Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 176 of 770
Found at i:52625622 original size:40 final size:39
Alignment explanation
Indices: 52625577--52625706 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
52625567 CGGAATATAA
52625577 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
52625617 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
52625657 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
52625697 CCGGATATAA
1 CCGGATATAA
52625707 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:52625721 original size:40 final size:40
Alignment explanation
Indices: 52625593--52625744 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
52625583 ATAACCATGT
* * *
52625593 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
52625633 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
52625673 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
52625713 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
52625745 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:52625727 original size:80 final size:80
Alignment explanation
Indices: 52625593--52625742 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
52625583 ATAACCATGT
*
52625593 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
52625657 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
52625673 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
52625736 CCCGGAT
64 CCCGGAT
52625743 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:52633640 original size:40 final size:39
Alignment explanation
Indices: 52633595--52633724 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
52633585 CGGAATATAA
52633595 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
52633635 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
52633675 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
52633715 CCGGATATAA
1 CCGGATATAA
52633725 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:52633739 original size:40 final size:40
Alignment explanation
Indices: 52633611--52633762 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
52633601 ATAACCATGT
* * *
52633611 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
52633651 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
52633691 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
52633731 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
52633763 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:52633745 original size:80 final size:80
Alignment explanation
Indices: 52633611--52633760 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
52633601 ATAACCATGT
*
52633611 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
52633675 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
52633691 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
52633754 CCCGGAT
64 CCCGGAT
52633761 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:52650050 original size:48 final size:49
Alignment explanation
Indices: 52649881--52650058 Score: 193
Period size: 49 Copynumber: 3.7 Consensus size: 49
52649871 GGGATAAGAT
* *
52649881 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAA
1 GTCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTATCATCTATCGAA
* * * * * *
52649929 GTCGATGCCAT-TTCCAGGACAGGACTTACACTGACTTTCATATATCGAG
1 GTCGATGCCATGTCCCA-GACAGGTCTTACACTGGCTATCATCTATCGAA
* * * *
52649978 GCCGATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGAC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCGAA
*
52650027 GTCAAT-CCATGTCCCAGACAGGTCTTACACTG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTG
52650059 ACATACAACA
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
47 19 0.18
48 40 0.37
49 44 0.41
50 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCGAA
Found at i:52650054 original size:97 final size:97
Alignment explanation
Indices: 52649883--52650060 Score: 236
Period size: 97 Copynumber: 1.8 Consensus size: 97
52649873 GATAAGATGT
* *
52649883 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATTTCCAGGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCAATGCCATTCCCAGGA
52649948 CAGGACTTACACTGACTTTCATATATCGAGGC
66 CAGGACTTACACTGACTTTCATATATCGAGGC
* ** * *
52649980 CGATGCCGTGTCCCAGACA-GGTCTTACACTGGCTCTCATCTATCGACGTCAAT-CCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTCAATGCCAT-TCCCA
*
52650043 -GACAGGTCTTACACTGAC
63 GGACAGGACTTACACTGAC
52650061 ATACAACATG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
96 17 0.24
97 40 0.57
98 13 0.19
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (97 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCAATGCCATTCCCAGGA
CAGGACTTACACTGACTTTCATATATCGAGGC
Found at i:52650149 original size:48 final size:46
Alignment explanation
Indices: 52650078--52650198 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
52650068 ATGCTGACAC
* * * *
52650078 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCAAGGCCGATG
* * *
52650126 CATGTCCTAGACATGTCTTACACTAGCTCTCATCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
* *
52650172 CATGACCCAAACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
52650199 GCACATATCA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 36 0.57
47 2 0.03
48 25 0.40
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
Found at i:52650571 original size:30 final size:30
Alignment explanation
Indices: 52650535--52650591 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
52650525 ACATTTTTGG
**
52650535 CAAAATGACCATTTTGTCCCTAGACTTTTA
1 CAAAATGACCATTTTACCCCTAGACTTTTA
52650565 CAAAATGACCATTTTACCCCTAGACTT
1 CAAAATGACCATTTTACCCCTAGACTT
52650592 GAAAATCGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.33
Consensus pattern (30 bp):
CAAAATGACCATTTTACCCCTAGACTTTTA
Found at i:52652615 original size:20 final size:20
Alignment explanation
Indices: 52652590--52652630 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
52652580 GACTAAAATG
52652590 AAAATTGTAAAATTTGATGA
1 AAAATTGTAAAATTTGATGA
* * *
52652610 AAAATTTTGAAATTTTATGA
1 AAAATTGTAAAATTTGATGA
52652630 A
1 A
52652631 TACGTGTGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (20 bp):
AAAATTGTAAAATTTGATGA
Found at i:52661409 original size:99 final size:100
Alignment explanation
Indices: 52661241--52661474 Score: 301
Period size: 99 Copynumber: 2.4 Consensus size: 100
52661231 GTCGCATGTT
* *
52661241 TAGTACTAGGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGTGCA
1 TAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGTGCA
* * ** *
52661306 GGCTACTATGTGTATCAGATGGTTAGGTCACGTATG
66 GGCTACTACGTGTACCAGATAATT-GGTCACATATG
* * *
52661342 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGATCACGTGTGTAGTACTAAGTGCA
1 TAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGTGCA
* * *
52661405 GGCTACTACGTGTACCGGATAATTGGTCGCATGTG
66 GGCTACTACGTGTACCAGATAATTGGTCACATATG
* * *
52661440 TAGTACTATGTGCAGGCTACTATGCGTACCAGAAA
1 TAGTACTAAGTGCAGGCTACTACGCGTACCCGAAA
52661475 GCTTTGGCTA
Statistics
Matches: 115, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 38 0.33
99 45 0.39
100 1 0.01
101 31 0.27
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (100 bp):
TAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGTGCA
GGCTACTACGTGTACCAGATAATTGGTCACATATG
Found at i:52661469 original size:49 final size:49
Alignment explanation
Indices: 52661241--52661469 Score: 278
Period size: 49 Copynumber: 4.6 Consensus size: 49
52661231 GTCGCATGTT
* * * * *
52661241 TAGTACTAGGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-T-TGGTCACGTGTG
* * ** *
52661292 TAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTATG
1 TAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GGTCACGTGTG
* *
52661342 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACGTGTG
* * *
52661391 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACGTGTG
* *
52661440 TAGTACTATGTGCAGGCTACTATGCGTACC
1 TAGTACTAAGTGCAGGCTACTATGTGTACC
52661470 AGAAAGCTTT
Statistics
Matches: 155, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 83 0.54
50 43 0.28
51 29 0.19
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACGTGTG
Found at i:52671953 original size:24 final size:24
Alignment explanation
Indices: 52671926--52672088 Score: 299
Period size: 24 Copynumber: 6.8 Consensus size: 24
52671916 GCTGGAAATA
52671926 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
52671950 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
52671974 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
52671998 TATGGCACTATGTGTGCTATTTAC
1 TATGGCACTATGTGTGCGATTTAC
52672022 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
52672046 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
52672070 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
52672089 ACATAATAAG
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 135 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:52674219 original size:40 final size:40
Alignment explanation
Indices: 52674102--52674254 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
52674092 TCGAATGATG
* * * *
52674102 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTTACTAAA
1 TCCGGGATAAGTCCCGAAGGTATTTGTAC-GAGTTACTAAA
* *
52674142 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGTATTTGTACGAGTTACTAAA
*
52674182 TCCGGGATAAGTCCCGAAGGTATTTGTACGAGCTACTATAA
1 TCCGGGATAAGTCCCGAAGGTATTTGTACGAGTTACTA-AA
* * * *
52674223 -CTGGGCTATGTCCCGAAGGTATTTGAACGAGT
1 TCCGGGATAAGTCCCGAAGGTATTTGTACGAGT
52674255 AGCTATATCT
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
39 3 0.03
40 80 0.83
41 13 0.14
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGATAAGTCCCGAAGGTATTTGTACGAGTTACTAAA
Found at i:52675756 original size:28 final size:27
Alignment explanation
Indices: 52675693--52675762 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
52675683 ATAGTGAGTC
52675693 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
52675720 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
52675748 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52675763 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:52684492 original size:27 final size:27
Alignment explanation
Indices: 52684462--52684615 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
52684452 ATAGTGAATC
52684462 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
52684489 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
52684517 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
52684544 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
52684573 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
52684602 TGCACACTTAGTGC
1 CGCACACTTAGTGC
52684616 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:52684509 original size:29 final size:28
Alignment explanation
Indices: 52684462--52684615 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
52684452 ATAGTGAATC
52684462 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
52684489 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
52684517 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
52684544 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
52684573 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
52684602 TGCACACTTAGTGC
1 CGCACACTTAGTGC
52684616 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:52684533 original size:55 final size:55
Alignment explanation
Indices: 52684462--52684565 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
52684452 ATAGTGAATC
52684462 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
52684517 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
52684566 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:52686632 original size:28 final size:27
Alignment explanation
Indices: 52686569--52686638 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
52686559 ATAGTGAGTC
52686569 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
52686596 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
52686624 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52686639 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:52694800 original size:33 final size:34
Alignment explanation
Indices: 52694744--52694811 Score: 129
Period size: 33 Copynumber: 2.0 Consensus size: 34
52694734 CCCCCCATTG
52694744 CCGTGAGTTGAAGAAAAGAGAAAAAAAAATTGTT
1 CCGTGAGTTGAAGAAAAGAGAAAAAAAAATTGTT
52694778 CCGTGAGTTGAAG-AAAGAGAAAAAAAAATTGTT
1 CCGTGAGTTGAAGAAAAGAGAAAAAAAAATTGTT
52694811 C
1 C
52694812 ATCCTTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 21 0.62
34 13 0.38
ACGTcount: A:0.49, C:0.07, G:0.24, T:0.21
Consensus pattern (34 bp):
CCGTGAGTTGAAGAAAAGAGAAAAAAAAATTGTT
Found at i:52696099 original size:39 final size:39
Alignment explanation
Indices: 52696043--52696224 Score: 221
Period size: 39 Copynumber: 4.6 Consensus size: 39
52696033 TCGAATGATG
*
52696043 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
52696082 TCCGGACTAAGATCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
52696121 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
52696161 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
52696201 -CCGGGCTATGTCCGAAGGTATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
52696225 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 7, Indels: 13
0.87 0.05 0.09
Matches are distributed among these distances:
38 14 0.11
39 68 0.52
40 48 0.37
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52696178 original size:79 final size:79
Alignment explanation
Indices: 52696043--52696224 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 79
52696033 TCGAATGATG
52696043 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTACTAAATCCGGACTAAGATCCGAAGGCA-TT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCTAAGTACTAAATCCGGACTAAGATCCGAAGGCATTT
52696106 GTGCGAGTTACTA-AA
65 GTGCGAG-TACTATAA
* * **
52696121 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCTAAG-TACTAAATCCGGACTAAGAT-CCGAAGGCAT
52696184 TTGTGCGAGTACTATAA
63 TTGTGCGAGTACTATAA
* *
52696201 -CCGGGCTATGTCCGAAGGTATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
52696225 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
78 34 0.37
79 46 0.51
80 11 0.12
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTACTATAA
Found at i:52706309 original size:29 final size:29
Alignment explanation
Indices: 52706276--52706376 Score: 157
Period size: 29 Copynumber: 3.5 Consensus size: 29
52706266 TGACGAGATC
52706276 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
*
52706305 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* *
52706334 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* *
52706363 GACACTATGTGTGC
1 GGCACTAAGTGTGC
52706377 AAGTTGGAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:52706377 original size:29 final size:29
Alignment explanation
Indices: 52706276--52706397 Score: 154
Period size: 29 Copynumber: 4.2 Consensus size: 29
52706266 TGACGAGATC
* *
52706276 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
* * *
52706305 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
52706334 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
* * * * *
52706363 GACACTATGTGTGCAAGTTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
52706392 GGCACT
1 GGCACT
52706398 GGGTGTGTGA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 83 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAT
Found at i:52708587 original size:29 final size:28
Alignment explanation
Indices: 52708555--52708657 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 28
52708545 GGGACGAGAT
* *
52708555 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* * *
52708584 TGGCACTAAGTGTACGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* ** * *
52708613 TGGAACTGTGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
52708642 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52708658 TGATTGAGTA
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
28 3 0.05
29 52 0.93
30 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:52713364 original size:17 final size:17
Alignment explanation
Indices: 52713339--52713373 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
52713329 TGTGATGATA
52713339 CAAAAAAGATCCTTTAT
1 CAAAAAAGATCCTTTAT
*
52713356 CAAATAAGATCCTTTAT
1 CAAAAAAGATCCTTTAT
52713373 C
1 C
52713374 TATAATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (17 bp):
CAAAAAAGATCCTTTAT
Found at i:52713487 original size:19 final size:19
Alignment explanation
Indices: 52713463--52713529 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 19
52713453 ATTGAAAAGT
52713463 TGAGAAATCTGAGGCTAGG
1 TGAGAAATCTGAGGCTAGG
*
52713482 TGAGAAATTGTTGAGGCT-GG
1 TGAGAAA-T-CTGAGGCTAGG
52713502 TGAAAGTAAATCTGAGGCTAGG
1 TG--AG-AAATCTGAGGCTAGG
52713524 TGAGAA
1 TGAGAA
52713530 GTTGTTCTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
19 9 0.22
20 7 0.17
21 14 0.35
22 7 0.17
23 3 0.08
ACGTcount: A:0.33, C:0.07, G:0.36, T:0.24
Consensus pattern (19 bp):
TGAGAAATCTGAGGCTAGG
Found at i:52714681 original size:28 final size:28
Alignment explanation
Indices: 52714649--52714717 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
52714639 CAATCAAATG
*
52714649 TGGCACTCAGTGTACGAA-ATATTGAGAA
1 TGGCACTTAGTGTAC-AAGATATTGAGAA
*
52714677 TGGCACTTAGTGTGCAAGATATTGAGAA
1 TGGCACTTAGTGTACAAGATATTGAGAA
*
52714705 TGACACTTAGTGT
1 TGGCACTTAGTGT
52714718 GGGAACTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.05
28 35 0.95
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (28 bp):
TGGCACTTAGTGTACAAGATATTGAGAA
Found at i:52714890 original size:41 final size:41
Alignment explanation
Indices: 52714844--52714958 Score: 112
Period size: 40 Copynumber: 2.8 Consensus size: 41
52714834 ATGGTGATAT
* *
52714844 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTAAA
1 TCGGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGAATAAAA
*
52714885 TCGGGC-TT-ATGCCTAGCAGGCCTAT-TG-TCGGTGTATAAAA
1 TCGGGCTTTGA-GCCTAGCAGGCCT-TGTGCT-GGTGAATAAAA
* * * *
52714925 TCAGACTTTGAGTCTAGCAGGCCTTGTGCCGGTG
1 TCGGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTG
52714959 TGAGATATAG
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
39 2 0.03
40 30 0.50
41 27 0.45
42 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGAATAAAA
Found at i:52715167 original size:21 final size:22
Alignment explanation
Indices: 52715136--52715176 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
52715126 GAATGTGTTG
52715136 TGATGTATGTGAAAATGAAATA
1 TGATGTATGTGAAAATGAAATA
**
52715158 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGAAAATGAAA
52715177 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGAAAATGAAATA
Found at i:52720958 original size:49 final size:49
Alignment explanation
Indices: 52720839--52721314 Score: 799
Period size: 49 Copynumber: 9.9 Consensus size: 49
52720829 GTATGAGATG
*
52720839 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
52720886 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
52720935 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
52720984 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
52721031 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
52721080 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
52721127 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
52721176 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
52721223 TATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
52721271 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
52721315 TATATGTGTG
Statistics
Matches: 404, Mismatches: 16, Indels: 16
0.93 0.04 0.04
Matches are distributed among these distances:
46 19 0.05
47 159 0.39
48 24 0.06
49 202 0.50
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:52721035 original size:96 final size:96
Alignment explanation
Indices: 52720838--52721314 Score: 861
Period size: 96 Copynumber: 5.0 Consensus size: 96
52720828 TGTATGAGAT
*
52720838 GTATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
*
52720901 GCCTAATGGCCAATGTGATGAATGTGAAAGT
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
52720932 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATA
52720997 AGGCCTAATGGCCAATGTGATGAATGTGAAAGA
64 AGGCCTAATGGCCAATGTGATGAATGTGAAAGA
52721030 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
52721095 GCCTAATGGCCAATGTGATGAATGTGAAAGA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
52721126 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
52721191 GCCTAATGGCCAATGTGATGAATGTGAAAGA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
* * *
52721222 GTATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
*
52721286 GCCTAATGGCCGATGTGATGAATGTGAAA
66 GCCTAATGGCCAATGTGATGAATGTGAAA
52721315 TATATGTGTG
Statistics
Matches: 373, Mismatches: 6, Indels: 7
0.97 0.02 0.02
Matches are distributed among these distances:
94 1 0.00
95 64 0.17
96 267 0.72
98 41 0.11
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (96 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:52721107 original size:145 final size:144
Alignment explanation
Indices: 52720839--52721314 Score: 816
Period size: 145 Copynumber: 3.3 Consensus size: 144
52720829 GTATGAGATG
*
52720839 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
52720904 TAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAT
66 TAATGGCCAATGTGATGAATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCAATGTGAT
52720969 GAATGTGAAAGTGTA
130 GAATGTGAAAGTGTA
* *
52720984 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
52721049 TAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGAT
66 TAATGGCCAATGTGATGAATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCAATGTGAT
*
52721114 GAATGTGAAAGAG--
130 GAATGTGAAAGTGTA
52721127 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGG
* *
52721192 CCTAATGGCCAATGTGATGAATGTGAAAGAGTATAT-ATGTGATAAGGCCTAATGG-CGATGTGA
64 CCTAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCAATGTGA
*
52721255 TGAATGTGAAGGTGTA
129 TGAATGTGAAAGTGTA
*
52721271 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
52721315 TATATGTGTG
Statistics
Matches: 315, Mismatches: 12, Indels: 9
0.94 0.04 0.03
Matches are distributed among these distances:
142 19 0.06
143 69 0.22
144 43 0.14
145 184 0.58
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (144 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCAATGTGATG
AATGTGAAAGTGTA
Found at i:52721363 original size:48 final size:48
Alignment explanation
Indices: 52721306--52721505 Score: 373
Period size: 48 Copynumber: 4.2 Consensus size: 48
52721296 CGATGTGATG
52721306 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
52721354 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
*
52721402 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
* *
52721450 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
52721498 AATGTGAA
1 AATGTGAA
52721506 TGTTGTAACA
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 150 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
Found at i:52721599 original size:37 final size:37
Alignment explanation
Indices: 52721545--52721672 Score: 238
Period size: 37 Copynumber: 3.4 Consensus size: 37
52721535 AACTTGGAAA
*
52721545 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
52721583 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
52721620 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
52721657 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
52721673 TTCGTAATAA
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
37 85 0.96
38 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:52723622 original size:40 final size:40
Alignment explanation
Indices: 52723576--52723836 Score: 237
Period size: 40 Copynumber: 6.5 Consensus size: 40
52723566 TGAATGATAC
**
52723576 CCGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG-ATATAT
* * * *
52723616 CCGGGCTAAGACCCGAAG-GCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AG-TGATATAT
* * * *
52723656 CCGGGTTAAGACCCGAAG-GCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGT-GATATAT
* * * *
52723696 CC-GGCTAAATTCCGAAGAGCACTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
52723735 CCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
52723775 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* *
52723815 CTGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
52723837 ATCATGCTGG
Statistics
Matches: 191, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
39 22 0.12
40 163 0.85
41 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:52727514 original size:49 final size:49
Alignment explanation
Indices: 52727395--52727822 Score: 728
Period size: 49 Copynumber: 8.9 Consensus size: 49
52727385 GTATGAGATG
*
52727395 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
52727442 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
52727491 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
52727540 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
52727589 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
52727636 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
52727685 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
52727732 TATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
52727779 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
52727823 TATATGTGTG
Statistics
Matches: 361, Mismatches: 12, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
45 36 0.10
47 102 0.28
49 223 0.62
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:52727591 original size:96 final size:94
Alignment explanation
Indices: 52727393--52727822 Score: 702
Period size: 96 Copynumber: 4.5 Consensus size: 94
52727383 ATGTATGAGA
* *
52727393 TGTATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGG
52727458 CCTAATGGCCAATGTGATGAATGTGAAAG
66 CCTAATGGCCAATGTGATGAATGTGAAAG
*
52727487 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 TG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--TATATATGTGAT
52727552 AAGGCCTAATGGCCAATGTGATGAATGTGAAAG
62 AAGGCCTAATGGCCAATGTGATGAATGTGAAAG
52727585 TGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAA
1 TGTATAT--ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAA
52727650 GGCCTAATGGCCAATGTGATGAATGTGAAAG
64 GGCCTAATGGCCAATGTGATGAATGTGAAAG
52727681 TGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATA--TGATAA
1 TGTATAT--ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAA
* *
52727744 GGCCTAATGGCCGATGTGATGAATGTGAAGG
64 GGCCTAATGGCCAATGTGATGAATGTGAAAG
*
52727775 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
52727823 TATATGTGTG
Statistics
Matches: 323, Mismatches: 5, Indels: 16
0.94 0.01 0.05
Matches are distributed among these distances:
94 77 0.24
96 158 0.49
98 88 0.27
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.29
Consensus pattern (94 bp):
TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGG
CCTAATGGCCAATGTGATGAATGTGAAAG
Found at i:52727641 original size:145 final size:144
Alignment explanation
Indices: 52727395--52727822 Score: 736
Period size: 145 Copynumber: 3.0 Consensus size: 144
52727385 GTATGAGATG
*
52727395 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
52727460 TAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAT
66 TAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCAATGTGAT
52727525 GAATGTGAAAGTGTA
130 GAATGTGAAAGTGTA
52727540 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGG
*
52727605 CCTAATGGCCAATGTGATGAATGTGAAAGAG-TATATATGTGATAAGGCCTAATGGCCAATGTGA
64 CCTAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCAATGTGA
52727669 TGAATGTGAAAGTGTA
129 TGAATGTGAAAGTGTA
* *
52727685 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATA--TGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
52727748 TAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCAATGTGAT
52727813 GAATGTGAAA
130 GAATGTGAAA
52727823 TATATGTGTG
Statistics
Matches: 271, Mismatches: 8, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
141 36 0.13
143 44 0.16
145 150 0.55
147 41 0.15
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.29
Consensus pattern (144 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCAATGTGATG
AATGTGAAAGTGTA
Found at i:52727871 original size:48 final size:48
Alignment explanation
Indices: 52727814--52727917 Score: 181
Period size: 48 Copynumber: 2.2 Consensus size: 48
52727804 CGATGTGATG
*
52727814 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCC
* *
52727862 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCC
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCC
52727910 AATGTGAA
1 AATGTGAA
52727918 TGTTGTAACA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.31
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCC
Found at i:52728011 original size:37 final size:37
Alignment explanation
Indices: 52727957--52728084 Score: 229
Period size: 37 Copynumber: 3.4 Consensus size: 37
52727947 AACTTGGAAA
*
52727957 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
52727995 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
52728032 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
*
52728069 TATGTCTGGGTAAGAC
1 TATGTCCGGGTAAGAC
52728085 TTCGTAATAA
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
37 84 0.95
38 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:52734774 original size:46 final size:47
Alignment explanation
Indices: 52734678--52734776 Score: 146
Period size: 46 Copynumber: 2.1 Consensus size: 47
52734668 AGCAGCTCCT
* *
52734678 TTAATGCTGTCCATGCATGCTTCTTGTTCAAGGCTTCAGCAGCAACA
1 TTAATGCTGTCCATGCATGCTTCTTCTTCAAGGCTTCAACAGCAACA
* * *
52734725 TTAATGCTGTCCATGCTTGCTT-TTCTTTAAGGCTTCAACAGCATCA
1 TTAATGCTGTCCATGCATGCTTCTTCTTCAAGGCTTCAACAGCAACA
52734771 TTAATG
1 TTAATG
52734777 AAATGAACTC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 26 0.55
47 21 0.45
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (47 bp):
TTAATGCTGTCCATGCATGCTTCTTCTTCAAGGCTTCAACAGCAACA
Found at i:52736644 original size:27 final size:27
Alignment explanation
Indices: 52736622--52736906 Score: 317
Period size: 27 Copynumber: 10.6 Consensus size: 27
52736612 TTAGTTTACC
*
52736622 AAATTACGAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
52736649 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
52736676 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
** * **
52736703 AAATTACCAAAATACCTTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
52736730 AAATTACCAAAATACCCAT-GTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
52736756 AAATTACTAAAATA-CCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
52736782 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
52736809 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
52736836 AAATTACCAAAATAACCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
52736863 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
**
52736890 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
52736907 TCGACCTGTA
Statistics
Matches: 224, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
25 3 0.01
26 38 0.17
27 183 0.82
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:52736689 original size:54 final size:53
Alignment explanation
Indices: 52736622--52736950 Score: 349
Period size: 54 Copynumber: 6.1 Consensus size: 53
52736612 TTAGTTTACC
*
52736622 AAATTACGAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCT-GTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
52736676 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTTTGGTTTACA
1 AAATTACCAAAATACCCCT-GTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
52736730 AAATTACCAAAATACCCATGTTTGTAAAATTACTAAAATA-CCTTTGTTTATA
1 AAATTACCAAAATACCCCTGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
52736782 AAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCT-GTTTGTAAAATTACT-AAAATACCCTTGGTTTATA
* * * * * * *
52736836 AAATTACCAAAATAACCCTGATTTGTGAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTG-TTTGTAAAATTACTAAAATACCCTTGGTTTATA
** ** * * **
52736890 AAATTACTGAAATA-CCCTCGACCTGTAAAATTATTAAAATACCCTCGACTTATA
1 AAATTACCAAAATACCCCT-G-TTTGTAAAATTACTAAAATACCCTTGGTTTATA
52736944 AAATTAC
1 AAATTAC
52736951 TATAGTACCC
Statistics
Matches: 235, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
52 28 0.12
53 44 0.19
54 163 0.69
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:52736920 original size:27 final size:27
Alignment explanation
Indices: 52736890--52736961 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
52736880 CTGATTTGTG
* *
52736890 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTAAAATACCCTCGACCTATA
* *
52736917 AAATTATTAAAATACCCTCGACTTATA
1 AAATTACTAAAATACCCTCGACCTATA
* *
52736944 AAATTACTATAGTACCCT
1 AAATTACTAAAATACCCT
52736962 TGATTTACAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGACCTATA
Found at i:52736948 original size:81 final size:80
Alignment explanation
Indices: 52736622--52736950 Score: 260
Period size: 81 Copynumber: 4.1 Consensus size: 80
52736612 TTAGTTTACC
* * ** * * *
52736622 AAATTACGAAAATACCCCTAGTTTGTAAAATTA-CTAAAATACCCTTG-GTTTATAAAATCACCA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTATC-AAAATACCC-CGAGCCTGTAAAATTACTA
* *
52736685 AAATACCCCTGGTTTGTA
64 AAATA-CCCTGATTTATA
** * ** * **
52736703 AAATTACCAAAATACCTTTGGTTTACAAAATTACCAAAATA-CCC-ATGTTTGTAAAATTACTAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCGA-GCCTGTAAAATTACTAA
*
52736766 AATACCTTTG-TTTATA
65 AATACC-CTGATTTATA
* ** *
52736782 AAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCGAGCCTGTAAAATTACTAAA
* *
52736847 ATAACCCTGATTTGTG
66 AT-ACCCTGATTTATA
* * *
52736863 AAATTACCAAAATACCCCT-GATTTGTGAAATTA-CTGAAATACCCTCGA-CCTGTAAAATTATT
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTATC-AAAATACCC-CGAGCCTGTAAAATTACT
*
52736925 AAAATACCCTCGACTTATA
63 AAAATACCCT-GATTTATA
52736944 AAATTAC
1 AAATTAC
52736951 TATAGTACCC
Statistics
Matches: 204, Mismatches: 32, Indels: 24
0.78 0.12 0.09
Matches are distributed among these distances:
79 42 0.21
80 53 0.26
81 106 0.52
82 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCGAGCCTGTAAAATTACTAAA
ATACCCTGATTTATA
Found at i:52737037 original size:27 final size:27
Alignment explanation
Indices: 52737016--52737327 Score: 421
Period size: 27 Copynumber: 11.6 Consensus size: 27
52737006 GAAATACTTT
* *
52737016 TGTAAGGTAGAAATACCGAAATACCCC
1 TGTAGGGTAGAATTACCGAAATACCCC
* * *
52737043 TGTAGGGTAGAATTACCAAAATACGCT
1 TGTAGGGTAGAATTACCGAAATACCCC
* *
52737070 TGTAGGGTAGAATTATCTAAATACCCC
1 TGTAGGGTAGAATTACCGAAATACCCC
* *
52737097 TATAGGGTAGAATTACCGAAATACCGC
1 TGTAGGGTAGAATTACCGAAATACCCC
52737124 TGTAGGGTAGAATTACCGAAATACCCC
1 TGTAGGGTAGAATTACCGAAATACCCC
*
52737151 TGTAGGGTAGAATTACCGAAACACCCC
1 TGTAGGGTAGAATTACCGAAATACCCC
*
52737178 TGTAGGGTAGAATTACCGAAATATCCC
1 TGTAGGGTAGAATTACCGAAATACCCC
* *
52737205 TGTAGGGTAGAATTATCGCAATACCCC
1 TGTAGGGTAGAATTACCGAAATACCCC
*
52737232 TGTAGGGTAGAATTACCGAAATACCCT
1 TGTAGGGTAGAATTACCGAAATACCCC
**
52737259 TGTA-GGTAGAATTACTAAAATACCCC
1 TGTAGGGTAGAATTACCGAAATACCCC
* * *
52737285 TGTAGGGTGGAATTACCGAGATA-CCT
1 TGTAGGGTAGAATTACCGAAATACCCC
* *
52737311 TGTGGGGTAAAATTACC
1 TGTAGGGTAGAATTACC
52737328 ATTTTGCCCC
Statistics
Matches: 249, Mismatches: 35, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
26 39 0.16
27 210 0.84
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
TGTAGGGTAGAATTACCGAAATACCCC
Found at i:52737806 original size:22 final size:22
Alignment explanation
Indices: 52737754--52737818 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
52737744 TTAAAGCCTT
* *
52737754 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTGTGTGCCAAC
*
52737776 CT-ACATATGGCTGTGTGCCAAC
1 CTGA-TTATGGCTGTGTGCCAAC
52737798 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTGTGTGCCAA
52737819 ACATATTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTGTGTGCCAAC
Found at i:52738024 original size:26 final size:27
Alignment explanation
Indices: 52737976--52738046 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 27
52737966 TATTCTGTTA
* * *
52737976 AGTGGCTTTGCCACATTATCTGT-TCT
1 AGTGGCTCTGCCACAATACCTGTATCT
52738002 -GATGGCTCTGCCACAATACCTGTATCT
1 AG-TGGCTCTGCCACAATACCTGTATCT
* *
52738029 AGTGACTCTGTCACAATA
1 AGTGGCTCTGCCACAATA
52738047 TCTGATAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 1 0.03
26 18 0.49
27 17 0.46
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (27 bp):
AGTGGCTCTGCCACAATACCTGTATCT
Found at i:52738226 original size:6 final size:6
Alignment explanation
Indices: 52738217--52738322 Score: 74
Period size: 6 Copynumber: 17.2 Consensus size: 6
52738207 TACTTGATAT
* * *
52738217 TGATTC TGATTT TGATTC TG-TTACC TGATAC TGATTC TGATTT TGATTC
1 TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC
* * * *
52738266 TG-TTACC TGATAC TGATTT TGATTT TGATTC TG-TTACC TGATAC TGATTC
1 TGATT--C TGATTC TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC
52738316 TGATTC T
1 TGATTC T
52738323 AATTTTAGTT
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
5 6 0.08
6 61 0.77
7 9 0.11
8 3 0.04
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.50
Consensus pattern (6 bp):
TGATTC
Found at i:52738238 original size:31 final size:31
Alignment explanation
Indices: 52738187--52738320 Score: 223
Period size: 31 Copynumber: 4.3 Consensus size: 31
52738177 TTGCATTCAC
* * *
52738187 ATTCTGATTTTTTATTCTGTTACTTGATATTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
52738219 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
52738250 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
52738281 ATTTTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
52738312 ATTCTGATT
1 ATTCTGATT
52738321 CTAATTTTAG
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 90 0.93
32 7 0.07
ACGTcount: A:0.19, C:0.13, G:0.15, T:0.52
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:52740143 original size:27 final size:27
Alignment explanation
Indices: 52740113--52740373 Score: 306
Period size: 27 Copynumber: 9.6 Consensus size: 27
52740103 TTAGTTTACC
52740113 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
52740140 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
52740167 AAATTACCAAAATACCCATGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * ** *
52740194 AAATTACTAAAATACCCTTTATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
52740221 AAATTACCAATATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
52740248 AAATTACCAAAATACTCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
52740275 AAATTATCAAATTACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
52740302 AAATAACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
52740329 AAATTACCAAAATACCTCTGATTTTGTG
1 AAATTACCAAAATACCCCTG-GTTTGTA
**
52740357 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
52740374 TCGACCTGTA
Statistics
Matches: 198, Mismatches: 35, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
27 178 0.90
28 20 0.10
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:52740178 original size:54 final size:54
Alignment explanation
Indices: 52740113--52740446 Score: 330
Period size: 54 Copynumber: 6.2 Consensus size: 54
52740103 TTAGTTTACC
* *
52740113 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTATA
* * *
52740167 AAATTACCAAAATACCCATGGTTTGTAAAATTACTAAAATACCCTTTATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTATA
* * * *
52740221 AAATTACCAATATACCCTTGGTTTGTAAAATTACCAAAATACTCC-TGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATAC-CCTTGATTTATA
* * * * * * *
52740275 AAATTATCAAATTACCCCTAGTTTGTAAAATAACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTATA
* * * ** * ** *
52740329 AAATTACCAAAATACCTCTGATTTTGTGAAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCCTG-GTTTGTAAAATTACCAAAATACCCTTGATTTATA
*** ** * *
52740384 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGATTTATA
*
52740438 GAATTACCA
1 AAATTACCA
52740447 TTTTACCCTG
Statistics
Matches: 224, Mismatches: 52, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
53 2 0.01
54 184 0.82
55 38 0.17
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTATA
Found at i:52740251 original size:81 final size:80
Alignment explanation
Indices: 52740113--52740428 Score: 312
Period size: 81 Copynumber: 3.9 Consensus size: 80
52740103 TTAGTTTACC
* * ** **
52740113 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATTACTAAAATACCCTTTATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
52740178 ATACCCATGGTTTGTA
66 ATACCC-TGGTTTGTA
* *
52740194 AAATTACTAAAATACCCTTTATTTATAAAATTACCAATATACCCTTGGTTTGTAAAATTACCAAA
1 AAATTACTAAAATACCCTTTATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
52740259 ATACTCCTGGTTTGTA
66 ATAC-CCTGGTTTGTA
* * * * * *
52740275 AAATTA-TCAAATTACCC-CTAGTTTGTAAAATAACCAAAATACCCCTGATTTGTGAAATTACCA
1 AAATTACT-AAAATACCCTTTA-TTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCA
* *
52740338 AAATACCTCTGATTTTGTG
64 AAATACC-CTG-GTTTGTA
* ** ** *** * **
52740357 AAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAA
1 AAATTACTAAAATACCCTTTATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
*
52740422 GTACCCT
66 ATACCCT
52740429 TGATTTACAG
Statistics
Matches: 196, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
80 4 0.02
81 131 0.67
82 58 0.30
83 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (80 bp):
AAATTACTAAAATACCCTTTATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
ATACCCTGGTTTGTA
Found at i:52740426 original size:27 final size:27
Alignment explanation
Indices: 52740113--52740434 Score: 269
Period size: 27 Copynumber: 11.9 Consensus size: 27
52740103 TTAGTTTACC
*
52740113 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * **
52740140 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
52740167 AAATTACCAAAATACCCAT-GGTTTGTA
1 AAATTACCAAAATACCC-TCGATTTGTA
* ** *
52740194 AAATTACTAAAATACCCTTTATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
52740221 AAATTACCAATATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
52740248 AAATTACCAAAATACTCCT-GGTTTGTA
1 AAATTACCAAAATAC-CCTCGATTTGTA
* * *
52740275 AAATTATCAAATTACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
52740302 AAATAACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
*
52740329 AAATTACCAAAATA-CCTCTGATTTTGTG
1 AAATTACCAAAATACCCTC-GA-TTTGTA
** **
52740357 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
52740384 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
52740411 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTCGATTT
52740435 ACAGAATTAC
Statistics
Matches: 247, Mismatches: 38, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
26 5 0.02
27 213 0.86
28 25 0.10
29 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:52740442 original size:27 final size:26
Alignment explanation
Indices: 52740410--52740483 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
52740400 CTCGACTTGT
52740410 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* **
52740437 AGAATTACCATTTTACCC-TGATTTAC
1 AAAATTACCA-AATACCCTTGATTTAC
*
52740463 AAAATTATCGAAATACCCTTG
1 AAAATTA-CCAAATACCCTTG
52740484 TAGGGTAGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
26 19 0.51
27 18 0.49
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTGATTTAC
Found at i:52740479 original size:26 final size:25
Alignment explanation
Indices: 52740107--52740481 Score: 122
Period size: 27 Copynumber: 13.9 Consensus size: 25
52740097 AATACTTTAG
* *
52740107 TTTACCAAATTACCAAAATACCCCTGG
1 TTTACAAAATTACC-AAATA-CCCTGA
** *
52740134 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACC-AAATACCC-TGA
*
52740161 TTTACAAAATTACCAAAATACCCATGG
1 TTTACAAAATTACC-AAATACCC-TGA
** * *
52740188 TTTGTAAAATTACTAAAATACCCTTTA
1 TTTACAAAATTAC-CAAATACCC-TGA
* *
52740215 TTTATAAAATTACCAATATACCCTTGG
1 TTTACAAAATTACCAA-ATACCC-TGA
** *
52740242 TTTGTAAAATTACCAAAATACTCCTGG
1 TTTACAAAATTACC-AAATAC-CCTGA
** *
52740269 TTTGTAAAATTATCAAATTACCCCT-A
1 TTTACAAAATTACCAAA-TA-CCCTGA
** *
52740295 GTTTGTAAAATAACCAAAATACCCCTGA
1 -TTTACAAAATTACC-AAATA-CCCTGA
***
52740323 TTTGTGAAATTACCAAAATACCTCTGA
1 TTTACAAAATTACC-AAATACC-CTGA
*** *
52740350 TTTTGTGAAATTACTGAAATACCCTCGA
1 -TTTACAAAATTAC-CAAATACCCT-GA
** ** **
52740378 CCTGTAAAATTATTGAAATACCCTCGA
1 TTTACAAAATTA-CCAAATACCCT-GA
* **
52740405 CTTGTAAAATTACCAAAGTACCCTTGA
1 TTTACAAAATTACCAAA-TACCC-TGA
* **
52740432 TTTACAGAATTACCATTTTACCCTGA
1 TTTACAAAATTACCA-AATACCCTGA
*
52740458 TTTACAAAATTATCGAAATACCCT
1 TTTACAAAATTA-CCAAATACCCT
52740482 TGTAGGGTAG
Statistics
Matches: 288, Mismatches: 41, Indels: 39
0.78 0.11 0.11
Matches are distributed among these distances:
26 33 0.11
27 223 0.77
28 32 0.11
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (25 bp):
TTTACAAAATTACCAAATACCCTGA
Found at i:52740504 original size:27 final size:27
Alignment explanation
Indices: 52740472--52740821 Score: 361
Period size: 27 Copynumber: 13.0 Consensus size: 27
52740462 CAAAATTATC
* *
52740472 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
** * *
52740499 GAAATACATCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
52740526 GAAATACCCCTGTAGGGTAGAATTAGC-
1 GAAATACCCCTGTAGGGTAGAATTA-CT
* * *
52740553 GAAATACCCCTGTAGGATCGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
*
52740580 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
52740607 GAAATACCCCTGTAGGGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
52740633 CGTAATAACCCTGTAGGGTAGAATTA-T
1 -GAAATACCCCTGTAGGGTAGAATTACT
* * * *
52740660 CGTAATAACCTTGTAGGGTAGAATTACC
1 -GAAATACCCCTGTAGGGTAGAATTACT
*
52740688 GAAATACCCCTTGTAGGGTCGAATTA-T
1 GAAATACCCC-TGTAGGGTAGAATTACT
* *
52740715 CGCAACACCCCTGTAGGGTAGAATTA-T
1 -GAAATACCCCTGTAGGGTAGAATTACT
*
52740742 CGAAATACCCTTGTAGGGTAGAATTACT
1 -GAAATACCCCTGTAGGGTAGAATTACT
* * *
52740770 AAAATACCCCTGTAGGGTGGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
52740797 GAGATA-CCTTGTGGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
52740822 CATTTTGCCC
Statistics
Matches: 277, Mismatches: 39, Indels: 15
0.84 0.12 0.05
Matches are distributed among these distances:
26 16 0.06
27 237 0.86
28 24 0.09
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:52740529 original size:54 final size:54
Alignment explanation
Indices: 52740465--52740821 Score: 418
Period size: 54 Copynumber: 6.6 Consensus size: 54
52740455 TGATTTACAA
* * ** *
52740465 AATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACATCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
52740519 AATTACCGAAATACCCCTGTAGGGTAGAATTAGC-GAAATACCCCTGTAGGATCG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTA-CTGAAATACCCCTGTAGGGTAG
* *
52740573 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * * * *
52740627 AATTATCGTAATAACCC-TGTAGGGTAGAATTA-TCGTAATAACCTTGTAGGGTAG
1 AATTACCGAAAT-ACCCTTGTAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAG
* * *
52740681 AATTACCGAAATACCCCTTGTAGGGTCGAATTA-TCGCAACACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTTGTAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAG
* * *
52740736 AATTATCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
52740790 AATTACCGAGATA-CCTTGTGGGGTAAAATTAC
1 AATTACCGAAATACCCTTGTAGGGTAGAATTAC
52740822 CATTTTGCCC
Statistics
Matches: 263, Mismatches: 33, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
53 19 0.07
54 194 0.74
55 50 0.19
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
Found at i:52740584 original size:81 final size:82
Alignment explanation
Indices: 52740465--52740822 Score: 447
Period size: 81 Copynumber: 4.4 Consensus size: 82
52740455 TGATTTACAA
* * * * *
52740465 AATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACATC-TATAGGGTAGAATTACCGAA
1 AATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACACCTTGTAGGGTAGAATTACCGAA
52740529 ATACCCCTGTAGGGTAG
66 ATACCCCTGTAGGGTAG
* * * *
52740546 AATTAGCGAAATACCCCTGTAGGATCGAATTACCGAAATAC-CCCTGTAGGGTAGAATTACCGAA
1 AATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACACCTTGTAGGGTAGAATTACCGAA
52740610 ATACCCCTGTAGGGTAG
66 ATACCCCTGTAGGGTAG
* * * *
52740627 AATTATCGTAATAACCCTGTAGGGTAGAATTATCGTAATA-ACCTTGTAGGGTAGAATTACCGAA
1 AATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACACCTTGTAGGGTAGAATTACCGAA
*
52740691 ATACCCCTTGTAGGGTCG
66 ATACCCC-TGTAGGGTAG
* * * **
52740709 AATTATCGCAACACCCCTGTAGGGTAGAATTATCGAAATAC-CCTTGTAGGGTAGAATTACTAAA
1 AATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACACCTTGTAGGGTAGAATTACCGAA
*
52740773 ATACCCCTGTAGGGTGG
66 ATACCCCTGTAGGGTAG
* * * * *
52740790 AATTACCGAGATA-CCTTGTGGGGTAAAATTACC
1 AATTATCGAAATACCCCTGTAGGGTAGAATTACC
52740823 ATTTTGCCCC
Statistics
Matches: 241, Mismatches: 32, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
80 17 0.07
81 151 0.63
82 73 0.30
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (82 bp):
AATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACACCTTGTAGGGTAGAATTACCGAA
ATACCCCTGTAGGGTAG
Found at i:52741715 original size:19 final size:19
Alignment explanation
Indices: 52741693--52741750 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
52741683 TTTTGATTTT
52741693 TGATTCTGTTACTTGATAA
1 TGATTCTGTTACTTGATAA
52741712 TGATTCTG--A-TT--T--
1 TGATTCTGTTACTTGATAA
*
52741724 TGATTCTGTTACCTGATAA
1 TGATTCTGTTACTTGATAA
52741743 TGATTCTG
1 TGATTCTG
52741751 ATTTTGATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
12 8 0.26
14 2 0.06
15 1 0.03
16 2 0.06
17 2 0.06
19 16 0.52
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.48
Consensus pattern (19 bp):
TGATTCTGTTACTTGATAA
Found at i:52741727 original size:31 final size:31
Alignment explanation
Indices: 52741690--52741772 Score: 157
Period size: 31 Copynumber: 2.7 Consensus size: 31
52741680 ACATTTTGAT
*
52741690 TTTTGATTCTGTTACTTGATAATGATTCTGA
1 TTTTGATTCTGTTACCTGATAATGATTCTGA
52741721 TTTTGATTCTGTTACCTGATAATGATTCTGA
1 TTTTGATTCTGTTACCTGATAATGATTCTGA
52741752 TTTTGATTCTGTTACCTGATA
1 TTTTGATTCTGTTACCTGATA
52741773 CAGAACTGAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.51
Consensus pattern (31 bp):
TTTTGATTCTGTTACCTGATAATGATTCTGA
Found at i:52741809 original size:18 final size:18
Alignment explanation
Indices: 52741778--52741812 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52741768 TGATACAGAA
52741778 CTGATACTAATTCTGATT
1 CTGATACTAATTCTGATT
* *
52741796 CTGATTCTAGTTCTGAT
1 CTGATACTAATTCTGAT
52741813 AATGTTTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (18 bp):
CTGATACTAATTCTGATT
Found at i:52748830 original size:23 final size:23
Alignment explanation
Indices: 52748804--52748862 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
52748794 ATTGTAGTGT
*
52748804 AGCTGCTAATAGTAATGCAGCAA
1 AGCTGCTAATAGTAACGCAGCAA
52748827 AGCTGCTAATAGTAACGCAGCAA
1 AGCTGCTAATAGTAACGCAGCAA
52748850 AGCTGCTAATAGT
1 AGCTGCTAATAGT
52748863 GATAGGCGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (23 bp):
AGCTGCTAATAGTAACGCAGCAA
Found at i:52753168 original size:50 final size:51
Alignment explanation
Indices: 52753093--52753198 Score: 160
Period size: 50 Copynumber: 2.1 Consensus size: 51
52753083 TATGGCAACC
* * *
52753093 AGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAGTGA-A
1 AGTGATAAGCGATAGCTTCAGCTACACTTATCTAATCAAGGACAAATGACA
**
52753143 AGTGATAAGCGATAGCTTGGGCTACACTTATCTAATCAAGGACAAATGACA
1 AGTGATAAGCGATAGCTTCAGCTACACTTATCTAATCAAGGACAAATGACA
52753194 AGTGA
1 AGTGA
52753199 AAAATGGTAG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 44 0.88
51 6 0.12
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (51 bp):
AGTGATAAGCGATAGCTTCAGCTACACTTATCTAATCAAGGACAAATGACA
Found at i:52753218 original size:51 final size:50
Alignment explanation
Indices: 52753103--52753218 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 50
52753093 AGTGATAAGT
* * * * *
52753103 GATAGCTTCAGCTACACTTATCTGATCAAGGACAAGTGAAAGTGATAAGC
1 GATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGAAAGTGAAAAAC
* *
52753153 GATAGCTTGGGCTACACTTATCTAATCAAGGACAAATGACAAGTGAAAAAT
1 GATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGA-AAGTGAAAAAC
*
52753204 GGTAGCTTCGGCTAC
1 GATAGCTTCGGCTAC
52753219 CTGATCAGTG
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
50 35 0.62
51 21 0.38
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (50 bp):
GATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGAAAGTGAAAAAC
Found at i:52753232 original size:31 final size:31
Alignment explanation
Indices: 52753194--52753339 Score: 247
Period size: 31 Copynumber: 4.7 Consensus size: 31
52753184 ACAAATGACA
*
52753194 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
52753225 AGTGAAAAGTGGTAGCTTCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
52753256 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
52753287 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
52753318 AGTGAATAGTGGTAGCTTCGGC
1 AGTGAAAAGTGGTAGCTTCGGC
52753340 AACAAGTGAC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:52753498 original size:49 final size:49
Alignment explanation
Indices: 52753425--52753531 Score: 198
Period size: 49 Copynumber: 2.2 Consensus size: 49
52753415 ACCATATCTG
52753425 GAATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
1 GAATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
52753474 G-ATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
1 GAATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
52753523 GAATATGTG
1 GAATATGTG
52753532 TAAGACCATA
Statistics
Matches: 56, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
48 10 0.18
49 39 0.70
50 7 0.12
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (49 bp):
GAATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
Found at i:52753533 original size:42 final size:42
Alignment explanation
Indices: 52753474--52753601 Score: 168
Period size: 42 Copynumber: 3.0 Consensus size: 42
52753464 ATCGATATGT
* * *
52753474 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
*
52753516 GATATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCTTC
1 GATATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
* * **
52753558 -ATTATGTAAAGATGTGTAAGACCATAGTTGAACTATGGCATC
1 GA-TATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
52753600 GA
1 GA
52753602 GAAAACGAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 73 0.97
43 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (42 bp):
GATATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
Found at i:52754298 original size:22 final size:27
Alignment explanation
Indices: 52754253--52754305 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
52754243 TAAATTGATT
52754253 AATAAATGTATTAAAATTATGGTGA-A
1 AATAAATGTATTAAAATTATGGTGAGA
52754279 AATAAATG-ATT-AAA-TA-GGTGAGA
1 AATAAATGTATTAAAATTATGGTGAGA
52754302 AATA
1 AATA
52754306 TGGCTTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 5 0.19
23 7 0.27
24 3 0.12
25 3 0.12
26 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (27 bp):
AATAAATGTATTAAAATTATGGTGAGA
Found at i:52767089 original size:39 final size:40
Alignment explanation
Indices: 52767044--52767186 Score: 164
Period size: 39 Copynumber: 3.6 Consensus size: 40
52767034 TGTTCGAGTA
*
52767044 ATATCCGGGCTAAG-CCCGAAGGCAATTGGGCGAGTTATG
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATG
* * *
52767083 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCAAATTGTG
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATG
* ** * **
52767122 ATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTACC
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATG
* *
52767162 ATAACCGGGCTATGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
52767187 TTTGAACGAG
Statistics
Matches: 86, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 48 0.56
40 38 0.44
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATG
Found at i:52768854 original size:93 final size:93
Alignment explanation
Indices: 52768742--52768912 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
52768732 GCCCATAAGT
* * *
52768742 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52768807 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
52768835 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52768900 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52768913 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52768928 original size:46 final size:46
Alignment explanation
Indices: 52768734--52768914 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
52768724 TGTAACCCGC
* * *
52768734 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
52768780 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52768830 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
52768873 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
52768915 AACCATCCTA
Statistics
Matches: 114, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 31 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52777262 original size:39 final size:39
Alignment explanation
Indices: 52777215--52777397 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
52777205 AATGTTCGAG
52777215 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
52777254 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
52777293 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
52777332 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
52777372 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
52777398 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:52779116 original size:40 final size:40
Alignment explanation
Indices: 52779061--52779236 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
52779051 GGATGATAAT
* * *
52779061 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATC
52779101 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
52779141 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
52779181 CGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
52779220 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
52779237 TACTTGGCTT
Statistics
Matches: 124, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 15 0.12
39 16 0.13
40 93 0.75
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:52784279 original size:27 final size:27
Alignment explanation
Indices: 52784241--52784581 Score: 335
Period size: 27 Copynumber: 12.6 Consensus size: 27
52784231 TTAATTTACC
52784241 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * ** * * *
52784268 TAATCAATAAAATAACCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
52784295 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
52784322 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
52784349 AAATTACCAAACTACCCCTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
52784376 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
52784403 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
52784430 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
52784457 AAATTACCAAAATACCCATTGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
52784484 AAATTACCAAAATACCCCTGATTTCTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** ** *
52784511 AAATTACTGAAATA-CCCTCGACTTATA
1 AAATTACCAAAATACCCCT-GGTTTGTA
** **
52784538 AAATTATTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
52784565 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
52784582 TTGATTTACA
Statistics
Matches: 267, Mismatches: 45, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 4 0.01
27 261 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:52784334 original size:54 final size:54
Alignment explanation
Indices: 52784241--52784581 Score: 378
Period size: 54 Copynumber: 6.3 Consensus size: 54
52784231 TTAATTTACC
* * ** *
52784241 AAATTACCAAAATACCCCTGGTTTGTATAATCAATAAAATAACCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
52784295 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
52784349 AAATTACCAAACTACCCCTGGTTTATAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
52784403 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * * *
52784457 AAATTACCAAAATACCCATTGTTTGTAAAATTACCAAAATACCCCTGATTTCTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
** ** * ** * ** *
52784511 AAATTACTGAAATA-CCCTCGACTTATAAAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
52784565 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
52784582 TTGATTTACA
Statistics
Matches: 243, Mismatches: 42, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
53 3 0.01
54 238 0.98
55 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:52784582 original size:27 final size:27
Alignment explanation
Indices: 52784241--52784636 Score: 268
Period size: 27 Copynumber: 14.7 Consensus size: 27
52784231 TTAATTTACC
*
52784241 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * ** * * * *
52784268 TAATCAATAAAATAACCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
52784295 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * **
52784322 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
52784349 AAATTACCAAACTACCC-CTGGTTTATA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
52784376 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
52784403 AAATTACCAAAATACCCT-TAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
52784430 AAATTACCAAAATACCCT-TAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
52784457 AAATTACCAAAATACCCATTG-TTTGTA
1 AAATTACCAAAATACCC-TCGATTTGTA
* *
52784484 AAATTACCAAAATACCC-CTGATTTCTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** * *
52784511 AAATTACTGAAATACCCTCGACTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
** *
52784538 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
52784565 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* ***** **
52784592 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
52784619 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
52784637 TGTAGGGTAG
Statistics
Matches: 298, Mismatches: 58, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.01
27 293 0.98
28 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:52784599 original size:81 final size:80
Alignment explanation
Indices: 52784289--52784636 Score: 339
Period size: 81 Copynumber: 4.3 Consensus size: 80
52784279 ATAACCTTGG
* * *
52784289 TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATT
1 TTTATAAAATTACCAAAATA-CCCTCGTTTGTAAAATTACCAAAATACCCTTGATTTACAGAATT
* *
52784354 AC-CAAACTACCC-CTGG
65 ACTGAAA-TACCCTC-GA
* * * *
52784370 TTTATAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCTTAGTTTGTA-A-AA
1 TTTATAAAATTACCAAAATACCC-TCGTTTGTAAAATTACCAAAATACCCTT-GATT-TACAGAA
** *
52784433 TTACCAAAATACCCT-TA
63 TTACTGAAATACCCTCGA
* * * *
52784450 GTTTGTAAAATTACCAAAATACCCATTGTTTGTAAAATTACCAAAATACCCCTGATTT-CTGAAA
1 -TTTATAAAATTACCAAAATACCC-TCGTTTGTAAAATTACCAAAATACCCTTGATTTACAG-AA
52784514 TTACTGAAATACCCTCGA
63 TTACTGAAATACCCTCGA
* ** * *
52784532 CTTATAAAATTATTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTACAGAATT
1 TTTATAAAATTACCAAAATACCCTCG-TTTGTAAAATTACCAAAATACCCTTGATTTACAGAATT
***
52784597 ACTGTTTTACCCTCGA
65 ACTGAAATACCCTCGA
*
52784613 TTTACAAAATTACCAAAATACCCT
1 TTTATAAAATTACCAAAATACCCT
52784637 TGTAGGGTAG
Statistics
Matches: 222, Mismatches: 33, Indels: 24
0.80 0.12 0.09
Matches are distributed among these distances:
79 1 0.00
80 8 0.04
81 201 0.91
82 10 0.05
83 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (80 bp):
TTTATAAAATTACCAAAATACCCTCGTTTGTAAAATTACCAAAATACCCTTGATTTACAGAATTA
CTGAAATACCCTCGA
Found at i:52784653 original size:27 final size:27
Alignment explanation
Indices: 52784620--52784841 Score: 234
Period size: 27 Copynumber: 8.3 Consensus size: 27
52784610 CGATTTACAA
*
52784620 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
52784647 AAATACCAAAATACCGC-TGTAGGGTAG
1 AATTACCGAAATACC-CTTGTAGGGTAG
* * * *
52784674 AATTACTGAAATACCCCTCTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
52784701 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
52784728 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
52784755 AATTACCGAAATA-CCTCTATAGGGTAG
1 AATTACCGAAATACCCT-TGTAGGGTAG
** * * *
52784782 AATTACTAAAACACCCCTGTAGGGTGG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
52784809 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
52784835 AATTACC
1 AATTACC
52784842 ATTTTGCCCC
Statistics
Matches: 162, Mismatches: 29, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
26 20 0.12
27 139 0.86
28 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:52785321 original size:22 final size:21
Alignment explanation
Indices: 52785268--52785332 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
52785258 TTAAAGCCTT
* *
52785268 CTGATTATGGCTTTGTGTCAAC
1 CTGA-TATGGCTCTGTGCCAAC
*
52785290 CTACATATGGCTCTGTGCCAAC
1 CT-GATATGGCTCTGTGCCAAC
* *
52785312 CTGATGATGGATGTGTGCCAA
1 CTGAT-ATGGCTCTGTGCCAA
52785333 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.91
23 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (21 bp):
CTGATATGGCTCTGTGCCAAC
Found at i:52785734 original size:19 final size:19
Alignment explanation
Indices: 52785712--52785769 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
52785702 TTCTGATTTT
52785712 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
52785731 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
52785743 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
52785762 TGATTCTG
1 TGATTCTG
52785770 ATTTTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:52785739 original size:6 final size:6
Alignment explanation
Indices: 52785701--52785851 Score: 105
Period size: 6 Copynumber: 24.3 Consensus size: 6
52785691 TTGCATTCAC
* * *
52785701 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
52785751 -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
*
52785801 ATTCTG ATTCTG -TCACTTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
52785850 AT
1 AT
52785852 AATGTTTCTT
Statistics
Matches: 114, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
5 8 0.07
6 84 0.74
7 18 0.16
8 4 0.04
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:52785747 original size:31 final size:31
Alignment explanation
Indices: 52785701--52785842 Score: 221
Period size: 31 Copynumber: 4.5 Consensus size: 31
52785691 TTGCATTCAC
52785701 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
52785733 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
52785764 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * *
52785795 ATTTTGATTCTGATTCTGTCACTTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
52785826 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
52785843 AGTTCTGATA
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 97 0.93
32 7 0.07
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:52785803 original size:62 final size:62
Alignment explanation
Indices: 52785701--52785867 Score: 221
Period size: 62 Copynumber: 2.7 Consensus size: 62
52785691 TTGCATTCAC
* *
52785701 ATTCTGATTTTTGATTCTGTTACCTGATACTGATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATACTG
* * *
52785764 ATTCTGATTTTGATTCTGTTACCTGATACTGATTTTGATTCTGATTCTGTCACTTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATACTG
* * * *
52785826 ATTCTGATTCTGATTCTAGTT--CTGATAATGTTTCTTATTCTG
1 ATTCTGATTTTGATTCT-GTTACCTGATACTGATTCTGATTCTG
52785868 TAATGGGTTA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
61 17 0.18
62 66 0.71
63 10 0.11
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (62 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:52804565 original size:34 final size:34
Alignment explanation
Indices: 52804464--52804566 Score: 134
Period size: 37 Copynumber: 2.9 Consensus size: 34
52804454 TAACAATAAA
* * *
52804464 TTATTCCAGCAACTGAATTAACTAAGATAAGCAT
1 TTATTCCAGCAACTCAATTAACTAAGATGAGTAT
* *
52804498 TTATTCTAGCAACTCAATTAATAACTAAAATGAGTAT
1 TTATTCCAGCAACTCAA-T--TAACTAAGATGAGTAT
52804535 TTATTCCAGCAACTCAATTAACTAAGATGAGT
1 TTATTCCAGCAACTCAATTAACTAAGATGAGT
52804567 TTAATTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
34 28 0.47
35 1 0.02
36 1 0.02
37 29 0.49
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.32
Consensus pattern (34 bp):
TTATTCCAGCAACTCAATTAACTAAGATGAGTAT
Found at i:52808757 original size:24 final size:24
Alignment explanation
Indices: 52808725--52808836 Score: 113
Period size: 24 Copynumber: 4.7 Consensus size: 24
52808715 GGCTATCTCA
*
52808725 AATGCACTATGTGTGCAATTTATT
1 AATGCACTATGTGTGCAATTTACT
*
52808749 AATGCACTATGTGTGCGATTTACT
1 AATGCACTATGTGTGCAATTTACT
* *
52808773 -ATGGCACTATGTGTGCGATTTGCT
1 AAT-GCACTATGTGTGCAATTTACT
** *
52808797 -ATGGCACTATGTGTGCGAACATAAT
1 AAT-GCACTATGTGTGC-AATTTACT
52808822 AA-GCACTATGTGTGC
1 AATGCACTATGTGTGC
52808837 CACATTCGGT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
23 2 0.03
24 71 0.92
25 3 0.04
26 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (24 bp):
AATGCACTATGTGTGCAATTTACT
Found at i:52816169 original size:39 final size:39
Alignment explanation
Indices: 52816088--52816211 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
52816078 TATGGTAACC
** *
52816088 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
52816128 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
52816167 CGCACAATTTCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
52816206 CGCACA
1 CGCACA
52816212 TTCATTCACA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 59 0.79
40 16 0.21
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:52819810 original size:24 final size:24
Alignment explanation
Indices: 52819778--52819840 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
52819768 TATCTCAAAT
52819778 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
52819802 GCACTATGTGTGCGATTTGCTATG
1 GCACTATGTGTGCGATTTACTATG
52819826 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
52819841 ACATAATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:52822675 original size:41 final size:40
Alignment explanation
Indices: 52822542--52822765 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
52822532 AACCCAAGTA
* * * *
52822542 CCTTCGGGATTTA-ACCGGATATAG-CAAATTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
52822581 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52822621 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
* * *
52822662 CCTTCGGGTCTTAGCCCGGATATCGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
52822702 CCTTCGGGACTTAACCCGGATATAGTGACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
* *
52822743 CCTTCGGGTCTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
52822766 CATCCGAATA
Statistics
Matches: 161, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 11 0.07
40 91 0.57
41 59 0.37
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:52822766 original size:81 final size:80
Alignment explanation
Indices: 52822542--52822766 Score: 299
Period size: 81 Copynumber: 2.8 Consensus size: 80
52822532 AACCCAAGTA
* * * * * * *
52822542 CCTTCGGGATTTAA-CCGGATATAGCAAATTGCACAAATGCCTTTGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCG
*
52822606 TAACTCGCACAAATG
66 TAACTAGCACAAATG
* *
52822621 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAACCCGGATATAGTAACTAGCAC-AAATGCCTTCGGGTCTTAGCCCGGATATC
* *
52822686 GTCACTAGCGCAAATG
65 GTAACTAGCACAAATG
* *
52822702 CCTTCGGGACTTAACCCGGATATAGTGACTAGCACAAAGTGCCTTCGGGTCTTAGCCCAGATATC
1 CCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAA-TGCCTTCGGGTCTTAGCCCGGATATC
52822767 ATCCGAATAA
Statistics
Matches: 128, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 12 0.09
80 19 0.15
81 97 0.76
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCG
TAACTAGCACAAATG
Found at i:52828148 original size:79 final size:81
Alignment explanation
Indices: 52828047--52828231 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
52828037 ACGACTCGCT
** * *
52828047 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
52828110 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
52828127 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
52828191 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
52828207 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52828232 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:52828231 original size:40 final size:39
Alignment explanation
Indices: 52828040--52828231 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
52828030 GGATATAACG
* ** * *
52828040 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
52828080 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
52828120 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
52828159 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
52828199 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
52828232 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:52836173 original size:79 final size:81
Alignment explanation
Indices: 52836072--52836256 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
52836062 ACGACTCGCT
** * *
52836072 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
52836135 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
52836152 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
52836216 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
52836232 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52836257 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:52836256 original size:40 final size:39
Alignment explanation
Indices: 52836065--52836256 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
52836055 GGATATAACG
* ** * *
52836065 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
52836105 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
52836145 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
52836184 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
52836224 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
52836257 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:52841013 original size:6 final size:7
Alignment explanation
Indices: 52840996--52841024 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
52840986 AAAAAAATTC
52840996 AAAAAAT
1 AAAAAAT
52841003 AAAAAAT
1 AAAAAAT
52841010 AAAAAAT
1 AAAAAAT
52841017 AAAAAAT
1 AAAAAAT
52841024 A
1 A
52841025 TATATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:52841655 original size:27 final size:27
Alignment explanation
Indices: 52841593--52841645 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
52841583 TTATATTAAT
52841593 ACATAATTTTAATGTGTCTAGTTTAGA
1 ACATAATTTTAATGTGTCTAGTTTAGA
*
52841620 ACATCATTTTAATGTGTCTAGTTTAG
1 ACATAATTTTAATGTGTCTAGTTTAG
52841646 GGACAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (27 bp):
ACATAATTTTAATGTGTCTAGTTTAGA
Found at i:52847215 original size:18 final size:18
Alignment explanation
Indices: 52847192--52847226 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
52847182 CAAAGTTAAA
52847192 GCTCTC-CAAACATCACTC
1 GCTCTCGCAAACA-CACTC
52847210 GCTCTCGCAAACACACT
1 GCTCTCGCAAACACACT
52847227 TATTTTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.29, C:0.43, G:0.09, T:0.20
Consensus pattern (18 bp):
GCTCTCGCAAACACACTC
Found at i:52854632 original size:40 final size:40
Alignment explanation
Indices: 52854583--52854790 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
52854573 TCTTCGGAAT
* *
52854583 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
52854622 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
52854662 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
52854702 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * *
52854742 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
52854782 TTAGCCCGG
1 TTAGCCCGG
52854791 GTATCATTCA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 5 0.03
40 136 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:52863923 original size:37 final size:37
Alignment explanation
Indices: 52863873--52863943 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
52863863 CGAAGTCTTA
52863873 CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
1 CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
52863910 CCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 CCCGGACATAATCTCCACACGTAGTCATCGGGTC
52863944 TCACCCGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.21
Consensus pattern (37 bp):
CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
Found at i:52863951 original size:37 final size:36
Alignment explanation
Indices: 52863871--52863957 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
52863861 TACGAAGTCT
52863871 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
52863907 GTGCCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
52863944 TCACCCGGAACATA
1 T-ACCCGG-ACATA
52863958 TTTCCAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 40 0.87
38 5 0.11
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:52864098 original size:49 final size:49
Alignment explanation
Indices: 52864026--52864288 Score: 460
Period size: 49 Copynumber: 5.4 Consensus size: 49
52864016 TTTACCACAT
*
52864026 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
52864075 ATATATATACACTTTCACATTCATCACATTGGCCATGAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52864124 ATATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52864173 -TATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52864221 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52864270 ATATATATACACTTTCACA
1 ATATATATACACTTTCACA
52864289 AATTTTGATA
Statistics
Matches: 206, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
48 49 0.24
49 156 0.76
50 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:52864222 original size:97 final size:98
Alignment explanation
Indices: 52864026--52864288 Score: 460
Period size: 97 Copynumber: 2.7 Consensus size: 98
52864016 TTTACCACAT
*
52864026 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACACTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
*
52864091 ACATTCATCACATTGGCCATGAGGCCTTATCAC
66 ACATTCATCACATCGGCCATGAGGCCTTATCAC
52864124 ATATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-TATATATAC-CTTT
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC-TT
*
52864186 TCACATTCATCACATCGGCCATTAGGCCTTATCAC
64 TCACATTCATCACATCGGCCATGAGGCCTTATCAC
52864221 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
52864286 ACA
66 ACA
52864289 AATTTTGATA
Statistics
Matches: 157, Mismatches: 3, Indels: 10
0.92 0.02 0.06
Matches are distributed among these distances:
96 1 0.01
97 92 0.59
98 63 0.40
99 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (98 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
ACATTCATCACATCGGCCATGAGGCCTTATCAC
Found at i:52867041 original size:40 final size:40
Alignment explanation
Indices: 52866900--52867082 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
52866890 TCGAATGATG
* * *
52866900 TCCGGGCTAAGTCCCGAAGGCCTT-GTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
52866940 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
* *
52866980 TTCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* *
52867019 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
52867060 -CCGGGCTTTGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
52867083 AGAGTGAGCC
Statistics
Matches: 118, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
39 32 0.27
40 79 0.67
41 7 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:52867065 original size:79 final size:81
Alignment explanation
Indices: 52866900--52867082 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
52866890 TCGAATGATG
* * * *
52866900 TCCGGGCTAAGTCCCGAAGGC-CTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
52866964 CGTGCGAGTTAATAAA
66 CGTGCAAGTTAATAAA
* * **
52866980 TTCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
52867042 TCGTGCAAGTTACTATAA
65 TCGTGCAAGTTAATA-AA
**
52867060 -CCGGGCTTTGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
52867083 AGAGTGAGCC
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.64
80 30 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCAAGTTAATAAA
Found at i:52870206 original size:40 final size:40
Alignment explanation
Indices: 52870157--52870364 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
52870147 TCTTCGGAAT
* *
52870157 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** * *
52870196 TTAACCCGGAT-TTGGTATCTTGCACAAATACCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * *
52870236 TTAGCCCGGATATGACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * * *
52870276 TTAGCCCGGATATAATCACAAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * *
52870316 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
52870356 TTAGCCCGG
1 TTAGCCCGG
52870365 GTATCATTCA
Statistics
Matches: 141, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 5 0.04
40 134 0.95
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:52887034 original size:18 final size:17
Alignment explanation
Indices: 52887005--52887064 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 17
52886995 AGGAGAATGA
52887005 GAAAAAGAAAAATGAGATT
1 GAAAAAG-AAAA-GAGATT
*
52887024 GAAAAAGAAAAAGAAATT
1 GAAAAAG-AAAAGAGATT
*
52887042 GAACAAGAAAAGAAGATT
1 GAAAAAGAAAAG-AGATT
52887060 GAAAA
1 GAAAA
52887065 GGAGAGTGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 5 0.14
18 19 0.53
19 12 0.33
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.12
Consensus pattern (17 bp):
GAAAAAGAAAAGAGATT
Found at i:52887227 original size:77 final size:77
Alignment explanation
Indices: 52887142--52887296 Score: 292
Period size: 77 Copynumber: 2.0 Consensus size: 77
52887132 TTCGAAAAAG
*
52887142 AAGCGAGTGAAAATGAAGAACGACAGCAAGAAAAAGCGAGGAGTGTTTCAACTAACTGAACTAAA
1 AAGCGAGTGAAAATGAAGAACGACAACAAGAAAAAGCGAGGAGTGTTTCAACTAACTGAACTAAA
52887207 AGTTCTCCTTGT
66 AGTTCTCCTTGT
*
52887219 AAGCGAGTGAAAATGAAGAACGACAACAAGAAAAAGCGAGGAGTGTTTCAACTAACTGAACTACA
1 AAGCGAGTGAAAATGAAGAACGACAACAAGAAAAAGCGAGGAGTGTTTCAACTAACTGAACTAAA
52887284 AGTTCTCCTTGT
66 AGTTCTCCTTGT
52887296 A
1 A
52887297 TTGTTTCTTG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (77 bp):
AAGCGAGTGAAAATGAAGAACGACAACAAGAAAAAGCGAGGAGTGTTTCAACTAACTGAACTAAA
AGTTCTCCTTGT
Found at i:52889797 original size:24 final size:24
Alignment explanation
Indices: 52889746--52889810 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
52889736 ACAACCTATT
* *
52889746 TTAATGTGTCTTAAGTTCCAGCTGAA
1 TTAATATGTCTTAA--TCCAGCTAAA
*
52889772 TTAATATGTCTTAATGCAGCTAAA
1 TTAATATGTCTTAATCCAGCTAAA
*
52889796 TTAATTTGTCTTAAT
1 TTAATATGTCTTAAT
52889811 TCCATTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 22 0.63
26 13 0.37
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (24 bp):
TTAATATGTCTTAATCCAGCTAAA
Found at i:52891704 original size:17 final size:17
Alignment explanation
Indices: 52891684--52891729 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
52891674 TAAAAAGAGC
52891684 AAGAAAAAAAGAATG-AA
1 AAGAAAAAAAGAA-GAAA
52891701 AAGAAAAAGAA-AAGAAA
1 AAGAAAAA-AAGAAGAAA
52891718 AAGAAAAGAAAG
1 AAGAAAA-AAAG
52891730 TGGAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 1 0.04
17 21 0.84
18 3 0.12
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (17 bp):
AAGAAAAAAAGAAGAAA
Found at i:52891712 original size:11 final size:11
Alignment explanation
Indices: 52891684--52891728 Score: 65
Period size: 11 Copynumber: 4.0 Consensus size: 11
52891674 TAAAAAGAGC
52891684 AAGAAAA-AAA
1 AAGAAAAGAAA
52891694 GAATGAAAAGAAA
1 -AA-GAAAAGAAA
52891707 AAGAAAAGAAA
1 AAGAAAAGAAA
52891718 AAGAAAAGAAA
1 AAGAAAAGAAA
52891729 GTGGAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 22 0.69
12 7 0.22
13 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (11 bp):
AAGAAAAGAAA
Found at i:52896223 original size:40 final size:41
Alignment explanation
Indices: 52896163--52896289 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 41
52896153 TGGAATACAA
52896163 CCGGATA-TAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGTAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* *
52896203 CCGGATAG-AACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGTAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* *
52896243 CCGGAT-GTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATAGTAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
52896283 CCGGATA
1 CCGGATA
52896290 TAATTTCCAG
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (41 bp):
CCGGATAGTAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:52898235 original size:40 final size:40
Alignment explanation
Indices: 52898029--52898225 Score: 313
Period size: 40 Copynumber: 4.9 Consensus size: 40
52898019 TTCGAATGAT
*
52898029 ATCCGGGTTAATTCCAGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
*
52898069 ATCCGGGTTAATTCCCGAAGGCATTTGTGTGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
*
52898109 ATCTGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
* *
52898149 ATCCGGGTTAATTCCCGAAGGCAATTGTGTGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
* * * *
52898189 ATCCGGGTTAAGTCCCAAAGGCATTTGCGCGAATTAC
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTAC
52898226 TATAACCGGG
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
Found at i:52898245 original size:120 final size:120
Alignment explanation
Indices: 52898029--52898248 Score: 309
Period size: 120 Copynumber: 1.8 Consensus size: 120
52898019 TTCGAATGAT
* * *
52898029 ATCCGGGTTAATTCCAGAAGGCATTTGTGCGAGTTACCAAATCCGGGTTAATTCCCGAAGGCATT
1 ATCCGGGTTAATTCCAGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCAAAGGCATT
* * * * *
52898094 TGTGTGAGTTACCAAATCTGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
66 TGCGCGAATTACCAAATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
* *
52898149 ATCCGGGTTAATTCCCGAAGGCAATTGTGTGAGTTACCAAATCCGGGTTAAGTCCCAAAGGCATT
1 ATCCGGGTTAATTCCAGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCAAAGGCATT
*
52898214 TGCGCGAATTACTATAA-CCGGGCT-ATGTCCCGAAG
66 TGCGCGAATTACCA-AATCCGGGCTAAT-TCCCGAAG
52898249 ACAATCGAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
119 2 0.02
120 83 0.95
121 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (120 bp):
ATCCGGGTTAATTCCAGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCAAAGGCATT
TGCGCGAATTACCAAATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
Found at i:52898273 original size:120 final size:120
Alignment explanation
Indices: 52898027--52898288 Score: 291
Period size: 120 Copynumber: 2.2 Consensus size: 120
52898017 TATTCGAATG
* * * *
52898027 ATATCCGGGTTAATTCCAGAAGGCATTTGTGCGAGTTACCAAATCCGGGTTAATTCCCGAAGGCA
1 ATATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCAAAGGCA
* * * * * * * * * *
52898092 TTTGTGTGAGTTACCAAATCTGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACC
66 TTTGCGCGAATTACCAAATCCGGGCTAATTCCCGAAGACAATCGAGCAAGTTACC
* *
52898147 AAATCCGGGTTAATTCCCGAAGGCAATTGTGTGAGTTACCAAATCCGGGTTAAGTCCCAAAGGCA
1 ATATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCAAAGGCA
* *
52898212 TTTGCGCGAATTACTATAA-CCGGGCT-ATGTCCCGAAGACAATCGAGCAAG-TAGCT
66 TTTGCGCGAATTACCA-AATCCGGGCTAAT-TCCCGAAGACAATCGAGCAAGTTA-CC
52898267 ATATCC-GGTTAAATT-CCGAAGG
1 ATATCCGGGTT-AATTCCCGAAGG
52898289 TACGTGATTC
Statistics
Matches: 119, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
119 15 0.13
120 102 0.86
121 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (120 bp):
ATATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCAAAGGCA
TTTGCGCGAATTACCAAATCCGGGCTAATTCCCGAAGACAATCGAGCAAGTTACC
Found at i:52900657 original size:27 final size:27
Alignment explanation
Indices: 52900622--52900673 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
52900612 TTATATTAAT
52900622 ACATAATTTTAATGTGTCTAGTTTATG
1 ACATAATTTTAATGTGTCTAGTTTATG
*
52900649 ACATCATTTTAATGTGTCTAGTTTA
1 ACATAATTTTAATGTGTCTAGTTTA
52900674 GGGACAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (27 bp):
ACATAATTTTAATGTGTCTAGTTTATG
Found at i:52900684 original size:27 final size:27
Alignment explanation
Indices: 52900622--52900684 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
52900612 TTATATTAAT
*
52900622 ACATAATTTTAATGTGTCTAGTTTATG
1 ACATAATTTTAATGTGTCTAGTTTAGG
*
52900649 ACATCATTTTAATGTGTCTAGTTTAGGG
1 ACATAATTTTAATGTGTCTAGTTTA-GG
52900677 ACA-AATTT
1 ACATAATTT
52900685 ATTACCTGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (27 bp):
ACATAATTTTAATGTGTCTAGTTTAGG
Found at i:52906646 original size:40 final size:40
Alignment explanation
Indices: 52906601--52906767 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
52906591 CGGAATATAA
52906601 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
52906641 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
52906681 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
52906721 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
52906760 CCGGATAT
1 CCGGATAT
52906768 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52906751 original size:80 final size:79
Alignment explanation
Indices: 52906617--52906767 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
52906607 ATAATCACGT
*
52906617 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
52906682 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
52906697 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
52906760 CCGGATAT
64 CCGGATAT
52906768 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Done.