Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 268 of 276
Found at i:88865527 original size:24 final size:25
Alignment explanation
Indices: 88865495--88865577 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 25
88865485 CTGGAGGCCT
* *
88865495 AGCCGTTTTTAAT-AACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
88865519 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
* * *
88865544 AGCCCTTTTCGGTAAACTTGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
88865569 AGCCCTTTT
1 AGCCCTTTT
88865578 AGCACTTCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 11 0.21
25 42 0.79
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTTGATAAACTGGGGCAA
Found at i:88865528 original size:25 final size:24
Alignment explanation
Indices: 88865480--88865577 Score: 90
Period size: 25 Copynumber: 4.0 Consensus size: 24
88865470 TGCTTTATCA
** *
88865480 TATAACTGGAGGCCTAGCCGTTTTT
1 TATAACTGG-GGCAAAGCCCTTTTT
*
88865505 AATAACTGGGGCAAAGCCCTTTTT
1 TATAACTGGGGCAAAGCCCTTTTT
* *
88865529 GATAAACTGGGGCAAAGCCCTTTTCGG
1 TAT-AACTGGGGCAAAGCCCTTTT--T
*
88865556 TA-AACTTGGGCAAAGCCCTTTT
1 TATAACTGGGGCAAAGCCCTTTT
88865578 AGCACTTCCT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
24 14 0.23
25 47 0.76
27 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (24 bp):
TATAACTGGGGCAAAGCCCTTTTT
Found at i:88865813 original size:27 final size:27
Alignment explanation
Indices: 88865791--88865968 Score: 234
Period size: 27 Copynumber: 6.7 Consensus size: 27
88865781 GATAATTTTA
* * *
88865791 ACCC-ACATGGGTATCTCGGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
*
88865817 ACCCTACAGGGGTATTTCAGTATTTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
* *
88865844 AGCCTACAAGGGTATTTCAGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
88865871 ACCCTACAGGGGTATTTCAGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
* *
88865898 ACCCTACATGGGTATTTCGGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
* * *
88865925 ACCTTACAAGGGTATTTTAGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
*
88865952 ACCCTACAAGGGT-TTTC
1 ACCCTACAGGGGTATTTC
88865969 GGTATTTTAC
Statistics
Matches: 134, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 7 0.05
27 127 0.95
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
ACCCTACAGGGGTATTTCAGTAATTCT
Found at i:88865867 original size:54 final size:54
Alignment explanation
Indices: 88865791--88865972 Score: 269
Period size: 54 Copynumber: 3.4 Consensus size: 54
88865781 GATAATTTTA
* * *
88865791 ACCC-ACATGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCT
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCT
* *
88865844 AGCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCT
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCT
* * * *
88865898 ACCCTACATGGGTATTTCGGTAATTCTACCTTACAAGGGTATTTTAGTAATTCT
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCT
88865952 ACCCTACAAGGGT-TTTCGGTA
1 ACCCTACAAGGGTATTTCGGTA
88865973 TTTTACAAAT
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 11 0.09
54 105 0.91
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCT
Found at i:88866002 original size:27 final size:27
Alignment explanation
Indices: 88865964--88866111 Score: 131
Period size: 27 Copynumber: 5.5 Consensus size: 27
88865954 CCTACAAGGG
*
88865964 TTTTCGGT-ATTTTACAAATCAGGAGTA
1 TTTT-GGTAATTTTACAAACCAGGAGTA
* * *
88865991 TTTTGGTAATTTTACCAACTAGGGGTA
1 TTTTGGTAATTTTACAAACCAGGAGTA
* *
88866018 TTTTAGTAATTTTACAAACCAGGTGTA
1 TTTTGGTAATTTTACAAACCAGGAGTA
** * *
88866045 TTTTGGTAATTTTACTGATC-GAAGGTA
1 TTTTGGTAATTTTACAAACCAGGA-GTA
**
88866072 TTTTGGTAATTTTGTAAACCAAGG-GTA
1 TTTTGGTAATTTTACAAACC-AGGAGTA
*
88866099 TTTTAGTAATTTT
1 TTTTGGTAATTTT
88866112 GTAAATCAAG
Statistics
Matches: 96, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
26 4 0.04
27 91 0.95
29 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACCAGGAGTA
Found at i:88866046 original size:54 final size:53
Alignment explanation
Indices: 88865972--88866111 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 53
88865962 GGTTTTCGGT
* *
88865972 ATTTTACAAATCAGGAGTATTTTGGTAATTTTACCAACTAG-GGGTATTTTAGTA
1 ATTTTACAAACCAGG-GTATTTTGGTAATTTTACCAA-TAGAAGGTATTTTAGTA
** * *
88866026 ATTTTACAAACCAGGTGTATTTTGGTAATTTTACTGATCGAAGGTATTTTGGTA
1 ATTTTACAAACCAGG-GTATTTTGGTAATTTTACCAATAGAAGGTATTTTAGTA
** *
88866080 ATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 ATTTTACAAACC-AGGGTATTTTGGTAATTTT
88866112 GTAAATCAAG
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.03
54 69 0.93
55 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (53 bp):
ATTTTACAAACCAGGGTATTTTGGTAATTTTACCAATAGAAGGTATTTTAGTA
Found at i:88866112 original size:27 final size:27
Alignment explanation
Indices: 88866013--88866125 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
88866003 TACCAACTAG
**
88866013 GGGTATTTTAGTAATTTTACAAACC-A
1 GGGTATTTTAGTAATTTTGTAAACCAA
* * * * *
88866039 GGTGTATTTTGGTAATTTTACTGATCGAA
1 GG-GTATTTTAGTAATTTT-GTAAACCAA
*
88866068 -GGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTGTAAACCAA
*
88866094 GGGTATTTTAGTAATTTTGTAAATCAA
1 GGGTATTTTAGTAATTTTGTAAACCAA
88866121 GGGTA
1 GGGTA
88866126 AAACGGTAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.10
27 60 0.85
28 3 0.04
29 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTGTAAACCAA
Found at i:88866134 original size:54 final size:54
Alignment explanation
Indices: 88866076--88866196 Score: 136
Period size: 54 Copynumber: 2.3 Consensus size: 54
88866066 AAGGTATTTT
* * *** *
88866076 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAAC
1 GGTAATTCTATAAACCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC
*** * *
88866130 GGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTCTATAAACCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC
88866184 -GTAATTCTATAAA
1 GGTAATTCTATAAA
88866197 TCGAGGATAT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
53 13 0.23
54 43 0.77
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (54 bp):
GGTAATTCTATAAACCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:88866196 original size:26 final size:26
Alignment explanation
Indices: 88866104--88866202 Score: 126
Period size: 27 Copynumber: 3.7 Consensus size: 26
88866094 GGGTATTTTA
* * *
88866104 GTAATTTTGTAAATCAAGGGTAAAAC
1 GTAATTCTATAAATCGAGGGTAAAAC
* *
88866130 GGTAATTCTATAAATTGAGGGTAAAATG
1 -GTAATTCTATAAATCGAGGGTAAAA-C
*
88866158 GTAATTCTGTAAATCGAGGGTAAAAC
1 GTAATTCTATAAATCGAGGGTAAAAC
88866184 GTAATTCTATAAATCGAGG
1 GTAATTCTATAAATCGAGG
88866203 ATATTTGGGT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 18 0.29
27 44 0.71
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (26 bp):
GTAATTCTATAAATCGAGGGTAAAAC
Found at i:88868615 original size:24 final size:25
Alignment explanation
Indices: 88868588--88868662 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
88868578 CTGGAGGCCT
88868588 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCCT-TTTTCAATAAACTGGGGCAA
**
88868612 AGCCTTTTTCGGTAAACTGGGGCAA
1 AGCCTTTTTCAATAAACTGGGGCAA
* * **
88868637 AGTCGTTTTCGGTAAACTGGGGCAA
1 AGCCTTTTTCAATAAACTGGGGCAA
88868662 A
1 A
88868663 ACCCTTTTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
23 4 0.09
24 6 0.13
25 35 0.78
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (25 bp):
AGCCTTTTTCAATAAACTGGGGCAA
Found at i:88868629 original size:25 final size:25
Alignment explanation
Indices: 88868601--88868662 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
88868591 CTCTTTTAAT
*
88868601 AACTGGGGCAAAGCCTTTTTCGGTA
1 AACTGGGGCAAAGCCGTTTTCGGTA
*
88868626 AACTGGGGCAAAGTCGTTTTCGGTA
1 AACTGGGGCAAAGCCGTTTTCGGTA
88868651 AACTGGGGCAAA
1 AACTGGGGCAAA
88868663 ACCCTTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCGTTTTCGGTA
Found at i:88868670 original size:25 final size:25
Alignment explanation
Indices: 88868601--88868670 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
88868591 CTCTTTTAAT
*
88868601 AACTGGGGCAAAGCCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
88868626 AACTGGGGCAAAGTCGTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
88868651 AACTGGGGCAAAACCCTTTT
1 AACTGGGGCAAAGCCCTTTT
88868671 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:88868906 original size:27 final size:27
Alignment explanation
Indices: 88868876--88869117 Score: 322
Period size: 27 Copynumber: 9.0 Consensus size: 27
88868866 GGCAAAATGA
* * * *
88868876 TAATTTTACCCCACATGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
88868903 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * *
88868930 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGG
*
88868957 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
88868984 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
** *
88869011 TAATTCTACATTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
88869038 TAATTCTACCTTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * **
88869065 TATTTCTACCCTACAAGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
88869092 TAATTCTACCCTATAGGGGTATTTCG
1 TAATTCTACCCTACAGGGGTATTTCG
88869118 ATATTTTACA
Statistics
Matches: 186, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 186 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:88869272 original size:27 final size:27
Alignment explanation
Indices: 88869120--88869273 Score: 175
Period size: 27 Copynumber: 5.7 Consensus size: 27
88869110 GTATTTCGAT
*
88869120 ATTTTACAAATCAGGGGTATTTTGGTA
1 ATTTTACAAATCAAGGGTATTTTGGTA
* * *
88869147 ATTTTACAAACCAGGGGTATTTTAGTA
1 ATTTTACAAATCAAGGGTATTTTGGTA
88869174 ATTTTACAAA-CTAAGGGTATTTTGGTA
1 ATTTTACAAATC-AAGGGTATTTTGGTA
** *
88869201 ATTTTACTGATCGAGGGTATTTTGGTA
1 ATTTTACAAATCAAGGGTATTTTGGTA
** * *
88869228 ATTTTGTAAACCAAGGGTATTTTAGTA
1 ATTTTACAAATCAAGGGTATTTTGGTA
* *
88869255 ATTTTATAAATCGAGGGTA
1 ATTTTACAAATCAAGGGTA
88869274 AAACGGTAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 106 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
ATTTTACAAATCAAGGGTATTTTGGTA
Found at i:88869282 original size:27 final size:27
Alignment explanation
Indices: 88869252--88869324 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
88869242 GGGTATTTTA
88869252 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
* *
88869279 GTAATTCTT-TAAATTGAGGGTAAAATG
1 GTAATT-TTATAAATCGAGGGTAAAACG
*
88869306 GTAATTCTATAAATCGAGG
1 GTAATTTTATAAATCGAGG
88869325 ATATTTGGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAACG
Found at i:88869282 original size:81 final size:81
Alignment explanation
Indices: 88869134--88869284 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
88869124 TACAAATCAG
* ****
88869134 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAAGGGTAAAACGG
88869199 TAATTTTACTGATCGA
66 TAATTTTACTGATCGA
** * *
88869215 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAA-TCGAGGGTAAAACG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACT-AAGGGTAAAACG
88869279 GTAATT
65 GTAATT
88869285 CTTTAAATTG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
80 1 0.02
81 59 0.98
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAAGGGTAAAACGG
TAATTTTACTGATCGA
Found at i:88875397 original size:43 final size:43
Alignment explanation
Indices: 88875346--88875427 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
88875336 AAAAAATGTC
88875346 GCTAAAAGTCATGGCTTTTAGCGCCATTTGTGGAAAAAGCACA
1 GCTAAAAGTCATGGCTTTTAGCGCCATTTGTGGAAAAAGCACA
* * *
88875389 GCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAG
1 GCTAAAAGTCATGGCTTTTAGCGCCATTTGTGGAAAAAG
88875428 AAAACGCCGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (43 bp):
GCTAAAAGTCATGGCTTTTAGCGCCATTTGTGGAAAAAGCACA
Found at i:88875534 original size:31 final size:31
Alignment explanation
Indices: 88875489--88875558 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
88875479 AACCCTTCCT
*
88875489 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATAAAATCCAACCAAAAACAGCAAATATA
* * *
88875520 GCATAAAATGCAACCAAAATCAGCAAATTTA
1 GCATAAAATCCAACCAAAAACAGCAAATATA
88875551 GCATAAAA
1 GCATAAAA
88875559 AAAGAACCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.54, C:0.20, G:0.09, T:0.17
Consensus pattern (31 bp):
GCATAAAATCCAACCAAAAACAGCAAATATA
Found at i:88876330 original size:13 final size:14
Alignment explanation
Indices: 88876304--88876332 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
88876294 ACTAATGACG
88876304 AATTAAACCATTAT
1 AATTAAACCATTAT
88876318 AATTAAA-CATTAT
1 AATTAAACCATTAT
88876331 AA
1 AA
88876333 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:88880457 original size:19 final size:19
Alignment explanation
Indices: 88880412--88880454 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
88880402 AGAATCGGTC
*
88880412 GTCTTTGACGACATGAATA
1 GTCTTTGACGACATGAAAA
88880431 GTCTTTGACGACATGAAAA
1 GTCTTTGACGACATGAAAA
88880450 G-CTTT
1 GTCTTT
88880455 TGAAGTCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (19 bp):
GTCTTTGACGACATGAAAA
Found at i:88881500 original size:9 final size:9
Alignment explanation
Indices: 88881479--88881551 Score: 60
Period size: 9 Copynumber: 8.1 Consensus size: 9
88881469 TATGTATTAC
*
88881479 GTAAGTTAA
1 GTAAGTTAT
88881488 GTAAGCTT-T
1 GTAAG-TTAT
88881497 GTAAGTTAT
1 GTAAGTTAT
88881506 GTAAGTTAT
1 GTAAGTTAT
* *
88881515 GTTA-TGAT
1 GTAAGTTAT
* *
88881523 ATACATTTAT
1 GTA-AGTTAT
*
88881533 GTAAGGTAT
1 GTAAGTTAT
88881542 GTAAGTTAT
1 GTAAGTTAT
88881551 G
1 G
88881552 ATATGATATA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
8 6 0.12
9 37 0.74
10 7 0.14
ACGTcount: A:0.33, C:0.03, G:0.22, T:0.42
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:88881534 original size:18 final size:17
Alignment explanation
Indices: 88881511--88881603 Score: 53
Period size: 18 Copynumber: 5.3 Consensus size: 17
88881501 GTTATGTAAG
88881511 TTATGTTATGATATACAT
1 TTATGTTATGATATA-AT
* * * *
88881529 TTATGTAAGGTATGTAAG
1 TTATGTTATG-ATATAAT
*
88881547 TTATGATATGATATATAT
1 TTATGTTATGATATA-AT
* * * *
88881565 TTATG-TATTATGTGAG
1 TTATGTTATGATATAAT
*
88881581 TTATGATATGATATATAT
1 TTATGTTATGATATA-AT
88881599 TTATG
1 TTATG
88881604 ATATATATTT
Statistics
Matches: 54, Mismatches: 17, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
16 6 0.11
17 16 0.30
18 28 0.52
19 4 0.07
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.48
Consensus pattern (17 bp):
TTATGTTATGATATAAT
Found at i:88881543 original size:36 final size:36
Alignment explanation
Indices: 88881496--88881656 Score: 195
Period size: 34 Copynumber: 4.5 Consensus size: 36
88881486 AAGTAAGCTT
* *
88881496 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTA
*
88881532 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTA
*
88881568 TGT-A-TTATGTGAGTTATGATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTA
* * *
88881602 TGATATATATTTATGTAAGTTATTATCTGATATATATTTA
1 TG---TA-AGTTATGTAAGTTATGATATGATATATATTTA
88881642 TGT-A-TTATGTAAGTT
1 TGTAAGTTATGTAAGTT
88881657 TTGTAAGTTT
Statistics
Matches: 111, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
34 41 0.37
35 2 0.02
36 36 0.32
37 2 0.02
39 1 0.01
40 29 0.26
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (36 bp):
TGTAAGTTATGTAAGTTATGATATGATATATATTTA
Found at i:88881605 original size:13 final size:13
Alignment explanation
Indices: 88881587--88881643 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
88881577 TGAGTTATGA
88881587 TATGATATATATT
1 TATGATATATATT
88881600 TATGATATATATT
1 TATGATATATATT
88881613 TATG-TA-AGTTATT
1 TATGATATA--TATT
*
88881626 ATCTGATATATATT
1 -TATGATATATATT
88881640 TATG
1 TATG
88881644 TATTATGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 1 0.03
12 2 0.05
13 24 0.65
14 7 0.19
15 2 0.05
16 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.53
Consensus pattern (13 bp):
TATGATATATATT
Found at i:88881645 original size:74 final size:70
Alignment explanation
Indices: 88881502--88881656 Score: 211
Period size: 74 Copynumber: 2.2 Consensus size: 70
88881492 GCTTTGTAAG
*
88881502 TTATGTAAGTTATGTTATGATATACATTTATGTAAGGTATGTAAGTTATGATATGATATATATTT
1 TTATGTAAGTTATGATATGATATACATTTATGTAAGGTATGTAAGTTATGATATGATATATATTT
88881567 ATGTA
66 ATGTA
* * ** * *
88881572 TTATGTGAGTTATGATATGATATATATTTATGATATATATTTATGTAAGTTATTATCTGATATAT
1 TTATGTAAGTTATGATATGATATACATTTATG---TA-AGGTATGTAAGTTATGATATGATATAT
88881637 ATTTATGTA
62 ATTTATGTA
88881646 TTATGTAAGTT
1 TTATGTAAGTT
88881657 TTGTAAGTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
70 29 0.40
73 2 0.03
74 42 0.58
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.50
Consensus pattern (70 bp):
TTATGTAAGTTATGATATGATATACATTTATGTAAGGTATGTAAGTTATGATATGATATATATTT
ATGTA
Found at i:88881663 original size:9 final size:9
Alignment explanation
Indices: 88881649--88881674 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
88881639 TTATGTATTA
88881649 TGTAAGTTT
1 TGTAAGTTT
88881658 TGTAAGTTT
1 TGTAAGTTT
88881667 TGTAAGTT
1 TGTAAGTT
88881675 ATTATATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (9 bp):
TGTAAGTTT
Found at i:88886985 original size:47 final size:47
Alignment explanation
Indices: 88886934--88887643 Score: 1116
Period size: 47 Copynumber: 14.7 Consensus size: 47
88886924 TTAGGATTCT
* * *
88886934 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
88886981 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88887028 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88887075 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88887122 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
88887169 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88887216 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
88887265 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAAGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
88887314 ATGTGATGAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 A--TG-T-----GA-----TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88887374 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88887421 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88887468 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88887515 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
88887562 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
88887609 ACGTGATGGATGTGAAAGTGTATAAATGTTATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
88887644 TCCCGAAGGG
Statistics
Matches: 627, Mismatches: 20, Indels: 32
0.92 0.03 0.05
Matches are distributed among these distances:
46 1 0.00
47 501 0.80
49 74 0.12
51 2 0.00
52 3 0.00
57 3 0.00
58 2 0.00
60 27 0.04
62 14 0.02
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:88887328 original size:13 final size:13
Alignment explanation
Indices: 88887310--88887335 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88887300 AGGCCTAAAG
88887310 GCCGATGTGATGA
1 GCCGATGTGATGA
88887323 GCCGATGTGATGA
1 GCCGATGTGATGA
88887336 ATGTGAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.23
Consensus pattern (13 bp):
GCCGATGTGATGA
Found at i:88887378 original size:60 final size:61
Alignment explanation
Indices: 88887261--88887382 Score: 219
Period size: 60 Copynumber: 2.0 Consensus size: 61
88887251 AGGCCTAATG
88887261 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAAGGCCGATGTGATGA
1 GCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAAAGGCCGATGTGATGA
*
88887323 GCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 GCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAAAGGCCGATGTGATGA
88887383 ATGTGAAAGT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
60 35 0.59
62 24 0.41
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (61 bp):
GCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAAAGGCCGATGTGATGA
Found at i:88887818 original size:37 final size:37
Alignment explanation
Indices: 88887762--88887840 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
88887752 CCGAGCTCTA
* * *
88887762 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
88887799 AAGACCTGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
88887836 AAGAC
1 AAGAC
88887841 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:88889793 original size:8 final size:8
Alignment explanation
Indices: 88889778--88889806 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
88889768 TAATGTTTAT
88889778 GTTT-AGG
1 GTTTAAGG
88889785 GTTTAAGG
1 GTTTAAGG
88889793 GTTTAAGG
1 GTTTAAGG
88889801 GTTTAA
1 GTTTAA
88889807 TTAAACCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (8 bp):
GTTTAAGG
Found at i:88890255 original size:41 final size:41
Alignment explanation
Indices: 88890186--88890352 Score: 169
Period size: 41 Copynumber: 4.1 Consensus size: 41
88890176 TAGCTCAACC
*
88890186 TTTT-GTGGTG-TTTGGACCAAAAACGCCACTATTTCTCAGT
1 TTTTAGTGGTGTTTTGGA-CAAAAACGCCACTATTGCTCAGT
** * *
88890226 TTTTAGTGGCATTTTGGACAAATATGCCACTATTGCTCAGT
1 TTTTAGTGGTGTTTTGGACAAAAACGCCACTATTGCTCAGT
* * * * * *
88890267 TTTTTGCGGTGTTTTGGATAAAAACGGCACTACTGCTCGGT
1 TTTTAGTGGTGTTTTGGACAAAAACGCCACTATTGCTCAGT
* * *
88890308 TTTTCA-TGGTGTTTTGGATAAAAATGCCACTATTACTCAGT
1 TTTT-AGTGGTGTTTTGGACAAAAACGCCACTATTGCTCAGT
88890349 TTTT
1 TTTT
88890353 CGTTGCGTTT
Statistics
Matches: 102, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
40 4 0.04
41 92 0.90
42 6 0.06
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (41 bp):
TTTTAGTGGTGTTTTGGACAAAAACGCCACTATTGCTCAGT
Found at i:88890310 original size:82 final size:82
Alignment explanation
Indices: 88890165--88890352 Score: 209
Period size: 82 Copynumber: 2.3 Consensus size: 82
88890155 GCGTTTTTAT
* *** * * *
88890165 AAATGCCACTATAGCTCAACCTTTTGTGGTGTTTGGACCAAAAACGCCACTATTTCTCAGTTTTT
1 AAATGCCACTATTGCTCAGTTTTTTGCGGTGTTTGGACCAAAAACGCCACTACTGCTCAGTTTTT
88890230 -AGTGGCATTTTGGACAA
66 CA-TGGCATTTTGGACAA
* * * *
88890247 ATATGCCACTATTGCTCAGTTTTTTGCGGTGTTTTGGA-TAAAAACGGCACTACTGCTCGGTTTT
1 AAATGCCACTATTGCTCAGTTTTTTGCGGTG-TTTGGACCAAAAACGCCACTACTGCTCAGTTTT
** *
88890311 TCATGGTGTTTTGGATAA
65 TCATGGCATTTTGGACAA
*
88890329 AAATGCCACTATTACTCAGTTTTT
1 AAATGCCACTATTGCTCAGTTTTT
88890353 CGTTGCGTTT
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
82 81 0.92
83 7 0.08
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (82 bp):
AAATGCCACTATTGCTCAGTTTTTTGCGGTGTTTGGACCAAAAACGCCACTACTGCTCAGTTTTT
CATGGCATTTTGGACAA
Found at i:88891116 original size:26 final size:26
Alignment explanation
Indices: 88891086--88891147 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
88891076 ATCCTCTCTC
88891086 AAGCCATATAA-CAGGAAGCTCACAAA
1 AAGCCAT-TAATCAGGAAGCTCACAAA
* *
88891112 GAGCCATTAATCGGGAAGCTCACAAA
1 AAGCCATTAATCAGGAAGCTCACAAA
88891138 AAGCCTATTA
1 AAGCC-ATTA
88891148 GGAAGCTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.10
26 24 0.77
27 4 0.13
ACGTcount: A:0.44, C:0.23, G:0.18, T:0.16
Consensus pattern (26 bp):
AAGCCATTAATCAGGAAGCTCACAAA
Found at i:88892681 original size:93 final size:93
Alignment explanation
Indices: 88892487--88892845 Score: 351
Period size: 93 Copynumber: 3.8 Consensus size: 93
88892477 TGATTTGTGC
* * * * *
88892487 GCCAGTGTAAGACGTGTCTGGGACATGCTTCGGCCACT-TTATGAGGGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCA-TACTATGAGAGCCAGTGTAAGACCATGT
* * * * ** *
88892551 CTGGGGCATGGTATCGACATCCAGACGAGG
65 CTGGGACATGGCATCGGCA-CAAGATTAGT
* * *
88892581 GCTAGTGTAAGACAT-TTTGGGACATGCATCAGCCATACTATGACAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTC
*
88892645 TGGGACATGGCACCGGCACAAAGATTAGT
66 TGGGACATGGCATCGGCAC-AAGATTAGT
*
88892674 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCC-TCGAC-A-GAGATAGCCAGTGTAAGA-CG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTATGAG--AGCCAGTGTAAGACCA
* *
88892735 TGTCTGGGACA-CGCATCGGC-TAAGAGTT-GT
62 TGTCTGGGACATGGCATCGGCACAAGA-TTAGT
* *
88892765 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGAGAGCCAGTGTAAGACCAT
*
88892829 GTCTGAGACATGGCATC
63 GTCTGGGACATGGCATC
88892846 AGCAATATAT
Statistics
Matches: 222, Mismatches: 27, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
91 38 0.17
92 17 0.08
93 98 0.44
94 53 0.24
95 16 0.07
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (93 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCACAAGATTAGT
Found at i:88892784 original size:44 final size:45
Alignment explanation
Indices: 88892626--88892795 Score: 184
Period size: 47 Copynumber: 3.7 Consensus size: 45
88892616 TACTATGACA
* *
88892626 GCCAGTGTAAGACCATGTCTGGGACATGGCACCGGC-ACAAAGATTAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAGAG-TT-GT
* * *
88892674 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGACAGAGAT-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCT--ACAGAGTTGT
* *
88892721 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTA-AGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGTTGT
*
88892765 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
88892796 AGCACGCGTA
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 5 0.05
44 29 0.28
46 7 0.07
47 45 0.43
48 12 0.12
49 1 0.01
50 5 0.05
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGTTGT
Found at i:88897707 original size:29 final size:29
Alignment explanation
Indices: 88897637--88897838 Score: 151
Period size: 29 Copynumber: 7.0 Consensus size: 29
88897627 TGTTCTAAAA
* * *
88897637 GATGGTCATAACCGTCCCTTTTCATTAATC
1 GATGGTCGTAACCATCCCTTTTCA-TAATT
* * *
88897667 GATGGTCATCACCATCCCTTTTCATAGTT
1 GATGGTCGTAACCATCCCTTTTCATAATT
* *
88897696 GATGGTCGTCACCATCCTTTTTCATAATT
1 GATGGTCGTAACCATCCCTTTTCATAATT
*** * * *
88897725 GATACCCG-AAGCTATCCCTTTCCATAATC
1 GATGGTCGTAA-CCATCCCTTTTCATAATT
* ** *
88897754 GATAG-CCAAAGCTATCCCTTTTCAT-ATT
1 GATGGTCGTAA-CCATCCCTTTTCATAATT
*
88897782 CGATGGTCGT-ACCATCCCTTTTCATAGTT
1 -GATGGTCGTAACCATCCCTTTTCATAATT
* *
88897811 GATGGTCGTCACTATCCCTTTTCATAAT
1 GATGGTCGTAACCATCCCTTTTCATAAT
88897839 CGATAGCCGA
Statistics
Matches: 140, Mismatches: 26, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
28 26 0.19
29 91 0.65
30 23 0.16
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (29 bp):
GATGGTCGTAACCATCCCTTTTCATAATT
Found at i:88897838 original size:86 final size:87
Alignment explanation
Indices: 88897680--88897865 Score: 234
Period size: 86 Copynumber: 2.1 Consensus size: 87
88897670 GGTCATCACC
*
88897680 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCTTTTTCATAATTGATACCCGAAGCTATCCCTT
1 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATACCCGAAGCTATCCCTT
88897745 TCCATAATCGATAGCCAAAGCT
66 TCCATAATCGATAGCCAAAGCT
* *** *
88897767 ATCCCTTTTCATA-TTCGATGGTCGT-ACCATCCCTTTTCATAGTTGATGGTCGTCA-CTATCCC
1 ATCCCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATAATTGATACCCG-AAGCTATCCC
* * *
88897829 TTTTCATAATCGATAGCCGAGGCT
64 TTTCCATAATCGATAGCCAAAGCT
* *
88897853 ATCTCTTTCCATA
1 ATCCCTTTTCATA
88897866 ATCAATACCC
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
86 63 0.73
87 23 0.27
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (87 bp):
ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATACCCGAAGCTATCCCTT
TCCATAATCGATAGCCAAAGCT
Found at i:88897854 original size:29 final size:29
Alignment explanation
Indices: 88897709--88897922 Score: 189
Period size: 29 Copynumber: 7.4 Consensus size: 29
88897699 GGTCGTCACC
* * *
88897709 ATCCTTTTTCATAATTGATACCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* *
88897738 ATCCCTTTCCATAATCGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * * *
88897767 ATCCCTTTTCATATTCGATGGTCGTA-CC
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * * *
88897795 ATCCCTTTTCATAGTTGATGGTCGTCA-CT
1 ATCCCTTTTCATAATCGATAGCCG-AAGCT
*
88897824 ATCCCTTTTCATAATCGATAGCCGAGGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * * *
88897853 ATCTCTTTCCATAATCAATACCCGAGGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * *
88897882 ATCCCTTTTCATATTTGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
88897911 ATCCCTTTTCAT
1 ATCCCTTTTCAT
88897923 TGGTCGTTGA
Statistics
Matches: 149, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
28 23 0.15
29 126 0.85
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:88897883 original size:115 final size:116
Alignment explanation
Indices: 88897651--88897896 Score: 368
Period size: 115 Copynumber: 2.1 Consensus size: 116
88897641 GTCATAACCG
* *
88897651 TCCCTTTTCATTAATCGATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTTT
1 TCCCTTTTCA-TATTCGATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTT
* * *
88897716 TTCATAATTGATACCCGAAGCTATCCCTTTCCATAATCGATAGCCAAAGCTA
65 TTCATAATCGATACCCGAAGCTATCCCTTTCCATAATCAATACCCAAAGCTA
* *
88897768 TCCCTTTTCATATTCGATGGTCGT-ACCATCCCTTTTCATAGTTGATGGTCGTCACTATCCCTTT
1 TCCCTTTTCATATTCGATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTT
* * * * *
88897832 TCATAATCGATAGCCGAGGCTATCTCTTTCCATAATCAATACCCGAGGCTA
66 TCATAATCGATACCCGAAGCTATCCCTTTCCATAATCAATACCCAAAGCTA
88897883 TCCCTTTTCATATT
1 TCCCTTTTCATATT
88897897 TGATAGCCAA
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
115 95 0.81
116 12 0.10
117 10 0.09
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.37
Consensus pattern (116 bp):
TCCCTTTTCATATTCGATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTT
TCATAATCGATACCCGAAGCTATCCCTTTCCATAATCAATACCCAAAGCTA
Found at i:88909920 original size:21 final size:21
Alignment explanation
Indices: 88909895--88909935 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
88909885 TGTACAAGAA
88909895 AAAAAGAGTGAAAAAAAAGACT
1 AAAAA-AGTGAAAAAAAAGACT
*
88909917 AAAAAATTGAAAAAAAAGA
1 AAAAAAGTGAAAAAAAAGA
88909936 AAGGAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.10
Consensus pattern (21 bp):
AAAAAAGTGAAAAAAAAGACT
Found at i:88918747 original size:60 final size:60
Alignment explanation
Indices: 88918675--88918796 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
88918665 AGAGTAGAGG
* ** *
88918675 TACCTTTCTTGGCTGATCTCTTTCGCTTTATGGCGTGCTCGTTTGGGTTGGGTGTCGGCT
1 TACCTTTCTTGGCTGATCCCTTTCGCTTTATGGAATGCTCGTTTGGGTTGGGCGTCGGCT
88918735 TACCTTTCTTGGCTGATCCCTTTCGCTTTATGGAATGCTCGTTTGGGTTGGGCGTCGGCT
1 TACCTTTCTTGGCTGATCCCTTTCGCTTTATGGAATGCTCGTTTGGGTTGGGCGTCGGCT
88918795 TA
1 TA
88918797 GAGTGCTCGG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.07, C:0.22, G:0.29, T:0.42
Consensus pattern (60 bp):
TACCTTTCTTGGCTGATCCCTTTCGCTTTATGGAATGCTCGTTTGGGTTGGGCGTCGGCT
Found at i:88919156 original size:27 final size:26
Alignment explanation
Indices: 88919111--88919189 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 26
88919101 CAAAATATTG
* *
88919111 AAATACCCCC-AGTTGTAAAATTACC
1 AAATACCCCCGATTTATAAAATTACC
* *
88919136 AAAGTACCCCCGGTTTATAAAACTACCC
1 AAA-TACCCCCGATTTATAAAATTA-CC
* * *
88919164 AAATATCCTCGATTTATAGAATTACC
1 AAATACCCCCGATTTATAAAATTACC
88919190 GTTTTACCCT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
25 3 0.07
26 9 0.21
27 25 0.60
28 5 0.12
ACGTcount: A:0.38, C:0.27, G:0.09, T:0.27
Consensus pattern (26 bp):
AAATACCCCCGATTTATAAAATTACC
Found at i:88919198 original size:54 final size:54
Alignment explanation
Indices: 88919140--88919260 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 54
88919130 ATTACCAAAG
* *
88919140 TACCCCCGGTTTATAAAACTACCCAAATATCCTCGATTTATAGAATTACCGTTT
1 TACCCCCGATTTATAAAACTACCCAAATACCCTCGATTTATAGAATTACCGTTT
* * * * **** *
88919194 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGTTTTATAGAATTACCGTTT
1 TACCCCCGATTTATAAAACTACCCAAATACCCTCGATTTATAGAATTACCGTTT
*
88919248 TACCCTCGATTTA
1 TACCCCCGATTTA
88919261 CAGAATTGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (54 bp):
TACCCCCGATTTATAAAACTACCCAAATACCCTCGATTTATAGAATTACCGTTT
Found at i:88919289 original size:27 final size:27
Alignment explanation
Indices: 88919170--88919287 Score: 182
Period size: 27 Copynumber: 4.4 Consensus size: 27
88919160 ACCCAAATAT
88919170 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
*
88919197 CCTCGATTTATAGAATTATCGTTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
*
88919224 CCTCGTTTTATAGAATTACCGTTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
* **
88919251 CCTCGATTTACAGAATTGTCGTTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
*
88919278 CCTTGATTTA
1 CCTCGATTTA
88919288 CAAAATTGCT
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (27 bp):
CCTCGATTTATAGAATTACCGTTTTAC
Found at i:88919305 original size:27 final size:27
Alignment explanation
Indices: 88919275--88919440 Score: 147
Period size: 27 Copynumber: 6.2 Consensus size: 27
88919265 ATTGTCGTTT
* *
88919275 TACCCTTGATTTACAAAATTGCTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* *
88919302 TACCCTTGGTTTACAAAATTACCAATA
1 TACCCTTGATTTACAAAATTACCAAAA
* * * *
88919329 TACCCTCGA-TCAGTAAAATTACGAAAA
1 TACCCTTGATTTA-CAAAATTACCAAAA
* *
88919356 TACCCTTGGTTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* * **
88919383 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* ** *
88919410 TACCCCTGATTTGTAAAA-TACCGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
88919436 TACCC
1 TACCC
88919441 ATGTAGGGTA
Statistics
Matches: 116, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
26 14 0.12
27 100 0.86
28 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:88919306 original size:54 final size:54
Alignment explanation
Indices: 88919194--88919376 Score: 125
Period size: 54 Copynumber: 3.4 Consensus size: 54
88919184 ATTACCGTTT
* * * * ****
88919194 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGTTTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACCAAAA
* * * *
88919248 TACCCTCGATTTACAGAATTGTCGTTTTACCCTTGATTTACAAAATTGCTAAAA
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACCAAAA
* * * * ** * * * *
88919302 TACCCTTGGTTTACAAAATTACCAATATACCCTCGA-TCAGTAAAATTACGAAAA
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTA-CAAAATTACCAAAA
* * *
88919356 TACCCTTGGTTTACAAAATTA
1 TACCCTCGATTTACAGAATTA
88919377 CTAAAATACC
Statistics
Matches: 103, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
53 2 0.02
54 101 0.98
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACCAAAA
Found at i:88919377 original size:54 final size:54
Alignment explanation
Indices: 88919289--88919440 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 54
88919279 CTTGATTTAC
* * *
88919289 AAAATTGCTAAAATACCCTTGGTTTACAAAATTACCAATATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCT-GATCAGT
* * * **
88919343 AAAATTACGAAAATACCCTTGGTTTACAAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATCAGT
* * ** *
88919397 AAAATTACCAAAATACCCCTGATTTGTAAAA-TACCGAAATACCC
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCC
88919441 ATGTAGGGTA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
53 11 0.13
54 68 0.82
55 4 0.05
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATCAGT
Found at i:88919426 original size:81 final size:80
Alignment explanation
Indices: 88919275--88919440 Score: 219
Period size: 81 Copynumber: 2.1 Consensus size: 80
88919265 ATTGTCGTTT
* * *
88919275 TACCCTTGATTTACAAAATTGCTAAAATACCCTTGGTTTACAAAATTACCAATATACCCTCGATC
1 TACCCTTGATTTACAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATC
88919340 AGTAAAATTA-CGAAAA
66 AGTAAAA-TACCG-AAA
* **
88919356 TACCCTTGGTTTACAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTGAT
1 TACCCTTGATTTACAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTC-GAT
**
88919420 TTGTAAAATACCGAAA
65 CAGTAAAATACCGAAA
88919436 TACCC
1 TACCC
88919441 ATGTAGGGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 11 0.15
81 64 0.85
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (80 bp):
TACCCTTGATTTACAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATC
AGTAAAATACCGAAA
Found at i:88919472 original size:27 final size:27
Alignment explanation
Indices: 88919428--88919618 Score: 260
Period size: 27 Copynumber: 7.1 Consensus size: 27
88919418 ATTTGTAAAA
88919428 TACCGAAATACCCATGTAGGGTAGAAT
1 TACCGAAATACCCATGTAGGGTAGAAT
* * *
88919455 TACTGAAATACCCTTGTAAGGTAGAAT
1 TACCGAAATACCCATGTAGGGTAGAAT
88919482 TACCGAAATACCCCA-GTAGGGTAGAAT
1 TACCGAAATA-CCCATGTAGGGTAGAAT
* *
88919509 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCATGTAGGGTAGAAT
* *
88919536 TATCGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCATGTAGGGTAGAAT
*
88919563 TACCGAAATATCCC-TGTAGAGTAGAAT
1 TACCGAAATA-CCCATGTAGGGTAGAAT
* *
88919590 TACCGAGATACCCATGTAGGGTAAAAT
1 TACCGAAATACCCATGTAGGGTAGAAT
88919617 TA
1 TA
88919619 TCATTTTGCC
Statistics
Matches: 144, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
26 6 0.04
27 132 0.92
28 6 0.04
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCATGTAGGGTAGAAT
Found at i:88919544 original size:81 final size:82
Alignment explanation
Indices: 88919428--88919620 Score: 300
Period size: 81 Copynumber: 2.4 Consensus size: 82
88919418 ATTTGTAAAA
88919428 TACCGAAATACCCATGTAGGGTAGAATTA-CTGAAATACCCTTGTAAGGTAGAATTACCGAAATA
1 TACCGAAATACCCATGTAGGGTAGAATTATCTGAAATACCCTTGTAAGGTAGAATTACCGAAATA
*
88919492 CCCCAGTAGGGTAGAAT
66 CCCCAGTAGAGTAGAAT
* * *
88919509 TACTGAAATACCCCTGTAGGGTAGAATTATC-GAAATACCCTTGTAGGGTAGAATTACCGAAATA
1 TACCGAAATACCCATGTAGGGTAGAATTATCTGAAATACCCTTGTAAGGTAGAATTACCGAAATA
* *
88919573 TCCCTGTAGAGTAGAAT
66 CCCCAGTAGAGTAGAAT
* *
88919590 TACCGAGATACCCATGTAGGGTAAAATTATC
1 TACCGAAATACCCATGTAGGGTAGAATTATC
88919621 ATTTTGCCCC
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 100 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (82 bp):
TACCGAAATACCCATGTAGGGTAGAATTATCTGAAATACCCTTGTAAGGTAGAATTACCGAAATA
CCCCAGTAGAGTAGAAT
Found at i:88919859 original size:25 final size:25
Alignment explanation
Indices: 88919825--88919916 Score: 150
Period size: 25 Copynumber: 3.7 Consensus size: 25
88919815 AGGAAGTGCT
*
88919825 AAAAGGGCTTTGCTCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
88919850 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
88919875 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
88919899 AAAGAGGGCTTTGCCCCA
1 AAA-AGGGCTTTGCCCCA
88919917 ATTATTAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
24 3 0.05
25 61 0.95
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:88919927 original size:25 final size:25
Alignment explanation
Indices: 88919853--88919930 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
88919843 TTTACCGAAA
* **
88919853 AGGGCTTTGCCCCAGTTTACCGAAA-
1 AGGGCTTTGCCCCAATTTA-TAAAAG
* *
88919878 AGGGCTTTGCCCCAGTTTATCAAAG
1 AGGGCTTTGCCCCAATTTATAAAAG
88919903 AGGGCTTTGCCCCAA-TTATTAAAAG
1 AGGGCTTTGCCCCAATTTA-TAAAAG
88919928 AGG
1 AGG
88919931 TTAGGCCTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.13
25 41 0.87
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AGGGCTTTGCCCCAATTTATAAAAG
Found at i:88925575 original size:18 final size:20
Alignment explanation
Indices: 88925540--88925582 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
88925530 TGATTAAGAT
88925540 ATGATTTTTGATCCGTTTTTG
1 ATGATTTTTGAT-CGTTTTTG
88925561 ATGATTTTT-AT-GTTTTTG
1 ATGATTTTTGATCGTTTTTG
88925579 -TGAT
1 ATGAT
88925583 CGTTGCTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.18
18 7 0.32
20 2 0.09
21 9 0.41
ACGTcount: A:0.16, C:0.05, G:0.19, T:0.60
Consensus pattern (20 bp):
ATGATTTTTGATCGTTTTTG
Found at i:88927675 original size:5 final size:5
Alignment explanation
Indices: 88927665--88927742 Score: 52
Period size: 5 Copynumber: 15.0 Consensus size: 5
88927655 ATTATTGTCC
* * *
88927665 ATTAT ATTAT ATCTATT ATTAT -TTACT TTTAA ATTAT ATGTA- ATTAA
1 ATTAT ATTAT AT-TA-T ATTAT ATTA-T ATTAT ATTAT AT-TAT ATTAT
* *
88927712 ATTTTT ATTAT ATTAT ATGAT ATTAT ATTAT
1 A-TTAT ATTAT ATTAT ATTAT ATTAT ATTAT
88927743 TCTATATAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
4 5 0.09
5 38 0.66
6 12 0.21
7 3 0.05
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:88927780 original size:18 final size:18
Alignment explanation
Indices: 88927759--88927831 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 18
88927749 TAGTATATGT
88927759 ATTATTAATATTTTATTA
1 ATTATTAATATTTTATTA
88927777 ATTA--AATATTTT-TTA
1 ATTATTAATATTTTATTA
*
88927792 ATGTATGTATTATTATTTTTTTA
1 AT-TAT-TA--A-TATTTTATTA
*
88927815 GTTATTAATATTATTAT
1 ATTATTAATATT-TTAT
88927832 ATTATTATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
15 5 0.11
16 10 0.23
18 8 0.18
19 5 0.11
21 3 0.07
22 9 0.20
23 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
ATTATTAATATTTTATTA
Found at i:88931806 original size:28 final size:27
Alignment explanation
Indices: 88931713--88931819 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
88931703 AGGAAGCGTC
* * *
88931713 CTGGTGGCTATGCCATAATTATTTG-AT
1 CTGGTGGCTCTGCCA-CATTATCTGTAT
*
88931740 CTGGTGGCTCTGCCACATATTTCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
88931767 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
88931795 CTGGTGACTCTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
88931820 TCTAGCAGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.03
27 50 0.72
28 17 0.25
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:88931819 original size:54 final size:54
Alignment explanation
Indices: 88931713--88931822 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
88931703 AGGAAGCGTC
* * * *
88931713 CTGGTGGCTATGCCATAATTATTTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
88931767 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
88931821 CT
1 CT
88931823 AGCAGTCATG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 30 0.62
55 18 0.38
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.40
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:88932908 original size:11 final size:10
Alignment explanation
Indices: 88932880--88932913 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
88932870 AGCTTGTAAG
88932880 TATTCTGAAT
1 TATTCTGAAT
*
88932890 TTTTCTGAAT
1 TATTCTGAAT
88932900 ATATTCTGAAT
1 -TATTCTGAAT
88932911 TAT
1 TAT
88932914 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:88939621 original size:27 final size:27
Alignment explanation
Indices: 88939581--88939691 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
88939571 AGGAAGCGTC
* *
88939581 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
88939608 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGTT
* * *
88939635 CTGGTGGCTCTACCACGATTATCTGTA
1 CTGGTGGCTCTGCCACAATTATCTGTT
* * *
88939662 CTAGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
88939688 CTGG
1 CTGG
88939692 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
26 15 0.21
27 53 0.75
28 3 0.04
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:88943309 original size:32 final size:32
Alignment explanation
Indices: 88943248--88943336 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 32
88943238 ACTAAGTGTG
**
88943248 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
*
88943280 TATATATGTGT-GATTGGATATAA-CCGAATGTG
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGTC
* * * *
88943312 TATCTAGGTGTAGTTTGATATAGCC
1 TATATATGTGTAGTTGGATAAAGCC
88943337 TATTAAGATG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
31 2 0.04
32 41 0.89
33 3 0.07
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:88943504 original size:26 final size:26
Alignment explanation
Indices: 88943475--88943618 Score: 139
Period size: 26 Copynumber: 5.5 Consensus size: 26
88943465 TTTGAGGGAT
88943475 GCACTAAGTGTGCGAGTTGGATTTAA
1 GCACTAAGTGTGCGAGTTGGATTTAA
* * * * *
88943501 GCACTATGTGTGTGAATT-AATTTTTGA
1 GCACTAAGTGTGCGAGTTGGA--TTTAA
88943528 GCACTAAGTGTGCGAGTTGGATTTAA
1 GCACTAAGTGTGCGAGTTGGATTTAA
* * * * *
88943554 GCACTATGTGTGTGAATT-AATTTTTGA
1 GCACTAAGTGTGCGAGTTGGA--TTTAA
88943581 GCACTAAGTGTGCGAGTTGGATTTAA
1 GCACTAAGTGTGCGAGTTGGATTTAA
*
88943607 GCACTATGTGTG
1 GCACTAAGTGTG
88943619 TGAATTAATT
Statistics
Matches: 91, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
25 2 0.02
26 49 0.54
27 38 0.42
28 2 0.02
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (26 bp):
GCACTAAGTGTGCGAGTTGGATTTAA
Found at i:88943532 original size:27 final size:27
Alignment explanation
Indices: 88943500--88943639 Score: 135
Period size: 27 Copynumber: 5.3 Consensus size: 27
88943490 GTTGGATTTA
88943500 AGCACTATGTGTGTGAATTAATTTTTG
1 AGCACTATGTGTGTGAATTAATTTTTG
* * * * *
88943527 AGCACTAAGTGTGCGAGTTGGA--TTTA
1 AGCACTATGTGTGTGAATT-AATTTTTG
88943553 AGCACTATGTGTGTGAATTAATTTTTG
1 AGCACTATGTGTGTGAATTAATTTTTG
* * * * *
88943580 AGCACTAAGTGTGCGAGTTGGA--TTTA
1 AGCACTATGTGTGTGAATT-AATTTTTG
*
88943606 AGCACTATGTGTGTGAATTAATTTCTG
1 AGCACTATGTGTGTGAATTAATTTTTG
88943633 AGCACTA
1 AGCACTA
88943640 AGTGGAAATC
Statistics
Matches: 86, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
25 2 0.02
26 38 0.44
27 44 0.51
28 2 0.02
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (27 bp):
AGCACTATGTGTGTGAATTAATTTTTG
Found at i:88943550 original size:53 final size:53
Alignment explanation
Indices: 88943475--88943643 Score: 329
Period size: 53 Copynumber: 3.2 Consensus size: 53
88943465 TTTGAGGGAT
88943475 GCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTTTGA
1 GCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTTTGA
88943528 GCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTTTGA
1 GCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTTTGA
*
88943581 GCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGA
1 GCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTTTGA
88943634 GCACTAAGTG
1 GCACTAAGTG
88943644 GAAATCGGTT
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
53 115 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.36
Consensus pattern (53 bp):
GCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTTTGA
Found at i:88950119 original size:31 final size:31
Alignment explanation
Indices: 88950084--88950145 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
88950074 ATTTGAAGTA
88950084 AAAATATTTATTTTATTATTTCTTTAAGGTC
1 AAAATATTTATTTTATTATTTCTTTAAGGTC
88950115 AAAATATTTATTTTATTATTTCTTTAAGGTC
1 AAAATATTTATTTTATTATTTCTTTAAGGTC
88950146 TACAGAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (31 bp):
AAAATATTTATTTTATTATTTCTTTAAGGTC
Found at i:88954109 original size:19 final size:20
Alignment explanation
Indices: 88954085--88954138 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
88954075 TTAAATGATG
88954085 TACTTATATAT-GAGAAATT
1 TACTTATATATGGAGAAATT
* *
88954104 TACTTATGCTATGGATAAATT
1 TACTTAT-ATATGGAGAAATT
*
88954125 CACTTATATCATGG
1 TACTTATAT-ATGG
88954139 TGATGATCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 7 0.25
20 4 0.14
21 17 0.61
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (20 bp):
TACTTATATATGGAGAAATT
Found at i:88958318 original size:3 final size:3
Alignment explanation
Indices: 88958310--88958339 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
88958300 ATAAATAGAA
88958310 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
88958340 TGAATAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:88959490 original size:30 final size:30
Alignment explanation
Indices: 88959428--88959490 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
88959418 GACACTGTCC
*
88959428 TGTGTCCAGGCCATATGGTCCACAAGGTCG
1 TGTGTCCAGGCCATATGGTCCACAAGGCCG
* * * *
88959458 TGTGTCCAGGCCGTGTGGTCCATACGGCCG
1 TGTGTCCAGGCCATATGGTCCACAAGGCCG
88959488 TGT
1 TGT
88959491 CCCACATCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.14, C:0.27, G:0.33, T:0.25
Consensus pattern (30 bp):
TGTGTCCAGGCCATATGGTCCACAAGGCCG
Found at i:88969115 original size:48 final size:48
Alignment explanation
Indices: 88968990--88969339 Score: 302
Period size: 48 Copynumber: 7.4 Consensus size: 48
88968980 TCCCAAGTGA
* * * *
88968990 GGTCTTACATGGGATCTCACATCGATGCC-A--ACA-A-CCCAGCTAT
1 GGTCTTACACGGGATCTCATATCGATGCCGATGCCATATCCCAGATAT
* * * * * * *
88969033 GGTCTTACAC-GAAGTCCCATAAT-GGTGCCGATGCCATGTCCTAAAAAT
1 GGTCTTACACGGGA-TCTCAT-ATCGATGCCGATGCCATATCCCAGATAT
* * *
88969081 GGTCTTATACGGGACCTCATATCGATGCCAATGCCATATCCCAGATAT
1 GGTCTTACACGGGATCTCATATCGATGCCGATGCCATATCCCAGATAT
* * ** * **
88969129 GGTCTTACATGGGATCTCATA-CTAATTTCGATGCCATGTCCCAGACGT
1 GGTCTTACACGGGATCTCATATC-GATGCCGATGCCATATCCCAGATAT
* * * * *
88969177 GGCCTTATACAGGATCTCTTATCGATGCCGATGTCATATCCCAGATAT
1 GGTCTTACACGGGATCTCATATCGATGCCGATGCCATATCCCAGATAT
* * *
88969225 GATCTTACACGGGATCTCATCTCGATGCTGATGCCATATCCCAGATAT
1 GGTCTTACACGGGATCTCATATCGATGCCGATGCCATATCCCAGATAT
* * * * *
88969273 CGTCTTACACGGGATCTCATTTCGATTCCAATGTCATATCCCAGATAT
1 GGTCTTACACGGGATCTCATATCGATGCCGATGCCATATCCCAGATAT
*
88969321 GGTCTTATACGGGATCTCA
1 GGTCTTACACGGGATCTCA
88969340 ATACTCACAT
Statistics
Matches: 236, Mismatches: 60, Indels: 17
0.75 0.19 0.05
Matches are distributed among these distances:
42 2 0.01
43 18 0.08
44 3 0.01
46 2 0.01
47 3 0.01
48 205 0.87
49 3 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (48 bp):
GGTCTTACACGGGATCTCATATCGATGCCGATGCCATATCCCAGATAT
Found at i:88969164 original size:96 final size:96
Alignment explanation
Indices: 88969061--88969346 Score: 342
Period size: 96 Copynumber: 3.0 Consensus size: 96
88969051 ATAATGGTGC
* * * *
88969061 CGATGCCATGTCCTAAAAATGGTCTTATACGGGACCTCATATCGATGCCAATGCCATATCCCAGA
1 CGATGCCATGTCCCAGAAATGGTCTTATACGGGATCTCATATCGATGCCAATGTCATATCCCAGA
* *
88969126 TATGGTCTTACATGGGATCTCATACT-AATTT
66 TATGGTCTTACACGGGATCTCATACTCAA-TG
** * * * *
88969157 CGATGCCATGTCCCAGACGTGGCCTTATACAGGATCTCTTATCGATGCCGATGTCATATCCCAGA
1 CGATGCCATGTCCCAGAAATGGTCTTATACGGGATCTCATATCGATGCCAATGTCATATCCCAGA
* *
88969222 TATGATCTTACACGGGATCTCAT-CTCGATG
66 TATGGTCTTACACGGGATCTCATACTCAATG
* * * * * *
88969252 CTGATGCCATATCCCAGATATCGTCTTACACGGGATCTCATTTCGATTCCAATGTCATATCCCAG
1 C-GATGCCATGTCCCAGAAATGGTCTTATACGGGATCTCATATCGATGCCAATGTCATATCCCAG
*
88969317 ATATGGTCTTATACGGGATCTCAATACTCA
65 ATATGGTCTTACACGGGATCTC-ATACTCA
88969347 CATGTCGTGA
Statistics
Matches: 158, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
95 4 0.03
96 149 0.94
97 2 0.01
98 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (96 bp):
CGATGCCATGTCCCAGAAATGGTCTTATACGGGATCTCATATCGATGCCAATGTCATATCCCAGA
TATGGTCTTACACGGGATCTCATACTCAATG
Found at i:88971467 original size:20 final size:20
Alignment explanation
Indices: 88971418--88971467 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
88971408 ATTTGGTGAT
* *
88971418 GAGGTATCAAAACTTGGTAA
1 GAGGTATCAGAACCTGGTAA
88971438 GAGGTATCAGAACCTGGTAA
1 GAGGTATCAGAACCTGGTAA
*
88971458 GAGGTGTCAG
1 GAGGTATCAG
88971468 TACTTTGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.22
Consensus pattern (20 bp):
GAGGTATCAGAACCTGGTAA
Found at i:88975738 original size:42 final size:42
Alignment explanation
Indices: 88975679--88975842 Score: 206
Period size: 42 Copynumber: 3.9 Consensus size: 42
88975669 TTAGGGTTAC
* *
88975679 TGAGACTACGTGTAAGACCATATTTGGGATATGGCATCAATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
* *
88975721 TGAGACTTCGTGTAAGACCATATCTGGGATATGACATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
*
88975763 TGAGACTTCGTGTAAGACCAT-TGCTGGGTTATTGGCATCAATA
1 TGAGACTTCGTGTAAGACCATAT-CTGGGATA-TGGCATCAATA
* * * *
88975806 CGAGA-TTACATATAAGACCATATCTGGGATATAGCAT
1 TGAGACTT-CGTGTAAGACCATATCTGGGATATGGCAT
88975843 TGGTATGGTA
Statistics
Matches: 106, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 73 0.69
43 31 0.29
44 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:88975826 original size:85 final size:84
Alignment explanation
Indices: 88975679--88975837 Score: 223
Period size: 85 Copynumber: 1.9 Consensus size: 84
88975669 TTAGGGTTAC
* * * *
88975679 TGAGACTACGTGTAAGACCATATTTGGGATATGGCATCAATATGAGACTTCGTGTAAGACCATAT
1 TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAATACGAGACTTCATATAAGACCATAT
88975744 CTGGGATATGACATCGATA
66 CTGGGATATGACATCGATA
* *
88975763 TGAGACTTCGTGTAAGACCAT-TGCTGGGTTATTGGCATCAATACGAGA-TTACATATAAGACCA
1 TGAGACTACGTGTAAGACCATAT-CTGGGATA-TGGCATCAATACGAGACTT-CATATAAGACCA
88975826 TATCTGGGATAT
63 TATCTGGGATAT
88975838 AGCATTGGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
83 1 0.02
84 28 0.42
85 37 0.56
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (84 bp):
TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAATACGAGACTTCATATAAGACCATAT
CTGGGATATGACATCGATA
Found at i:88990059 original size:35 final size:34
Alignment explanation
Indices: 88990013--88990081 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 34
88990003 GGTACACACT
88990013 TGATTCGCGATGACTGCTACTGAGATCTCTTCCG
1 TGATTCGCGATGACTGCTACTGAGATCTCTTCCG
88990047 NTGATTCGCGATGACTGCTACTGAGATCTCTTCCG
1 -TGATTCGCGATGACTGCTACTGAGATCTCTTCCG
88990082 ATGTCCTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.32
Consensus pattern (34 bp):
TGATTCGCGATGACTGCTACTGAGATCTCTTCCG
Found at i:88993733 original size:123 final size:122
Alignment explanation
Indices: 88993514--88993929 Score: 628
Period size: 123 Copynumber: 3.5 Consensus size: 122
88993504 AAATAGGATT
*
88993514 TTAAATACTAAAAATAATAAACGAAAAAAAGGAAAGAAAAGAGAAAT-AAAAATGAGTTAAATTG
1 TTAAATACTAAAAATAATAAACGAAAAAAAGGAAAGAAAAGAGAAATCAAAAATGAGTTAAATTA
88993578 AATACTAAAAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTTAAA
66 AATACTAAAAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAG-TAAA
*
88993636 TTAAATACTAAAAATAATAAACGAAAAAAAGGAAAGAAAAGAGAAATCAAAAATGAATTAAATTA
1 TTAAATACTAAAAATAATAAACGAAAAAAAGGAAAGAAAAGAGAAATCAAAAATGAGTTAAATTA
* *
88993701 AATACTAAAAATAATAAACAAAAAAAGGAAAGAAAAGAGAAACAAAAAATGAG----
66 AATACTAAAAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTAAA
* * *
88993754 -----T--T---AATAATAAACGAAAATAAAGGAAAGAAAAGCGAACTAAAAAATGAGTTAAATT
1 TTAAATACTAAAAATAATAAACGAAAA-AAAGGAAAGAAAAGAGAAATCAAAAATGAGTTAAATT
88993809 AAATACTAAAAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTCAAA
65 AAATACTAAAAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGT-AAA
*
88993868 TTAAATACTAAAAATAATAAACAAAAAAAAGGAAAGAAAAGAGAAATCAAAAATGAGTTAAA
1 TTAAATACTAAAAATAATAAACGAAAAAAAGGAAAGAAAAGAGAAATCAAAAATGAGTTAAA
88993930 AAGAAAATAA
Statistics
Matches: 263, Mismatches: 14, Indels: 33
0.85 0.05 0.11
Matches are distributed among these distances:
108 15 0.06
109 85 0.32
111 1 0.00
113 1 0.00
119 1 0.00
121 1 0.00
122 47 0.18
123 98 0.37
124 14 0.05
ACGTcount: A:0.67, C:0.05, G:0.13, T:0.16
Consensus pattern (122 bp):
TTAAATACTAAAAATAATAAACGAAAAAAAGGAAAGAAAAGAGAAATCAAAAATGAGTTAAATTA
AATACTAAAAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTAAA
Found at i:88993782 original size:48 final size:46
Alignment explanation
Indices: 88993710--88993805 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 46
88993700 AAATACTAAA
88993710 AATAATAAACAAAAAAAGGAAAGAAAAGAGAAAC-AAAAAATGAGTT
1 AATAATAAACAAAAAAAGGAAAGAAAAGAG-AACTAAAAAATGAGTT
*
88993756 AATAATAAACGAAAATAAAGGAAAGAAAAGCGAACTAAAAAATGAGTT
1 AATAATAAAC-AAAA-AAAGGAAAGAAAAGAGAACTAAAAAATGAGTT
88993804 AA
1 AA
88993806 ATTAAATACT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
46 10 0.22
47 7 0.15
48 29 0.63
ACGTcount: A:0.67, C:0.05, G:0.16, T:0.12
Consensus pattern (46 bp):
AATAATAAACAAAAAAAGGAAAGAAAAGAGAACTAAAAAATGAGTT
Found at i:88993798 original size:109 final size:108
Alignment explanation
Indices: 88993648--88993863 Score: 369
Period size: 109 Copynumber: 2.0 Consensus size: 108
88993638 AAATACTAAA
*
88993648 AATAATAAACGAAAAAAAGGAAAGAAAAGAGAAATCAAAAATGAATTAAATTAAATACTAAAAAT
1 AATAATAAACGAAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAATTAAATTAAATACTAAAAAT
88993713 AATAAACAAAAAAAGGAAAGAAAAGAGAAACAAAAAATGAGTT
66 AATAAACAAAAAAAGGAAAGAAAAGAGAAACAAAAAATGAGTT
* * *
88993756 AATAATAAACGAAAATAAAGGAAAGAAAAGCGAACTAAAAAATGAGTTAAATTAAATACTAAAAA
1 AATAATAAACGAAAA-AAAGGAAAGAAAAGAGAAATAAAAAATGAATTAAATTAAATACTAAAAA
* *
88993821 TAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGT
65 TAATAAACAAAAAAAGGAAAGAAAAGAGAAACAAAAAATGAGT
88993864 CAAATTAAAT
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
108 15 0.15
109 86 0.85
ACGTcount: A:0.67, C:0.05, G:0.14, T:0.14
Consensus pattern (108 bp):
AATAATAAACGAAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAATTAAATTAAATACTAAAAAT
AATAAACAAAAAAAGGAAAGAAAAGAGAAACAAAAAATGAGTT
Found at i:88993856 original size:61 final size:61
Alignment explanation
Indices: 88993514--88993929 Score: 583
Period size: 61 Copynumber: 7.0 Consensus size: 61
88993504 AAATAGGATT
88993514 TTAAATACTAAAAATAATAAACGAAAAAAAGGAAAGAAAAGAGAAAT-AAAAATGAGTTAAA
1 TTAAATACTAAAAATAATAAACG-AAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTTAAA
*
88993575 TTGAATACTAAAAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTTAAA
1 TTAAATACTAAAAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTTAAA
* *
88993636 TTAAATACTAAAAATAATAAACGAAAAAAAGGAAAGAAAAGAGAAATCAAAAATGAATTAAA
1 TTAAATACTAAAAATAATAAACG-AAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTTAAA
* *
88993698 TTAAATACTAAAAATAATAAACAAAAAAAGGAAAGAAAAGAGAAACAAAAAATGAGTT-AA
1 TTAAATACTAAAAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTTAAA
* * * *
88993758 -T-AATA--AACGAA-AATAAA-G--GAAA-G----AAAAGCGAACTAAAAAATGAGTTAAA
1 TTAAATACTAA-AAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTTAAA
*
88993807 TTAAATACTAAAAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTCAAA
1 TTAAATACTAAAAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTTAAA
* *
88993868 TTAAATACTAAAAATAATAAACAAAAAAAAGGAAAGAAAAGAGAAATCAAAAATGAGTTAAA
1 TTAAATACTAAAAATAATAAAC-GAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTTAAA
88993930 AAGAAAATAA
Statistics
Matches: 315, Mismatches: 22, Indels: 35
0.85 0.06 0.09
Matches are distributed among these distances:
48 20 0.06
49 2 0.01
50 1 0.00
51 4 0.01
52 3 0.01
53 11 0.03
54 1 0.00
56 11 0.03
57 3 0.01
58 4 0.01
59 1 0.00
60 25 0.08
61 135 0.43
62 94 0.30
ACGTcount: A:0.67, C:0.05, G:0.13, T:0.16
Consensus pattern (61 bp):
TTAAATACTAAAAATAATAAACGAAAAAAGGAAAGAAAAGAGAAATAAAAAATGAGTTAAA
Found at i:88995125 original size:17 final size:17
Alignment explanation
Indices: 88995103--88995144 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
88995093 GCTGTACAAA
88995103 TAATATTTTA-ATAGATT
1 TAATATTTTATATA-ATT
*
88995120 TAATATTTTATTTAATT
1 TAATATTTTATATAATT
88995137 TAATATTT
1 TAATATTT
88995145 ATCTTAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TAATATTTTATATAATT
Found at i:88995151 original size:17 final size:16
Alignment explanation
Indices: 88995117--88995213 Score: 67
Period size: 17 Copynumber: 5.8 Consensus size: 16
88995107 ATTTTAATAG
88995117 ATTTAATATTTTATTTA
1 ATTTAATA-TTTATTTA
88995134 ATTTAATATTTATCTTA
1 ATTTAATATTTAT-TTA
*
88995151 A--TAGTATTTA-TTA
1 ATTTAATATTTATTTA
*
88995164 ATTTAATATTAAAGTGGTT-
1 ATTTAATATT-TA-T--TTA
88995183 ATCTTAATATTTAATTTA
1 AT-TTAATATTT-ATTTA
*
88995201 ATTTAATTTTTAT
1 ATTTAATATTTAT
88995214 CTTGTAGATA
Statistics
Matches: 64, Mismatches: 5, Indels: 23
0.70 0.05 0.25
Matches are distributed among these distances:
13 4 0.06
15 14 0.22
16 8 0.12
17 22 0.34
18 2 0.03
19 3 0.05
20 11 0.17
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (16 bp):
ATTTAATATTTATTTA
Found at i:88995248 original size:72 final size:67
Alignment explanation
Indices: 88995119--88995251 Score: 185
Period size: 67 Copynumber: 1.9 Consensus size: 67
88995109 TTTAATAGAT
* *
88995119 TTAATATTTTATTTAATTTAATATTTATCTTAATAGTATTTATTAATTTAATATTAAAGTGGTTA
1 TTAATATTTAATTTAATTTAATATTTATCTTAATAATATTTATTAATTTAATATTAAAGTGGTTA
88995184 TC
66 TC
* *
88995186 TTAATATTTAATTTAATTTAATTTTTATCTTGTAGATAAATATTCTATTAATTTAATGTTAAAGT
1 TTAATATTTAATTTAATTTAATATTTATC-T-TA-AT-AATATT-TATTAATTTAATATTAAAGT
88995251 G
61 G
88995252 ATTAAGTTGA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
67 27 0.47
68 1 0.02
69 2 0.04
70 2 0.04
71 5 0.09
72 20 0.35
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (67 bp):
TTAATATTTAATTTAATTTAATATTTATCTTAATAATATTTATTAATTTAATATTAAAGTGGTTA
TC
Found at i:88996518 original size:27 final size:27
Alignment explanation
Indices: 88996487--88996542 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
88996477 GTTTAGTGGT
*
88996487 ATGTGTAATTAAATTTTGATTAAGTGA
1 ATGTGTAATTAAAATTTGATTAAGTGA
88996514 ATGTGTAATTAAAATTTGATTAAGTGA
1 ATGTGTAATTAAAATTTGATTAAGTGA
88996541 AT
1 AT
88996543 TTAGTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (27 bp):
ATGTGTAATTAAAATTTGATTAAGTGA
Found at i:88996759 original size:3 final size:3
Alignment explanation
Indices: 88996751--88996776 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
88996741 AAGTAGAAGA
88996751 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
88996777 ATGTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:88997377 original size:22 final size:22
Alignment explanation
Indices: 88997334--88997379 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
88997324 GTTTCGTAGG
* * *
88997334 GAATTGAGCAATAAAAAGATAT
1 GAATTGAACAAGAAAAACATAT
*
88997356 GAATTGAACAAGAAAACCATAT
1 GAATTGAACAAGAAAAACATAT
88997378 GA
1 GA
88997380 GTTAAGTTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (22 bp):
GAATTGAACAAGAAAAACATAT
Found at i:88997697 original size:18 final size:20
Alignment explanation
Indices: 88997656--88997697 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
88997646 AATGAACTGA
* *
88997656 TAAAATTTGTGATTGGATAT
1 TAAAATTTGAGATTGGATAC
88997676 TAAAA-TTGAGATT-GATAC
1 TAAAATTTGAGATTGGATAC
88997694 TAAA
1 TAAA
88997698 CTGAACTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 7 0.35
20 5 0.25
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.38
Consensus pattern (20 bp):
TAAAATTTGAGATTGGATAC
Found at i:88997791 original size:40 final size:40
Alignment explanation
Indices: 88997713--88997796 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
88997703 CTATGGGATG
** *
88997713 CTGAATATTGTTTTGAATACTGAATTGAACTATGAAATTA
1 CTGAATATTGTTACGAATACTGAATTGAACTATAAAATTA
* * * * *
88997753 CTGAATATTGTTACGTATACTGCATTGAATTGTAAAATTT
1 CTGAATATTGTTACGAATACTGAATTGAACTATAAAATTA
88997793 CTGA
1 CTGA
88997797 TGAAACGAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (40 bp):
CTGAATATTGTTACGAATACTGAATTGAACTATAAAATTA
Found at i:88998109 original size:45 final size:45
Alignment explanation
Indices: 88997999--88998109 Score: 125
Period size: 45 Copynumber: 2.5 Consensus size: 45
88997989 ATGTGCCGAC
* * *
88997999 TACTGTTACTATTATTGTTACCGATTCGACACTTTGTGTGTCAAA
1 TACTATTACTGTTATTGTTACCAATTCGACACTTTGTGTGTCAAA
** **
88998044 TACTATTACTGTTACCGTTACCAATTC-AGCACTTTGTGTGTTGAA
1 TACTATTACTGTTATTGTTACCAATTCGA-CACTTTGTGTGTCAAA
**
88998089 TACTATTGTTGTTATTGTTAC
1 TACTATTACTGTTATTGTTAC
88998110 TGCTACCGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 1 0.02
45 53 0.98
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.44
Consensus pattern (45 bp):
TACTATTACTGTTATTGTTACCAATTCGACACTTTGTGTGTCAAA
Found at i:89008124 original size:55 final size:54
Alignment explanation
Indices: 89008016--89008251 Score: 200
Period size: 55 Copynumber: 4.4 Consensus size: 54
89008006 GATGAATTTT
* * * * * *
89008016 CATGGTCTTACGTGGTATCC-T---TT-TGAAACTTACCATTTCCATGTCTCGA
1 CATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGCCTTGG
*
89008065 CATGGTCTTACATGGGGTATCCTTGCCTTATG-AACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACAT--GGTATCCTTGCCTTATGAAACTTACCAATGCCATGCCTTGG
* * * * * * *
89008120 CATGGTCTTACAAGGGA-CCTTTGCCTTATAGTAACTTATCAATGTCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TTGCCTTAT-GAAACTTACCAATGCCATGCCTTGG
* * * *
89008175 CATGCTCTTACATGATATCCTTGCCTTA-GAAACCTTACCAGTTGCCATGCCTCGG
1 CATGGTCTTACATGGTATCCTTGCCTTATGAAA-CTTACCA-ATGCCATGCCTTGG
89008230 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
89008252 AAACCCTAAT
Statistics
Matches: 147, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
49 12 0.08
51 7 0.05
52 3 0.02
53 15 0.10
54 7 0.05
55 99 0.67
56 4 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGCCTTGG
Found at i:89020512 original size:22 final size:22
Alignment explanation
Indices: 89020487--89020532 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
89020477 GTTTGGTAGG
89020487 GAATTG-AGTAACAAAAAGATAT
1 GAATTGAAG-AACAAAAAGATAT
* *
89020509 GAATTGAAGAAGAAAAATATAT
1 GAATTGAAGAACAAAAAGATAT
89020531 GA
1 GA
89020533 GTTTAGTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.57, C:0.02, G:0.20, T:0.22
Consensus pattern (22 bp):
GAATTGAAGAACAAAAAGATAT
Found at i:89028945 original size:223 final size:223
Alignment explanation
Indices: 89028557--89029002 Score: 865
Period size: 223 Copynumber: 2.0 Consensus size: 223
89028547 AAACAAAGTC
*
89028557 GGAGATGTCCCGTTTCATACCATGCCACCAAAACCGTCGTTTCAAATCGTTGTACATTTTCGTAC
1 GGAGATGTCCCGTTTCATACCATGCCACCAAAACCGACGTTTCAAATCGTTGTACATTTTCGTAC
89028622 TCCCCGGGTGAATTGACATTCGGCTACAATGAGCTTCGTTCAGAATCATCGAAATGAGTTCTGAA
66 TCCCCGGGTGAATTGACATTCGGCTACAATGAGCTTCGTTCAGAATCATCGAAATGAGTTCTGAA
89028687 TTTCTTGGAACACACAACCGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAATTCGGA
131 TTTCTTGGAACACACAACCGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAATTCGGA
89028752 TTCCATATTCGGAATACATTCAGCCCGT
196 TTCCATATTCGGAATACATTCAGCCCGT
**
89028780 GGAGATGTCCCGTTTCATACCATGCCACCAAAATTGACGTTTCAAATCGTTGTACATTTTCGTAC
1 GGAGATGTCCCGTTTCATACCATGCCACCAAAACCGACGTTTCAAATCGTTGTACATTTTCGTAC
89028845 TCCCCGGGTGAATTGACATTCGGCTACAATGAGCTTCGTTCAGAATCATCGAAATGAGTTCTGAA
66 TCCCCGGGTGAATTGACATTCGGCTACAATGAGCTTCGTTCAGAATCATCGAAATGAGTTCTGAA
89028910 TTTCTTGGAACACACAACCGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAATTCGGA
131 TTTCTTGGAACACACAACCGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAATTCGGA
89028975 TTCCATATTCGGAATACATTCAGCCCGT
196 TTCCATATTCGGAATACATTCAGCCCGT
89029003 TTTGCAACCA
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
223 220 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (223 bp):
GGAGATGTCCCGTTTCATACCATGCCACCAAAACCGACGTTTCAAATCGTTGTACATTTTCGTAC
TCCCCGGGTGAATTGACATTCGGCTACAATGAGCTTCGTTCAGAATCATCGAAATGAGTTCTGAA
TTTCTTGGAACACACAACCGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAATTCGGA
TTCCATATTCGGAATACATTCAGCCCGT
Found at i:89033769 original size:27 final size:27
Alignment explanation
Indices: 89033752--89034079 Score: 269
Period size: 28 Copynumber: 11.9 Consensus size: 27
89033742 ATATTAAGTC
89033752 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
89033779 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
89033807 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
89033834 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
89033862 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* ** * *
89033889 CGCACACTTAGTGCTGCACAATTTAACT
1 CGCACACTCAGTGCTATATAA-TCAACT
* * *
89033917 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
89033945 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
89033972 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
89034000 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
89034027 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
89034055 CGCACACTTAGTGCTACATAGTCAA
1 CGCACACTCAGTGCTATATAATCAA
89034080 TNNNNNNNNN
Statistics
Matches: 278, Mismatches: 17, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
27 124 0.45
28 154 0.55
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:89033836 original size:55 final size:56
Alignment explanation
Indices: 89033752--89034079 Score: 513
Period size: 55 Copynumber: 5.9 Consensus size: 56
89033742 ATATTAAGTC
* * * *
89033752 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
89033807 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
* * * * **
89033862 CGCACACTTAGTGCTACATAGTC-AATTCGCACACTTAGTGCTGCACAATTTAACT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
*
89033917 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
*
89033972 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
89034027 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAA
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAA
89034080 TNNNNNNNNN
Statistics
Matches: 255, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
55 232 0.91
56 23 0.09
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:89034023 original size:138 final size:138
Alignment explanation
Indices: 89033752--89034079 Score: 559
Period size: 138 Copynumber: 2.4 Consensus size: 138
89033742 ATATTAAGTC
* * * *
89033752 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTTAGTGCTACACAATCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
89033816 AGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACAT
66 AGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACAT
89033881 AGTCAATT
131 AGTCAATT
* **
89033889 CGCACACTTAGTGCTGCACAATTTAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACACAATCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
*
89033954 AGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACAT
66 AGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACAT
89034019 AGTCAATT
131 AGTCAATT
* *
89034027 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAA
1 CGCACACTTAGTGCTACACAATCAAACTCGCACACTTAGTGCTACATAGTCAA
89034080 TNNNNNNNNN
Statistics
Matches: 178, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
137 18 0.10
138 160 0.90
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (138 bp):
CGCACACTTAGTGCTACACAATCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
AGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACAT
AGTCAATT
Found at i:89034070 original size:83 final size:83
Alignment explanation
Indices: 89033752--89034079 Score: 509
Period size: 83 Copynumber: 4.0 Consensus size: 83
89033742 ATATTAAGTC
* * * *
89033752 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AACTCGCACACTT
89033816 AGTGCTACATAGTC-AACT
65 AGTGCTACATAGTCAAACT
*
89033834 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCACACTTA
* * * **
89033899 GTGCTGCACAATTTAACT
66 GTGCTACATAGTCAAACT
*
89033917 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCACACTTA
89033982 GTGCTACATAGTCAAACT
66 GTGCTACATAGTCAAACT
*
89034000 CGCACACTTAGTGCTACATAGTC-AATTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AACTCGCACACTT
89034064 AGTGCTACATAGTCAA
65 AGTGCTACATAGTCAA
89034080 TNNNNNNNNN
Statistics
Matches: 227, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
82 68 0.30
83 159 0.70
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCACACTTA
GTGCTACATAGTCAAACT
Found at i:89036699 original size:63 final size:64
Alignment explanation
Indices: 89036607--89036759 Score: 175
Period size: 63 Copynumber: 2.3 Consensus size: 64
89036597 TAGAGTGTTC
* * * * *
89036607 TCCTTCTCCACACTTGTAGCATAAGCTAGATGCTGC-ACCAGTGGTGCATT-GTCGTGCAAAGTG
1 TCCTCCTCCACACTTGTAGCATAAACTAGATGATGCAACCAGTAGTGCATTCAT-GTGCAAAGTG
*
89036670 TCCTCCTCCACACTTGTAGTATAAACTAGATGATGCAGTACCAGTAGTGCATTCATGTGCAAAGT
1 TCCTCCTCCACACTTGTAGCATAAACTAGATGATGCA--ACCAGTAGTGCATTCATGTGCAAAGT
89036735 G
64 G
*
89036736 CCCTCCTTCACCACACTTGTAGCA
1 TCCTCC-T--CCACACTTGTAGCA
89036760 CAAGCTAGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
63 32 0.43
66 28 0.37
67 2 0.03
69 13 0.17
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (64 bp):
TCCTCCTCCACACTTGTAGCATAAACTAGATGATGCAACCAGTAGTGCATTCATGTGCAAAGTG
Found at i:89036705 original size:66 final size:63
Alignment explanation
Indices: 89036607--89036759 Score: 164
Period size: 66 Copynumber: 2.3 Consensus size: 63
89036597 TAGAGTGTTC
* * * * *
89036607 TCCTTCTCCACACTTGTAGCATAAGCTAGATGCTGCACCAGTGGTGCATT-GTCGTGCAAAGTG
1 TCCTCCTCCACACTTGTAGCATAAACTAGATGCAGCACCAGTAGTGCATTCAT-GTGCAAAGTG
* *
89036670 TCCTCCTCCACACTTGTAGTATAAACTAGATGATGCAGTACCAGTAGTGCATTCATGTGCAAAGT
1 TCCTCCTCCACACTTGTAGCATAAACT--A-GATGCAGCACCAGTAGTGCATTCATGTGCAAAGT
89036735 G
63 G
*
89036736 CCCTCCTTCACCACACTTGTAGCA
1 TCCTCC-T--CCACACTTGTAGCA
89036760 CAAGCTAGGT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
63 24 0.32
65 1 0.01
66 34 0.46
67 2 0.03
69 13 0.18
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (63 bp):
TCCTCCTCCACACTTGTAGCATAAACTAGATGCAGCACCAGTAGTGCATTCATGTGCAAAGTG
Found at i:89044748 original size:40 final size:40
Alignment explanation
Indices: 89044704--89044840 Score: 229
Period size: 40 Copynumber: 3.4 Consensus size: 40
89044694 GGCTCGGATG
*
89044704 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
* *
89044744 TAATAACCCCCACGAATGCCTTCGGGACTTACCCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
*
89044784 TAATAACCCGCACGAATGCCTTCGGGACTTAACCTGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
*
89044824 CAATAACCCGCACGAAT
1 TAATAACCCGCACGAAT
89044841 ACTATGCACA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (40 bp):
TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
Found at i:89047832 original size:60 final size:60
Alignment explanation
Indices: 89047766--89047885 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
89047756 AATAATTTGT
*
89047766 AAAACTTGCATTGTAGAAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTC
1 AAAACTTGCATTCTAGAAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTC
89047826 AAAACTTGCATTCTAGAAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTC
1 AAAACTTGCATTCTAGAAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTC
89047886 TTAAATAGAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.38
Consensus pattern (60 bp):
AAAACTTGCATTCTAGAAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTC
Found at i:89047909 original size:60 final size:60
Alignment explanation
Indices: 89047782--89047910 Score: 181
Period size: 60 Copynumber: 2.1 Consensus size: 60
89047772 TGCATTGTAG
* * *
89047782 AAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCAAAACTTGCATTCTAG
1 AAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCAAAACTAGAATTCTAC
* *
89047842 AAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCTTAAA-TAGAATTTTACC
1 AAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTC-AAAACTAGAATTCTA-C
89047903 AA-TTTCTA
1 AAGTTTCTA
89047911 AGTCTATGGA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
60 57 0.92
61 5 0.08
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (60 bp):
AAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCAAAACTAGAATTCTAC
Found at i:89048981 original size:46 final size:46
Alignment explanation
Indices: 89048928--89049196 Score: 316
Period size: 46 Copynumber: 5.8 Consensus size: 46
89048918 TATTTGGGCA
89048928 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
89048974 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
89049019 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
89049067 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
89049112 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
89049160 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89049197 GCGGGTTACA
Statistics
Matches: 189, Mismatches: 20, Indels: 28
0.80 0.08 0.12
Matches are distributed among these distances:
43 12 0.06
45 8 0.04
46 92 0.49
47 58 0.31
48 8 0.04
50 11 0.06
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:89049062 original size:93 final size:93
Alignment explanation
Indices: 89048924--89049188 Score: 494
Period size: 93 Copynumber: 2.8 Consensus size: 93
89048914 GGGATATTTG
89048924 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
89048989 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
89049017 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
89049082 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
89049110 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
89049175 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
89049189 ACTTATGGGC
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 168 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:89049666 original size:107 final size:107
Alignment explanation
Indices: 89049480--89049694 Score: 430
Period size: 107 Copynumber: 2.0 Consensus size: 107
89049470 TTTTATGTTT
89049480 GCTTATATGGTTATGTTACTTGCTATTTGCATGTGAACTTATTAAGCATTTATGCTTACTCCCTC
1 GCTTATATGGTTATGTTACTTGCTATTTGCATGTGAACTTATTAAGCATTTATGCTTACTCCCTC
89049545 CTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGGAAATCA
66 CTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGGAAATCA
89049587 GCTTATATGGTTATGTTACTTGCTATTTGCATGTGAACTTATTAAGCATTTATGCTTACTCCCTC
1 GCTTATATGGTTATGTTACTTGCTATTTGCATGTGAACTTATTAAGCATTTATGCTTACTCCCTC
89049652 CTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGGAAATCA
66 CTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGGAAATCA
89049694 G
1 G
89049695 GAACGGTCGG
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 108 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.41
Consensus pattern (107 bp):
GCTTATATGGTTATGTTACTTGCTATTTGCATGTGAACTTATTAAGCATTTATGCTTACTCCCTC
CTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGGAAATCA
Found at i:89050265 original size:81 final size:81
Alignment explanation
Indices: 89050132--89050280 Score: 271
Period size: 81 Copynumber: 1.8 Consensus size: 81
89050122 GGACAGAGTG
* *
89050132 ATTTCTGGATCCCCTGTTCTGACTTTGGAAATTCACCATAAATTTTTCAAAGATAATTAGAAGTC
1 ATTTCTGGATCCACTGTTCTGACTTTGGAAATTCACCATAAATTTTACAAAGATAATTAGAAGTC
89050197 ATGATTTGCCAGAGCA
66 ATGATTTGCCAGAGCA
*
89050213 ATTTCTGGATCCACTGTTCTGACTTTGGAAATTCACCATAAATTTTAGAAAGATAATTAGAAGTC
1 ATTTCTGGATCCACTGTTCTGACTTTGGAAATTCACCATAAATTTTACAAAGATAATTAGAAGTC
89050278 ATG
66 ATG
89050281 CTTTATATGT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (81 bp):
ATTTCTGGATCCACTGTTCTGACTTTGGAAATTCACCATAAATTTTACAAAGATAATTAGAAGTC
ATGATTTGCCAGAGCA
Found at i:89050435 original size:80 final size:80
Alignment explanation
Indices: 89050302--89050460 Score: 248
Period size: 80 Copynumber: 2.0 Consensus size: 80
89050292 CAGATTCCTT
*
89050302 ATTGAGTATAGTTTTATTAGAAACAAATAGCATAGTCATTGAAACTCTGTACAGGGAGATATATG
1 ATTGAGTATAGTTTTATTAGAAACAAAGAGCATAGTCATTGAAACTCTGTACAGGGAGATATATG
89050367 ATTCGTAATACACAC
66 ATTCGTAATACACAC
** * * *
89050382 ATTGAGTATAGTTTTATTAGAGATGAACGA-CATAGTCATTGAATCTCTGTACAGGGAGATATCT
1 ATTGAGTATAGTTTTATTAGA-AACAAAGAGCATAGTCATTGAAACTCTGTACAGGGAGATATAT
89050446 GATTCGTAATACACA
65 GATTCGTAATACACA
89050461 GATGTCAGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
80 68 0.94
81 4 0.06
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (80 bp):
ATTGAGTATAGTTTTATTAGAAACAAAGAGCATAGTCATTGAAACTCTGTACAGGGAGATATATG
ATTCGTAATACACAC
Found at i:89055894 original size:15 final size:15
Alignment explanation
Indices: 89055846--89055925 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
89055836 GTACCTTGGG
*
89055846 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
89055861 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
89055876 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
89055891 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
* *
89055906 TTTCTCTATTC-GGT
1 TTTCTTTATTCTGGA
89055920 TTTCTT
1 TTTCTT
89055926 ATTATCTTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 44 0.80
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:89058364 original size:46 final size:45
Alignment explanation
Indices: 89058311--89058486 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
89058301 TATTTGGGCA
89058311 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
89058357 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
89058404 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
89058450 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89058487 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:89058466 original size:93 final size:93
Alignment explanation
Indices: 89058307--89058478 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
89058297 AGGATATTTG
* *
89058307 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
89058372 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
89058400 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
89058465 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
89058479 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:89065100 original size:39 final size:39
Alignment explanation
Indices: 89065042--89065206 Score: 267
Period size: 39 Copynumber: 4.2 Consensus size: 39
89065032 CCAGACACTG
89065042 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTA
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTA
* * *
89065081 GAAATGTATCCGGGTTAAAGACCCGCAGGCTTCATGCTG
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTA
*
89065120 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTA
* * *
89065159 GAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTA
89065198 GAAATGTAT
1 GAAATGTAT
89065207 TCGTGCTGGT
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTA
Found at i:89069485 original size:16 final size:16
Alignment explanation
Indices: 89069464--89069506 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
89069454 ATGAATCGGC
89069464 AAAAGCCGAAATGCCA
1 AAAAGCCGAAATGCCA
** *
89069480 AAAAGCTAAAATGCCG
1 AAAAGCCGAAATGCCA
89069496 AAAAGCCGAAA
1 AAAAGCCGAAA
89069507 GTTTGGCTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.53, C:0.21, G:0.19, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:89069827 original size:28 final size:29
Alignment explanation
Indices: 89069719--89069831 Score: 142
Period size: 29 Copynumber: 4.0 Consensus size: 29
89069709 GAGAATGAAA
* * *
89069719 ATGAATGTGA-CTGGGCCTAACGGGCCAA
1 ATGAATGTGATTTGGGCCTAATGGGCCAT
*
89069747 ATAAATGTGATTTGGGCCTAATGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGGCCAT
89069776 AT-ACATGTGATTTGGGCCTAATGGGCCAT
1 ATGA-ATGTGATTTGGGCCTAATGGGCCAT
* *
89069805 ATGAATATGA-TTGGGCTTAATGGGCCA
1 ATGAATGTGATTTGGGCCTAATGGGCCA
89069832 GATACAGGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
28 26 0.34
29 49 0.64
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (29 bp):
ATGAATGTGATTTGGGCCTAATGGGCCAT
Found at i:89076788 original size:30 final size:30
Alignment explanation
Indices: 89076754--89076814 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
89076744 TCCTTAACTC
89076754 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
89076784 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
89076814 A
1 A
89076815 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:89077907 original size:29 final size:29
Alignment explanation
Indices: 89077873--89077981 Score: 96
Period size: 29 Copynumber: 3.8 Consensus size: 29
89077863 AATGTGGCTA
* *
89077873 GGCCTAACGGGCCA-ACTAAATGTGATTTG
1 GGCCTAATGGGCCATA-TAAAGGTGATTTG
* *
89077902 GGCCTAATGGGCTATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAAGGTGATTTG
* * **
89077931 GGCCTAATGGGCTATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAAGGTGATTTG
* * *
89077959 GGCTTAATGGGCCAGATACAGGT
1 GGCCTAATGGGCCATATAAAGGT
89077982 ATGTGAATTT
Statistics
Matches: 64, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
28 19 0.30
29 44 0.69
30 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAAGGTGATTTG
Found at i:89077968 original size:28 final size:29
Alignment explanation
Indices: 89077895--89077979 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 29
89077885 CAACTAAATG
*
89077895 TGATTTGGGCCTAATGGGCTATATACAGG
1 TGATTTGGGCCTAATGGGCTATATACAGA
*
89077924 TGATTTGGGCCTAATGGGCTATATGA-ATA
1 TGATTTGGGCCTAATGGGCTATAT-ACAGA
* * *
89077953 TGA-TTGGGCTTAATGGGCCAGATACAG
1 TGATTTGGGCCTAATGGGCTATATACAG
89077980 GTATGTGAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
27 1 0.02
28 18 0.38
29 28 0.58
30 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.31
Consensus pattern (29 bp):
TGATTTGGGCCTAATGGGCTATATACAGA
Found at i:89080239 original size:17 final size:18
Alignment explanation
Indices: 89080203--89080239 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
89080193 TATCCACATT
*
89080203 TTTATTCAACACTTATAA
1 TTTATTCAACACTAATAA
89080221 TTTATTCAAC-CTAATAA
1 TTTATTCAACACTAATAA
89080238 TT
1 TT
89080240 ATTTTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTATTCAACACTAATAA
Found at i:89081320 original size:31 final size:33
Alignment explanation
Indices: 89081263--89081327 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
89081253 TTTGGGTCAC
* *
89081263 AACCCATAAAAGAATCAATTGGGCCT-AGCCCA
1 AACCAATAAAAGAATCAAGTGGGCCTAAGCCCA
*
89081295 AACCAATAATAGAA-CAAGTGGGCCTAAGCCCA
1 AACCAATAAAAGAATCAAGTGGGCCTAAGCCCA
89081327 A
1 A
89081328 TACAGTGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.43, C:0.26, G:0.17, T:0.14
Consensus pattern (33 bp):
AACCAATAAAAGAATCAAGTGGGCCTAAGCCCA
Found at i:89082089 original size:27 final size:27
Alignment explanation
Indices: 89082052--89082145 Score: 95
Period size: 27 Copynumber: 3.5 Consensus size: 27
89082042 AAGGGCAAAA
*
89082052 TAGTCATTTTAC-CTTAC-AGGGTTATTT
1 TAGTAATTTTACAC-TACAAGGG-TATTT
89082079 TAGTAATTTTACACTACAAGGGTATTT
1 TAGTAATTTTACACTACAAGGGTATTT
* * *
89082106 TGGTAATTTTACA-AACTAGAGGTATTT
1 TAGTAATTTTACACTACAAG-GGTATTT
*
89082133 CAGTAATTTTACA
1 TAGTAATTTTACA
89082146 AGTTGAGGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
26 4 0.07
27 49 0.84
28 5 0.09
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.43
Consensus pattern (27 bp):
TAGTAATTTTACACTACAAGGGTATTT
Found at i:89092606 original size:48 final size:48
Alignment explanation
Indices: 89092234--89092646 Score: 257
Period size: 46 Copynumber: 8.7 Consensus size: 48
89092224 ATAAGGTGTG
89092234 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAT-T-A
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATCTCA
* * * * * ** ** *
89092282 A-GTCGATGCCACGTCCTAGACATGGTCTTACATTGACTAACGAAATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTCA
* * * * *
89092330 AGGCCGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTCACATATCT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCTCA
* ** * *
89092380 GTGCCGATATCATGTCCCAGACATGGTCTTACACTGACACT--TCT-A
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA
* * * * *
89092425 TACGTACCGATGCCATGTCCTAGACATGGTCTTACTCT-G-ACACATCTC-
1 -A--TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA
* * * ** *
89092473 ATAGCCAATG-CATGTCTCAGACAT-GTCTTACCCCAGCT-TACATCTCG
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCA
* * * *
89092520 AGGCCGATG-TATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA
* **
89092566 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-CTCA
*
89092615 A-GCCGATG-CATGTCCCAGAC-TTGTCTTACACT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACT
89092647 AGCACACAAA
Statistics
Matches: 282, Mismatches: 62, Indels: 44
0.73 0.16 0.11
Matches are distributed among these distances:
44 8 0.03
45 15 0.05
46 70 0.25
47 61 0.22
48 58 0.21
49 32 0.11
50 37 0.13
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA
Found at i:89094623 original size:45 final size:45
Alignment explanation
Indices: 89094563--89094657 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
89094553 TTGACCAGTG
*
89094563 GTAAATACCTATCCCAACTGCCTTAAAACTCGAGAACACAACACC
1 GTAACTACCTATCCCAACTGCCTTAAAACTCGAGAACACAACACC
* * *
89094608 GTAACTACCTTTCCCAACTGCCTTGAAACTCGAGAACATAACACC
1 GTAACTACCTATCCCAACTGCCTTAAAACTCGAGAACACAACACC
89094653 GTAAC
1 GTAAC
89094658 ATGTCCTCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.37, C:0.33, G:0.11, T:0.20
Consensus pattern (45 bp):
GTAACTACCTATCCCAACTGCCTTAAAACTCGAGAACACAACACC
Found at i:89100684 original size:46 final size:46
Alignment explanation
Indices: 89100635--89100814 Score: 168
Period size: 46 Copynumber: 3.9 Consensus size: 46
89100625 TACACTAACA
89100635 CATCTTGTAGCCGATGCATGTCCTAGACATGTCTTACACTGGCT-T
1 CATCTTGTAGCCGATGCATGTCCTAGACATGTCTTACACTGGCTCT
* * * * *
89100680 ACATCTCG-AGGCAGATGCATGTCCAAGACACGTCTTACACTAGCTCT
1 -CATCTTGTA-GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCT
* * * * *
89100727 CGTCTTAATA-CCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCT
1 CATCTT-GTAGCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTCT
** * *
89100775 CATAATGTGGCTGATGCATGTCCTAGACATGTCTTACACT
1 CATCTTGTAGCCGATGCATGTCCTAGACATGTCTTACACT
89100815 AGTGCACAAA
Statistics
Matches: 104, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
45 1 0.01
46 55 0.53
47 25 0.24
48 23 0.22
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (46 bp):
CATCTTGTAGCCGATGCATGTCCTAGACATGTCTTACACTGGCTCT
Found at i:89103064 original size:27 final size:27
Alignment explanation
Indices: 89103034--89103093 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
89103024 ATACATCACA
89103034 TAGGGGCATAACAATCATTTTATCAAT
1 TAGGGGCATAACAATCATTTTATCAAT
* * *
89103061 TAGGAGCATAACAGTCTTTTTATCAAT
1 TAGGGGCATAACAATCATTTTATCAAT
89103088 TAGGGG
1 TAGGGG
89103094 GTTTAGGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (27 bp):
TAGGGGCATAACAATCATTTTATCAAT
Done.