Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 16 of 145
Found at i:6019363 original size:27 final size:27
Alignment explanation
Indices: 6019329--6019390 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
6019319 NNTATTTTAC
*
6019329 AATA-TTTATAATTTTATATCATTT-TT
1 AATATTTTACAATTTT-TATCATTTGTT
*
6019355 AATATTTTACAATTTTTATGATTTGTT
1 AATATTTTACAATTTTTATCATTTGTT
6019382 AATAATTTT
1 AAT-ATTTT
6019391 TTATGGGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 11 0.35
27 15 0.48
28 5 0.16
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (27 bp):
AATATTTTACAATTTTTATCATTTGTT
Found at i:6019369 original size:17 final size:17
Alignment explanation
Indices: 6019321--6019372 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 17
6019311 NNNNNNNNNN
6019321 TATTTTACAATATTTATAA
1 TATTTTACAAT-TTT-TAA
6019340 T-TTTATATC-ATTTTTAA
1 TATTT-TA-CAATTTTTAA
6019357 TATTTTACAATTTTTA
1 TATTTTACAATTTTTA
6019373 TGATTTGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 1 0.03
17 13 0.45
18 9 0.31
19 5 0.17
20 1 0.03
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTACAATTTTTAA
Found at i:6019378 original size:17 final size:16
Alignment explanation
Indices: 6019321--6019378 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 16
6019311 NNNNNNNNNN
*
6019321 TATTTTACAATATTTA
1 TATTTTACAATTTTTA
*
6019337 TAATTTTATATCATTTTTAA
1 T-ATTTTACA--ATTTTT-A
6019357 TATTTTACAATTTTTA
1 TATTTTACAATTTTTA
6019373 TGATTT
1 T-ATTT
6019379 GTTAATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
16 3 0.09
17 17 0.50
19 12 0.35
20 2 0.06
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTTTACAATTTTTA
Found at i:6022608 original size:9 final size:9
Alignment explanation
Indices: 6022594--6022657 Score: 58
Period size: 9 Copynumber: 6.9 Consensus size: 9
6022584 AGTTTTTCCA
6022594 TTAAAAAAT
1 TTAAAAAAT
6022603 TTAAAAAA-
1 TTAAAAAAT
*
6022611 TTATAAATAT
1 TTA-AAAAAT
6022621 TTCAAAAAAT
1 TT-AAAAAAT
*
6022631 ATAAAAAAT
1 TTAAAAAAT
* *
6022640 ATAAGAAAT
1 TTAAAAAAT
6022649 TATAAAAAA
1 T-TAAAAAA
6022658 AATATTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 3 0.07
9 27 0.60
10 14 0.31
11 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:6022654 original size:19 final size:18
Alignment explanation
Indices: 6022595--6022657 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
6022585 GTTTTTCCAT
6022595 TAAAAAATTTAAAAAATTA
1 TAAAAAATTT-AAAAATTA
* *
6022614 T-AAATATTTCAAAAAATA
1 TAAAAAATTT-AAAAATTA
*
6022632 TAAAAAATATAAGAAATTA
1 TAAAAAATTTAA-AAATTA
6022651 TAAAAAA
1 TAAAAAA
6022658 AATATTAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 17 0.47
19 19 0.53
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAAAAATTTAAAAATTA
Found at i:6022690 original size:21 final size:21
Alignment explanation
Indices: 6022656--6022715 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
6022646 AATTATAAAA
*
6022656 AAAATATTAATAAAACA-TATTT
1 AAAAT-TTTATAAAACAGTA-TT
*
6022678 AAAATTTTATAAAAAAGTATT
1 AAAATTTTATAAAACAGTATT
*
6022699 AAAATTCTATTAAAACA
1 AAAATTTTA-TAAAACA
6022716 ATAAAAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAATTTTATAAAACAGTATT
Found at i:6023039 original size:19 final size:20
Alignment explanation
Indices: 6023015--6023064 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 20
6023005 TAAGAACACA
6023015 TATAATATTTTTAAT-ATTT
1 TATAATATTTTTAATGATTT
6023034 TAT-A-ATTTTT-ATGATTT
1 TATAATATTTTTAATGATTT
*
6023051 TTTAATAATTTTTA
1 TATAAT-ATTTTTA
6023065 TGGGAAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
16 2 0.08
17 12 0.48
18 2 0.08
19 3 0.12
20 6 0.24
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATAATATTTTTAATGATTT
Found at i:6023043 original size:17 final size:19
Alignment explanation
Indices: 6023017--6023064 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
6023007 AGAACACATA
6023017 TAAT-ATTTTTA-ATATTT
1 TAATAATTTTTAGATATTT
*
6023034 T-ATAATTTTTATGATTTTT
1 TAATAATTTTTA-GATATTT
6023053 TAATAATTTTTA
1 TAATAATTTTTA
6023065 TGGGAAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 8 0.31
19 6 0.23
20 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TAATAATTTTTAGATATTT
Found at i:6028527 original size:90 final size:91
Alignment explanation
Indices: 6028370--6028542 Score: 285
Period size: 90 Copynumber: 1.9 Consensus size: 91
6028360 ATATAAACCC
*
6028370 ATATAAAAAATAACATGCTATATATGTTAAAATTTATATAAAAATGAAGTTGGTATACACTTATT
1 ATATAAAAAATAACATGC---ATATGTCAAAATTTATATAAAAATGAAGTTGGTATACACTTATT
*
6028435 GTTATGTATTACAATTAATTAAGCTTTTA
63 GTTATATATTACAATTAATTAAGCTTTTA
*
6028464 ATATAAAAAATAACATGC-TATGTCAAAATTTATATAAAAATGAAGTTGGTATTCACTTATTGTT
1 ATATAAAAAATAACATGCATATGTCAAAATTTATATAAAAATGAAGTTGGTATACACTTATTGTT
6028528 ATATATTACAATTAA
66 ATATATTACAATTAA
6028543 GCTTTTAATG
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
90 58 0.76
94 18 0.24
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (91 bp):
ATATAAAAAATAACATGCATATGTCAAAATTTATATAAAAATGAAGTTGGTATACACTTATTGTT
ATATATTACAATTAATTAAGCTTTTA
Found at i:6031777 original size:24 final size:24
Alignment explanation
Indices: 6031743--6031791 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
6031733 TTTAAAATAA
* *
6031743 ATTTTTATTTCTATTTATCAAATGT
1 ATTTTTATTTCAATTTA-AAAATGT
6031768 ATTTTT-TTTCAATTTAAAAATGT
1 ATTTTTATTTCAATTTAAAAATGT
6031791 A
1 A
6031792 AAAATGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 9 0.41
25 6 0.27
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTTTTATTTCAATTTAAAAATGT
Found at i:6034332 original size:42 final size:42
Alignment explanation
Indices: 6034255--6034342 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
6034245 ACCCTAATAA
* * *
6034255 GTTTTCGTTCAGCTCTTTTAAGATTCTGTTTAACCCATACGG
1 GTTTTCGTTCAGCTCTTATAAGATTCTGTTCAACCCATACCG
* * *
6034297 GTTTTCGTTCAGCTCTTATGAGCTT-TCGTTCAACCCTTACCG
1 GTTTTCGTTCAGCTCTTATAAGATTCT-GTTCAACCCATACCG
6034339 GTTT
1 GTTT
6034343 CTGTTTAGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.03
42 38 0.97
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (42 bp):
GTTTTCGTTCAGCTCTTATAAGATTCTGTTCAACCCATACCG
Found at i:6034382 original size:19 final size:21
Alignment explanation
Indices: 6034341--6034382 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6034331 CCTTACCGGT
*
6034341 TTCTGTTTAGCACTTAGGTGC
1 TTCTGTTTAGCACTTACGTGC
6034362 TTCTGTTTAGC-CTT-CGTGC
1 TTCTGTTTAGCACTTACGTGC
6034381 TT
1 TT
6034383 TTGAAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 3 0.15
21 11 0.55
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.48
Consensus pattern (21 bp):
TTCTGTTTAGCACTTACGTGC
Found at i:6041370 original size:17 final size:18
Alignment explanation
Indices: 6041348--6041389 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
6041338 ATATTTAGAT
6041348 AAATTG-TCAATTGAGAA
1 AAATTGTTCAATTGAGAA
*
6041365 AAATTGGTTCATTTGAGAA
1 AAATT-GTTCAATTGAGAA
6041384 AAATTG
1 AAATTG
6041390 AGAAAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 2 0.09
19 15 0.68
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (18 bp):
AAATTGTTCAATTGAGAA
Found at i:6041829 original size:17 final size:14
Alignment explanation
Indices: 6041797--6041839 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 14
6041787 CTAGTTTTTT
6041797 TTTTATATTTTAAC
1 TTTTATATTTTAAC
6041811 TTTATATATATTTATAC
1 TTT-TATAT-TTTA-AC
6041828 TTTTATACTTTT
1 TTTTATA-TTTT
6041840 CCATAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.12
15 5 0.20
16 11 0.44
17 6 0.24
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTATATTTTAAC
Found at i:6044990 original size:17 final size:17
Alignment explanation
Indices: 6044970--6045003 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6044960 TATATTTTTA
* *
6044970 TAATTATTTAATTTAAT
1 TAATTATATAATCTAAT
6044987 TAATTATATAATCTAAT
1 TAATTATATAATCTAAT
6045004 GGCTAACAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATTATATAATCTAAT
Found at i:6054383 original size:46 final size:46
Alignment explanation
Indices: 6054316--6054546 Score: 374
Period size: 46 Copynumber: 5.0 Consensus size: 46
6054306 ACAATGCTAT
* *
6054316 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCGGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
*
6054362 AACTCGGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTTAC
1 AACTCGGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
**
6054408 AACTCGGTATGGTTTTCTTCACCGAAATGTCATACCTACTTTTCAC
1 AACTCGGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
6054454 AACTCGGTATGGTTTTCTTCA-CGAAAATACCATACCTACTTTTCAC
1 AACTCGGTATGGTTTTCTTCACCG-AAATACCATACCTACTTTTCAC
* * *
6054500 AACTCAGTATGGTTTTCTTCACCAAAACACCATACCTACTTTTCAC
1 AACTCGGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
6054546 A
1 A
6054547 CTTTGCCATG
Statistics
Matches: 172, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 2 0.01
46 169 0.98
47 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (46 bp):
AACTCGGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
Found at i:6062793 original size:31 final size:31
Alignment explanation
Indices: 6062759--6062818 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
6062749 ATAGGCTACT
*
6062759 TTTTTTTAATTTTTT-TAATTTTAAAAATAC
1 TTTTTTTAATTTTTTAAAATTTTAAAAATAC
*
6062789 TTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTTTAATTTTTTAAAATTTTAAAAATA
6062819 AAAATGGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (31 bp):
TTTTTTTAATTTTTTAAAATTTTAAAAATAC
Found at i:6063594 original size:19 final size:20
Alignment explanation
Indices: 6063570--6063610 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
6063560 CAAGAAACAT
6063570 AAAAGGT-AAAAAAATAGAA
1 AAAAGGTAAAAAAAATAGAA
6063589 AAAAGGTAAAAAAAATAGAA
1 AAAAGGTAAAAAAAATAGAA
6063609 AA
1 AA
6063611 TCAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.10
Consensus pattern (20 bp):
AAAAGGTAAAAAAAATAGAA
Found at i:6065124 original size:19 final size:19
Alignment explanation
Indices: 6065097--6065133 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6065087 TTTAATAAAT
*
6065097 AAATAAATAAATATAATGA
1 AAATAAATAAAAATAATGA
*
6065116 AAATCAATAAAAATAATG
1 AAATAAATAAAAATAATG
6065134 TTCCGAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (19 bp):
AAATAAATAAAAATAATGA
Found at i:6069119 original size:51 final size:49
Alignment explanation
Indices: 6069033--6069225 Score: 208
Period size: 51 Copynumber: 3.8 Consensus size: 49
6069023 TCAATGATAC
* * *
6069033 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATTTTCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCCA---TCAT
* ** *
6069084 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCCATC-AT
* ** * * *
6069135 TCGGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACCCATCATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCCATCA-T
6069185 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA
6069226 GCATCACTTT
Statistics
Matches: 115, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 1 0.01
50 40 0.35
51 73 0.63
53 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCCATCAT
Found at i:6069218 original size:101 final size:100
Alignment explanation
Indices: 6069041--6069225 Score: 309
Period size: 101 Copynumber: 1.8 Consensus size: 100
6069031 ACCCGGTTCA
*
6069041 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA--TTCATCCGATACACGTAGTAGCCTGCA
6069106 CATAGTACTACACACGTGATCGAAGCTATTCGGTATG
64 CATAGTACTACACACGTGATCGAAGCTATTCGGTATG
*
6069143 CATAGTAGCCTGCACATAGTACTACACATGCGACCCA-TCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGA-CCATTCA-TCCGATACACGTAGTAGCCTGCA
6069207 CATAGTACTACACACGTGA
64 CATAGTACTACACACGTGA
6069226 GCATCACTTT
Statistics
Matches: 79, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
100 3 0.04
101 41 0.52
102 32 0.41
103 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (100 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATTCATCCGATACACGTAGTAGCCTGCACA
TAGTACTACACACGTGATCGAAGCTATTCGGTATG
Found at i:6072806 original size:20 final size:21
Alignment explanation
Indices: 6072764--6072812 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
6072754 TATTTCAAAA
6072764 AATATAAAAAATATAAGAAATT
1 AATA-AAAAAATATAAGAAATT
*
6072786 -ATAAAAAAATATATA-ATATT
1 AATAAAAAAATATA-AGAAATT
6072806 AATAAAA
1 AATAAAA
6072813 CATATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAAAAAAATATAAGAAATT
Found at i:6072883 original size:11 final size:10
Alignment explanation
Indices: 6072839--6072894 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
6072829 TAAAACGTAT
*
6072839 AAAATCATAA
1 AAAATTATAA
*
6072849 AAATAATATAA
1 AAA-ATTATAA
* *
6072860 AAAAGTAT-T
1 AAAATTATAA
6072869 AAAATTGATAA
1 AAAATT-ATAA
6072880 AAAATTATAA
1 AAAATTATAA
6072890 AAAAT
1 AAAAT
6072895 CGTAAGAACT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 5 0.14
10 18 0.49
11 14 0.38
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (10 bp):
AAAATTATAA
Found at i:6072891 original size:9 final size:9
Alignment explanation
Indices: 6072728--6072892 Score: 66
Period size: 9 Copynumber: 17.1 Consensus size: 9
6072718 TAGTTTTTCT
*
6072728 ATTAAAAAA
1 ATTATAAAA
6072737 ATT-TAAAAA
1 ATTAT-AAAA
*
6072746 ATTATAAAT
1 ATTATAAAA
6072755 ATT-TCAAAA
1 ATTAT-AAAA
*
6072764 AATATAAAA
1 ATTATAAAA
*
6072773 AATATAAGAA
1 ATTATAA-AA
6072783 ATTATAAAAA
1 ATTAT-AAAA
* *
6072793 AATATATAAT
1 ATTATA-AAA
6072803 ATTAATAAAA
1 ATT-ATAAAA
*
6072813 CATATTTAAAA
1 -AT-TATAAAA
*
6072824 TTTTATAAAA
1 -ATTATAAAA
**
6072834 CGTAT-AAA
1 ATTATAAAA
*
6072842 ATCATAAAA
1 ATTATAAAA
6072851 ATAATATAAAAA
1 AT--TAT-AAAA
* *
6072863 AGTATTAAA
1 ATTATAAAA
6072872 ATTGATAAAAA
1 ATT-AT-AAAA
6072883 ATTATAAAA
1 ATTATAAAA
6072892 A
1 A
6072893 ATCGTAAGAA
Statistics
Matches: 117, Mismatches: 23, Indels: 32
0.68 0.13 0.19
Matches are distributed among these distances:
8 6 0.05
9 51 0.44
10 33 0.28
11 21 0.18
12 6 0.05
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
ATTATAAAA
Found at i:6073257 original size:28 final size:29
Alignment explanation
Indices: 6073225--6073304 Score: 101
Period size: 28 Copynumber: 2.8 Consensus size: 29
6073215 AGTTTATATC
6073225 AATTTTAATATTTTTTATTATTTTTAAA-
1 AATTTTAATATTTTTTATTATTTTTAAAT
* *
6073253 AATTTTAATATGTTTT-TTAATTTTAAAT
1 AATTTTAATATTTTTTATTATTTTTAAAT
*
6073281 AGGTTTTAATATTTTTTAATTATT
1 A-ATTTTAATATTTTTT-ATTATT
6073305 ATATTTTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
27 10 0.23
28 16 0.37
29 13 0.30
31 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (29 bp):
AATTTTAATATTTTTTATTATTTTTAAAT
Found at i:6073295 original size:27 final size:25
Alignment explanation
Indices: 6073225--6073376 Score: 96
Period size: 27 Copynumber: 5.8 Consensus size: 25
6073215 AGTTTATATC
6073225 AATTTTAATATTTTTTATTATTTTTAAA
1 AATTTTAATATTTTTTA--A-TTTTAAA
6073253 AATTTTAATATGTTTTTTAATTTTAAA
1 AATTTTAATA--TTTTTTAATTTTAAA
*
6073280 TAGGTTTTAATATTTTTTAATTATT--A
1 -A-ATTTTAATATTTTTTAATT-TTAAA
* ** *
6073306 TATTTT-ATATTTTACAATTTTAAT
1 AATTTTAATATTTTTTAATTTTAAA
* *
6073330 AATTTT-ATATCATTTTTAATATTTTAT
1 AATTTTAATAT--TTTTTAAT-TTTAAA
*
6073357 AATTTTTATGATTTTTTAAT
1 AATTTTAAT-ATTTTTTAAT
6073377 AATTTTTATG
Statistics
Matches: 102, Mismatches: 10, Indels: 25
0.74 0.07 0.18
Matches are distributed among these distances:
22 2 0.02
23 11 0.11
24 13 0.13
26 7 0.07
27 36 0.35
28 16 0.16
29 10 0.10
30 7 0.07
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (25 bp):
AATTTTAATATTTTTTAATTTTAAA
Found at i:6073335 original size:9 final size:9
Alignment explanation
Indices: 6073225--6073382 Score: 57
Period size: 9 Copynumber: 17.7 Consensus size: 9
6073215 AGTTTATATC
6073225 AATTTTAAT
1 AATTTTAAT
* *
6073234 ATTTTTTATT
1 A-ATTTTAAT
* *
6073244 ATTTTTAAA
1 AATTTTAAT
6073253 AATTTTAAT
1 AATTTTAAT
**
6073262 -ATGTTTTTT
1 AAT-TTTAAT
6073271 AATTTTAAAT
1 AATTTT-AAT
*
6073281 AGGTTTTAAT
1 A-ATTTTAAT
*
6073291 -ATTTT-TT
1 AATTTTAAT
6073298 AATTATT-AT
1 AATT-TTAAT
6073307 -ATTTT-AT
1 AATTTTAAT
*
6073314 -ATTTT-AC
1 AATTTTAAT
6073321 AATTTTAAT
1 AATTTTAAT
6073330 AATTTTATAT
1 AATTTTA-AT
*
6073340 CATTTTTAAT
1 -AATTTTAAT
6073350 -ATTTT-AT
1 AATTTTAAT
*
6073357 AATTTTTAT
1 AATTTTAAT
*
6073366 GATTTTTTAAT
1 -A-ATTTTAAT
6073377 AATTTT
1 AATTTT
6073383 TATGGGAAAC
Statistics
Matches: 113, Mismatches: 21, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
7 13 0.12
8 26 0.23
9 38 0.34
10 20 0.18
11 16 0.14
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.63
Consensus pattern (9 bp):
AATTTTAAT
Found at i:6073349 original size:17 final size:17
Alignment explanation
Indices: 6073226--6073384 Score: 76
Period size: 19 Copynumber: 8.9 Consensus size: 17
6073216 GTTTATATCA
* *
6073226 ATTTTAATATTTTTTATT
1 ATTTT-ATAATTTTTAAT
* *
6073244 ATTTTTAAAAATTTTAAT
1 A-TTTTATAATTTTTAAT
* *
6073262 ATGTTTTTTAATTTTAAAT
1 A--TTTTATAATTTTTAAT
*
6073281 AGGTTTTAATATTTTTTAAT
1 A--TTTT-ATAATTTTTAAT
*
6073301 -TATTAT-A-TTTT-AT
1 ATTTTATAATTTTTAAT
*
6073314 ATTTTACAA-TTTTAAT
1 ATTTTATAATTTTTAAT
6073330 AATTTTATATCATTTTTAAT
1 -ATTTTATA--ATTTTTAAT
6073350 ATTTTATAATTTTTATGAT
1 ATTTTATAATTTTTA--AT
*
6073369 TTTTTAATAATTTTTA
1 ATTTT-ATAATTTTTA
6073385 TGGGAAACAT
Statistics
Matches: 109, Mismatches: 19, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
13 2 0.02
14 8 0.07
15 5 0.05
16 4 0.04
17 17 0.16
18 10 0.09
19 37 0.34
20 26 0.24
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (17 bp):
ATTTTATAATTTTTAAT
Found at i:6081578 original size:25 final size:25
Alignment explanation
Indices: 6081543--6081590 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6081533 TTATTATTTA
*
6081543 AAATAAATTTTTATTTCTATTTATC
1 AAATAAATTTTTATTTCAATTTATC
* *
6081568 AAATAAGTTTTTTTTTCAATTTA
1 AAATAAATTTTTATTTCAATTTA
6081591 AAAATGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (25 bp):
AAATAAATTTTTATTTCAATTTATC
Found at i:6081595 original size:24 final size:24
Alignment explanation
Indices: 6081538--6081595 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
6081528 TATTTTTATT
*
6081538 ATTT-AAAATAAATTTTTATTTCT
1 ATTTAAAAATAAATTTTTATTTCA
* * *
6081561 ATTTATCAAATAAGTTTTTTTTTCA
1 ATTTA-AAAATAAATTTTTATTTCA
6081586 ATTTAAAAAT
1 ATTTAAAAAT
6081596 GTAAAAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 20 0.71
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTTAAAAATAAATTTTTATTTCA
Found at i:6082648 original size:21 final size:19
Alignment explanation
Indices: 6082624--6082666 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
6082614 GATTTAATAG
6082624 TTTCTAGGCAATTCTTCATGT
1 TTTCTAGG-AA-TCTTCATGT
* *
6082645 TTTCTTGGAATGTTCATGT
1 TTTCTAGGAATCTTCATGT
6082664 TTT
1 TTT
6082667 TAAGACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 2 0.10
21 7 0.35
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.53
Consensus pattern (19 bp):
TTTCTAGGAATCTTCATGT
Found at i:6086013 original size:48 final size:48
Alignment explanation
Indices: 6085960--6086063 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 48
6085950 AATATTTTAA
* * * * *
6085960 TTTATATATATTT-ATACTTTTATACTT-TTCTATAAATTTTGTCTAATT
1 TTTATAAATATTTGATAATTTT-TAATTCTTCTA-AAATTTTATATAATT
* *
6086008 TTTATAAATTTTTGATAATTTTTAATTCTTTTAAAATTTTATATAATT
1 TTTATAAATATTTGATAATTTTTAATTCTTCTAAAATTTTATATAATT
6086056 TTTATAAA
1 TTTATAAA
6086064 AAAATAATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 36 0.77
49 11 0.23
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (48 bp):
TTTATAAATATTTGATAATTTTTAATTCTTCTAAAATTTTATATAATT
Found at i:6086017 original size:10 final size:10
Alignment explanation
Indices: 6085985--6086063 Score: 53
Period size: 10 Copynumber: 8.0 Consensus size: 10
6085975 ACTTTTATAC
6085985 TTTTCTATAAA
1 TTTT-TATAAA
*
6085996 TTTTGTCT-AA
1 TTTT-TATAAA
6086006 TTTTTATAAA
1 TTTTTATAAA
6086016 TTTTTGAT-AA
1 TTTTT-ATAAA
6086026 -TTTT-T-AA
1 TTTTTATAAA
6086033 TTCTTT-TAAA
1 TT-TTTATAAA
*
6086043 ATTTTATATAA
1 TTTTTATA-AA
6086054 TTTTTATAAA
1 TTTTTATAAA
6086064 AAAATAATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
7 3 0.05
8 1 0.02
9 13 0.23
10 22 0.39
11 17 0.30
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:6086026 original size:20 final size:20
Alignment explanation
Indices: 6085980--6086031 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
6085970 TTTATACTTT
*
6085980 TATACTTTTCTATAAATTTTG
1 TATAATTTT-TATAAATTTTG
*
6086001 TCTAATTTTTATAAATTTT-
1 TATAATTTTTATAAATTTTG
6086020 TGATAATTTTTA
1 T-ATAATTTTTA
6086032 ATTCTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 7 0.26
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (20 bp):
TATAATTTTTATAAATTTTG
Found at i:6098081 original size:62 final size:60
Alignment explanation
Indices: 6098008--6098126 Score: 184
Period size: 62 Copynumber: 1.9 Consensus size: 60
6097998 AACTACGTCA
* *
6098008 AGAAACATAAAAGGTAAAAAAATAGAAAATCAATCTTTTTACTTTTTTTGTGTTTTTTTAG
1 AGAAACATAAAAGGTAAAAAAATAGAAAATCAATATTTTT-CTTTTTTTATGTTTTTTTAG
* *
6098069 AGAATACATAAAAGGTAAAAATATAGAAAATCAATATTTTTTTTTTTTTATGTTTTTT
1 AGAA-ACATAAAAGGTAAAAAAATAGAAAATCAATATTTTTCTTTTTTTATGTTTTTT
6098127 AGGGAATGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 19 0.36
62 34 0.64
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (60 bp):
AGAAACATAAAAGGTAAAAAAATAGAAAATCAATATTTTTCTTTTTTTATGTTTTTTTAG
Found at i:6112122 original size:66 final size:66
Alignment explanation
Indices: 6111975--6112123 Score: 145
Period size: 66 Copynumber: 2.3 Consensus size: 66
6111965 CTCCTAGCCC
* * * * **
6111975 GTTTTCAAAAATTAGATCGACGAAATGTCGTCTATTATATTTGCGACAACATAAGTCTCTTAATT
1 GTTTTCAAAAATTAGATCGACGAAATGCCGTCTAATATATTTGAGACAACATAAATCTCTTAAGC
*
6112040 T
66 A
* * * * ** * * * *
6112041 GTTTCCGAGATTTAGATCGGTGAAATGCCGTCTAATGTATTTGAGGCAACGTAAATCTCTTAGGC
1 GTTTTCAAAAATTAGATCGACGAAATGCCGTCTAATATATTTGAGACAACATAAATCTCTTAAGC
6112106 A
66 A
6112107 GTTTTCAAAAATTAGAT
1 GTTTTCAAAAATTAGAT
6112124 AGATGGAATA
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (66 bp):
GTTTTCAAAAATTAGATCGACGAAATGCCGTCTAATATATTTGAGACAACATAAATCTCTTAAGC
A
Found at i:6114155 original size:27 final size:27
Alignment explanation
Indices: 6114118--6114178 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
6114108 TTGGTGCAGA
**
6114118 ATCATCATCATTTTCAACAACAGCAAC
1 ATCATCATCATCATCAACAACAGCAAC
**
6114145 ATCATCATCATCATCTGCAACAGCAAC
1 ATCATCATCATCATCAACAACAGCAAC
*
6114172 AACATCA
1 ATCATCA
6114179 ACAGCAGTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.31, G:0.05, T:0.23
Consensus pattern (27 bp):
ATCATCATCATCATCAACAACAGCAAC
Found at i:6114606 original size:27 final size:27
Alignment explanation
Indices: 6114569--6114629 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
6114559 TTGGTGCAGA
**
6114569 ATCATCATCATTTTCAACAACAGCAAC
1 ATCATCATCATCATCAACAACAGCAAC
**
6114596 ATCATCATCATCATCTGCAACAGCAAC
1 ATCATCATCATCATCAACAACAGCAAC
*
6114623 AACATCA
1 ATCATCA
6114630 ACAGCAGTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.31, G:0.05, T:0.23
Consensus pattern (27 bp):
ATCATCATCATCATCAACAACAGCAAC
Found at i:6114891 original size:451 final size:452
Alignment explanation
Indices: 6114038--6114940 Score: 1736
Period size: 451 Copynumber: 2.0 Consensus size: 452
6114028 TGCTCGGCCG
6114038 TGGCGGCGGAGCGAACGCGAACCCTAGCTTTCAATCGAGGCCGGAGCAACCGCAGTATGCGCAGA
1 TGGCGGCGGAGCGAACGCGAACCCTAGCTTTCAATCGAGGCCGGAGCAACCGCAGTATGCGCAGA
6114103 GAAATTTGGTGCAGAATCATCATCATTTTCAACAACAGCAACATCATCATCATCATCTGCAACAG
66 GAAATTTGGTGCAGAATCATCATCATTTTCAACAACAGCAACATCATCATCATCATCTGCAACAG
6114168 CAACAACATCAACAGCAGTGGCTCAGACGAAACCAATTGCCCGGCGGAAATGACTCCACTGTCGC
131 CAACAACATCAACAGCAGTGGCTCAGACGAAACCAATTGCCCGGCGGAAATGACTCCACTGTCGC
*
6114233 CGATGAGGTCGAGAAGACCGTACAATCTGAAGCCGTCGACTCAAGGTTCATTTTTGTTTCTTCTC
196 CGATGAGGTCGAGAAGACCGTACAATCTGAAGCCGGCGACTCAAGGTTCATTTTTGTTTCTTCTC
*
6114298 CTTTCTTCTTTTTAATTGCATTTGTGATTAATTTTTATTTAATTTTCTTGTACATGTTACGTATT
261 ATTTCTTCTTTTTAATTGCATTTGTGATTAATTTTTATTTAATTTTCTTGTACATGTTACGTATT
6114363 GAATGTTCATAATTATATTTTTTTTCACAAATTAAATTTCTTGTGCATTGTTTACAGTTATTGAT
326 GAATGTTCATAATTATATTTTTTTTCACAAATTAAATTTCTTGTGCATTGTTTACAGTTATTGAT
6114428 TTTTTATTGAATTTTCTTTTATGTATTTCATATTGAATTGTGCACGGTTTTACATTCTTTTT
391 TTTTTATTGAATTTTCTTTTATGTATTTCATATTGAATTGTGCACGGTTTTACATTCTTTTT
6114490 TGGCGGCGGA-CGAACGCGAACCCTAGCTTTCAATCGAGGCCGGAGCAACCGCAGTATGCGCAGA
1 TGGCGGCGGAGCGAACGCGAACCCTAGCTTTCAATCGAGGCCGGAGCAACCGCAGTATGCGCAGA
6114554 GAAATTTGGTGCAGAATCATCATCATTTTCAACAACAGCAACATCATCATCATCATCTGCAACAG
66 GAAATTTGGTGCAGAATCATCATCATTTTCAACAACAGCAACATCATCATCATCATCTGCAACAG
*
6114619 CAACAACATCAACAGCAGTGGCTCAGACGAAACCAATTGCCCGGCGGAAATGACTCCACTGTCGT
131 CAACAACATCAACAGCAGTGGCTCAGACGAAACCAATTGCCCGGCGGAAATGACTCCACTGTCGC
*
6114684 CGATGAGGTCGAGAAGACCGTACAATCTGAAGCCGGCGACTCAAGGTTCTTTTTTGTTTCTTCTC
196 CGATGAGGTCGAGAAGACCGTACAATCTGAAGCCGGCGACTCAAGGTTCATTTTTGTTTCTTCTC
*
6114749 ATTTCTTCTTTTTAATTGCATTTGTGATTAGTTTTTATTTAATTTTCTTGTACATGTTACGTATT
261 ATTTCTTCTTTTTAATTGCATTTGTGATTAATTTTTATTTAATTTTCTTGTACATGTTACGTATT
6114814 GAATGTTCATAATTATATTTTTTTTCACAAATTAAATTTCTTGTGCATTGTTTACAGTTATTGAT
326 GAATGTTCATAATTATATTTTTTTTCACAAATTAAATTTCTTGTGCATTGTTTACAGTTATTGAT
* *
6114879 TTTTTATTGAATTTTCTTTTATGTATTTCATATTGAATTGTGCATGGTTTTACATTGTTTTT
391 TTTTTATTGAATTTTCTTTTATGTATTTCATATTGAATTGTGCACGGTTTTACATTCTTTTT
6114941 CATCTTTCAG
Statistics
Matches: 444, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
451 434 0.98
452 10 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (452 bp):
TGGCGGCGGAGCGAACGCGAACCCTAGCTTTCAATCGAGGCCGGAGCAACCGCAGTATGCGCAGA
GAAATTTGGTGCAGAATCATCATCATTTTCAACAACAGCAACATCATCATCATCATCTGCAACAG
CAACAACATCAACAGCAGTGGCTCAGACGAAACCAATTGCCCGGCGGAAATGACTCCACTGTCGC
CGATGAGGTCGAGAAGACCGTACAATCTGAAGCCGGCGACTCAAGGTTCATTTTTGTTTCTTCTC
ATTTCTTCTTTTTAATTGCATTTGTGATTAATTTTTATTTAATTTTCTTGTACATGTTACGTATT
GAATGTTCATAATTATATTTTTTTTCACAAATTAAATTTCTTGTGCATTGTTTACAGTTATTGAT
TTTTTATTGAATTTTCTTTTATGTATTTCATATTGAATTGTGCACGGTTTTACATTCTTTTT
Found at i:6117353 original size:16 final size:16
Alignment explanation
Indices: 6117332--6117373 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6117322 TTATTAAATT
*
6117332 ATATATTTTAATTATA
1 ATATATTTTAATAATA
6117348 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
6117363 AT-TATGTTTAA
1 ATATAT-TTTAA
6117374 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:6117358 original size:15 final size:15
Alignment explanation
Indices: 6117323--6117364 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6117313 TTAAGAATTT
*
6117323 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6117337 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6117351 TATTTAATAATAAT
1 TATTTAATTATAAT
6117365 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6117599 original size:45 final size:44
Alignment explanation
Indices: 6117518--6117608 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
6117508 ACCTTTATTC
*
6117518 CATTCAACCAAACACAGGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAGGATTACTATTACACCTCTATTCCATTA
*** *
6117562 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCCATTA
6117607 CA
1 CA
6117609 CCTCTAATCA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAGGATTACTATTACACCTCTATTCCATTA
Found at i:6119915 original size:30 final size:31
Alignment explanation
Indices: 6119879--6119949 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
6119869 TACTCTCAGC
*
6119879 TTTTTTTTTTCCTCTTCTTTGTTCGTT-TTT
1 TTTTTTTTTTCCTCTTCTTTGATCGTTCTTT
** * *
6119909 TTTTTTTTTTTTTTTTTTTTGATCGTTCTTT
1 TTTTTTTTTTCCTCTTCTTTGATCGTTCTTT
6119940 TTTTTTTTTT
1 TTTTTTTTTT
6119950 TGTTCTTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 22 0.63
31 13 0.37
ACGTcount: A:0.01, C:0.10, G:0.06, T:0.83
Consensus pattern (31 bp):
TTTTTTTTTTCCTCTTCTTTGATCGTTCTTT
Found at i:6119948 original size:1 final size:1
Alignment explanation
Indices: 6119904--6119928 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
6119894 TCTTTGTTCG
6119904 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
6119929 GATCGTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6120652 original size:18 final size:16
Alignment explanation
Indices: 6120625--6120658 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 16
6120615 AAGAAGCGAG
6120625 TTTTTTTTTATCTTTTT
1 TTTTTTTTTAT-TTTTT
6120642 TTTTATTTTTATTTTTT
1 TTTT-TTTTTATTTTTT
6120659 GATAATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTATTTTTT
Found at i:6128641 original size:42 final size:42
Alignment explanation
Indices: 6128573--6128712 Score: 167
Period size: 42 Copynumber: 3.3 Consensus size: 42
6128563 GTGCTAATCA
* **
6128573 GAAACCCATAAGGGTTGAAC-GAAAGCTCGTAAGAGC-ATAACG
1 GAAACCCATAAGGGTTAAACTG-AAGCTCAAAAGAGCTA-AACG
*
6128615 GAAACCCATAAGGGTTCAACTGAAGCTCAAAAGAGCTAAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTAAACG
** * *
6128657 GAAACCCATTGGGGTTAAAGTGAAGCTCAAAAGAGTTAAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTAAACG
6128699 GAAACCCATTAAGG
1 GAAACCCA-TAAGG
6128713 TTATAGTTAG
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 80 0.94
43 5 0.06
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTAAACG
Found at i:6128715 original size:21 final size:21
Alignment explanation
Indices: 6128651--6128715 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
6128641 TCAAAAGAGC
**
6128651 TAAACGGAAACCCATTGGGGT
1 TAAACGGAAACCCATTAAGGT
* * *
6128672 TAAA-GTGAAGCTCA-AAAGAGT
1 TAAACG-GAAACCCATTAAG-GT
6128693 TAAACGGAAACCCATTAAGGT
1 TAAACGGAAACCCATTAAGGT
6128714 TA
1 TA
6128716 TAGTTAGCTG
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
20 2 0.06
21 26 0.81
22 4 0.12
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (21 bp):
TAAACGGAAACCCATTAAGGT
Found at i:6128764 original size:32 final size:32
Alignment explanation
Indices: 6128723--6128792 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
6128713 TTATAGTTAG
6128723 CTGAAGCTCATGAGAACTAAACGAAAAGTAAA
1 CTGAAGCTCATGAGAACTAAACGAAAAGTAAA
*
6128755 CTGAAGCTCATGAGAACTAAATGAAAAGTAAA
1 CTGAAGCTCATGAGAACTAAACGAAAAGTAAA
6128787 CATGAA
1 C-TGAA
6128793 AGTTCGCAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 32 0.89
33 4 0.11
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (32 bp):
CTGAAGCTCATGAGAACTAAACGAAAAGTAAA
Found at i:6131132 original size:11 final size:11
Alignment explanation
Indices: 6131118--6131144 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6131108 TATACTAAAT
6131118 ATAATAATTAA
1 ATAATAATTAA
6131129 ATAATAATTAA
1 ATAATAATTAA
6131140 ATAAT
1 ATAAT
6131145 TAAAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATAATTAA
Found at i:6131962 original size:94 final size:94
Alignment explanation
Indices: 6131862--6132358 Score: 978
Period size: 94 Copynumber: 5.3 Consensus size: 94
6131852 TTATGACATG
6131862 TAAATTATTTTTATAATAAACTTTTTTATCATAATTTTAAAAAAATTAAAATTTAAATAATATAA
1 TAAATTATTTTTATAATAAACTTTTTTATCATAATTTTAAAAAAATTAAAATTTAAATAATATAA
6131927 TTTTTTGTTATAACTTTATAAAACACAAA
66 TTTTTTGTTATAACTTTATAAAACACAAA
6131956 TAAATTATTTTTATAATAAACTTTTTTATCATAATTTTAAAAAAATTAAAATTTAAATAATATAA
1 TAAATTATTTTTATAATAAACTTTTTTATCATAATTTTAAAAAAATTAAAATTTAAATAATATAA
6132021 TTTTTTGTTATAACTTTATAAAACACAAA
66 TTTTTTGTTATAACTTTATAAAACACAAA
6132050 TAAATTATTTTTATAATAAACTTTTTTATCATAATTTTAAAAAAATTAAAATTTAAATAATATAA
1 TAAATTATTTTTATAATAAACTTTTTTATCATAATTTTAAAAAAATTAAAATTTAAATAATATAA
6132115 TTTTTTGTTATAACTTTATAAAACACAAA
66 TTTTTTGTTATAACTTTATAAAACACAAA
6132144 TAAATTATTTTTATAATAAACTTTTTTATCATAATTTTAAAAAAATTAAAATTTAAATAATATAA
1 TAAATTATTTTTATAATAAACTTTTTTATCATAATTTTAAAAAAATTAAAATTTAAATAATATAA
6132209 TTTTTTGTTATAACTTTATAAAACACAAA
66 TTTTTTGTTATAACTTTATAAAACACAAA
6132238 TAAATTATTTTTATAATAAACTTTTTTATCATAATTTTAAAAAAATTAAAATTTAAATAATATAA
1 TAAATTATTTTTATAATAAACTTTTTTATCATAATTTTAAAAAAATTAAAATTTAAATAATATAA
6132303 TTTTTTGTTATAACTTTATAAAACACAAA
66 TTTTTTGTTATAACTTTATAAAACACAAA
*
6132332 TAAATTATTTTTATAATATA-TTTTTTA
1 TAAATTATTTTTATAATAAACTTTTTTA
6132359 GGATATATAA
Statistics
Matches: 402, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
93 7 0.02
94 395 0.98
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (94 bp):
TAAATTATTTTTATAATAAACTTTTTTATCATAATTTTAAAAAAATTAAAATTTAAATAATATAA
TTTTTTGTTATAACTTTATAAAACACAAA
Found at i:6133355 original size:23 final size:25
Alignment explanation
Indices: 6133311--6133357 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
6133301 AAATTTTCAG
*
6133311 AAAAAAATTGAAATTATGAAAAAAT
1 AAAAAAATTGAAATTATCAAAAAAT
*
6133336 AAAAAAA-T-AAATTCTCAAAAAA
1 AAAAAAATTGAAATTATCAAAAAA
6133358 ATTGACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 1 0.05
25 7 0.35
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.21
Consensus pattern (25 bp):
AAAAAAATTGAAATTATCAAAAAAT
Found at i:6135410 original size:24 final size:24
Alignment explanation
Indices: 6135376--6135427 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6135366 TTTCTAGAAA
* *
6135376 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
6135400 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
6135424 ATTT
1 ATTT
6135428 GAATTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:6135438 original size:24 final size:24
Alignment explanation
Indices: 6135376--6135439 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
6135366 TTTCTAGAAA
* * *
6135376 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGAATTTATTAGCATAATAT
*
6135400 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGAATTTATTAGCATAATAT
6135424 ATTT-GAATTTGATTAG
1 ATTTAGAATTT-ATTAG
6135440 AATTAGGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (24 bp):
ATTTAGAATTTATTAGCATAATAT
Found at i:6136910 original size:24 final size:24
Alignment explanation
Indices: 6136876--6136927 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
6136866 TTTCTAGAAG
* **
6136876 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGACCATAATAT
*
6136900 ATTTAGCATTTATTACCATAATAT
1 ATTTAGCATTTATGACCATAATAT
6136924 ATTT
1 ATTT
6136928 GGCTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGACCATAATAT
Found at i:6144204 original size:13 final size:11
Alignment explanation
Indices: 6144168--6144198 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6144158 CCGCCCGTAT
6144168 TAATTTTTATA
1 TAATTTTTATA
*
6144179 TTATTTTTATA
1 TAATTTTTATA
6144190 TAATTTTTA
1 TAATTTTTA
6144199 AATATATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:6145422 original size:21 final size:19
Alignment explanation
Indices: 6145396--6145435 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
6145386 CTGGTTCGGT
6145396 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
6145417 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
6145436 AAAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:6149208 original size:19 final size:20
Alignment explanation
Indices: 6149162--6149217 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
6149152 TTATCAAAAA
*
6149162 ATAAAATTATTTTTTATTAC
1 ATAAAATTATTTTTCATTAC
*
6149182 ATATAAATTATTTTTCATT-G
1 ATA-AAATTATTTTTCATTAC
6149202 ATAAAATTATTTTTCA
1 ATAAAATTATTTTTCA
6149218 GGAACACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 13 0.39
20 6 0.18
21 14 0.42
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (20 bp):
ATAAAATTATTTTTCATTAC
Found at i:6149380 original size:18 final size:17
Alignment explanation
Indices: 6149348--6149381 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6149338 GTTGAAGATA
6149348 ATGATAATCTATATTAG
1 ATGATAATCTATATTAG
*
6149365 ATGATGAATGTATATTA
1 ATGAT-AATCTATATTA
6149382 TTTTTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (17 bp):
ATGATAATCTATATTAG
Found at i:6155483 original size:2 final size:2
Alignment explanation
Indices: 6155478--6155509 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6155468 TATACATGTA
6155478 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6155510 CATATATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:6156237 original size:27 final size:27
Alignment explanation
Indices: 6156176--6156238 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
6156166 ATTCTTCTCA
6156176 TATTTAA-AATTTAATCCATAACTTTT
1 TATTTAATAATTTAATCCATAACTTTT
*
6156202 TATTCTAATAATTTAGTCC-T-ACTCTTT
1 TATT-TAATAATTTAATCCATAACT-TTT
6156229 TGATTTAATA
1 T-ATTTAATA
6156239 TCATTTTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 7 0.22
27 13 0.41
28 12 0.38
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (27 bp):
TATTTAATAATTTAATCCATAACTTTT
Found at i:6157269 original size:24 final size:24
Alignment explanation
Indices: 6157198--6157276 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 24
6157188 TTCCTAATTG
*
6157198 TTATAATTTTTATATATTTTTTAAT
1 TTATAATTTTTAT-TATTTTTTAAA
* *
6157223 TTGAAAATTTAACCTATTATTTTTTAAA
1 TT-ATAATTT---TTATTATTTTTTAAA
*
6157251 TTATAATTTTTATTATTTTTAAAA
1 TTATAATTTTTATTATTTTTTAAA
6157275 TT
1 TT
6157277 TTAAAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 15 0.34
25 2 0.05
26 6 0.14
27 6 0.14
28 12 0.27
29 3 0.07
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (24 bp):
TTATAATTTTTATTATTTTTTAAA
Found at i:6157535 original size:34 final size:34
Alignment explanation
Indices: 6157492--6157564 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
6157482 AAAATAAAAA
*
6157492 AAATTTGCTTATATACTTAATATTACAAGCATGG
1 AAATTTGCTTATATAATTAATATTACAAGCATGG
*
6157526 AAATTTGCTTATATAATTAATATTACATGCATGG
1 AAATTTGCTTATATAATTAATATTACAAGCATGG
6157560 AAATT
1 AAATT
6157565 CAGAGAAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (34 bp):
AAATTTGCTTATATAATTAATATTACAAGCATGG
Found at i:6160074 original size:20 final size:20
Alignment explanation
Indices: 6160044--6160081 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6160034 TTTATTTATT
6160044 TTTTCCAATTATATCATGTGA
1 TTTTCCAATTA-ATCATGTGA
6160065 TTTT-CAATTAATCATGT
1 TTTTCCAATTAATCATGT
6160082 TTAGTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTTCCAATTAATCATGTGA
Found at i:6167372 original size:14 final size:15
Alignment explanation
Indices: 6167355--6167384 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6167345 CTTTATAAAA
6167355 AAATCTATTT-TTAT
1 AAATCTATTTGTTAT
6167369 AAATCTATTTGTTAT
1 AAATCTATTTGTTAT
6167384 A
1 A
6167385 TTTCAGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (15 bp):
AAATCTATTTGTTAT
Found at i:6175305 original size:3 final size:3
Alignment explanation
Indices: 6175290--6175329 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
6175280 ACCTTCCACT
*
6175290 CCA CCA TCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
6175330 AACAATCACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.65, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:6181626 original size:18 final size:18
Alignment explanation
Indices: 6181603--6181638 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6181593 TTACTGCAGC
6181603 GGACAACTCGACCCGCGT
1 GGACAACTCGACCCGCGT
*
6181621 GGACAACTCGACCTGCGT
1 GGACAACTCGACCCGCGT
6181639 AGGGTAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (18 bp):
GGACAACTCGACCCGCGT
Found at i:6182844 original size:27 final size:24
Alignment explanation
Indices: 6182785--6182845 Score: 59
Period size: 27 Copynumber: 2.3 Consensus size: 24
6182775 TACAATTATA
6182785 TTAATTGTATAAAAAAATTTTACTT
1 TTAATT-TATAAAAAAATTTTACTT
* *
6182810 TAATATTTATAAATATATATTTTACATT
1 TTA-ATTTATAAA-A-AAATTTTAC-TT
6182838 TTAATTTA
1 TTAATTTA
6182846 ATTTTTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 8 0.28
26 4 0.14
27 13 0.45
28 4 0.14
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (24 bp):
TTAATTTATAAAAAAATTTTACTT
Found at i:6186725 original size:11 final size:11
Alignment explanation
Indices: 6186684--6186719 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
6186674 GAGAAATTTA
* *
6186684 AGAGGAAATTC
1 AGAGCAAATTG
6186695 AGAGCAAATTG
1 AGAGCAAATTG
6186706 AGAGCAAATTG
1 AGAGCAAATTG
6186717 AGA
1 AGA
6186720 TTAAATATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.08, G:0.28, T:0.17
Consensus pattern (11 bp):
AGAGCAAATTG
Found at i:6186815 original size:19 final size:19
Alignment explanation
Indices: 6186791--6186830 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
6186781 GAGAGGATTA
*
6186791 GTTTGTGAAAAAAAAATGT
1 GTTTGTGAAAAAAAAAGGT
6186810 GTTTGTGAAAAAAAAAGGT
1 GTTTGTGAAAAAAAAAGGT
6186829 GT
1 GT
6186831 GGGTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (19 bp):
GTTTGTGAAAAAAAAAGGT
Found at i:6202848 original size:7 final size:7
Alignment explanation
Indices: 6202838--6202866 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
6202828 AAAAAAAAGT
6202838 AAAAGAA
1 AAAAGAA
6202845 AAAAGAA
1 AAAAGAA
6202852 AAAAGAA
1 AAAAGAA
6202859 AAAA-AA
1 AAAAGAA
6202865 AA
1 AA
6202867 GCTCAAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:6209066 original size:10 final size:9
Alignment explanation
Indices: 6209051--6209147 Score: 50
Period size: 10 Copynumber: 9.7 Consensus size: 9
6209041 ATTAAAGTAC
6209051 ATAAAAAGTT
1 ATAAAAA-TT
6209061 ATAAAAATTT
1 ATAAAAA-TT
*
6209071 AAACAAAATT
1 ATA-AAAATT
*
6209081 ATTAAAAATA
1 A-TAAAAATT
*
6209091 ATAAAAAAGT
1 AT-AAAAATT
*
6209101 ATAAATATT
1 ATAAAAATT
6209110 AGTAAGAAATT
1 A-TAA-AAATT
* *
6209121 CTAAAAATC
1 ATAAAAATT
6209130 ATTAAAACTATT
1 A-TAAAA--ATT
6209142 ATAAAA
1 ATAAAA
6209148 TATTTTAGGA
Statistics
Matches: 66, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
9 11 0.17
10 38 0.58
11 14 0.21
12 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:6210335 original size:19 final size:19
Alignment explanation
Indices: 6210290--6210350 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
6210280 ATCTAATTAA
6210290 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
6210311 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
6210330 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
6210349 AA
1 AA
6210351 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:6210444 original size:13 final size:13
Alignment explanation
Indices: 6210404--6210452 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
6210394 ACACTAAAAT
6210404 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
* ** *
6210417 TTTTCCACCGCAC
1 TTTTCAAAAGTAC
*
6210430 TTTTTAAAAGTAC
1 TTTTCAAAAGTAC
6210443 TTTTCAAAAG
1 TTTTCAAAAG
6210453 CAATGAAGAA
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:6228846 original size:22 final size:23
Alignment explanation
Indices: 6228821--6228876 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
6228811 TATACGAAAG
6228821 TTATAAAATAAAAGTATG-TATA
1 TTATAAAATAAAAGTATGATATA
*
6228843 TTATATAAA-AAATGTATGCATATA
1 TTATA-AAATAAAAGTATG-ATATA
*
6228867 TTTTAAAATA
1 TTATAAAATA
6228877 TGTATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 13 0.46
23 6 0.21
24 9 0.32
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (23 bp):
TTATAAAATAAAAGTATGATATA
Found at i:6229249 original size:2 final size:2
Alignment explanation
Indices: 6229242--6229266 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6229232 TGTAACATCC
6229242 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6229267 AAGCTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6230181 original size:229 final size:231
Alignment explanation
Indices: 6229756--6230197 Score: 789
Period size: 229 Copynumber: 1.9 Consensus size: 231
6229746 CATTTCTTTC
*
6229756 TTCCCTTTTTTTTTAAAAAAAAACTGAAGATCCCAAATCCCCTCAACCCCTTTTCTTGGCCGCTC
1 TTCCCTTTTTTTTT-AAAAAAAACTGAAGATCCCAAATCCCCTCAACCCCTTTTCTCGGCCGCTC
6229821 CTAATCGCCGCCATGGCCGGAGGCCGGCGCCGCGCGACGGCATCCCCGATCCGCGCATTTGAGGC
65 CTAATCGCCGCCATGGCCGGAGGCCGGCGCCGCGCGACGGCATCCCCGATCCGCGCATTTGAGGC
*
6229886 ATATTCAGAGCACCTGAACTTTGAAAAGGGAAGTCGAGGAGAAAACACGGTCTTTGGCAACCTCT
130 ATATTCAGAGCACCTGAACTTTGAAAAGGGAAGTCGAGAAGAAAACACGGTCTTTGGCAACCTCT
6229951 CGAGCCCGAATCCGACGACGGCAATGGACCATCGCCG
195 CGAGCCCGAATCCGACGACGGCAATGGACCATCGCCG
6229988 TTCCC-TTTTTTTT-AAAAAAACTGAAGATCCCAAATCCCCTCAACCCCTTTTCTCGGCCGCTCC
1 TTCCCTTTTTTTTTAAAAAAAACTGAAGATCCCAAATCCCCTCAACCCCTTTTCTCGGCCGCTCC
* *
6230051 TAATCGCCGCCATGGCCGGTGGCCGGCGCCGCGCGACGGCATCCCCGATTCGCGCATTTGAGGCA
66 TAATCGCCGCCATGGCCGGAGGCCGGCGCCGCGCGACGGCATCCCCGATCCGCGCATTTGAGGCA
* * **
6230116 TATTCAGAGCGCCTGAACTTTGAAAAGGGAAGTCGATAAGAAAACACGGTCTTTGGCCCCCTCTC
131 TATTCAGAGCACCTGAACTTTGAAAAGGGAAGTCGAGAAGAAAACACGGTCTTTGGCAACCTCTC
6230181 GAGCCCGAATCCGACGA
196 GAGCCCGAATCCGACGA
6230198 TTTTTTTAAA
Statistics
Matches: 202, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
229 189 0.94
231 8 0.04
232 5 0.02
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (231 bp):
TTCCCTTTTTTTTTAAAAAAAACTGAAGATCCCAAATCCCCTCAACCCCTTTTCTCGGCCGCTCC
TAATCGCCGCCATGGCCGGAGGCCGGCGCCGCGCGACGGCATCCCCGATCCGCGCATTTGAGGCA
TATTCAGAGCACCTGAACTTTGAAAAGGGAAGTCGAGAAGAAAACACGGTCTTTGGCAACCTCTC
GAGCCCGAATCCGACGACGGCAATGGACCATCGCCG
Found at i:6230520 original size:134 final size:136
Alignment explanation
Indices: 6230253--6230521 Score: 454
Period size: 134 Copynumber: 2.0 Consensus size: 136
6230243 GAAAAGAACA
6230253 GTTTGCAAAAAGAAAAGAAATCAACCTTTAGAATTTGGTTTCTGAGTTTCGATTCACTTGTGTGC
1 GTTTGCAAAAAGAAAAGAAATCAACCTTTAGAATTTGGTTTCTGAGTTTCGATTCACTTGTGTGC
** *
6230318 GTTTTTTTTTTTAAAGAAAAAAAATCCCCCTAGATCTGTTTCAATGGCTTTTAAATAGCCATTTT
66 GTTTTTTTTTACAAAGAAAAAAAACCCCCCTAGATCTGTTTCAATGGCTTTTAAATAGCCATTTT
6230383 ACAATG
131 ACAATG
6230389 GTTTGCAAAAAGAAAA-AAATCAACCTTTAGAATTTGGTTTCTGAGTTTCGATTCACTTGTGTGC
1 GTTTGCAAAAAGAAAAGAAATCAACCTTTAGAATTTGGTTTCTGAGTTTCGATTCACTTGTGTGC
***
6230453 G-TTTTTTTTACAAAG-AAAATCCCCCCTCCTAGATCTGTTTCAATGGCTTTTAAATAGCCATTT
66 GTTTTTTTTTACAAAGAAAAAAAACCCC-CCTAGATCTGTTTCAATGGCTTTTAAATAGCCATTT
6230516 TACAAT
130 TACAAT
6230522 TTTTCTATTG
Statistics
Matches: 126, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
133 7 0.06
134 54 0.43
135 49 0.39
136 16 0.13
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (136 bp):
GTTTGCAAAAAGAAAAGAAATCAACCTTTAGAATTTGGTTTCTGAGTTTCGATTCACTTGTGTGC
GTTTTTTTTTACAAAGAAAAAAAACCCCCCTAGATCTGTTTCAATGGCTTTTAAATAGCCATTTT
ACAATG
Found at i:6230759 original size:106 final size:106
Alignment explanation
Indices: 6230574--6230784 Score: 404
Period size: 106 Copynumber: 2.0 Consensus size: 106
6230564 GTGTTTGCAG
*
6230574 GTGGAGCAGGTGGTGACGTGACGTGCAGCGCGGCGCGGCGGTGACAGGAGGTGGCAGAGGGTTGG
1 GTGGAGCAGGTGGTGACGTGACGTGCAGCGCGGCGCGGCAGTGACAGGAGGTGGCAGAGGGTTGG
6230639 TGGCTGAAGCTAGGGATAGGGAGCGGCGGCTAGGTCTTTTC
66 TGGCTGAAGCTAGGGATAGGGAGCGGCGGCTAGGTCTTTTC
*
6230680 GTGGAGCAGGTGGTGACGTGACGTGCGGCGCGGCGCGGCAGTGACAGGAGGTGGCAGAGGGTTGG
1 GTGGAGCAGGTGGTGACGTGACGTGCAGCGCGGCGCGGCAGTGACAGGAGGTGGCAGAGGGTTGG
6230745 TGGCTGAAGCTAGGGATAGGGAGCGGCGGCTAGGTCTTTT
66 TGGCTGAAGCTAGGGATAGGGAGCGGCGGCTAGGTCTTTT
6230785 TTTTTGGCTG
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.16, C:0.17, G:0.49, T:0.18
Consensus pattern (106 bp):
GTGGAGCAGGTGGTGACGTGACGTGCAGCGCGGCGCGGCAGTGACAGGAGGTGGCAGAGGGTTGG
TGGCTGAAGCTAGGGATAGGGAGCGGCGGCTAGGTCTTTTC
Found at i:6230847 original size:27 final size:28
Alignment explanation
Indices: 6230816--6230871 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
6230806 GGTTTTGGGC
6230816 TTGTTGGGTATTTGGGCTT-GGTT-TAAT
1 TTGTTGGGT-TTTGGGCTTGGGTTGTAAT
*
6230843 TTGTTGGGTTTTGGGTTTGGGTTGTAAT
1 TTGTTGGGTTTTGGGCTTGGGTTGTAAT
6230871 T
1 T
6230872 GGGTTTTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.31
27 13 0.50
28 5 0.19
ACGTcount: A:0.09, C:0.02, G:0.36, T:0.54
Consensus pattern (28 bp):
TTGTTGGGTTTTGGGCTTGGGTTGTAAT
Found at i:6231664 original size:86 final size:86
Alignment explanation
Indices: 6231519--6231691 Score: 265
Period size: 86 Copynumber: 2.0 Consensus size: 86
6231509 AGATCTTAAA
* * * * * *
6231519 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTAC
1 TCTTCGATCTACTTCGCCGTCAATACAGGAAGACAAGATCTGTTATCTTCAACCAGCTCCACCAC
6231584 AACCGAGAGAGGCAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
* * *
6231605 TCTTCGATCTACTTCGCTGTCAATGCAGGAAGACAAGATCTTTTATCTTCAACCAGCTCCACCAC
1 TCTTCGATCTACTTCGCCGTCAATACAGGAAGACAAGATCTGTTATCTTCAACCAGCTCCACCAC
6231670 AACCGAGAGAGGCAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
6231691 T
1 T
6231692 GTCTTCAATC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (86 bp):
TCTTCGATCTACTTCGCCGTCAATACAGGAAGACAAGATCTGTTATCTTCAACCAGCTCCACCAC
AACCGAGAGAGGCAAGGTTTG
Found at i:6231742 original size:41 final size:44
Alignment explanation
Indices: 6231697--6231812 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 44
6231687 TTTGTGTCTT
6231697 CAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-CC-TGA-TG
1 CAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCCTTGATTG
* * * * *
6231738 CAATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTT
1 CAATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCCTTGATTG
* * *
6231782 TAATCTGCTCCACTGTAATCTCAAGGAGATA
1 CAATCTGCTCCGCTGTAATCTCAGGGAGATA
6231813 GGATTACCGG
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.02
41 29 0.49
42 2 0.03
43 2 0.03
44 24 0.41
45 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
CAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCCTTGATTG
Found at i:6231947 original size:88 final size:88
Alignment explanation
Indices: 6231823--6232506 Score: 987
Period size: 88 Copynumber: 7.8 Consensus size: 88
6231813 GGATTACCGG
* * * * * *
6231823 CTTCAATCTGCTCCGCTGTCAATGCAAGAAGGCAAGATCTGTTGTCTTTAACCAGCTCTA-CTAC
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC-AC
6231887 AACCGAGAGAGGCAAGGTTTGTGT
65 AACCGAGAGAGGCAAGGTTTGTGT
* * * * * *
6231911 ATTTGATCTGTTTCGCTATCAATGCAGGAAGACAAGATCTGTTGTCTTCAACCAGCTCCATCACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
* *
6231976 ACCGAAAGAGGCAAGGTTCGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * * *
6231999 ATTTGATCTGCTTCGCTATCAACGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCA-CTAC
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC-AC
6232063 AACCGAGAGAGGCAAGGTTTGTGT
65 AACCGAGAGAGGCAAGGTTTGTGT
* *
6232087 CTTCGATCTACTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
* * *
6232152 ATCGAAAGATGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* *
6232175 CTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
6232240 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * *
6232263 CTTCGATCTGCCTCGCTGTCAATACGGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
*
6232328 ATCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * *
6232351 CTTCGACCTG-TTCCGCTGTCAATTCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCAC
1 CTTCGATCTGCTT-CGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
*
6232415 AATCGAGAGAGGCAAGGTTTGTGT
65 AACCGAGAGAGGCAAGGTTTGTGT
* *
6232439 CTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
6232504 ACC
66 ACC
6232507 TAATTCAATA
Statistics
Matches: 540, Mismatches: 51, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
87 2 0.00
88 534 0.99
89 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (88 bp):
CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
ACCGAGAGAGGCAAGGTTTGTGT
Found at i:6237152 original size:29 final size:29
Alignment explanation
Indices: 6237053--6237139 Score: 165
Period size: 29 Copynumber: 3.0 Consensus size: 29
6237043 TTAACTTCAT
*
6237053 GATTTATTTATTTATTCTATTATTTTCTG
1 GATTTATTTATTTATTCTATTATTTTCCG
6237082 GATTTATTTATTTATTCTATTATTTTCCG
1 GATTTATTTATTTATTCTATTATTTTCCG
6237111 GATTTATTTATTTATTCTATTATTTTCCG
1 GATTTATTTATTTATTCTATTATTTTCCG
6237140 CATGTAAATA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.21, C:0.09, G:0.07, T:0.63
Consensus pattern (29 bp):
GATTTATTTATTTATTCTATTATTTTCCG
Found at i:6238332 original size:61 final size:60
Alignment explanation
Indices: 6238257--6238370 Score: 156
Period size: 61 Copynumber: 1.9 Consensus size: 60
6238247 AAAAATGATT
* * * * *
6238257 ATTTTTAAAATTTTTAGAGTTAGGAGTAAATTGACAAATTTTGTAAACATTGAGAGATAA
1 ATTTTTAAAATTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGAGATAA
* *
6238317 ATTTATTAAATTTTTTAGAATTAGAACTAAAATGACAAAATTTGTGAACATTGA
1 ATTT-TTAAAATTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGA
6238371 AGGCTAAACT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 4 0.09
61 42 0.91
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (60 bp):
ATTTTTAAAATTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGAGATAA
Found at i:6240730 original size:14 final size:13
Alignment explanation
Indices: 6240702--6240728 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6240692 ACATCAATTC
6240702 TAAAAATTTATTT
1 TAAAAATTTATTT
6240715 TAAAAATTTATTT
1 TAAAAATTTATTT
6240728 T
1 T
6240729 TATATGAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAAAATTTATTT
Found at i:6250645 original size:24 final size:24
Alignment explanation
Indices: 6250617--6250662 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6250607 ATCATTTTTT
*
6250617 GCTGCTCATTCATTTACTTTTGAA
1 GCTGCTCATGCATTTACTTTTGAA
* *
6250641 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTACTTTTG
6250663 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTACTTTTGAA
Found at i:6252086 original size:22 final size:22
Alignment explanation
Indices: 6252061--6252129 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
6252051 TACAAATTAA
6252061 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTACAAAATCAT
*
6252083 ATCTTCTAAGATTAC-ATATCAT
1 ATC-TCTAAGATTACAAAATCAT
*
6252105 A--TCTAAGATTGCATAATATCAT
1 ATCTCTAAGATTACA-AA-ATCAT
6252127 ATC
1 ATC
6252130 AGGATTGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
19 10 0.26
21 1 0.03
22 16 0.42
23 11 0.29
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (22 bp):
ATCTCTAAGATTACAAAATCAT
Found at i:6252094 original size:23 final size:22
Alignment explanation
Indices: 6252051--6252108 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
6252041 AAAGGGTATC
* *
6252051 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
6252072 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
6252095 TACATATCATATCT
1 TACAAATCATATCT
6252109 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:6252111 original size:19 final size:19
Alignment explanation
Indices: 6252064--6252180 Score: 101
Period size: 19 Copynumber: 5.8 Consensus size: 19
6252054 AAATTAAATC
*
6252064 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
6252084 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
6252106 TCTAAGATTGCATAATATCATA
1 TCTAAGATT--A-CATATCATA
* *
6252128 TC-AGGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
6252146 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
6252165 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
6252181 CTCAAAAATT
Statistics
Matches: 84, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
18 10 0.12
19 40 0.48
21 6 0.07
22 17 0.20
23 11 0.13
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:6252145 original size:40 final size:38
Alignment explanation
Indices: 6252080--6252180 Score: 127
Period size: 40 Copynumber: 2.7 Consensus size: 38
6252070 ATTACAAAAT
*
6252080 CATATC-T-TCTAAGATTACATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
* *
6252116 CATAATATCATATC-AGGATTGCATATCATATCTAGGATTG
1 C---ATATCATATCTAAGATTGCATATCATATCTAAGATTG
6252156 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTGCATATC
6252181 CTCAAAAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
36 1 0.02
37 10 0.18
38 12 0.22
39 5 0.09
40 25 0.45
41 2 0.04
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:6253234 original size:5 final size:5
Alignment explanation
Indices: 6253211--6253254 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
6253201 TAACATTATT
* *
6253211 TAAAA -AAAA TTACA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
6253255 GGAAATTGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:6253260 original size:15 final size:15
Alignment explanation
Indices: 6253226--6253260 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6253216 AAAATTACAT
*
6253226 AAAATAAAATAAAAT
1 AAAATAAAATAAAAG
6253241 AAAATAAAATAAAAG
1 AAAATAAAATAAAAG
*
6253256 GAAAT
1 AAAAT
6253261 TGAGTCTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAATAAAATAAAAG
Found at i:6267285 original size:7 final size:7
Alignment explanation
Indices: 6267273--6267297 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6267263 GTCTTGTCAA
6267273 GTTTCTT
1 GTTTCTT
6267280 GTTTCTT
1 GTTTCTT
6267287 GTTTCTT
1 GTTTCTT
6267294 GTTT
1 GTTT
6267298 TAGACATGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.16, T:0.72
Consensus pattern (7 bp):
GTTTCTT
Found at i:6269802 original size:7 final size:7
Alignment explanation
Indices: 6269790--6269814 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6269780 GTCTTGTCAA
6269790 GTTTCTT
1 GTTTCTT
6269797 GTTTCTT
1 GTTTCTT
6269804 GTTTCTT
1 GTTTCTT
6269811 GTTT
1 GTTT
6269815 TAGACATGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.16, T:0.72
Consensus pattern (7 bp):
GTTTCTT
Found at i:6272199 original size:35 final size:35
Alignment explanation
Indices: 6272153--6272223 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
6272143 TTTGGGTGTA
6272153 ATTATCGGACATGCCTCTCTTGTATAATTATAAAC
1 ATTATCGGACATGCCTCTCTTGTATAATTATAAAC
6272188 ATTATCGGACATGCCTCTCTTGTATAATTATAAAC
1 ATTATCGGACATGCCTCTCTTGTATAATTATAAAC
6272223 A
1 A
6272224 ATCATATCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (35 bp):
ATTATCGGACATGCCTCTCTTGTATAATTATAAAC
Found at i:6272582 original size:23 final size:23
Alignment explanation
Indices: 6272539--6272584 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6272529 AAAAAATTGA
* *
6272539 TTACTGTTTTCTTGGTTTTTTTT
1 TTACTGTTTTCTTGCTATTTTTT
*
6272562 TTACTGTTTTGTTGCTATTTTTT
1 TTACTGTTTTCTTGCTATTTTTT
6272585 AAAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.07, C:0.09, G:0.13, T:0.72
Consensus pattern (23 bp):
TTACTGTTTTCTTGCTATTTTTT
Found at i:6278981 original size:85 final size:86
Alignment explanation
Indices: 6278849--6279021 Score: 339
Period size: 85 Copynumber: 2.0 Consensus size: 86
6278839 TTAAATAGAT
6278849 TTAAAAAAATATAATAATTATATAAAGTCATATAAAAAATTTAATCAAAACTAAAAAAAAAACTC
1 TTAAAAAAATATAATAATTATATAAAGTCATATAAAAAATTTAATCAAAACTAAAAAAAAAACTC
6278914 TTACTAGCGTTTTACTTTTCA
66 TTACTAGCGTTTTACTTTTCA
6278935 TTAAAAAAATA-AATAATTATATAAAGTCATATAAAAAATTTAATCAAAACTAAAAAAAAAACTC
1 TTAAAAAAATATAATAATTATATAAAGTCATATAAAAAATTTAATCAAAACTAAAAAAAAAACTC
6278999 TTACTAGCGTTTTACTTTTCA
66 TTACTAGCGTTTTACTTTTCA
6279020 TT
1 TT
6279022 TCTCCTGCTT
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 76 0.87
86 11 0.13
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.34
Consensus pattern (86 bp):
TTAAAAAAATATAATAATTATATAAAGTCATATAAAAAATTTAATCAAAACTAAAAAAAAAACTC
TTACTAGCGTTTTACTTTTCA
Found at i:6293710 original size:17 final size:17
Alignment explanation
Indices: 6293657--6293712 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
6293647 AACCCAAGTC
**
6293657 TTTAGTTTTTTATTTCCT
1 TTTA-TTTTTTATTTATT
* *
6293675 TTTATTATTTACTTATT
1 TTTATTTTTTATTTATT
*
6293692 TTTATTTTTTATTTTTT
1 TTTATTTTTTATTTATT
6293709 TTTA
1 TTTA
6293713 GATTGGCGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 27 0.87
18 4 0.13
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTATTTTTTATTTATT
Found at i:6303780 original size:44 final size:44
Alignment explanation
Indices: 6303717--6303806 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
6303707 TAAATGAACA
6303717 AGTGCCTTTTGCACACTCAGGCACAAACTTACAGTCCACAACTT
1 AGTGCCTTTTGCACACTCAGGCACAAACTTACAGTCCACAACTT
6303761 AGTGCCTTTTGCACACTCAGGCACAAACTTACAGTCCACAACTT
1 AGTGCCTTTTGCACACTCAGGCACAAACTTACAGTCCACAACTT
6303805 AG
1 AG
6303807 CTAGCAGGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.24
Consensus pattern (44 bp):
AGTGCCTTTTGCACACTCAGGCACAAACTTACAGTCCACAACTT
Found at i:6306477 original size:16 final size:17
Alignment explanation
Indices: 6306451--6306488 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
6306441 TATATTTTCA
*
6306451 ATATAAATTTTATATTT
1 ATATTAATTTTATATTT
6306468 -TATTAATTTTATATTT
1 ATATTAATTTTATATTT
6306484 ATATT
1 ATATT
6306489 TTCTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTAATTTTATATTT
Found at i:6306487 original size:22 final size:24
Alignment explanation
Indices: 6306459--6306515 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
6306449 CAATATAAAT
6306459 TTTATATTTTATTAA-TTTTAT-A
1 TTTATATTTTATTAATTTTTATAA
* *
6306481 TTTATATTTT-CTAATTTTTCTAA
1 TTTATATTTTATTAATTTTTATAA
6306504 TTT-TATTTTATT
1 TTTATATTTTATT
6306516 TAATAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 3 0.10
22 21 0.72
23 5 0.17
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTATATTTTATTAATTTTTATAA
Found at i:6307113 original size:21 final size:22
Alignment explanation
Indices: 6307072--6307116 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
6307062 TACATATCAT
*
6307072 TTAATTTATATATATTGTTAAA
1 TTAATTTATATATAATGTTAAA
*
6307094 TTAATTTAT-TTTAATGTTAAA
1 TTAATTTATATATAATGTTAAA
6307115 TT
1 TT
6307117 GTTAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TTAATTTATATATAATGTTAAA
Found at i:6322921 original size:20 final size:19
Alignment explanation
Indices: 6322884--6322923 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6322874 TATCTGTTTG
*
6322884 TATTTTTATATATCAATAA
1 TATTTTTATATATAAATAA
*
6322903 TATTTTTATAATTTAAATAA
1 TATTTTTAT-ATATAAATAA
6322923 T
1 T
6322924 TTTAATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTTTTATATATAAATAA
Found at i:6330257 original size:130 final size:132
Alignment explanation
Indices: 6329996--6330257 Score: 404
Period size: 132 Copynumber: 2.0 Consensus size: 132
6329986 TGATGTGTAG
* *
6329996 AGTACAATTGTTCGAGGGTGATGATTTGGATGTTGTCAACCTGTGAACTCTTTTGAGATGGGATA
1 AGTACAATTGTTCGAGGGTGATGATTTGGATGTCGTCAACATGTGAACTCTTTTGAGATGGGATA
* * *
6330061 ATTCATATATACGGCAGTCAGAAAAAGTGAGCATTGTCAAGAACCATTCTGAGAATTGTTTTACT
66 ATTCATATAAACGGCAATCAGAAAAAGTGAGCATTGTCAAGAACCATTCTGAGAATGGTTTTACT
6330126 TT
131 TT
* * * *
6330128 AGTACAATTGTTCGAGGTTGATGTTTTGGATGTCGTCAACATGTGTACTCTTTTGAGATGGGATG
1 AGTACAATTGTTCGAGGGTGATGATTTGGATGTCGTCAACATGTGAACTCTTTTGAGATGGGATA
*
6330193 A-T-ATATAAACGGCAATCAGAACAAA-TGAGCATTGTCAAGGACCATTCTGAGAATGGTTTTAC
66 ATTCATATAAACGGCAATCAGAA-AAAGTGAGCATTGTCAAGAACCATTCTGAGAATGGTTTTAC
6330255 TTT
130 TTT
6330258 CACTTTCACC
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
130 55 0.46
131 4 0.03
132 60 0.50
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (132 bp):
AGTACAATTGTTCGAGGGTGATGATTTGGATGTCGTCAACATGTGAACTCTTTTGAGATGGGATA
ATTCATATAAACGGCAATCAGAAAAAGTGAGCATTGTCAAGAACCATTCTGAGAATGGTTTTACT
TT
Found at i:6338096 original size:14 final size:14
Alignment explanation
Indices: 6338077--6338114 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
6338067 ATTCAGACAT
* *
6338077 AGACAACAATAAAA
1 AGACAAAAAAAAAA
6338091 AGACAAAAAAAAAA
1 AGACAAAAAAAAAA
6338105 AGA-AAAAAAA
1 AGACAAAAAAA
6338115 GAGAGCATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.03
Consensus pattern (14 bp):
AGACAAAAAAAAAA
Found at i:6345724 original size:4 final size:4
Alignment explanation
Indices: 6345715--6345739 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6345705 TTAAAGTTTC
6345715 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
6345740 TAACAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:6345774 original size:17 final size:17
Alignment explanation
Indices: 6345727--6345775 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
6345717 TTAATTAATT
*
6345727 AATTAATTAATTAT-AAC
1 AATTAATT-ATTATAAAA
6345744 AA-TAATT-TTAATAAAA
1 AATTAATTATT-ATAAAA
6345760 AATTAATTATTATAAA
1 AATTAATTATTATAAA
6345776 TATCTAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
14 2 0.07
15 2 0.07
16 9 0.33
17 12 0.44
18 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTAATTATTATAAAA
Found at i:6346796 original size:18 final size:18
Alignment explanation
Indices: 6346775--6346815 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6346765 AAAAAGAGTT
6346775 ATTAATTTAAAATT-TTTA
1 ATTAA-TTAAAATTATTTA
*
6346793 ATTAATTAAACTTATTTA
1 ATTAATTAAAATTATTTA
6346811 ATTAA
1 ATTAA
6346816 AAATCTGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTAATTAAAATTATTTA
Found at i:6375062 original size:30 final size:30
Alignment explanation
Indices: 6375015--6375093 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 30
6375005 AATGATAAAA
*
6375015 AATAAAAATCAATAAAAATTATTAAATTTT
1 AATAAAAATCAATAAAAATTATTAAAATTT
*
6375045 AATAAATAATCTA-AAAAATTATTAAAATTT
1 AATAAA-AATCAATAAAAATTATTAAAATTT
* *
6375075 AGAAAAAAAT-TATAAAAAT
1 A-ATAAAAATCAATAAAAAT
6375094 CGTAAAAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
29 2 0.05
30 32 0.74
31 9 0.21
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (30 bp):
AATAAAAATCAATAAAAATTATTAAAATTT
Found at i:6375101 original size:21 final size:21
Alignment explanation
Indices: 6375057--6375102 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6375047 TAAATAATCT
* *
6375057 AAAAAATTATTAAAATTTAGA
1 AAAAAATTATAAAAATGTAGA
6375078 AAAAAATTATAAAAATCGTA-A
1 AAAAAATTATAAAAAT-GTAGA
6375099 AAAA
1 AAAA
6375103 GTATAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (21 bp):
AAAAAATTATAAAAATGTAGA
Found at i:6398698 original size:15 final size:14
Alignment explanation
Indices: 6398674--6398711 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6398664 GTTTGGCACT
6398674 AAAATG-TTTTCTGA
1 AAAATGATTTT-TGA
6398688 AAAATGATTTTTGA
1 AAAATGATTTTTGA
*
6398702 AAAATAATTT
1 AAAATGATTT
6398712 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (14 bp):
AAAATGATTTTTGA
Found at i:6398750 original size:14 final size:15
Alignment explanation
Indices: 6398714--6398750 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6398704 AATAATTTAC
6398714 TTTTCTGGAAAATAA
1 TTTTCTGGAAAATAA
*
6398729 TTTACTGGAAAAT-A
1 TTTTCTGGAAAATAA
6398743 TTTTCTGG
1 TTTTCTGG
6398751 TGTTTGGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.43
Consensus pattern (15 bp):
TTTTCTGGAAAATAA
Found at i:6398933 original size:18 final size:17
Alignment explanation
Indices: 6398906--6398969 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
6398896 TTTTACATAA
6398906 TATATATTAATAAATTTT
1 TATATATTAAT-AATTTT
* *
6398924 TATATTTTAAATTAGTTTT
1 TATATATT-AA-TAATTTT
* *
6398943 AATATATTAATAAGTTT
1 TATATATTAATAATTTT
*
6398960 TATATTTTAA
1 TATATATTAA
6398970 ATTAGTTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
17 13 0.36
18 9 0.25
19 13 0.36
20 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TATATATTAATAATTTT
Found at i:6398968 original size:36 final size:38
Alignment explanation
Indices: 6398907--6398987 Score: 139
Period size: 36 Copynumber: 2.2 Consensus size: 38
6398897 TTTACATAAT
*
6398907 ATATATTAATAAATTTTTATATTTTAAATTAGTTTTA-
1 ATATATTAATAAAGTTTTATATTTTAAATTAGTTTTAC
6398944 ATATATTAAT-AAGTTTTATATTTTAAATTAGTTTTAC
1 ATATATTAATAAAGTTTTATATTTTAAATTAGTTTTAC
6398981 ATATATT
1 ATATATT
6398988 GCAATGATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 25 0.60
37 17 0.40
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.56
Consensus pattern (38 bp):
ATATATTAATAAAGTTTTATATTTTAAATTAGTTTTAC
Found at i:6398976 original size:18 final size:18
Alignment explanation
Indices: 6398921--6398979 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
6398911 ATTAATAAAT
6398921 TTTTATATTTTAAATTAG
1 TTTTATATTTTAAATTAG
* *
6398939 TTTTAATATATT-AATAAG
1 TTTT-ATATTTTAAATTAG
6398957 TTTTATATTTTAAATTAG
1 TTTTATATTTTAAATTAG
6398975 TTTTA
1 TTTTA
6398980 CATATATTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.17
18 23 0.66
19 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTATATTTTAAATTAG
Found at i:6400900 original size:14 final size:14
Alignment explanation
Indices: 6400881--6400920 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
6400871 TTGATTGGCT
6400881 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
6400895 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
6400909 GGAAAATGTTTT
1 GTAAAATGTTTT
6400921 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:6400933 original size:34 final size:35
Alignment explanation
Indices: 6400889--6400955 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
6400879 CTGTAAAATG
* *
6400889 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
6400923 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
6400956 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:6400942 original size:20 final size:20
Alignment explanation
Indices: 6400904--6400943 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6400894 CGTAAAATGA
**
6400904 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
6400924 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
6400944 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:6411410 original size:20 final size:20
Alignment explanation
Indices: 6411368--6411416 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
6411358 ATTTATTTAT
* * * *
6411368 TAAAATAATATTTTTATAGA
1 TAAAATAATAATCTTAAAAA
6411388 TAAAATAATAATCTTAAAAA
1 TAAAATAATAATCTTAAAAA
*
6411408 TAAAGTAAT
1 TAAAATAAT
6411417 TTAGGGGAGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (20 bp):
TAAAATAATAATCTTAAAAA
Found at i:6412742 original size:16 final size:17
Alignment explanation
Indices: 6412710--6412742 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6412700 ATTCACATAA
6412710 ACCAAAATCATTTCAAG
1 ACCAAAATCATTTCAAG
6412727 ACCAAAATCA-TTCAAG
1 ACCAAAATCATTTCAAG
6412743 TATAGCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (17 bp):
ACCAAAATCATTTCAAG
Done.