 Consensus size: 112
11880993 TTGTCGGTTT
*
11881003 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACA-AGTAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAGA-TAAAAAAATGACAAAAC
*
11881067 CGGTCTATAAATGACAAAACAGATAAAGCGCTACCAGATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* *
11881115 GTATCGATACTTTATAAAAATGTATAT-ATCTATAACAATATAACAGATAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTAT-TGATCCATAACAATATAACAGATAAAAAAATGACAAAAC
* * *
11881179 CGGTCTATAAATGACAAAATAGGTAAAGTGCTACCGGATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* * * *
11881227 GTGTCGATACATTATAAAAATGTATTGATCCATAACAATATAATAGGTAAAAAAATTACAAAACC
1 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAGATAAAAAAATGACAAAACC
* * *
11881292 GGTCTATAAATGACAAAACAAGTAAAGCGCTACCGGATATGTT-AATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAA-A
* * *
11881339 GTGTCGATACTTTATAAAATTGTATCGATCCATAACAATAAAACATG-TAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACA-GATAAAAAAATGACAAAAC
* *
11881403 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGATA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
11881451 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
11881466 TATAAGTATC
Statistics
Matches: 319, Mismatches: 26, Indels: 12
0.89 0.07 0.03
Matches are distributed among these distances:
111 3 0.01
112 312 0.98
113 4 0.01
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAGATAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
Found at i:11881645 original size:182 final size:182
Alignment explanation
Indices: 11881338--11881770 Score: 740
Period size: 182 Copynumber: 2.4 Consensus size: 182
11881328 ATATGTTAAT
* * * *
11881338 AGTGTCGATACTTTATAAAATTGTATCGATCCATAACAATAAAACATGTAAAAAAATGACAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
* * *
11881403 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTAGAAATGACAAAACAGGTAAAGAGCTACCAAATATGTTGATAGTGTCGATACTTTATTA
* * *
11881468 TAAGTATCAACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
131 TAAGTATCAACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
*
11881520 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
* *
11881585 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCAAATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTAGAAATGACAAAACAGGTAAAGAGCTACCAAATATGTTGATAGTGTCGATACTTTATTA
*
11881650 TAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
131 TAAGTATCAACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
11881702 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
11881767 CGGT
66 CGGT
11881771 AGTAAAAAAG
Statistics
Matches: 236, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
182 236 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
CGGTCTAGAAATGACAAAACAGGTAAAGAGCTACCAAATATGTTGATAGTGTCGATACTTTATTA
TAAGTATCAACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
Found at i:11883666 original size:18 final size:18
Alignment explanation
Indices: 11883639--11883678 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11883629 ACAGCAGCCA
* *
11883639 CCGCAGCCATTTATGATG
1 CCGCAACCATATATGATG
11883657 CCGCAACCATATATGATG
1 CCGCAACCATATATGATG
11883675 CCGC
1 CCGC
11883679 CATCGCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (18 bp):
CCGCAACCATATATGATG
Found at i:11884228 original size:26 final size:24
Alignment explanation
Indices: 11884156--11884228 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 24
11884146 TTATATTTGT
11884156 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
* *
11884181 ATTT-TTTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
11884204 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
11884229 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
23 4 0.11
24 10 0.27
25 12 0.32
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:11891332 original size:22 final size:22
Alignment explanation
Indices: 11891305--11891359 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
11891295 TCTTGGATGA
11891305 GTATCGATACTCTAGCGTTGGG
1 GTATCGATACTCTAGCGTTGGG
11891327 GTATCGATACTCTAGCGTTGGG
1 GTATCGATACTCTAGCGTTGGG
11891349 GTATCGATACT
1 GTATCGATACT
11891360 GGCCTGAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (22 bp):
GTATCGATACTCTAGCGTTGGG
Found at i:11891476 original size:19 final size:18
Alignment explanation
Indices: 11891432--11891482 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
11891422 CCACCCTTGT
*
11891432 AGTATCGATACCTCTGTC
1 AGTATCGATACCTATGTC
*
11891450 ATGATATCGATACTCTATGTG
1 A-G-TATCGATAC-CTATGTC
11891471 AGTATCGATACC
1 AGTATCGATACC
11891483 AAAATTGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 2 0.07
19 10 0.36
20 10 0.36
21 6 0.21
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (18 bp):
AGTATCGATACCTATGTC
Found at i:11893514 original size:26 final size:26
Alignment explanation
Indices: 11893460--11893542 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 26
11893450 CAAAATTTCC
*
11893460 ATTTATCACTTGCACTCG-AAGTGCT
1 ATTTATCACTCGCACTCGAAAGTGCT
*
11893485 ATTTATCACTCGCACTTGAAAGTGCT
1 ATTTATCACTCGCACTCGAAAGTGCT
* *
11893511 ATTTATCACTCACACTCGAAAGTTCT
1 ATTTATCACTCGCACTCGAAAGTGCT
11893537 ATTTAT
1 ATTTAT
11893543 ACCAAGACTC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
25 16 0.31
26 36 0.69
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (26 bp):
ATTTATCACTCGCACTCGAAAGTGCT
Found at i:11900515 original size:62 final size:66
Alignment explanation
Indices: 11900418--11900561 Score: 188
Period size: 62 Copynumber: 2.2 Consensus size: 66
11900408 TAAACCCTGA
* *
11900418 TATCGATACCCTTTGACTGACATAGGCTATTTGGGTAA-GG-T-AGTATCGATACTCTT-GATGA
1 TATCGATACCCTCTGAATGACATAGGCTATTTGGGTAAGGGATCAGTATCGATACTCTTGGATGA
11900479 G
66 G
*
11900480 TATCGATACCCTCTGAATGACATAGGTTATTTGGGTAAGGTGGTATATCAGTATCGATACTCTTG
1 TATCGATACCCTCTGAATGACATAGGCTATTTGGGTAA-G-GG---ATCAGTATCGATACTCTTG
11900545 GATGAG
61 GATGAG
11900551 TATCGATACCC
1 TATCGATACCC
11900562 CAACTACAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
62 35 0.50
65 2 0.03
69 1 0.01
70 15 0.21
71 17 0.24
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (66 bp):
TATCGATACCCTCTGAATGACATAGGCTATTTGGGTAAGGGATCAGTATCGATACTCTTGGATGA
G
Found at i:11919647 original size:19 final size:19
Alignment explanation
Indices: 11919623--11919661 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11919613 TCGAATGCAT
11919623 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
11919642 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
11919661 T
1 T
11919662 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:11919769 original size:64 final size:63
Alignment explanation
Indices: 11919560--11919769 Score: 235
Period size: 65 Copynumber: 3.3 Consensus size: 63
11919550 TATTCAAAGG
* * *
11919560 CATGCACCGATGCATCAATCCATGCATCGATGCATCGATGAATTAATT-AAACATCGAATGCATT
1 CATGCACCGATGCA-CAATCCATGCATCGATGCATC-AGGTATT-TTTCAAACATCGAATGCATT
*
11919624 C
63 T
** * *
11919625 CATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGAATATTTTCAAAACATCGAATGCATT
1 CATGCACCGATGCACAATCCATGCATCGATGCA-TCAGGTAT-TTTTC-AAACATCGAATGCATT
11919689 T
63 T
* * *
11919690 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACAATCCATGCATCGATGCATCAGG-TATTTTTCAAACATCGAATGCATTT
*
11919754 CATGCATCGATGCACA
1 CATGCACCGATGCACA
11919770 CTTGGTGCAC
Statistics
Matches: 127, Mismatches: 12, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
63 7 0.06
64 52 0.41
65 66 0.52
66 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (63 bp):
CATGCACCGATGCACAATCCATGCATCGATGCATCAGGTATTTTTCAAACATCGAATGCATTT
Found at i:11919784 original size:64 final size:64
Alignment explanation
Indices: 11919560--11919789 Score: 234
Period size: 64 Copynumber: 3.6 Consensus size: 64
11919550 TATTCAAAGG
* * *
11919560 CATGCACCGATGCATCAATCCATGCATCGATGCATCGATGAAT-TAATT--AAACATCGAATGCA
1 CATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATAT-TTTCAAAACATCGAATGCA
*
11919622 TTC
62 TTT
* * *
11919625 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATTT
* ** **
11919690 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-AAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAAAACATCGAATGCATTT
*** *
11919754 CATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 CATGCATCGATGCACACTCCATGCATCGATGCATCA
11919790 AGTGTTCCAA
Statistics
Matches: 140, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
63 6 0.04
64 69 0.49
65 65 0.46
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:11925567 original size:20 final size:21
Alignment explanation
Indices: 11925538--11925593 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
11925528 TTTGTGCTTC
*
11925538 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
11925558 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
11925580 ATGCATCGATGCAT
1 ATGCATCGATGCAT
11925594 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:11928221 original size:19 final size:19
Alignment explanation
Indices: 11928197--11928235 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11928187 TCGAATGCAT
11928197 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
11928216 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
11928235 T
1 T
11928236 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:11928229 original size:64 final size:64
Alignment explanation
Indices: 11928134--11928342 Score: 221
Period size: 65 Copynumber: 3.2 Consensus size: 64
11928124 TATTCAAAGG
*
11928134 CATGCACCGATGCA-TCAGTCCATGCATCGATGCATCGATGAATTAATT-AAACATCGAATGCAT
1 CATGCACCGATGCACTC--TCCATGCATCGATGCATC-ATGAATTATTTCAAACATCGAATGCAT
*
11928197 TC
63 TT
11928199 CATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGAA-TATTTTCAAAACATCGAATGCAT
1 CATGCACCGATGCACTCTCCATGCATCGATGCA-TCATGAATTA-TTTC-AAACATCGAATGCAT
11928262 TT
63 TT
* * * *** * *
11928264 GATACATCGATGCACAAGCCATGCATCGATGCATCAGGCTATT-TTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCATCATG-AATTATTTCAAACATCGAATGCATTT
*
11928328 CATGCATCGATGCAC
1 CATGCACCGATGCAC
11928343 ACTTGGTGCA
Statistics
Matches: 124, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
62 2 0.02
63 6 0.05
64 48 0.39
65 64 0.52
66 3 0.02
67 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCATCATGAATTATTTCAAACATCGAATGCATTT
Found at i:11928358 original size:64 final size:64
Alignment explanation
Indices: 11928134--11928363 Score: 225
Period size: 64 Copynumber: 3.6 Consensus size: 64
11928124 TATTCAAAGG
* * *
11928134 CATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAAT-TAATT--AAACATCGAATGCA
1 CATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATAT-TTTCAAAACATCGAATGCA
*
11928196 TTC
62 TTT
* * *
11928199 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATTT
* * ** **
11928264 GATACATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-AAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAAAACATCGAATGCATTT
*** *
11928328 CATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 CATGCATCGATGCACACTCCATGCATCGATGCATCA
11928364 AGTGTTCCAA
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
63 6 0.04
64 68 0.49
65 64 0.46
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:11929204 original size:35 final size:33
Alignment explanation
Indices: 11929141--11929213 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 33
11929131 CCTTACAAAA
* *
11929141 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTTT
*
11929174 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTTT
*
11929209 CCCCT
1 TCCCT
11929214 TTACAAAAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 7 0.21
34 5 0.15
35 22 0.65
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (33 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTTT
Found at i:11929520 original size:21 final size:22
Alignment explanation
Indices: 11929494--11929536 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
11929484 CCAGATTGGG
*
11929494 GGGAATCGGTA-CCCCTTCATA
1 GGGAATCGATACCCCCTTCATA
11929515 GGGAATCGATACCCCCTTCATA
1 GGGAATCGATACCCCCTTCATA
11929537 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTCATA
Found at i:11929768 original size:29 final size:31
Alignment explanation
Indices: 11929736--11929795 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
11929726 AAATTTTGAA
*
11929736 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
11929765 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
11929796 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:11931452 original size:11 final size:11
Alignment explanation
Indices: 11931425--11931461 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11931415 TACACATGTC
11931425 ATTTAAAA-TA
1 ATTTAAAATTA
11931435 A-TTAAAATTA
1 ATTTAAAATTA
11931445 ATTTAAAATTCA
1 ATTTAAAATT-A
11931457 ATTTA
1 ATTTA
11931462 TGAGAAATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 6 0.25
10 4 0.17
11 8 0.33
12 6 0.25
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (11 bp):
ATTTAAAATTA
Found at i:11932369 original size:20 final size:20
Alignment explanation
Indices: 11932344--11932418 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
11932334 AGTAGGCTTC
11932344 AGAGTTTCAAAACTTTCATA
1 AGAGTTTCAAAACTTTCATA
11932364 AGAGTTTCAAAACTTTCATA
1 AGAGTTTCAAAACTTTCATA
*
11932384 AGAGTTTCGAAACTTTCATA
1 AGAGTTTCAAAACTTTCATA
* *
11932404 AGAATTTCGAAACTT
1 AGAGTTTCAAAACTT
11932419 GCCTTGTAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.35
Consensus pattern (20 bp):
AGAGTTTCAAAACTTTCATA
Found at i:11935428 original size:47 final size:47
Alignment explanation
Indices: 11935318--11935446 Score: 204
Period size: 49 Copynumber: 2.7 Consensus size: 47
11935308 CTTTTTCCTT
* * *
11935318 TATGACATCCATTCATACCAATTATGCATTGTTGTACATTATATATA
1 TATGACATCCTTTCATACCACTTATGCATTGTTCTACATTATATATA
11935365 TACATGACATCCTTTCATACCACTTATGCATTGTTCTACATTATATATA
1 T--ATGACATCCTTTCATACCACTTATGCATTGTTCTACATTATATATA
*
11935414 TATGGCATCCTTTCATACCACTTATGCATTGTT
1 TATGACATCCTTTCATACCACTTATGCATTGTT
11935447 TATATCAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
47 32 0.42
49 44 0.58
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (47 bp):
TATGACATCCTTTCATACCACTTATGCATTGTTCTACATTATATATA
Found at i:11935610 original size:81 final size:81
Alignment explanation
Indices: 11935492--11936132 Score: 764
Period size: 81 Copynumber: 7.9 Consensus size: 81
11935482 ACCCAAAGGC
* * * * * * *
11935492 ATTTAGCCTTTCATCTAACTTGTATATTTGACACCTTTCTGCCAAATGCACAACTAGGCCAATAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTAA
*
11935557 TCTTTTACTCAACGAT
66 TCTTTTACTCAACGGT
* * * * * *
11935573 ATTTAACCGTTCATCTAATTGACATAACTAACACCTTTCTACCAAATGCACAACTAGGCCATTAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTAA
* *
11935638 TATTTTTCTCAACGGT
66 TCTTTTACTCAACGGT
* * * * * * *
11935654 ATTTAACAGTTCATATAAGTGGCATAATTGTCACCTTTATGCTAAATGCATAGCTAGGCCATTAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTAA
*
11935719 TCTTTTACTCTACGGT
66 TCTTTTACTCAACGGT
* * *
11935735 ATTTAACCGTTCATCTAACTGACATAATTGACACCTTTATGCTAAATGTA-AAGCTAGGCCATTA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACAA-CTAGGCCATTA
* * *
11935799 GTCTTATACCCAACGGT
65 ATCTTTTACTCAACGGT
* ** *
11935816 ATTTAATCGTTCATCTAACTGGCATAATTGACATATTTATGCCAAATGCACAACTAGGCCTTTAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTAA
11935881 TCTTTTACTCAACGGT
66 TCTTTTACTCAACGGT
* **
11935897 ATTTAACCGTTCATCTAACTGGCATAATTGACACATTTATGCCAAATGCACAACTAGAACATTAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTAA
** * *
11935962 TCTTAAATTCAATGGT
66 TCTTTTACTCAACGGT
* * * *
11935978 ATTTAACCATTCATCTAACTGGCATAATT-ACCACCTTTCTGCCAAATGTACAGCTAGGCCATTA
1 ATTTAACCGTTCATCTAACTGGCATAATTGA-CACCTTTATGCCAAATGCACAACTAGGCCATTA
*
11936042 ATCTTTTACTCAACGAT
65 ATCTTTTACTCAACGGT
* * * * * * *
11936059 ATTTAACCATTCATTTAACTGGCATAATTGACACTTTTCTACCAGATGCACAGCTAGGCCATTAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTAA
*
11936124 TCTTATACT
66 TCTTTTACT
11936133 TTAGAACTGT
Statistics
Matches: 479, Mismatches: 77, Indels: 8
0.85 0.14 0.01
Matches are distributed among these distances:
80 2 0.00
81 474 0.99
82 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.34
Consensus pattern (81 bp):
ATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTAA
TCTTTTACTCAACGGT
Found at i:11936363 original size:57 final size:57
Alignment explanation
Indices: 11936293--11936496 Score: 304
Period size: 57 Copynumber: 3.6 Consensus size: 57
11936283 AAATTCATAT
* *
11936293 AATTTCTTAACTTTATACACAAAAAGTGCCCATATGGAAATTCATAAACTAATCATG
1 AATTTCTTAACTTTTTACACACAAAGTGCCCATATGGAAATTCATAAACTAATCATG
* * *
11936350 AATTTCATAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTC-TA
1 AATTTCTTAACTTTTTACACACAAAGTGCCCATATGGAAATTCATAAACTAA-TCATG
*
11936407 AATTTCTTAACTTTTTGA-ACACAAAGTGCCCATATGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTT-ACACACAAAGTGCCCATATGGAAATTCATAAACTAATCATG
* *
11936464 AATTTCTTAACTTTTTGCTCACAAAGTGCCCAT
1 AATTTCTTAACTTTTTACACACAAAGTGCCCAT
11936497 TGGGTAAACG
Statistics
Matches: 132, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
56 1 0.01
57 129 0.98
58 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (57 bp):
AATTTCTTAACTTTTTACACACAAAGTGCCCATATGGAAATTCATAAACTAATCATG
Found at i:11936436 original size:114 final size:116
Alignment explanation
Indices: 11936284--11936496 Score: 351
Period size: 114 Copynumber: 1.9 Consensus size: 116
11936274 CCAATACAAA
11936284 AATTCATATAATTTCTTAACTTTATACACAAAAAGTGCCCATATGGAAATTCATAAACTAATCAT
1 AATTCATATAATTTCTTAACTTTATACACAAAAAGTGCCCATATGGAAATTCATAAACTAATCAT
11936349 GAATTTCATAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACT
66 GAATTTCATAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACT
* * *
11936400 AATTC-TA-AATTTCTTAACTTTTTGA-ACACAAAGTGCCCATATGGAAATTCATAAACTAATTA
1 AATTCATATAATTTCTTAACTTTAT-ACACAAAAAGTGCCCATATGGAAATTCATAAACTAATCA
* *
11936462 TGAATTTCTTAACTTTTTGCTCACAAAGTGCCCAT
65 TGAATTTCATAACTTTTTGCACACAAAGTGCCCAT
11936497 TGGGTAAACG
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
114 83 0.91
115 3 0.03
116 5 0.05
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (116 bp):
AATTCATATAATTTCTTAACTTTATACACAAAAAGTGCCCATATGGAAATTCATAAACTAATCAT
GAATTTCATAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACT
Found at i:11936841 original size:20 final size:20
Alignment explanation
Indices: 11936816--11936865 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
11936806 TGGCTCAATA
*
11936816 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTAACATG
*
11936836 GTATCGATA-CCCTAATATG
1 GTATCGATACCCCTAACATG
*
11936855 GTAACGATACC
1 GTATCGATACC
11936866 ATTTCCACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (20 bp):
GTATCGATACCCCTAACATG
Found at i:11941100 original size:81 final size:81
Alignment explanation
Indices: 11941024--11941817 Score: 1113
Period size: 81 Copynumber: 9.8 Consensus size: 81
11941014 CATTTAGCTT
** * *
11941024 TTCATCTAACTTTCAAAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATATTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
11941089 CAACGGTATTTAACCG
66 CAACGGTATTTAACCG
* *
11941105 TTCATCTAACTGGCATAGTTGACACCTTTCTGCGAAATGCACAACTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
* *
11941170 CAACGCTATTTAACCA
66 CAACGGTATTTAACCG
* * * * *
11941186 TTAATCTAACTTGCATAATTGACACCTTTCTTCCAAATACAGAACTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
*
11941251 CAACAGTATTTAACCG
66 CAACGGTATTTAACCG
* * * * * *
11941267 TTCATTTAACTGACATAATTGACACCTATCTTCTAAATGCACAACTAGGCCATTAATCTTATACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
* ** *
11941332 CAATGACATTTAACCA
66 CAACGGTATTTAACCG
*
11941348 TTCATCTAACTGGCATAATTGACACCTTTCTTCCAAATGCACAACTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
11941413 CAACGGTATTTAACCG
66 CAACGGTATTTAACCG
* * * *
11941429 TTCATCTAACTGGCATAATTGGCACCTTTTTGCCAAATGCACAACTAGGTCATTAATCTTATACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
*
11941494 CAACGATATTTAACCG
66 CAACGGTATTTAACCG
* *
11941510 TTCATCTAACTGGAATAATTGACACATTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
*
11941575 CAACGATATTTAACCG
66 CAACGGTATTTAACCG
* * * ** ** *
11941591 TTCATCTAACTAGCATAATTGACACATTTCTGACAAATGCACAACTAGAACATTAATCTTAAATT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
* *
11941656 CAATGGTATTTAACCA
66 CAACGGTATTTAACCG
*
11941672 TTCATCTAACTGGCATAATT-ACCACCTTTCTGCCAAATGTACAACTAGGCCATTAATCTTTTAC
1 TTCATCTAACTGGCATAATTGA-CACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTAC
* *
11941736 TCAACGATATTTAACCA
65 TCAACGGTATTTAACCG
* * * * *
11941753 TTCATTTAACTGGCATAATTGACACTTTTCTACCAAATGCACAGCTAGGCCATTAATCTTATACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
11941818 TTAGAACTAT
Statistics
Matches: 630, Mismatches: 81, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
80 1 0.00
81 628 1.00
82 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
CAACGGTATTTAACCG
Found at i:11942076 original size:57 final size:57
Alignment explanation
Indices: 11941978--11942181 Score: 309
Period size: 57 Copynumber: 3.6 Consensus size: 57
11941968 AAATTCATAT
* * * * * *
11941978 AATTTATTAACGTTTTGCACAAAAAGTGCCTATATGGAAATTCATAATCTAATCATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATG
* * *
11942035 AAATTCTTAACTTTTTGCACACAAAGTGCCCATATGTAAATTCAAAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATG
*
11942092 AATTTCTGAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATG
*
11942149 AATTTCTTAACTTTTTGCACACATAGTGCCCAT
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCAT
11942182 TGGGTATTCG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 132 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (57 bp):
AATTTCTTAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATG
Found at i:11949185 original size:19 final size:19
Alignment explanation
Indices: 11949161--11949233 Score: 85
Period size: 19 Copynumber: 3.8 Consensus size: 19
11949151 AATAGGCTTT
11949161 AGAGTTTTGAAACTTTACA
1 AGAGTTTTGAAACTTTACA
**
11949180 AGAG-TTCCACAACTTTCACA
1 AGAGTTTTGA-AACTTT-ACA
* *
11949200 AGAGTTTTGGAACTTCACA
1 AGAGTTTTGAAACTTTACA
11949219 AGAGTTTTGAAACTT
1 AGAGTTTTGAAACTT
11949234 GCATTGTAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 3 0.07
19 27 0.61
20 12 0.27
21 2 0.05
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (19 bp):
AGAGTTTTGAAACTTTACA
Found at i:11949586 original size:92 final size:93
Alignment explanation
Indices: 11949447--11949618 Score: 256
Period size: 92 Copynumber: 1.9 Consensus size: 93
11949437 TAAAGACAAT
* *
11949447 AAACTTGCCTCGTAATTTCGATACATTGGGTCCAACGATCATA-TTTTTTAATTCATCTTTCGAA
1 AAACGTGCCTCGTAATTTCAATACATTGGGTCCAACGATCATATTTTTTTAATTCATCTTTCGAA
*
11949511 GATTTTCAAAACTTTTTCCAAAGTTTCA
66 GAGTTTCAAAACTTTTTCCAAAGTTTCA
* * * * * *
11949539 AAACGTGCCTTGTAGTTTCAATACTTTGTGTCCAACGATCATATTTTTTTAATTCCTCTTTCGAC
1 AAACGTGCCTCGTAATTTCAATACATTGGGTCCAACGATCATATTTTTTTAATTCATCTTTCGAA
11949604 GAGTTTCAAAACTTT
66 GAGTTTCAAAACTTT
11949619 CCCAAGGGGT
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
92 37 0.53
93 33 0.47
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (93 bp):
AAACGTGCCTCGTAATTTCAATACATTGGGTCCAACGATCATATTTTTTTAATTCATCTTTCGAA
GAGTTTCAAAACTTTTTCCAAAGTTTCA
Found at i:11949646 original size:93 final size:91
Alignment explanation
Indices: 11949462--11949635 Score: 233
Period size: 93 Copynumber: 1.9 Consensus size: 91
11949452 TGCCTCGTAA
* *
11949462 TTTCGATACATTGGGTCCAACGATCATATTTTTTAATTCATCTTTCGAAGATTTTCAAAACTTTT
1 TTTCAATACATTGGGTCCAACGATCATATTTTTTAATTCATCTTTCGAAGAGTTTCAAAACTTTT
* *
11949527 TCCAAAGTTTCAAAACGTGCCTTGTAG
66 CCCAAAGGTTCAAAACGTG-CTTGTAG
* * * *
11949554 TTTCAATACTTTGTGTCCAACGATCATATTTTTTTAATTCCTCTTTCGACGAGTTTCAAAAC-TT
1 TTTCAATACATTGGGTCCAACGATCATA-TTTTTTAATTCATCTTTCGAAGAGTTTCAAAACTTT
*
11949618 TCCCAAGGGGTTCAAAAC
65 TCCCAA-AGGTTCAAAAC
11949636 TTTGTGTGTA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
92 32 0.45
93 39 0.55
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.40
Consensus pattern (91 bp):
TTTCAATACATTGGGTCCAACGATCATATTTTTTAATTCATCTTTCGAAGAGTTTCAAAACTTTT
CCCAAAGGTTCAAAACGTGCTTGTAG
Found at i:11953186 original size:22 final size:22
Alignment explanation
Indices: 11953155--11953196 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11953145 GAACCGGTCT
*
11953155 GACCCAACCCGACCTGATGACC
1 GACCCAACCCGACCCGATGACC
*
11953177 GACCCGACCCGACCCGATGA
1 GACCCAACCCGACCCGATGA
11953197 TATTTTGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.45, G:0.21, T:0.07
Consensus pattern (22 bp):
GACCCAACCCGACCCGATGACC
Found at i:11953263 original size:30 final size:29
Alignment explanation
Indices: 11953194--11953290 Score: 117
Period size: 29 Copynumber: 3.3 Consensus size: 29
11953184 CCCGACCCGA
11953194 TGATATTTTGGGAATTATTTTGAAAAAGG
1 TGATATTTTGGGAATTATTTTGAAAAAGG
*
11953223 TGACATTTTGGGATATT-TTTTGTAAAATA-G
1 TGATATTTTGGGA-ATTATTTTG-AAAA-AGG
* **
11953253 TGATATTTTGGTAATTATTTAAAAAAAGG
1 TGATATTTTGGGAATTATTTTGAAAAAGG
11953282 TGATATTTT
1 TGATATTTT
11953291 TGTAATTTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
28 1 0.02
29 34 0.59
30 22 0.38
31 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.45
Consensus pattern (29 bp):
TGATATTTTGGGAATTATTTTGAAAAAGG
Found at i:11962694 original size:18 final size:19
Alignment explanation
Indices: 11962660--11962709 Score: 75
Period size: 18 Copynumber: 2.7 Consensus size: 19
11962650 TACTTTTACA
11962660 TTTCAGATTCATAACTCAT
1 TTTCAGATTCATAACTCAT
*
11962679 TTTCAGATTTAT-ACTCAT
1 TTTCAGATTCATAACTCAT
*
11962697 TTTCAAATTCATA
1 TTTCAGATTCATA
11962710 TCCCAATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (19 bp):
TTTCAGATTCATAACTCAT
Found at i:11963886 original size:19 final size:19
Alignment explanation
Indices: 11963862--11963905 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
11963852 TTAAACTGAA
11963862 CCAAATTTGCAATTTGGTC
1 CCAAATTTGCAATTTGGTC
*
11963881 CCAAATTTGGAATTTGGTC
1 CCAAATTTGCAATTTGGTC
11963900 CCAAAT
1 CCAAAT
11963906 CATCCTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (19 bp):
CCAAATTTGCAATTTGGTC
Found at i:11966060 original size:18 final size:18
Alignment explanation
Indices: 11966023--11966060 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11966013 ATCAAATTTC
*
11966023 AGTATTGATACTCGATGA
1 AGTATTGATACTCGAGGA
11966041 AGTATTGATACCTC-AGGA
1 AGTATTGATA-CTCGAGGA
11966059 AG
1 AG
11966061 AAGAATATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (18 bp):
AGTATTGATACTCGAGGA
Found at i:11967631 original size:39 final size:39
Alignment explanation
Indices: 11967587--11967695 Score: 155
Period size: 39 Copynumber: 2.8 Consensus size: 39
11967577 CCTAACTCTA
* *
11967587 AAATTATTTCACCCTAACAATCTAAATTCTTAATTTCTT
1 AAATTATTTCACCCTAATAATCTAAATTATTAATTTCTT
* ** *
11967626 AAATTATTTCACCATAATTTTCTGAATTATTAATTTCTT
1 AAATTATTTCACCCTAATAATCTAAATTATTAATTTCTT
*
11967665 AAATTATTTCACGCTAATAATCTAAATTATT
1 AAATTATTTCACCCTAATAATCTAAATTATT
11967696 TTTTAACTTC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.46
Consensus pattern (39 bp):
AAATTATTTCACCCTAATAATCTAAATTATTAATTTCTT
Found at i:11968339 original size:30 final size:29
Alignment explanation
Indices: 11968305--11968370 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 29
11968295 AGTCAATAGG
*
11968305 AAAAGTTTAGGGACTAAAAGGGTAATTTTT
1 AAAAGTTTAGGGACCAAAAGGGTAA-TTTT
11968335 AAAAGTTTAGGGACCAAAAGGGTAATTTT
1 AAAAGTTTAGGGACCAAAAGGGTAATTTT
11968364 AAAAGTT
1 AAAAGTT
11968371 ATGCATCTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 11 0.31
30 24 0.69
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (29 bp):
AAAAGTTTAGGGACCAAAAGGGTAATTTT
Found at i:11969555 original size:20 final size:20
Alignment explanation
Indices: 11969523--11969568 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
11969513 TATTATGCTG
11969523 GAAATT-AATGTTA-GAGTGTT
1 GAAATTGAATGTTAGGA-TG-T
11969543 GAAATTGAA-GTTAGGATGT
1 GAAATTGAATGTTAGGATGT
11969562 GAAATTG
1 GAAATTG
11969569 GGCCATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 8 0.33
20 12 0.50
21 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.28, T:0.35
Consensus pattern (20 bp):
GAAATTGAATGTTAGGATGT
Found at i:11983628 original size:14 final size:14
Alignment explanation
Indices: 11983609--11983635 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11983599 CATTGATCAC
11983609 TGATTTTTACCATA
1 TGATTTTTACCATA
11983623 TGATTTTTACCAT
1 TGATTTTTACCAT
11983636 GAATGTTATT
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:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (14 bp):
TGATTTTTACCATA
Found at i:11984133 original size:47 final size:45
Alignment explanation
Indices: 11984039--11984164 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
11984029 GTAAGCATGC
* * *
11984039 AAATAAGCTTATGAGCTTACGGAAT-AATGGCAAGTATATAGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATAGGAA
* * *
11984083 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATAGGAA
*
11984130 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
11984165 AGATTTTATA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 22 0.31
45 11 0.15
46 1 0.01
47 38 0.53
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATAGGAA
Found at i:11987012 original size:12 final size:12
Alignment explanation
Indices: 11986995--11987115 Score: 62
Period size: 12 Copynumber: 10.1 Consensus size: 12
11986985 ATATTATAAG
11986995 AAGAAGAAAAAA
1 AAGAAGAAAAAA
*
11987007 AAGAAG--AAGA
1 AAGAAGAAAAAA
*
11987017 AA-AA-AAACAA
1 AAGAAGAAAAAA
11987027 AAGAAGAAAAAA
1 AAGAAGAAAAAA
11987039 AA-ATAGAAAAAGA
1 AAGA-AGAAAAA-A
*
11987052 AA-ATGAAAACGAA
1 AAGAAGAAAA--AA
11987065 GAAGAAGAATAAAA
1 -AAGAAGAA-AAAA
*
11987079 AA-ATGAAAACGAGA
1 AAGAAGAAAA--A-A
11987093 AAGAA-AAAAAA
1 AAGAAGAAAAAA
11987104 AAG-AGAAAAAA
1 AAGAAGAAAAAA
11987115 A
1 A
11987116 TGAGAGATGA
Statistics
Matches: 85, Mismatches: 8, Indels: 33
0.67 0.06 0.26
Matches are distributed among these distances:
9 2 0.02
10 10 0.12
11 16 0.19
12 30 0.35
13 8 0.09
14 12 0.14
15 5 0.06
16 2 0.02
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (12 bp):
AAGAAGAAAAAA
Found at i:11987012 original size:15 final size:15
Alignment explanation
Indices: 11986992--11987132 Score: 78
Period size: 15 Copynumber: 9.1 Consensus size: 15
11986982 TATATATTAT
11986992 AAGAAGAAGAAAAAA
1 AAGAAGAAGAAAAAA
11987007 AAGAAGAAGAAAAAAA
1 AAGAAGAAG-AAAAAA
*
11987023 ACAAAAGAAGAAAAAA
1 A-AGAAGAAGAAAAAA
11987039 AA-ATAGAA-AAAGAAA
1 AAGA-AGAAGAAA-AAA
* * *
11987054 ATGAA-AACGAAGAAG
1 AAGAAGAA-GAAAAAA
* *
11987069 AAGAATAAAAAAATGAA
1 AAGAAGAAGAAAA--AA
11987086 AACG-AGAAAGAAAAAA
1 AA-GAAG-AAGAAAAAA
11987102 AA-AAG-AGAAAAAA
1 AAGAAGAAGAAAAAA
* *
11987115 ATGAGAGATGAAAAAA
1 AAGA-AGAAGAAAAAA
11987131 AA
1 AA
11987133 AACATTTCAC
Statistics
Matches: 97, Mismatches: 13, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
13 9 0.09
14 7 0.07
15 32 0.33
16 31 0.32
17 11 0.11
18 7 0.07
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (15 bp):
AAGAAGAAGAAAAAA
Found at i:11987015 original size:18 final size:17
Alignment explanation
Indices: 11986992--11987134 Score: 105
Period size: 18 Copynumber: 7.9 Consensus size: 17
11986982 TATATATTAT
11986992 AAGAAGAAGAAAAAAAAG
1 AAGAAGAA-AAAAAAAAG
11987010 AAGAAGAAAAAAAACAA-
1 AAGAAGAAAAAAAA-AAG
11987027 AAGAAGAAAAAAAAATAG
1 AAGAAGAAAAAAAAA-AG
*
11987045 AAAAAGAAAATGAAAACGAAG
1 AAGAAGAAAA--AAAA--AAG
*
11987066 AAGAAGAATAAAAAAATG
1 AAGAAGAA-AAAAAAAAG
11987084 AA-AACGAGAAAGAAAAAA-
1 AAGAA-GA-AAA-AAAAAAG
* *
11987102 AA-AAGAGAAAAAAATG
1 AAGAAGAAAAAAAAAAG
*
11987118 AGAGATGAAAAAAAAAA
1 A-AGAAGAAAAAAAAAA
11987135 CATTTCACTT
Statistics
Matches: 102, Mismatches: 9, Indels: 28
0.73 0.06 0.20
Matches are distributed among these distances:
15 5 0.05
16 4 0.04
17 26 0.25
18 41 0.40
19 6 0.06
20 8 0.08
21 9 0.09
22 3 0.03
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.04
Consensus pattern (17 bp):
AAGAAGAAAAAAAAAAG
Found at i:11987073 original size:27 final size:26
Alignment explanation
Indices: 11987043--11987105 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 26
11987033 AAAAAAAAAT
11987043 AGAAAAAGAAAATGAAAACGA-AGAAGA
1 AGAAAAA-AAAATGAAAACGAGA-AAGA
11987070 AGAATAAAAAAATGAAAACGAGAAAGA
1 AGAA-AAAAAAATGAAAACGAGAAAGA
11987097 A-AAAAAAAA
1 AGAAAAAAAA
11987106 GAGAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.18
26 2 0.06
27 22 0.65
28 4 0.12
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (26 bp):
AGAAAAAAAAATGAAAACGAGAAAGA
Found at i:11987135 original size:74 final size:74
Alignment explanation
Indices: 11986992--11987135 Score: 161
Period size: 74 Copynumber: 1.9 Consensus size: 74
11986982 TATATATTAT
**
11986992 AAGAAGAAGAAAAAAAAGAAGAAGAAAAAAAACAAAAGAAGAAAAAAAAATAGAAAAAGAAAATG
1 AAGAAGAAGAAAAAAAAGAAGAAGAAAAAAAACAAAAGAAGAAAAAAAAATAGAAAAAGAAAAAA
11987057 AAAACGAAG
66 AAAACGAAG
* * * * *
11987066 AAGAAGAATAAAAAAATGAA-AACGAGAAAGAAAA-AAAA-AAGAGAAAAAAAT-GAGAGATGAA
1 AAGAAGAAGAAAAAAAAGAAGAA-GA-AAA-AAAACAAAAGAAGAAAAAAAAATAGA-AAAAGAA
11987127 AAAAAAAAC
62 AAAAAAAAC
11987136 ATTTCACTTG
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
73 4 0.07
74 44 0.75
75 7 0.12
76 4 0.07
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.04
Consensus pattern (74 bp):
AAGAAGAAGAAAAAAAAGAAGAAGAAAAAAAACAAAAGAAGAAAAAAAAATAGAAAAAGAAAAAA
AAAACGAAG
Found at i:11990439 original size:55 final size:56
Alignment explanation
Indices: 11990177--11990500 Score: 485
Period size: 56 Copynumber: 5.8 Consensus size: 56
11990167 ACACTATATA
**
11990177 TGTGCAATAA-CTAAGAAATTCATAATCCGTTTATGAATTTTCC-TATGGGCACTTTG
1 TGTGCAA-AAGCTAAGAAATTCATAATGAGTTTATGAA-TTTCCGTATGGGCACTTTG
* * *
11990233 TGTGCAAAAGCTATGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTTTG
1 TGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTG
*
11990289 TGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCTTATGGGCACTTTG
1 TGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTG
* *
11990345 TGTGCAAAAGCTAAGAAATTCATAATAAGTTAATGAATTTCCGTATGGGCACTTTG
1 TGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTG
* *
11990401 TGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGTACTTTG
1 TGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTG
* * *
11990456 TGTGCAAAA-CTAAAAAATTCATAATAAGTTTATGAATTTTCGTAT
1 TGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
11990501 TAGTAGTGGT
Statistics
Matches: 246, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
55 89 0.36
56 157 0.64
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (56 bp):
TGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTG
Found at i:11994133 original size:29 final size:29
Alignment explanation
Indices: 11994091--11994158 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
11994081 CAGTTAAGCA
* * *
11994091 AGATTAATTAAGAAGTTTAATTTGGTAGC
1 AGATTAGTTAAGAAGTTGAAATTGGTAGC
*
11994120 AGATTAGTTAAGAAGTTGAAATTGTTAGC
1 AGATTAGTTAAGAAGTTGAAATTGGTAGC
*
11994149 AGAGTAGTTA
1 AGATTAGTTA
11994159 GAGTTAGTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (29 bp):
AGATTAGTTAAGAAGTTGAAATTGGTAGC
Found at i:11995223 original size:20 final size:20
Alignment explanation
Indices: 11995190--11995234 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11995180 AATGCCAACT
* *
11995190 TTGTGGTAAGAATAATCATC
1 TTGTGCTAAAAATAATCATC
*
11995210 TTGTGCTAAAAATAGTCATC
1 TTGTGCTAAAAATAATCATC
11995230 TTGTG
1 TTGTG
11995235 GATACCTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGTGCTAAAAATAATCATC
Found at i:11998702 original size:50 final size:51
Alignment explanation
Indices: 11998627--11998733 Score: 153
Period size: 50 Copynumber: 2.1 Consensus size: 51
11998617 AACCTCTGAC
11998627 CAAAGCTGCGTTCAAAATCTTCAGAACCAAAGTGT-GTGTTACCTTGTTAA
1 CAAAGCTGCGTTCAAAATCTTCAGAACCAAAGTGTCGTGTTACCTTGTTAA
* ** **
11998677 CAAAGCTTCGTTTGAAATCTTCAGAACCAAAGTGTGCGTGTTGTCTTGTTAA
1 CAAAGCTGCGTTCAAAATCTTCAGAACCAAAGTGT-CGTGTTACCTTGTTAA
11998729 CAAAG
1 CAAAG
11998734 GATGAAAAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
50 32 0.64
52 18 0.36
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (51 bp):
CAAAGCTGCGTTCAAAATCTTCAGAACCAAAGTGTCGTGTTACCTTGTTAA
Found at i:12000656 original size:81 final size:81
Alignment explanation
Indices: 12000515--12000768 Score: 375
Period size: 81 Copynumber: 3.1 Consensus size: 81
12000505 ATTTTTAAAA
* * * * *
12000515 TAAAAGATTAATTGCCTAGCTGTGCATTTAGCAGAATGTTGCCAATATTGAAAGTTAGATGAAAG
1 TAAAAGATTAATTTCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
12000580 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
* * *
12000596 TAAACA-ATTAATTTCCTAGTTGTGCATTTGGAAGAAAGGTGCCAATATTGCACGTTAGATGAAA
1 TAAA-AGATTAATTTCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAA
12000660 GGCTAAATGCCTTTGAG
65 GGCTAAATGCCTTTGAG
* * *
12000677 TAAAAGATTAATTTCATAGCTGTGCATTTGGCATAAAGGTGCCAATATTACAAGTTAGATGAAAG
1 TAAAAGATTAATTTCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
* *
12000742 GATAAATTCCTTTGAG
66 GCTAAATGCCTTTGAG
12000758 TAAAAGATTAA
1 TAAAAGATTAA
12000769 ATGCTTAACA
Statistics
Matches: 155, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.01
81 153 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATTTCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
GCTAAATGCCTTTGAG
Found at i:12001900 original size:50 final size:50
Alignment explanation
Indices: 12001840--12001936 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 50
12001830 AAGGGAATGA
* * *
12001840 AAAAAATATTAAAATAACGTAGTTAA-GCATTCAATTCAAAATAGACAAAG
1 AAAAAATATTAAAATAACATAGTTAAGGC-TTCAACTCAAAAGAGACAAAG
* *
12001890 AAAAATTATTAAAATAACATTGTTAAGGCTTCAACTCAAAAGAGACA
1 AAAAAATATTAAAATAACATAGTTAAGGCTTCAACTCAAAAGAGACA
12001937 TGTAACAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 39 0.95
51 2 0.05
ACGTcount: A:0.54, C:0.11, G:0.10, T:0.25
Consensus pattern (50 bp):
AAAAAATATTAAAATAACATAGTTAAGGCTTCAACTCAAAAGAGACAAAG
Found at i:12008417 original size:21 final size:21
Alignment explanation
Indices: 12008393--12008436 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
12008383 TTTGGTGTTC
12008393 AATGCTAAATTTTAATTATGA
1 AATGCTAAATTTTAATTATGA
* *
12008414 AATGTTGAATTTTAATTATGA
1 AATGCTAAATTTTAATTATGA
12008435 AA
1 AA
12008437 GGTCTTAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (21 bp):
AATGCTAAATTTTAATTATGA
Found at i:12011510 original size:24 final size:24
Alignment explanation
Indices: 12011478--12011524 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
12011468 CCGCAATAAC
*
12011478 ATTCATGATAAATATCATATATAT
1 ATTCATGATAAACATCATATATAT
12011502 ATTCATGATAAACATCATATATA
1 ATTCATGATAAACATCATATATA
12011525 ATAACCAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (24 bp):
ATTCATGATAAACATCATATATAT
Found at i:12012762 original size:19 final size:20
Alignment explanation
Indices: 12012738--12012782 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
12012728 AAAATAATCG
*
12012738 AATTTC-ACATTATAACATC
1 AATTTCAACACTATAACATC
* *
12012757 AATTTCAACACTCTAACATT
1 AATTTCAACACTATAACATC
12012777 AATTTC
1 AATTTC
12012783 CAGCACACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.40, C:0.22, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTCAACACTATAACATC
Found at i:12015505 original size:22 final size:23
Alignment explanation
Indices: 12015464--12015506 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
12015454 CAATGTATCC
12015464 TTTAACAAATCAAAAATCAATTA
1 TTTAACAAATCAAAAATCAATTA
* *
12015487 TTTAACTAA-CAATAATCAAT
1 TTTAACAAATCAAAAATCAAT
12015507 GCATAATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (23 bp):
TTTAACAAATCAAAAATCAATTA
Found at i:12023497 original size:24 final size:24
Alignment explanation
Indices: 12023467--12023515 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
12023457 ACCCACAATA
* *
12023467 ATATTCATCTTAAATATCATATAT
1 ATATTCATCATAAACATCATATAT
*
12023491 ATATTCATGATAAACATCATATAT
1 ATATTCATCATAAACATCATATAT
12023515 A
1 A
12023516 ATAACCAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (24 bp):
ATATTCATCATAAACATCATATAT
Found at i:12023527 original size:26 final size:24
Alignment explanation
Indices: 12023477--12023527 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
12023467 ATATTCATCT
* **
12023477 TAAATATCATATATATATTCATGA
1 TAAACATCATATATATAACCATGA
12023501 TAAACATCATATATAATAACCAGTGA
1 TAAACATCATATAT-ATAACCA-TGA
12023527 T
1 T
12023528 CAATGCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 13 0.59
25 5 0.23
26 4 0.18
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (24 bp):
TAAACATCATATATATAACCATGA
Found at i:12033736 original size:20 final size:20
Alignment explanation
Indices: 12033711--12033751 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
12033701 TGTATCAAGG
12033711 TCTTT-GTTGAAGCCATGAAA
1 TCTTTGGTTGAAGCCAT-AAA
*
12033731 TCTTTGGTTGAGGCCATAAA
1 TCTTTGGTTGAAGCCATAAA
12033751 T
1 T
12033752 TCCTTCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (20 bp):
TCTTTGGTTGAAGCCATAAA
Found at i:12045241 original size:20 final size:20
Alignment explanation
Indices: 12045218--12045267 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
12045208 CAATAGGGGA
12045218 GTATCGATACTATCAAGATG
1 GTATCGATACTATCAAGATG
12045238 GTATCGATACTATCAAGATG
1 GTATCGATACTATCAAGATG
12045258 GTATCGATAC
1 GTATCGATAC
12045268 CATTGTTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (20 bp):
GTATCGATACTATCAAGATG
Found at i:12045746 original size:54 final size:54
Alignment explanation
Indices: 12045686--12045989 Score: 263
Period size: 54 Copynumber: 5.6 Consensus size: 54
12045676 TTACCAAATA
* *
12045686 GGCACTAAGTGCGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTT
* * **
12045740 GGCACTAAATGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACTATTTT
1 GGCACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTT
* * * *
12045794 GACACTAAGTGTGCATTTCACAAAATCCATCCTATTTGGATGAATAACCGTTTT
1 GGCACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTT
* ** * * * ***
12045848 GGCACTAAGTGTACAATTTCACGGTATTTATCATGA-GTTGATGAATAACCGTACA
1 GGCACTAAGTGTGC-ATTTCACGAAATTCATCCT-ATGTGGATGAATAACCGTTTT
* * * * * ***
12045903 GGCAC-AATGTGTGCAAATCCATGAAATTCATCATGA-GTTGATGAATAACCGTACA
1 GGCACTAA-GTGTGC-ATTTCACGAAATTCATCCT-ATGTGGATGAATAACCGTTTT
* * *
12045958 GGCACTATGTGTGCAAATCCACGAAATTCATC
1 GGCACTAAGTGTGC-ATTTCACGAAATTCATC
12045990 ATGAGTTGAT
Statistics
Matches: 210, Mismatches: 36, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
54 108 0.51
55 100 0.48
56 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTT
Found at i:12045895 original size:55 final size:55
Alignment explanation
Indices: 12045684--12046246 Score: 336
Period size: 55 Copynumber: 10.3 Consensus size: 55
12045674 GATTACCAAA
* * *
12045684 TAGGCACTAAGTGCGC-ATTTCACGAAATTCATCCT-ATGTGGATGAATAACCGTT
1 TAGGCACTAAGTGTGCAATTTCACGAAATTCATCATGA-GTTGATGAATAACCGTT
* * * * * **
12045738 TCGGCACTAAATGTGC-ATTTCACGGAATTCATCCT-ATGTGGATGAATAACTATT
1 TAGGCACTAAGTGTGCAATTTCACGAAATTCATCATGA-GTTGATGAATAACCGTT
* * * * * *
12045792 TTGACACTAAGTGTGC-ATTTCACAAAATCCATCCT-ATTTGGATGAATAACCGTT
1 TAGGCACTAAGTGTGCAATTTCACGAAATTCATCATGAGTT-GATGAATAACCGTT
* * ** * *
12045846 TTGGCACTAAGTGTACAATTTCACGGTATTTATCATGAGTTGATGAATAACCGTA
1 TAGGCACTAAGTGTGCAATTTCACGAAATTCATCATGAGTTGATGAATAACCGTT
* * * * *
12045901 CAGGCAC-AATGTGTGCAAATCCATGAAATTCATCATGAGTTGATGAATAACCGTA
1 TAGGCACTAA-GTGTGCAATTTCACGAAATTCATCATGAGTTGATGAATAACCGTT
* * * * * *
12045956 CAGGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAATCGTA
1 TAGGCACTAAGTGTGCAATTTCACGAAATTCATCATGAGTTGATGAATAACCGTT
* * * * * * ** * *
12046011 CA-ACAACTATGTGTGCAAATCCACGGAATTCATCACAAGTTGATGAATAACTGTA
1 TAGGC-ACTAAGTGTGCAATTTCACGAAATTCATCATGAGTTGATGAATAACCGTT
* * * * * * * * *
12046066 CAGGCACTATGTGTACAAATCCACAAAATTCTTCATGAGTTGATGAATAACCATA
1 TAGGCACTAAGTGTGCAATTTCACGAAATTCATCATGAGTTGATGAATAACCGTT
* * * * * * * *
12046121 CAGGTACTATGTGTGCAAATCCAC-AGAATTCATCATGAATTGATGAATAATCGTA
1 TAGGCACTAAGTGTGCAATTTCACGA-AATTCATCATGAGTTGATGAATAACCGTT
* * * * * * ** * * * * *
12046176 CAAGAACGATGTGTTCAA-CCCATGGAATTCATCATGAGTTGATGAATTACTGTA
1 TAGGCACTAAGTGTGCAATTTCACGAAATTCATCATGAGTTGATGAATAACCGTT
*
12046230 TAGGCACTACGTGTGCA
1 TAGGCACTAAGTGTGCA
12046247 TCTTCATAAA
Statistics
Matches: 424, Mismatches: 76, Indels: 18
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.00
54 147 0.35
55 271 0.64
56 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (55 bp):
TAGGCACTAAGTGTGCAATTTCACGAAATTCATCATGAGTTGATGAATAACCGTT
Found at i:12045993 original size:110 final size:109
Alignment explanation
Indices: 12045832--12046246 Score: 465
Period size: 110 Copynumber: 3.8 Consensus size: 109
12045822 ATCCTATTTG
*** * * * ** *
12045832 GATGAATAACCGTTTTGGCACTAAGTGTACAATTTCACGGTATTTATCATGAGTTGATGAATAAC
1 GATGAATAACCGTACAGGCACTATGTGTACAAATCCACGAAATTCATCATGAGTTGATGAATAAC
*
12045897 CGTACAGGCACAATGTGTGCAAATCCATGAAATTCATCATGAGTT
66 CGTACAGGCACTATGTGTGCAAATCCA-GAAATTCATCATGAGTT
* *
12045942 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAAT
1 GATGAATAACCGTACAGGCACTATGTGTACAAATCCACGAAATTCATCATGAGTTGATGAATAAC
* * **
12046007 CGTACA-ACAACTATGTGTGCAAATCCACGGAATTCATCACAAGTT
66 CGTACAGGC-ACTATGTGTGCAAATCCA-GAAATTCATCATGAGTT
* * *
12046052 GATGAATAACTGTACAGGCACTATGTGTACAAATCCACAAAATTCTTCATGAGTTGATGAATAAC
1 GATGAATAACCGTACAGGCACTATGTGTACAAATCCACGAAATTCATCATGAGTTGATGAATAAC
* * * *
12046117 CATACAGGTACTATGTGTGCAAATCCACAGAATTCATCATGAATT
66 CGTACAGGCACTATGTGTGCAAATCCAGA-AATTCATCATGAGTT
* * * * * * * * *
12046162 GATGAATAATCGTACAAGAACGATGTGTTC-AACCCATGGAATTCATCATGAGTTGATGAATTAC
1 GATGAATAACCGTACAGGCACTATGTGTACAAATCCACGAAATTCATCATGAGTTGATGAATAAC
* * *
12046226 TGTATAGGCACTACGTGTGCA
66 CGTACAGGCACTATGTGTGCA
12046247 TCTTCATAAA
Statistics
Matches: 255, Mismatches: 47, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
109 45 0.18
110 210 0.82
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (109 bp):
GATGAATAACCGTACAGGCACTATGTGTACAAATCCACGAAATTCATCATGAGTTGATGAATAAC
CGTACAGGCACTATGTGTGCAAATCCAGAAATTCATCATGAGTT
Found at i:12046069 original size:165 final size:164
Alignment explanation
Indices: 12045883--12046246 Score: 532
Period size: 165 Copynumber: 2.2 Consensus size: 164
12045873 ATTTATCATG
* * **
12045883 AGTTGATGAATAACCGTACAGGCACAATGTGTGCAAATCCATGAAATTCATCATGAGTTGATGAA
1 AGTTGATGAATAACTGTACAGGCACTATGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAA
* *
12045948 TAACCGTACAGGCACTATGTGTGCAAATCCAC-GAAATTCATCATGAGTTGATGAATAATCGTAC
66 TAACCATACAGGCACTATGTGTGCAAATCCACAG-AATTCATCATGAATTGATGAATAATCGTAC
* *
12046012 AACAACTATGTGTGCAAATCCACGGAATTCATCACA
130 AACAACGATGTGTGC-AACCCACGGAATTCATCACA
* *
12046048 AGTTGATGAATAACTGTACAGGCACTATGTGTACAAATCCACAAAATTCTTCATGAGTTGATGAA
1 AGTTGATGAATAACTGTACAGGCACTATGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAA
*
12046113 TAACCATACAGGTACTATGTGTGCAAATCCACAGAATTCATCATGAATTGATGAATAATCGTACA
66 TAACCATACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAATTGATGAATAATCGTACA
* * * **
12046178 AGAACGATGTGTTCAACCCATGGAATTCATCATG
131 ACAACGATGTGTGCAACCCACGGAATTCATCACA
* * *
12046212 AGTTGATGAATTACTGTATAGGCACTACGTGTGCA
1 AGTTGATGAATAACTGTACAGGCACTATGTGTGCA
12046247 TCTTCATAAA
Statistics
Matches: 178, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
164 47 0.26
165 130 0.73
166 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (164 bp):
AGTTGATGAATAACTGTACAGGCACTATGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAA
TAACCATACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAATTGATGAATAATCGTACA
ACAACGATGTGTGCAACCCACGGAATTCATCACA
Found at i:12046766 original size:46 final size:46
Alignment explanation
Indices: 12046704--12046853 Score: 219
Period size: 46 Copynumber: 3.3 Consensus size: 46
12046694 AAAGGATAGA
* *
12046704 ATAAATGAAATGTATAATAGCGTATAGAAGGGCATGAAGGGATGCC
1 ATAAATGAAATGTATAATAGCGTATAGAAGGACATGAAAGGATGCC
* * *
12046750 ATAAATGAAATATATAATAGCGTATAGAAGGACATGAAAAGATACC
1 ATAAATGAAATGTATAATAGCGTATAGAAGGACATGAAAGGATGCC
* * *
12046796 ATAAATGAAATGTATAATAGCGTATAAAAGGCCATGAAAGGATGTC
1 ATAAATGAAATGTATAATAGCGTATAGAAGGACATGAAAGGATGCC
*
12046842 ATAAATAAAATG
1 ATAAATGAAATG
12046854 CATATGGGTG
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 92 1.00
ACGTcount: A:0.48, C:0.08, G:0.21, T:0.23
Consensus pattern (46 bp):
ATAAATGAAATGTATAATAGCGTATAGAAGGACATGAAAGGATGCC
Found at i:12046889 original size:45 final size:45
Alignment explanation
Indices: 12046828--12046948 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 45
12046818 TATAAAAGGC
* *
12046828 CATGAAAGGATGTCATAAATAAAATGCATATGGGTGCAGTATCGG
1 CATGAAAGGATATCATAAATAAAATGCATATGGATGCAGTATCGG
* * * *
12046873 CATGAAAGGATATCATAATTAAAATCCATATGGATGCATTATTGG
1 CATGAAAGGATATCATAAATAAAATGCATATGGATGCAGTATCGG
* *
12046918 CATGAAAGAATACCATAAATGAAAATGCATA
1 CATGAAAGGATATCATAAAT-AAAATGCATA
12046949 ATGGTGAATT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 56 0.86
46 9 0.14
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.26
Consensus pattern (45 bp):
CATGAAAGGATATCATAAATAAAATGCATATGGATGCAGTATCGG
Found at i:12051198 original size:54 final size:54
Alignment explanation
Indices: 12051140--12051351 Score: 302
Period size: 54 Copynumber: 3.9 Consensus size: 54
12051130 ACCAAATAGG
12051140 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTTGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTTGA
* * *
12051194 CACTAAGTGTGCATTTCACGGAATTCATCTTATGTGGATGAATAACC-ATTTCA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTTGA
* * * *
12051247 GCACTAAGTATGCATTTCACGAAATTCATCCTATGTGCATGAATAACCGTTTTGG
1 -CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTTGA
* *
12051302 CACTAAGTGTGCAATTTCACGGAATTCATCATGA-GTTGATGAATAACCGT
1 CACTAAGTGTGC-ATTTCACGGAATTCATCCT-ATGTGGATGAATAACCGT
12051352 ACAGGCATTA
Statistics
Matches: 139, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
53 4 0.03
54 100 0.72
55 34 0.24
56 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (54 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTTGA
Found at i:12051274 original size:108 final size:109
Alignment explanation
Indices: 12051139--12051349 Score: 345
Period size: 108 Copynumber: 1.9 Consensus size: 109
12051129 TACCAAATAG
* * *
12051139 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTTGACACTAAGTGT
1 GCACTAAGTATGCATTTCACGAAATTCATCCTATGTGCATGAATAACCGTTTTGACACTAAGTGT
*
12051204 GC-ATTTCACGGAATTCATC-TTATGTGGATGAATAACCATTTCA
66 GCAATTTCACGGAATTCATCATGA-GTGGATGAATAACCATTTCA
*
12051247 GCACTAAGTATGCATTTCACGAAATTCATCCTATGTGCATGAATAACCGTTTTGGCACTAAGTGT
1 GCACTAAGTATGCATTTCACGAAATTCATCCTATGTGCATGAATAACCGTTTTGACACTAAGTGT
*
12051312 GCAATTTCACGGAATTCATCATGAGTTGATGAATAACC
66 GCAATTTCACGGAATTCATCATGAGTGGATGAATAACC
12051350 GTACAGGCAT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
108 63 0.66
109 30 0.32
110 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (109 bp):
GCACTAAGTATGCATTTCACGAAATTCATCCTATGTGCATGAATAACCGTTTTGACACTAAGTGT
GCAATTTCACGGAATTCATCATGAGTGGATGAATAACCATTTCA
Found at i:12051344 original size:55 final size:55
Alignment explanation
Indices: 12051137--12051699 Score: 500
Period size: 55 Copynumber: 10.3 Consensus size: 55
12051127 ATTACCAAAT
* * * * **
12051137 AGGCACTAAGTGTGC-ATTTCACGGAATTCATCCT-ATGTGGATGAATAACCGTTT
1 AGGCACTATGTGTGCAATTCCACGGAATTCATCATGA-GTTGATGAATAACCGTAC
* * * * * * * *
12051191 TGACACTAAGTGTGC-ATTTCACGGAATTCATC-TTATGTGGATGAATAACCATTTC
1 AGGCACTATGTGTGCAATTCCACGGAATTCATCATGA-GTTGATGAATAACC-GTAC
* * * * * **
12051246 A-GCACTAAGTATGC-ATTTCACGAAATTCATCCT-A-TGTGCATGAATAACCGTTT
1 AGGCACTATGTGTGCAATTCCACGGAATTCATCATGAGT-TG-ATGAATAACCGTAC
* * *
12051299 TGGCACTAAGTGTGCAATTTCACGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
12051354 AGGCATTACGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
** * * ** * *
12051409 AAACACTATGTGTACAAATCCACAAAATTCATCATGAGTCGATGAGAATAACCATAC
1 AGGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGAT--GAATAACCGTAC
* *
12051466 AGGCACTATGTGTACAATTCCACGGAATTCCTCATGAGTTGATGAAT-ACCGTAC
1 AGGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
12051520 AGGCACTATTTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
12051575 AAGAACTATGTGTGCAAATCCACAGAATTCATCACGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * *
12051630 AGGCACGATGTGTGCAA-CCCATGGAATTCATCATGAGTTTATGAACT-ATCGTAT
1 AGGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAA-TAACCGTAC
*
12051684 AGGCACTACGTGTGCA
1 AGGCACTATGTGTGCA
12051700 TCTTAATAAA
Statistics
Matches: 434, Mismatches: 62, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
52 1 0.00
53 4 0.01
54 186 0.43
55 192 0.44
56 3 0.01
57 48 0.11
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (55 bp):
AGGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:12051562 original size:166 final size:164
Alignment explanation
Indices: 12051300--12051699 Score: 561
Period size: 166 Copynumber: 2.4 Consensus size: 164
12051290 TAACCGTTTT
* * *
12051300 GGCACTAAGTGTGCAATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCATTACGT
1 GGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAAT-ACCGTACAGGCACTACGT
12051365 GTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAA-ACACTATGTGTACAAATC
65 GTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAAGA-ACTATGTGTACAAATC
*
12051429 CACAAAATTCATCATGAGTCGATGAGAATAACCATACA
129 CACAAAATTCATCACGAGTCGAT--GAATAACCATACA
* * **
12051467 GGCACTATGTGTACAATTCCACGGAATTCCTCATGAGTTGATGAATACCGTACAGGCACTATTTG
1 GGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATACCGTACAGGCACTACGTG
* * *
12051532 TGCAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTACAAGAACTATGTGTGCAAATCCA
66 TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAAGAACTATGTGTACAAATCCA
* * *
12051597 CAGAATTCATCACGAGTTGATGAATAACCGTACA
131 CAAAATTCATCACGAGTCGATGAATAACCATACA
* * * * * *
12051631 GGCACGATGTGTGCAA-CCCATGGAATTCATCATGAGTTTATGAACTATCGTATAGGCACTACGT
1 GGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAA-TACCGTACAGGCACTACGT
12051695 GTGCA
65 GTGCA
12051700 TCTTAATAAA
Statistics
Matches: 207, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
163 24 0.12
164 46 0.22
166 94 0.45
167 43 0.21
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (164 bp):
GGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATACCGTACAGGCACTACGTG
TGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAAGAACTATGTGTACAAATCCA
CAAAATTCATCACGAGTCGATGAATAACCATACA
Found at i:12052071 original size:68 final size:68
Alignment explanation
Indices: 12051962--12052098 Score: 215
Period size: 68 Copynumber: 2.0 Consensus size: 68
12051952 AAAGCTTAAT
* * *
12051962 GGCCTAGCTGTGCATTTGCAAGAAATGTGTCAATTATGCCAGTTATATGAAAGGCT-AAGTGCCT
1 GGCCTAGCTGTGCATTTGCAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTGAA-TACCT
12052026 TTGA
65 TTGA
12052030 GGCCTAGCTGTGCATTTG-ACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTGAATACCT
1 GGCCTAGCTGTGCATTTGCA-AGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTGAATACCT
12052094 TTGA
65 TTGA
12052098 G
1 G
12052099 TAAAAGACTA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
67 1 0.02
68 61 0.95
69 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (68 bp):
GGCCTAGCTGTGCATTTGCAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTGAATACCTT
TGA
Found at i:12052201 original size:46 final size:46
Alignment explanation
Indices: 12052142--12052305 Score: 231
Period size: 46 Copynumber: 3.6 Consensus size: 46
12052132 GTATAAAAAA
* *
12052142 CATGAAAGGATGCCATAAATGAAATGTATAATAACGTAAAGAAGGG
1 CATGAAAGGATGCCATAAATAAAATGTATAATAGCGTAAAGAAGGG
* ** * *
12052188 AATGACTGGATGCCATAAATAAAATGTATAATAGCATATAGAAGGG
1 CATGAAAGGATGCCATAAATAAAATGTATAATAGCGTAAAGAAGGG
*
12052234 CATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAA-AAGGG
1 CATGAAAGGATGCCATAAATAAAATGTATAATAGCGTA-AAGAAGGG
*
12052280 CATGAAAGGATGTCATAAATAAAATG
1 CATGAAAGGATGCCATAAATAAAATG
12052306 CATATGGATG
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
46 101 0.99
47 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.22
Consensus pattern (46 bp):
CATGAAAGGATGCCATAAATAAAATGTATAATAGCGTAAAGAAGGG
Found at i:12052411 original size:46 final size:44
Alignment explanation
Indices: 12052278--12052412 Score: 150
Period size: 45 Copynumber: 3.0 Consensus size: 44
12052268 CGTATAAAAG
12052278 GGCATGAAAGGATGT-CATAAAT-AAAATGCATATGGATGCATTATC
1 GGCATGAAAGGAT-TCCAT-AATGAAAATGCATATGG-TGCATTATC
* * *
12052323 GACATGAAAGGATACCATAATTG-AAATGCATATGGGTGCATTATT
1 GGCATGAAAGGATTCCATAA-TGAAAATGCATAT-GGTGCATTATC
*
12052368 GGCATGAAAGAATTCCATATATGAAAATGCATAATGGTGCATTAT
1 GGCATGAAAGGATTCCATA-ATGAAAATGCAT-ATGGTGCATTAT
12052413 AAGTATGAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
44 2 0.03
45 52 0.68
46 21 0.27
47 2 0.03
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.28
Consensus pattern (44 bp):
GGCATGAAAGGATTCCATAATGAAAATGCATATGGTGCATTATC
Found at i:12055253 original size:18 final size:20
Alignment explanation
Indices: 12055220--12055258 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
12055210 CTAAAAACAA
12055220 ATTTTTGGGAGTATTAAAAT
1 ATTTTTGGGAGTATTAAAAT
12055240 ATTTTTGGG-G-ATTAAAAT
1 ATTTTTGGGAGTATTAAAAT
12055258 A
1 A
12055259 GCTCTTCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 1 0.05
20 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (20 bp):
ATTTTTGGGAGTATTAAAAT
Found at i:12060150 original size:6 final size:6
Alignment explanation
Indices: 12060141--12060165 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12060131 ATACTATGTT
12060141 TCAAAA TCAAAA TCAAAA TCAAAA T
1 TCAAAA TCAAAA TCAAAA TCAAAA T
12060166 ATAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (6 bp):
TCAAAA
Found at i:12061185 original size:34 final size:34
Alignment explanation
Indices: 12061140--12061207 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
12061130 GAGAACTTTT
* *
12061140 TGGGAACTGTTCAATCACCATGGAAAGGTTACAA
1 TGGGAACTGTTCAATAACAATGGAAAGGTTACAA
*
12061174 TGGGAATTGTTCAATAACAATGGAAAGGTTACAA
1 TGGGAACTGTTCAATAACAATGGAAAGGTTACAA
12061208 AGGTTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (34 bp):
TGGGAACTGTTCAATAACAATGGAAAGGTTACAA
Found at i:12061996 original size:21 final size:21
Alignment explanation
Indices: 12061979--12062019 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12061969 CGTGTTGCCA
*
12061979 AGATGCTTATAAGAGTTGCTC
1 AGATGCATATAAGAGTTGCTC
12062000 AGATGCATATAAGAGTTGCT
1 AGATGCATATAAGAGTTGCT
12062020 AGCCCATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (21 bp):
AGATGCATATAAGAGTTGCTC
Found at i:12070506 original size:40 final size:40
Alignment explanation
Indices: 12070451--12070528 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
12070441 AATATGGTTC
* *
12070451 CTTCTCAGACAATGTCATTCATGCTAACCAAATACTTTAT
1 CTTCTCAGACAATGTCATTCATCCTAACAAAATACTTTAT
* *
12070491 CTTCTCAGATAATGTCATTCGTCCTAACAAAATACTTT
1 CTTCTCAGACAATGTCATTCATCCTAACAAAATACTTT
12070529 GGGGAAGGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (40 bp):
CTTCTCAGACAATGTCATTCATCCTAACAAAATACTTTAT
Found at i:12074249 original size:2 final size:2
Alignment explanation
Indices: 12074228--12074347 Score: 147
Period size: 2 Copynumber: 61.5 Consensus size: 2
12074218 TTATCATAAC
* *
12074228 AT AT -T AT AT GT AT GT AT AT AT AT AT AT AT AT AT AT A- AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * ** * *
12074267 AC AT AT AC CC AT AA AT AC 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
12074309 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
12074348 CATGACCACA
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
1 3 0.03
2 98 0.97
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:12074492 original size:2 final size:2
Alignment explanation
Indices: 12074485--12074525 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
12074475 CTAATTAGTA
12074485 AT 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 AT A
12074526 AACTAGAGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12074862 original size:56 final size:56
Alignment explanation
Indices: 12074728--12075519 Score: 695
Period size: 55 Copynumber: 14.3 Consensus size: 56
12074718 AAATAGGTCC
* * ** * *
12074728 GCTCCCTCTTCTTTCAGGGAGTATAGGACTCG-AACAATCTTCAAAAAAAGTGTCA
1 GCTCCCTCTTCTTTCAAGGAGTATAGGACTTGAAACAATCTTCAGCAAATGTGTCT
* * * *
12074783 GGTCCCTATTTTTTC-AGGAAGTATAGGACTTGAAACAATGTTCAGCAAATGTGTCT
1 GCTCCCTCTTCTTTCAAGG-AGTATAGGACTTGAAACAATCTTCAGCAAATGTGTCT
* * * * *
12074839 GCTCCTTCTTCTTTCAATGAGTATAGGACTCT--AATAATCTT-TGACAAACG-GTACT
1 GCTCCCTCTTCTTTCAAGGAGTATAGGACT-TGAAACAATCTTCAG-CAAATGTGT-CT
* * * * * *
12074894 ACTCCCTCTTCTTTCAGGGAGTATAAGAC-TCAAACAATCTTCAACAAACGTGTCT
1 GCTCCCTCTTCTTTCAAGGAGTATAGGACTTGAAACAATCTTCAGCAAATGTGTCT
* * * * * *
12074949 ACTCCCTCTTCTCTCATA-AAGTATAGGACTTAAAACAATCTTCAGCAAACGTGTCC
1 GCTCCCTCTTCTTTCA-AGGAGTATAGGACTTGAAACAATCTTCAGCAAATGTGTCT
* * *
12075005 ACTCCCTCTTCTTTCAAGAAGTATAGGACTTGAAACAATCTTCAACAAACATGT-TC-
1 GCTCCCTCTTCTTTCAAGGAGTATAGGACTTGAAACAATCTTCAGC-AA-ATGTGTCT
* * * * * * *
12075061 GCTCACTCTTCTTTC-AGGAAGTATAGGACTTGAAACATTATTAAGTAAACGTGTTT
1 GCTCCCTCTTCTTTCAAGG-AGTATAGGACTTGAAACAATCTTCAGCAAATGTGTCT
* * *
12075117 TCTCCCTCTTCTTTCAAGAAGTATAGGACTTGAAACAATCTTCAGCAAATGTGTAT
1 GCTCCCTCTTCTTTCAAGGAGTATAGGACTTGAAACAATCTTCAGCAAATGTGTCT
* * * * *
12075173 GCTCCTTCTTCTTTCAAGGAGTATAGGACTCG-AACAATCTAC-GATAAATGGGTCT
1 GCTCCCTCTTCTTTCAAGGAGTATAGGACTTGAAACAATCTTCAG-CAAATGTGTCT
* * * *
12075228 GCTCCCTCTTTTTTC-AGGAAGTATAAGACTTG-AACAATCTTCAGTAAATGTGTAT
1 GCTCCCTCTTCTTTCAAGG-AGTATAGGACTTGAAACAATCTTCAGCAAATGTGTCT
* * * * *
12075283 GCTCCTTCTTCTTTCAAGGAGTATAGGACTCG-AATAATCTTCGGCAAATGGGTCT
1 GCTCCCTCTTCTTTCAAGGAGTATAGGACTTGAAACAATCTTCAGCAAATGTGTCT
* * * * * * * *
12075338 GCTTCATCTTTTTTCAGGGAGTATAAGACTCG-AACAATCTTCAGCAAACGTATCT
1 GCTCCCTCTTCTTTCAAGGAGTATAGGACTTGAAACAATCTTCAGCAAATGTGTCT
* * * *
12075393 GCTCTCTCTTCTTTC-AGGAAGTATAGGACTTGAAAAAATCTTCAGCAAATGTATCC
1 GCTCCCTCTTCTTTCAAGG-AGTATAGGACTTGAAACAATCTTCAGCAAATGTGTCT
* * * * *
12075449 GCTCCCTCTTCTTTCAAGGAGTATAGGACTCG-AACAATCTTCGGAAAATGGGTCC
1 GCTCCCTCTTCTTTCAAGGAGTATAGGACTTGAAACAATCTTCAGCAAATGTGTCT
* *
12075504 GCTCCATCTTATTTCA
1 GCTCCCTCTTCTTTCA
12075520 GGGAAAATCA
Statistics
Matches: 601, Mismatches: 110, Indels: 52
0.79 0.14 0.07
Matches are distributed among these distances:
53 1 0.00
54 14 0.02
55 308 0.51
56 263 0.44
57 12 0.02
58 3 0.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (56 bp):
GCTCCCTCTTCTTTCAAGGAGTATAGGACTTGAAACAATCTTCAGCAAATGTGTCT
Found at i:12075523 original size:166 final size:168
Alignment explanation
Indices: 12074728--12075519 Score: 775
Period size: 166 Copynumber: 4.8 Consensus size: 168
12074718 AAATAGGTCC
* * ** * * * *
12074728 GCTCCCTCTTCTTTCAGGGAGTATAGGACTCG-AACAATCTTCAAAAAAAGTGTCAGGTCCCTAT
1 GCTCCCTCTTCTTTCAGGAAGTATAGGACTTGAAACAATCTTCAGCAAACGTGTCTGCTCCCTCT
* * * *
12074792 TTTTTC-AGGAAGTATAGGACTTGAAACAATGTTCAGCAAATGTGTCTGCTCCTTCTTCTTTCAA
66 TCTTTCAAGG-AGTATAGGACTCG-AACAATCTTCAGCAAATGTGTCTGCTCCATCTTCTTTCAA
* * * * *
12074856 TGAGTATAGGACTCTAATAATCTT-TGACAAACGGTA-CT
129 GGAGTATAGGACTCGAACAATCTTCAGACAAACAGTATCT
* * * * * *
12074894 ACTCCCTCTTCTTTCAGGGAGTATAAGAC-TCAAACAATCTTCAACAAACGTGTCTACTCCCTCT
1 GCTCCCTCTTCTTTCAGGAAGTATAGGACTTGAAACAATCTTCAGCAAACGTGTCTGCTCCCTCT
* * ** * ** *
12074958 TCTCTCATA-AAGTATAGGACTTAAAACAATCTTCAGCAAACGTGTCCACTCCCTCTTCTTTCAA
66 TCTTTCA-AGGAGTATAGGAC-TCGAACAATCTTCAGCAAATGTGTCTGCTCCATCTTCTTTCAA
* *
12075022 GAAGTATAGGACTTGAAACAATCTTCA-ACAAACATGT-TC-
129 GGAGTATAGGACTCG-AACAATCTTCAGACAAACA-GTATCT
* * * * * * *
12075061 GCTCACTCTTCTTTCAGGAAGTATAGGACTTGAAACATTATTAAGTAAACGTGTTTTCTCCCTCT
1 GCTCCCTCTTCTTTCAGGAAGTATAGGACTTGAAACAATCTTCAGCAAACGTGTCTGCTCCCTCT
* * * *
12075126 TCTTTCAAGAAGTATAGGACTTGAAACAATCTTCAGCAAATGTGTATGCTCCTTCTTCTTTCAAG
66 TCTTTCAAGGAGTATAGGACTCG-AACAATCTTCAGCAAATGTGTCTGCTCCATCTTCTTTCAAG
* * * **
12075191 GAGTATAGGACTCGAACAATCTAC-GATAAA-TGGGTCT
130 GAGTATAGGACTCGAACAATCTTCAGACAAACAGTATCT
* * * * * *
12075228 GCTCCCTCTTTTTTCAGGAAGTATAAGACTTG-AACAATCTTCAGTAAATGTGTATGCTCCTTCT
1 GCTCCCTCTTCTTTCAGGAAGTATAGGACTTGAAACAATCTTCAGCAAACGTGTCTGCTCCCTCT
* * * * * *
12075292 TCTTTCAAGGAGTATAGGACTCGAATAATCTTCGGCAAATGGGTCTGCTTCATCTTTTTTCAGGG
66 TCTTTCAAGGAGTATAGGACTCGAACAATCTTCAGCAAATGTGTCTGCTCCATCTTCTTTCAAGG
*
12075357 AGTATAAGACTCGAACAATCTTCAG-CAAAC-GTATCT
131 AGTATAGGACTCGAACAATCTTCAGACAAACAGTATCT
* * * * *
12075393 GCTCTCTCTTCTTTCAGGAAGTATAGGACTTGAAAAAATCTTCAGCAAATGTATCCGCTCCCTCT
1 GCTCCCTCTTCTTTCAGGAAGTATAGGACTTGAAACAATCTTCAGCAAACGTGTCTGCTCCCTCT
* * * * *
12075458 TCTTTCAAGGAGTATAGGACTCGAACAATCTTCGGAAAATGGGTCCGCTCCATCTTATTTCA
66 TCTTTCAAGGAGTATAGGACTCGAACAATCTTCAGCAAATGTGTCTGCTCCATCTTCTTTCA
12075520 GGGAAAATCA
Statistics
Matches: 517, Mismatches: 92, Indels: 34
0.80 0.14 0.05
Matches are distributed among these distances:
165 92 0.18
166 245 0.47
167 84 0.16
168 96 0.19
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (168 bp):
GCTCCCTCTTCTTTCAGGAAGTATAGGACTTGAAACAATCTTCAGCAAACGTGTCTGCTCCCTCT
TCTTTCAAGGAGTATAGGACTCGAACAATCTTCAGCAAATGTGTCTGCTCCATCTTCTTTCAAGG
AGTATAGGACTCGAACAATCTTCAGACAAACAGTATCT
Found at i:12075586 original size:37 final size:38
Alignment explanation
Indices: 12075536--12075625 Score: 141
Period size: 37 Copynumber: 2.4 Consensus size: 38
12075526 ATCAGAGTCG
12075536 AGATTGATTTGCTTCA-CTACTCTTCCA-TGAAGGCTTA
1 AGATTGATTTGCTTCATCTACTCTT-CAGTGAAGGCTTA
*
12075573 AGATTAATTTGCTT-ATCTACTCTTCAGTGAAGGCTTA
1 AGATTGATTTGCTTCATCTACTCTTCAGTGAAGGCTTA
12075610 AGATTGATTTGCTTCA
1 AGATTGATTTGCTTCA
12075626 AAGGTCAAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
36 3 0.06
37 44 0.92
38 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.40
Consensus pattern (38 bp):
AGATTGATTTGCTTCATCTACTCTTCAGTGAAGGCTTA
Found at i:12076908 original size:8 final size:8
Alignment explanation
Indices: 12076887--12076987 Score: 55
Period size: 8 Copynumber: 12.0 Consensus size: 8
12076877 CCTTGAACCC
12076887 CCTTTTTAT
1 CCTTTTT-T
*
12076896 TCTTTTTT
1 CCTTTTTT
12076904 CC--TTTT
1 CCTTTTTT
*
12076910 CTTTTTTT
1 CCTTTTTT
12076918 CCATTTTTT
1 CC-TTTTTT
12076927 CCATTTTTTTT
1 CC---TTTTTT
*
12076938 TCTTTTTT
1 CCTTTTTT
*
12076946 ACTTTTTCT
1 CCTTTTT-T
12076955 CCTTTTTAT
1 CCTTTTT-T
12076964 -CTTTTCTT
1 CCTTTT-TT
*
12076972 CTTTTTTT
1 CCTTTTTT
*
12076980 CATTTTTT
1 CCTTTTTT
12076988 TCATATTTTC
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
6 5 0.07
8 34 0.47
9 27 0.37
11 7 0.10
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (8 bp):
CCTTTTTT
Found at i:12076960 original size:25 final size:25
Alignment explanation
Indices: 12076932--12076989 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
12076922 TTTTTCCATT
*
12076932 TTTTTTTCTTTT-TTACTTTTTCTCC
1 TTTTTTTCTTTTCTT-CTTTTTCTCA
* *
12076957 TTTTTATCTTTTCTTCTTTTTTTCA
1 TTTTTTTCTTTTCTTCTTTTTCTCA
12076982 TTTTTTTC
1 TTTTTTTC
12076990 ATATTTTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTTTCTTTTCTTCTTTTTCTCA
Found at i:12076969 original size:42 final size:39
Alignment explanation
Indices: 12076889--12076987 Score: 92
Period size: 42 Copynumber: 2.4 Consensus size: 39
12076879 TTGAACCCCC
* * *
12076889 TTTTTATTCTTTTTTCCTTTTCTTTTTTTCCATTTTTTCCAT
1 TTTTTTTTCTTTTTTCCTTTTCTCTTTTT-CATCTTTT-C-T
*
12076931 TTTTTTTTCTTTTTTACTTTTTCTCCTTTTT-ATCTTTTCT
1 TTTTTTTTCTTTTTT-CCTTTTCT-CTTTTTCATCTTTTCT
12076971 TCTTTTTTTCATTTTTT
1 T-TTTTTTTC-TTTTTT
12076988 TCATATTTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
40 2 0.04
41 9 0.18
42 26 0.53
43 7 0.14
44 5 0.10
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (39 bp):
TTTTTTTTCTTTTTTCCTTTTCTCTTTTTCATCTTTTCT
Found at i:12076995 original size:11 final size:9
Alignment explanation
Indices: 12076906--12077002 Score: 62
Period size: 8 Copynumber: 11.1 Consensus size: 9
12076896 TCTTTTTTCC
12076906 TTTTC-TTT
1 TTTTCATTT
12076914 TTTTCCATTT
1 TTTT-CATTT
*
12076924 TTTCCATTT
1 TTTTCATTT
12076933 TTTT--TTCT
1 TTTTCATT-T
*
12076941 TTTTTACTTT
1 TTTTCA-TTT
* *
12076951 TTCTCCTTT
1 TTTTCATTT
*
12076960 TTATC-TTT
1 TTTTCATTT
*
12076968 TCTTC-TTT
1 TTTTCATTT
12076976 TTTTCATTT
1 TTTTCATTT
*
12076985 TTTTCA-TA
1 TTTTCATTT
12076993 TTTTCATTT
1 TTTTCATTT
12077002 T
1 T
12077003 GTTTTCTTCT
Statistics
Matches: 70, Mismatches: 11, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
7 2 0.03
8 29 0.41
9 27 0.39
10 10 0.14
11 2 0.03
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTCATTT
Found at i:12080569 original size:12 final size:12
Alignment explanation
Indices: 12080552--12080584 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
12080542 TAATATATAT
12080552 ATATATACATAC
1 ATATATACATAC
12080564 ATATATACATAC
1 ATATATACATAC
*
12080576 ATACATACA
1 ATATATACA
12080585 ACAAAGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (12 bp):
ATATATACATAC
Found at i:12089997 original size:25 final size:25
Alignment explanation
Indices: 12089963--12090014 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
12089953 GGCAAAGGAA
12089963 TGTGGCAAGAGGGACGGGCTGCTGC
1 TGTGGCAAGAGGGACGGGCTGCTGC
*
12089988 TGTGGCAAGAGGGATGGGCTGCTGC
1 TGTGGCAAGAGGGACGGGCTGCTGC
12090013 TG
1 TG
12090015 CAGCATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.48, T:0.19
Consensus pattern (25 bp):
TGTGGCAAGAGGGACGGGCTGCTGC
Found at i:12091623 original size:12 final size:13
Alignment explanation
Indices: 12091598--12091626 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
12091588 CTCTCATCTT
12091598 TTTAATTCTTTAA
1 TTTAATTCTTTAA
12091611 TTTAATT-TTTAA
1 TTTAATTCTTTAA
12091623 TTTA
1 TTTA
12091627 GATAGTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTAATTCTTTAA
Found at i:12095526 original size:55 final size:51
Alignment explanation
Indices: 12095461--12095565 Score: 138
Period size: 51 Copynumber: 2.0 Consensus size: 51
12095451 TAATGAATAT
* * *
12095461 TGTTGAACATCTTGACATAGTTAGGTTGCTTGCATGAGGTATGTGTTGTTTTAAG
1 TGTTGAACATCTTAACATAGTTA-G--G-TTACATGAGGTATGTGTCGTTTTAAG
*
12095516 TGTTGTACATCTTAACATAGTTAGGTTACATGAGGTATGTGTCGTTTTAA
1 TGTTGAACATCTTAACATAGTTAGGTTACATGAGGTATGTGTCGTTTTAA
12095566 TTATTGCACA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
51 23 0.50
52 1 0.02
54 1 0.02
55 21 0.46
ACGTcount: A:0.24, C:0.10, G:0.25, T:0.42
Consensus pattern (51 bp):
TGTTGAACATCTTAACATAGTTAGGTTACATGAGGTATGTGTCGTTTTAAG
Found at i:12096965 original size:2 final size:2
Alignment explanation
Indices: 12096952--12096985 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
12096942 TAGGAAAGGT
*
12096952 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12096986 AATAATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12097793 original size:72 final size:72
Alignment explanation
Indices: 12097698--12097832 Score: 209
Period size: 72 Copynumber: 1.9 Consensus size: 72
12097688 TTTTTCGAGT
* * *
12097698 TCGAGTCGAGCTTCAATTTTTTATTTTGAGTTTGAATCAAGCTTGACAATTTT-AAGCTCGTGAG
1 TCGAGTCAAGCTTCAATCTTTTATTTCGAGTTTGAATCAAGCTTGACAATTTTGAA-CTCGTGAG
12097762 TTTTTAAG
65 TTTTTAAG
* *
12097770 TCGAGTCAATCTTCAATCTTTTATTTCGAGTTTGAATCAAGCTTGATAATTTTGAACTCGTGA
1 TCGAGTCAAGCTTCAATCTTTTATTTCGAGTTTGAATCAAGCTTGACAATTTTGAACTCGTGA
12097833 ACTTTTAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 55 0.96
73 2 0.04
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (72 bp):
TCGAGTCAAGCTTCAATCTTTTATTTCGAGTTTGAATCAAGCTTGACAATTTTGAACTCGTGAGT
TTTTAAG
Found at i:12097848 original size:72 final size:72
Alignment explanation
Indices: 12097698--12097848 Score: 205
Period size: 72 Copynumber: 2.1 Consensus size: 72
12097688 TTTTTCGAGT
* * * * **
12097698 TCGAGTCGAGCTTCAATTTTTTATTTTGAGTTTGAATCAAGCTTGACAATTTTAAGCTCGTGAGT
1 TCGAGTCAATCTTCAATCTTTTATTTCGAGTTTGAATCAAGCTTGACAATTTTAAGCTCGTGAAC
*
12097763 TTTTAAG
66 TTTTAAA
*
12097770 TCGAGTCAATCTTCAATCTTTTATTTCGAGTTTGAATCAAGCTTGATAATTTTGAA-CTCGTGAA
1 TCGAGTCAATCTTCAATCTTTTATTTCGAGTTTGAATCAAGCTTGACAATTTT-AAGCTCGTGAA
12097834 CTTTTAAA
65 CTTTTAAA
*
12097842 TTGAGTC
1 TCGAGTC
12097849 GAGCTCTATT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 67 0.97
73 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.42
Consensus pattern (72 bp):
TCGAGTCAATCTTCAATCTTTTATTTCGAGTTTGAATCAAGCTTGACAATTTTAAGCTCGTGAAC
TTTTAAA
Found at i:12098605 original size:26 final size:24
Alignment explanation
Indices: 12098576--12098630 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
12098566 TTCAAATTCT
*
12098576 AATATATTATATTT-TTTAAAATATAA
1 AATATATT-TATTTAATTAAAA-A-AA
12098602 AATATATTTATTTAATTAAAAAAA
1 AATATATTTATTTAATTAAAAAAA
12098626 AATAT
1 AATAT
12098631 GTAACTGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 7 0.26
25 6 0.22
26 14 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AATATATTTATTTAATTAAAAAAA
Found at i:12098624 original size:21 final size:21
Alignment explanation
Indices: 12098583--12098630 Score: 51
Period size: 24 Copynumber: 2.1 Consensus size: 21
12098573 TCTAATATAT
*
12098583 TATATTTTTTAAAATATAAAA
1 TATATTTTTTAAAATAAAAAA
*
12098604 TATATTTATTTAATTAAAAAAAAA
1 TATATTT-TTTAA--AATAAAAAA
12098628 TAT
1 TAT
12098631 GTAACTGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 7 0.32
22 5 0.23
24 10 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TATATTTTTTAAAATAAAAAA
Found at i:12101205 original size:13 final size:13
Alignment explanation
Indices: 12101187--12101211 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12101177 TGTAATTTGA
12101187 AATAAATAAAAAG
1 AATAAATAAAAAG
12101200 AATAAATAAAAA
1 AATAAATAAAAA
12101212 AACTATATAC
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AATAAATAAAAAG
Found at i:12102704 original size:17 final size:17
Alignment explanation
Indices: 12102684--12102726 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
12102674 TGTGCTTGCA
12102684 GGTCACGGGTGCGAGCT
1 GGTCACGGGTGCGAGCT
*
12102701 GGTCACGAGTGCGAGCT
1 GGTCACGGGTGCGAGCT
12102718 GGTCACGGG
1 GGTCACGGG
12102727 CTTCAGGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.14, C:0.23, G:0.47, T:0.16
Consensus pattern (17 bp):
GGTCACGGGTGCGAGCT
Found at i:12103508 original size:53 final size:54
Alignment explanation
Indices: 12103406--12103571 Score: 226
Period size: 55 Copynumber: 3.1 Consensus size: 54
12103396 CTCCATAGTC
* *
12103406 CTTCAGAGAGTATAAGACCCGAACAATCTTTAACAATCGCGTCTGCCCCCTATTT
1 CTTCAGAGAGTATAAGACCC-AACAATCTTCAACAATCACGTCTGCCCCCTATTT
* * *
12103461 CTTCAGAGAGTATAAGACCC-ACAATCCTCATCAATCACGTCTTCCCCCTATTT
1 CTTCAGAGAGTATAAGACCCAACAATCTTCAACAATCACGTCTGCCCCCTATTT
** * *
12103514 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGTGTCGGCTCCCTATTT
1 CTTCAGAGAGTATAAGACCC-AACAATCTTCAACAATCACGTCTGCCCCCTATTT
12103569 CTT
1 CTT
12103572 TACGGAGTAT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
53 48 0.49
55 49 0.51
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (54 bp):
CTTCAGAGAGTATAAGACCCAACAATCTTCAACAATCACGTCTGCCCCCTATTT
Found at i:12103566 original size:55 final size:55
Alignment explanation
Indices: 12103406--12103857 Score: 260
Period size: 53 Copynumber: 8.6 Consensus size: 55
12103396 CTCCATAGTC
* *
12103406 CTTCAGAGAGTATAAGACCCGAACAATCTTTAACAATCGCGTCTGCCCCCTATTT
1 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* * * * *
12103461 CTTCAGAGAGTATAAGACCC--ACAATCCTCATCAATCACGTCTTCCCCCTATTT
1 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* *
12103514 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGTGTCGGCTCCCTATTT
1 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* ** * * * * *
12103569 CTTTACG-GAGTATGGGACTCGGA-TATCTTC-AC-A-CGGGT-TCGCTCCCTCTTT
1 CTTCA-GAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCT-GCTCCCTATTT
* * * ** * * * *
12103620 C-TCTAGGGAGTAT-GGAACTTAGACATCTCTTC-A-AA-CGGGT-TCGCTCCTTCTTT
1 CTTC-AGAGAGTATAAGACCCGA-ACA-ATCTTCAACAATCGCGTCT-GCTCCCTATTT
* * * * *
12103673 CTCTAAG-GAGAAT-AGAACTCGAA-TATCTTCAACAATCGTGTCTGCTCCCTATTT
1 CT-TCAGAGAGTATAAG-ACCCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* * * * **
12103727 CTTCAGAGAGTAT--GA---G-AC--TC--GAACGATCGTGTCTGCCCCCTACAT
1 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* *
12103772 CTTCAGAGAGTATAAGACCC--ACAATCTTCATCAATTGCGTCTGCTCCCTATTT
1 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* *
12103825 CTTCAGAGAGTATGAGACTCGAACAATCTTCAA
1 CTTCAGAGAGTATAAGACCCGAACAATCTTCAA
12103858 TAATTGCTGG
Statistics
Matches: 307, Mismatches: 60, Indels: 60
0.72 0.14 0.14
Matches are distributed among these distances:
45 33 0.11
47 4 0.01
48 1 0.00
49 3 0.01
50 5 0.02
51 30 0.10
52 3 0.01
53 123 0.40
54 30 0.10
55 74 0.24
56 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (55 bp):
CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
Found at i:12108446 original size:8 final size:8
Alignment explanation
Indices: 12108433--12108460 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
12108423 GAAAAAGAAG
12108433 ATATATAC
1 ATATATAC
12108441 ATATATAC
1 ATATATAC
12108449 ATATATAC
1 ATATATAC
12108457 ATAT
1 ATAT
12108461 GGGAGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:12116635 original size:13 final size:13
Alignment explanation
Indices: 12116617--12116641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12116607 TGTAATTTGA
12116617 AATAAATAAAAAG
1 AATAAATAAAAAG
12116630 AATAAATAAAAA
1 AATAAATAAAAA
12116642 AAACTATATA
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AATAAATAAAAAG
Found at i:12118136 original size:17 final size:17
Alignment explanation
Indices: 12118116--12118158 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
12118106 TGTGCTTGCA
12118116 GGTCACGGGTGCGAGCT
1 GGTCACGGGTGCGAGCT
*
12118133 GGTCACGAGTGCGAGCT
1 GGTCACGGGTGCGAGCT
12118150 GGTCACGGG
1 GGTCACGGG
12118159 CTTCAGGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.14, C:0.23, G:0.47, T:0.16
Consensus pattern (17 bp):
GGTCACGGGTGCGAGCT
Found at i:12121496 original size:16 final size:16
Alignment explanation
Indices: 12121466--12121496 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12121456 TAATATTGAA
*
12121466 ACTTGAACTCGAAAAG
1 ACTTGAACTCAAAAAG
12121482 ACTTGAACTCAAAAA
1 ACTTGAACTCAAAAA
12121497 ATATTAGAAG
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:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:12121820 original size:14 final size:16
Alignment explanation
Indices: 12121800--12121837 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
12121790 AATTTATTTT
12121800 TTAATTATAGTTA-TA
1 TTAATTATAGTTATTA
*
12121815 -TAATTATATTTATTA
1 TTAATTATAGTTATTA
12121830 TTAATTAT
1 TTAATTAT
12121838 GTTTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 11 0.55
15 2 0.10
16 7 0.35
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTAATTATAGTTATTA
Found at i:12122232 original size:17 final size:18
Alignment explanation
Indices: 12122195--12122239 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
12122185 TTTCTGATGA
12122195 AATTGGAATCTGTGAAGG
1 AATTGGAATCTGTGAAGG
* *
12122213 AATTAGAATCTGT-CAGG
1 AATTGGAATCTGTGAAGG
12122230 AATTGGAATC
1 AATTGGAATC
12122240 CAATTCTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.29
Consensus pattern (18 bp):
AATTGGAATCTGTGAAGG
Found at i:12123174 original size:257 final size:262
Alignment explanation
Indices: 12122606--12123232 Score: 881
Period size: 257 Copynumber: 2.4 Consensus size: 262
12122596 CTCCATCCGA
* *
12122606 GACCCGACCTGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
1 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAAACCGAC
* * * *
12122671 CCTAACCGAAATAATAAAAAATTATTTTTATTTAATAAAAATAGTGACTTGATTGGAAAAAATAT
66 CCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATTGGAAAAAATAT
* * * *
12122736 ATATAGAGAGGGGTATTATTGTAATTATTTCTAAATATATAAGGTAAAATTAGATATTTTTTGGT
131 ATATAGAGAGGGATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTA-ATATATATT-GT
*
12122801 TCGGGTCGGGTCAGGTATTTTTCACCCTAATCCCGAACCTGACCCGACCCAAATATCACACATAA
194 TCGGGTC-GG--AGGTATTTTTCACCCTAAACCCGAACCTGACCCGACCCAAATATCACACATAA
12122866 AAAAAAC
256 AAAAAAC
* * * * * *
12122873 GACCTGACCCGACCAAAATAAAGTTTCACCCGACCTGTCCCGAATATATAAATTAGAAATCTGAC
1 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAAACCGAC
*
12122938 CCGACCCGAAATAATAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATT-GAAAAAACT-
66 CCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATTGGAAAAAA-TA
*
12123001 TATATATAGAGGGATATTATTGTAATTATTCCTAAATATATAAGGTAAAATT-ATATATATT-TT
130 TATATAGAGAGGGATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTAATATATATTGTT
* * * *
12123064 CGGGTC-G-GGTATTTTTCACCCTAAACCCGAA-CTCGACTCGACTCGAATATCACACTTAAAAA
195 CGGGTCGGAGGTATTTTTCACCCTAAACCCGAACCT-GACCCGACCCAAATATCACACATAAAAA
*
12123126 AACC
259 AAAC
* *
12123130 GACCCAACCCGACCAAAATAAAATTTCACCCGACCCGACCCGAATATATGAATTAGAAAACCGAC
1 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAAACCGAC
* *
12123195 CCGACCTGAAATAATAAAAAAAATATTTTTATTTAATA
66 CCGACCCGAAATAAT-AAAAAATTATTTTTATTTAATA
12123233 TATAAATAAG
Statistics
Matches: 323, Mismatches: 34, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
256 2 0.01
257 121 0.37
258 20 0.06
260 1 0.00
262 8 0.02
264 7 0.02
266 56 0.17
267 108 0.33
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (262 bp):
GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAAACCGAC
CCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATTGGAAAAAATAT
ATATAGAGAGGGATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTAATATATATTGTTC
GGGTCGGAGGTATTTTTCACCCTAAACCCGAACCTGACCCGACCCAAATATCACACATAAAAAAA
AC
Found at i:12124594 original size:113 final size:112
Alignment explanation
Indices: 12124258--12124844 Score: 892
Period size: 112 Copynumber: 5.2 Consensus size: 112
12124248 TTGTCGGTTT
* * * *
12124258 GTGTCGATACTTTATAAAAATATATTGATCCATAATAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * **
12124323 GGTTTATAAATGACAAAACAGGTAAAACGCTACTAGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* ** * *
12124370 GTGTCGATACTTTATAAAAATGTATCTATTTATAACAATATAATAGGTAAAAAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
12124435 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
12124482 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
* *
12124547 CGGTCTATAAATGACAAAACATGTAAAGCGTTACCGGATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
12124595 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAACAAAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * * *
12124660 GGTCTATAAATGAAAAAACAGGTAAAGTGCTACCGGATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
12124707 GTGTCGATACTTTATAAAAAATGTATCGATCCATAACAA-AAAAAAGGT-AAAAAATGACAAAAC
1 GTGTCGATACTTTAT-AAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
* * *
12124770 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGATA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
12124818 GTGTCGATACTTTATTAAAA-GTATCGA
1 GTGTCGATACTTTATAAAAATGTATCGA
12124845 CACTTTTGGA
Statistics
Matches: 440, Mismatches: 33, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
109 7 0.02
110 4 0.01
111 75 0.17
112 224 0.51
113 130 0.30
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:12124648 original size:225 final size:224
Alignment explanation
Indices: 12124258--12124844 Score: 901
Period size: 225 Copynumber: 2.6 Consensus size: 224
12124248 TTGTCGGTTT
* * * *
12124258 GTGTCGATACTTTATAAAAATATATTGATCCATAATAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * *
12124323 GGTTTATAAATGACAAAACAGGTAAAACGCTACTAGATATATTGAAAGTGTCGATACTTTATAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTATAAA
* ** * * * * *
12124388 AATGTATCTATTTATAACAATATAATAGGTAAAAAAATGACAAAATCGGTCTATAAATGACAAAA
131 AATGTATCGATCCATAACAACAAAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGAAAAAA
12124453 CAGGTAAAGCGCTACCGGATATATTGAAA
196 CAGGTAAAGCGCTACCGGATATATTGAAA
12124482 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
* * *
12124547 CGGTCTATAAATGACAAAACATGTAAAGCGTTACCGGATATATTGAAAGTGTCGATACTTTATAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTATAA
12124612 AAATGTATCGATCCATAACAACAAAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGAAAAA
130 AAATGTATCGATCCATAACAACAAAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGAAAAA
* * *
12124677 ACAGGTAAAGTGCTACCGGATATGTTGATA
195 ACAGGTAAAGCGCTACCGGATATATTGAAA
* *
12124707 GTGTCGATACTTTATAAAAAATGTATCGATCCATAACAA-AAAAAAGGT-AAAAAATGACAAAAC
1 GTGTCGATACTTTAT-AAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
* * *
12124770 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGATAGTGTCGATACTTTATTA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTATAA
12124835 AAA-GTATCGA
130 AAATGTATCGA
12124845 CACTTTTGGA
Statistics
Matches: 332, Mismatches: 29, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
222 7 0.02
223 77 0.23
224 44 0.13
225 181 0.55
226 23 0.07
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (224 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTATAAA
AATGTATCGATCCATAACAACAAAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGAAAAAA
CAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:12124657 original size:20 final size:20
Alignment explanation
Indices: 12124632--12124685 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
12124622 ATCCATAACA
12124632 ACAAAACAGGTAAAAAAATG
1 ACAAAACAGGTAAAAAAATG
* ** *
12124652 ACAAAACCGGTCTATAAATG
1 ACAAAACAGGTAAAAAAATG
*
12124672 AAAAAACAGGTAAA
1 ACAAAACAGGTAAA
12124686 GTGCTACCGG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.59, C:0.13, G:0.15, T:0.13
Consensus pattern (20 bp):
ACAAAACAGGTAAAAAAATG
Found at i:12125016 original size:182 final size:182
Alignment explanation
Indices: 12124706--12125340 Score: 994
Period size: 182 Copynumber: 3.5 Consensus size: 182
12124696 ATATGTTGAT
* *
12124706 AGTGTCGATACTTTATAAAAAATGTATCGATCCATAACAA-A-AAAAAGGTAAAAA-ATGACAAA
1 AGTGTCGATACTTTAT-AAAAATGTATCGATCCATAACAATATAACAA-GTAAAAATATGATAAA
* * *
12124768 ACCGGTCT-ATAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGATAGTGTCGATACTTTA
64 ATCGGTCTCA-AAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTA
*
12124832 TTAAAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
128 TTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
*
12124887 AGTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGATAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGATAAAAT
*
12124952 CGGTCTCAAAATGACAAAACCGGTAAAGAGCTACC-GAATATGTTGATAGTGTCGAAACTTTATT
66 CGGTCTCAAAATGACAAAACCGGTAAAGAGCTACCAG-ATATGTTGATAGTGTCGATACTTTATT
12125016 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
130 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
* * *
12125069 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATTATAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGATAAAAT
* * *
12125134 CGGTCTCGAAATGACAAAACTGGTAAAGAGCTATCAGATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCAAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTA
* * *
12125199 TAAGTATCGACACTTTTGGAATCTAAAAGAAAAGAAATTATAGCG-TCAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCT-AATAA
*
12125251 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGATAAAAT
* * *
12125316 CGATCTCGAAATGACAAAATCGGTA
66 CGGTCTCAAAATGACAAAACCGGTA
12125341 GTAAAAAAAT
Statistics
Matches: 422, Mismatches: 25, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
180 23 0.05
181 25 0.06
182 372 0.88
183 2 0.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (182 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGATAAAAT
CGGTCTCAAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTA
TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
Done.