Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 74 of 126
Found at i:21892307 original size:29 final size:30
Alignment explanation
Indices: 21892275--21892360 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 30
21892265 TTTGGAAAGT
* * *
21892275 TTAGGTGTC-AATTTGGATTTTTTGAAAAA
1 TTAGGGGTCAAATTTGAATTTTTAGAAAAA
*
21892304 TTAGGGGTCAAATTTGAATTTTTAG-AAAG
1 TTAGGGGTCAAATTTGAATTTTTAGAAAAA
* *
21892333 TTTGGGATCAAATTT-AGATTTTTA-AAAA
1 TTAGGGGTCAAATTTGA-ATTTTTAGAAAA
21892361 GTTCATCGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 34 0.71
30 13 0.27
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (30 bp):
TTAGGGGTCAAATTTGAATTTTTAGAAAAA
Found at i:21892325 original size:30 final size:29
Alignment explanation
Indices: 21892275--21892331 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
21892265 TTTGGAAAGT
* * *
21892275 TTAGGTGTCAATTTGGATTTTTTGAAAAA
1 TTAGGGGTCAATTTGAATTTTTAGAAAAA
21892304 TTAGGGGTCAAATTTGAATTTTTAGAAA
1 TTAGGGGTC-AATTTGAATTTTTAGAAA
21892332 GTTTGGGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (29 bp):
TTAGGGGTCAATTTGAATTTTTAGAAAAA
Found at i:21893355 original size:18 final size:18
Alignment explanation
Indices: 21893314--21893355 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
21893304 TTATTTATTT
*
21893314 ATAAAATAATAATAATAA
1 ATAAAATAATAATAAAAA
21893332 AT-AAATAA-ATATAAAAA
1 ATAAAATAATA-ATAAAAA
21893349 ATAAAAT
1 ATAAAAT
21893356 TGGATTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 14 0.67
18 6 0.29
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAATAATAATAAAAA
Found at i:21897561 original size:18 final size:19
Alignment explanation
Indices: 21897535--21897570 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21897525 AAAAATATAA
21897535 ATTTATAAATA-TATAAAT
1 ATTTATAAATATTATAAAT
*
21897553 ATTTTTAAATATTATAAA
1 ATTTATAAATATTATAAA
21897571 CAAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTATAAATATTATAAAT
Found at i:21897577 original size:27 final size:25
Alignment explanation
Indices: 21897532--21897582 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
21897522 AATAAAAATA
* *
21897532 TAAATTTATAAATATATAAATATTTT
1 TAAATTTATAAACAAATAAA-ATTTT
21897558 TAAATATTATAAACAAATAAAATTT
1 TAAAT-TTATAAACAAATAAAATTT
21897583 ATTTAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAATTTATAAACAAATAAAATTTT
Found at i:21899331 original size:27 final size:26
Alignment explanation
Indices: 21899289--21899360 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
21899279 CTCATCTTAG
* *
21899289 TTTTACCCCAG-TAAAATTTTTACAA
1 TTTTACCCCCGATAAAATTTTGACAA
*
21899314 TTTTTACCCCCGATAAAAATTTTGACGA
1 -TTTTACCCCCGAT-AAAATTTTGACAA
*
21899342 TTTTA-CCTCGATAAAATTT
1 TTTTACCCCCGATAAAATTT
21899361 CGAGAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 7 0.17
26 16 0.40
27 6 0.15
28 11 0.28
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.40
Consensus pattern (26 bp):
TTTTACCCCCGATAAAATTTTGACAA
Found at i:21900474 original size:30 final size:30
Alignment explanation
Indices: 21900376--21900510 Score: 130
Period size: 30 Copynumber: 4.5 Consensus size: 30
21900366 TTAATTTTAG
* * *
21900376 TTTAAGGATTAAATTAGAATTTTAGTGAAA
1 TTTAGGGACTAAATTGGAATTTTAGTGAAA
* * * ** *
21900406 TTTAGGGGCTAAATTGTAAGTTCGGTG-GA
1 TTTAGGGACTAAATTGGAATTTTAGTGAAA
* *
21900435 TTTAAGGACTAAATTGGAATTTTAGTGACA
1 TTTAGGGACTAAATTGGAATTTTAGTGAAA
* *
21900465 TTTAGGGACTAAATTATG-ATCTTAGTGAAA
1 TTTAGGGACTAAATT-GGAATTTTAGTGAAA
21900495 TTTAGGGACTAAATTG
1 TTTAGGGACTAAATTG
21900511 AGCTTTTATT
Statistics
Matches: 82, Mismatches: 21, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
29 22 0.27
30 59 0.72
31 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (30 bp):
TTTAGGGACTAAATTGGAATTTTAGTGAAA
Found at i:21904375 original size:21 final size:20
Alignment explanation
Indices: 21904349--21904398 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
21904339 GAGGCAAAAA
21904349 TATCGATACTTTA-ACAGAAGG
1 TATCGATACTTTATA-A-AAGG
*
21904370 TATCGATATTTTATAAAAGG
1 TATCGATACTTTATAAAAGG
*
21904390 TATCTATAC
1 TATCGATAC
21904399 CATTTCACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.44
21 13 0.52
22 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (20 bp):
TATCGATACTTTATAAAAGG
Found at i:21904526 original size:18 final size:18
Alignment explanation
Indices: 21904500--21904534 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21904490 TACCGGGCCT
*
21904500 TCAATATCGATACCAAAG
1 TCAAAATCGATACCAAAG
21904518 TCAAAATCGATACCAAA
1 TCAAAATCGATACCAAA
21904535 ATTGCTCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.20
Consensus pattern (18 bp):
TCAAAATCGATACCAAAG
Found at i:21913844 original size:41 final size:41
Alignment explanation
Indices: 21913733--21913836 Score: 181
Period size: 41 Copynumber: 2.5 Consensus size: 41
21913723 AACTCGATAT
*
21913733 TTAAATGGAAGACTCATGTCTCGGGATGAGAATTAGATCATA
1 TTAAA-GGAAGACTCATGTCTCGGGATGAGAATGAGATCATA
*
21913775 TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATA
1 TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATCATA
21913816 TTAAAGGAAGACTCATGTCTC
1 TTAAAGGAAGACTCATGTCTC
21913837 AAAATGAGTG
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
41 55 0.92
42 5 0.08
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (41 bp):
TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATCATA
Found at i:21915048 original size:28 final size:28
Alignment explanation
Indices: 21915011--21915109 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
21915001 ACAAAGTGCA
21915011 AATAACGATAAGCACAAAAGTGCAAAAT
1 AATAACGATAAGCACAAAAGTGCAAAAT
* **
21915039 AATAATGATAAGCATC-AAAGTGCAATTTT
1 AATAACGATAAGCA-CAAAAGTGCAA-AAT
* * *
21915068 TACAACAATAAGCACAAAAGTG-AGAAAT
1 AATAACGATAAGCACAAAAGTGCA-AAAT
*
21915096 AAT-ATGATAAGCAC
1 AATAACGATAAGCAC
21915110 GCTAATATTC
Statistics
Matches: 54, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
27 9 0.17
28 26 0.48
29 19 0.35
ACGTcount: A:0.53, C:0.13, G:0.14, T:0.20
Consensus pattern (28 bp):
AATAACGATAAGCACAAAAGTGCAAAAT
Found at i:21918973 original size:14 final size:14
Alignment explanation
Indices: 21918915--21919017 Score: 68
Period size: 14 Copynumber: 7.3 Consensus size: 14
21918905 AAGACTTAGG
*
21918915 AACC-TAAACCCTA
1 AACCTTAAATCCTA
*
21918928 AACCTTAAAATCTTA
1 AACCTT-AAATCCTA
*
21918943 AA-CTTAAGGACCCTA
1 AACCTTAA--ATCCTA
*
21918958 AATCTTAAATCCTA
1 AACCTTAAATCCTA
* *
21918972 AACCATAAATCCCA
1 AACCTTAAATCCTA
21918986 AACCTTAAA-CCATA
1 AACCTTAAATCC-TA
* * *
21919000 AACTTTATACCCTA
1 AACCTTAAATCCTA
21919014 AACC
1 AACC
21919018 CTAGACTTTA
Statistics
Matches: 70, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
13 8 0.11
14 41 0.59
15 16 0.23
16 5 0.07
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (14 bp):
AACCTTAAATCCTA
Found at i:21919015 original size:21 final size:21
Alignment explanation
Indices: 21918919--21919058 Score: 70
Period size: 21 Copynumber: 6.6 Consensus size: 21
21918909 CTTAGGAACC
* *
21918919 TAAACCCTAAACCTTAAAATCT
1 TAAACCCTAAACCATAAACT-T
* *
21918941 TAAA-CTTAAGGACCCTAAA-TCT
1 TAAACCCTAA--ACCATAAACT-T
* *
21918963 TAAATCCTAAACCATAAA-TCC
1 TAAACCCTAAACCATAAACT-T
* *
21918984 CAAACCTTAAACCATAAACTT
1 TAAACCCTAAACCATAAACTT
* * *
21919005 TATACCCTAAACCCTAGACTT
1 TAAACCCTAAACCATAAACTT
* * * **
21919026 TAAATCCTAAATCATAGACCC
1 TAAACCCTAAACCATAAACTT
21919047 TAAACCCTAAAC
1 TAAACCCTAAAC
21919059 TTAAGGGTTT
Statistics
Matches: 92, Mismatches: 22, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
21 69 0.75
22 12 0.13
23 11 0.12
ACGTcount: A:0.44, C:0.29, G:0.03, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACTT
Found at i:21919018 original size:7 final size:7
Alignment explanation
Indices: 21918952--21919058 Score: 54
Period size: 7 Copynumber: 15.3 Consensus size: 7
21918942 AAACTTAAGG
21918952 ACCCTAA
1 ACCCTAA
* *
21918959 ATCTTAA
1 ACCCTAA
*
21918966 ATCCTAA
1 ACCCTAA
*
21918973 ACCATAA
1 ACCCTAA
21918980 ATCCC-AA
1 A-CCCTAA
*
21918987 ACCTTAA
1 ACCCTAA
*
21918994 ACCATAA
1 ACCCTAA
** *
21919001 ACTTTAT
1 ACCCTAA
21919008 ACCCTAA
1 ACCCTAA
*
21919015 ACCCTAG
1 ACCCTAA
**
21919022 ACTTTAA
1 ACCCTAA
*
21919029 ATCCTAA
1 ACCCTAA
* * *
21919036 ATCATAG
1 ACCCTAA
21919043 ACCCTAA
1 ACCCTAA
21919050 ACCCTAA
1 ACCCTAA
21919057 AC
1 AC
21919059 TTAAGGGTTT
Statistics
Matches: 72, Mismatches: 26, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
6 2 0.03
7 68 0.94
8 2 0.03
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (7 bp):
ACCCTAA
Found at i:21919122 original size:21 final size:21
Alignment explanation
Indices: 21919098--21919143 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
21919088 TTAAGATTTG
**
21919098 AGGTCTAATGTTTAGGGTTAA
1 AGGTCTAAAATTTAGGGTTAA
*
21919119 AGGTCTAAAATTTAGGGTTTA
1 AGGTCTAAAATTTAGGGTTAA
21919140 AGGT
1 AGGT
21919144 TCATGATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.37
Consensus pattern (21 bp):
AGGTCTAAAATTTAGGGTTAA
Found at i:21923143 original size:19 final size:19
Alignment explanation
Indices: 21923116--21923153 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21923106 CCAGTTAGCA
* *
21923116 TTTATTTTTCTATTTTCCT
1 TTTAATTTTCTACTTTCCT
21923135 TTTAATTTTCTACTTTCCT
1 TTTAATTTTCTACTTTCCT
21923154 ACTCTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTAATTTTCTACTTTCCT
Found at i:21926583 original size:17 final size:18
Alignment explanation
Indices: 21926553--21926589 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
21926543 CATCAACATC
21926553 TGATATTCCAGAAGCTGG
1 TGATATTCCAGAAGCTGG
*
21926571 TGATATT-CAGAAGGTGG
1 TGATATTCCAGAAGCTGG
21926588 TG
1 TG
21926590 GACCTTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (18 bp):
TGATATTCCAGAAGCTGG
Found at i:21927519 original size:9 final size:9
Alignment explanation
Indices: 21927505--21927535 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21927495 AATTAAATAG
21927505 TTCGAGTTA
1 TTCGAGTTA
21927514 TTCGAGTTA
1 TTCGAGTTA
*
21927523 ATCGAGTTA
1 TTCGAGTTA
21927532 TTCG
1 TTCG
21927536 GATCAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (9 bp):
TTCGAGTTA
Found at i:21932638 original size:21 final size:21
Alignment explanation
Indices: 21932600--21932639 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21932590 ACATACAGTA
*
21932600 TTTAAATATCAATTTAATTTC
1 TTTAAATATCAATATAATTTC
21932621 TTTAAAT-TCAAATATAATT
1 TTTAAATATC-AATATAATT
21932640 CGAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTAAATATCAATATAATTTC
Found at i:21933977 original size:80 final size:83
Alignment explanation
Indices: 21933844--21934135 Score: 342
Period size: 86 Copynumber: 3.5 Consensus size: 83
21933834 ACCAATATAT
* * * * * * *
21933844 GATGCTGCTCACACAAACTGTCAAGAATCCGCAACATATGCAGGATCTTAGCCATCGATACGATC
1 GATGCTGCTCAAACAAGCTGTCAAGAATCCACAACATATGCAGGATCTCAGCCATCGAGAGGGTC
*
21933909 CAT-AT-T-ACCACTCAC
66 CATAATGTAACCACTCTC
* *
21933924 GATGCTGCTCACACAAGCTGTCAAGAATCTACAACATATGCAGGATCTCAGCCATCG-GAGGGTC
1 GATGCTGCTCAAACAAGCTGTCAAGAATCCACAACATATGCAGGATCTCAGCCATCGAGAGGGTC
21933988 CATAAATGTAACACCCACTCTC
66 CAT-AATGT-A-A-CCACTCTC
* *
21934010 GATGCTGCTCAAACAACCTGTTAAGAATCCACAACATATGCAGGATCTCAGCCATC-AGAGGGTC
1 GATGCTGCTCAAACAAGCTGTCAAGAATCCACAACATATGCAGGATCTCAGCCATCGAGAGGGTC
21934074 CATAAATGTAACACCTACTCTC
66 CAT-AATGT-A-ACC-ACTCTC
* * *
21934096 AATGCTGCTCAAACAAGCTGTCAAGAAACTACAACATATG
1 GATGCTGCTCAAACAAGCTGTCAAGAATCCACAACATATG
21934136 TAGGGTCCCA
Statistics
Matches: 186, Mismatches: 17, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
79 7 0.04
80 53 0.28
81 2 0.01
82 1 0.01
85 3 0.02
86 120 0.65
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (83 bp):
GATGCTGCTCAAACAAGCTGTCAAGAATCCACAACATATGCAGGATCTCAGCCATCGAGAGGGTC
CATAATGTAACCACTCTC
Found at i:21934038 original size:86 final size:86
Alignment explanation
Indices: 21933916--21934135 Score: 359
Period size: 86 Copynumber: 2.6 Consensus size: 86
21933906 ATCCATATTA
* * *
21933916 CCACTCACGATGCTGCTCACACAAGCTGTCAAGAATCTACAACATATGCAGGATCTCAGCCATCG
1 CCACTCTCGATGCTGCTCAAACAAGCTGTCAAGAATCTACAACATATGCAGGATCTCAGCCATCA
21933981 GAGGGTCCATAAATGTAACAC
66 GAGGGTCCATAAATGTAACAC
* * *
21934002 CCACTCTCGATGCTGCTCAAACAACCTGTTAAGAATCCACAACATATGCAGGATCTCAGCCATCA
1 CCACTCTCGATGCTGCTCAAACAAGCTGTCAAGAATCTACAACATATGCAGGATCTCAGCCATCA
21934067 GAGGGTCCATAAATGTAACAC
66 GAGGGTCCATAAATGTAACAC
* * *
21934088 CTACTCTCAATGCTGCTCAAACAAGCTGTCAAGAAACTACAACATATG
1 CCACTCTCGATGCTGCTCAAACAAGCTGTCAAGAATCTACAACATATG
21934136 TAGGGTCCCA
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 122 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (86 bp):
CCACTCTCGATGCTGCTCAAACAAGCTGTCAAGAATCTACAACATATGCAGGATCTCAGCCATCA
GAGGGTCCATAAATGTAACAC
Found at i:21936457 original size:16 final size:16
Alignment explanation
Indices: 21936436--21936467 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21936426 GTGCTGATGT
21936436 TATCAGGCTATGTGCC
1 TATCAGGCTATGTGCC
*
21936452 TATCAGGCTTTGTGCC
1 TATCAGGCTATGTGCC
21936468 GGTGATATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (16 bp):
TATCAGGCTATGTGCC
Found at i:21936520 original size:38 final size:38
Alignment explanation
Indices: 21936399--21936700 Score: 202
Period size: 38 Copynumber: 8.0 Consensus size: 38
21936389 AGTGTTTATC
* * * * *
21936399 TATCGGGCTGTGTGCCTAGCAAG-CTTTGTG-CTGATGT
1 TATCGGGCTTTATGCCTAGCAGGCCTTCGTGTCAG-TGT
* * * * * * * *
21936436 TATCAGGCTATGTGCCTATCAGG-CTTTGTGCCGGTGA
1 TATCGGGCTTTATGCCTAGCAGGCCTTCGTGTCAGTGT
* * * * * *
21936473 TATCAGGCTTTATGCATAGTAGGCCTTCATTTCGGTGT
1 TATCGGGCTTTATGCCTAGCAGGCCTTCGTGTCAGTGT
* *
21936511 TATTGGGCTTTATGCCTAGCAGGCCTTTGTGTCAGTGT
1 TATCGGGCTTTATGCCTAGCAGGCCTTCGTGTCAGTGT
* * *
21936549 TATCGAGCTTTATGCCTAGCAAGCCTTCGTGCCTA-TGT
1 TATCGGGCTTTATGCCTAGCAGGCCTTCGTGTC-AGTGT
* *
21936587 TATCGGGCTTTATGCCTAGCAGGCCTTCGTGCCGGTGT
1 TATCGGGCTTTATGCCTAGCAGGCCTTCGTGTCAGTGT
* * * * * *
21936625 TATCGAGCTATGTGCCTAGCAAG-CTTTGTG-CCGATGT
1 TATCGGGCTTTATGCCTAGCAGGCCTTCGTGTCAG-TGT
* * * * *
21936662 TATTGGACTTTATGCCTAGCAAGCCATCGTGCCAGTGT
1 TATCGGGCTTTATGCCTAGCAGGCCTTCGTGTCAGTGT
21936700 T
1 T
21936701 CAACGGGATA
Statistics
Matches: 212, Mismatches: 46, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
36 2 0.01
37 73 0.34
38 134 0.63
39 3 0.01
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (38 bp):
TATCGGGCTTTATGCCTAGCAGGCCTTCGTGTCAGTGT
Found at i:21936575 original size:76 final size:76
Alignment explanation
Indices: 21936411--21936700 Score: 291
Period size: 76 Copynumber: 3.9 Consensus size: 76
21936401 TCGGGCTGTG
* * ** * * * * * *
21936411 TGCCTAGCAAG-CTTTGTGCTGATGTTATCAGGCTATGTGCCTATCAGG-CTTTGTGCCGGTGAT
1 TGCCTAGCAAGCCTTCGTGCCGATGTTATTGGGCTTTATGCCTAGCAGGCCTTCGTGCCAGTGTT
21936474 ATC-AGGCTTTA
66 ATCGA-GCTTTA
* * * * ** * * *
21936485 TGCATAGTAGGCCTTCATTTCGGTGTTATTGGGCTTTATGCCTAGCAGGCCTTTGTGTCAGTGTT
1 TGCCTAGCAAGCCTTCGTGCCGATGTTATTGGGCTTTATGCCTAGCAGGCCTTCGTGCCAGTGTT
21936550 ATCGAGCTTTA
66 ATCGAGCTTTA
* * *
21936561 TGCCTAGCAAGCCTTCGTGCCTATGTTATCGGGCTTTATGCCTAGCAGGCCTTCGTGCCGGTGTT
1 TGCCTAGCAAGCCTTCGTGCCGATGTTATTGGGCTTTATGCCTAGCAGGCCTTCGTGCCAGTGTT
* *
21936626 ATCGAGCTATG
66 ATCGAGCTTTA
* * * *
21936637 TGCCTAGCAAG-CTTTGTGCCGATGTTATTGGACTTTATGCCTAGCAAGCCATCGTGCCAGTGTT
1 TGCCTAGCAAGCCTTCGTGCCGATGTTATTGGGCTTTATGCCTAGCAGGCCTTCGTGCCAGTGTT
21936701 CAACGGGATA
Statistics
Matches: 175, Mismatches: 38, Indels: 5
0.80 0.17 0.02
Matches are distributed among these distances:
74 8 0.05
75 72 0.41
76 94 0.54
77 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.27, T:0.35
Consensus pattern (76 bp):
TGCCTAGCAAGCCTTCGTGCCGATGTTATTGGGCTTTATGCCTAGCAGGCCTTCGTGCCAGTGTT
ATCGAGCTTTA
Found at i:21936611 original size:114 final size:113
Alignment explanation
Indices: 21936411--21936694 Score: 288
Period size: 114 Copynumber: 2.5 Consensus size: 113
21936401 TCGGGCTGTG
* * * * * * * ** *
21936411 TGCCTAGCAAGCTTTGTGCTGATGTTATCAGG-CTATGTGCCTATC-AGGCTTTGTGCCGGTGAT
1 TGCCTAGCAAGCTTTGTGCAGATGTTATC-GGACTTTATGCCTAGCAAGCCATCGTGCCTATGTT
* ** * * *
21936474 ATCAGGCTTTATGCATAGTAGGCCTTCATTTCGGTGTTATTGGGCTTTA
65 ATCAGGCTTTATGCATAGCAGGCCTTCATGCCGGTGTTATCGAGCTATA
* *
21936523 TGCCTAGCAGGCCTTTGTGTCAG-TGTTATC-GAGCTTTATGCCTAGCAAGCCTTCGTGCCTATG
1 TGCCTAGCAAG-CTTTGTG-CAGATGTTATCGGA-CTTTATGCCTAGCAAGCCATCGTGCCTATG
* * * *
21936586 TTATCGGGCTTTATGCCTAGCAGGCCTTCGTGCCGGTGTTATCGAGCTATG
63 TTATCAGGCTTTATGCATAGCAGGCCTTCATGCCGGTGTTATCGAGCTATA
* *
21936637 TGCCTAGCAAGCTTTGTGCCGATGTTATTGGACTTTATGCCTAGCAAGCCATCGTGCC
1 TGCCTAGCAAGCTTTGTGCAGATGTTATCGGACTTTATGCCTAGCAAGCCATCGTGCC
21936695 AGTGTTCAAC
Statistics
Matches: 141, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
111 1 0.01
112 12 0.09
113 62 0.44
114 66 0.47
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.35
Consensus pattern (113 bp):
TGCCTAGCAAGCTTTGTGCAGATGTTATCGGACTTTATGCCTAGCAAGCCATCGTGCCTATGTTA
TCAGGCTTTATGCATAGCAGGCCTTCATGCCGGTGTTATCGAGCTATA
Found at i:21937244 original size:12 final size:12
Alignment explanation
Indices: 21937227--21937254 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
21937217 TCAATAAGTT
21937227 ACACGGGTAATG
1 ACACGGGTAATG
21937239 ACACGGGTAATG
1 ACACGGGTAATG
21937251 ACAC
1 ACAC
21937255 AGGCTGGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.21, G:0.29, T:0.14
Consensus pattern (12 bp):
ACACGGGTAATG
Found at i:21939818 original size:17 final size:18
Alignment explanation
Indices: 21939772--21939820 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 18
21939762 CTTTCCCATC
*
21939772 AATTTTTTTTATTGTTCT
1 AATTTTATTTATTGTTCT
21939790 AATATTTGATTTATTGTTCT
1 AAT-TTT-ATTTATTGTTCT
21939810 -ATTTTATTTAT
1 AATTTTATTTAT
21939821 ATTAGTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.21
18 6 0.21
19 5 0.18
20 11 0.39
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.67
Consensus pattern (18 bp):
AATTTTATTTATTGTTCT
Found at i:21940305 original size:27 final size:27
Alignment explanation
Indices: 21940267--21940327 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
21940257 CAAAATTTTC
*
21940267 ATTTATACCATAATTTCCATAAATTTA
1 ATTTATACCATAATTTCCACAAATTTA
* *
21940294 ATTTATATCATAATTTTCACAAATTTA
1 ATTTATACCATAATTTCCACAAATTTA
21940321 ATTTATA
1 ATTTATA
21940328 AACCCCTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTATACCATAATTTCCACAAATTTA
Found at i:21949225 original size:275 final size:275
Alignment explanation
Indices: 21948753--21949259 Score: 643
Period size: 274 Copynumber: 1.8 Consensus size: 275
21948743 TTATCATATT
* * *
21948753 TATAAATAAGCATTCTGATTCTTTTAAAACACTTCTGTTAAATGAATTTATATAATAATTTACAA
1 TATAAAAAAGAATTCTGATTCTTTTAAAACACTTCTGTTAAATGAATTTATATAATAATATACAA
* * * * **
21948818 AAGGTTAAAATTTATATAGAATTATTTTATCTTTAAATTATTATGTTTTATTAATTAAAAAAGTA
66 AAAGTTAAAATTTATATAGAATTACTCTATCTTTAAAGTATTATGTTTTATTAACCAAAAAAGTA
* * * * * *
21948883 AAAAATATTACTTTAGTTTTAAATATTAAAATTTAATTATTTATATATTAAATAACTTTATATTT
131 AAAAATATTACTTTAGTATTAAAAATCAAAATTTAATTATTTATATAATAAATAACGTTACATTT
* * *
21948948 CATGTGTATAATTTTATAAATAATAAA-TTATATAATTTATTATATAAATGGTTTTTATTATTGA
196 CATATATATAATTTTATAAACAATAAATTTATATAATTTATTATATAAATGGTTTTTATTATTGA
21949012 CTAGATTCATCAAGG
261 CTAGATTCATCAAGG
* * * * *
21949027 TATAAAAAAGAATTTTGATTCTTTTAAAACACTTTTGTTTAATGCATTTATATGATAATAAATA-
1 TATAAAAAAGAATTCTGATTCTTTTAAAACACTTCTGTTAAATGAATTTATATAATAAT--ATAC
*
21949091 AAAAAGTT-AAATTTCTATCA-AATTACTCTAT-TTTAAAGTATT-T-TTTTCATTAACCAAAAA
64 AAAAAGTTAAAATTTATAT-AGAATTACTCTATCTTTAAAGTATTATGTTTT-ATTAACCAAAAA
* *
21949151 AGTAAAAAAATAATTTTACTTTAG-ATTAAAAATCAAATTTTAATTATTTATATAATAAATATCG
127 AGT-AAAAAAT-A--TTACTTTAGTATTAAAAATCAAAATTTAATTATTTATATAATAAATAACG
*
21949215 TTACATTTCATATATATGATTTTATAAACAATAAATTTATATAAT
188 TTACATTTCATATATATAATTTTATAAACAATAAATTTATATAAT
21949260 ATAACATAAC
Statistics
Matches: 197, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
271 4 0.02
272 14 0.07
273 17 0.09
274 71 0.36
275 71 0.36
276 20 0.10
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (275 bp):
TATAAAAAAGAATTCTGATTCTTTTAAAACACTTCTGTTAAATGAATTTATATAATAATATACAA
AAAGTTAAAATTTATATAGAATTACTCTATCTTTAAAGTATTATGTTTTATTAACCAAAAAAGTA
AAAAATATTACTTTAGTATTAAAAATCAAAATTTAATTATTTATATAATAAATAACGTTACATTT
CATATATATAATTTTATAAACAATAAATTTATATAATTTATTATATAAATGGTTTTTATTATTGA
CTAGATTCATCAAGG
Found at i:21949563 original size:47 final size:48
Alignment explanation
Indices: 21949478--21949569 Score: 168
Period size: 47 Copynumber: 1.9 Consensus size: 48
21949468 TTTATTAGTT
21949478 TTTATTTTGAATAATATTACTTTGCATTAATTACATTATTAAAAAGTA
1 TTTATTTTGAATAATATTACTTTGCATTAATTACATTATTAAAAAGTA
*
21949526 TTTATTTTGAATAATATTA-TTTGCATTAATTACATTATTGAAAA
1 TTTATTTTGAATAATATTACTTTGCATTAATTACATTATTAAAAA
21949570 TTATATCATC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 24 0.56
48 19 0.44
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (48 bp):
TTTATTTTGAATAATATTACTTTGCATTAATTACATTATTAAAAAGTA
Found at i:21956056 original size:42 final size:42
Alignment explanation
Indices: 21956009--21956155 Score: 168
Period size: 42 Copynumber: 3.5 Consensus size: 42
21955999 CATACAACTC
* * * * *
21956009 GCATGCATTGCTTGCCTACGTGGAGCTCGTAGTTCACAACTT
1 GCATGCACTGCTCGCCTACATGGAGCTCGCAGTTCACAGCTT
* * * * * *
21956051 ACATGCACTACTCACCTACATGGAGCTCACAGTCCACAGCTC
1 GCATGCACTGCTCGCCTACATGGAGCTCGCAGTTCACAGCTT
* *
21956093 GCATGCATTGCTCGCCTACATGGAGCTCGCAGTTCATAGCTT
1 GCATGCACTGCTCGCCTACATGGAGCTCGCAGTTCACAGCTT
*
21956135 GCATGCACTGCTTGCCTACAT
1 GCATGCACTGCTCGCCTACAT
21956156 ACAACTCACA
Statistics
Matches: 84, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (42 bp):
GCATGCACTGCTCGCCTACATGGAGCTCGCAGTTCACAGCTT
Found at i:21956164 original size:84 final size:84
Alignment explanation
Indices: 21956006--21956165 Score: 212
Period size: 84 Copynumber: 1.9 Consensus size: 84
21955996 CTACATACAA
* * *
21956006 CTCGCATGCATTGCTTGCCTACGTGGAGCTCGTAGTTCACAACTTACATGCACTACTCACCTACA
1 CTCGCATGCATTGCTCGCCTACATGGAGCTCGCAGTTCACAACTTACATGCACTACTCACCTACA
** *
21956071 TGGAGCTCACAGTCCACAG
66 TACAACTCACAGTCCACAG
* * * * **
21956090 CTCGCATGCATTGCTCGCCTACATGGAGCTCGCAGTTCATAGCTTGCATGCACTGCTTGCCTACA
1 CTCGCATGCATTGCTCGCCTACATGGAGCTCGCAGTTCACAACTTACATGCACTACTCACCTACA
21956155 TACAACTCACA
66 TACAACTCACA
21956166 TGCATGGAGA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
84 64 1.00
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.26
Consensus pattern (84 bp):
CTCGCATGCATTGCTCGCCTACATGGAGCTCGCAGTTCACAACTTACATGCACTACTCACCTACA
TACAACTCACAGTCCACAG
Found at i:21968376 original size:20 final size:21
Alignment explanation
Indices: 21968346--21968384 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
21968336 AAAAAACACA
21968346 GCACTCAAAAAAGAAAAATAT
1 GCACTCAAAAAAGAAAAATAT
21968367 GCACTC-AAAAAGAAAAAT
1 GCACTCAAAAAAGAAAAAT
21968385 TAAATTCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.62, C:0.15, G:0.10, T:0.13
Consensus pattern (21 bp):
GCACTCAAAAAAGAAAAATAT
Found at i:21970618 original size:190 final size:190
Alignment explanation
Indices: 21970295--21970649 Score: 620
Period size: 190 Copynumber: 1.9 Consensus size: 190
21970285 ATAGGAAAGT
* * *
21970295 GAATCTTGATTTTCTTTTTCAGCCATGTGCGCATCTAAGGCCTTGGTAACGAAGTCTTGGATGGT
1 GAATCTTGATTTTCTTTTTCAACCATGTGCACATCTAAGGCCTTAGTAACGAAGTCTTGGATGGT
* * *
21970360 CCCGTTCAATCTTGCTCGAATTTGCTTGGCCTTTGACCTCATTATTGGGCCTTGAGAAAATTTGA
66 CCCGTTCAATCTTACTCGAATTTGCTTGGCATTTGACCTCATTATTAGGCCTTGAGAAAATTTGA
21970425 TCCCATCACATTCATAAGCTTGAATTTGGGCCTTGTGATTTGTATCATTCAAATGAAACC
131 TCCCATCACATTCATAAGCTTGAATTTGGGCCTTGTGATTTGTATCATTCAAATGAAACC
*
21970485 GAATCTTGATTTTCTTTTTCAACCATGTGCACATCTAGGGCCTTAGTAACGAAGTCTTGGATGGT
1 GAATCTTGATTTTCTTTTTCAACCATGTGCACATCTAAGGCCTTAGTAACGAAGTCTTGGATGGT
* **
21970550 CCCGTTCAATCTTACTCGAATTTGCTTGGCATTTTACCTCATTATTAGGCCTTGAGAAGCTTTGA
66 CCCGTTCAATCTTACTCGAATTTGCTTGGCATTTGACCTCATTATTAGGCCTTGAGAAAATTTGA
21970615 TCCCATCACATTCATAAGCTTGAATTTGGGCCTTG
131 TCCCATCACATTCATAAGCTTGAATTTGGGCCTTG
21970650 CGACTCGTAT
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
190 155 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (190 bp):
GAATCTTGATTTTCTTTTTCAACCATGTGCACATCTAAGGCCTTAGTAACGAAGTCTTGGATGGT
CCCGTTCAATCTTACTCGAATTTGCTTGGCATTTGACCTCATTATTAGGCCTTGAGAAAATTTGA
TCCCATCACATTCATAAGCTTGAATTTGGGCCTTGTGATTTGTATCATTCAAATGAAACC
Found at i:21973463 original size:102 final size:102
Alignment explanation
Indices: 21973273--21974613 Score: 1502
Period size: 101 Copynumber: 13.3 Consensus size: 102
21973263 AGTGAAACGA
* * * *
21973273 CAAATCCTATATCCCTGAAATTGCAGTGGATCAGATTAAAAC-AAAAGTAGTAGATCTCAATCTC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCTC
* * *
21973337 CTTGAAGTTGTAGTGGAATGGAGTGAAGCTACAACAC
66 CCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACAC
* * * *
21973374 CAAATCCTATATCCCTAAAGTTACAATGGATCAGATTAAAAATAACAGTAGCAAATCTCAATCTC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCTC
* * *
21973439 CCTGAAGTTACAATGGAATAGAGTGAAGTTACAACAC
66 CCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACAC
* * * *
21973476 CAAATCC--TATCTCTGAAGTTGCAGTGGATCGGATTAAAACTAA-AGTAACGAATCTCAATCTC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCTC
* *
21973538 CCTGAAGTTGCAGTGGAATAGAGTGAACTTACAACAC
66 CCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACAC
** *
21973575 CAAATCCTATATCGTTGAAGTTACAGTGGATCAGATTAAAACT-ACAGTAG-AGAATCTCAATCT
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCA-AATCTCAATCT
* *
21973638 CCCTGAAGTTACAG-CGAATGGAGTGAAGTTACAACAC
65 CCCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACAC
*** * * * *
21973675 CAAATCCTATATCCCTGAAGTTATTGTGGATAAAATTAAAACTAACAGTAACAGATCTCAATCTC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCTC
* *
21973740 CTTGAAGTTGTAGTGGAATGGAGTGAAGTTACAACAC
66 CCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACAC
* * * * *
21973777 CAAATCCTATATCCCTGAAGATGCAGTGGATTAGATTAAAACTAA-AGTAACGAATCTTAATCTC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCTC
* *
21973841 CCTGAAGTTGCAATGGAATGGAGTGAACTTACAACAC
66 CCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACAC
* ** ** *
21973878 CAAATCCTATATCCCTGAAGTTACAGTGGATTGGGCTAAAACTAACAGTAGCGAATCTCAATCTC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCTC
* * * *
21973943 CTTGAAGTTGTAATGGAATGGAGTGAACTTACAACAC
66 CCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACAC
* ** * *
21973980 CAAATCCTATATCCCCTGAAGTTGCAGTGGATCGGGCTAAAGCTAACAGTAGCAGATCTCAATCT
1 CAAATCCTATAT-CCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCT
*
21974045 CCCT-AGAGTTGCAGTCGAATGGAGTGAAGTTACAACAC
65 CCCTGA-AGTTGCAGTGGAATGGAGTGAAGTTACAACAC
* * ** * * **
21974083 CAAATCCTATATCCTTGAAGTTACAGTGGATTGGATTAAAACTAACTGTAGTAGTTCTCAATCTC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCTC
* * *
21974148 CTTGAAGTTACAGTGGAATGGAGTGAAGTTACAATAC
66 CCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACAC
* * * ** *
21974185 CAAATCCTATATCTCTGAAGTTGTAGTGGATTAGATTAAAACT-ACAGTAGCGGATCTCAATCTT
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCTC
* * ** *
21974249 CTTGAATTTTTAGTGTAATGGAGTGAAGTTACAACAC
66 CCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACAC
* * * * *
21974286 CAAATCCTATATCCTTGAAGTTGCAATGGATCAGATTAAAACTAATAG-AACAGATCTCAATCTC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCTC
* *
21974350 CCAGAAGTTGTAGTGG-A---A-TGAAGTTACAACAC
66 CCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACAC
* * * * * *
21974382 CAAATCCTATATTCCTGAAGTTACAGTAGATCACATTAAAACTAACAGTAGCGAATCTTAATCTC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCTC
* * *
21974447 CCTGAAGTTGTAGTGGAATGGAGTAAAGCTACAACAC
66 CCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACAC
* * * * * **
21974484 CAAATCCCATATACTTGAAGTTGCAG-GGATCGGATTAAAACT-GCAGTAGCAAATCTTTATCTC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCTC
* * *
21974547 CTCTGAAGTTGCAGTAGAGCAA--GA-TGAAGCTACCACAT
66 C-CTGAAGTTGCAGT-G-G-AATGGAGTGAAGTTACAACAC
*
21974585 CAAATCTTATA-CCCTTGAAGTTGCAGTGG
1 CAAATCCTATATCCC-TGAAGTTGCAGTGG
21974614 GTTGGATTGA
Statistics
Matches: 1062, Mismatches: 153, Indels: 49
0.84 0.12 0.04
Matches are distributed among these distances:
96 55 0.05
97 28 0.03
98 1 0.00
99 58 0.05
100 109 0.10
101 378 0.36
102 339 0.32
103 92 0.09
104 2 0.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (102 bp):
CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCAAATCTCAATCTC
CCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACAC
Found at i:21974379 original size:504 final size:501
Alignment explanation
Indices: 21973273--21974631 Score: 1709
Period size: 504 Copynumber: 2.7 Consensus size: 501
21973263 AGTGAAACGA
* * **
21973273 CAAATCCTATATCCCTGAAATTGCAGTGGATCAGATTAAAACAAAAGTAGTAGATCTCAATCTCC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAAAGTAACAGATCTCAATCTCC
* * * *
21973338 TTGAAGTTGTAGTGGAATGGAGTGAAGCTACAACACCAAATCCTATATCCCTAAAGTTACAATGG
66 CTGAAGTTGTAGTGG-A---A-TGAAGTTACAACACCAAATCCTATATCCCTGAAGTTACAGTGG
* * ** * *
21973403 ATCAGATTAAAAATAACAGTAGCAAATCTCAATCTCCCTGAAGTTACAATGGAATAGAGTGAAGT
126 ATCAGATTAAAACTAACAGTAGCGAATCTCAATCTCCCTGAAGTTGTAATGGAATGGAGTGAACT
* *
21973468 TACAACACCAAATCC-TATCTCTGAAGTTGCAGTGGATCGGATTAAAACTAA-AGTAAC-GAATC
191 TACAACACCAAATCCATATCCCTGAAGTTGCAGTGGATCGGATTAAAACTAACAGTAGCAG-ATC
* * * *
21973530 TCAATCTCCCTGAAGTTGCAGTGGAATAGAGTGAACTTACAACACCAAATCCTATATCGTTGAAG
255 TCAATCTCCCTGAAGTTGCAGTAGAATGGAGTGAAGTTACAACACCAAATCCTATATCCTTGAAG
**
21973595 TTACAGTGGATCAGATTAAAACTACAGTAGAGAATCTCAATCTCCCTGAAGTTACAGCGAATGGA
320 TTACAGTGGATTGGATTAAAACTACAGTAGAGAATCTCAATCTCCCTGAAGTTACAGCGAATGGA
*
21973660 GTGAAGTTACAACACCAAATCCTATATCCCTGAAGTTATTGTGGATAAAATTAAAACTAACAGTA
385 GTGAAGTTACAACACCAAATCCTATATCCCTGAAGTTATAGTGGATAAAATTAAAACTAACAGTA
21973725 ACAGATCTCAATCTCCTTGAAGTTGTAGTGGAATGGAGTGAAGTTACAACAC
450 ACAGATCTCAATCTCCTTGAAGTTGTAGTGGAATGGAGTGAAGTTACAACAC
* * *
21973777 CAAATCCTATATCCCTGAAGATGCAGTGGATTAGATTAAAACTAAAGTAAC-GAATCTTAATCTC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAAAGTAACAG-ATCTCAATCTC
* * *
21973841 CCTGAAGTTGCAATGGAATGGAGTGAACTTACAACACCAAATCCTATATCCCTGAAGTTACAGTG
65 CCTGAAGTTG---T--AGTGGAATGAAGTTACAACACCAAATCCTATATCCCTGAAGTTACAGTG
** ** *
21973906 GATTGGGCTAAAACTAACAGTAGCGAATCTCAATCTCCTTGAAGTTGTAATGGAATGGAGTGAAC
125 GATCAGATTAAAACTAACAGTAGCGAATCTCAATCTCCCTGAAGTTGTAATGGAATGGAGTGAAC
** *
21973971 TTACAACACCAAATCCTATATCCCCTGAAGTTGCAGTGGATCGGGCTAAAGCTAACAGTAGCAGA
190 TTACAACACCAAATCC-ATAT-CCCTGAAGTTGCAGTGGATCGGATTAAAACTAACAGTAGCAGA
*
21974036 TCTCAATCTCCCT-AGAGTTGCAGTCGAATGGAGTGAAGTTACAACACCAAATCCTATATCCTTG
253 TCTCAATCTCCCTGA-AGTTGCAGTAGAATGGAGTGAAGTTACAACACCAAATCCTATATCCTTG
* * * *
21974100 AAGTTACAGTGGATTGGATTAAAACTAACTGTAGTAG-TTCTCAATCTCCTTGAAGTTACAGTGG
317 AAGTTACAGTGGATTGGATTAAAACT-ACAGTAG-AGAATCTCAATCTCCCTGAAGTTACAG-CG
* * * * *
21974164 AATGGAGTGAAGTTACAATACCAAATCCTATATCTCTGAAGTTGTAGTGGATTAGATTAAAACT-
379 AATGGAGTGAAGTTACAACACCAAATCCTATATCCCTGAAGTTATAGTGGATAAAATTAAAACTA
* * * * * *
21974228 ACAGTAGCGGATCTCAATCTTCTTGAATTTTTAGTGTAATGGAGTGAAGTTACAACAC
444 ACAGTAACAGATCTCAATCTCCTTGAAGTTGTAGTGGAATGGAGTGAAGTTACAACAC
* *
21974286 CAAATCCTATATCCTTGAAGTTGCAATGGATCAGATTAAAACTAATAG-AACAGATCTCAATCTC
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAA-AGTAACAGATCTCAATCTC
* * *
21974350 CCAGAAGTTGTAGTGGAATGAAGTTACAACACCAAATCCTATATTCCTGAAGTTACAGTAGATCA
65 CCTGAAGTTGTAGTGGAATGAAGTTACAACACCAAATCCTATATCCCTGAAGTTACAGTGGATCA
* * * *
21974415 CATTAAAACTAACAGTAGCGAATCTTAATCTCCCTGAAGTTGTAGTGGAATGGAGTAAAGC-TAC
130 GATTAAAACTAACAGTAGCGAATCTCAATCTCCCTGAAGTTGTAATGGAATGGAGTGAA-CTTAC
* * * * **
21974479 AACACCAAATCCCATATACTTGAAGTTGCAG-GGATCGGATTAAAACT-GCAGTAGCAAATCTTT
194 AACACCAAAT-CCATATCCCTGAAGTTGCAGTGGATCGGATTAAAACTAACAGTAGCAGATCTCA
* * * * * *
21974542 ATCTCCTCTGAAGTTGCAGTAG-A-GCAAGATGAAGCTACCACATCAAATCTTATACCCTTGAAG
258 ATCTCC-CTGAAGTTGCAGTAGAATG-GAG-TGAAGTTACAACACCAAATCCTATATCCTTGAAG
* * * *
21974605 TTGCAGTGGGTTGGATTGAAGCTACAG
320 TTACAGTGGATTGGATTAAAACTACAG
21974632 AAGCAAACCT
Statistics
Matches: 739, Mismatches: 93, Indels: 49
0.84 0.11 0.06
Matches are distributed among these distances:
500 1 0.00
501 24 0.03
502 73 0.10
503 14 0.02
504 288 0.39
505 3 0.00
506 4 0.01
507 31 0.04
508 89 0.12
509 148 0.20
510 64 0.09
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (501 bp):
CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAAAGTAACAGATCTCAATCTCC
CTGAAGTTGTAGTGGAATGAAGTTACAACACCAAATCCTATATCCCTGAAGTTACAGTGGATCAG
ATTAAAACTAACAGTAGCGAATCTCAATCTCCCTGAAGTTGTAATGGAATGGAGTGAACTTACAA
CACCAAATCCATATCCCTGAAGTTGCAGTGGATCGGATTAAAACTAACAGTAGCAGATCTCAATC
TCCCTGAAGTTGCAGTAGAATGGAGTGAAGTTACAACACCAAATCCTATATCCTTGAAGTTACAG
TGGATTGGATTAAAACTACAGTAGAGAATCTCAATCTCCCTGAAGTTACAGCGAATGGAGTGAAG
TTACAACACCAAATCCTATATCCCTGAAGTTATAGTGGATAAAATTAAAACTAACAGTAACAGAT
CTCAATCTCCTTGAAGTTGTAGTGGAATGGAGTGAAGTTACAACAC
Found at i:21986602 original size:16 final size:17
Alignment explanation
Indices: 21986581--21986619 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
21986571 CATGCATCTT
21986581 ATTTTA-TTATCATTGC
1 ATTTTAGTTATCATTGC
* *
21986597 ATTTTAGTTGTCGTTGC
1 ATTTTAGTTATCATTGC
21986614 ATTTTA
1 ATTTTA
21986620 CTTGTTAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.21, C:0.10, G:0.13, T:0.56
Consensus pattern (17 bp):
ATTTTAGTTATCATTGC
Found at i:22000328 original size:17 final size:17
Alignment explanation
Indices: 22000302--22000334 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22000292 TTAGCAAGAT
*
22000302 TCCATTTATATATATAA
1 TCCATATATATATATAA
22000319 TCCATATATATATATA
1 TCCATATATATATATA
22000335 CCTATAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
TCCATATATATATATAA
Found at i:22000367 original size:18 final size:18
Alignment explanation
Indices: 22000344--22000378 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22000334 ACCTATAATT
*
22000344 TCAAATTTATCAACTATC
1 TCAAATTAATCAACTATC
22000362 TCAAATTAATCAACTAT
1 TCAAATTAATCAACTAT
22000379 AAACATAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (18 bp):
TCAAATTAATCAACTATC
Found at i:22000683 original size:82 final size:82
Alignment explanation
Indices: 22000552--22000757 Score: 270
Period size: 82 Copynumber: 2.5 Consensus size: 82
22000542 CGGCAGTATT
* * ** * * * * *
22000552 AATAA-TGAGCCCAACTCTAGTTGGATTAACCAACAATTATCCCGACAATTCCTGGCACCTAGTG
1 AATAAGTGAGCCTAGCTCTAGTTGGATTAACCAATGATTTTGCCGTCAATTCCTGGCACCCACTG
22000616 CCTAGCAGATAAACCGC
66 CCTAGCAGATAAACCGC
** * * *
22000633 AATAAGTGAGCCTAGCTCTAGTTGTTTTATCCAATGATTTTGCCGTCAATTCTTGGTACCCACTG
1 AATAAGTGAGCCTAGCTCTAGTTGGATTAACCAATGATTTTGCCGTCAATTCCTGGCACCCACTG
*
22000698 CCTAGTAGATAAACCGC
66 CCTAGCAGATAAACCGC
22000715 AATAAGTGAGCCTAGCTCTAGTTGGATTAACCAATGATTTTGC
1 AATAAGTGAGCCTAGCTCTAGTTGGATTAACCAATGATTTTGC
22000758 GCCCAACACT
Statistics
Matches: 106, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 5 0.05
82 101 0.95
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (82 bp):
AATAAGTGAGCCTAGCTCTAGTTGGATTAACCAATGATTTTGCCGTCAATTCCTGGCACCCACTG
CCTAGCAGATAAACCGC
Found at i:22002263 original size:18 final size:18
Alignment explanation
Indices: 22002240--22002286 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
22002230 ATACAACTAC
*
22002240 AATGAAAATGTACTAACA
1 AATGAAAATGCACTAACA
* *
22002258 AATG-AAATGCAGTGACA
1 AATGAAAATGCACTAACA
22002275 AATGAAAATGCA
1 AATGAAAATGCA
22002287 ATGACAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (18 bp):
AATGAAAATGCACTAACA
Found at i:22002291 original size:18 final size:18
Alignment explanation
Indices: 22002240--22002293 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
22002230 ATACAACTAC
* * *
22002240 AATGAAAATGTACTAACA
1 AATGAAAATGCAATGACA
*
22002258 AATG-AAATGCAGTGACA
1 AATGAAAATGCAATGACA
22002275 AATGAAAATGCAATGACA
1 AATGAAAATGCAATGACA
22002293 A
1 A
22002294 CTAAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.19
Consensus pattern (18 bp):
AATGAAAATGCAATGACA
Found at i:22013504 original size:8 final size:9
Alignment explanation
Indices: 22013472--22013514 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
22013462 TTTTAATTCA
22013472 ATTTTTTTC
1 ATTTTTTTC
22013481 AATTTTTTTC
1 -ATTTTTTTC
22013491 AATTTTTTTC
1 -ATTTTTTTC
22013501 -TTTTTTTC
1 ATTTTTTTC
22013509 -TTTTTT
1 ATTTTTT
22013515 CAAACAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 14 0.42
10 19 0.58
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:22013514 original size:10 final size:10
Alignment explanation
Indices: 22013468--22013508 Score: 68
Period size: 10 Copynumber: 4.3 Consensus size: 10
22013458 CTTTTTTTAA
22013468 TTCAATTTTT
1 TTCAATTTTT
22013478 TTCAATTTTT
1 TTCAATTTTT
22013488 TTCAATTTTT
1 TTCAATTTTT
22013498 TTC--TTTTT
1 TTCAATTTTT
22013506 TTC
1 TTC
22013509 TTTTTTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 8 0.26
10 23 0.74
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (10 bp):
TTCAATTTTT
Found at i:22014950 original size:215 final size:216
Alignment explanation
Indices: 22014579--22015010 Score: 697
Period size: 215 Copynumber: 2.0 Consensus size: 216
22014569 GGTGGGGCTT
* **
22014579 TGCGGTGCATCATCAGAATGAGAGATACGAAAATGTTGACGAATCTGATGCAACAGTGTGTTGAT
1 TGCGGTGCATCATCAAAATGAGAGATACGAAAATGTTGACGAATCTGATGCAACAGCATGTTGAT
* * *
22014644 GCTCCCATGTTGTCCTGATAGATCATGATTGCGCTCGAGACGATTGAGCTTCTCATTCTGCTGTA
66 GCTCCCAAGTTGTCCTGATAGATCATGATTGCGCTCGAGACGATCGAGCTTCTCATTCTGCTGCA
22014709 ACTATGTACGATAAATATCGTCGAGTGTGATCGAATGCGTAGATGCAG-TAGAAGGCTGTGGAGG
131 ACTATGTACGATAAATATCGTCGAGTGTGATCGAATGCGTAGATGCAGATAGAAGGCTGTGGAGG
* *
22014773 AGTAGGACTAGGAATTGGTCG
196 AGTAGGACTAAGAATGGGTCG
* * *
22014794 TGCGGTGCATCATCAAAATGAGAGATATGAAGATGTTGACGAATTTGATGCAACAGCATGTTGAT
1 TGCGGTGCATCATCAAAATGAGAGATACGAAAATGTTGACGAATCTGATGCAACAGCATGTTGAT
* *
22014859 GCTCCCAAGTTGTCCTGACT-GATCATGATTGTGCTCGAGATGATCGAGCTTCTCATTCTGCTGC
66 GCTCCCAAGTTGTCCTGA-TAGATCATGATTGCGCTCGAGACGATCGAGCTTCTCATTCTGCTGC
*
22014923 AACTATGTACGATAAATATCGTCGAGTGTGATTGAATGCGTAGATGCAGCAATAGAAGGCTGTGG
130 AACTATGTACGATAAATATCGTCGAGTGTGATCGAATGCGTAGATGCAG--ATAGAAGGCTGTGG
22014988 AGGAGTAGGACTAAGAATGGGTC
193 AGGAGTAGGACTAAGAATGGGTC
22015011 AAGGTGACGG
Statistics
Matches: 199, Mismatches: 14, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
215 164 0.82
216 1 0.01
218 34 0.17
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (216 bp):
TGCGGTGCATCATCAAAATGAGAGATACGAAAATGTTGACGAATCTGATGCAACAGCATGTTGAT
GCTCCCAAGTTGTCCTGATAGATCATGATTGCGCTCGAGACGATCGAGCTTCTCATTCTGCTGCA
ACTATGTACGATAAATATCGTCGAGTGTGATCGAATGCGTAGATGCAGATAGAAGGCTGTGGAGG
AGTAGGACTAAGAATGGGTCG
Found at i:22016299 original size:3 final size:3
Alignment explanation
Indices: 22016291--22016328 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22016281 GAAATTAGAA
22016291 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22016329 GAATGAATCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22017953 original size:42 final size:42
Alignment explanation
Indices: 22017848--22018027 Score: 229
Period size: 42 Copynumber: 4.3 Consensus size: 42
22017838 TGATGTATAA
* * *
22017848 AAAGGAAGACTCATGTCTCGGGTTGAGCATGAGAATT-TG-TAT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAG-ATTATGAT-T
22017890 AAATGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
1 AAA-GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
*
22017933 AAAGGAAGACTCATGTCTCGAGAAGAGAATGAGATTATGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
* * * * *
22017975 GAAGGAAGACTCATGTCTAGGGATGAGAATGAGAATATAATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
*
22018017 TAAGGAAGACT
1 AAAGGAAGACT
22018028 TATGACTGGA
Statistics
Matches: 124, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
42 90 0.73
43 33 0.27
44 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.26
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
Found at i:22022681 original size:52 final size:52
Alignment explanation
Indices: 22022600--22022895 Score: 439
Period size: 52 Copynumber: 5.7 Consensus size: 52
22022590 AAATGAAAAG
* * *
22022600 GGTCCGATGACTATGTGTCATCATGAGTATATGAATCTTTTACAGATTATGA
1 GGTCCGATGGCTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGA
* *
22022652 GGTCCGATGGCTATGTGTCATCATAAGTATATGAATCCTTTATGGATTATGA
1 GGTCCGATGGCTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGA
* *
22022704 GGTCTGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
1 GGTCCGATGGCTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGA
* *
22022756 GGTTCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
1 GGTCCGATGGCTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGA
* * * *
22022808 GGTCCGATGGCTACGTATCATCATGAGTATATGAGTCCTTTACGGAATATGA
1 GGTCCGATGGCTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGA
* ** *
22022860 GGTCAGGCGGCTATGTGTCATCGTGAGTATATGAAT
1 GGTCCGATGGCTATGTGTCATCATGAGTATATGAAT
22022896 GAAATGAAAT
Statistics
Matches: 220, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 220 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (52 bp):
GGTCCGATGGCTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGA
Found at i:22024671 original size:42 final size:42
Alignment explanation
Indices: 22024612--22024691 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
22024602 ATTTTAAAGA
22024612 CCATGAATTGATGCTTGTTGATTTTTCAAAA-TTGTCTCGAGG
1 CCATGAATTGATGCTTGTTGATTTTT-AAAAGTTGTCTCGAGG
*
22024654 CCATGAATTGATGCTTGTTGGTTTTTAAAAGTTGTCTC
1 CCATGAATTGATGCTTGTTGATTTTTAAAAGTTGTCTC
22024692 ATTGTTTCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
41 4 0.11
42 32 0.89
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (42 bp):
CCATGAATTGATGCTTGTTGATTTTTAAAAGTTGTCTCGAGG
Found at i:22027377 original size:26 final size:26
Alignment explanation
Indices: 22027314--22027378 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
22027304 GATTTAAAGA
*
22027314 TATATTGTACTGGCTCGAAAGAGCGT
1 TATACTGTACTGGCTCGAAAGAGCGT
** *
22027340 TATACTAAACTGGCTCGTAAGAGCGT
1 TATACTGTACTGGCTCGAAAGAGCGT
22027366 TATACTGTACTGG
1 TATACTGTACTGG
22027379 GAGTTATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (26 bp):
TATACTGTACTGGCTCGAAAGAGCGT
Found at i:22027416 original size:19 final size:19
Alignment explanation
Indices: 22027392--22027430 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
22027382 TTATATACTG
22027392 TATTGGCTCATAAGAGCGA
1 TATTGGCTCATAAGAGCGA
*
22027411 TATTGGCTCGTAAGAGCGA
1 TATTGGCTCATAAGAGCGA
22027430 T
1 T
22027431 TTACTGATTG
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:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (19 bp):
TATTGGCTCATAAGAGCGA
Found at i:22027513 original size:35 final size:37
Alignment explanation
Indices: 22027442--22027514 Score: 96
Period size: 35 Copynumber: 2.0 Consensus size: 37
22027432 TACTGATTGG
* * *
22027442 GCTCGTATGAGCTAAAATTTACTGGGAGACTTGAAGA
1 GCTCATATGAGCTAAAATTTACTGGGAAACTCGAAGA
*
22027479 GCTCATATGAGCT-AAA-TTATTGGGAAACTCGAAGA
1 GCTCATATGAGCTAAAATTTACTGGGAAACTCGAAGA
22027514 G
1 G
22027515 ATTGTTTGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 17 0.53
36 3 0.09
37 12 0.38
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (37 bp):
GCTCATATGAGCTAAAATTTACTGGGAAACTCGAAGA
Found at i:22035595 original size:165 final size:165
Alignment explanation
Indices: 22035321--22035655 Score: 494
Period size: 165 Copynumber: 2.0 Consensus size: 165
22035311 GTGATATAGA
*
22035321 TGGATCTGATCTAACTACAGTTTTTACAGATAAGCATAGGATATCTGACTCAGAAAAAGATGAAA
1 TGGATCTGATCTAACTACAGTTTTTACAGATAAGCACAGGATATCTGACTCAGAAAAAGATGAAA
*
22035386 CTAACGAAGTAAACAACAATGTCTCAACTAATGATTCCGGGGCTAGTCACGATCCACCGATATTA
66 CTAACGAAGTAAACAACAATGTCTCAACTAACGATTCCGGGGCTAGTCACGATCCACCGATATTA
* * *
22035451 TCGATTATAGAAAA-AGATACAAAGAACATGTTCTT
131 CCGATTACAGAAAATA-ACACAAAGAACATGTTCTT
* *
22035486 TGGATCTGATGTAAC-ATCAGTTTTTACAGATAAGCACAGGATATCTGACTCAGAAAGAGATGAA
1 TGGATCTGATCTAACTA-CAGTTTTTACAGATAAGCACAGGATATCTGACTCAGAAAAAGATGAA
* ** ** * *
22035550 ACTAACGAGGTAAACAACAATGTCTGTACTAACGATTTTGGGGCTAGTCACGATGCATCGATATT
65 ACTAACGAAGTAAACAACAATGTCTCAACTAACGATTCCGGGGCTAGTCACGATCCACCGATATT
*
22035615 ACCGATTACAGAAAATAACATAAAGAACATGTTCTT
130 ACCGATTACAGAAAATAACACAAAGAACATGTTCTT
*
22035651 CGGAT
1 TGGAT
22035656 TAATGGGACA
Statistics
Matches: 152, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
164 1 0.01
165 150 0.99
166 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (165 bp):
TGGATCTGATCTAACTACAGTTTTTACAGATAAGCACAGGATATCTGACTCAGAAAAAGATGAAA
CTAACGAAGTAAACAACAATGTCTCAACTAACGATTCCGGGGCTAGTCACGATCCACCGATATTA
CCGATTACAGAAAATAACACAAAGAACATGTTCTT
Found at i:22061868 original size:20 final size:21
Alignment explanation
Indices: 22061843--22061890 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
22061833 TTAAAAATCT
22061843 AAAAATACAAAATT-A-TTTTA
1 AAAAATA-AAAATTAATTTTTA
*
22061863 AAAAATTAAAATTTAATTTTTA
1 AAAAA-TAAAAATTAATTTTTA
22061885 AAAAAT
1 AAAAAT
22061891 TAATTAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.42
21 4 0.17
22 10 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATAAAAATTAATTTTTA
Found at i:22062423 original size:29 final size:28
Alignment explanation
Indices: 22062389--22062457 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
22062379 ATTAAACTTA
* * *
22062389 AAATTTAAAATCTAAAATATATATAAACT
1 AAATTTAAAATATAAAA-ATACATAAACC
22062418 AAATTTTTAAAA-ATAAAAATACATAAACC
1 AAA--TTTAAAATATAAAAATACATAAACC
*
22062447 AAATTTCAAAT
1 AAATTTAAAAT
22062458 TTGAAAGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
27 6 0.18
29 15 0.45
30 5 0.15
31 7 0.21
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (28 bp):
AAATTTAAAATATAAAAATACATAAACC
Found at i:22062427 original size:31 final size:29
Alignment explanation
Indices: 22062392--22062452 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
22062382 AAACTTAAAA
* * *
22062392 TTTAAAATCTAAAATATATATAAACTAAATT
1 TTTAAAA-ATAAAA-ATACATAAACCAAATT
22062423 TTTAAAAATAAAAATACATAAACCAAATT
1 TTTAAAAATAAAAATACATAAACCAAATT
22062452 T
1 T
22062453 CAAATTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 15 0.56
30 5 0.19
31 7 0.26
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.34
Consensus pattern (29 bp):
TTTAAAAATAAAAATACATAAACCAAATT
Found at i:22066049 original size:11 final size:11
Alignment explanation
Indices: 22066033--22066066 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
22066023 TATGCGTCGA
22066033 AGGACGATGCC
1 AGGACGATGCC
22066044 AGGACGATGCC
1 AGGACGATGCC
*
22066055 AGGACTATGCC
1 AGGACGATGCC
22066066 A
1 A
22066067 AAAGACCGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.29, C:0.26, G:0.32, T:0.12
Consensus pattern (11 bp):
AGGACGATGCC
Found at i:22069437 original size:30 final size:30
Alignment explanation
Indices: 22069359--22069468 Score: 96
Period size: 30 Copynumber: 3.7 Consensus size: 30
22069349 GAAAGTACAA
* *
22069359 GGTCAAA-TAAAATTTTTTGGAAAGTTTAGG
1 GGTCAAATTAGAATTTTTAGG-AAGTTTAGG
** * * *
22069389 GGTTGAATTTGAAATTTTAGGAAGGTTAGG
1 GGTCAAATTAGAATTTTTAGGAAGTTTAGG
**
22069419 GGTCAAATTAGAATTTTTAAAAAGTTTAGG
1 GGTCAAATTAGAATTTTTAGGAAGTTTAGG
* * *
22069449 GGTTAAAATATAATTTTTAG
1 GGTCAAATTAGAATTTTTAG
22069469 AAAGATTGAG
Statistics
Matches: 61, Mismatches: 18, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
30 52 0.85
31 9 0.15
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.38
Consensus pattern (30 bp):
GGTCAAATTAGAATTTTTAGGAAGTTTAGG
Found at i:22070994 original size:38 final size:37
Alignment explanation
Indices: 22070952--22071591 Score: 416
Period size: 38 Copynumber: 16.5 Consensus size: 37
22070942 CCCACGGTCA
22070952 GGGTAAGAGATTGGGTGTTTCAATCTGACCCATGATCG
1 GGGTAAGAGATTGGGTGTTTCAATCTG-CCCATGATCG
* * * **
22070990 GGGTAAGAGATTGGGTGTCTTGAATCTGCCCTTTGGTTA
1 GGGTAAGAGATTGGGTGT-TTCAATCTGCCC-ATGATCG
* * ** * *
22071029 GGGTAAAAGATTGGATACTTCAGTCTACCCCATGATCG
1 GGGTAAGAGATTGGGTGTTTCAATCT-GCCCATGATCG
* *
22071067 GGGTAAGAGATTGCGTGTTTCAATCTACCCCATGATCG
1 GGGTAAGAGATTGGGTGTTTCAATCT-GCCCATGATCG
* * * **
22071105 GGGTAAGAGATTGGGTGTCTTCAATTTGCCCTCTAATTA
1 GGGTAAGAGATTGGGTGT-TTCAATCTGCCC-ATGATCG
* * **
22071144 GGGTAAAAGATTGGATACTTCAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGGTGTTTCAATCTG-CCCATGATCG
* * * * * **
22071182 GGGTAAGAAATTGGCGTGTCTTCAATTTTCCCTCTAATTA
1 GGGTAAGAGATTGG-GTGT-TTCAATCTGCCC-ATGATCG
* * *
22071222 GGGTAAAAGATTGGATGCTTCAATCTGCCTCATGATCG
1 GGGTAAGAGATTGGGTGTTTCAATCTGCC-CATGATCG
* * * * **
22071260 GGGTAAGAGATTGGCGTATCTTGAGTCTGCCCCCTGATTA
1 GGGTAAGAGATTGG-GTGT-TTCAATCTG-CCCATGATCG
* * * *
22071300 GGGTAAAAGATTAGATGCTTCAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGGTGTTTCAATCTG-CCCATGATCG
** * **
22071338 GAATAAGAGATTGGCGTGTCTTCAATCTGCCCTCTGATTA
1 GGGTAAGAGATTGG-GTGT-TTCAATCTGCCC-ATGATCG
* * *
22071378 GGGTAAAAAGATTGGATGCTTCAATCTGTCCCATGATCG
1 GGGT-AAGAGATTGGGTGTTTCAATCTG-CCCATGATCG
* * *
22071417 GGGTAAGAGATTGACGTGTCTTCAATTTGCCCCTTGATCG
1 GGGTAAGAGATTG-GGTGT-TTCAATCTG-CCCATGATCG
* * **
22071457 GGGTAAGAGATTGGCGTGTCTTCAATTTGCCCTTTGATTA
1 GGGTAAGAGATTGG-GTGT-TTCAATCTGCCC-ATGATCG
* * * *
22071497 GGGTAAAAGATTGGATGCTTCAATCTGCCTTATGATCG
1 GGGTAAGAGATTGGGTGTTTCAATCTGCC-CATGATCG
* * ** *
22071535 GGGTAAAAGATTGGATACTACAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGGTGTTTCAATCTG-CCCATGATCG
22071573 GGGTAAGAGATTGGTGTGT
1 GGGTAAGAGATTGG-GTGT
22071592 AGCTTTGCTT
Statistics
Matches: 457, Mismatches: 120, Indels: 49
0.73 0.19 0.08
Matches are distributed among these distances:
38 222 0.49
39 96 0.21
40 128 0.28
41 11 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (37 bp):
GGGTAAGAGATTGGGTGTTTCAATCTGCCCATGATCG
Found at i:22071233 original size:78 final size:78
Alignment explanation
Indices: 22070932--22071591 Score: 622
Period size: 78 Copynumber: 8.5 Consensus size: 78
22070922 AAATGGCGTT
* * * * * **
22070932 TTCAATCTACCCCACGGTCAGGGTAAGAGATTGG-GTGT-TTCAATCTGACCC-ATGATCGGGGT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGTGTCTTCAATCTG-CCCTCTGATTAGGGT
* *
22070994 AAGAGATTGGGTGTC
65 AAAAGATTGGATG-C
* ** * ** * * * * * **
22071009 TTGAATCTGCCCTTTGGTTAGGGTAAAAGATTGG-AT-ACTTCAGTCTACCC-CATGATCGGGGT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGTGTCTTCAATCTGCCCTC-TGATTAGGGT
* *
22071071 AAGAGATTGCG-TGT
65 AAAAGATTG-GATGC
* * *
22071085 TTCAATCTACCCCATGATCGGGGTAAGAGATTGG-GTGTCTTCAATTTGCCCTCTAATTAGGGTA
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGTGTCTTCAATCTGCCCTCTGATTAGGGTA
*
22071149 AAAGATTGGATAC
66 AAAGATTGGATGC
* * * *
22071162 TTCAATCTGCCCCATGATCGGGGTAAGAAATTGGCGTGTCTTCAATTTTCCCTCTAATTAGGGTA
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGTGTCTTCAATCTGCCCTCTGATTAGGGTA
22071227 AAAGATTGGATGC
66 AAAGATTGGATGC
* * * * *
22071240 TTCAATCTGCCTCATGATCGGGGTAAGAGATTGGCGTATCTTGAGTCTGCCCCCTGATTAGGGTA
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGTGTCTTCAATCTGCCCTCTGATTAGGGTA
*
22071305 AAAGATTAGATGC
66 AAAGATTGGATGC
**
22071318 TTCAATCTGCCCCATGATCGGAATAAGAGATTGGCGTGTCTTCAATCTGCCCTCTGATTAGGGTA
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGTGTCTTCAATCTGCCCTCTGATTAGGGT-
22071383 AAAAGATTGGATGC
65 AAAAGATTGGATGC
* * * **
22071397 TTCAATCTGTCCCATGATCGGGGTAAGAGATTGACGTGTCTTCAATTTGCCC-CTTGATCGGGGT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGTGTCTTCAATCTGCCCTC-TGATTAGGGT
* *
22071461 AAGAGATTGGCGTGTC
65 AAAAGATTGG-ATG-C
* ** ** * * * * **
22071477 TTCAATTTGCCCTTTGATTAGGGTAAAAGATTGG-ATG-CTTCAATCTGCCTTATGATCGGGGTA
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGTGTCTTCAATCTGCCCTCTGATTAGGGTA
*
22071540 AAAGATTGGATAC
66 AAAGATTGGATGC
* *
22071553 TACAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGTGT
22071592 AGCTTTGCTT
Statistics
Matches: 483, Mismatches: 86, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
76 59 0.12
77 117 0.24
78 208 0.43
79 72 0.15
80 27 0.06
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (78 bp):
TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGTGTCTTCAATCTGCCCTCTGATTAGGGTA
AAAGATTGGATGC
Found at i:22076421 original size:25 final size:24
Alignment explanation
Indices: 22076393--22076440 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
22076383 CCTTCATTAT
22076393 TCCTACTGCTT-CAATCAATTTCCTC
1 TCCTACT-CTTCCAATC-ATTTCCTC
*
22076418 TCCTTCTCTTCCAATCATTTCCT
1 TCCTACTCTTCCAATCATTTCCT
22076441 TGAATTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.17, C:0.38, G:0.02, T:0.44
Consensus pattern (24 bp):
TCCTACTCTTCCAATCATTTCCTC
Found at i:22082574 original size:59 final size:61
Alignment explanation
Indices: 22082480--22082597 Score: 159
Period size: 59 Copynumber: 2.0 Consensus size: 61
22082470 GTTTCACTCG
* * * * *
22082480 CATTTATTTCTCACGATGACACAAAGTCATTGGACC-CTTGTT-CTCATTGGAATTCATTT
1 CATTTAATACTCACGATGACACAAAGTCATCGGACCTCTTATTCCTCATAGGAATTCATTT
* *
22082539 CATTTAATACTCACGATGACACATAGTCATCGGACCTCTTATTCCTTATAGGAATTCAT
1 CATTTAATACTCACGATGACACAAAGTCATCGGACCTCTTATTCCTCATAGGAATTCAT
22082598 ATAATCACGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 32 0.64
60 5 0.10
61 13 0.26
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (61 bp):
CATTTAATACTCACGATGACACAAAGTCATCGGACCTCTTATTCCTCATAGGAATTCATTT
Found at i:22082708 original size:52 final size:51
Alignment explanation
Indices: 22082546--22082734 Score: 216
Period size: 52 Copynumber: 3.6 Consensus size: 51
22082536 TTTCATTTAA
* * * * *
22082546 TACTCACGATGACACATAGTCATCGGACCTCTTATTCCTTATAGGAATTCATA
1 TACTCACGATGACACTTAGTCATCGGACCT-TTAATCCATAAAGG-ATTCATT
* * * * * *
22082599 TAATCACGATAACACTGAGTCATCAGACCTTTAATCCATCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
* *
22082650 TACTCACAATGACACTTAGTCATCGGACCTTTAAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTT-AATCCATAAAGGATTCATT
*
22082702 TACTCACGATGACACTTAGTCATTGGATCCTTT
1 TACTCACGATGACACTTAGTCATCGGA-CCTTT
22082735 CATTTATAGC
Statistics
Matches: 113, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
51 33 0.29
52 50 0.44
53 30 0.27
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
Found at i:22083493 original size:38 final size:38
Alignment explanation
Indices: 22083442--22083519 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
22083432 CTTACCCAAA
22083442 TCAAAGCTTAAAGCTTGAAAGTGAAAAAACCCTAACTT
1 TCAAAGCTTAAAGCTTGAAAGTGAAAAAACCCTAACTT
22083480 TCAAAGCTTAAAGCTTGAAAGTGAAAAAACCCTAACTT
1 TCAAAGCTTAAAGCTTGAAAGTGAAAAAACCCTAACTT
22083518 TC
1 TC
22083520 TCCTCTTAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (38 bp):
TCAAAGCTTAAAGCTTGAAAGTGAAAAAACCCTAACTT
Found at i:22086418 original size:30 final size:30
Alignment explanation
Indices: 22086383--22086519 Score: 93
Period size: 30 Copynumber: 4.6 Consensus size: 30
22086373 AAAAATTTGA
* *
22086383 AAAGTTCGAGGGTTAAATTCAAAA-TTTTGG
1 AAAGTTCGAGGGTCAAATT-AAAATTTTTAG
* *
22086413 GAAGTT-TAGGGGTCAAATTAAAATTTTTAG
1 AAAGTTCGA-GGGTCAAATTAAAATTTTTAG
* * *
22086443 AAAGTTCGAGGGTCAAAATATAATTTTTAA
1 AAAGTTCGAGGGTCAAATTAAAATTTTTAG
* * * * *
22086473 AAAGCT-AAGGGATCAAAATATAATTTTTAA
1 AAAGTTCGAGGG-TCAAATTAAAATTTTTAG
*
22086503 AAAGATT-AAGGGTCAAA
1 AAAG-TTCGAGGGTCAAA
22086520 ATGTAGTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
29 9 0.10
30 74 0.82
31 7 0.08
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (30 bp):
AAAGTTCGAGGGTCAAATTAAAATTTTTAG
Found at i:22086489 original size:60 final size:60
Alignment explanation
Indices: 22086420--22086533 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
22086410 TGGGAAGTTT
* * * *
22086420 AGGGGTCAAATTAAAATTTTTAGAAAG-TTCGAGGGTCAAAATATAATTTTTAAAAAGCTA
1 AGGGATCAAAATAAAATTTTTAAAAAGATT-AAGGGTCAAAATATAATTTTTAAAAAGCTA
* * *
22086480 AGGGATCAAAATATAATTTTTAAAAAGATTAAGGGTCAAAATGTAGTTTTTAAA
1 AGGGATCAAAATAAAATTTTTAAAAAGATTAAGGGTCAAAATATAATTTTTAAA
22086534 TAAAAAAGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
60 44 0.96
61 2 0.04
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (60 bp):
AGGGATCAAAATAAAATTTTTAAAAAGATTAAGGGTCAAAATATAATTTTTAAAAAGCTA
Found at i:22086520 original size:30 final size:29
Alignment explanation
Indices: 22086422--22086533 Score: 134
Period size: 30 Copynumber: 3.8 Consensus size: 29
22086412 GGAAGTTTAG
* * * *
22086422 GGGTCAAATTAAAATTTTTAGAAAGTTCGA
1 GGGTCAAAATATAATTTTTAAAAAGTT-AA
*
22086452 GGGTCAAAATATAATTTTTAAAAAGCTAA
1 GGGTCAAAATATAATTTTTAAAAAGTTAA
22086481 GGGATCAAAATATAATTTTTAAAAAGATTAA
1 GGG-TCAAAATATAATTTTTAAAAAG-TTAA
* *
22086512 GGGTCAAAATGTAGTTTTTAAA
1 GGGTCAAAATATAATTTTTAAA
22086534 TAAAAAAGAG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
29 4 0.06
30 62 0.86
31 6 0.08
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (29 bp):
GGGTCAAAATATAATTTTTAAAAAGTTAA
Found at i:22087223 original size:7 final size:7
Alignment explanation
Indices: 22087211--22087244 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
22087201 CCCTACTTTT
22087211 TTCTCTG
1 TTCTCTG
22087218 TTCTCTG
1 TTCTCTG
22087225 TTCTCTG
1 TTCTCTG
22087232 TTGTCTCTG
1 -T-TCTCTG
22087241 TTCT
1 TTCT
22087245 GTTTCTCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 17 0.68
8 2 0.08
9 6 0.24
ACGTcount: A:0.00, C:0.26, G:0.15, T:0.59
Consensus pattern (7 bp):
TTCTCTG
Found at i:22087230 original size:14 final size:16
Alignment explanation
Indices: 22087211--22087244 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22087201 CCCTACTTTT
22087211 TTCTCTG-T-TCTCTG
1 TTCTCTGTTGTCTCTG
22087225 TTCTCTGTTGTCTCTG
1 TTCTCTGTTGTCTCTG
22087241 TTCT
1 TTCT
22087245 GTTTCTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 1 0.06
16 10 0.56
ACGTcount: A:0.00, C:0.26, G:0.15, T:0.59
Consensus pattern (16 bp):
TTCTCTGTTGTCTCTG
Found at i:22088780 original size:15 final size:16
Alignment explanation
Indices: 22088760--22088790 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22088750 ATTAAGATGA
22088760 CAATAAA-AAAAATTT
1 CAATAAATAAAAATTT
22088775 CAATAAATAAAAATTT
1 CAATAAATAAAAATTT
22088791 ATAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
CAATAAATAAAAATTT
Found at i:22091856 original size:16 final size:17
Alignment explanation
Indices: 22091831--22091875 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
22091821 TTCTTTATTT
*
22091831 TTTATGTATTTGT-TTG
1 TTTATTTATTTGTCTTG
*
22091847 TTTATTTATTTGTCTTT
1 TTTATTTATTTGTCTTG
22091864 TTTATTTTATTT
1 TTTA-TTTATTT
22091876 ATTTTCTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 12 0.48
17 6 0.24
18 7 0.28
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTATTTATTTGTCTTG
Found at i:22092059 original size:13 final size:14
Alignment explanation
Indices: 22092021--22092065 Score: 65
Period size: 13 Copynumber: 3.2 Consensus size: 14
22092011 TATTTTTGCC
22092021 ATTACTATCATTGTT
1 ATTACTATCATT-TT
*
22092036 ATTATTATCATTTT
1 ATTACTATCATTTT
22092050 -TTACTATCATTTT
1 ATTACTATCATTTT
22092063 ATT
1 ATT
22092066 TATTGCATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 12 0.44
14 4 0.15
15 11 0.41
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.60
Consensus pattern (14 bp):
ATTACTATCATTTT
Found at i:22092122 original size:21 final size:21
Alignment explanation
Indices: 22092098--22092138 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22092088 AATGTTATTT
22092098 TATTTTATTT-TTTTATGTTAC
1 TATTTTATTTGTTTT-TGTTAC
22092119 TATTTTATTTGTTTTTGTTA
1 TATTTTATTTGTTTTTGTTA
22092139 TTATATTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.73
Consensus pattern (21 bp):
TATTTTATTTGTTTTTGTTAC
Found at i:22093484 original size:32 final size:32
Alignment explanation
Indices: 22093438--22093498 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
22093428 TGTGTGCAGG
*
22093438 AAAAGAGCTTCCACGTAGG-AGCATTTTTCCCA
1 AAAAGAGCTTCCACGT-GGAAGCACTTTTCCCA
*
22093470 AAAATAGCTTCCACGTGGAAGCACTTTTC
1 AAAAGAGCTTCCACGTGGAAGCACTTTTC
22093499 TCCGTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (32 bp):
AAAAGAGCTTCCACGTGGAAGCACTTTTCCCA
Found at i:22093639 original size:15 final size:16
Alignment explanation
Indices: 22093616--22093660 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
22093606 GTGCTTTTGT
* *
22093616 TTTAATTAATTTTAGG
1 TTTATTTAATTTAAGG
*
22093632 TTT-TTTAAATTAAGG
1 TTTATTTAATTTAAGG
22093647 TTTATTTAATTTAA
1 TTTATTTAATTTAA
22093661 ATTAGGGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (16 bp):
TTTATTTAATTTAAGG
Found at i:22093877 original size:30 final size:31
Alignment explanation
Indices: 22093820--22093881 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
22093810 AAATTTAAAG
* *
22093820 TCTAAAATTTCAAAACTAACGTATCTAAATT
1 TCTAAAAATTCAAAACTAACATATCTAAATT
*
22093851 TCTAAAAATTCAAAA-TAATATATCTAAATT
1 TCTAAAAATTCAAAACTAACATATCTAAATT
22093881 T
1 T
22093882 TGCATTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (31 bp):
TCTAAAAATTCAAAACTAACATATCTAAATT
Found at i:22094033 original size:29 final size:29
Alignment explanation
Indices: 22093994--22094090 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 29
22093984 ATCTAAATAA
*
22093994 TTGACGTGATGTGTTCTGAAAAAATAATT
1 TTGACGAGATGTGTTCTGAAAAAATAATT
* **
22094023 TTGA-GAAGATGAGTTCTG-AAAAATAAAA
1 TTGACG-AGATGTGTTCTGAAAAAATAATT
* *
22094051 TTGACGTGATGTGTTCTGAAAAAATTATT
1 TTGACGAGATGTGTTCTGAAAAAATAATT
22094080 TTGACGAGATG
1 TTGACGAGATG
22094091 GATTTTGTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
28 23 0.42
29 32 0.58
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (29 bp):
TTGACGAGATGTGTTCTGAAAAAATAATT
Found at i:22094054 original size:28 final size:28
Alignment explanation
Indices: 22093992--22094073 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
22093982 ATATCTAAAT
*
22093992 AATTGACGTGATGTGTTCTGAAAAAATAA
1 AATTGACGAGATGTGTTCTG-AAAAATAA
** *
22094021 TTTTGA-GAAGATGAGTTCTGAAAAATAA
1 AATTGACG-AGATGTGTTCTGAAAAATAA
*
22094049 AATTGACGTGATGTGTTCTGAAAAA
1 AATTGACGAGATGTGTTCTGAAAAA
22094074 ATTATTTTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
28 28 0.65
29 15 0.35
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (28 bp):
AATTGACGAGATGTGTTCTGAAAAATAA
Found at i:22094734 original size:13 final size:13
Alignment explanation
Indices: 22094716--22094741 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22094706 GAACATAGAA
22094716 TTTGTGCTTCGAT
1 TTTGTGCTTCGAT
22094729 TTTGTGCTTCGAT
1 TTTGTGCTTCGAT
22094742 CGATCCCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.15, G:0.23, T:0.54
Consensus pattern (13 bp):
TTTGTGCTTCGAT
Found at i:22097526 original size:22 final size:24
Alignment explanation
Indices: 22097501--22097556 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 24
22097491 ATCAACAGAT
*
22097501 TAATTAAATATTAT-TAAA-AAAA
1 TAATTAAATATTATAAAAATAAAA
22097523 TAATT-AA-ATTATAAAAATAAAA
1 TAATTAAATATTATAAAAATAAAA
22097545 TAATTAAATATT
1 TAATTAAATATT
22097557 TTCAATCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 5 0.17
21 5 0.17
22 14 0.48
23 2 0.07
24 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TAATTAAATATTATAAAAATAAAA
Found at i:22097789 original size:22 final size:22
Alignment explanation
Indices: 22097736--22097788 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
22097726 TTAGGAGGAT
**
22097736 TAATTTAAAATACCCTGAACCC
1 TAATTTAAAATACCCAAAACCC
*
22097758 TTATTTAAAATA-CCAAAACCC
1 TAATTTAAAATACCCAAAACCC
22097779 TAATTTAAAA
1 TAATTTAAAA
22097789 AATTCTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (22 bp):
TAATTTAAAATACCCAAAACCC
Found at i:22100277 original size:21 final size:21
Alignment explanation
Indices: 22100248--22100290 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22100238 TTATATCCAA
22100248 CTATAGCATGCCAACTATATC
1 CTATAGCATGCCAACTATATC
* *
22100269 CTATGGCATGCCAATTATATC
1 CTATAGCATGCCAACTATATC
22100290 C
1 C
22100291 AACTCTGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (21 bp):
CTATAGCATGCCAACTATATC
Found at i:22101787 original size:52 final size:52
Alignment explanation
Indices: 22101705--22101895 Score: 238
Period size: 52 Copynumber: 3.7 Consensus size: 52
22101695 TAGACGAAGG
* **
22101705 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATTTTTTACGGATTAAAA
1 GGTCCGATGGCTATGTATCATCGTGAGTATATGAATCCTTTACGGATTAAAA
* * * *
22101757 GGTTCGATGGCTATCTATCATCATGTGTATATGAATCCTTTACGGATTAAAA
1 GGTCCGATGGCTATGTATCATCGTGAGTATATGAATCCTTTACGGATTAAAA
* * * *
22101809 GGTCCGATGACTAAGTATCATCGTGAGTATATGGATCCTTTACGGATTAAGA
1 GGTCCGATGGCTATGTATCATCGTGAGTATATGAATCCTTTACGGATTAAAA
* * ** *
22101861 GGTCCGATGACTCTGTGCCATTGTGAGTATATGAA
1 GGTCCGATGGCTATGTATCATCGTGAGTATATGAA
22101896 CCCCTTGTGG
Statistics
Matches: 118, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 118 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (52 bp):
GGTCCGATGGCTATGTATCATCGTGAGTATATGAATCCTTTACGGATTAAAA
Found at i:22101908 original size:52 final size:51
Alignment explanation
Indices: 22101705--22101944 Score: 201
Period size: 52 Copynumber: 4.6 Consensus size: 51
22101695 TAGACGAAGG
* ****
22101705 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATTTTTTACGGATTAAAA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAACCCCTTACGGATT-AAA
* * * * * * * *
22101757 GGTTCGATGGCTATCTATCATCATGTGTATATGAATCCTTTACGGATTAAAA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAACCCCTTACGGATT-AAA
* * * * *
22101809 GGTCCGATGACTAAGTATCATCGTGAGTATATGGATCCTTTACGGATTAAGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAACCCCTTACGGATTAA-A
* * * **
22101861 GGTCCGATGACTCTGTGCCATTGTGAGTATATGAACCCCTTGTGGATTATAA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAACCCCTTACGGATTA-AA
* * * *
22101913 GGTTCGGTGATTGTGTGTCATCGTGAGTATAT
1 GGTCCGATGACTATGTGTCATCGTGAGTATAT
22101945 CGTTGAAGTG
Statistics
Matches: 156, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
51 2 0.01
52 153 0.98
53 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (51 bp):
GGTCCGATGACTATGTGTCATCGTGAGTATATGAACCCCTTACGGATTAAA
Found at i:22101908 original size:104 final size:104
Alignment explanation
Indices: 22101705--22101944 Score: 255
Period size: 104 Copynumber: 2.3 Consensus size: 104
22101695 TAGACGAAGG
* ** * *
22101705 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATTTTTTACGGATTAAAAGGTTCGATGGCTA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAAAGGTCCGATGACTA
* * * *
22101770 TCTATCATCATGTGTATATGAATCCTTTACGGATTAAAA
66 TCTACCATCATGAGTATATGAACCCCTTACGGATTAAAA
* * * * *
22101809 GGTCCGATGACTAAGTATCATCGTGAGTATATGGATCCTTTACGGATTAAGAGGTCCGATGACTC
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAAAGGTCCGATGACTA
* * ** ** *
22101874 TGTGCCATTGTGAGTATATGAACCCCTTGTGGATTATAA
66 TCTACCATCATGAGTATATGAACCCCTTACGGATTAAAA
* * * *
22101913 GGTTCGGTGATTGTGTGTCATCGTGAGTATAT
1 GGTCCGATGACTATGTGTCATCGTGAGTATAT
22101945 CGTTGAAGTG
Statistics
Matches: 109, Mismatches: 27, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
104 109 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (104 bp):
GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAAAGGTCCGATGACTA
TCTACCATCATGAGTATATGAACCCCTTACGGATTAAAA
Found at i:22112009 original size:52 final size:52
Alignment explanation
Indices: 22111935--22112180 Score: 339
Period size: 52 Copynumber: 4.7 Consensus size: 52
22111925 GCCATAGACG
* *
22111935 AAAAGGTCCAATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
*
22111987 AAAAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* * * *
22112039 AAAAGGTCCGATGACTAAGTATCATCGTGAGTATATGGATCCTTTACGAATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* * * * * * * **
22112091 AAGATGTCCGATGACTCTGTGTCATTGTGAGTATACGAGTCCCTTGTGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
*
22112143 ATAAGGTCCGATGACTATGTGTCATCGTGAGTATATGA
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGA
22112181 TTGAAGTGAA
Statistics
Matches: 169, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 169 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (52 bp):
AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
Found at i:22114727 original size:20 final size:20
Alignment explanation
Indices: 22114688--22114741 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
22114678 AGTCTTCATG
* *
22114688 GTATCGGTAGAACTGTAGTT
1 GTATCGGTAGAAGTGGAGTT
*
22114708 GTATCAGTAGAAGTGGAGTT
1 GTATCGGTAGAAGTGGAGTT
* *
22114728 CTACCGGTAGAAGT
1 GTATCGGTAGAAGT
22114742 CTCACTGGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.11, G:0.31, T:0.30
Consensus pattern (20 bp):
GTATCGGTAGAAGTGGAGTT
Found at i:22117555 original size:20 final size:20
Alignment explanation
Indices: 22117509--22117558 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
22117499 GTCTGCAGCT
*
22117509 TAGTTGTTTCGATAGAAGCA
1 TAGTTGTATCGATAGAAGCA
* *
22117529 TACTTGTATCGATAGAA-CTG
1 TAGTTGTATCGATAGAAGC-A
22117549 TAGTTGTATC
1 TAGTTGTATC
22117559 AGTAGAAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (20 bp):
TAGTTGTATCGATAGAAGCA
Found at i:22117820 original size:20 final size:20
Alignment explanation
Indices: 22117782--22117820 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22117772 GGCATCGGTA
* *
22117782 GAACTGTAGTTGTATCGATG
1 GAACTGGAGTTGTACCGATG
*
22117802 GAACTGGAGTTTTACCGAT
1 GAACTGGAGTTGTACCGAT
22117821 AGAAGTCTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (20 bp):
GAACTGGAGTTGTACCGATG
Found at i:22132363 original size:17 final size:17
Alignment explanation
Indices: 22132341--22132375 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
22132331 CCAAGTTGAG
22132341 TCCACCAACTCAACGCA
1 TCCACCAACTCAACGCA
22132358 TCCACCAACTCAACGCA
1 TCCACCAACTCAACGCA
22132375 T
1 T
22132376 AGTCTAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.46, G:0.06, T:0.14
Consensus pattern (17 bp):
TCCACCAACTCAACGCA
Found at i:22136474 original size:26 final size:26
Alignment explanation
Indices: 22136432--22136530 Score: 119
Period size: 26 Copynumber: 3.8 Consensus size: 26
22136422 TTTTCATCCT
*
22136432 AATTTTA-CCTTAGTAAAATTTTGAC
1 AATTTTACCCTTGGTAAAATTTTGAC
*
22136457 AATTTTACCCTTGGTAAAAATTTGAC
1 AATTTTACCCTTGGTAAAATTTTGAC
* *
22136483 AATTTTACCATTGGTAAAATTTTGAT
1 AATTTTACCCTTGGTAAAATTTTGAC
* * * *
22136509 GATTTTACTCTAGATAAAATTT
1 AATTTTACCCTTGGTAAAATTT
22136531 CGAGAAAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
25 7 0.11
26 56 0.89
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.43
Consensus pattern (26 bp):
AATTTTACCCTTGGTAAAATTTTGAC
Found at i:22155771 original size:52 final size:52
Alignment explanation
Indices: 22155693--22155938 Score: 388
Period size: 52 Copynumber: 4.8 Consensus size: 52
22155683 GTAAATAAAG
*
22155693 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
*
22155745 AAAAGGTCCAATGACTATGTGTCATCGTAAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* *
22155797 AAAATGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * **
22155849 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGATTCCTTCAAAGATT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* *
22155901 AAGAGGTCC-ATGACTATGTGTCATCATGAGTAT-TGAAT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAAT
22155939 GGAATGAATT
Statistics
Matches: 180, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 4 0.02
51 23 0.13
52 153 0.85
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (52 bp):
AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
Found at i:22178387 original size:21 final size:23
Alignment explanation
Indices: 22178361--22178404 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
22178351 AACAAGTTCG
22178361 TCTTCT-TTTTCTTTT-TCCTTC
1 TCTTCTCTTTTCTTTTCTCCTTC
22178382 TCTTCTCTTTTCTTTTCTCCTTC
1 TCTTCTCTTTTCTTTTCTCCTTC
22178405 AACACCCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (23 bp):
TCTTCTCTTTTCTTTTCTCCTTC
Found at i:22180203 original size:24 final size:25
Alignment explanation
Indices: 22180168--22180215 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
22180158 TGAAGAAACT
*
22180168 AAAGAAACAAATTAA-AATAAAATA
1 AAAGAAACAAATTAACAAAAAAATA
22180192 AAAGACAA-AAATTAACAAAAAAAT
1 AAAGA-AACAAATTAACAAAAAAAT
22180216 TTGCAATGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (25 bp):
AAAGAAACAAATTAACAAAAAAATA
Found at i:22189488 original size:21 final size:21
Alignment explanation
Indices: 22189462--22189513 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
22189452 ACTTAGATGT
22189462 ATCCACAACA-AAGCCAAATGC
1 ATCCACAACAGAA-CCAAATGC
* *
22189483 ATCCACACCAGAATCAAATGC
1 ATCCACAACAGAACCAAATGC
*
22189504 AGCCACAACA
1 ATCCACAACA
22189514 CTCTTCAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.46, C:0.35, G:0.10, T:0.10
Consensus pattern (21 bp):
ATCCACAACAGAACCAAATGC
Found at i:22196701 original size:19 final size:19
Alignment explanation
Indices: 22196677--22196721 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
22196667 AAAATTTAAG
22196677 GATTTGAGGCATGATGCTA
1 GATTTGAGGCATGATGCTA
22196696 GATTTGAGGCATGATGCTA
1 GATTTGAGGCATGATGCTA
*
22196715 GCTTTGA
1 GATTTGA
22196722 TGAAGTTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.11, G:0.31, T:0.33
Consensus pattern (19 bp):
GATTTGAGGCATGATGCTA
Found at i:22200418 original size:52 final size:52
Alignment explanation
Indices: 22200340--22200685 Score: 480
Period size: 52 Copynumber: 6.7 Consensus size: 52
22200330 GTAAATAAAG
* *
22200340 AAAAGGTCCGAT-ATCTATGTGTCATCATGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCTGATGA-CTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* *
22200392 AAAAGGTCTAATGACTATGTGTCATCATGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
*
22200444 AAAAGGTCCT-ATGACTATGTGTCATCGTGAGCATATGAATCCTTTATGGATT
1 AAAAGGT-CTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
*
22200496 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATAAATCCTTTATGGATT
1 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * * * *
22200548 AAAATGTCCGATGACTATGTGTCAACGTGAGTACACGAATCCTTTATGGATT
1 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * * * **
22200600 AAAAGGTCCGATGGCTATGTGTCATCGTGAGTATATGATTCCTTCAAAGATT
1 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * *
22200652 AAGAGGTCTGATGACTATGTGACATCTTGAGTAT
1 AAAAGGTCTGATGACTATGTGTCATCGTGAGTAT
22200686 TAAATGGAAT
Statistics
Matches: 265, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
51 2 0.01
52 260 0.98
53 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (52 bp):
AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
Found at i:22206633 original size:21 final size:21
Alignment explanation
Indices: 22206582--22206633 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
22206572 AGAGTTTTTA
22206582 GTATCGGTAGAAGCATGACAT
1 GTATCGGTAGAAGCATGACAT
* * * *
22206603 GTTTCAGTAGAAGTC-TTACTT
1 GTATCGGTAGAAG-CATGACAT
22206624 GTATCGGTAG
1 GTATCGGTAG
22206634 TATTGTCTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGCATGACAT
Found at i:22207677 original size:13 final size:13
Alignment explanation
Indices: 22207645--22207683 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
22207635 TATCTTTAAC
*
22207645 TTAGATTAATTTAGT
1 TTAGATTAA--TACT
22207660 TTAGATTAATACT
1 TTAGATTAATACT
22207673 TTAGATTAATA
1 TTAGATTAATA
22207684 TCCCTCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:22216207 original size:9 final size:9
Alignment explanation
Indices: 22216193--22216217 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22216183 AGGAATACTA
22216193 TTGTTGCTG
1 TTGTTGCTG
22216202 TTGTTGCTG
1 TTGTTGCTG
22216211 TTGTTGC
1 TTGTTGC
22216218 CCTTACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.32, T:0.56
Consensus pattern (9 bp):
TTGTTGCTG
Found at i:22231030 original size:52 final size:53
Alignment explanation
Indices: 22230956--22231065 Score: 150
Period size: 52 Copynumber: 2.1 Consensus size: 53
22230946 ATATAATTTT
* * * **
22230956 TATTATAAATGTTTTCGTTTAATTGAGTTCTATTACTTAGTATTAA-TTTACA
1 TATTTTAAATGTTTTCGCTTAATCGAGTTCTATTACTTAACATTAACTTTACA
* *
22231008 TATTTTAAATGTTTTTGCTTAATCGAGTTCTATTACTTAACATTAACTTTGCA
1 TATTTTAAATGTTTTCGCTTAATCGAGTTCTATTACTTAACATTAACTTTACA
22231061 TATTT
1 TATTT
22231066 CAAAGCTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 40 0.80
53 10 0.20
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (53 bp):
TATTTTAAATGTTTTCGCTTAATCGAGTTCTATTACTTAACATTAACTTTACA
Found at i:22235146 original size:146 final size:146
Alignment explanation
Indices: 22234769--22235415 Score: 879
Period size: 146 Copynumber: 4.4 Consensus size: 146
22234759 TGATTAAAAT
*
22234769 AAAATCACTACTTTACTTCAAAATCAAAACTTTTATTTTGAAATAGTT-AAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
* * *
22234833 TGTTTAAAAATTTAAACTTTTTCTTTAAAATCACTAAAAAACAGATTTTTATTTTTTTAAAATCT
66 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTA-TTTTTAAAAATAT
*
22234898 AAATTTTTTTTCTTTTTTAATG
130 AAA----CTTTC-TTTTTAATG
* * * *
22234920 AAAATTACTACTTTACTTAAAAATCCAAACTTTTATTTGGAAATAGTAAAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
* * *
22234985 TGTTTAAAAATTTAAATTTTTTCTTTAAAATCACTAAAAAACAGATTTTTATTTTTTAAAAATCT
66 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTA-TTTTTAAAAATAT
22235050 AAACTTT-TTTTTAATG
130 AAACTTTCTTTTTAATG
* * *
22235066 AAAATAACTAATTTACTTAAAAATCCAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
*
22235131 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACT-AAAAATAGATTTTTATTTTTAAAAATATA
66 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATATA
** *
22235195 AACTTTCTATTTTTTTAA
131 AACTTTCT-TTTTAAT-G
* * * * *
22235213 AAAATCACTATTTTACTTAAAAAACTACACTTTTATTTAGAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
* * *
22235278 TGTTTAAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAATAGATTGTTATTTTTAAAAATATA
66 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATATA
*
22235343 AACTTTCACTTTTTAAAG
131 AACTTT--CTTTTTAATG
* * * *
22235361 AAAATCACTATTTTACTTAAAAATCAAAATTTTTATTTCGAAAT-TTTAAAAAAAA
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAAAA
22235416 ACCCAAAACT
Statistics
Matches: 452, Mismatches: 37, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
144 19 0.04
145 15 0.03
146 108 0.24
147 103 0.23
148 76 0.17
149 4 0.01
150 2 0.00
151 43 0.10
152 82 0.18
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (146 bp):
AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATATA
AACTTTCTTTTTAATG
Found at i:22235148 original size:52 final size:52
Alignment explanation
Indices: 22235082--22235298 Score: 134
Period size: 52 Copynumber: 4.3 Consensus size: 52
22235072 ACTAATTTAC
*
22235082 TTAAAAATCCAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTTTGT
1 TTAAAAATCTAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTTTGT
* * ** * ****
22235134 TTAAAAATTTAAACTTTT-TCTTTAAAATAACTAAAAATAGATTTTTA--TT-T
1 TTAAAAATCTAAACTTTTAT-TTTGAAATAGTTAAAAA-AAATCAAAACTTTGT
* ** * **
22235184 TTAAAAATATAAACTTTCTATTTT----T--TT--AAAAAATCACTATTTTAC
1 TTAAAAATCTAAACTTT-TATTTTGAAATAGTTAAAAAAAATCAAAACTTTGT
* * *
22235229 TTAAAAAACTACACTTTTATTTAGAAATAGTTAAAAAAAATCAAAACTTTGT
1 TTAAAAATCTAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTTTGT
* *
22235281 TTAAAAATTTAAATTTTT
1 TTAAAAATCTAAACTTTT
22235299 TCTTTAAAAT
Statistics
Matches: 120, Mismatches: 30, Indels: 30
0.67 0.17 0.17
Matches are distributed among these distances:
42 5 0.04
43 3 0.03
44 7 0.06
45 15 0.12
47 1 0.01
48 1 0.01
50 19 0.16
51 7 0.06
52 58 0.48
53 4 0.03
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (52 bp):
TTAAAAATCTAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTTTGT
Found at i:22235260 original size:147 final size:150
Alignment explanation
Indices: 22234769--22235415 Score: 895
Period size: 147 Copynumber: 4.4 Consensus size: 150
22234759 TGATTAAAAT
*
22234769 AAAATCACTACTTTACTTCAAAATCAAAACTTTTATTTTGAAATAGTT-AAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
* * *
22234833 TGTTTAAAAATTTAAACTTTTTCTTTAAAATCACTAAAAAACAGATTTTTATTTTTTTAAAATCT
66 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTTAAAAATAT
* * *
22234898 AAATTTTTTTTCTTTTTTAATG
131 AAACTTTCTAT-TTTTTTAA-G
* * * *
22234920 AAAATTACTACTTTACTTAAAAATCCAAACTTTTATTTGGAAATAGTAAAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
* * *
22234985 TGTTTAAAAATTTAAATTTTTTCTTTAAAATCACTAAAAAACAGATTTTTATTTTTTAAAAATCT
66 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTTAAAAATAT
22235050 AAA----CT-TTTTTTTAATG
131 AAACTTTCTATTTTTTTAA-G
* * *
22235066 AAAATAACTAATTTACTTAAAAATCCAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
*
22235131 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACT-AAAAATAGATTTTTA-TTTTTAAAAATAT
66 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTTAAAAATAT
22235194 AAACTTTCTATTTTTTTAA-
131 AAACTTTCTATTTTTTTAAG
* * * * *
22235213 AAAATCACTATTTTACTTAAAAAACTACACTTTTATTTAGAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
* * *
22235278 TGTTTAAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAATAGATTGTTA-TTTTTAAAAATAT
66 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTTAAAAATAT
* *
22235342 AAACTTTC-ACTTTTTAAAG
131 AAACTTTCTATTTTTTTAAG
* * * *
22235361 AAAATCACTATTTTACTTAAAAATCAAAATTTTTATTTCGAAAT-TTTAAAAAAAA
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAAAA
22235416 ACCCAAAACT
Statistics
Matches: 456, Mismatches: 32, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
144 15 0.03
145 14 0.03
146 104 0.23
147 112 0.25
148 77 0.17
149 9 0.02
151 43 0.09
152 82 0.18
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (150 bp):
AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTTAAAAATAT
AAACTTTCTATTTTTTTAAG
Found at i:22237943 original size:15 final size:15
Alignment explanation
Indices: 22237923--22237953 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22237913 AATAAAATAA
22237923 AAGTAAAGTCCAAAT
1 AAGTAAAGTCCAAAT
22237938 AAGTAAAGTCCAAAT
1 AAGTAAAGTCCAAAT
22237953 A
1 A
22237954 GAACTAGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (15 bp):
AAGTAAAGTCCAAAT
Found at i:22238391 original size:47 final size:46
Alignment explanation
Indices: 22238306--22238444 Score: 251
Period size: 46 Copynumber: 3.0 Consensus size: 46
22238296 GAAGTGCTGG
22238306 GAATTGAATTGGGAGATATATTTGTTTATTGGATTGATTGTTAAAT
1 GAATTGAATTGGGAGATATATTTGTTTATTGGATTGATTGTTAAAT
22238352 GAATTGAATTGGGAGATATAATTTGTTTATTGGATTGATTGTTAAAT
1 GAATTGAATTGGGAGATAT-ATTTGTTTATTGGATTGATTGTTAAAT
* *
22238399 GAATTGAATTGTGAGATATATTTGTTTATTAGATTGATTGTTAAAT
1 GAATTGAATTGGGAGATATATTTGTTTATTGGATTGATTGTTAAAT
22238445 TTATTACAAG
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
46 45 0.50
47 45 0.50
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (46 bp):
GAATTGAATTGGGAGATATATTTGTTTATTGGATTGATTGTTAAAT
Found at i:22238953 original size:20 final size:20
Alignment explanation
Indices: 22238896--22238970 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
22238886 TTTTTTAAAA
*
22238896 TTATAAAATATATAAATATAAT
1 TTATAAAA-ATTTAAA-ATAAT
* * *
22238918 TTTTAAAAAGTCAAAATAAT
1 TTATAAAAATTTAAAATAAT
*
22238938 ATATAAAAATTTAAAAT--T
1 TTATAAAAATTTAAAATAAT
22238956 TTATAAAAA-TTAAAA
1 TTATAAAAATTTAAAA
22238971 GAGAATAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
17 6 0.14
18 9 0.20
20 18 0.41
21 4 0.09
22 7 0.16
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (20 bp):
TTATAAAAATTTAAAATAAT
Found at i:22248300 original size:21 final size:21
Alignment explanation
Indices: 22248270--22248327 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
22248260 CAGCACACTT
*
22248270 AAATGTATCCACAACA-AAGCC
1 AAATGCATCCACAACAGAA-CC
* * *
22248291 AAATGCATCCAGACCAGAATC
1 AAATGCATCCACAACAGAACC
*
22248312 AAATGCAACCACAACA
1 AAATGCATCCACAACA
22248328 CTTTTCAATG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.48, C:0.29, G:0.10, T:0.12
Consensus pattern (21 bp):
AAATGCATCCACAACAGAACC
Found at i:22256053 original size:52 final size:51
Alignment explanation
Indices: 22255936--22256176 Score: 374
Period size: 52 Copynumber: 4.7 Consensus size: 51
22255926 GTAAATAAAG
*
22255936 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGATCCTTTATGGATT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGATCCTTTATGGATT
*
22255987 AAAAGGTCCAATGACTATGTGTCATCGTAAGTATATGACTCCTTTATGGATT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGA-TCCTTTATGGATT
* *
22256039 AAAATGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATG-ATCCTTTATGGATT
* **
22256091 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGATTCCTTCAAAGATT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGA-TCCTTTATGGATT
* *
22256143 AAGAGGTCCAATGACTATGTGTCATCATGAGTAT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTAT
22256177 TAAATGGAAT
Statistics
Matches: 175, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
51 37 0.21
52 137 0.78
53 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (51 bp):
AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGATCCTTTATGGATT
Found at i:22275773 original size:21 final size:21
Alignment explanation
Indices: 22275725--22275776 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
22275715 CATTGAAGAG
*
22275725 TGTTGTGGCTGCATTTGATTC
1 TGTTGTGGATGCATTTGATTC
* *
22275746 TGGTGTGGATGCATTTGGCTT-
1 TGTTGTGGATGCATTT-GATTC
22275767 TGTTGTGGAT
1 TGTTGTGGAT
22275777 ACATCTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.10, C:0.10, G:0.35, T:0.46
Consensus pattern (21 bp):
TGTTGTGGATGCATTTGATTC
Found at i:22284878 original size:24 final size:25
Alignment explanation
Indices: 22284842--22284889 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
22284832 GTCATTGCAA
*
22284842 ATTTTTTTGTTAATTTTTGTCTTTT
1 ATTTTATTGTTAATTTTTGTCTTTT
*
22284867 ATTTTATT-TTAATTTTTTTCTTT
1 ATTTTATTGTTAATTTTTGTCTTT
22284890 AGTTTCTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (25 bp):
ATTTTATTGTTAATTTTTGTCTTTT
Found at i:22302320 original size:52 final size:52
Alignment explanation
Indices: 22302256--22302496 Score: 376
Period size: 52 Copynumber: 4.7 Consensus size: 52
22302246 ATTCCATTTA
* * ** *
22302256 ATACTCATGATGACACATAGTCATTGGACCTCTTAATCTTTGAAGGAATCAT
1 ATACTCACGATGACACATAGTCATTGGACCTTTTAATCCATAAAGGAATCAT
*
22302308 ATACTCACGATGACACATAGTCATTGGACCTTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATTGGACCTTTTAATCCATAAAGGAATCAT
* * *
22302360 ATACTCACGATGACACATAGTCATCGGACATTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATTGGACCTTTTAATCCATAAAGGAATCAT
*
22302412 ATACTTACGATGACACATAGTCATTGGACCTTTTAATCCATAAAGG-ATCAT
1 ATACTCACGATGACACATAGTCATTGGACCTTTTAATCCATAAAGGAATCAT
*
22302463 ATACTCACGATGACACATAGTCATCGGACCTTTT
1 ATACTCACGATGACACATAGTCATTGGACCTTTT
22302497 CTTTATTTAC
Statistics
Matches: 175, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 36 0.21
52 139 0.79
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATTGGACCTTTTAATCCATAAAGGAATCAT
Found at i:22316226 original size:20 final size:20
Alignment explanation
Indices: 22316188--22316226 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
22316178 ACAGTGGAAA
22316188 CAAAATTAATCATAGCAAAAT
1 CAAAATTAATCA-AGCAAAAT
22316209 CAAAATTAACTC-AGCAAA
1 CAAAATTAA-TCAAGCAAA
22316227 CAGGAAGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 9 0.53
22 2 0.12
ACGTcount: A:0.56, C:0.18, G:0.05, T:0.21
Consensus pattern (20 bp):
CAAAATTAATCAAGCAAAAT
Found at i:22316563 original size:8 final size:7
Alignment explanation
Indices: 22316550--22316593 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
22316540 TTTCCTGGAC
22316550 AAATAAGA
1 AAATAA-A
22316558 AAATAAA
1 AAATAAA
22316565 TAAATAAA
1 -AAATAAA
*
22316573 ATA-AAA
1 AAATAAA
22316579 AAATAAA
1 AAATAAA
22316586 AAATAAA
1 AAATAAA
22316593 A
1 A
22316594 TTTAAAATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 5 0.16
7 14 0.44
8 13 0.41
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:22316575 original size:13 final size:13
Alignment explanation
Indices: 22316557--22316586 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22316547 GACAAATAAG
*
22316557 AAAATAAATAAAT
1 AAAATAAAAAAAT
22316570 AAAATAAAAAAAT
1 AAAATAAAAAAAT
22316583 AAAA
1 AAAA
22316587 AATAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:22316600 original size:20 final size:21
Alignment explanation
Indices: 22316550--22316594 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
22316540 TTTCCTGGAC
*
22316550 AAATAAGAAAATAAATAAATA
1 AAATAAAAAAATAAATAAATA
22316571 AAATAAAAAAATAAA-AAATA
1 AAATAAAAAAATAAATAAATA
22316591 AAAT
1 AAAT
22316595 TTAAAATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (21 bp):
AAATAAAAAAATAAATAAATA
Found at i:22321637 original size:29 final size:30
Alignment explanation
Indices: 22321594--22321653 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
22321584 ATATTGGTCA
* *
22321594 CAAAATTTAATTAAAGCTC-AATTTAGTCC
1 CAAAATTTAACTAAAACTCTAATTTAGTCC
* *
22321623 CAAAATTTCACTAAAATTCTAATTTAGTCC
1 CAAAATTTAACTAAAACTCTAATTTAGTCC
22321653 C
1 C
22321654 TAATTCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (30 bp):
CAAAATTTAACTAAAACTCTAATTTAGTCC
Found at i:22325261 original size:14 final size:14
Alignment explanation
Indices: 22325228--22325268 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
22325218 CAGGGACGAT
22325228 CCTTTCTTCTTTCC
1 CCTTTCTTCTTTCC
** *
22325242 AGTTTCTCCTTTCC
1 CCTTTCTTCTTTCC
22325256 CCTTTCTTCTTTC
1 CCTTTCTTCTTTC
22325269 GGTAAGCATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.02, C:0.39, G:0.02, T:0.56
Consensus pattern (14 bp):
CCTTTCTTCTTTCC
Found at i:22335482 original size:51 final size:51
Alignment explanation
Indices: 22335398--22335636 Score: 324
Period size: 51 Copynumber: 4.7 Consensus size: 51
22335388 GCTATAAATG
* *
22335398 AAAGAGTCCGATGACTAAGTGTCATCGTAAGTAAATGAATCCTTTATGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
22335450 AAAGGTCCGTTGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * *
22335501 AAAGGTCTGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACAGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * *
22335552 AAAGGTTCGATGACT-A---TCATCGTGAGTAAATGAATCCATGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
22335599 AAAGGTCCGATGACTCAGTGTCATCGTGAGTATATGAA
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAA
22335637 CTTCTATACG
Statistics
Matches: 167, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
47 40 0.24
48 1 0.01
50 1 0.01
51 121 0.72
52 4 0.02
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:22335629 original size:98 final size:100
Alignment explanation
Indices: 22335398--22335636 Score: 320
Period size: 98 Copynumber: 2.4 Consensus size: 100
22335388 GCTATAAATG
* ** *
22335398 AAAGAGTCCGATGACTAAGTGTCATCGTAAGTAAATGAATCCTTTATGGATTAAAGGTCCGTTGA
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTCCGATGA
* * *
22335463 CTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATT
65 CTAA--GTCATCATGAGTAAATGAATCCATGACGAATT
* * *
22335501 AAAGGTCTGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACAGATTAAAGGTTCGATGAC
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTCCGATGAC
*
22335566 T-A-TCATCGTGAGTAAATGAATCCATGACGAATT
66 TAAGTCATCATGAGTAAATGAATCCATGACGAATT
* *
22335599 AAAGGTCCGATGACTCAGTGTCATCGTGAGTATATGAA
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAA
22335637 CTTCTATACG
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
98 61 0.50
101 1 0.01
102 55 0.45
103 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (100 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTCCGATGAC
TAAGTCATCATGAGTAAATGAATCCATGACGAATT
Done.