Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 206 of 328
Found at i:61926805 original size:54 final size:53
Alignment explanation
Indices: 61926747--61926870 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 53
61926737 TACAAACTAG
* * * *
61926747 GGGTATTTTAGTAATTTTTTAAATCGAGGGTAAAACGGTAATTCTATAAATCAA
1 GGGTAATTTGGTAATTTTATAAATCGAGCGTAAAACGGTAATTCTATAAATC-A
** * * * *
61926801 GGGTAAAATGGTAATTCTATAAATCGAGCGTAGAACGGTAATTCTGTAAATCG
1 GGGTAATTTGGTAATTTTATAAATCGAGCGTAAAACGGTAATTCTATAAATCA
*
61926854 GGGTACTTTGGTAATTT
1 GGGTAATTTGGTAATTT
61926871 GGTAAACTAA
Statistics
Matches: 56, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
53 13 0.23
54 43 0.77
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.35
Consensus pattern (53 bp):
GGGTAATTTGGTAATTTTATAAATCGAGCGTAAAACGGTAATTCTATAAATCA
Found at i:61928730 original size:43 final size:43
Alignment explanation
Indices: 61928619--61928720 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
61928609 TATGGATTTC
*** * *
61928619 GGCACTAAGTGTGCG-GGTCTAAATGGGCACGGTGACAAGATT
1 GGCACTAAGTGTGCGAGAAGTAAATGTGTACGGTGACAAGATT
* *
61928661 GGCACTAAGTGTTCGAGAAGTAAATGTGTACGGTGACGAGATT
1 GGCACTAAGTGTGCGAGAAGTAAATGTGTACGGTGACAAGATT
*
61928704 GGCACTGAGTGTGCGAG
1 GGCACTAAGTGTGCGAG
61928721 CTTGAAATGT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 14 0.28
43 36 0.72
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (43 bp):
GGCACTAAGTGTGCGAGAAGTAAATGTGTACGGTGACAAGATT
Found at i:61928735 original size:29 final size:28
Alignment explanation
Indices: 61928703--61928805 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
61928693 GTGACGAGAT
*
61928703 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACT-AGTGTGCGAGCTTGAAATATA
* * *
61928732 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACT-AGTGTGCGAGCTTGAAATATA
* **
61928761 TGGCACTATGTGTGCGGGCTT-AAATCACC
1 TGGCACTA-GTGTGCGAGCTTGAAAT-ATA
61928790 TGGCACTAAGTGTGCG
1 TGGCACT-AGTGTGCG
61928806 TGATCGAGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 3 0.05
29 56 0.93
30 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (28 bp):
TGGCACTAGTGTGCGAGCTTGAAATATA
Found at i:61932373 original size:31 final size:31
Alignment explanation
Indices: 61932335--61932405 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
61932325 TTACTGGGCT
61932335 GAAGCCTTTTCATAAATCATATCACTAGGCC
1 GAAGCCTTTTCATAAATCATATCACTAGGCC
* *
61932366 GAAGCCTTTTCATAAATCATTTCACTGGGCC
1 GAAGCCTTTTCATAAATCATATCACTAGGCC
61932397 GAAGCCTTT
1 GAAGCCTTT
61932406 ACTGTAAACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (31 bp):
GAAGCCTTTTCATAAATCATATCACTAGGCC
Found at i:61932474 original size:42 final size:42
Alignment explanation
Indices: 61932427--61932520 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 42
61932417 TATGGCCCAT
* **
61932427 AAGCCCATTTCAATATCACATGTAATGTCAAT-AGATGTATGC
1 AAGCCCATTTCAATATCACATGAAATACCAATGA-ATGTATGC
*
61932469 AAGCCCATTTCAATATCATATGAAATACCAATGAATGTATGC
1 AAGCCCATTTCAATATCACATGAAATACCAATGAATGTATGC
61932511 AAGCCCATTT
1 AAGCCCATTT
61932521 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (42 bp):
AAGCCCATTTCAATATCACATGAAATACCAATGAATGTATGC
Found at i:61932694 original size:25 final size:25
Alignment explanation
Indices: 61932653--61932720 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
61932643 CTGGAGGCCT
61932653 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
**
61932677 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
61932702 AGCCCTTTTCAATAAACTG
1 AGCCCTTTTCAATAAACTG
61932721 CCTTTTCGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 5 0.13
24 5 0.13
25 28 0.74
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:61932741 original size:41 final size:42
Alignment explanation
Indices: 61932680--61932762 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 42
61932670 GGGGCAAAGC
*
61932680 CCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAAACTG
1 CCTTTTCGGTAAACTAGGGCATAAGCCCTTTTCAATAAACTG
61932721 CCTTTTCGGTAAACTAGGGCATAAGCCCTTTTCAATAAACTG
1 CCTTTTCGGTAAACTAGGGCATAAGCCCTTTTCAATAAACTG
61932763 GGGCATAAGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 20 0.50
42 20 0.50
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (42 bp):
CCTTTTCGGTAAACTAGGGCATAAGCCCTTTTCAATAAACTG
Found at i:61932751 original size:26 final size:26
Alignment explanation
Indices: 61932721--61932778 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
61932711 CAATAAACTG
**
61932721 CCTTTTCGGTAAACTAGGGCATAAGC
1 CCTTTTCAATAAACTAGGGCATAAGC
*
61932747 CCTTTTCAATAAACTGGGGCATAAGC
1 CCTTTTCAATAAACTAGGGCATAAGC
61932773 CCTTTT
1 CCTTTT
61932779 GCACTTCCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (26 bp):
CCTTTTCAATAAACTAGGGCATAAGC
Found at i:61932853 original size:20 final size:20
Alignment explanation
Indices: 61932828--61932894 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
61932818 TTATGAATAC
61932828 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
61932848 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
61932868 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
61932888 ATCATGT
1 ATCATGT
61932895 ATATCATATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:61935374 original size:40 final size:40
Alignment explanation
Indices: 61935294--61935434 Score: 146
Period size: 40 Copynumber: 3.5 Consensus size: 40
61935284 AATGATGTCT
* * *
61935294 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGC-GAGCT-ACTAAATCC
* * *
61935334 GGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTCGTGCGAGCTACTAAATCC
*
61935374 GGGTTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTA-AATCC
*
61935414 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
61935435 TGAACGAGTA
Statistics
Matches: 86, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
40 75 0.87
41 10 0.12
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTAAATCC
Found at i:61935450 original size:40 final size:40
Alignment explanation
Indices: 61935325--61935455 Score: 106
Period size: 40 Copynumber: 3.3 Consensus size: 40
61935315 GTGCTAAGTG
* * * ** *
61935325 ACTATATCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTT
1 ACTATAACCGGGCTAAG-TCCCGAAGGCATTCGAACGAGCT
* **
61935365 ACTA-AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGCT
1 ACTATAA-CCGGGCTAAGTCCCGAAGGCATTCGAACGAGCT
* *
61935405 ACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-T
1 ACTATAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGCT
*
61935444 AGCTATATCCGG
1 A-CTATAACCGG
61935456 TTAAACTCCG
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
39 4 0.05
40 70 0.92
41 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ACTATAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGCT
Found at i:61946427 original size:40 final size:40
Alignment explanation
Indices: 61946340--61946525 Score: 164
Period size: 40 Copynumber: 4.7 Consensus size: 40
61946330 TCGAATGATG
* * * *
61946340 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
61946380 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
61946420 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGATACTGAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* ** * *
61946460 TCTGGGTTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
61946501 T-AGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
61946526 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 111 0.90
41 11 0.09
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61948026 original size:27 final size:27
Alignment explanation
Indices: 61948003--61948136 Score: 110
Period size: 27 Copynumber: 5.0 Consensus size: 27
61947993 TTGGTAAATC
*
61948003 TACAAATAAAGGGTATTTCTGTAATTT
1 TACAAATTAAGGGTATTTCTGTAATTT
**
61948030 TGTAAATTAAGGGTATTT-TGGTAATTT
1 TACAAATTAAGGGTATTTCT-GTAATTT
* *
61948057 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATTAAGGGTATTTCTGTAATTT
* * ** *
61948084 CAAAAACCAATGGTATTT-TGGTAATTT
1 TACAAATTAAGGGTATTTCT-GTAATTT
* * * *
61948111 TACAAACTAGGGGTGTTTTTGTAATT
1 TACAAATTAAGGGTATTTCTGTAATT
61948137 CTACCCTATA
Statistics
Matches: 83, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
26 1 0.01
27 81 0.98
28 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (27 bp):
TACAAATTAAGGGTATTTCTGTAATTT
Found at i:61948099 original size:54 final size:54
Alignment explanation
Indices: 61947983--61948116 Score: 160
Period size: 54 Copynumber: 2.5 Consensus size: 54
61947973 TTTCATCCTA
* * * * *** *
61947983 CAAGGGTGTTTTGGTAAATCTACAAATAAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTCGGTAATTTCAAAAAC
* **
61948037 TAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAAAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTCGGTAATTTCAAAAAC
*
61948091 CAATGGTATTTTGGTAATTTTACAAA
1 CAAGGGTATTTTGGTAATTTTACAAA
61948117 CTAGGGGTGT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTCGGTAATTTCAAAAAC
Found at i:61948198 original size:27 final size:27
Alignment explanation
Indices: 61948168--61948450 Score: 178
Period size: 27 Copynumber: 10.4 Consensus size: 27
61948158 GTAATTTCAC
*
61948168 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
* * *
61948195 AATC-AGGGATAAAATAGTAATTCTGTA
1 AATCGAGGG-TAAAATGGTAATTTTATA
*** *
61948222 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
***
61948249 AATCGAGGGTACTCTGGTAATTTT-TA
1 AATCGAGGGTAAAATGGTAATTTTATA
** * *
61948275 CAAGTCGAGGGT-ATTTCAGTAATTTTACA
1 -AA-TCGAGGGTAAAAT-GGTAATTTTATA
* *** * *
61948304 AATCAGGGGGTATTTTAGTAATTTTACA
1 AATC-GAGGGTAAAATGGTAATTTTATA
* *** * *
61948332 AA-CCAGGGGTATTTTAGTAATTTTGTA
1 AATCGA-GGGTAAAATGGTAATTTTATA
* * *
61948359 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
61948386 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
* * *
61948413 AATCGAGGGTAGAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
*
61948440 AATCGGGGGTA
1 AATCGAGGGTA
61948451 CTCTGGTAAT
Statistics
Matches: 208, Mismatches: 38, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
26 6 0.03
27 156 0.75
28 42 0.20
29 4 0.02
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTATA
Found at i:61948296 original size:28 final size:26
Alignment explanation
Indices: 61948249--61948355 Score: 106
Period size: 28 Copynumber: 3.9 Consensus size: 26
61948239 TAATTCTATA
* * *
61948249 AATCGAGGGTACTCTGGTAATTTTTAC
1 AATCGAGGGTATTTTAGTAA-TTTTAC
*
61948276 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AA-TCGAGGGTATTTTAGTAATTTTAC
*
61948303 AAATCAGGGGGTATTTTAGTAATTTTAC
1 -AATC-GAGGGTATTTTAGTAATTTTAC
* *
61948331 AAACCAGGGGTATTTTAGTAATTTT
1 AATCGA-GGGTATTTTAGTAATTTT
61948356 GTAAATTGAG
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
27 31 0.46
28 36 0.54
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.38
Consensus pattern (26 bp):
AATCGAGGGTATTTTAGTAATTTTAC
Found at i:61948298 original size:55 final size:54
Alignment explanation
Indices: 61948239--61948369 Score: 129
Period size: 55 Copynumber: 2.4 Consensus size: 54
61948229 GGTAAAACAA
* * **
61948239 TAATTCTATAAATCGAGGGTACTCTGGTAATTTTTACAAGTC-GAGGGTATTTCAG
1 TAATTTTATAAATCGAGGGTACTCTAGTAA-TTTTACAAACCAG-GGGTATTTCAG
* * * * *
61948294 TAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTAG
1 TAATTTTATAAATC-GAGGGTACTCTAGTAATTTTACAAACCAGGGGTATTTCAG
* *
61948349 TAATTTTGTAAATTGAGGGTA
1 TAATTTTATAAATCGAGGGTA
61948370 AAACGGTAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
54 6 0.10
55 42 0.69
56 13 0.21
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
TAATTTTATAAATCGAGGGTACTCTAGTAATTTTACAAACCAGGGGTATTTCAG
Found at i:61948396 original size:54 final size:54
Alignment explanation
Indices: 61948348--61948470 Score: 174
Period size: 54 Copynumber: 2.3 Consensus size: 54
61948338 GGGTATTTTA
*
61948348 GTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAATATG
* * * * * *
61948402 GTAATTTTATAAATCGAGGGTAGAACGGTAATTCTATAAATCGGGGGTACTCTG
1 GTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAATATG
*
61948456 GTAATTTGGTAAATT
1 GTAATTTTGTAAATT
61948471 AAAGTATTCT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.33
Consensus pattern (54 bp):
GTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAATATG
Found at i:61950724 original size:31 final size:31
Alignment explanation
Indices: 61950676--61950754 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
61950666 TTTAACAGTT
*
61950676 ACTGGGCCGAAGACTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
61950707 ACTGGGCTGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
61950738 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
61950755 ACTGTAAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:61950825 original size:42 final size:42
Alignment explanation
Indices: 61950778--61950869 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
61950768 TGGCCCATAG
* ** *
61950778 GCCCATTTCAATATCACATGTAATGTCAATGGATGCATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGCATGCAA
* *
61950820 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGCATGCAA
61950862 GCCCATTT
1 GCCCATTT
61950870 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGCATGCAA
Found at i:61951084 original size:26 final size:26
Alignment explanation
Indices: 61951002--61951136 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
61950992 CTGAAGGCCT
61951002 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
61951026 AGCCCTTTTCAGTAAACT-GGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
61951050 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
***
61951076 AGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
61951102 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
61951128 AGCCCTTTT
1 AGCCCTTTT
61951137 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
23 5 0.05
24 29 0.29
25 9 0.09
26 56 0.57
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:61951211 original size:20 final size:20
Alignment explanation
Indices: 61951186--61951251 Score: 98
Period size: 20 Copynumber: 3.3 Consensus size: 20
61951176 TTATGAATAC
61951186 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
61951206 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
61951226 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
61951246 ATCATG
1 ATCATG
61951252 CATATCATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:61952170 original size:54 final size:54
Alignment explanation
Indices: 61952062--61952187 Score: 153
Period size: 54 Copynumber: 2.3 Consensus size: 54
61952052 TATAAGAGTG
* * * *** **
61952062 TTTTGGTAAATCTACAAATCAAGGGTATTTCTGTAATTTTGTAAATTAGGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAGGGGTA
** *
61952116 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAGGGGTA
61952170 TTTTGGTAATTTTACAAA
1 TTTTGGTAATTTTACAAA
61952188 CTAGGGGTGT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAGGGGTA
Found at i:61952170 original size:81 final size:81
Alignment explanation
Indices: 61952085--61952240 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
61952075 ACAAATCAAG
** * * * *
61952085 GGTATTTCT-GTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTA-CAAATTGAGGGTATTTCG
1 GGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCAAATAG-GGGTATTTCA
61952148 GTAATTTCACAAACCAGT
64 GTAATTTCACAAACCAGT
* **
61952166 GGTATTTTGGTAATTTTACAAACTAGGGGTGTTTTGGTAATTCTACCTTATAGGGGTATTTCAGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCAAATAGGGGTATTTCAGT
61952231 AATTTCACAA
66 AATTTCACAA
61952241 TCATGGGTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.02
81 59 0.92
82 4 0.06
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCAAATAGGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:61952188 original size:27 final size:26
Alignment explanation
Indices: 61952062--61952207 Score: 114
Period size: 27 Copynumber: 5.4 Consensus size: 26
61952052 TATAAGAGTG
* * *
61952062 TTTTGGTAAATCTACAAATCAAGGGTA
1 TTTTGGTAATTTTACAAA-CCAGGGTA
** **
61952089 TTTCT-GTAATTTTGTAAATTAGGGGTA
1 TTT-TGGTAATTTTACAAACCA-GGGTA
**
61952116 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAA-CCAGGGTA
* *
61952143 TTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACCAG-GGTA
* *
61952170 TTTTGGTAATTTTACAAACTAGGGGTG
1 TTTTGGTAATTTTACAAACCA-GGGTA
61952197 TTTTGGTAATT
1 TTTTGGTAATT
61952208 CTACCTTATA
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
26 4 0.04
27 88 0.92
28 4 0.04
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (26 bp):
TTTTGGTAATTTTACAAACCAGGGTA
Found at i:61952226 original size:54 final size:54
Alignment explanation
Indices: 61952062--61952207 Score: 152
Period size: 54 Copynumber: 2.7 Consensus size: 54
61952052 TATAAGAGTG
* * * *** *
61952062 TTTTGGTAAATCTACAAATCA-AGGGTATTTCTGTAATTTTGTAAATTAGGGGTA
1 TTTTGGTAATTTTACAAAT-AGAGGGTATTTCGGTAATTTCACAAACTAGGGGTA
* * *
61952116 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACTAGGGGTA
* *
61952170 TTTTGGTAATTTTACAAACTAG-GGGTGTTTTGGTAATT
1 TTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATT
61952208 CTACCTTATA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 75 0.97
55 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACTAGGGGTA
Found at i:61952258 original size:26 final size:26
Alignment explanation
Indices: 61952228--61952314 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 26
61952218 GGGGTATTTC
*
61952228 AGTAATTT-CACAATCATGGGTAAAAT
1 AGTAATTTGCA-AATCAGGGGTAAAAT
* *
61952254 GGTAATTTTGTAAATCAGGGGTAAAAT
1 AGTAA-TTTGCAAATCAGGGGTAAAAT
* * *
61952281 AGTAATTCTGTAAATC-GAAGGTAAAAC
1 AGTAATT-TGCAAATCAG-GGGTAAAAT
61952308 AGTAATT
1 AGTAATT
61952315 CTATAAATCG
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 7 0.14
27 43 0.84
28 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (26 bp):
AGTAATTTGCAAATCAGGGGTAAAAT
Found at i:61952378 original size:55 final size:54
Alignment explanation
Indices: 61952307--61952440 Score: 153
Period size: 55 Copynumber: 2.4 Consensus size: 54
61952297 GAAGGTAAAA
* * ***
61952307 CAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTAC-AAGTTGAGGGTATTT
1 CAGTAATTTTATAAATCGAGGGTACTTTAGTAA-TTTTACAAACCAG-GGGTATTT
* * *
61952362 CAGTAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAGTAATTTTATAAATC-GAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTT
*
61952417 TAGTAATTTTATAAATCGAGGGTA
1 CAGTAATTTTATAAATCGAGGGTA
61952441 AAACGGTAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
54 6 0.09
55 44 0.67
56 16 0.24
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
CAGTAATTTTATAAATCGAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTT
Found at i:61952385 original size:28 final size:28
Alignment explanation
Indices: 61952354--61952438 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 28
61952344 TACAAGTTGA
*
61952354 GGGTATTTCAGTAATTTTACAAATCAGG
1 GGGTATTTTAGTAATTTTACAAATCAGG
*
61952382 GGGTATTTTAGTAATTTTACAAACCA-G
1 GGGTATTTTAGTAATTTTACAAATCAGG
*
61952409 GGGTATTTTAGTAATTTTATAAATCGAGG
1 GGGTATTTTAGTAATTTTACAAATC-AGG
61952438 G
1 G
61952439 TAAAACGGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 24 0.47
28 25 0.49
29 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (28 bp):
GGGTATTTTAGTAATTTTACAAATCAGG
Found at i:61952421 original size:137 final size:135
Alignment explanation
Indices: 61952219--61952467 Score: 336
Period size: 137 Copynumber: 1.8 Consensus size: 135
61952209 TACCTTATAG
* * ** *
61952219 GGGTATTTCAGTAATTTCACAATCATGGGTAAAATGGTAATTTTGTAAATCAGGGGTAAAATAGT
1 GGGTATTTCAGTAATTTCACAATCAGGGGTAAAATAGTAATTTTACAAACCAGGGGTAAAATAGT
*
61952284 AATTCTGTAAATCGAAGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAA
66 AATTCTATAAATCGAAGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAA
61952349 GTTGA
131 GTTGA
* *** ***
61952354 GGGTATTTCAGTAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTA
1 GGGTATTTCAGTAATTTCAC-AATCA-GGGGTAAAATAGTAATTTTACAAACCAGGGGTAAAATA
* * *
61952419 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
64 GTAATTCTATAAATCGAAGGTAAAACAGTAATTCTATAAATCGAGGGTA
61952468 AAATGGTAAT
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
135 19 0.20
136 5 0.05
137 72 0.75
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (135 bp):
GGGTATTTCAGTAATTTCACAATCAGGGGTAAAATAGTAATTTTACAAACCAGGGGTAAAATAGT
AATTCTATAAATCGAAGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAA
GTTGA
Found at i:61952532 original size:27 final size:27
Alignment explanation
Indices: 61952245--61952521 Score: 157
Period size: 27 Copynumber: 10.2 Consensus size: 27
61952235 TCACAATCAT
* *
61952245 GGGTAAAATGGTAATTTTGTAAATC-A
1 GGGTAAAATGGTAATTCTATAAATCGA
* *
61952271 GGGGTAAAATAGTAATTCTGTAAATCGA
1 -GGGTAAAATGGTAATTCTATAAATCGA
* **
61952299 AGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
*** * *
61952326 GGGTACTTTGGTAATT-TTTACAAGTTGA
1 GGGTAAAATGGTAATTCTATA-AA-TCGA
** * * * *
61952354 GGGT-ATTTCAGTAATTTTACAAATCAGG
1 GGGTAAAAT-GGTAATTCTATAAATC-GA
*** * * * *
61952382 GGGTATTTTAGTAATTTTACAAA-CCA
1 GGGTAAAATGGTAATTCTATAAATCGA
*** * *
61952408 GGGGTATTTTAGTAATTTTATAAATCGA
1 -GGGTAAAATGGTAATTCTATAAATCGA
*
61952436 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
61952463 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* * * *
61952490 GGGTAGAACGGTAATTCTGTAAATCGG
1 GGGTAAAATGGTAATTCTATAAATCGA
61952517 GGGTA
1 GGGTA
61952522 CTTTGGTAAT
Statistics
Matches: 206, Mismatches: 35, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
26 3 0.01
27 161 0.78
28 37 0.18
29 5 0.02
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (27 bp):
GGGTAAAATGGTAATTCTATAAATCGA
Found at i:61957704 original size:14 final size:14
Alignment explanation
Indices: 61957685--61957740 Score: 85
Period size: 14 Copynumber: 4.0 Consensus size: 14
61957675 GACCAATTCA
*
61957685 TTCATACCCTTTCG
1 TTCATACCATTTCG
*
61957699 TTCATACCATTTCA
1 TTCATACCATTTCG
*
61957713 TCCATACCATTTCG
1 TTCATACCATTTCG
61957727 TTCATACCATTTCG
1 TTCATACCATTTCG
61957741 ACCATTCCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.21, C:0.32, G:0.05, T:0.41
Consensus pattern (14 bp):
TTCATACCATTTCG
Found at i:61957745 original size:28 final size:28
Alignment explanation
Indices: 61957676--61957739 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
61957666 ACCTAAATCG
* * *
61957676 ACCAATTCATTCATACCCTTTCGTTCAT
1 ACCATTTCATCCATACCATTTCGTTCAT
61957704 ACCATTTCATCCATACCATTTCGTTCAT
1 ACCATTTCATCCATACCATTTCGTTCAT
61957732 ACCATTTC
1 ACCATTTC
61957740 GACCATTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.25, C:0.33, G:0.03, T:0.39
Consensus pattern (28 bp):
ACCATTTCATCCATACCATTTCGTTCAT
Found at i:61957998 original size:19 final size:17
Alignment explanation
Indices: 61957976--61958018 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
61957966 TGAAGACAGT
*
61957976 AAAAAAAATAAAAGATGAA
1 AAAAAAAAGAAAA-A-GAA
*
61957995 AAAAACAAGAAAAAGAA
1 AAAAAAAAGAAAAAGAA
61958012 AAAAAAA
1 AAAAAAA
61958019 GAGAGTGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 9 0.43
18 1 0.05
19 11 0.52
ACGTcount: A:0.84, C:0.02, G:0.09, T:0.05
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAA
Found at i:61963182 original size:39 final size:39
Alignment explanation
Indices: 61963135--61963317 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
61963125 AATGTTCGAG
61963135 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
61963174 TGATATCCGGGCTAAGCCCGAAGGCAATTGTACGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
61963213 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * * ** *
61963252 TGAGACCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
61963292 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
61963318 GTTTGAACGA
Statistics
Matches: 127, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 88 0.69
40 39 0.31
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:61966442 original size:40 final size:40
Alignment explanation
Indices: 61966381--61966504 Score: 171
Period size: 40 Copynumber: 3.1 Consensus size: 40
61966371 TTTAACCCGA
*
61966381 ATACCATTCCAGCATGA-AGCCTGCGGGTCTTTATGACCGG
1 ATACAATTCCAGCAT-ATAGCCTGCGGGTCTTTATGACCGG
* *
61966421 ATACAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGG
1 ATACAATTCCAGCATATAGCCTGCGGGTCTTTATGACCGG
* *
61966461 ATACACTTCCAGCATATAGCCTACGGGTCTTTAT-ACCCGG
1 ATACAATTCCAGCATATAGCCTGCGGGTCTTTATGA-CCGG
61966501 ATAC
1 ATAC
61966505 CACATCAAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
ATACAATTCCAGCATATAGCCTGCGGGTCTTTATGACCGG
Found at i:61968131 original size:2 final size:2
Alignment explanation
Indices: 61968124--61968156 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
61968114 ATTTGGCTCT
61968124 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61968157 TTGCACATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61968969 original size:39 final size:40
Alignment explanation
Indices: 61968867--61969012 Score: 181
Period size: 39 Copynumber: 3.6 Consensus size: 40
61968857 TCGAATGATA
* * *
61968867 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
61968907 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
61968948 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
61968987 TCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61969013 GCTAAGACAA
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
39 35 0.38
40 29 0.32
41 27 0.29
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:61982668 original size:37 final size:38
Alignment explanation
Indices: 61982557--61982670 Score: 171
Period size: 37 Copynumber: 3.1 Consensus size: 38
61982547 CGAATATTCC
* * *
61982557 CCACACGTAGTTATCGGGTCTTACTCGGACA-AAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATATATCT
*
61982594 CCACACGTAGTCATCGAGTCTTACCCGGACATA-ATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATATATCT
61982631 CCACACGTAGTCATCGGGTCTTACCCGGA-ATATATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATATATCT
61982668 CCA
1 CCA
61982671 AGTTTCATGT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
36 3 0.04
37 67 0.94
38 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (38 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATATATCT
Found at i:61982858 original size:48 final size:48
Alignment explanation
Indices: 61982800--61983093 Score: 426
Period size: 48 Copynumber: 6.0 Consensus size: 48
61982790 ATATACACAC
* * *
61982800 ATCTCCTACATATTTCACATTAGCCATTCGACTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
61982848 ATCTCATACATATTTCACATTAGCCATTTGGATTGACCACATATATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC----ATATACAT
**
61982900 ATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
61982948 ATCTCATATATATTTCACATTAGCCATTTGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
61982996 ATCTCATACATATTTCAGATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
61983044 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
61983092 AT
1 AT
61983094 ATTTATCTTG
Statistics
Matches: 218, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
48 176 0.81
52 42 0.19
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:61990646 original size:42 final size:42
Alignment explanation
Indices: 61990599--61990703 Score: 201
Period size: 42 Copynumber: 2.5 Consensus size: 42
61990589 TTGGTCTCGA
61990599 CACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGG
1 CACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGG
61990641 CACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGG
1 CACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGG
*
61990683 CACTAAGTGTGCGGGTTTAAA
1 CACTAAGTGTGCGGGTATAAA
61990704 ATTTGTACAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.23
Consensus pattern (42 bp):
CACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGG
Found at i:61990752 original size:28 final size:27
Alignment explanation
Indices: 61990712--61990779 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
61990702 AAATTTGTAC
**
61990712 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCG-AGCTGATTATAT
* *
61990740 AGCACTATGTGTGCGAGCTGGTTATAT
1 AGCACTAAGTGTGCGAGCTGATTATAT
61990767 AGCACTAAGTGTG
1 AGCACTAAGTGTG
61990780 TGGACTCACT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTGATTATAT
Found at i:61998648 original size:42 final size:42
Alignment explanation
Indices: 61998601--61998707 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
61998591 TATTGGTCTC
*
61998601 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATT
61998643 GGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATT
*
61998685 GGCACTAAGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
61998708 ATTTGTACAG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATT
Found at i:61998773 original size:27 final size:28
Alignment explanation
Indices: 61998716--61998785 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
61998706 AAATTTGTAC
**
61998716 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
61998744 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
61998771 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
61998786 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:62004667 original size:41 final size:41
Alignment explanation
Indices: 62004622--62004739 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
62004612 TGAAAGATAA
62004622 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
62004663 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62004693 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62004734 ATGTAG
1 ATGTAG
62004740 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:62004678 original size:71 final size:71
Alignment explanation
Indices: 62004590--62004753 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62004580 GAGATGTATC
62004590 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62004655 AGGACA
66 AGGACA
62004661 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62004726 AGGACA
66 AGGACA
62004732 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
62004754 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:62012213 original size:41 final size:41
Alignment explanation
Indices: 62012168--62012285 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
62012158 TGAAAGATAA
62012168 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
62012209 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62012239 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62012280 ATGTAG
1 ATGTAG
62012286 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:62012224 original size:71 final size:71
Alignment explanation
Indices: 62012136--62012299 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62012126 GAGATGTATC
62012136 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62012201 AGGACA
66 AGGACA
62012207 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62012272 AGGACA
66 AGGACA
62012278 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
62012300 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:62019649 original size:40 final size:40
Alignment explanation
Indices: 62019566--62019786 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
62019556 ACCCAAGTAT
** * *
62019566 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
62019604 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
62019644 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
62019684 CTTCGGGTCTTAGCCCGGATATAG-CAAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC--ACTAGCACAAATGC
* * * *
62019725 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
62019765 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
62019787 CATTCGAATA
Statistics
Matches: 156, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 93 0.60
41 34 0.22
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:62019745 original size:81 final size:80
Alignment explanation
Indices: 62019566--62019786 Score: 270
Period size: 81 Copynumber: 2.8 Consensus size: 80
62019556 ACCCAAGTAT
* ** * * *
62019566 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
*
62019629 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* *
62019644 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
*
62019708 CAAACTCGCACAAATGC
66 C--ACTAGCACAAATGC
* * *
62019725 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
62019787 CATTCGAATA
Statistics
Matches: 124, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
78 12 0.10
79 17 0.14
80 30 0.24
81 65 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:62024961 original size:16 final size:17
Alignment explanation
Indices: 62024926--62025011 Score: 70
Period size: 17 Copynumber: 5.0 Consensus size: 17
62024916 AGAAAGAATT
62024926 TGAAAGAAAAAAAGAAA
1 TGAAAGAAAAAAAGAAA
* *
62024943 TGAAAGAAAAAGAG-TA
1 TGAAAGAAAAAAAGAAA
62024959 TGAAAGAGAGCAAAAAGAAA
1 TGAAAGA-A--AAAAAGAAA
*
62024979 -GTAAGAAAAAGAA-AAA
1 TGAAAGAAAAA-AAGAAA
**
62024995 TGAAATTAAAAAAGAAA
1 TGAAAGAAAAAAAGAAA
62025012 AAGAATTTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
16 16 0.30
17 26 0.48
18 1 0.02
19 10 0.19
20 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.20, T:0.09
Consensus pattern (17 bp):
TGAAAGAAAAAAAGAAA
Found at i:62024994 original size:21 final size:19
Alignment explanation
Indices: 62024970--62025013 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
62024960 GAAAGAGAGC
62024970 AAAAAGAAAGTAAGAAAAAGA
1 AAAAAGAAA-TAA-AAAAAGA
* *
62024991 AAAATGAAATTAAAAAAGA
1 AAAAAGAAATAAAAAAAGA
62025010 AAAA
1 AAAA
62025014 GAATTTGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (19 bp):
AAAAAGAAATAAAAAAAGA
Found at i:62025012 original size:18 final size:18
Alignment explanation
Indices: 62024984--62025044 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
62024974 AGAAAGTAAG
62024984 AAAAAGAAAAATGAAATTA
1 AAAAAG-AAAATGAAATTA
* * *
62025003 AAAAAGAAAAAGAATTTG
1 AAAAAGAAAATGAAATTA
** *
62025021 ATCAAGAAAATAAAATTGA
1 AAAAAGAAAATGAAATT-A
62025040 AAAAA
1 AAAAA
62025045 AAAGTGAGTA
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
18 21 0.70
19 9 0.30
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.16
Consensus pattern (18 bp):
AAAAAGAAAATGAAATTA
Found at i:62029698 original size:20 final size:22
Alignment explanation
Indices: 62029641--62029698 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 22
62029631 TTTAAAGCTA
*
62029641 GCTAAGACAAATTAAATTTGGCT
1 GCTAAGACAAATTAAA-TTGGCG
* * *
62029664 GCTATGATAACTTAAA-T-GCG
1 GCTAAGACAAATTAAATTGGCG
62029684 GCTAAGACAAATTAA
1 GCTAAGACAAATTAA
62029699 TTGAATCATG
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 14 0.50
21 1 0.04
23 13 0.46
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (22 bp):
GCTAAGACAAATTAAATTGGCG
Found at i:62033265 original size:46 final size:46
Alignment explanation
Indices: 62033212--62033387 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62033202 TATTTGGGCA
62033212 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
62033258 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
62033305 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
62033351 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62033388 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:62033367 original size:93 final size:93
Alignment explanation
Indices: 62033208--62033379 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62033198 GGGATATTTG
* *
62033208 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62033273 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
62033301 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62033366 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62033380 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:62036376 original size:15 final size:15
Alignment explanation
Indices: 62036337--62036415 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
62036327 GTATCTTGGG
*
62036337 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
62036352 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
62036367 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
62036381 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
62036396 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
62036410 TTTCTT
1 TTTCTT
62036416 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:62036400 original size:29 final size:29
Alignment explanation
Indices: 62036328--62036414 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
62036318 CATAGTATCG
* * * *
62036328 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
62036358 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
62036387 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
62036415 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:62038848 original size:46 final size:46
Alignment explanation
Indices: 62038798--62038973 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62038788 TATTTGGGCA
62038798 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
62038844 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
62038891 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
62038937 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62038974 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:62038953 original size:93 final size:93
Alignment explanation
Indices: 62038794--62038965 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62038784 TGGATATTTG
* *
62038794 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62038859 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
62038887 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62038952 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62038966 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:62041347 original size:13 final size:13
Alignment explanation
Indices: 62041329--62041363 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
62041319 CGGCTAACCT
62041329 ACATAATTAAATA
1 ACATAATTAAATA
62041342 ACATAATTAAATA
1 ACATAATTAAATA
*
62041355 AAATAATTA
1 ACATAATTA
62041364 TTCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:62044503 original size:30 final size:28
Alignment explanation
Indices: 62044452--62044508 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
62044442 CACTTCACCT
*
62044452 TTTTTTTCTTTTTTTTTAATTTTGTACA
1 TTTTTTTCTTTTTTTTTAATTTCGTACA
62044480 TTTTTTTCTTTTTTTTTGAAATTTCGTAC
1 TTTTTTTCTTTTTTTTT--AATTTCGTAC
62044509 TTCACTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.65
30 9 0.35
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (28 bp):
TTTTTTTCTTTTTTTTTAATTTCGTACA
Found at i:62045722 original size:13 final size:13
Alignment explanation
Indices: 62045704--62045738 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
62045694 CGGCTAACCT
62045704 ACATAATTAAATA
1 ACATAATTAAATA
62045717 ACATAATTAAATA
1 ACATAATTAAATA
*
62045730 AAATAATTA
1 ACATAATTA
62045739 TTCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:62045977 original size:21 final size:20
Alignment explanation
Indices: 62045953--62045999 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
62045943 AGAAGAAATG
*
62045953 AGCTGAAATGAGCTAAATTCA
1 AGCTCAAATGAGCTAAA-TCA
*
62045974 AGCTCAAGTGAGCTAAATCA
1 AGCTCAAATGAGCTAAATCA
62045994 AGCTCA
1 AGCTCA
62046000 GGTGAGCTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
AGCTCAAATGAGCTAAATCA
Found at i:62045996 original size:20 final size:21
Alignment explanation
Indices: 62045961--62046007 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
62045951 TGAGCTGAAA
62045961 TGAGCTAAATTCAAGCTCAAG
1 TGAGCTAAATTCAAGCTCAAG
*
62045982 TGAGCTAAA-TCAAGCTCAGG
1 TGAGCTAAATTCAAGCTCAAG
62046002 TGAGCT
1 TGAGCT
62046008 GATTGGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (21 bp):
TGAGCTAAATTCAAGCTCAAG
Found at i:62058121 original size:14 final size:14
Alignment explanation
Indices: 62058102--62058157 Score: 85
Period size: 14 Copynumber: 4.0 Consensus size: 14
62058092 GACCAATTCA
*
62058102 TTCATACCCTTTCG
1 TTCATACCATTTCG
*
62058116 TTCATACCATTTCA
1 TTCATACCATTTCG
62058130 TTCATACCATTTCG
1 TTCATACCATTTCG
*
62058144 TTCATTCCATTTCG
1 TTCATACCATTTCG
62058158 ACCATTCCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (14 bp):
TTCATACCATTTCG
Found at i:62058133 original size:28 final size:28
Alignment explanation
Indices: 62058093--62058156 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
62058083 ACCTAAACCG
* *
62058093 ACCAATTCATTCATACCCTTTCGTTCAT
1 ACCATTTCATTCATACCATTTCGTTCAT
62058121 ACCATTTCATTCATACCATTTCGTTCAT
1 ACCATTTCATTCATACCATTTCGTTCAT
*
62058149 TCCATTTC
1 ACCATTTC
62058157 GACCATTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.23, C:0.31, G:0.03, T:0.42
Consensus pattern (28 bp):
ACCATTTCATTCATACCATTTCGTTCAT
Found at i:62058978 original size:17 final size:17
Alignment explanation
Indices: 62058956--62059008 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
62058946 GTTGCTTGAA
62058956 TAAATTACTCATCTTAG
1 TAAATTACTCATCTTAG
* *
62058973 TAAATTGAGTTCGTCTTAG
1 TAAATT-A-CTCATCTTAG
* *
62058992 TTAATAACTCATCTTAG
1 TAAATTACTCATCTTAG
62059009 ATTAATAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 14 0.50
18 2 0.07
19 12 0.43
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (17 bp):
TAAATTACTCATCTTAG
Found at i:62062152 original size:40 final size:40
Alignment explanation
Indices: 62062044--62062153 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
62062034 ATTGAATGAT
* * * * *
62062044 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
62062084 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
*
62062124 ATCTGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
62062154 AAATTGTGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:62062181 original size:40 final size:39
Alignment explanation
Indices: 62062044--62062193 Score: 124
Period size: 40 Copynumber: 3.8 Consensus size: 39
62062034 ATTGAATGAT
* * * * * * *
62062044 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
62062084 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* * *
62062124 ATCTGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
62062164 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
62062194 GGGTTACCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
40 84 0.93
41 1 0.01
43 5 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:62067951 original size:40 final size:40
Alignment explanation
Indices: 62067891--62068074 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
62067881 TATTCGAATG
*
62067891 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
62067931 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
62067971 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
62068011 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
62068051 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
62068075 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 122 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:62068024 original size:80 final size:80
Alignment explanation
Indices: 62067891--62068074 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
62067881 TATTCGAATG
* * *
62067891 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
62067955 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
62067971 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
62068036 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
62068051 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
62068075 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 91 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:62076030 original size:39 final size:40
Alignment explanation
Indices: 62075946--62076047 Score: 113
Period size: 39 Copynumber: 2.6 Consensus size: 40
62075936 ATGATAATGA
* * *
62075946 CTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG
1 CTATATCCGGACTAAGATCCGAAGGCACTTGTGCAAGTGG
*
62075986 CTATATCCGGGCTAAGA-CCTGAAGGC-CTTGTGCAAGTGG
1 CTATATCCGGACTAAGATCC-GAAGGCACTTGTGCAAGTGG
*
62076025 TTATATCCGGA-TAA-ATCCCGAAG
1 CTATATCCGGACTAAGAT-CCGAAG
62076048 ATACTTGGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.02
38 7 0.13
39 23 0.43
40 22 0.42
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
CTATATCCGGACTAAGATCCGAAGGCACTTGTGCAAGTGG
Found at i:62077793 original size:19 final size:19
Alignment explanation
Indices: 62077769--62077820 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
62077759 ATCTAAGATT
62077769 ATTAACTAAGATGAACTCA
1 ATTAACTAAGATGAACTCA
*
62077788 ATTAACTAAAATGAACTCA
1 ATTAACTAAGATGAACTCA
62077807 ATTAACTAAGATGA
1 ATTAACTAAGATGA
62077821 GTAATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (19 bp):
ATTAACTAAGATGAACTCA
Found at i:62081119 original size:26 final size:27
Alignment explanation
Indices: 62081090--62081145 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
62081080 GCAGCAACTA
62081090 ATTAAATTTG-TGT-CTAAACTAGACAC
1 ATTAAA-TTGATGTCCTAAACTAGACAC
62081116 ATTAAATTGATGTCCTAAACTAGACAC
1 ATTAAATTGATGTCCTAAACTAGACAC
62081143 ATT
1 ATT
62081146 TAAGCTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 3 0.11
26 9 0.32
27 16 0.57
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (27 bp):
ATTAAATTGATGTCCTAAACTAGACAC
Found at i:62085516 original size:40 final size:40
Alignment explanation
Indices: 62085311--62085532 Score: 264
Period size: 39 Copynumber: 5.7 Consensus size: 40
62085301 GCTACTCGTT
* *
62085311 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGT-ACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
* *
62085350 CAAATGCCTTCGGGA-CTTA-ACCCGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
62085389 C-AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
62085428 CAAATGCCTTC-GATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * *
62085467 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
62085508 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
62085533 CATCATTCGA
Statistics
Matches: 166, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
37 3 0.02
38 20 0.12
39 86 0.52
40 46 0.28
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:62085517 original size:79 final size:78
Alignment explanation
Indices: 62085313--62085518 Score: 251
Period size: 79 Copynumber: 2.6 Consensus size: 78
62085303 TACTCGTTCA
* * * * * *
62085313 AATGCCTTCGGGA-CATAGCCCGGTTATAGT-ACTCGCACAAATGCCTTCGGGA-CTTA-ACCCG
1 AATGCCTTC-GGATCTTAGTCCGGATATAGTAACTAGCACAAATGCCTTC--GATCTTAGTCCGG
62085374 ATTTAGTAACTCGCAC
63 ATTTAGTAACTCGCAC
* *
62085390 AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGATCTTAGTCCGGATT
1 AATGCCTTCGGATCTTAGTCCGGATATAGTAACTAGCACAAATGCCTTCGATCTTAGTCCGGATT
62085455 TAGTAACTCGCAC
66 TAGTAACTCGCAC
*
62085468 AAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCG
1 -AATGCCTTCGGATCTTAGTCCGGATATAGTAAC-TAGCACAAATGCCTTCG
62085519 GGACTTAGCC
Statistics
Matches: 114, Mismatches: 9, Indels: 10
0.86 0.07 0.08
Matches are distributed among these distances:
76 5 0.04
77 26 0.23
78 37 0.32
79 38 0.33
80 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (78 bp):
AATGCCTTCGGATCTTAGTCCGGATATAGTAACTAGCACAAATGCCTTCGATCTTAGTCCGGATT
TAGTAACTCGCAC
Found at i:62093545 original size:39 final size:41
Alignment explanation
Indices: 62093460--62093676 Score: 268
Period size: 39 Copynumber: 5.7 Consensus size: 41
62093450 GCTACTCGTT
* *
62093460 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGTCCGGATT-TAGTAACTCGCA
*
62093500 CAAATGCCTTCGGGA-CTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGTCCGGATTTAGTAACTCGCA
*
62093539 CCAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGTCCGGATTTAGTAACTCGCA
62093579 CAAATGCCTTC-GGATCTTAGTCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGTCCGGATTTAGTAACTCGCA
62093618 CAAATGCCTTC-GGATCTTAGTCC-GA-TTAGT-A---GCA
1 CAAATGCCTTCGGGATCTTAGTCCGGATTTAGTAACTCGCA
*
62093652 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCTTAGTCCGGA
62093677 CATCATTCGA
Statistics
Matches: 166, Mismatches: 6, Indels: 16
0.88 0.03 0.09
Matches are distributed among these distances:
33 13 0.08
34 12 0.07
37 1 0.01
38 8 0.05
39 71 0.43
40 61 0.37
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:62093571 original size:79 final size:79
Alignment explanation
Indices: 62093460--62093670 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 79
62093450 GCTACTCGTT
* *
62093460 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTA-ACC
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGACC
62093522 GGATTTAGTAACTCGCA
64 -GATTTAGTAACTCGCA
* *
62093539 CCAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGACCG
62093603 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
62093618 CAAATGCCTTCGGATCTTAGTCC-GA-TTAGT-A---GCACAAA-GCCTTCGGGACTTAG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAG
62093671 CCCGGACATC
Statistics
Matches: 122, Mismatches: 5, Indels: 17
0.85 0.03 0.12
Matches are distributed among these distances:
72 11 0.09
73 10 0.08
76 1 0.01
77 5 0.04
78 8 0.07
79 83 0.68
80 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (79 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGACCGA
TTTAGTAACTCGCA
Found at i:62097982 original size:11 final size:11
Alignment explanation
Indices: 62097966--62098039 Score: 82
Period size: 11 Copynumber: 6.7 Consensus size: 11
62097956 TTCCAATCAC
62097966 TTTTTTTTGAA
1 TTTTTTTTGAA
62097977 TTTTTTTTGAA
1 TTTTTTTTGAA
*
62097988 -TTTTTTCGAA
1 TTTTTTTTGAA
*
62097998 ATTTTTTTGAA
1 TTTTTTTTGAA
62098009 TTTTTTTTCG-A
1 TTTTTTTT-GAA
62098020 TTTTGTTTTCG-A
1 TTTT-TTTT-GAA
62098032 TTTTTTTT
1 TTTTTTTT
62098040 TTCAACTTCT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
10 9 0.16
11 36 0.63
12 12 0.21
ACGTcount: A:0.15, C:0.04, G:0.09, T:0.72
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:62097983 original size:12 final size:12
Alignment explanation
Indices: 62097966--62098055 Score: 64
Period size: 11 Copynumber: 7.7 Consensus size: 12
62097956 TTCCAATCAC
62097966 TTTTTTTTGAA-
1 TTTTTTTTGAAT
62097977 TTTTTTTTGAA-
1 TTTTTTTTGAAT
*
62097988 -TTTTTTCGAA-
1 TTTTTTTTGAAT
*
62097998 ATTTTTTTGAAT
1 TTTTTTTTGAAT
*
62098010 TTTTTTTCG-AT
1 TTTTTTTTGAAT
* *
62098021 TTTGTTTTCGATT
1 TTT-TTTTTGAAT
*
62098034 TTTTTTTTCAACT
1 TTTTTTTTGAA-T
62098047 TCTTTTTTT
1 T-TTTTTTT
62098056 TTTTAACTAC
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
10 9 0.14
11 25 0.38
12 18 0.28
13 6 0.09
14 7 0.11
ACGTcount: A:0.14, C:0.07, G:0.08, T:0.71
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:62097993 original size:21 final size:21
Alignment explanation
Indices: 62097967--62098015 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
62097957 TCCAATCACT
*
62097967 TTTTTTTGAATTTTTTTTGAA
1 TTTTTTTGAAATTTTTTTGAA
*
62097988 TTTTTTCGAAATTTTTTTGAA
1 TTTTTTTGAAATTTTTTTGAA
62098009 TTTTTTT
1 TTTTTTT
62098016 TCGATTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.71
Consensus pattern (21 bp):
TTTTTTTGAAATTTTTTTGAA
Found at i:62098036 original size:32 final size:31
Alignment explanation
Indices: 62097967--62098039 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 31
62097957 TCCAATCACT
62097967 TTTTTTTGAATTTTTTTTGAATTTTTTCGAAA
1 TTTTTTTGAATTTTTTTTGAATTTTTTCG-AA
* *
62097999 TTTTTTTGAATTTTTTTTCGATTTTGTTTTCGAT
1 TTTTTTTGAATTTTTTTT-GA-ATT-TTTTCGAA
62098033 TTTTTTT
1 TTTTTTT
62098040 TTCAACTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 18 0.50
33 2 0.06
34 10 0.28
35 6 0.17
ACGTcount: A:0.15, C:0.04, G:0.10, T:0.71
Consensus pattern (31 bp):
TTTTTTTGAATTTTTTTTGAATTTTTTCGAA
Found at i:62098160 original size:82 final size:76
Alignment explanation
Indices: 62098033--62098179 Score: 195
Period size: 82 Copynumber: 1.9 Consensus size: 76
62098023 TGTTTTCGAT
* * *
62098033 TTTTTTTTTCAACTTCTTTTTTTTTTTAACTACAAAATGATACTTTCAATGCAATGCTTGAATTT
1 TTTTTTTTTCAACTTCTTTTTTTTTTTAACTACAAAATGAAACTTTCAATGCAATACTTCAATTT
62098098 TCTCGAGATAA
66 TCTCGAGATAA
* *
62098109 TTTTTTTTTCAACTTCGACTTTTTTTTGGTTTTGACTACAAAATGAAACTTTTAATGCAATACTT
1 TTTTTTTTTCAACTT---C-TTTTTTT--TTTTAACTACAAAATGAAACTTTCAATGCAATACTT
62098174 CAATTT
60 CAATTT
62098180 CACGAAATGA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
76 15 0.25
79 1 0.02
80 7 0.12
82 37 0.62
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.50
Consensus pattern (76 bp):
TTTTTTTTTCAACTTCTTTTTTTTTTTAACTACAAAATGAAACTTTCAATGCAATACTTCAATTT
TCTCGAGATAA
Found at i:62098197 original size:82 final size:76
Alignment explanation
Indices: 62098035--62098199 Score: 179
Period size: 82 Copynumber: 2.1 Consensus size: 76
62098025 TTTTCGATTT
* * *
62098035 TTTTTTTCAACTTCTTTTTTTTTTTAACTACAAAATGATACTTTCAATGCAATGCTTGAATTTTC
1 TTTTTTTCAACTTCTTTTTTTTTTTAACTACAAAATGAAACTTTCAATGCAATACTTCAATTTTC
* * *
62098100 TCGAGATAATT
66 ACGAAATAATA
* *
62098111 TTTTTTTCAACTTCGACTTTTTTTTGGTTTTGACTACAAAATGAAACTTTTAATGCAATACTTCA
1 TTTTTTTCAACTT---C-TTTTTTT--TTTTAACTACAAAATGAAACTTTCAATGCAATACTTCA
*
62098176 A-TTTCACGAAATGACTA
60 ATTTTCACGAAAT-AATA
62098193 TTTTTTT
1 TTTTTTT
62098200 GTTTTTTTAC
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
76 13 0.18
79 1 0.01
80 7 0.10
81 9 0.12
82 43 0.59
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (76 bp):
TTTTTTTCAACTTCTTTTTTTTTTTAACTACAAAATGAAACTTTCAATGCAATACTTCAATTTTC
ACGAAATAATA
Found at i:62098845 original size:22 final size:20
Alignment explanation
Indices: 62098806--62098845 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
62098796 ACTGGAACCT
62098806 TCCTTGAAGATTCTTGAACG
1 TCCTTGAAGATTCTTGAACG
*
62098826 TCCTTGGAAGCTTCCTTGAA
1 TCCTT-GAAGATT-CTTGAA
62098846 GTTTCCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (20 bp):
TCCTTGAAGATTCTTGAACG
Found at i:62099511 original size:27 final size:26
Alignment explanation
Indices: 62099464--62099519 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
62099454 GCAGCAACAA
62099464 ATTAAATTTGTCTCTAAACTAGACAC
1 ATTAAATTTGTCTCTAAACTAGACAC
62099490 ATTAAATTGATGTC-CTAAACTAGACAC
1 ATTAAATT--TGTCTCTAAACTAGACAC
62099517 ATT
1 ATT
62099520 TAAGCTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTAAATTTGTCTCTAAACTAGACAC
Found at i:62104679 original size:27 final size:26
Alignment explanation
Indices: 62104637--62104731 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 26
62104627 TTAGTTTACC
* * *
62104637 AAATTACTGAAATACCCTTGACTTGTA
1 AAATTAC-CAAATACCCTCGATTTGTA
* * *
62104664 AAATTACCAAAGTACCCCCAATTTATA
1 AAATTACCAAA-TACCCTCGATTTGTA
*
62104691 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCTCGATTTGTA
62104718 AAATTACCGAAATA
1 AAATTACC-AAATA
62104732 AGATAGAATT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
26 5 0.09
27 45 0.82
28 5 0.09
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGATTTGTA
Found at i:62104766 original size:27 final size:27
Alignment explanation
Indices: 62104736--62104823 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
62104726 GAAATAAGAT
62104736 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
62104763 AGAATTA-CAGTTTTACCCTCGATTTAC
1 AGAATTACCA-TTTTACCCTCGATTTAC
**
62104790 AGAATTACCATTTTACCCTTAATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
62104817 AAAATTA
1 AGAATTA
62104824 TTGAAATACC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
26 2 0.04
27 52 0.93
28 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.38
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:62104834 original size:54 final size:54
Alignment explanation
Indices: 62104736--62104851 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
62104726 GAAATAAGAT
* * ***
62104736 AGAATTACCATTTTACCCTCGATTTACAGAATTACAGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCAATTTACAAAATTACAGAAATACCCTCGATTTAC
* ** * *
62104790 AGAATTACCATTTTACCCTTAATTTACAAAATTATTGAAATACCCTTGGTTTAC
1 AGAATTACCATTTTACCCTCAATTTACAAAATTACAGAAATACCCTCGATTTAC
*
62104844 AAAATTAC
1 AGAATTAC
62104852 AAAAATACCC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (54 bp):
AGAATTACCATTTTACCCTCAATTTACAAAATTACAGAAATACCCTCGATTTAC
Found at i:62104857 original size:27 final size:27
Alignment explanation
Indices: 62104749--62104888 Score: 91
Period size: 27 Copynumber: 5.2 Consensus size: 27
62104739 ATTACCATTT
* * ****
62104749 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTTGATTTACAAAATTACAAAAA
* * * ***
62104776 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTTGATTTACAAAATTACAAAAA
* ***
62104803 TACCCTTAATTTACAAAATTATTGAAA
1 TACCCTTGATTTACAAAATTACAAAAA
*
62104830 TACCCTTGGTTTACAAAATTACAAAAA
1 TACCCTTGATTTACAAAATTACAAAAA
* * * *
62104857 TACCCTCGATTAATAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACAAAAA
62104884 TACCC
1 TACCC
62104889 CTAATTTGTG
Statistics
Matches: 92, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACAAAAA
Found at i:62104958 original size:32 final size:32
Alignment explanation
Indices: 62104921--62104983 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
62104911 TACCCTTGTA
*
62104921 GGGTAGAATTA-CTGAAATATCCCTGTAGGGTT
1 GGGTAGAATTATC-GAAATACCCCTGTAGGGTT
62104953 GGGTAGAATTATCGAAATACCCCTGTAGGGT
1 GGGTAGAATTATCGAAATACCCCTGTAGGGT
62104984 AGAATTACCG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (32 bp):
GGGTAGAATTATCGAAATACCCCTGTAGGGTT
Found at i:62105018 original size:27 final size:27
Alignment explanation
Indices: 62104900--62105019 Score: 123
Period size: 27 Copynumber: 4.3 Consensus size: 27
62104890 TAATTTGTGA
*
62104900 AATTAACGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
62104927 AATTACTGAAATATCCCTGTAGGGTTGGGTAG
1 AATTACCGAAATA-CCCT-T---GTAGGGTAG
* *
62104959 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
62104986 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
62105013 AATTACC
1 AATTACC
62105020 ATTTTGCCCC
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
27 48 0.63
28 4 0.05
29 1 0.01
30 1 0.01
31 3 0.04
32 19 0.25
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:62105446 original size:19 final size:19
Alignment explanation
Indices: 62105424--62105469 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
62105414 ATTCTGATTT
* *
62105424 TGATTCTGTTACTTGATAC
1 TGATTCTGTCACCTGATAC
*
62105443 TGATTCTGTCACCTGATTC
1 TGATTCTGTCACCTGATAC
62105462 TGATTCTG
1 TGATTCTG
62105470 ATTCTAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (19 bp):
TGATTCTGTCACCTGATAC
Found at i:62105464 original size:6 final size:6
Alignment explanation
Indices: 62105414--62105489 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
62105404 TTGCATTCAC
* * *
62105414 ATTCTG ATTTTG ATTCTG -TTACTTG ATACTG ATTCTG -TCACCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG AT--TCTG ATTCTG
*
62105464 ATTCTG ATTCTA ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
62105490 AATGTTTCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
5 4 0.07
6 42 0.76
7 7 0.13
8 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:62107504 original size:10 final size:10
Alignment explanation
Indices: 62107491--62107538 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
62107481 GAGCTCCGTC
62107491 CAGCTCAATT
1 CAGCTCAATT
62107501 CAGCTCAATT
1 CAGCTCAATT
* *
62107511 AAGCTCATTT
1 CAGCTCAATT
*
62107521 CAGCTCATTT
1 CAGCTCAATT
*
62107531 GAGCTCAA
1 CAGCTCAA
62107539 CTGAGCTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:62107515 original size:20 final size:20
Alignment explanation
Indices: 62107492--62107538 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
62107482 AGCTCCGTCC
62107492 AGCTCAATTCAGCTCAATTA
1 AGCTCAATTCAGCTCAATTA
* * *
62107512 AGCTCATTTCAGCTCATTTG
1 AGCTCAATTCAGCTCAATTA
62107532 AGCTCAA
1 AGCTCAA
62107539 CTGAGCTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (20 bp):
AGCTCAATTCAGCTCAATTA
Found at i:62107525 original size:30 final size:31
Alignment explanation
Indices: 62107491--62107557 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
62107481 GAGCTCCGTC
*
62107491 CAGCTCAATTCAGCTCAATTAAGCTCA-TTT
1 CAGCTCAATTCAGCTCAACTAAGCTCACTTT
* * * *
62107521 CAGCTCATTTGAGCTCAACTGAGCTTACTTT
1 CAGCTCAATTCAGCTCAACTAAGCTCACTTT
62107552 CAGCTC
1 CAGCTC
62107558 GTTTTTCATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.33
Consensus pattern (31 bp):
CAGCTCAATTCAGCTCAACTAAGCTCACTTT
Found at i:62111314 original size:12 final size:12
Alignment explanation
Indices: 62111297--62111340 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
62111287 CTCTCTTAAA
*
62111297 CTCTTTTTCATT
1 CTCTTTTTCAAT
*
62111309 CTCTTTTTCAAC
1 CTCTTTTTCAAT
* *
62111321 CTCATTTTCACT
1 CTCTTTTTCAAT
62111333 CTCTTTTT
1 CTCTTTTT
62111341 GTTCTTTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.11, C:0.30, G:0.00, T:0.59
Consensus pattern (12 bp):
CTCTTTTTCAAT
Found at i:62111450 original size:51 final size:51
Alignment explanation
Indices: 62111390--62111487 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
62111380 AGAATCTCTC
*
62111390 ATTCTCTCTTACTCGCCTCTTGCCTCTCTTTTATTTCTTTTTCTTTTTCTT
1 ATTCTCTCTTACTCGCCTCTTGCCTCTCCTTTATTTCTTTTTCTTTTTCTT
*
62111441 ATTCTCTCTTACTCGTCTCTTGCCTCTCCTTTATTTCTTTTTCTTTT
1 ATTCTCTCTTACTCGCCTCTTGCCTCTCCTTTATTTCTTTTTCTTTT
62111488 CTTTCTTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.06, C:0.30, G:0.04, T:0.60
Consensus pattern (51 bp):
ATTCTCTCTTACTCGCCTCTTGCCTCTCCTTTATTTCTTTTTCTTTTTCTT
Found at i:62111494 original size:15 final size:15
Alignment explanation
Indices: 62111474--62111504 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62111464 CTCTCCTTTA
*
62111474 TTTCTTTTTCTTTTC
1 TTTCTTTTGCTTTTC
62111489 TTTCTTTTGCTTTTC
1 TTTCTTTTGCTTTTC
62111504 T
1 T
62111505 CATTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTCTTTTGCTTTTC
Found at i:62119743 original size:12 final size:13
Alignment explanation
Indices: 62119715--62119747 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
62119705 TTATTTCTTT
62119715 TTCTCCATCTACC
1 TTCTCCATCTACC
*
62119728 TTCTCC-TCTTCC
1 TTCTCCATCTACC
62119740 TTCTCCAT
1 TTCTCCAT
62119748 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:62120862 original size:28 final size:28
Alignment explanation
Indices: 62120819--62120876 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
62120809 ACTAGAATAT
*
62120819 CCCTATGTATGAAAAATTACCATTATAC
1 CCCTATGTATGAAAAATGACCATTATAC
* *
62120847 CCCTATGTATGCAAAATGACCTTTATAC
1 CCCTATGTATGAAAAATGACCATTATAC
62120875 CC
1 CC
62120877 TAGGGTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (28 bp):
CCCTATGTATGAAAAATGACCATTATAC
Found at i:62121027 original size:28 final size:27
Alignment explanation
Indices: 62120994--62121065 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
62120984 CTGGTGGCTA
*
62120994 TGCCACAAATTATCTGTTCTAGTGGCCC
1 TGCCACAAA-TATCTGTTCTAGTGGCAC
* *
62121022 TGCCACATATATCTGTTCTGGTGGCAC
1 TGCCACAAATATCTGTTCTAGTGGCAC
62121049 TGCCACAAAATATCTGT
1 TGCCAC-AAATATCTGT
62121066 ATCTGGTGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTAGTGGCAC
Found at i:62121045 original size:27 final size:27
Alignment explanation
Indices: 62120984--62121073 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
62120974 AGGAAGGGTC
62120984 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
62121012 CTAGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
62121039 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
62121068 CTGGTG
1 CTGGTG
62121074 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 22 0.42
28 24 0.45
29 7 0.13
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:62121084 original size:29 final size:28
Alignment explanation
Indices: 62120994--62121084 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
62120984 CTGGTGGCTA
* * * *
62120994 TGCCACAAATTATCTGTTCTAGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
62121022 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
62121049 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
62121078 TGTCACA
1 TGCCACA
62121085 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.43
28 15 0.28
29 15 0.28
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:62121092 original size:55 final size:56
Alignment explanation
Indices: 62120984--62121098 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
62120974 AGGAAGGGTC
* *
62120984 CTGGTGGCTATGCCACAAATTATCTGTTCTAGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTAGTGACCCTGCCACATATATCTGTAT
* * * *
62121039 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTAGTGACCCTGCCACATATATCTGTAT
62121095 CTGG
1 CTGG
62121099 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTAGTGACCCTGCCACATATATCTGTAT
Found at i:62122653 original size:10 final size:10
Alignment explanation
Indices: 62122632--62122675 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
62122622 TAGCGAACAA
62122632 AAAAATT-A-
1 AAAAATTCAG
62122640 AAAAATTCAG
1 AAAAATTCAG
62122650 AAAAATTCAG
1 AAAAATTCAG
62122660 AAAAATTCATG
1 AAAAATTCA-G
62122671 AAAAA
1 AAAAA
62122676 AAAGAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 7 0.21
9 1 0.03
10 19 0.58
11 6 0.18
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (10 bp):
AAAAATTCAG
Found at i:62122681 original size:20 final size:20
Alignment explanation
Indices: 62122640--62122681 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
62122630 AAAAAAATTA
**
62122640 AAAAATTCAGAAAAATTCAG
1 AAAAATTCAGAAAAATAAAG
62122660 AAAAATTCATGAAAAA-AAAG
1 AAAAATTCA-GAAAAATAAAG
62122680 AA
1 AA
62122682 TATATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (20 bp):
AAAAATTCAGAAAAATAAAG
Found at i:62126377 original size:29 final size:29
Alignment explanation
Indices: 62126337--62126403 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
62126327 TGAGCAACAC
62126337 TTATTAAATGAAGTTCAACAAAAACTCTA
1 TTATTAAATGAAGTTCAACAAAAACTCTA
62126366 TTATTAAATGAAGTTCAACAAAAACTCTA
1 TTATTAAATGAAGTTCAACAAAAACTCTA
62126395 TTAATTAAA
1 TT-ATTAAA
62126404 CAAAAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 31 0.84
30 6 0.16
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (29 bp):
TTATTAAATGAAGTTCAACAAAAACTCTA
Found at i:62129258 original size:26 final size:27
Alignment explanation
Indices: 62129229--62129288 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
62129219 CCACATATAT
*
62129229 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
62129255 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
62129282 ATATCTG
1 ATATCTG
62129289 GCATCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:62131660 original size:24 final size:23
Alignment explanation
Indices: 62131624--62131677 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
62131614 ATTAAGACCT
*
62131624 AATTAACTAATTTAACTAACAGCA
1 AATTAAATAATTTAA-TAACAGCA
* * **
62131648 AATTAAATGATTTTATTCCAGCA
1 AATTAAATAATTTAATAACAGCA
62131671 AATTAAA
1 AATTAAA
62131678 CGAAAAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (23 bp):
AATTAAATAATTTAATAACAGCA
Found at i:62134890 original size:9 final size:10
Alignment explanation
Indices: 62134862--62134889 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
62134852 ATGTATATAC
62134862 AAAAAAAAAG
1 AAAAAAAAAG
62134872 AAAAAAAAAG
1 AAAAAAAAAG
62134882 AAAAAAAA
1 AAAAAAAA
62134890 GGTGTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:62137765 original size:10 final size:10
Alignment explanation
Indices: 62137750--62137795 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
62137740 ACCTCTGTCC
62137750 AGCTCAATTT-
1 AGCTC-ATTTG
62137760 AGCTCATTTG
1 AGCTCATTTG
*
62137770 AGCTCATTTC
1 AGCTCATTTG
*
62137780 AGCCCATTTG
1 AGCTCATTTG
62137790 AGCTCA
1 AGCTCA
62137796 ACCAAGCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 4 0.13
10 27 0.87
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:62137775 original size:20 final size:21
Alignment explanation
Indices: 62137750--62137796 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
62137740 ACCTCTGTCC
*
62137750 AGCTCAATTT-AGCTCATTTG
1 AGCTCAATTTCAGCCCATTTG
62137770 AGCTC-ATTTCAGCCCATTTG
1 AGCTCAATTTCAGCCCATTTG
62137790 AGCTCAA
1 AGCTCAA
62137797 CCAAGCTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 19 0.79
21 1 0.04
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.34
Consensus pattern (21 bp):
AGCTCAATTTCAGCCCATTTG
Found at i:62139512 original size:93 final size:93
Alignment explanation
Indices: 62139400--62139571 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62139390 GCCCATAAGT
* *
62139400 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62139465 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62139493 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62139558 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62139572 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62139567 original size:46 final size:46
Alignment explanation
Indices: 62139392--62139567 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62139382 TGTAACCCGC
* * *
62139392 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
62139438 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
62139488 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
62139531 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62139568 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:62141987 original size:29 final size:29
Alignment explanation
Indices: 62141948--62142035 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
62141938 CAAAGATAAC
*
62141948 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
62141977 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
62142006 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
62142036 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:62142006 original size:15 final size:15
Alignment explanation
Indices: 62141948--62142026 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
62141938 CAAAGATAAC
*
62141948 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
62141962 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
62141977 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
62141991 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
62142006 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
62142021 AAGAAA
1 AAGAAA
62142027 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:62142035 original size:15 final size:15
Alignment explanation
Indices: 62141959--62142035 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
62141949 AGAAAACCGA
62141959 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
62141974 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
62141988 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
62142002 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62142018 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62142033 ATA
1 ATA
62142036 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Done.