Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 164 of 205
Found at i:48846882 original size:8 final size:10
Alignment explanation
Indices: 48846859--48846895 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
48846849 TAATAACTAT
48846859 ATATATATCC
1 ATATATATCC
*
48846869 ATATATATTC
1 ATATATATCC
48846879 ATATATATCC
1 ATATATATCC
48846889 ATATATA
1 ATATATA
48846896 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:48847914 original size:82 final size:82
Alignment explanation
Indices: 48847795--48848135 Score: 646
Period size: 82 Copynumber: 4.2 Consensus size: 82
48847785 GCTACCGGAA
*
48847795 AAAACGCCACTAACTTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
48847860 TTGCGGCGTTTTACCTT
66 TTGCGGCGTTTTACCTT
48847877 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
48847942 TTGCGGCGTTTTACCTT
66 TTGCGGCGTTTTACCTT
48847959 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
48848024 TTGCGGCGTTTTACCTT
66 TTGCGGCGTTTTACCTT
*
48848041 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAATTTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
* *
48848106 TTACGGCGTTTTCCCTT
66 TTGCGGCGTTTTACCTT
48848123 AAAACGCCACTAA
1 AAAACGCCACTAA
48848136 TAGAGTACAC
Statistics
Matches: 255, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 255 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (82 bp):
AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
TTGCGGCGTTTTACCTT
Found at i:48848337 original size:41 final size:41
Alignment explanation
Indices: 48848275--48848388 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 41
48848265 AACACGAACT
*
48848275 TTAGCGGCGCTTAG-CAAAAAACGCCGCTAAAGA-ACAGAGAA
1 TTAGCGGCGCTCAGAC-AAAAACGCCGCTAAAGATAC-GAGAA
* * * * *
48848316 TTAGTGGCGCTCAGATAAAAACGCCACTAATGATACGAGCA
1 TTAGCGGCGCTCAGACAAAAACGCCGCTAAAGATACGAGAA
*
48848357 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
1 TTAGCGGCGCTCAGACAAAAACGCCGCTAAAG
48848389 GTTTAAAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 58 0.97
42 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.16
Consensus pattern (41 bp):
TTAGCGGCGCTCAGACAAAAACGCCGCTAAAGATACGAGAA
Found at i:48848637 original size:19 final size:19
Alignment explanation
Indices: 48848613--48848665 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
48848603 GGTGTAGTGC
48848613 TCCAATAATTCATTTTTGG
1 TCCAATAATTCATTTTTGG
48848632 TCCAATAATTCATTTTTGG
1 TCCAATAATTCATTTTTGG
48848651 TCCAATAATTCATTT
1 TCCAATAATTCATTT
48848666 ACATTATCGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (19 bp):
TCCAATAATTCATTTTTGG
Found at i:48849686 original size:19 final size:19
Alignment explanation
Indices: 48849662--48849699 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
48849652 GTAAATTTTT
*
48849662 TTATCATTTTGACTTTTAA
1 TTATCATTTTAACTTTTAA
48849681 TTATCATTTTAACTTTTAA
1 TTATCATTTTAACTTTTAA
48849700 CATTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (19 bp):
TTATCATTTTAACTTTTAA
Found at i:48849968 original size:43 final size:43
Alignment explanation
Indices: 48849907--48850189 Score: 300
Period size: 43 Copynumber: 6.6 Consensus size: 43
48849897 TAAAATGCCA
* * * *
48849907 CTAAAAGTCATGGTCTTTAGCAGCGTTTGTGGAAAAAGCCCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCG
* * * * * *
48849950 CTAAAGGTCGTAGTCTTTAGCGGTGTTTTTGGTAAAAGCGCCA
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCG
* *
48849993 CTAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGGAAAAGCGCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCG
* * *
48850036 CTAAAGGTCATGGACTTTAGCGGCGTCTGT-GAGAAAAGCGCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGA-AAAAGCGCCG
* * * * *
48850079 CTAATGGTCTTGGTCTTTAGCGGCGTTTATGGGAAAGGCGTCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCG
* * *
48850122 TTAAAGGTCTTGGTCTTTAGCGGCATTTGT-GAGAAAAGCGCAG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGA-AAAAGCGCCG
* * *
48850165 TTGAGGGTCTTGGTCTTTAGCGGCG
1 CTAAAGGTCTTGGTCTTTAGCGGCG
48850190 CTGTCATTAG
Statistics
Matches: 197, Mismatches: 40, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
42 2 0.01
43 194 0.98
44 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (43 bp):
CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCG
Found at i:48850137 original size:129 final size:129
Alignment explanation
Indices: 48849907--48850193 Score: 344
Period size: 129 Copynumber: 2.2 Consensus size: 129
48849897 TAAAATGCCA
* * *
48849907 CTAAAAGTCATGGTCTTTAGCAGCGTTTGTGGAAAAAGCCCCGCTAAAGGTCGTAGTCTTTAGCG
1 CTAAAGGTCATGGTCTTTAGCGGCGTCTGTGGAAAAAGCCCCGCTAAAGGTCGTAGTCTTTAGCG
* * * * * * *
48849972 GTGTTTTTGGTAAAAGCGCCACTAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGGAAAAGCGCCG
66 GCGTTTATGGGAAAAGCGCCACTAAAGGTCTTGGTCTTTAGCGGCATTTGTGAGAAAAGCGCAG
* * * * *
48850036 CTAAAGGTCATGGACTTTAGCGGCGTCTGT-GAGAAAAGCGCCGCTAATGGTCTTGGTCTTTAGC
1 CTAAAGGTCATGGTCTTTAGCGGCGTCTGTGGA-AAAAGCCCCGCTAAAGGTCGTAGTCTTTAGC
* * **
48850100 GGCGTTTATGGGAAAGGCGTCGTTAAAGGTCTTGGTCTTTAGCGGCATTTGTGAGAAAAGCGCAG
65 GGCGTTTATGGGAAAAGCGCCACTAAAGGTCTTGGTCTTTAGCGGCATTTGTGAGAAAAGCGCAG
* * * *
48850165 TTGAGGGTCTTGGTCTTTAGCGGCG-CTGT
1 CTAAAGGTCATGGTCTTTAGCGGCGTCTGT
48850194 CATTAGCGGC
Statistics
Matches: 133, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
128 6 0.05
129 127 0.95
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (129 bp):
CTAAAGGTCATGGTCTTTAGCGGCGTCTGTGGAAAAAGCCCCGCTAAAGGTCGTAGTCTTTAGCG
GCGTTTATGGGAAAAGCGCCACTAAAGGTCTTGGTCTTTAGCGGCATTTGTGAGAAAAGCGCAG
Found at i:48850866 original size:20 final size:20
Alignment explanation
Indices: 48850831--48850881 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
48850821 TATTCTCTCG
* *
48850831 AGTATTAAAAATTATGAGAGA
1 AGTATCAAAAAGTATGAGA-A
48850852 A-TATCAAAAAGTATGAGAA
1 AGTATCAAAAAGTATGAGAA
48850871 AGTATCAAAAA
1 AGTATCAAAAA
48850882 AAATATAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.16, T:0.24
Consensus pattern (20 bp):
AGTATCAAAAAGTATGAGAA
Found at i:48850974 original size:22 final size:22
Alignment explanation
Indices: 48850944--48851008 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
48850934 ATTTATTTTT
*
48850944 AAATATTATTAGTATATATAAA
1 AAATTTTATTAGTATATATAAA
*
48850966 AAATTTTATTAGTATACA-AAA
1 AAATTTTATTAGTATATATAAA
*
48850987 ATATTTT-TT--TATAT-TAAA
1 AAATTTTATTAGTATATATAAA
48851005 AAAT
1 AAAT
48851009 AAATTTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 10 0.27
20 2 0.05
21 9 0.24
22 16 0.43
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (22 bp):
AAATTTTATTAGTATATATAAA
Found at i:48851015 original size:21 final size:22
Alignment explanation
Indices: 48850943--48851016 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
48850933 TATTTATTTT
* * *
48850943 TAAATATTATTAGTATATATAAA
1 TAAAT-TTTTTAGTATACAAAAA
48850966 -AAATTTTATTAGTATACAAAAA
1 TAAATTTT-TTAGTATACAAAAA
*
48850988 T-ATTTTTTTA-TATTA-AAAAA
1 TAAATTTTTTAGTA-TACAAAAA
48851008 TAAATTTTT
1 TAAATTTTT
48851017 AAACCAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
20 8 0.19
21 13 0.31
22 21 0.50
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (22 bp):
TAAATTTTTTAGTATACAAAAA
Found at i:48851517 original size:18 final size:19
Alignment explanation
Indices: 48851494--48851529 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
48851484 AAACTAATAA
48851494 AAAATCAT-AAAAATTATT
1 AAAATCATAAAAAATTATT
48851512 AAAATCATAAAAAATTAT
1 AAAATCATAAAAAATTAT
48851530 AACAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATCATAAAAAATTATT
Found at i:48851531 original size:28 final size:27
Alignment explanation
Indices: 48851478--48851552 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 27
48851468 ATTTAAAATG
48851478 TTATTAAAACTAATAAAAAATCATAAAAA
1 TTATTAAAA-T-ATAAAAAATCATAAAAA
* *
48851507 TTATTAAAATCATAAAAAATTATAACAA
1 TTATTAAAAT-ATAAAAAATCATAAAAA
*
48851535 TTATTAAAATTTAAAAAA
1 TTATTAAAATATAAAAAA
48851553 GAAAAAAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.17
28 26 0.62
29 9 0.21
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (27 bp):
TTATTAAAATATAAAAAATCATAAAAA
Found at i:48851543 original size:19 final size:19
Alignment explanation
Indices: 48851494--48851543 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
48851484 AAACTAATAA
48851494 AAAATCA-TAAAAATTATT
1 AAAATCATTAAAAATTATT
*
48851512 AAAATCATAAAAAATTA-T
1 AAAATCATTAAAAATTATT
*
48851530 AACAATTATTAAAA
1 AA-AATCATTAAAA
48851544 TTTAAAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATCATTAAAAATTATT
Found at i:48853255 original size:6 final size:6
Alignment explanation
Indices: 48853244--48853274 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
48853234 ATAAAAATTT
48853244 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
48853275 TTATAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:48853548 original size:26 final size:25
Alignment explanation
Indices: 48853519--48853570 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
48853509 ATATTTTTTA
*
48853519 TAAT-TTTTATAACTTTATATCAATTT
1 TAATATTTAATAA-TTTA-ATCAATTT
*
48853545 TAATATTTAATAATTTAATTAATTT
1 TAATATTTAATAATTTAATCAATTT
48853570 T
1 T
48853571 TATGATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.35
26 8 0.35
27 7 0.30
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (25 bp):
TAATATTTAATAATTTAATCAATTT
Found at i:48856355 original size:33 final size:33
Alignment explanation
Indices: 48856278--48856356 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
48856268 CCCTTTCCAG
* * *
48856278 ATCACCTTCACCATCATATTCTGCCCCTACATC
1 ATCACCTTCCCCATCATATTCTACCCCTACAAC
* * *
48856311 ATCACCCTCCCCATCA-ACTTCTATCCCTTCAAC
1 ATCACCTTCCCCATCATA-TTCTACCCCTACAAC
48856344 ATCACCTTCCCCA
1 ATCACCTTCCCCA
48856357 ACAGTCAACA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 1 0.03
33 37 0.97
ACGTcount: A:0.24, C:0.47, G:0.01, T:0.28
Consensus pattern (33 bp):
ATCACCTTCCCCATCATATTCTACCCCTACAAC
Found at i:48857717 original size:12 final size:12
Alignment explanation
Indices: 48857678--48857717 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
48857668 CAATCCACAA
48857678 TCCACATTTCATTT
1 TCCA-ATTTCA-TT
*
48857692 TCCATTTTCATT
1 TCCAATTTCATT
48857704 TCCAATTTCATT
1 TCCAATTTCATT
48857716 TC
1 TC
48857718 TTATTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 15 0.62
13 5 0.21
14 4 0.17
ACGTcount: A:0.20, C:0.28, G:0.00, T:0.53
Consensus pattern (12 bp):
TCCAATTTCATT
Found at i:48861774 original size:12 final size:12
Alignment explanation
Indices: 48861757--48861781 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48861747 ATTTAGGTGA
48861757 AAAAATATTTTT
1 AAAAATATTTTT
48861769 AAAAATATTTTT
1 AAAAATATTTTT
48861781 A
1 A
48861782 TTAGGGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAAAATATTTTT
Found at i:48865365 original size:19 final size:19
Alignment explanation
Indices: 48865341--48865377 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48865331 CAACATATCA
48865341 TAATAAAACAAAATTTTAG
1 TAATAAAACAAAATTTTAG
* *
48865360 TAATAATACATAATTTTA
1 TAATAAAACAAAATTTTA
48865378 AAACAAGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
TAATAAAACAAAATTTTAG
Found at i:48865554 original size:12 final size:12
Alignment explanation
Indices: 48865537--48865567 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
48865527 AAAATATAAA
*
48865537 AATAATAGGAAT
1 AATAATAGCAAT
48865549 AATAATAGCAAT
1 AATAATAGCAAT
48865561 AATAATA
1 AATAATA
48865568 TAAAAAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.03, G:0.10, T:0.26
Consensus pattern (12 bp):
AATAATAGCAAT
Found at i:48867604 original size:114 final size:114
Alignment explanation
Indices: 48867432--48867863 Score: 573
Period size: 114 Copynumber: 3.8 Consensus size: 114
48867422 AATCAGCAAT
* ** *
48867432 GCTTTTCTAAAAATGTTGCAAAAATG-TAATCAAAACGCATCGTTCTATCTTGAGCTTTAGTGGC
1 GCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATCCTGAGCTTTAGTGGC
* * * * *
48867496 ACTAGCGACCCTTATTCAAAAACGCCGATATATGTCAAGAATTAGCGGC
66 ATTAGCGGCGCTTATTCAAAAACGCCGCTATATGTCGAGAATTAGCGGC
** * * * *
48867545 ATTTTTCTAAAAATGCCGCAAAAATATTAATCAAAATGCAACGTTCTATCCTGAGCTTTAGTGGC
1 GCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATCCTGAGCTTTAGTGGC
* *** * *
48867610 ATTAGTGGCGCTTACAGAAAAATGCCGCTATAGGTCGAGAATTAGCGGC
66 ATTAGCGGCGCTTATTCAAAAACGCCGCTATATGTCGAGAATTAGCGGC
* * *
48867659 GCTTTTCTAAAAACACCACAAAAATGTTAATCAAAACGCATCGTTCT-GCCTTGAGCTTTAGTGG
1 GCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATCC-TGAGCTTTAGTGG
*
48867723 CATTAGCGGCGCTTATTCAAAAACGCCTCTATATGTCGAGAATTAGCGGC
65 CATTAGCGGCGCTTATTCAAAAACGCCGCTATATGTCGAGAATTAGCGGC
* *
48867773 GCTTTTCTAAAAACGCTGCAAAAATGTTAATCAAAACGCATCGTTCTATCTTGAGCTTTAGTGGC
1 GCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATCCTGAGCTTTAGTGGC
*
48867838 ATTAGCGGCGCTT-TCCGAAAAACGCC
66 ATTAGCGGCGCTTATTC-AAAAACGCC
48867864 ACAAAATGTT
Statistics
Matches: 274, Mismatches: 41, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
113 25 0.09
114 248 0.91
115 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (114 bp):
GCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATCCTGAGCTTTAGTGGC
ATTAGCGGCGCTTATTCAAAAACGCCGCTATATGTCGAGAATTAGCGGC
Found at i:48867796 original size:228 final size:227
Alignment explanation
Indices: 48867450--48867859 Score: 640
Period size: 228 Copynumber: 1.8 Consensus size: 227
48867440 AAAAATGTTG
*
48867450 CAAAAATGTAATCAAAACGCATCGTTCTATCTTGAGCTTTAGTGGCACTAGCGACCCTTATTCAA
1 CAAAAATGTAATCAAAACGCATCGTTCTACCTTGAGCTTTAGTGGCACTAGCGACCCTTATTCAA
* *
48867515 AAACGCCGATATATGTCAAGAATTAGCGGCATTTTTCTAAAAATGCCGCAAAAATATTAATCAAA
66 AAACGCCGATATATGTCAAGAATTAGCGGCACTTTTCTAAAAACGCCGCAAAAATATTAATCAAA
* *
48867580 ATGCAACGTTCTATCCTGAGCTTTAGTGGCATTAGTGGCGCTTACAGAAAAATGCCGCTATAGGT
131 ACGCAACGTTCTATCCTGAGCTTTAGTGGCATTAGCGGCGCTTACAGAAAAATGCCGCTATAGGT
48867645 CGAGAATTAGCGGCGCTTTTCTAAAAACACCA
196 CGAGAATTAGCGGCGCTTTTCTAAAAACACCA
* * * *
48867677 CAAAAATGTTAATCAAAACGCATCGTTCTGCCTTGAGCTTTAGTGGCATTAGCGGCGCTTATTCA
1 CAAAAATG-TAATCAAAACGCATCGTTCTACCTTGAGCTTTAGTGGCACTAGCGACCCTTATTCA
** * * * *
48867742 AAAACGCCTCTATATGTCGAGAATTAGCGGCGCTTTTCTAAAAACGCTGCAAAAATGTTAATCAA
65 AAAACGCCGATATATGTCAAGAATTAGCGGCACTTTTCTAAAAACGCCGCAAAAATATTAATCAA
* * * *
48867807 AACGCATCGTTCTATCTTGAGCTTTAGTGGCATTAGCGGCGCTTTCCGAAAAA
130 AACGCAACGTTCTATCCTGAGCTTTAGTGGCATTAGCGGCGCTTACAGAAAAA
48867860 CGCCACAAAA
Statistics
Matches: 163, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
227 8 0.05
228 155 0.95
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (227 bp):
CAAAAATGTAATCAAAACGCATCGTTCTACCTTGAGCTTTAGTGGCACTAGCGACCCTTATTCAA
AAACGCCGATATATGTCAAGAATTAGCGGCACTTTTCTAAAAACGCCGCAAAAATATTAATCAAA
ACGCAACGTTCTATCCTGAGCTTTAGTGGCATTAGCGGCGCTTACAGAAAAATGCCGCTATAGGT
CGAGAATTAGCGGCGCTTTTCTAAAAACACCA
Found at i:48867888 original size:74 final size:73
Alignment explanation
Indices: 48867764--48867909 Score: 179
Period size: 74 Copynumber: 2.0 Consensus size: 73
48867754 TATGTCGAGA
* * * *
48867764 ATTAGCGGCGCTTTTCTAAAAACGCTGCAAAAATGTTAATCAAAACGCATCGTTCTAT-CTTGAG
1 ATTAGCGGCGCTTTCCGAAAAACGC-GCAAAAATGTTAAGCAAAACGCATCGTT-TATACTGGAG
48867828 CTTTAGTGGC
64 CTTTAGTGGC
* * *
48867838 ATTAGCGGCGCTTTCCGAAAAACGC-CACAAAATGTTGAGCAAAATGGCATCGTTTATAGTGGAG
1 ATTAGCGGCGCTTTCCGAAAAACGCGCA-AAAATGTTAAGCAAAA-CGCATCGTTTATACTGGAG
48867902 CTTTAGTG
64 CTTTAGTG
48867910 ACGTTTTAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
72 2 0.03
73 17 0.27
74 43 0.69
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (73 bp):
ATTAGCGGCGCTTTCCGAAAAACGCGCAAAAATGTTAAGCAAAACGCATCGTTTATACTGGAGCT
TTAGTGGC
Found at i:48868677 original size:21 final size:21
Alignment explanation
Indices: 48868651--48868692 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48868641 CTTGTAAAAT
48868651 ATTAACACAATTATTGATTTA
1 ATTAACACAATTATTGATTTA
* * *
48868672 ATTAACATAATTTTTTATTTA
1 ATTAACACAATTATTGATTTA
48868693 TATATTGCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTAACACAATTATTGATTTA
Found at i:48868742 original size:21 final size:20
Alignment explanation
Indices: 48868716--48868764 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
48868706 TAAATATTTA
48868716 TATTTATTCAATATAAATGTG
1 TATTTATTCAATA-AAATGTG
***
48868737 TATTTATTTTTTAAAATGTG
1 TATTTATTCAATAAAATGTG
48868757 TATTTATT
1 TATTTATT
48868765 TTTTAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (20 bp):
TATTTATTCAATAAAATGTG
Found at i:48868766 original size:19 final size:20
Alignment explanation
Indices: 48868730--48868779 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
48868720 TATTCAATAT
48868730 AAATGTGTATTTATTTTTTA
1 AAATGTGTATTTATTTTTTA
48868750 AAATGTGTATTTATTTTTTA
1 AAATGTGTATTTATTTTTTA
48868770 AAA-GTGTATT
1 AAATGTGTATT
48868780 ATTCTCCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (20 bp):
AAATGTGTATTTATTTTTTA
Found at i:48869489 original size:18 final size:19
Alignment explanation
Indices: 48869450--48869500 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
48869440 CCATTTCCAA
48869450 ATTTCCCCAAATCCCTAAC
1 ATTTCCCCAAATCCCTAAC
**
48869469 ATTTCCCCAAA-CCCTTTC
1 ATTTCCCCAAATCCCTAAC
48869487 ATTTTCCCCAAATC
1 A-TTTCCCCAAATC
48869501 AAAATCGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.21
19 21 0.75
20 1 0.04
ACGTcount: A:0.27, C:0.41, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTTCCCCAAATCCCTAAC
Found at i:48870470 original size:5 final size:5
Alignment explanation
Indices: 48870460--48870485 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48870450 TGAGCATTCG
48870460 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
48870486 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:48875932 original size:43 final size:43
Alignment explanation
Indices: 48875869--48876285 Score: 385
Period size: 43 Copynumber: 9.7 Consensus size: 43
48875859 TTGCCCAAAT
* * * * *
48875869 TAGCGGCATTTGTA-AAAAAAGTGCCGCTAAAGACTACGAATTA
1 TAGCGGCGTTT-TATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * ** * *
48875912 TAGCAGCGTTTTATAAAAAAGCACTACTAAAGGCCATGGCTTA
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * * *
48875955 TAGCGGCATTTTATAAAACAA-CACCGCTAAAGGCAATGACTTA
1 TAGCGGCGTTTTATAAAA-AAGCGCCGCTAAAGACCATGACTTA
* * * *
48875998 TAGCGGCATTTTATAAAAAAGCGTCGCTAAAGGCCATGATTTA
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
*
48876041 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCAAGACTTA
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * *
48876084 TAGCGGCGTTTTATAAAAAAGTGTCGCTAAAGACCACGACTTA
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
** * *
48876127 TAGCAACGTTTTATAAAAAAGCGCCGCTAAAGGCCACGACTTA
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * * * * *
48876170 TACCGGC-TTTTTTATAATAGCACCGCTAAAGACCACGACCTT-
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGA-CTTA
** * * *
48876212 TAGCGGCGTTTGCTATAATAGCGCCGCTAATGACCATGACCTT-
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGA-CTTA
* * * *
48876255 TAGCGGCGTCTTCTATAAAAGCGCCGTTAAA
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAA
48876286 ATTCAGGATC
Statistics
Matches: 316, Mismatches: 53, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
42 36 0.11
43 278 0.88
44 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
Found at i:48876299 original size:43 final size:43
Alignment explanation
Indices: 48876182--48876308 Score: 125
Period size: 43 Copynumber: 3.0 Consensus size: 43
48876172 CCGGCTTTTT
* * *
48876182 TATAATAGCACCGCTAA-AGACCACGACCTTTAGCGGCGTTTGC
1 TATAAAAGCGCCGCTAATA-ACCAGGACCTTTAGCGGCGTTTGC
* * *
48876225 TATAATAGCGCCGCTAATGACCATGACCTTTAGCGGCGTCTT-C
1 TATAAAAGCGCCGCTAATAACCAGGACCTTTAGCGGCGT-TTGC
* * *
48876268 TATAAAAGCGCCGTTAA-AATTCAGGATCTTTAGCGGCGTTT
1 TATAAAAGCGCCGCTAATAA-CCAGGACCTTTAGCGGCGTTT
48876309 TTTTCATATA
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 3 0.04
43 67 0.93
44 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
TATAAAAGCGCCGCTAATAACCAGGACCTTTAGCGGCGTTTGC
Found at i:48876996 original size:48 final size:47
Alignment explanation
Indices: 48876875--48876996 Score: 145
Period size: 48 Copynumber: 2.6 Consensus size: 47
48876865 GGGTGTCACA
* * *
48876875 CGACCAATGGTTTATCCACAACATATTTTAGTCAACAATCATCTACT
1 CGACCAGTGGTTTATCCACAACGTATTCTAGTCAACAATCATCTACT
* * * * ** *
48876922 CGACTAGTGGTTTATCTATAATGTATTCTAGTTGACAGATCATCTGCT
1 CGACCAGTGGTTTATCCACAACGTATTCTAGTCAACA-ATCATCTACT
48876970 CGACCAGTGGTTTATCCACAACGTATT
1 CGACCAGTGGTTTATCCACAACGTATT
48876997 AGTAACTTTT
Statistics
Matches: 60, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
47 28 0.47
48 32 0.53
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (47 bp):
CGACCAGTGGTTTATCCACAACGTATTCTAGTCAACAATCATCTACT
Found at i:48889737 original size:23 final size:24
Alignment explanation
Indices: 48889711--48889755 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
48889701 ATATCCCCAC
* *
48889711 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTATAGAGGCTGGATGGAG
*
48889734 ATGGTGTATAGAGGCTGGATGG
1 ATGGAGTATAGAGGCTGGATGG
48889756 GTAGAGTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.22, C:0.02, G:0.49, T:0.27
Consensus pattern (24 bp):
ATGGAGTATAGAGGCTGGATGGAG
Found at i:48890219 original size:18 final size:18
Alignment explanation
Indices: 48890171--48890222 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
48890161 GTAATAAAAA
*
48890171 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAAATGAAT
* * *
48890189 AACG-ATTGTAAATGAAT
1 AATGTTTTGAAAATGAAT
48890206 AATGTTTTGAAAATGAA
1 AATGTTTTGAAAATGAA
48890223 CTGCACGATT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (18 bp):
AATGTTTTGAAAATGAAT
Found at i:48892573 original size:46 final size:46
Alignment explanation
Indices: 48892523--48892697 Score: 298
Period size: 46 Copynumber: 3.8 Consensus size: 46
48892513 TGGTTGAGCA
48892523 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
48892569 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
48892615 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48892661 CCCGAGA-TCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48892698 GCGGGTTACA
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
46 123 0.99
47 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48900119 original size:46 final size:46
Alignment explanation
Indices: 48900052--48900363 Score: 561
Period size: 46 Copynumber: 6.8 Consensus size: 46
48900042 TGAACCTTAG
*
48900052 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
*
48900098 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
48900144 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
48900190 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
48900236 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* *
48900282 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* * *
48900328 CCGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48900364 GCGGGTTACA
Statistics
Matches: 260, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 260 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
Found at i:48902386 original size:38 final size:38
Alignment explanation
Indices: 48902335--48902410 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
48902325 GCAGCAGAAC
48902335 GGTACAAAAGGTGGATGAAAGAGAGGAACATGATTGAT
1 GGTACAAAAGGTGGATGAAAGAGAGGAACATGATTGAT
48902373 GGTACAAAAGGTGGATGAAAGAGAGGAACATGATTGAT
1 GGTACAAAAGGTGGATGAAAGAGAGGAACATGATTGAT
48902411 AACAGGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.05, G:0.34, T:0.18
Consensus pattern (38 bp):
GGTACAAAAGGTGGATGAAAGAGAGGAACATGATTGAT
Found at i:48902954 original size:69 final size:69
Alignment explanation
Indices: 48902843--48902980 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
48902833 AATAAAGTAT
*
48902843 ATCCTACCCGTGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAAAAGGGATTCAAA
1 ATCCTACCCATGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAAAAGGGATTCAAA
48902908 CACA
66 CACA
* * *
48902912 ATCCTACCCATGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAATATGGATTCAAG
1 ATCCTACCCATGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAAAAGGGATTCAAA
48902977 CACA
66 CACA
48902981 CATAACTAAC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.16
Consensus pattern (69 bp):
ATCCTACCCATGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAAAAGGGATTCAAA
CACA
Found at i:48915205 original size:21 final size:22
Alignment explanation
Indices: 48915159--48915206 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
48915149 GTGGCTAAAT
48915159 CACAC-ACCTATGTGGCTGAGA
1 CACACGACCTATGTGGCTGAGA
* * *
48915180 AACACGACC-ATGTGTCTGAGG
1 CACACGACCTATGTGGCTGAGA
48915201 CACACG
1 CACACG
48915207 CTCATGCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (22 bp):
CACACGACCTATGTGGCTGAGA
Found at i:48916747 original size:50 final size:49
Alignment explanation
Indices: 48916618--48916758 Score: 151
Period size: 47 Copynumber: 2.9 Consensus size: 49
48916608 TATGTGGCGA
* * **
48916618 TTTATCTACAAATCAGTGGTAGCTTGTCCACAAAGTGTTTCAATGGTAG
1 TTTATCTGCAAATCAGTGGTAGTTTGTCCACAAAGTGTTTCAATGACAG
* * * * *
48916667 TATATTTGCATAT--GTGGTAATTTGTCCACAAAGTGTTATCAGTGACAG
1 TTTATCTGCAAATCAGTGGTAGTTTGTCCACAAAGTGTT-TCAATGACAG
*
48916715 TTTATCTGCAAATCAGTGGTGGTTTGTCCACAAATGGTGTTTCA
1 TTTATCTGCAAATCAGTGGTAGTTTGTCCACAAA--GTGTTTCA
48916759 GATGGACAAG
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
47 22 0.30
48 17 0.23
49 9 0.12
50 17 0.23
51 3 0.04
52 5 0.07
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (49 bp):
TTTATCTGCAAATCAGTGGTAGTTTGTCCACAAAGTGTTTCAATGACAG
Found at i:48919610 original size:75 final size:75
Alignment explanation
Indices: 48919485--48919629 Score: 245
Period size: 75 Copynumber: 1.9 Consensus size: 75
48919475 TCACTTAGTG
** *
48919485 AAAACATGTTAATTTTAATCGAAATTGCATGGTAGACTAAGCTTTAAACCAACTATTCTATTTGA
1 AAAACATGTTAAAGTTAATCGAAATTGCATGGTAGACTAAGCTTTAAACCAACTATTCCATTTGA
48919550 TTAACCGAAT
66 TTAACCGAAT
* *
48919560 AAAACATGTTAAAGTTAATCGAAATTGTATGGTAGACTAAGCTTTGAACCAACTATTCCATTTGA
1 AAAACATGTTAAAGTTAATCGAAATTGCATGGTAGACTAAGCTTTAAACCAACTATTCCATTTGA
48919625 TTAAC
66 TTAAC
48919630 TGAACACATC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (75 bp):
AAAACATGTTAAAGTTAATCGAAATTGCATGGTAGACTAAGCTTTAAACCAACTATTCCATTTGA
TTAACCGAAT
Found at i:48929152 original size:132 final size:132
Alignment explanation
Indices: 48928994--48929329 Score: 595
Period size: 132 Copynumber: 2.5 Consensus size: 132
48928984 AGTTTCAAGG
* *
48928994 AGATAGGAA-TACTGGCTTCAACGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTT
1 AGATA-GAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTT
48929058 GATCTGCTCCACTACTGCTTAGGGACATAAGATCCGTAATCCTTAATCTATTCCACTGTTGCCCA
65 GATCTGCTCCACTACTGCTTAGGGACATAAGATCCGTAATCCTTAATCTATTCCACTGTTGCCCA
48929123 GGA
130 GGA
*
48929126 AGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACTATCTTTG
1 AGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTG
48929191 ATCTGCTCCACTACTGCTTAGGGACATAAGATCCGTAATCCTTAATCTATTCCACTGTTGCCCAG
66 ATCTGCTCCACTACTGCTTAGGGACATAAGATCCGTAATCCTTAATCTATTCCACTGTTGCCCAG
48929256 GA
131 GA
*
48929258 AGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAAT-CAGCCATCTTC
1 AGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCA-CCATCTTT
*
48929322 AATCTGCT
65 GATCTGCT
48929330 TCGCTGTTTA
Statistics
Matches: 196, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
131 5 0.03
132 191 0.97
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (132 bp):
AGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTG
ATCTGCTCCACTACTGCTTAGGGACATAAGATCCGTAATCCTTAATCTATTCCACTGTTGCCCAG
GA
Found at i:48929413 original size:44 final size:44
Alignment explanation
Indices: 48929345--48929448 Score: 163
Period size: 44 Copynumber: 2.4 Consensus size: 44
48929335 GTTTATGTAG
* * *
48929345 GAAGGCAAGATCTTCTATATTTGATCTACTTGACGCCAGTACAT
1 GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
* *
48929389 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
48929433 GAAGACAAGATCTGCT
1 GAAGACAAGATCTGCT
48929449 TTTTCAATCG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
Found at i:48929741 original size:45 final size:45
Alignment explanation
Indices: 48929692--48929940 Score: 231
Period size: 45 Copynumber: 5.6 Consensus size: 45
48929682 CAGTACATGA
* * *
48929692 AGACACGATCTGTTTTCTTCGACCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAGTATGGGG
* *** *
48929737 AGACAAGATCTG-TTTCTTTGATCTACTTCACGCA--A-TACATGA
1 AGACAAGATCTGTTTTCTTTGATCTACTCCAC-CACCAGTATGGGG
* *
48929779 AGACAAGATCTGCTTTCTTTGATCTACTCCACCACTAGTATGGGG
1 AGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAGTATGGGG
* ** * * *** *
48929824 AGACAAGGTCTGTTGACTTTGATCTACTTCA-CGCC-GATACATGA
1 AGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAG-TATGGGG
* *
48929868 AGGCAAGATCTGCTTTCTTTGATCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAGTATGGGG
**
48929913 AGACAAGATCTGTTGACTTTGATCTACT
1 AGACAAGATCTGTTTTCTTTGATCTACT
48929941 TCACGCTGAT
Statistics
Matches: 157, Mismatches: 39, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
42 17 0.11
43 20 0.13
44 47 0.30
45 72 0.46
46 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (45 bp):
AGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAGTATGGGG
Found at i:48929894 original size:89 final size:88
Alignment explanation
Indices: 48929664--48930151 Score: 617
Period size: 89 Copynumber: 5.5 Consensus size: 88
48929654 GACCTACTAT
* * * *
48929664 CTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCA
*
48929729 GTATGGGGAGACAAGATCTGTTT
66 GTATGGGGAGACAAGATCTGTTA
* *
48929752 CTTTGATCTACTTCACG-CAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACTA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCA
*
48929816 GTATGGGGAGACAAGGTCTGTTGA
66 GTATGGGGAGACAAGATCTGTT-A
*
48929840 CTTTGATCTACTTCACGCC-GATACATGAAGGCAAGATCTGCTTTCTTTGATCTACTCCACCACC
1 CTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACC
48929904 AGTATGGGGAGACAAGATCTGTTGA
65 AGTATGGGGAGACAAGATCTGTT-A
* * * * * *
48929929 CTTTGATCTACTTCACG-CTGATACATGAAGACAATATCTACTTTCTTTCGATCTGCTTCGCCAC
1 CTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTCTTT-GATCTACTCCACCAC
* * *
48929993 CAGTATGGGAAGGCGAGATCTGTATA
64 CAGTATGGGGAGACAAGATCTGT-TA
* * * * * *
48930019 -TTCGATCTACTTCACGCTAGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCGCCAC
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT-TT-CTTTGATCTACTCCACCAC
* * *
48930082 CAGTATGGGAAGGCGAGATCTGTTA
64 CAGTATGGGGAGACAAGATCTGTTA
48930107 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT
1 -CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT
48930152 TTCCTTCGAT
Statistics
Matches: 359, Mismatches: 29, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
87 62 0.17
88 38 0.11
89 181 0.50
90 76 0.21
91 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (88 bp):
CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCA
GTATGGGGAGACAAGATCTGTTA
Found at i:48929982 original size:45 final size:43
Alignment explanation
Indices: 48929663--48930151 Score: 195
Period size: 45 Copynumber: 11.0 Consensus size: 43
48929653 GGACCTACTA
* *
48929663 TCTTTGATCTACTTCACGCC-AGTACATGAAGACACGATCTGTTT
1 TCTTTGATCTACTTCACGCCGA-TACATGAAGACAAGATCT-CTT
* * * * *** * *
48929707 TCTTCGACCTACTCCAC-CACCAGTATGGGGAGACAAGATCTGTT
1 TCTTTGATCTACTTCACGC-CGA-TACATGAAGACAAGATCTCTT
*
48929751 TCTTTGATCTACTTCACG-CAATACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCGATACATGAAGACAAGATCT-CTT
* * *** * * *
48929794 TCTTTGATCTACTCCAC-CACTAGTATGGGGAGACAAGGTCTGTT
1 TCTTTGATCTACTTCACGC-CGA-TACATGAAGACAAGATCTCTT
* *
48929838 GACTTTGATCTACTTCACGCCGATACATGAAGGCAAGATCTGCTT
1 -TCTTTGATCTACTTCACGCCGATACATGAAGACAAGATCT-CTT
* * *** * *
48929883 TCTTTGATCTACTCCAC-CACCAGTATGGGGAGACAAGATCTGTT
1 TCTTTGATCTACTTCACGC-CGA-TACATGAAGACAAGATCTCTT
* * *
48929927 GACTTTGATCTACTTCACGCTGATACATGAAGACAATATCTACTT
1 -TCTTTGATCTACTTCACGCCGATACATGAAGACAAGATCT-CTT
* * * *** * * * *
48929972 TCTTTCGATCTGCTTCGC-CACCAGTATGGGAAGGCGAGATCTGTA
1 TCTTT-GATCTACTTCACGC-CGA-TACATGAAGACAAGATCTCTT
* * * *
48930017 TATTCGATCTACTTCACG-CTAGTACATGAAGACAAGATCTGTAT
1 TCTTTGATCTACTTCACGCCGA-TACATGAAGACAAGATCTCT-T
* * * * *** * * *
48930061 TCCTTCGATCTGCTTCGC-CACCAGTATGGGAAGGCGAGATCTGTT
1 T-CTTTGATCTACTTCACGC-CGA-TACATGAAGACAAGATCTCTT
48930106 ATCTTTGATCTACTTCACGCC-AGTACATGAAGACAAGATCTGCTT
1 -TCTTTGATCTACTTCACGCCGA-TACATGAAGACAAGATCT-CTT
48930151 T
1 T
48930152 TTCCTTCGAT
Statistics
Matches: 322, Mismatches: 97, Indels: 52
0.68 0.21 0.11
Matches are distributed among these distances:
42 14 0.04
43 40 0.12
44 111 0.34
45 123 0.38
46 34 0.11
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
TCTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTCTT
Found at i:48930135 original size:179 final size:175
Alignment explanation
Indices: 48929668--48930212 Score: 693
Period size: 179 Copynumber: 3.1 Consensus size: 175
48929658 TACTATCTTT
* *
48929668 GATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACCAGTAT
1 GATCTACTTCACG-CAGTACATGAAGACAAGATCTG-TTTCTTCGATCTACTCCACCACCAGTAT
*
48929733 GGGGAGACAAGATCTGTT-TCTTTGATCTACTTCACGCAATACATGAAGACAAGATCTGCTTTCT
64 GGGGAGACAAGATCTGTTATCTTTGATCTACTTCACGCAGTACATGAAGACAAGATCTGCTTTCT
* * * * * * * * *
48929797 TT-GATCTACTCCACCACTAGTATGGGGAGACAAGGTCTGT-TGACTTT
129 TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTAT-A-TTC
* * *
48929844 GATCTACTTCACGCCGATACATGAAGGCAAGATCTGCTTTCTTTGATCTACTCCACCACCAGTAT
1 GATCTACTTCACGCAG-TACATGAAGACAAGATCTG-TTTCTTCGATCTACTCCACCACCAGTAT
* * *
48929909 GGGGAGACAAGATCTGTTGA-CTTTGATCTACTTCACGCTGATACATGAAGACAATATCTACTTT
64 GGGGAGACAAGATCTGTT-ATCTTTGATCTACTTCACGCAG-TACATGAAGACAAGATCTGCTTT
48929973 CTTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
127 CTTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
* * *
48930022 GATCTACTTCACGCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCACCAGTA
1 GATCTACTTCACGC-AGTACATGAAGACAAGATCTGT-TT-CTTCGATCTACTCCACCACCAGTA
* * *
48930087 TGGGAAGGCGAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT
63 TGGGGAGACAAGATCTGTTATCTTTGATCTACTTCACG-CAGTACATGAAGACAAGATCTGC--T
* *
48930152 TTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAAATCTGTATATTC
125 TTCTTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
*
48930203 GATCCACTTC
1 GATCTACTTC
48930213 GCTACCAATA
Statistics
Matches: 322, Mismatches: 34, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
175 2 0.01
176 74 0.23
177 19 0.06
178 62 0.19
179 103 0.32
180 3 0.01
181 59 0.18
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (175 bp):
GATCTACTTCACGCAGTACATGAAGACAAGATCTGTTTCTTCGATCTACTCCACCACCAGTATGG
GGAGACAAGATCTGTTATCTTTGATCTACTTCACGCAGTACATGAAGACAAGATCTGCTTTCTTT
CGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
Found at i:48930241 original size:92 final size:91
Alignment explanation
Indices: 48929668--48930212 Score: 532
Period size: 89 Copynumber: 6.1 Consensus size: 91
48929658 TACTATCTTT
* * * * *
48929668 GATCTACTTCACGCCAGTACATGAAGACACGATCTG--TTTT-CTTCGACCTACTCCACCACCAG
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
* * * * * *
48929730 TATGGGGAGACAAGATCTGTTTCTTT
66 TATGGGAAGGCGAGATCTGTATATTC
* * * * * *
48929756 GATCTACTTCACG-CAATACATGAAGACAAGATCTGC--TTT-CTTTGATCTACTCCACCACTAG
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
* * * * *
48929817 TATGGGGAGACAAGGTCTGT-TGACTTT
66 TATGGGAAGGCGAGATCTGTAT-A-TTC
* * * * *
48929844 GATCTACTTCACGCC-GATACATGAAGGCAAGATCTGC--TTT-CTTTGATCTACTCCACCACCA
1 GATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCA
* * * *
48929905 GTATGGGGAGACAAGATCTGT-TGACTTT
65 GTATGGGAAGGCGAGATCTGTAT-A-TTC
* * * *
48929933 GATCTACTTCACG-CTGATACATGAAGACAATATCTAC--TTTCTTTCGATCTGCTTCGCCACCA
1 GATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCA
48929995 GTATGGGAAGGCGAGATCTGTATATTC
65 GTATGGGAAGGCGAGATCTGTATATTC
* *
48930022 GATCTACTTCACGCTAGTACATGAAGACAAGATCTG--TATTCCTTCGATCTGCTTCGCCACCAG
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
* *
48930085 TATGGGAAGGCGAGATCTGTTATCTTT
66 TATGGGAAGGCGAGATCTG-TATATTC
48930112 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
*
48930177 TATGGGAAGGCGAAATCTGTATATTC
66 TATGGGAAGGCGAGATCTGTATATTC
*
48930203 GATCCACTTC
1 GATCTACTTC
48930213 GCTACCAATA
Statistics
Matches: 407, Mismatches: 37, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
86 1 0.00
87 61 0.15
88 30 0.07
89 180 0.44
90 76 0.19
91 15 0.04
92 44 0.11
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (91 bp):
GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
TATGGGAAGGCGAGATCTGTATATTC
Found at i:48931583 original size:46 final size:46
Alignment explanation
Indices: 48931531--48931620 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
48931521 AGCCTCTCCA
* * * *
48931531 TTTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTC
1 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTC
*
48931577 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
48931621 CCACCTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.12, C:0.26, G:0.18, T:0.44
Consensus pattern (46 bp):
TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTC
Found at i:48931630 original size:46 final size:46
Alignment explanation
Indices: 48931534--48931630 Score: 113
Period size: 46 Copynumber: 2.1 Consensus size: 46
48931524 CTCTCCATTT
* * * * * ***
48931534 TTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTTT
1 TTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
*
48931580 TTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACC
1 TTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
48931626 TTTTT
1 TTTTT
48931631 TAAGCAGAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.12, C:0.28, G:0.16, T:0.43
Consensus pattern (46 bp):
TTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
Found at i:48945549 original size:10 final size:10
Alignment explanation
Indices: 48945529--48945559 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
48945519 ATACTGTGGC
48945529 ATATGCCAACT
1 ATAT-CCAACT
48945540 ATATCCAACT
1 ATATCCAACT
48945550 ATATCCAACT
1 ATATCCAACT
48945560 TTACCCGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (10 bp):
ATATCCAACT
Found at i:48947251 original size:23 final size:23
Alignment explanation
Indices: 48947207--48947253 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
48947197 ATAGTATATC
* *
48947207 AATATTAATAATTAAATACCTAA
1 AATAATAATAATCAAATACCTAA
* *
48947230 AATAATAATAATCAATTTCCTAA
1 AATAATAATAATCAAATACCTAA
48947253 A
1 A
48947254 GATATTTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (23 bp):
AATAATAATAATCAAATACCTAA
Found at i:48951894 original size:50 final size:50
Alignment explanation
Indices: 48951840--48952295 Score: 274
Period size: 50 Copynumber: 9.1 Consensus size: 50
48951830 TATAATGTCG
* * *
48951840 GGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGTTCCACTGCACCGCCA
1 GGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCAACTGCACCGCCA
* * * * * ** * *
48951890 GGGAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCAACTGCACCGCCA
* * *
48951940 GGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCT
1 GGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCAACTGCACCGCCA
* ** * * * ** *
48951990 GGGAAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
1 GGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCAACTGCACCGCCA
* * * * *
48952040 GGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGCTCTACTGCACTGGCT
1 GGGAAGCAAGATTCACC-ATTGTGGCTTTAATCTGTTCAACTGCACCGCCA
* ** ** * * * ** *
48952090 GAGAGAGTGAGATTCGTCGTTGTGACTTTAATCCT-TTTAACTGCAATGTC-
1 GGGA-AGCAAGATTCACCATTGTGGCTTTAAT-CTGTTCAACTGCACCGCCA
* * * **
48952140 GGGAAAGCAAGATTCACCGTTGTGGCATTAATCTACTTC-ACTGCATTGCCA
1 GGG-AAGCAAGATTCACCATTGTGGCTTTAATCT-GTTCAACTGCACCGCCA
* * * * * * * * * ** * *
48952191 GGGAAGTAACACTCGCTACTGTGGCTTTAGTCTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCAACTGCACCGCCA
* * *
48952241 GGGAAGCAAGATTCACTGA-TGTGGCTTTAATCTGTTCCACTGCACTGCCA
1 GGGAAGCAAGATTCAC-CATTGTGGCTTTAATCTGTTCAACTGCACCGCCA
48952291 GGGAA
1 GGGAA
48952296 AATAAGATCT
Statistics
Matches: 304, Mismatches: 92, Indels: 20
0.73 0.22 0.05
Matches are distributed among these distances:
49 4 0.01
50 261 0.86
51 37 0.12
52 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (50 bp):
GGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCAACTGCACCGCCA
Found at i:48951948 original size:100 final size:99
Alignment explanation
Indices: 48951815--48952295 Score: 586
Period size: 100 Copynumber: 4.8 Consensus size: 99
48951805 AACTTGTAAT
** ** * *
48951815 TTTAATCTACTTAACTATAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCA-TGTGGCTTTAATCTGTTCCAC
*
48951880 TGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGC
65 TGCACTGCCAGGGAAGTAAGATTCGCCGTTGTGGC
48951915 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACC-ATGTGGCTTTAATCTGTTCCAC
* * * * *
48951980 TGCACCGCCTGGGAAGTAAGATTCACTGTTGTAGC
65 TGCACTGCCAGGGAAGTAAGATTCGCCGTTGTGGC
* * *
48952015 TTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCTAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACC-ATGTGGCTTTAATCTGTTCCAC
* * * * * *
48952080 TGCACTGGCTGAGAGAGTGAGATTCGTCGTTGTGAC
65 TGCACTGCCAGGGA-AGTAAGATTCGCCGTTGTGGC
* * * * *
48952116 TTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCATTAATCTACTT-CA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACC-ATGTGGCTTTAATCT-GTTCCA
* * * ***
48952180 CTGCATTGCCAGGGAAGTAACACTCGCTACTGTGGC
64 CTGCACTGCCAGGGAAGTAAGATTCGCCGTTGTGGC
* *
48952216 TTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCAC-CATGTGGCTTTAATCTGTTCCAC
48952281 TGCACTGCCAGGGAA
65 TGCACTGCCAGGGAA
48952296 AATAAGATCT
Statistics
Matches: 325, Mismatches: 51, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
99 2 0.01
100 241 0.74
101 81 0.25
102 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (99 bp):
TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCATGTGGCTTTAATCTGTTCCACT
GCACTGCCAGGGAAGTAAGATTCGCCGTTGTGGC
Found at i:48952173 original size:201 final size:200
Alignment explanation
Indices: 48951815--48952291 Score: 616
Period size: 201 Copynumber: 2.4 Consensus size: 200
48951805 AACTTGTAAT
** ** * *
48951815 TTTAATCTACTTAACTATAATGTCGGGGAAGCAAGATTCGCC-ATTGTAGCTTTAATCTGTTCCA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCA
* * * * *
48951879 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGA
65 CTGCACTGCCAGAGAAGTAAGATTCGCCGTTGTGACTTTAATCCTTTTAACTGCAATGTCGGGAA
* * * * * *
48951944 AGCAAGATTCACCAATGTGGCTTTAATCT-GTTCCACTGCACCGCCTGGGAAGTAAGATTCACTG
130 AGCAAGATTCACCAATGTGGCATTAATCTACTT-CACTGCACCGCCAGGGAAGTAACACTCACTA
*
48952008 TTGTAGC
194 CTGTAGC
* * *
48952015 TTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCTAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
* * * *
48952080 TGCACTGGCTGAGAGAGTGAGATTCGTCGTTGTGACTTTAATCCTTTTAACTGCAATGTCGGGAA
66 TGCACTGCCAGAGA-AGTAAGATTCGCCGTTGTGACTTTAATCCTTTTAACTGCAATGTCGGGAA
** ** *
48952145 AGCAAGATTCACCGTTGTGGCATTAATCTACTTCACTGCATTGCCAGGGAAGTAACACTCGCTAC
130 AGCAAGATTCACCAATGTGGCATTAATCTACTTCACTGCACCGCCAGGGAAGTAACACTCACTAC
*
48952210 TGTGGC
195 TGTAGC
* *
48952216 TTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
48952281 TGCACTGCCAG
66 TGCACTGCCAG
48952292 GGAAAATAAG
Statistics
Matches: 236, Mismatches: 38, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
200 64 0.27
201 170 0.72
202 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (200 bp):
TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
TGCACTGCCAGAGAAGTAAGATTCGCCGTTGTGACTTTAATCCTTTTAACTGCAATGTCGGGAAA
GCAAGATTCACCAATGTGGCATTAATCTACTTCACTGCACCGCCAGGGAAGTAACACTCACTACT
GTAGC
Found at i:48952531 original size:46 final size:46
Alignment explanation
Indices: 48952297--48952707 Score: 367
Period size: 46 Copynumber: 9.1 Consensus size: 46
48952287 GCCAGGGAAA
**
48952297 ATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* *
48952343 ATAAAATCTAAAATTCTTCGGTCTATTCCATTGTAATCTCAGGGAG
1 ATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
*
48952389 ATAAGATCTAAAATTCTTCGGTCTATTCCACTATAATCTCAGGGAG
1 ATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* *
48952435 ATAAAATCTAAAATTTTTCGGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* ** * *
48952481 ATAAGATCTGAAATTCTTCACTCTATTCCACTGTAATTTTAGGGAG
1 ATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* * * * * * *
48952527 ATAAGACCT--GA---TGCGATCTACTCTACTGTAA-CTTCAGAGAG
1 ATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATC-TCAGGGAG
** ** ***
48952568 ATAAGATC-ATTTATT-TT-AATCCGCTCCACTGTAATCTCAGGGAG
1 ATAAGATCTA-AAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* ** * ** ** *
48952612 ATAGGAT-TACTA-GCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
1 ATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* * * **
48952656 ATAAGATTTGAAATTTTTCGGTCTATTCCACTGTAATCTCAAAGAG
1 ATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
48952702 ATAAGA
1 ATAAGA
48952708 CCTGATGCAA
Statistics
Matches: 300, Mismatches: 53, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
41 28 0.09
43 5 0.02
44 59 0.20
45 4 0.01
46 204 0.68
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (46 bp):
ATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
Found at i:48952612 original size:85 final size:84
Alignment explanation
Indices: 48952507--48952789 Score: 286
Period size: 85 Copynumber: 3.3 Consensus size: 84
48952497 TTCACTCTAT
* * *
48952507 TCCACTGTAATTTTAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAA
48952572 GATCATTTATTTTAATCCGC
66 GATC-TTTATTTTAATCCGC
* * * * * ** *
48952592 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA-TCTCAGGGAG
1 TCCACTGTAATCTCAGGGAGATAAGA--CCT-GATGCAATCTACTCTACTGTAACT-TCAGAGAG
* *
48952656 ATAAGAT-TTGAAATTTT--TCGGTC
62 ATAAGATCTT--TATTTTAATCCG-C
**
48952679 TATTCCACTGTAATCTCAAAGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGA
1 ---TCCACTGTAATCTCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGA
*
48952744 TAAAATCCTTTATTTTAATCCGC
63 TAAGAT-CTTTATTTTAATCCGC
48952767 TCCACTGTAATCTCAGGGAGATA
1 TCCACTGTAATCTCAGGGAGATA
48952790 GGATTACTAG
Statistics
Matches: 155, Mismatches: 28, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
85 44 0.28
86 5 0.03
87 39 0.25
88 39 0.25
89 5 0.03
90 23 0.15
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (84 bp):
TCCACTGTAATCTCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAA
GATCTTTATTTTAATCCGC
Found at i:48952613 original size:44 final size:44
Alignment explanation
Indices: 48952461--48952838 Score: 177
Period size: 44 Copynumber: 8.6 Consensus size: 44
48952451 TTCGGTCTAT
* * * **
48952461 TCCACTGTAATCTCAGGGAGATAAGATCTGAAATT-CTTCACTCTAT
1 TCCACTGTAATCTCAGGGAGATAAGATC---ATTTATTTCAATCTGC
* * * * * * *
48952507 TCCACTGTAATTTTAGGGAGATAAGA-C-CTGA-TGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCATTTATTTCAATCTGC
* * * *
48952548 TCTACTGTAA-CTTCAGAGAGATAAGATCATTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCATTTATTTCAATCTGC
* * * *
48952592 TCCACTGTAATCTCAGGGAGATAGGATTA-CTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCATTTA-TTTCAATCTGC
* * * ** **
48952636 TCCGCTGTAATCTCAGGGAGATAAGATTTGAAATT-TTTCGGTCTAT
1 TCCACTGTAATCTCAGGGAGATAAGA--T-CATTTATTTCAATCTGC
** * * * *
48952682 TCCACTGTAATCTCAAAGAGATAAGA-C-CTGA-TGCAATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCATTTATTTCAATCTGC
* * * * * *
48952723 TCTACTGTAA-CTTCAGAGAGATAAAATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCATTTATTTCAATCTGC
* * * * *
48952767 TCCACTGTAATCTCAGGGAGATAGGATTA-CTAGCTTCAATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCATTTA-TTTCAATCTGC
*
48952811 TCCGCTGTAATCTCAGGGAGATAAGATC
1 TCCACTGTAATCTCAGGGAGATAAGATC
48952839 TGGAACTCTT
Statistics
Matches: 245, Mismatches: 69, Indels: 38
0.70 0.20 0.11
Matches are distributed among these distances:
40 1 0.00
41 56 0.23
42 2 0.01
43 8 0.03
44 119 0.49
45 3 0.01
46 54 0.22
47 1 0.00
48 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATCATTTATTTCAATCTGC
Found at i:48952683 original size:175 final size:175
Alignment explanation
Indices: 48952456--48952852 Score: 650
Period size: 175 Copynumber: 2.3 Consensus size: 175
48952446 AATTTTTCGG
* * * *
48952456 TCTATTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCACTCTATTCCACTGTAATTTT
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCACTCTATTCCACTGTAATCTC
** * *
48952521 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTA
66 AAAGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAAATCATTTATTTTA
48952586 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
131 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
* * * **
48952631 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAATTTTTCGGTCTATTCCACTGTAATCTC
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCACTCTATTCCACTGTAATCTC
*
48952696 AAAGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAAATCCTTTATTTTA
66 AAAGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAAATCATTTATTTTA
48952761 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
131 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
* *
48952806 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGGAACTCTTCACT
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCACT
48952853 TATCTATTCT
Statistics
Matches: 201, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
175 201 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (175 bp):
TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCACTCTATTCCACTGTAATCTC
AAAGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAAATCATTTATTTTA
ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
Found at i:48956840 original size:100 final size:100
Alignment explanation
Indices: 48956661--48957231 Score: 725
Period size: 100 Copynumber: 5.7 Consensus size: 100
48956651 AACTCGCAAT
** ** *
48956661 TTTAATCTGCTTAACTGTGATGTCGGGGAAGCAAGATTCACC-ATTGTAGCTTTAATCTGTTCCA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCA
* *
48956725 CTGCACTGCCAGGGAAGTAAGATTTGCCGTTGTGGC
65 CTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
48956761 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
** ** * *
48956826 TGCACCACCTGGGAAGCGAGATTCGCTGTTGTAGC
66 TGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
* * * *
48956861 TTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCTATGTGGATTTAATCTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
* * *
48956926 TGCACTGCCTGAGAAGTAAGATTCGCTGTTGTAGC
66 TGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
* * * * * *
48956961 TTTAATCTTTTTAACTCCAATATCGGGGAAGCAATATTCACCGTTGTGGCTTTAATCTGCTCTAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
* * * * * *
48957026 TGAACTGGCTGAGAGAGTGAGATTCGTCGTTGTGAC
66 TGCACTGCCTGGGA-AGTAAGATTCGCCGTTGTGGC
* *
48957062 TTTAATCCTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTT-CA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTG-TTCCA
* ** * * *
48957125 CTGCATTGCCAAGGAAGTAACACTCGCCGCTGTGGC
65 CTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
*
48957161 TTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
48957226 TGCACT
66 TGCACT
48957232 ACAGGGAAAA
Statistics
Matches: 405, Mismatches: 61, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
99 39 0.10
100 327 0.81
101 39 0.10
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (100 bp):
TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
TGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
Found at i:48957228 original size:50 final size:50
Alignment explanation
Indices: 48956661--48957229 Score: 430
Period size: 50 Copynumber: 11.4 Consensus size: 50
48956651 AACTCGCAAT
** * *
48956661 TTTAATCTGCTT-AACTGTGATGTCGGGGAAGCAAGATTCACCATTGTAGC
1 TTTAATCTG-TTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * * * * **
48956711 TTTAATCTGTTCCACTGCACTGCCAGGGAAGTAAGATTTGCCGTTGTGGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * *
48956761 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* **** * * * * *
48956811 TTTAATCTGTTCCACTGCACCACCTGGGAAGCGAGATTCGCTGTTGTAGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * * *
48956861 TTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACC-TATGTGGA
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGT-TGTGGC
* * * * * * * * * *
48956911 TTTAATCTATTCCACTGCACTGCCTGAGAAGTAAGATTCGCTGTTGTAGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * * * *
48956961 TTTAATCTTTTTAACTCCAATATCGGGGAAGCAATATTCACCGTTGTGGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * * * * ** ** *
48957011 TTTAATCTGCTCTACTG-AACTGGCTGAGAGAGTGAGATTCGTCGTTGTGAC
1 TTTAATCTGTTCAACTGCAA-TGTCGGGGA-AGCAAGATTCACCGTTGTGGC
*
48957062 TTTAATCCT-TTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGGC
1 TTTAAT-CTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * ** * * * * *
48957111 TTTAATCTGCTTC-ACTGCATTGCCAAGGAAGTAACACTCGCCGCTGTGGC
1 TTTAATCTG-TTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * * *
48957161 TTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
*
48957211 TTTAATCTGTTCCACTGCA
1 TTTAATCTGTTCAACTGCA
48957230 CTACAGGGAA
Statistics
Matches: 385, Mismatches: 123, Indels: 22
0.73 0.23 0.04
Matches are distributed among these distances:
48 2 0.01
49 38 0.10
50 311 0.81
51 30 0.08
52 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (50 bp):
TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
Found at i:48957554 original size:44 final size:45
Alignment explanation
Indices: 48957262--48957953 Score: 310
Period size: 44 Copynumber: 15.7 Consensus size: 45
48957252 AATTCTTCGG
* * ** **
48957262 TCTATTCCACTGTAATCTCAGGGAGATAAAAT-CTAAAATTCTTCGG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTATTA-T-TTCAA
* **
48957308 TCT--TCCACTGTAATCTCAGGGAGATAAGAT-CTGAAATT-CTTCGG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCT---ATTATTTCAA
* * * **
48957352 TCTATTCCACTGTAATCTCAGGGAGATAAAAT-TTGAAATT-TTTCGG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCT---ATTATTTCAA
* * *
48957398 TCTATTCCACTGTAATCTCAGGGAGATAAGAT-CTGAAATT-CTTCAG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCT---ATTATTTCAA
* * * * * *
48957444 TCTATTCCACTGTAATTTCAGGGAGATCAGA-CC--TGA-TGCGA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTATTATTTCAA
* * *
48957485 TCTACT-TACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAA
1 TCTACTCCACTGTAATC-TCAGGGAGATAAGATCCTATTATTTCAA
** * * *
48957528 TCCGCTCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTATTA-TTTCAA
* * * *
48957572 TCTTCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATT-CTTCAG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCT---ATTATTTCAA
* * * * * *
48957618 TCTATTCCACTGTAATTTCAGGGAGATCAGA-CC--TGA-TGCGA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTATTATTTCAA
* * *
48957659 TCTACT-TACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAA
1 TCTACTCCACTGTAATC-TCAGGGAGATAAGATCCTATTATTTCAA
** * * *
48957702 TCCGCTCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTATTA-TTTCAA
* * **
48957746 TCTTCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATT-TTTCGG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCT---ATTATTTCAA
* * * *
48957792 TCTATTCCACTGTAATCTCAAGGAGATAAGA-CC--TGA-TGCAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTATTATTTCAA
* * *
48957833 TCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAA
1 TCTACTCCACTGTAATC-TCAGGGAGATAAGATCCTATTATTTCAA
** * * *
48957877 TCCGCTCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTATTA-TTTCAA
*
48957921 TCTACTCCGCTGTAATCTCAGGGAGATAAGATC
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATC
48957954 TGGAACTCTT
Statistics
Matches: 502, Mismatches: 101, Indels: 87
0.73 0.15 0.13
Matches are distributed among these distances:
40 39 0.08
41 48 0.10
42 9 0.02
43 20 0.04
44 200 0.40
45 5 0.01
46 176 0.35
47 1 0.00
48 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (45 bp):
TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTATTATTTCAA
Found at i:48957615 original size:174 final size:174
Alignment explanation
Indices: 48957407--48957965 Score: 1028
Period size: 174 Copynumber: 3.2 Consensus size: 174
48957397 GTCTATTCCA
48957407 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATTTCAGGGAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATTTCAGGGAGATC
48957472 AGACCTGATGCGATCTACTTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
66 AGACCTGATGCGATCTACTTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
48957537 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTTCTCCG
131 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTTCTCCG
48957581 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATTTCAGGGAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATTTCAGGGAGATC
48957646 AGACCTGATGCGATCTACTTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
66 AGACCTGATGCGATCTACTTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
48957711 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTTCTCCG
131 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTTCTCCG
* * * * *
48957755 CTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTATTCCACTGTAATCTCAAGGAGATA
1 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATTTCAGGGAGATC
*
48957820 AGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
66 AGACCTGATGCGATCTACT-TACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
*
48957885 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCG
130 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTTCTCCG
* *
48957930 CTGTAATCTCAGGGAGATAAGATCTGGAACTCTTCA
1 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCA
48957966 CTGATCTATT
Statistics
Matches: 373, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
174 252 0.68
175 121 0.32
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (174 bp):
CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATTTCAGGGAGATC
AGACCTGATGCGATCTACTTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTTCTCCG
Found at i:48957639 original size:46 final size:46
Alignment explanation
Indices: 48957241--48957827 Score: 428
Period size: 46 Copynumber: 13.2 Consensus size: 46
48957231 TACAGGGAAA
* *
48957241 ATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAG
* * *
48957287 ATAAAATCTAAAATTCTTCGGTC--TTCCACTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAG
*
48957331 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAG
* * * *
48957377 ATAAAATTTGAAATTTTTCGGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAG
*
48957423 ATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATTTCAGGGAG
1 ATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAG
* * * * *
48957469 ATCAGACCTG--ATGC--GA-TCTACTT--ACTGTAA-CTTCAGAGAG
1 ATAAGATCTGAAATTCTTCAGTCTA-TTCCACTGTAATC-TCAGGGAG
** * ***
48957509 ATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAATCTCAGGGAG
1 ATAAGAT-CTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAG
* * * * *
48957553 ATAGGAT-T--ACTAGCTTCAATCT-TCTCCGCTGTAATCTCAGGGAG
1 ATAAGATCTGAAAT-TCTTCAGTCTAT-TCCACTGTAATCTCAGGGAG
*
48957597 ATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATTTCAGGGAG
1 ATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAG
* * * * *
48957643 ATCAGACCTG--ATGC--GA-TCTACTT--ACTGTAA-CTTCAGAGAG
1 ATAAGATCTGAAATTCTTCAGTCTA-TTCCACTGTAATC-TCAGGGAG
** * ***
48957683 ATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAATCTCAGGGAG
1 ATAAGAT-CTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAG
* * * * *
48957727 ATAGGAT-T--ACTAGCTTCAATCT-TCTCCGCTGTAATCTCAGGGAG
1 ATAAGATCTGAAAT-TCTTCAGTCTAT-TCCACTGTAATCTCAGGGAG
* * *
48957771 ATAAGATCTGAAATTTTTCGGTCTATTCCACTGTAATCTCAAGGAG
1 ATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAG
*
48957817 ATAAGACCTGA
1 ATAAGATCTGA
48957828 TGCAATCTAC
Statistics
Matches: 433, Mismatches: 68, Indels: 80
0.75 0.12 0.14
Matches are distributed among these distances:
40 38 0.09
41 14 0.03
42 16 0.04
43 8 0.02
44 146 0.34
45 4 0.01
46 201 0.46
47 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (46 bp):
ATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAG
Found at i:48957807 original size:220 final size:218
Alignment explanation
Indices: 48957311--48957827 Score: 514
Period size: 220 Copynumber: 2.4 Consensus size: 218
48957301 TCTTCGGTCT
48957311 TCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGA
1 TCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGA
* * * * * *
48957376 GATAAAATTTGAAATTTTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTT
66 GATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTG-AATGC-T
* * * * * *
48957441 CAGTCTATTCCACTGTAATTTCAGGGAGATCAGACCTGATGCGATCTACTTACTGTAACTTCAGA
129 CAGTCTATT-CACTGTAACTTCAGAGAGATAAGACCTGATGCAATCCACTCACTGTAACTTCAGA
* * *
48957506 GAGATAAGATCCTTTATTTTAATCCGC
193 GAGATAAGAT-CTCTACTTCAATCCGC
* * * ** *
48957533 TCCACTGTAATCTCAGGGAGATAGGAT-T--ACTAGCTTCAATCT-TCTCCGCTGTAATCTCAGG
1 TCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTAT-TCCACTGTAATCTCAGG
* *
48957594 GAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATTTCAGGGAGATCAGACCTG-ATGC-
64 GAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAATGCT
* * ** *
48957657 GA-TCTACTT-ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-TC
129 CAGTCTA-TTCACTGTAACTTCAGAGAGATAAGA-CC-TGA-TGCAATCCACT-CACTGTAACT-
* * **
48957719 TCAGGGAGATAGGAT-TACTAGCTTCAATCTTC
188 TCAGAGAGATAAGATCT-CTA-CTTCAATCCGC
* * *
48957751 TCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTATTCCACTGTAATCTCAAGGA
1 TCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGA
*
48957816 GATAAGACCTGA
66 GATAAGATCTGA
48957828 TGCAATCTAC
Statistics
Matches: 239, Mismatches: 42, Indels: 30
0.77 0.14 0.10
Matches are distributed among these distances:
214 20 0.08
215 6 0.03
216 6 0.03
217 9 0.04
218 55 0.23
219 4 0.02
220 109 0.46
221 4 0.02
222 26 0.11
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (218 bp):
TCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGA
GATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAATGCTCA
GTCTATTCACTGTAACTTCAGAGAGATAAGACCTGATGCAATCCACTCACTGTAACTTCAGAGAG
ATAAGATCTCTACTTCAATCCGC
Found at i:48959230 original size:21 final size:22
Alignment explanation
Indices: 48959188--48959230 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
48959178 TTAGCCTCTC
*
48959188 CATTTTTACGTTTTCATTTTTT
1 CATTTTTACATTTTCATTTTTT
48959210 CATTTTT-CATTTTCATTTTTT
1 CATTTTTACATTTTCATTTTTT
48959231 TGACTCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (22 bp):
CATTTTTACATTTTCATTTTTT
Found at i:48960103 original size:21 final size:21
Alignment explanation
Indices: 48960062--48960105 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
48960052 CCTTGGCCTC
* *
48960062 TCCTTTTCTTTTTCCTTTTTT
1 TCCTTTTCTTCTTCCTCTTTT
48960083 TCCTTTT-TTCTTCTCTCTTTT
1 TCCTTTTCTTCTTC-CTCTTTT
48960104 TC
1 TC
48960106 ATTTCCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TCCTTTTCTTCTTCCTCTTTT
Found at i:48964931 original size:21 final size:21
Alignment explanation
Indices: 48964878--48964946 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
48964868 TGTATAATAA
* * *
48964878 AATAAAATAATAATATCTAAA
1 AATAAAATAAAAATATCTTAT
*
48964899 AACATAAA-AAAAATATCTTAT
1 AATA-AAATAAAAATATCTTAT
**
48964920 AATAAAATAAAAGGATCTATAT
1 AATAAAATAAAAATATCT-TAT
48964942 AATAA
1 AATAA
48964947 GATTAGGAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 3 0.08
21 24 0.63
22 11 0.29
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (21 bp):
AATAAAATAAAAATATCTTAT
Found at i:48971468 original size:44 final size:44
Alignment explanation
Indices: 48971402--48971725 Score: 267
Period size: 44 Copynumber: 7.4 Consensus size: 44
48971392 TTCCTATACC
** * *
48971402 CCTAAAGTTTTAGTGG-GTTAGATTGAAGCTACAAATCTTATCTT
1 CCTAAAGTTGCAGTGGAG-TAGATTGAAACAACAAATCTTATCTT
* *
48971446 CCTAAAGTTGTAGTGGAATAGATTGAAACAACAAATCTTATCTT
1 CCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCTT
** * * * * * *
48971490 TTTGAAGTTGCAGTAGAGTAGATTGAGACAAAAAATCTTATATC
1 CCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCTT
* * * * * * *
48971534 CCTAAAATTGTAGTAGAGCAGACTGAAACAATAAATCTTAT-AT
1 CCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCTT
* * * * *
48971577 CTCTAAAATTGCAGTGGAGCAGACTGAAACAACGAATCTTAACTT
1 C-CTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCTT
* * *
48971622 CCTGAAGTTGCAGTGGAGTAGATTGAAACAACGAATCTTCTCTT
1 CCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCTT
* * * * * * * *
48971666 CCTGAAGTTGCAGTGGAGCAAATTGAAGCGATAAATCCTATACCT
1 CCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTAT-CTT
48971711 -CTAAAGTTGCAGTGG
1 CCTAAAGTTGCAGTGG
48971726 GTTAGAATGA
Statistics
Matches: 229, Mismatches: 47, Indels: 8
0.81 0.17 0.03
Matches are distributed among these distances:
43 1 0.00
44 224 0.98
45 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (44 bp):
CCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCTT
Found at i:48971641 original size:132 final size:132
Alignment explanation
Indices: 48971434--48971725 Score: 325
Period size: 132 Copynumber: 2.2 Consensus size: 132
48971424 TTGAAGCTAC
* * * * * **
48971434 AAATCTTATCT-TCCTAAAGTTGTAGTGGAATAGATTGAAACAACAAATCTTATCTTTTTGAAGT
1 AAATCTTATATCT-CTAAAGTTGCAGTGGAACAGACTGAAACAACAAATCTTAACTTCCTGAAGT
* * *
48971498 TGCAGTAGAGTAGATTGAGACAAAAAATCTTATATCCCTAAAATTGTAGTAGAGCAGACTGAAAC
65 TGCAGTAGAGTAGATTGAAACAAAAAATCTTATATCCCTAAAATTGCAGTAGAGCAAACTGAAAC
48971563 AAT
130 AAT
* * *
48971566 AAATCTTATATCTCTAAAATTGCAGTGGAGCAGACTGAAACAACGAATCTTAACTTCCTGAAGTT
1 AAATCTTATATCTCTAAAGTTGCAGTGGAACAGACTGAAACAACAAATCTTAACTTCCTGAAGTT
* ** * * * * * * * * *
48971631 GCAGTGGAGTAGATTGAAACAACGAATCTTCTCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCG
66 GCAGTAGAGTAGATTGAAACAAAAAATCTTATATCCCTAAAATTGCAGTAGAGCAAACTGAAACA
48971696 AT
131 AT
* *
48971698 AAATCCTATACCTCTAAAGTTGCAGTGG
1 AAATCTTATATCTCTAAAGTTGCAGTGG
48971726 GTTAGAATGA
Statistics
Matches: 131, Mismatches: 28, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
132 130 0.99
133 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (132 bp):
AAATCTTATATCTCTAAAGTTGCAGTGGAACAGACTGAAACAACAAATCTTAACTTCCTGAAGTT
GCAGTAGAGTAGATTGAAACAAAAAATCTTATATCCCTAAAATTGCAGTAGAGCAAACTGAAACA
AT
Found at i:48972709 original size:29 final size:29
Alignment explanation
Indices: 48972663--48972725 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
48972653 ATTTCACAAT
48972663 AAAAAAAAAAGAGAAAATG-TTTTTTTTA
1 AAAAAAAAAAGAGAAAATGATTTTTTTTA
* * *
48972691 AAAAAAACAAAGTGGAAATGATTTTTTTTG
1 AAAAAAA-AAAGAGAAAATGATTTTTTTTA
48972721 AAAAA
1 AAAAA
48972726 TTATTAACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 7 0.23
29 10 0.33
30 13 0.43
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.30
Consensus pattern (29 bp):
AAAAAAAAAAGAGAAAATGATTTTTTTTA
Found at i:48975223 original size:20 final size:20
Alignment explanation
Indices: 48975198--48975237 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48975188 CGTAAAATGA
*
48975198 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
48975218 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
48975238 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:48975227 original size:34 final size:35
Alignment explanation
Indices: 48975183--48975249 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
48975173 CAGTAAAATA
*
48975183 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
48975217 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
48975250 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:48975253 original size:14 final size:15
Alignment explanation
Indices: 48975177--48975253 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
48975167 GATTGCCAGT
* *
48975177 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
48975191 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
48975205 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
48975225 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
48975240 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
48975254 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:48987374 original size:21 final size:21
Alignment explanation
Indices: 48987331--48987374 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
48987321 CTGGAGTTTA
*
48987331 TAATTAATATTTAATAATATT
1 TAATTAATATTTAACAATATT
*
48987352 TAATTAAT-TTGTAACAATGTT
1 TAATTAATATT-TAACAATATT
48987373 TA
1 TA
48987375 CTTTCTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (21 bp):
TAATTAATATTTAACAATATT
Found at i:48991195 original size:28 final size:28
Alignment explanation
Indices: 48991162--48991222 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
48991152 AATCCTATAA
48991162 AAGTTGAATTTCTAGTCTGCACATGATT
1 AAGTTGAATTTCTAGTCTGCACATGATT
48991190 AAGTTGAATTTCTAGTCTGCACATGATT
1 AAGTTGAATTTCTAGTCTGCACATGATT
48991218 AAGTT
1 AAGTT
48991223 TGTTGATCGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (28 bp):
AAGTTGAATTTCTAGTCTGCACATGATT
Found at i:48993117 original size:6 final size:6
Alignment explanation
Indices: 48993106--48993131 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48993096 CTCGGCTCTG
48993106 GGTACT GGTACT GGTACT GGTACT GG
1 GGTACT GGTACT GGTACT GGTACT GG
48993132 ATAGCCACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (6 bp):
GGTACT
Found at i:48993963 original size:22 final size:20
Alignment explanation
Indices: 48993936--48993975 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
48993926 ATTAAAAATA
48993936 AAATAAGAGTTATACAATATCC
1 AAATAAGAG-TA-ACAATATCC
*
48993958 AAATAATAGTAACAATAT
1 AAATAAGAGTAACAATAT
48993976 AGTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (20 bp):
AAATAAGAGTAACAATATCC
Found at i:48994035 original size:22 final size:23
Alignment explanation
Indices: 48993991--48994035 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
48993981 TAATATAATA
* *
48993991 ACAAAATGACCAATAAAACAGTG
1 ACAAAATGAACAACAAAACAGTG
*
48994014 ACAAAAT-AACAACAAAATAGTG
1 ACAAAATGAACAACAAAACAGTG
48994036 GAAATAGCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.60, C:0.16, G:0.11, T:0.13
Consensus pattern (23 bp):
ACAAAATGAACAACAAAACAGTG
Found at i:48996295 original size:20 final size:19
Alignment explanation
Indices: 48996258--48996296 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
48996248 AATTTTAAAA
* *
48996258 TATTTTTAAAGTACTTTTT
1 TATTTTTAAAATAATTTTT
48996277 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
48996297 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TATTTTTAAAATAATTTTT
Found at i:48999606 original size:31 final size:28
Alignment explanation
Indices: 48999543--48999598 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
48999533 ATAAAACAAG
48999543 ACATACCTCTCTTGAACAAAGCTAAGTT
1 ACATACCTCTCTTGAACAAAGCTAAGTT
*
48999571 ACATACCTCTCTTGAGCAAAGCTAAGTT
1 ACATACCTCTCTTGAACAAAGCTAAGTT
48999599 GTTACATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (28 bp):
ACATACCTCTCTTGAACAAAGCTAAGTT
Found at i:49005913 original size:30 final size:31
Alignment explanation
Indices: 49005851--49005918 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
49005841 GTATACATTC
* *
49005851 TTATATTCTATATATATACTTTATAATTTGT
1 TTATATTCTATATATATACTATATAATGTGT
49005882 TTATATATCTATATATA-ACTATAT-ATGTGT
1 TTATAT-TCTATATATATACTATATAATGTGT
*
49005912 TTTTATT
1 TTATATT
49005919 TTCATAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 10 0.30
31 12 0.36
32 10 0.30
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (31 bp):
TTATATTCTATATATATACTATATAATGTGT
Found at i:49008265 original size:3 final size:3
Alignment explanation
Indices: 49008259--49008388 Score: 260
Period size: 3 Copynumber: 43.3 Consensus size: 3
49008249 TACTTCTTCT
49008259 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49008307 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49008355 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
49008389 CATCATCATT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 127 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:49009847 original size:135 final size:136
Alignment explanation
Indices: 49009527--49009863 Score: 516
Period size: 138 Copynumber: 2.5 Consensus size: 136
49009517 ATACTAATTT
* * *
49009527 AAAACTAATTAATATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGT
1 AAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGC
* * *
49009592 ATAAATCAAATTCATATGTTAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATA
66 ATAAATCAAATTCATATATTAATCATATTCTTT-C-AAAGAATATTAATTTTCATATCTTTTATA
*
49009657 TTTTTACC
129 TTTTGACC
49009665 AAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGC
1 AAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGC
*
49009730 ATGAATCAAATTCATATATTAATCATATTCTTT-AAAGAATATTAA-TTTCTATATCTTTTATAT
66 ATAAATCAAATTCATATATTAATCATATTCTTTCAAAGAATATTAATTTTC-ATATCTTTTATAT
49009793 TTTGACC
130 TTTGACC
* ** * *
49009800 GAAATTAATTAATATAACCGTTTATATTAATAAATTCAGTAAAATATATACCATTAATATTTTG
1 AAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTG
49009864 TACAACTTTA
Statistics
Matches: 185, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
134 4 0.02
135 89 0.48
138 92 0.50
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (136 bp):
AAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGC
ATAAATCAAATTCATATATTAATCATATTCTTTCAAAGAATATTAATTTTCATATCTTTTATATT
TTGACC
Found at i:49011204 original size:12 final size:12
Alignment explanation
Indices: 49011187--49011219 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
49011177 TTCTAAAACT
49011187 TTATTAATTAAA
1 TTATTAATTAAA
49011199 TTATTAATT-AA
1 TTATTAATTAAA
*
49011210 TAATTAATTA
1 TTATTAATTA
49011220 TTGTTTCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTATTAATTAAA
Found at i:49026490 original size:19 final size:19
Alignment explanation
Indices: 49026466--49026506 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
49026456 TATTCCTCGT
49026466 TTTCTATATATATTTT-TAA
1 TTTCTATATAT-TTTTATAA
49026485 TTTCTATATATTTTTATAA
1 TTTCTATATATTTTTATAA
49026504 TTT
1 TTT
49026507 AGAAAACTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCTATATATTTTTATAA
Found at i:49026972 original size:40 final size:41
Alignment explanation
Indices: 49026914--49026993 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
49026904 TATTTAGTAA
* *
49026914 AATAAAATTTTTACTATATTTATTTGT-GT-TTTTTTAATAT
1 AATAAAATATTTACTATATTTA-TGGTAGTATTTTTTAATAT
*
49026954 AATAAAATATTTATTATATTTATGGTAGTATTTTTTAATA
1 AATAAAATATTTACTATATTTATGGTAGTATTTTTTAATA
49026994 CAAATATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
39 3 0.09
40 22 0.63
41 10 0.29
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.56
Consensus pattern (41 bp):
AATAAAATATTTACTATATTTATGGTAGTATTTTTTAATAT
Found at i:49027683 original size:24 final size:23
Alignment explanation
Indices: 49027640--49027684 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
49027630 TTGAATTAAA
*
49027640 TATGAAATTAAAATATATATTTT
1 TATGAAATAAAAATATATATTTT
49027663 TATGAAATAAATAATATATATT
1 TATGAAATAAA-AATATATATT
49027685 CAATTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
TATGAAATAAAAATATATATTTT
Found at i:49030155 original size:21 final size:22
Alignment explanation
Indices: 49030130--49030171 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
49030120 ATGTTGTTTA
49030130 AATTTATCACAT-ATTATTTTT
1 AATTTATCACATAATTATTTTT
*
49030151 AATTTATCATATAATTATTTT
1 AATTTATCACATAATTATTTT
49030172 AAGTTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTTATCACATAATTATTTTT
Found at i:49032803 original size:15 final size:16
Alignment explanation
Indices: 49032777--49032807 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
49032767 TATCGATACT
49032777 AATCGAGCTAAGACTC
1 AATCGAGCTAAGACTC
49032793 AATCG-GCTAAGACTC
1 AATCGAGCTAAGACTC
49032808 TTTGAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (16 bp):
AATCGAGCTAAGACTC
Found at i:49034503 original size:52 final size:52
Alignment explanation
Indices: 49034446--49034550 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
49034436 AGGTGTAAAA
* * * ** *
49034446 ACATAATGCATGAAATACAACAAAGGTTGGGCCTGTTTTTGCCCCTATGTGT
1 ACATAACGCATGAAATACAACAAAAGCTAAGCCTGTTTCTGCCCCTATGTGT
*
49034498 ACATAACGCATGAAATACAACAAAAGCTAAGCCTGTTTCTGTCCCTATGTGT
1 ACATAACGCATGAAATACAACAAAAGCTAAGCCTGTTTCTGCCCCTATGTGT
49034550 A
1 A
49034551 GGCCTATAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (52 bp):
ACATAACGCATGAAATACAACAAAAGCTAAGCCTGTTTCTGCCCCTATGTGT
Found at i:49038950 original size:15 final size:15
Alignment explanation
Indices: 49038913--49038972 Score: 75
Period size: 15 Copynumber: 3.9 Consensus size: 15
49038903 ATTATTTGTT
*
49038913 TAACCTTTTTAATCAA
1 TAACC-TTTTCATCAA
*
49038929 TAACCTTTTCATCGA
1 TAACCTTTTCATCAA
* *
49038944 TAGCCTTTTCAACAA
1 TAACCTTTTCATCAA
49038959 TAACCTTTTCATCA
1 TAACCTTTTCATCA
49038973 TTTTCATTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
15 32 0.86
16 5 0.14
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.40
Consensus pattern (15 bp):
TAACCTTTTCATCAA
Found at i:49046425 original size:23 final size:23
Alignment explanation
Indices: 49046399--49046453 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
49046389 ACTTCAAGGG
*
49046399 TTGACACTTATCATTCTCTTATA
1 TTGACACTTATCATCCTCTTATA
49046422 TTGACA-TCTATCATCCTCTTATA
1 TTGACACT-TATCATCCTCTTATA
*
49046445 TCGACACTT
1 TTGACACTT
49046454 GTTGAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 26 0.93
24 1 0.04
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.44
Consensus pattern (23 bp):
TTGACACTTATCATCCTCTTATA
Found at i:49047000 original size:22 final size:23
Alignment explanation
Indices: 49046966--49047008 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
49046956 AATATTATTT
*
49046966 TTTTTAAAAATTATAGTTTTTAA
1 TTTTTAAAAATTATAATTTTTAA
*
49046989 TTTTT-AATATTATAATTTTT
1 TTTTTAAAAATTATAATTTTT
49047009 GATATTACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTTAAAAATTATAATTTTTAA
Found at i:49047004 original size:15 final size:15
Alignment explanation
Indices: 49046986--49047015 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49046976 TTATAGTTTT
49046986 TAATTTTTAATATTA
1 TAATTTTTAATATTA
*
49047001 TAATTTTTGATATTA
1 TAATTTTTAATATTA
49047016 CTAAACATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TAATTTTTAATATTA
Found at i:49047046 original size:74 final size:75
Alignment explanation
Indices: 49046956--49047094 Score: 210
Period size: 74 Copynumber: 1.9 Consensus size: 75
49046946 TATTATAATA
* * * * *
49046956 AATATTATTTTTTTTAAAAATTATAGTTTTTAATTTTTAATATTA-TAATTTTTGATATTACTAA
1 AATATTATATTTTTTAAAAACTAGAATTTTTAATTTTTAATATTATTAA-TTTTGATATTAATAA
49047020 ACATATATTTT
65 ACATATATTTT
49047031 AATATTA-ATTTTTTAAAAACTAGAATTTTTAATTTTTAATATTATTAATTTTGATATTAATAAA
1 AATATTATATTTTTTAAAAACTAGAATTTTTAATTTTTAATATTATTAATTTTGATATTAATAAA
49047095 TTTGTGTTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
74 48 0.83
75 10 0.17
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (75 bp):
AATATTATATTTTTTAAAAACTAGAATTTTTAATTTTTAATATTATTAATTTTGATATTAATAAA
CATATATTTT
Found at i:49049911 original size:54 final size:54
Alignment explanation
Indices: 49049792--49049913 Score: 145
Period size: 54 Copynumber: 2.3 Consensus size: 54
49049782 TGAAGCAGAC
* * * * * *
49049792 ATTGTGTTACGGGCCGAGACTTTAGCTTCATTAACGCGCAATTTTAGTCGAGAG
1 ATTGTGTTACGGGCCGACACTTTAGCCTCATCAACACGCAAGTTTAGTCGAAAG
** * * *
49049846 ATAATGCTACGGGCTGACACTTTAGCCTCATCAACATGCAAGTTTAGTCGAAAG
1 ATTGTGTTACGGGCCGACACTTTAGCCTCATCAACACGCAAGTTTAGTCGAAAG
49049900 ATTGTGTTACGGGC
1 ATTGTGTTACGGGC
49049914 AAAGACTTCA
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (54 bp):
ATTGTGTTACGGGCCGACACTTTAGCCTCATCAACACGCAAGTTTAGTCGAAAG
Found at i:49051471 original size:6 final size:6
Alignment explanation
Indices: 49051462--49051499 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
49051452 ACATATATAT
49051462 ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG AT
1 ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG AT
49051500 ACTTACAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.34
Consensus pattern (6 bp):
ATGGTG
Found at i:49052997 original size:5 final size:5
Alignment explanation
Indices: 49052987--49053015 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
49052977 TGTCGTTCTA
49052987 CTCTT CTCTT CTCTT CTCTT CTCTT CTCT
1 CTCTT CTCTT CTCTT CTCTT CTCTT CTCT
49053016 GATGTTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (5 bp):
CTCTT
Found at i:49058445 original size:7 final size:7
Alignment explanation
Indices: 49058433--49058458 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
49058423 GTCAAAACCA
49058433 TTCAAAT
1 TTCAAAT
49058440 TTCAAAT
1 TTCAAAT
49058447 TTCAAAT
1 TTCAAAT
49058454 TTCAA
1 TTCAA
49058459 TAATCTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (7 bp):
TTCAAAT
Found at i:49061948 original size:20 final size:20
Alignment explanation
Indices: 49061923--49062033 Score: 68
Period size: 20 Copynumber: 5.3 Consensus size: 20
49061913 TCTTTAGAAT
49061923 TTTTTAAAAAATTATTATAA
1 TTTTTAAAAAATTATTATAA
*
49061943 TTTTTAAAAAATATAAATTTTAGAA
1 TTTTTAAAAAAT-T--A--TTATAA
*
49061968 TTTTTATAAATATT-TTA-AA
1 TTTTTA-AAAAATTATTATAA
* *
49061987 -TTTT-ATAAATTATTTTAAA
1 TTTTTAAAAAATTATTAT-AA
*
49062006 TTTTTAAAAATCATTTTTATAA
1 TTTTTAAAAA--ATTATTATAA
49062028 TTTTTA
1 TTTTTA
49062034 TTCAAAGAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 24
0.69 0.08 0.24
Matches are distributed among these distances:
16 5 0.07
17 2 0.03
18 4 0.06
19 4 0.06
20 19 0.27
21 4 0.06
22 8 0.11
23 7 0.10
25 12 0.17
26 5 0.07
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAAATTATTATAA
Found at i:49061977 original size:18 final size:16
Alignment explanation
Indices: 49061931--49061997 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
49061921 ATTTTTTAAA
*
49061931 AAATTATTATAATTTTT
1 AAATT-TTATAAATTTT
***
49061948 AAAAAATATAAATTTT
1 AAATTTTATAAATTTT
49061964 AGAATTTTTATAAATATTTT
1 A-AA-TTTTAT-AA-ATTTT
49061984 AAATTTTATAAATT
1 AAATTTTATAAATT
49061998 ATTTTAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
16 13 0.33
17 7 0.18
18 9 0.23
19 4 0.10
20 6 0.15
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (16 bp):
AAATTTTATAAATTTT
Found at i:49062013 original size:18 final size:18
Alignment explanation
Indices: 49061959--49062033 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 18
49061949 AAAAATATAA
49061959 ATTTTAGAATTTTTATAAAT
1 ATTTTA-AATTTTTA-AAAT
*
49061979 ATTTTAAATTTTATAAATT
1 ATTTTAAATTTT-TAAAAT
49061998 ATTTTAAATTTTTAAAAAT
1 ATTTTAAATTTTT-AAAAT
49062017 CATTTTTATAATTTTTA
1 -A-TTTTA-AATTTTTA
49062034 TTCAAAGAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
18 1 0.02
19 25 0.52
20 9 0.19
21 6 0.12
22 7 0.15
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (18 bp):
ATTTTAAATTTTTAAAAT
Found at i:49063120 original size:20 final size:18
Alignment explanation
Indices: 49063085--49063121 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
49063075 TGAAACATGT
49063085 AATAAAATTAATTTTTAA
1 AATAAAATTAATTTTTAA
49063103 AATAATAATTATATTTTTA
1 AATAA-AATTA-ATTTTTA
49063122 TCACTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAAAATTAATTTTTAA
Found at i:49064689 original size:15 final size:16
Alignment explanation
Indices: 49064663--49064695 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
49064653 AGGTATAGTA
49064663 AAATATTTTAAAAAAT
1 AAATATTTTAAAAAAT
49064679 AAATA-TTTAAAAAAT
1 AAATATTTTAAAAAAT
49064694 AA
1 AA
49064696 GAGACACATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATTTTAAAAAAT
Found at i:49093907 original size:22 final size:22
Alignment explanation
Indices: 49093882--49093933 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
49093872 TTGGTGAATT
49093882 GTTGATGATTTTGAAATGTGCC
1 GTTGATGATTTTGAAATGTGCC
49093904 GTTGATGATTTTGAAATGTGCC
1 GTTGATGATTTTGAAATGTGCC
*
49093926 ATTGATGA
1 GTTGATGA
49093934 ATGCTTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (22 bp):
GTTGATGATTTTGAAATGTGCC
Found at i:49095543 original size:103 final size:101
Alignment explanation
Indices: 49095423--49095626 Score: 381
Period size: 103 Copynumber: 2.0 Consensus size: 101
49095413 GAAACATATA
49095423 TACATTCGGTTATATGTTCTTGATGAACATAAATATTTGGTTATAAGCATTCAAGGAATTTATAA
1 TACATTCGGTTATATGTTCTTGATGAACATAAATATTTGGTTATAAGCATTCAAGGAATTTAT-A
*
49095488 ATATATATATATAAACAAATTTGCTTGTAAAATGTTAT
65 A-ATATATATATAAACAAATTGGCTTGTAAAATGTTAT
49095526 TACATTCGGTTATATGTTCTTGATGAACATAAATATTTGGTTATAAGCATTCAAGGAATTTATAA
1 TACATTCGGTTATATGTTCTTGATGAACATAAATATTTGGTTATAAGCATTCAAGGAATTTATAA
49095591 ATATATATATAAACAAATTGGCTTGTAAAATGTTAT
66 ATATATATATAAACAAATTGGCTTGTAAAATGTTAT
49095627 AATTCTTTAA
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
101 35 0.35
102 2 0.02
103 63 0.63
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (101 bp):
TACATTCGGTTATATGTTCTTGATGAACATAAATATTTGGTTATAAGCATTCAAGGAATTTATAA
ATATATATATAAACAAATTGGCTTGTAAAATGTTAT
Found at i:49098503 original size:16 final size:16
Alignment explanation
Indices: 49098449--49098503 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
49098439 AATTTAGTCC
49098449 TGTTTTATTTTATTTTAT
1 TGTTTTA-TTTA-TTTAT
* *
49098467 TTTTTTA-TTATTTGT
1 TGTTTTATTTATTTAT
49098482 CT-TTTTATTTATTTAT
1 -TGTTTTATTTATTTAT
49098498 TGTTTT
1 TGTTTT
49098504 TAAAAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 10 0.32
16 15 0.48
18 6 0.19
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (16 bp):
TGTTTTATTTATTTAT
Found at i:49098556 original size:15 final size:15
Alignment explanation
Indices: 49098520--49098548 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49098510 TTAATTAGTT
49098520 TTATTATCATTATTA
1 TTATTATCATTATTA
49098535 TTATTATCATTATT
1 TTATTATCATTATT
49098549 GCTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTATCATTATTA
Found at i:49106604 original size:7 final size:8
Alignment explanation
Indices: 49106574--49106602 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
49106564 TTATTTTTTT
49106574 ATTTTTAA
1 ATTTTTAA
49106582 ATTTTTAA
1 ATTTTTAA
49106590 ATTTTTAA
1 ATTTTTAA
49106598 ATTTT
1 ATTTT
49106603 AAGAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
ATTTTTAA
Found at i:49112320 original size:14 final size:14
Alignment explanation
Indices: 49112303--49112336 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49112293 GGGTCGGGAA
*
49112303 TTTTTAAAGCAAAAT
1 TTTTTAAAG-AAAAC
49112318 TTTTTAAAGAAAAC
1 TTTTTAAAGAAAAC
49112332 TTTTT
1 TTTTT
49112337 GATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (14 bp):
TTTTTAAAGAAAAC
Found at i:49112323 original size:15 final size:15
Alignment explanation
Indices: 49112303--49112336 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
49112293 GGGTCGGGAA
49112303 TTTTTAAAGCAAAA-T
1 TTTTTAAAG-AAAACT
49112318 TTTTTAAAGAAAACT
1 TTTTTAAAGAAAACT
49112333 TTTT
1 TTTT
49112337 GATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTTAAAGAAAACT
Found at i:49121340 original size:21 final size:21
Alignment explanation
Indices: 49121311--49121350 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
49121301 AACGAGACTG
49121311 CTGACGTGGCAAGTTAACTAA
1 CTGACGTGGCAAGTTAACTAA
*
49121332 CTGATGTGGCAAGTTAACT
1 CTGACGTGGCAAGTTAACT
49121351 TGCCATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (21 bp):
CTGACGTGGCAAGTTAACTAA
Found at i:49121941 original size:6 final size:6
Alignment explanation
Indices: 49121788--49121923 Score: 112
Period size: 6 Copynumber: 21.7 Consensus size: 6
49121778 TTCAATTTCA
* * **
49121788 ATTTTG ATTTTG A-TTCG AATTTTG ATTTTG ATTTTG ATTTCG ATTTCA
1 ATTTTG ATTTTG ATTTTG -ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
**
49121836 ATTTTG AAACACTCACTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
1 ATTTTG ----A-T-TTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * * *
49121884 ATTTTG ATTTTG ATTTCG ATCTCG ATTTAG ATTTTG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
49121924 AGACTTCAAT
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
5 3 0.03
6 95 0.89
7 4 0.04
8 1 0.01
10 1 0.01
11 1 0.01
12 2 0.02
ACGTcount: A:0.21, C:0.07, G:0.15, T:0.57
Consensus pattern (6 bp):
ATTTTG
Found at i:49125477 original size:36 final size:36
Alignment explanation
Indices: 49125416--49125491 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
49125406 GTTAGCCATG
* * *
49125416 TATACCAGCAGCCATGTATAACAACATAAGCAACAA
1 TATACCAGCAACCATATATAACAACATAAACAACAA
* *
49125452 TATACCATCAACCATATATACCAACATAAACAACAA
1 TATACCAGCAACCATATATAACAACATAAACAACAA
49125488 TATA
1 TATA
49125492 TATACCAGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.50, C:0.25, G:0.05, T:0.20
Consensus pattern (36 bp):
TATACCAGCAACCATATATAACAACATAAACAACAA
Found at i:49125904 original size:27 final size:29
Alignment explanation
Indices: 49125860--49125920 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
49125850 GGCATATCCA
49125860 TTTTTCCTCTTCTCCTTCCTCTTCTT-TT
1 TTTTTCCTCTTCTCCTTCCTCTTCTTCTT
* * * *
49125888 TTTTTCTTC-TCTTCTTCTTCTTTTTCTT
1 TTTTTCCTCTTCTCCTTCCTCTTCTTCTT
49125916 TTTTT
1 TTTTT
49125921 AACCCTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (29 bp):
TTTTTCCTCTTCTCCTTCCTCTTCTTCTT
Found at i:49126517 original size:15 final size:15
Alignment explanation
Indices: 49126493--49126538 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
49126483 CATTATATGA
49126493 TTTATATTTTAAAAT
1 TTTATATTTTAAAAT
*
49126508 TTTATTTTTTAAAAAT
1 TTTATATTTT-AAAAT
49126524 ATTTATATTATTAAA
1 -TTTATATT-TTAAA
49126539 TATAATGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 9 0.35
16 5 0.19
17 10 0.38
18 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATATTTTAAAAT
Found at i:49129132 original size:31 final size:31
Alignment explanation
Indices: 49129097--49129159 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
49129087 TAGCCTAATA
* *
49129097 ACTTAAATAAAAACTTTT-GAATAGTTTAGTG
1 ACTTAAATAAAAA-TTTTCAAATAATTTAGTG
*
49129128 ACTTAAATGAAAATTTTCAAATAATTTAGTG
1 ACTTAAATAAAAATTTTCAAATAATTTAGTG
49129159 A
1 A
49129160 ACAATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (31 bp):
ACTTAAATAAAAATTTTCAAATAATTTAGTG
Found at i:49129795 original size:15 final size:14
Alignment explanation
Indices: 49129768--49129794 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49129758 GAATATAGTA
49129768 AAATATTAAAAAAT
1 AAATATTAAAAAAT
49129782 AAATATTAAAAAA
1 AAATATTAAAAAA
49129795 ACATATGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:49130571 original size:17 final size:17
Alignment explanation
Indices: 49130549--49130583 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
49130539 TTTAAGTCTT
49130549 AAAACACTACATAATTA
1 AAAACACTACATAATTA
*
49130566 AAAACACTATATAATTA
1 AAAACACTACATAATTA
49130583 A
1 A
49130584 GTTCAGTTAA
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:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAACACTACATAATTA
Found at i:49130894 original size:34 final size:31
Alignment explanation
Indices: 49130838--49130913 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 31
49130828 AAATCAAAAT
*
49130838 AAAATTTAAAATTTAAAATTTAAAATATTTATA
1 AAAATTTAAAATTTAAAATTTAAAA-A-ATATA
* *
49130871 AAAATTCTAAAATTTATATTTTAAAAAATATA
1 AAAATT-TAAAATTTAAAATTTAAAAAATATA
49130903 AAAATTTAAAA
1 AAAATTTAAAA
49130914 AATTCTAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
31 5 0.13
32 10 0.26
33 7 0.18
34 17 0.44
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (31 bp):
AAAATTTAAAATTTAAAATTTAAAAAATATA
Done.