Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 103 of 444
Found at i:25291088 original size:27 final size:27
Alignment explanation
Indices: 25290988--25291071 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
25290978 GGGCATATTC
* *
25290988 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
* * *
25291015 GTCACTTTACCTTGCAGGGCCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
25291042 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
25291069 GTC
1 GTC
25291072 TTTTTACCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:25291163 original size:27 final size:27
Alignment explanation
Indices: 25291110--25291678 Score: 169
Period size: 27 Copynumber: 21.0 Consensus size: 27
25291100 TTTCATCCTA
* * * * * *
25291110 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
25291137 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* ** *
25291164 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-T
** * *
25291193 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
25291220 CAGGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
** * *
25291247 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
25291273 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTATAAAT
* * *
25291300 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTCGGTAATTTTATAAAT
** * *
25291328 TGAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* ** * *
25291355 CGAGGGTAAAAT-AGTAATTCTATAAAT
1 CAAGGGT-ATTTCGGTAATTTTATAAAT
* * *** * *
25291382 CGACGGTAAAACGATAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* *** ** * *
25291409 CGAGGGTAAAACAATAATTCTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
***
25291436 CAAGGGTAAAACGGTAATTTTATAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* ****** *
25291463 CGAGGGTAAAAAAATAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* *** *
25291490 CGAGGGTAAAACGGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* *** * *
25291517 CGAGGGTAAAACGGTAATTATGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
** *** * * *
25291544 CGGGGGTAAAACGATAATTCTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
** * *
25291571 CGGGGGTACTTT-GGTAATTTTACAAGT
1 CAAGGGTA-TTTCGGTAATTTTATAAAT
* *
25291598 CGAA-GGTATTTCAGTAATTTTACAAAT
1 C-AAGGGTATTTCGGTAATTTTATAAAT
* * * *
25291625 CGAGGGTATTTCAGTATTTTTACAAA-
1 CAAGGGTATTTCGGTAATTTTATAAAT
25291651 CTAAGGGTATTTCGGTAATTTTAGTAAA
1 C-AAGGGTATTTCGGTAATTTTA-TAAA
25291679 CTAAAGTATT
Statistics
Matches: 436, Mismatches: 93, Indels: 25
0.79 0.17 0.05
Matches are distributed among these distances:
26 10 0.02
27 393 0.90
28 19 0.04
29 14 0.03
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAT
Found at i:25291372 original size:54 final size:54
Alignment explanation
Indices: 25291314--25291578 Score: 296
Period size: 54 Copynumber: 4.9 Consensus size: 54
25291304 GGGTATTTTG
* * *** *
25291314 GTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATA
* * * *
25291368 GTAATTCTATAAATCGACGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATA
* * * * * *
25291422 ATAATTCTGTAAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAAAA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATA
* * **
25291476 ATAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATA
* * * * * *
25291530 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
25291579 CTTTGGTAAT
Statistics
Matches: 183, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 183 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (54 bp):
GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATA
Found at i:25291372 original size:81 final size:81
Alignment explanation
Indices: 25291221--25291373 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
25291211 TTTGTAAATC
***
25291221 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTAAAAT
*
25291286 GGTAATTTTACAAACT
66 AGTAATTTTACAAACT
* * *** *
25291302 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAG-GGTAAAA
1 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAGTGGTAAAA
25291366 TAGTAATT
65 TAGTAATT
25291374 CTATAAATCG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 58 0.95
82 3 0.05
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTAAAAT
AGTAATTTTACAAACT
Found at i:25291591 original size:81 final size:81
Alignment explanation
Indices: 25291341--25291578 Score: 341
Period size: 81 Copynumber: 2.9 Consensus size: 81
25291331 GGGTATTTCT
** * *
25291341 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGACGGTAAAACGATAATTTTGTA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTATATAAATCGAGGGTAAAACGATAATTTTGTA
*
25291406 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
* * * * **
25291422 ATAATTCTGTAAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAAAAATAATTTTGTA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTATATAAATCGAGGGTAAAACGATAATTTTGTA
25291487 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * *
25291503 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTATATAAATCGAGGGTAAAACGATAATTTTGTA
*
25291568 AATCGGGGGTA
66 AATCGAGGGTA
25291579 CTTTGGTAAT
Statistics
Matches: 137, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 137 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTATATAAATCGAGGGTAAAACGATAATTTTGTA
AATCGAGGGTAAAACG
Found at i:25292772 original size:14 final size:14
Alignment explanation
Indices: 25292727--25292778 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
25292717 TGATAACTCA
*
25292727 TAAACCTTAAACCC
1 TAAACCATAAACCC
* * * *
25292741 TTAACCATATATCT
1 TAAACCATAAACCC
25292755 TAAACCATAAACCC
1 TAAACCATAAACCC
*
25292769 TAAACTATAA
1 TAAACCATAA
25292779 TGATAATTAA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:25294300 original size:31 final size:32
Alignment explanation
Indices: 25294235--25294314 Score: 119
Period size: 31 Copynumber: 2.5 Consensus size: 32
25294225 TCCATATATG
*
25294235 CATATACATTATATATATAATCAAGAACCACA
1 CATATATATTATATATATAATCAAGAACCACA
25294267 CATATATATTATATATATAA-CAA-AACCCACA
1 CATATATATTATATATATAATCAAGAA-CCACA
*
25294298 CATATGTATTATATATA
1 CATATATATTATATATA
25294315 ATACAACCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 2 0.04
31 24 0.53
32 19 0.42
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.33
Consensus pattern (32 bp):
CATATATATTATATATATAATCAAGAACCACA
Found at i:25300002 original size:45 final size:45
Alignment explanation
Indices: 25299938--25300030 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
25299928 TGTTCTTACT
25299938 CAATGCCTCAATTTGCTTGGATTCAACACTGCTTGAATTCACTTG
1 CAATGCCTCAATTTGCTTGGATTCAACACTGCTTGAATTCACTTG
25299983 CAATGCCTCAATTTGCTTGGATTCAACACTGCTTGAATTCACTTG
1 CAATGCCTCAATTTGCTTGGATTCAACACTGCTTGAATTCACTTG
25300028 CAA
1 CAA
25300031 GTATGGTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (45 bp):
CAATGCCTCAATTTGCTTGGATTCAACACTGCTTGAATTCACTTG
Found at i:25301310 original size:32 final size:32
Alignment explanation
Indices: 25301269--25301331 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
25301259 TTTGCAAGAG
25301269 CTCGATCAAATTTTACACCATTAGCGACTATA
1 CTCGATCAAATTTTACACCATTAGCGACTATA
25301301 CTCGATCAAATTTTACACCATTAGCGACTAT
1 CTCGATCAAATTTTACACCATTAGCGACTAT
25301332 GTAATCACTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (32 bp):
CTCGATCAAATTTTACACCATTAGCGACTATA
Found at i:25303596 original size:22 final size:24
Alignment explanation
Indices: 25303568--25303630 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 24
25303558 GTTTTTTCGT
25303568 TTCTTTTCTTCC-TTTTG-TTTTA
1 TTCTTTTCTTCCATTTTGCTTTTA
25303590 TTCTTTTCTTCCATTTTGCTTTT-
1 TTCTTTTCTTCCATTTTGCTTTTA
* * *
25303613 TGCTTTGCTGCCATTTTG
1 TTCTTTTCTTCCATTTTG
25303631 TGCTTTAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 12 0.33
23 20 0.56
24 4 0.11
ACGTcount: A:0.05, C:0.21, G:0.10, T:0.65
Consensus pattern (24 bp):
TTCTTTTCTTCCATTTTGCTTTTA
Found at i:25320340 original size:27 final size:26
Alignment explanation
Indices: 25320303--25320463 Score: 175
Period size: 27 Copynumber: 6.2 Consensus size: 26
25320293 AGCATGGCTT
* *
25320303 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
25320329 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
25320357 CCAGAATAGAT--CGTGGCAGAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* * *
25320381 CCAGATCAGAT-ATTTGGCATAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
25320406 CCAGAACAGATATATGTGGAAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
25320433 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
25320460 CCAG
1 CCAG
25320464 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
24 21 0.19
25 20 0.18
26 6 0.05
27 51 0.45
28 15 0.13
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:25320370 original size:24 final size:24
Alignment explanation
Indices: 25320342--25320416 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
25320332 GATACAGATA
25320342 ATCGTGGCAGAGCCACCAGAATAG
1 ATCGTGGCAGAGCCACCAGAATAG
25320366 ATCGTGGCAGAGCCACCAG-ATCAG
1 ATCGTGGCAGAGCCACCAGAAT-AG
** * *
25320390 ATATTTGGCATAGCCACCAGAACAG
1 AT-CGTGGCAGAGCCACCAGAATAG
25320415 AT
1 AT
25320417 ATATGTGGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 2 0.05
24 23 0.52
25 18 0.41
26 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.16
Consensus pattern (24 bp):
ATCGTGGCAGAGCCACCAGAATAG
Found at i:25320383 original size:52 final size:52
Alignment explanation
Indices: 25320303--25320463 Score: 177
Period size: 52 Copynumber: 3.1 Consensus size: 52
25320293 AGCATGGCTT
* * * *
25320303 CCAGAACAG-ATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAT-ACGTGGCAGAGCCACCAGAT-CAGATAAT-GTGGCATAGCCA
* *
25320357 CCAGAATAG-AT-CGTGGCAGAGCCACCAGATCAGAT-ATTTGGCATAGCCA
1 CCAGAACAGAATACGTGGCAGAGCCACCAGATCAGATAATGTGGCATAGCCA
* *
25320406 CCAGAACAGATATATGTGGAAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGA-ATACGTGGCAGAGCCACCAGATCAGATAA-TGTGGCATAGCCA
25320460 CCAG
1 CCAG
25320464 GACGCTTCCT
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
49 18 0.20
50 2 0.02
51 7 0.08
52 38 0.41
53 1 0.01
54 26 0.28
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (52 bp):
CCAGAACAGAATACGTGGCAGAGCCACCAGATCAGATAATGTGGCATAGCCA
Found at i:25322396 original size:27 final size:27
Alignment explanation
Indices: 25322094--25322386 Score: 352
Period size: 27 Copynumber: 11.0 Consensus size: 27
25322084 ACCTCANACC
** * *
25322094 GTTTTACCCTCGATTTGTAAAATTACC
1 GTTTTACCCTCGATTTACAGAATTACT
*
25322121 GTTTTACCCTCGATTTACAGAATTACC
1 GTTTTACCCTCGATTTACAGAATTACT
25322148 GTTTTACCCTC-AGTTTACAGAATTACT
1 GTTTTACCCTCGA-TTTACAGAATTACT
*
25322175 ATTTTACCCTCGATTTACAGAATTA-T
1 GTTTTACCCTCGATTTACAGAATTACT
25322201 CGTTTTACCCTC-AGTTTACAGAATTACT
1 -GTTTTACCCTCGA-TTTACAGAATTACT
* * *
25322229 ATTTTACCCTCGATTTATAGAATTACC
1 GTTTTACCCTCGATTTACAGAATTACT
*
25322256 GTTTTACCCT--ATTTACATAATTA-T
1 GTTTTACCCTCGATTTACAGAATTACT
* *
25322280 CATTTTACCCCCGATTTACA-ATATT-C-
1 -GTTTTACCCTCGATTTACAGA-ATTACT
25322306 GTTTTACCCTCGATTTACAGAATTACT
1 GTTTTACCCTCGATTTACAGAATTACT
*
25322333 GTTTTACCCTTGATTTACAGAATTACT
1 GTTTTACCCTCGATTTACAGAATTACT
*
25322360 GTTTTACCCTCGATTTACAAAATTACT
1 GTTTTACCCTCGATTTACAGAATTACT
25322387 AAAATACCCT
Statistics
Matches: 232, Mismatches: 20, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
25 39 0.17
26 6 0.03
27 184 0.79
28 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
GTTTTACCCTCGATTTACAGAATTACT
Found at i:25323656 original size:24 final size:24
Alignment explanation
Indices: 25323622--25323669 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
25323612 CTTATAATAT
* * *
25323622 TAAAATGACCATTTTGCCCCTAGG
1 TAAAATAACCATTATACCCCTAGG
25323646 TAAAATAACCATTATACCCCTAGG
1 TAAAATAACCATTATACCCCTAGG
25323670 GTTTATACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (24 bp):
TAAAATAACCATTATACCCCTAGG
Found at i:25323736 original size:20 final size:20
Alignment explanation
Indices: 25323713--25323792 Score: 123
Period size: 20 Copynumber: 4.2 Consensus size: 20
25323703 TAAACATGGT
25323713 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
25323733 ATGTATGATATG--CATG--
1 ATGTATGATATGCACATGAC
25323749 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
25323769 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
25323789 ATGT
1 ATGT
25323793 TCATAAATGC
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
16 12 0.22
18 8 0.15
20 35 0.64
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:25323753 original size:36 final size:36
Alignment explanation
Indices: 25323713--25323782 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
25323703 TAAACATGGT
25323713 ATGTATGATATGCACATGACATGTATGATATGCATG
1 ATGTATGATATGCACATGACATGTATGATATGCATG
25323749 ATGTATGATATGCACATGACATGTATGATATGCA
1 ATGTATGATATGCACATGACATGTATGATATGCA
25323783 CATGAGATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (36 bp):
ATGTATGATATGCACATGACATGTATGATATGCATG
Found at i:25323866 original size:24 final size:24
Alignment explanation
Indices: 25323839--25323955 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
25323829 GAGGAAGTGA
25323839 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
25323863 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
25323887 -AAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
25323910 AAAAGGGCTT-TTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
25323933 AAAAGAGGC-TAGGCCCCAGTTAT
1 AAAAG-GGCTTATGCCCCAGTTAT
25323956 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
23 39 0.46
24 46 0.54
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:25323914 original size:47 final size:47
Alignment explanation
Indices: 25323839--25323956 Score: 168
Period size: 47 Copynumber: 2.5 Consensus size: 47
25323829 GAGGAAGTGA
*
25323839 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTT-TGCCCCAGTTATT
* *
25323886 CAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTGCCCCAGTTATT
*
25323933 AAAAGAGGC-TAGGCCCCAGTTATA
1 AAAAG-GGCTTATGCCCCAGTTATA
25323957 TGATAAAGCA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 10 0.16
47 51 0.80
48 3 0.05
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTGCCCCAGTTATT
Found at i:25324203 original size:31 final size:31
Alignment explanation
Indices: 25324149--25324212 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
25324139 CGTTTACAGT
*
25324149 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
25324180 AAAGGCTTCGGCCCAGTGTTATGAGATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
25324211 AA
1 AA
25324213 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:25340480 original size:27 final size:27
Alignment explanation
Indices: 25340443--25340581 Score: 117
Period size: 27 Copynumber: 5.1 Consensus size: 27
25340433 AGCATGGCTG
*
25340443 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGACAGAGCCA
*
25340469 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGACAGAGCCA
* *
25340497 CCAGAT-CAGAT-ATTTGATGCATAGCCA
1 CCAGATACAGATAATGTGA--CAGAGCCA
** *
25340524 CCAGA-ACAGATATATGTGGTAAAGCCA
1 CCAGATACAGATA-ATGTGACAGAGCCA
* *
25340551 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGACAGAGCCA
25340578 CCAG
1 CCAG
25340582 GACGCTTCCT
Statistics
Matches: 93, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
25 2 0.02
26 8 0.09
27 63 0.68
28 16 0.17
29 4 0.04
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGATACAGATAATGTGACAGAGCCA
Found at i:25340507 original size:54 final size:54
Alignment explanation
Indices: 25340443--25340581 Score: 151
Period size: 54 Copynumber: 2.6 Consensus size: 54
25340433 AGCATGGCTG
* * *
25340443 CCAGAACAGATAATGTGA-CAGAGTCACCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATCAGATAATGTGAGCAGAGCCACCAGA-ACAGATATAT-GTGGCAAAGCCA
* * *
25340497 CCAGATCAGAT-ATTTGATGCATAGCCACCAGAACAGATATATGTGGTAAAGCCA
1 CCAGATCAGATAATGTGA-GCAGAGCCACCAGAACAGATATATGTGGCAAAGCCA
*
25340551 CCAGATCAGATAATTGTG-GCATAGCCACCAG
1 CCAGATCAGATAA-TGTGAGCAGAGCCACCAG
25340582 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
53 5 0.07
54 51 0.70
55 14 0.19
56 3 0.04
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (54 bp):
CCAGATCAGATAATGTGAGCAGAGCCACCAGAACAGATATATGTGGCAAAGCCA
Found at i:25342228 original size:26 final size:26
Alignment explanation
Indices: 25342192--25342301 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
25342182 CATGAAATTC
25342192 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
25342218 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
25342244 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
25342270 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
25342296 TTATCA
1 TTATCA
25342302 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:25346316 original size:27 final size:27
Alignment explanation
Indices: 25346279--25346444 Score: 221
Period size: 27 Copynumber: 6.1 Consensus size: 27
25346269 AGCATGGCTG
* *
25346279 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
25346305 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
25346333 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
25346360 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
25346387 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
25346414 CCAGATCAGATA-ATTGTGGCATAGCCA
1 CCAGAACAGATATA-TGTGGCAGAGCCA
25346441 CCAG
1 CCAG
25346445 GACGCTTCCT
Statistics
Matches: 126, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
26 6 0.05
27 103 0.82
28 17 0.13
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:25346338 original size:54 final size:54
Alignment explanation
Indices: 25346279--25346444 Score: 271
Period size: 54 Copynumber: 3.1 Consensus size: 54
25346269 AGCATGGCTG
* * * *
25346279 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
*
25346333 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
25346387 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
25346441 CCAG
1 CCAG
25346445 GACGCTTCCT
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
54 87 0.83
55 18 0.17
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
Found at i:25348100 original size:26 final size:26
Alignment explanation
Indices: 25348064--25348173 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
25348054 CATGAAATTC
25348064 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
25348090 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
25348116 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
25348142 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
25348168 TTATCA
1 TTATCA
25348174 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:25350229 original size:23 final size:23
Alignment explanation
Indices: 25350174--25350229 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
25350164 GCTATATAAC
25350174 ATAATATATACATATACATATATA
1 ATAATA-ATACATATACATATATA
*
25350198 ATGAA-AATACATACTAC-TATGTA
1 AT-AATAATACATA-TACATATATA
25350221 ATAATAATA
1 ATAATAATA
25350230 GAAATACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 2 0.07
23 18 0.64
24 6 0.21
25 2 0.07
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.34
Consensus pattern (23 bp):
ATAATAATACATATACATATATA
Found at i:25352038 original size:20 final size:20
Alignment explanation
Indices: 25352001--25352045 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
25351991 AGGGACTAAA
* * *
25352001 ATGAAAAGTTTTACAATTTG
1 ATGAAAAATTCTAAAATTTG
*
25352021 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
25352041 ATGAA
1 ATGAA
25352046 TACATCTGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:25356623 original size:39 final size:39
Alignment explanation
Indices: 25356573--25356652 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
25356563 AGCATGTATT
* *
25356573 TTGACAGGTTTGTGGTGGTATTTATAGTTGATATTTTGG
1 TTGACAAGTTTGTGGTGGTATTTATAGATGATATTTTGG
25356612 TTGACAAGTTTGTGGTGGTATTTATAGATGATATTTTGG
1 TTGACAAGTTTGTGGTGGTATTTATAGATGATATTTTGG
25356651 TT
1 TT
25356653 TACTCTCGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.20, C:0.03, G:0.29, T:0.49
Consensus pattern (39 bp):
TTGACAAGTTTGTGGTGGTATTTATAGATGATATTTTGG
Found at i:25361406 original size:28 final size:28
Alignment explanation
Indices: 25361370--25361426 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
25361360 CTCAGAATTA
*
25361370 GGCACACGGGCGTGTGTCTCAGCCGTGT
1 GGCACACGGGCGTATGTCTCAGCCGTGT
* **
25361398 GGCATACGGGCGTATGTCTTGGCCGTGT
1 GGCACACGGGCGTATGTCTCAGCCGTGT
25361426 G
1 G
25361427 AAACTTGTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.11, C:0.25, G:0.40, T:0.25
Consensus pattern (28 bp):
GGCACACGGGCGTATGTCTCAGCCGTGT
Found at i:25362335 original size:22 final size:22
Alignment explanation
Indices: 25362308--25362349 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
25362298 TAGGATATGC
25362308 TATGATATG-TTCTGATATGAAG
1 TATGATATGCTT-TGATATGAAG
25362330 TATGATATGCTTTGATATGA
1 TATGATATGCTTTGATATGA
25362350 GATACGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (22 bp):
TATGATATGCTTTGATATGAAG
Found at i:25362358 original size:22 final size:22
Alignment explanation
Indices: 25362311--25362358 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
25362301 GATATGCTAT
*
25362311 GATATGTTCTGATATGAAGTAT
1 GATATGTTCTGATATGAAGTAC
25362333 GATATGCTT-TGATATG-AGATAC
1 GATATG-TTCTGATATGAAG-TAC
25362355 GATA
1 GATA
25362359 ACCTTCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 2 0.09
22 19 0.83
23 2 0.09
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (22 bp):
GATATGTTCTGATATGAAGTAC
Found at i:25370081 original size:74 final size:74
Alignment explanation
Indices: 25369960--25370110 Score: 268
Period size: 74 Copynumber: 2.0 Consensus size: 74
25369950 CTAGCGAAAG
* *
25369960 TATGGGTCTAGCTATACATGCCATAATTGTATATTGATAGTGTGACAACTTCTGA-CGTTTATAA
1 TATGGGTCTAGCTATACATGCCATAACTATATATTGATAGTGTGACAACTTCT-ACCGTTTATAA
25370024 ATTTTATTTT
65 ATTTTATTTT
25370034 TATGGGTCTAGCTATACATGCCATAACTATATATTGATAGTGTGACAACTTCTACCGTTTATAAA
1 TATGGGTCTAGCTATACATGCCATAACTATATATTGATAGTGTGACAACTTCTACCGTTTATAAA
25370099 TTTTATTTT
66 TTTTATTTT
25370108 TAT
1 TAT
25370111 ATAGTAAATG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
73 1 0.01
74 73 0.99
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (74 bp):
TATGGGTCTAGCTATACATGCCATAACTATATATTGATAGTGTGACAACTTCTACCGTTTATAAA
TTTTATTTT
Found at i:25373029 original size:41 final size:41
Alignment explanation
Indices: 25372954--25373243 Score: 292
Period size: 41 Copynumber: 7.1 Consensus size: 41
25372944 GCAAAAATTT
* *
25372954 TAAAATACAGAGCAATAGCGGTG-TTTTAAG-AAAAACACCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTT-AGTAAAAACGCCGC
* *
25372995 TAAAAACAGAGCAACAGCGACG-TTTTAGTAAAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTAGT-AAAAACGCCGC
* **
25373036 TAAAAACAGAGCATTAGCGGCGCTTTCGGT-AAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTAGTAAAAACGCCGC
* *
25373076 TAAAAACTAGAGCATTAGCGGCGCTTTT-GTTAAAACGCCGC
1 TAAAAAC-AGAGCAATAGCGGCGCTTTTAGTAAAAACGCCGC
* * * *
25373117 TAAAAACCAGAGCATTAGCGGCGCTTTTGGT-AAAACGTCAC
1 TAAAAA-CAGAGCAATAGCGGCGCTTTTAGTAAAAACGCCGC
* * *
25373158 TAAAAACCAGAGCATTA-CCGCGCTTTTGGT-AAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCGCTTTTAGTAAAAACGCCGC
* *
25373198 TAAAAACCAGAGCATTAGCGGCGCTTTTGGT-AAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCGCTTTTAGTAAAAACGCCGC
25373239 TAAAA
1 TAAAA
25373244 GTCATATAAC
Statistics
Matches: 225, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
39 2 0.01
40 74 0.33
41 141 0.63
42 8 0.04
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (41 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTAGTAAAAACGCCGC
Found at i:25373111 original size:81 final size:81
Alignment explanation
Indices: 25372985--25373243 Score: 371
Period size: 81 Copynumber: 3.2 Consensus size: 81
25372975 TGTTTTAAGA
* ** * *
25372985 AAAACACCGCTAAAAACAGAGCAACAGCGACG-TTTTAGTAAAAAACGCCGCTAAAAA-CAGAGC
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTT-GT-TAAAACGCCGCTAAAAACCAGAGC
*
25373048 ATTAGCGGCGCTTTCGGT
64 ATTAGCGGCGCTTTTGGT
25373066 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAAC-AGAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTAAAAACCAGAGCA
25373131 TTAGCGGCGCTTTTGGT
65 TTAGCGGCGCTTTTGGT
* * * *
25373148 AAAACGTCACTAAAAACCAGAGCATTA-CCGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTAAAAACCAGAGCA
25373212 TTAGCGGCGCTTTTGGT
65 TTAGCGGCGCTTTTGGT
25373229 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
25373244 GTCATATAAC
Statistics
Matches: 162, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
81 97 0.60
82 60 0.37
83 5 0.03
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (81 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTAAAAACCAGAGCAT
TAGCGGCGCTTTTGGT
Found at i:25373181 original size:122 final size:121
Alignment explanation
Indices: 25372985--25373243 Score: 369
Period size: 122 Copynumber: 2.1 Consensus size: 121
25372975 TGTTTTAAGA
* *
25372985 AAAACACCGCTAAAAACAGAGCAACAGCGACGTTTTAGTAAAAAACGCCGCTAAAAACAGAGCAT
1 AAAACGCCGCTAAAAACAGAGCAACAGCGACGTTTTAGT-AAAAACGCCACTAAAAACAGAGCAT
* * *
25373050 TAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGTT
65 TAGCCGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
** * * *
25373107 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT-AAAACGTCACTAAAAACCAGAGC
1 AAAACGCCGCTAAAAA-CAGAGCAACAGCGACG-TTTTAGTAAAAACGCCACTAAAAA-CAGAGC
*
25373171 ATTA-CCGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
63 ATTAGCCGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
25373229 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
25373244 GTCATATAAC
Statistics
Matches: 123, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
122 94 0.76
123 23 0.19
124 6 0.05
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (121 bp):
AAAACGCCGCTAAAAACAGAGCAACAGCGACGTTTTAGTAAAAACGCCACTAAAAACAGAGCATT
AGCCGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:25373685 original size:25 final size:25
Alignment explanation
Indices: 25373652--25373711 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
25373642 GTGATTTTGA
*
25373652 ATGTGGAATTAGCATTTGTTGAACT
1 ATGTAGAATTAGCATTTGTTGAACT
25373677 ATGTAGAATTAGCATTTGTTGAACT
1 ATGTAGAATTAGCATTTGTTGAACT
*
25373702 ATGTATAATT
1 ATGTAGAATT
25373712 TCCAAGCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (25 bp):
ATGTAGAATTAGCATTTGTTGAACT
Found at i:25374323 original size:15 final size:15
Alignment explanation
Indices: 25374303--25374334 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25374293 TTTAATTTAG
*
25374303 AAGATAAATGTATAT
1 AAGATAAATATATAT
25374318 AAGATAAATATATAT
1 AAGATAAATATATAT
25374333 AA
1 AA
25374335 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:25380061 original size:478 final size:477
Alignment explanation
Indices: 25378736--25380186 Score: 2749
Period size: 477 Copynumber: 3.0 Consensus size: 477
25378726 TTTCTCCAAA
*
25378736 CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTACCTTATATC
1 CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATC
*
25378801 GAGCTGCAAGATATAATGGATCCTCCCTAGATGTAACAACGCCACGTATGATGAATCTTAAAAAA
66 GAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAA
*
25378866 TTCAAGAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCAA
131 TTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCAA
25378931 TTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGTT
196 TTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGTT
25378996 ATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
261 ATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
25379061 TTATCAAAATAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTTGG
326 TTATCAAAATAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTTGG
*
25379126 TTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATAAGAATGAATTAATTTTATTACCATA
391 TTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCATA
25379191 TATGTAGCTTGCTTGTCCATTC
456 TATGTAGCTTGCTTGTCCATTC
*
25379213 CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGATGGGTTGCCTTATATC
1 CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATC
*
25379278 GAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACCTATGATGAATCTTAAAAAA
66 GAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAA
25379343 TTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCAA
131 TTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCAA
* *
25379408 TTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTT
196 TTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGTT
25379473 ATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
261 ATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
*
25379538 TTATCAAAATAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTTAG
326 TTATCAAAATAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTTGG
25379603 TTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCATA
391 TTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCATA
25379668 TATGTAGCTTGCTTGTCCATTC
456 TATGTAGCTTGCTTGTCCATTC
25379690 CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATC
1 CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATC
** * *
25379755 GAGCTGCTTTGATATAATGGATCCTCCCTAGGTGTAACAACGTCATGTATGATGAATCTTAAAAA
66 GAGCTGC-AAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
25379820 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
130 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
*
25379885 ATTTACTTATAAAAATCAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
195 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
25379950 TATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATT
260 TATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATT
* *
25380015 TTTATCAAATTAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATTTTTTG
325 TTTATCAAAATAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTTG
25380080 GTTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCAT
390 GTTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCAT
25380145 ATATGTAGCTTGCTTGTCCATTC
455 ATATGTAGCTTGCTTGTCCATTC
25380168 CTTATTTTAAATATTTTAA
1 CTTATTTTAAATATTTTAA
25380187 TAATGTTTGA
Statistics
Matches: 952, Mismatches: 21, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
477 539 0.57
478 413 0.43
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (477 bp):
CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATC
GAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAA
TTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCAA
TTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGTT
ATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
TTATCAAAATAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTTGG
TTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCATA
TATGTAGCTTGCTTGTCCATTC
Found at i:25380100 original size:21 final size:21
Alignment explanation
Indices: 25380070--25380111 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25380060 GAATAAGTTT
* *
25380070 TTATTTTTTGGTTCAACTTAA
1 TTATTATTTGATTCAACTTAA
25380091 TTATTATTTGATTCAACTTAA
1 TTATTATTTGATTCAACTTAA
25380112 GTATGAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.55
Consensus pattern (21 bp):
TTATTATTTGATTCAACTTAA
Found at i:25380431 original size:49 final size:52
Alignment explanation
Indices: 25380369--25380475 Score: 139
Period size: 53 Copynumber: 2.1 Consensus size: 52
25380359 CTGAAGGGCC
**
25380369 AATTATAAATAA-TTTTATCAAAATA-A-CAATATTGATCATTGTTTAAATA
1 AATTATAAATAATTTTTATCAAAATAGATCAATATTGATCATTACTTAAATA
* * *
25380418 TATTATAACTAATTTTTATCAAAATAGTATTAATATTGATCATTACTTAAATA
1 AATTATAAATAATTTTTATCAAAATAG-ATCAATATTGATCATTACTTAAATA
25380471 AATTA
1 AATTA
25380476 CTTAACTCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
49 10 0.21
50 13 0.27
52 1 0.02
53 24 0.50
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (52 bp):
AATTATAAATAATTTTTATCAAAATAGATCAATATTGATCATTACTTAAATA
Found at i:25386441 original size:42 final size:43
Alignment explanation
Indices: 25386350--25386662 Score: 434
Period size: 43 Copynumber: 7.3 Consensus size: 43
25386340 ACTGGGCAAA
* * * * * *
25386350 TTAGCGGCGTTTTTTAAAAAAACACCGCTAAAAGTACAGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
*
25386393 CTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTC-
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* * * *
25386435 TTAGCGGCGTTTTTTA-AAAAGCGCCGCTAAAAGTACAGGTAT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* * *
25386477 TTAGCGGCGTTTTCTATAAGAGTGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
25386520 TTAGCGGCG-TTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* *
25386562 TTAGTGGTGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* *
25386605 TTAGCGGCTTTTTTTATAAAAGCGCCGCTAAATGTCCTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
*
25386648 TTAGCGGTGTTTTTT
1 TTAGCGGCGTTTTTT
25386663 TCTAAAAAAT
Statistics
Matches: 237, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
41 21 0.09
42 67 0.28
43 149 0.63
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
Found at i:25386530 original size:85 final size:86
Alignment explanation
Indices: 25386350--25386662 Score: 443
Period size: 85 Copynumber: 3.7 Consensus size: 86
25386340 ACTGGGCAAA
* * * *
25386350 TTAGCGGCGTTTTTTAAAAAAACACCGCTAAAAGTACAGGTCTCTAGCGGCGTTTTTTATAAAAG
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTTTAGCGGCGTTTTTTATAAAAG
25386415 CGCCGCTAAAGGTCCTGGTC-
66 CGCCGCTAAAGGTCCTGGTCT
* * *
25386435 TTAGCGGCGTTTTTTA-AAAAGCGCCGCTAAAAGTACAGGTATTTAGCGGCGTTTTCTATAAGAG
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTTTAGCGGCGTTTTTTATAAAAG
*
25386499 TGCCGCTAAAGGTCCTGGTCT
66 CGCCGCTAAAGGTCCTGGTCT
* * * * *
25386520 TTAGCGGCG-TTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGTGGTGTTTTTTATAAAAG
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTTTAGCGGCGTTTTTTATAAAAG
25386584 CGCCGCTAAAGGTCCTGGTCT
66 CGCCGCTAAAGGTCCTGGTCT
* * * * *
25386605 TTAGCGGCTTTTTTTATAAAAGCGCCGCTAAATGTCCTGGTCTTTAGCGGTGTTTTTT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTTTAGCGGCGTTTTTT
25386663 TCTAAAAAAT
Statistics
Matches: 206, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
84 67 0.33
85 93 0.45
86 46 0.22
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (86 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTTTAGCGGCGTTTTTTATAAAAG
CGCCGCTAAAGGTCCTGGTCT
Found at i:25389937 original size:46 final size:47
Alignment explanation
Indices: 25389813--25389939 Score: 163
Period size: 46 Copynumber: 2.7 Consensus size: 47
25389803 AGAGCTAATC
* ** *
25389813 CAGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGAGATGAGTA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGATGAGTA
*
25389860 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-TACGAGATGCGT-
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-CGAGATGAGTA
25389905 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
25389940 CAGATACGCT
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
44 9 0.13
45 16 0.23
46 22 0.31
47 14 0.20
48 9 0.13
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGATGAGTA
Found at i:25395521 original size:15 final size:16
Alignment explanation
Indices: 25395490--25395522 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25395480 ATTGAGTCGT
*
25395490 TATAACGTTTTTCCAC
1 TATAAAGTTTTTCCAC
25395506 TATAAAGTTTTT-CAC
1 TATAAAGTTTTTCCAC
25395521 TA
1 TA
25395523 AGTCATTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.45
Consensus pattern (16 bp):
TATAAAGTTTTTCCAC
Found at i:25396344 original size:22 final size:22
Alignment explanation
Indices: 25396310--25396379 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
25396300 ATAGGGGTAA
* *
25396310 GATATGCTATGATATGAAATAT
1 GATACGCTCTGATATGAAATAT
* **
25396332 GATACGTTCTGATGCGAAATAT
1 GATACGCTCTGATATGAAATAT
* * * *
25396354 AATATGCTCTAATATGAGATAT
1 GATACGCTCTGATATGAAATAT
25396376 GATA
1 GATA
25396380 AGCTTCAATA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.34
Consensus pattern (22 bp):
GATACGCTCTGATATGAAATAT
Found at i:25397277 original size:22 final size:22
Alignment explanation
Indices: 25397252--25397302 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
25397242 ATGTAAGTTT
*
25397252 TGTTTGTAAAAATTATGTGTTA
1 TGTTTATAAAAATTATGTGTTA
25397274 TGTTTATAAAAATTATGTGTTA
1 TGTTTATAAAAATTATGTGTTA
25397296 TGTTTAT
1 TGTTTAT
25397303 GATCCGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (22 bp):
TGTTTATAAAAATTATGTGTTA
Found at i:25397862 original size:20 final size:20
Alignment explanation
Indices: 25397837--25397898 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 20
25397827 TTGCATGTAA
25397837 GAGTTATAAAAGTTGAATAC
1 GAGTTATAAAAGTTGAATAC
*
25397857 GAGTTAT-AATGTTTGAATGAATAC
1 GAGTTATAAAAG--T---TGAATAC
25397881 GAGTTATAAAAGTTGAAT
1 GAGTTATAAAAGTTGAAT
25397899 GGTTTATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
19 3 0.09
20 12 0.35
21 1 0.03
23 1 0.03
24 14 0.41
25 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (20 bp):
GAGTTATAAAAGTTGAATAC
Found at i:25397896 original size:24 final size:24
Alignment explanation
Indices: 25397850--25397899 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
25397840 TTATAAAAGT
*
25397850 TGAATACGAGTTATAATGTTTGAA
1 TGAATACGAGTTATAAAGTTTGAA
25397874 TGAATACGAGTTATAAAAG-TTGAA
1 TGAATACGAGTTAT-AAAGTTTGAA
25397898 TG
1 TG
25397900 GTTTATTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (24 bp):
TGAATACGAGTTATAAAGTTTGAA
Found at i:25398088 original size:22 final size:22
Alignment explanation
Indices: 25398035--25398094 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
25398025 ATGGGGGTAG
*
25398035 GATATGCTATGATATGAAATAC
1 GATATGCTTTGATATGAAATAC
*
25398057 GATATGCTTTGATATGAGATAC
1 GATATGCTTTGATATGAAATAC
25398079 GATAAT-CTTTGATATG
1 GAT-ATGCTTTGATATG
25398095 TTATATGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 33 0.94
23 2 0.06
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (22 bp):
GATATGCTTTGATATGAAATAC
Found at i:25398955 original size:10 final size:11
Alignment explanation
Indices: 25398930--25398956 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25398920 CCCTGCATAT
25398930 TTTTTGAAAAG
1 TTTTTGAAAAG
25398941 TTTTTGAAAAG
1 TTTTTGAAAAG
25398952 TTTTT
1 TTTTT
25398957 TCTGTCTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (11 bp):
TTTTTGAAAAG
Found at i:25401606 original size:12 final size:12
Alignment explanation
Indices: 25401589--25401613 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25401579 TGAATCTTGG
25401589 TGGAAAATTGCT
1 TGGAAAATTGCT
25401601 TGGAAAATTGCT
1 TGGAAAATTGCT
25401613 T
1 T
25401614 CAATGGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TGGAAAATTGCT
Found at i:25407182 original size:45 final size:45
Alignment explanation
Indices: 25407115--25407213 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
25407105 CACCTAAAAC
*
25407115 GAGTAAGACCATAACTGAAAGATGCTATGGCATTATGATA-AAGAT
1 GAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATATAA-AT
* ** * * *
25407160 GAGTAAGATCATAGTTGTAAGATGTTATGGTATCATGATATAAAT
1 GAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATATAAAT
*
25407205 GGGTAAGAC
1 GAGTAAGAC
25407214 TATGGCTTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
45 42 0.95
46 2 0.05
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.28
Consensus pattern (45 bp):
GAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATATAAAT
Found at i:25410394 original size:34 final size:34
Alignment explanation
Indices: 25410328--25410395 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
25410318 TTATGTTCTA
* * *
25410328 TTATCATTACTATTATTACTCTTGCTATTATTAT
1 TTATCATTACTATTATTACTATTACTAATATTAT
* * *
25410362 TTATCATTATTATTATTCCTATTATTAATATTAT
1 TTATCATTACTATTATTACTATTACTAATATTAT
25410396 GTTTCGCCAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.12, G:0.01, T:0.57
Consensus pattern (34 bp):
TTATCATTACTATTATTACTATTACTAATATTAT
Found at i:25410667 original size:17 final size:17
Alignment explanation
Indices: 25410636--25410668 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25410626 CTAATATATG
*
25410636 TATATATTGTATATTTA
1 TATATATTATATATTTA
25410653 TATATATTATATATTT
1 TATATATTATATATTT
25410669 TTAATGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATATATTATATATTTA
Found at i:25410720 original size:22 final size:22
Alignment explanation
Indices: 25410657--25410725 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
25410647 TATTTATATA
*
25410657 TATTATATATTTTTAATGTTATT
1 TATTATATATTTTT-ATATTATT
* *
25410680 TATTGTACATTTCTT-TATTATT
1 TATTATATATTT-TTATATTATT
25410702 CTA-TATATATTTTTATATT-TT
1 -TATTATATATTTTTATATTATT
25410723 TAT
1 TAT
25410726 ACCATCTCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
20 2 0.05
21 4 0.11
22 17 0.46
23 12 0.32
24 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (22 bp):
TATTATATATTTTTATATTATT
Found at i:25410799 original size:16 final size:15
Alignment explanation
Indices: 25410761--25410857 Score: 75
Period size: 15 Copynumber: 6.5 Consensus size: 15
25410751 TACTATGTTA
25410761 TATATATATATATATAT
1 TATATATAT-TAT-TAT
25410778 TA-ATAT-TGTATTAT
1 TATATATAT-TATTAT
25410792 GTATATATATTATTAT
1 -TATATATATTATTAT
25410808 TATATATATT-TTAT
1 TATATATATTATTAT
25410822 CCT-TAT-TA-TATTTAT
1 --TATATATATTA-TTAT
25410837 TATATA-ATTATTAT
1 TATATATATTATTAT
25410851 TA-ATATA
1 TATATATA
25410858 CATATACTGT
Statistics
Matches: 68, Mismatches: 1, Indels: 25
0.72 0.01 0.27
Matches are distributed among these distances:
13 5 0.07
14 20 0.29
15 25 0.37
16 15 0.22
17 3 0.04
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TATATATATTATTAT
Found at i:25410847 original size:20 final size:20
Alignment explanation
Indices: 25410769--25410850 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 20
25410759 TATATATATA
*
25410769 TATATATATTA-ATATTGTAT
1 TATATATATTATATAAT-TAT
* *
25410789 TATGTATA-TATATTATTAT
1 TATATATATTATATAATTAT
* **
25410808 TATATATATTTTATCCTTAT
1 TATATATATTATATAATTAT
*
25410828 TATATTTATTATATAATTAT
1 TATATATATTATATAATTAT
25410848 TAT
1 TAT
25410851 TAATATACAT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
19 12 0.24
20 37 0.76
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TATATATATTATATAATTAT
Found at i:25410914 original size:21 final size:24
Alignment explanation
Indices: 25410890--25410940 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 24
25410880 ATTTTTAACA
*
25410890 TTATTATATTT-A-CTATTA-TAT
1 TTATTATATTTAATATATTATTAT
*
25410911 TTATTATTTTTAATATATTATTAT
1 TTATTATATTTAATATATTATTAT
25410935 TTATTA
1 TTATTA
25410941 CTTTATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 1 0.04
23 5 0.20
24 9 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TTATTATATTTAATATATTATTAT
Found at i:25411006 original size:3 final size:3
Alignment explanation
Indices: 25410992--25411078 Score: 67
Period size: 3 Copynumber: 29.3 Consensus size: 3
25410982 GTATTTTTAC
*
25410992 TAT TAT TGT TAT TAT TAT TAT TAT TA- TAT TAT T-T TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * *
25411036 TAT T-T TTT GTAT ATAT TAT TCA- TAC TAT CAT TAT TA- TAT TAT T
1 TAT TAT TAT -TAT -TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT T
25411079 TTTACCACTA
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
2 9 0.13
3 51 0.74
4 9 0.13
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:25411054 original size:26 final size:29
Alignment explanation
Indices: 25411000--25411077 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 29
25410990 ACTATTATTG
*
25411000 TTATTATTATTATTATTATATTATTTTAT
1 TTATTATTATTATTATTATATTATATTAT
*
25411029 TTATTATTATT-TT-TTGTA-TATATTAT
1 TTATTATTATTATTATTATATTATATTAT
* * *
25411055 TCA-TACTATCATTATTATATTAT
1 TTATTATTATTATTATTATATTAT
25411078 TTTTACCACT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
25 5 0.12
26 11 0.28
27 8 0.20
28 5 0.12
29 11 0.28
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (29 bp):
TTATTATTATTATTATTATATTATATTAT
Found at i:25411266 original size:27 final size:27
Alignment explanation
Indices: 25411215--25411279 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
25411205 ATATTTACCC
*
25411215 TTTTTACTATTATTATCTATCATTT-T
1 TTTTTAATATTATTATCTATCATTTGT
25411241 ATTTTTAATATTATTAAGT-TAT-ATTTGT
1 -TTTTTAATATTATT-A-TCTATCATTTGT
*
25411269 TTTTTTATATT
1 TTTTTAATATT
25411280 CTTTTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 27 0.82
28 5 0.15
29 1 0.03
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTTAATATTATTATCTATCATTTGT
Found at i:25411345 original size:13 final size:13
Alignment explanation
Indices: 25411310--25411376 Score: 64
Period size: 13 Copynumber: 5.0 Consensus size: 13
25411300 ATTATTAACA
*
25411310 TATATATTTTTAT
1 TATATATTATTAT
*
25411323 GTACATATTATTAT
1 -TATATATTATTAT
* *
25411337 TTTATATTATTGT
1 TATATATTATTAT
25411350 TATATATATATTAT
1 TATATAT-TATTAT
25411364 ATATATATT-TTAT
1 -TATATATTATTAT
25411377 GTACGTTCCT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
13 20 0.45
14 17 0.39
15 7 0.16
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (13 bp):
TATATATTATTAT
Found at i:25423004 original size:14 final size:14
Alignment explanation
Indices: 25422985--25423019 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
25422975 GAGTTGATTT
* *
25422985 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
25422999 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
25423013 TTGAAAA
1 TTGAAAA
25423020 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:25423097 original size:74 final size:75
Alignment explanation
Indices: 25422999--25423147 Score: 219
Period size: 74 Copynumber: 2.0 Consensus size: 75
25422989 AAAATATAAA
* * *
25422999 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
25423064 GTTGATTTTT
66 GTTGAATTTT
* * **
25423074 TTGAAAGAC-GAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
25423138 GTTGAATTTT
66 GTTGAATTTT
25423148 GAAAACAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
74 58 0.88
75 8 0.12
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGAATTTT
Found at i:25431748 original size:32 final size:32
Alignment explanation
Indices: 25431703--25431765 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
25431693 CAGTGATTTC
25431703 ATAGTCGCCAATGGTGTAAAATTTGATCGAGT
1 ATAGTCGCCAATGGTGTAAAATTTGATCGAGT
*
25431735 ATAGTCGCTAATGGTGTAAAATTTGATCGAG
1 ATAGTCGCCAATGGTGTAAAATTTGATCGAG
25431766 CTCTTGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (32 bp):
ATAGTCGCCAATGGTGTAAAATTTGATCGAGT
Found at i:25431937 original size:20 final size:20
Alignment explanation
Indices: 25431914--25431955 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
25431904 ATAAATATTT
*
25431914 AAAATTAGGAACAATAAATA
1 AAAATTAGAAACAATAAATA
**
25431934 AAAATTTTAAACAATAAATA
1 AAAATTAGAAACAATAAATA
25431954 AA
1 AA
25431956 TAAATAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAATTAGAAACAATAAATA
Found at i:25435982 original size:40 final size:40
Alignment explanation
Indices: 25435937--25436104 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
25435927 CGGAATACAA
25435937 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** * *
25435977 CCGGATAGAATGACTCGCACGAATGTCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
25436017 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
25436057 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
25436097 CCGGATAT
1 CCGGATAT
25436105 CATTCAATTG
Statistics
Matches: 103, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 3 0.03
40 98 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:25441926 original size:2 final size:2
Alignment explanation
Indices: 25441919--25441947 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25441909 TGATTGGAGT
25441919 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25441948 TAGTCAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25448277 original size:48 final size:48
Alignment explanation
Indices: 25448206--25448497 Score: 467
Period size: 48 Copynumber: 6.0 Consensus size: 48
25448196 CAAGATAAAT
* * * *
25448206 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGCATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
25448254 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
25448302 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
25448350 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
25448400 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
25448448 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
25448496 AT
1 AT
25448498 GTGTGTATAT
Statistics
Matches: 228, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
48 183 0.80
50 45 0.20
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:25448368 original size:146 final size:146
Alignment explanation
Indices: 25448204--25448497 Score: 525
Period size: 146 Copynumber: 2.0 Consensus size: 146
25448194 TACAAGATAA
* * *
25448204 ATATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGCATGAGATATGTATATGTGGT
1 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATACATGAGATATGTATATGTGGT
25448269 AAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
66 AAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
25448334 ATGAAATATGTATGAG
131 ATGAAATATGTAGGAG
*
25448350 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
1 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATACATGAGATATGTATATGTGGT
*
25448415 AAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATTTGGTAAAGCCGAATGGCTAAT
66 AAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
25448480 GTGAAATATGTAGGAG
131 ATGAAATATGTAGGAG
25448496 AT
1 AT
25448498 GTGTGTATAT
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 141 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (146 bp):
ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATACATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
ATGAAATATGTAGGAG
Found at i:25448507 original size:98 final size:96
Alignment explanation
Indices: 25448206--25448497 Score: 476
Period size: 98 Copynumber: 3.0 Consensus size: 96
25448196 CAAGATAAAT
* * * *
25448206 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGCATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATTTGGTAA
*
25448271 AGCCGAATGGCTAGTGTGAAATATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
25448302 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATATATATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAT-T-TGGT
*
25448367 AAAGCCGAATGGCTAATGTGAAATATATATGAG
64 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
25448400 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATTTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATTTGGTAA
*
25448465 AGCCGAATGGCTAATGTGAAATATGTAGGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
25448496 AT
1 AT
25448498 GTGTGTATAT
Statistics
Matches: 180, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
96 89 0.49
97 1 0.01
98 90 0.50
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATTTGGTAA
AGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:25448688 original size:37 final size:37
Alignment explanation
Indices: 25448638--25448740 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
25448628 GGAAATATAT
25448638 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
25448675 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
25448712 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
25448741 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:25450044 original size:31 final size:32
Alignment explanation
Indices: 25450006--25450078 Score: 114
Period size: 31 Copynumber: 2.3 Consensus size: 32
25449996 TAGGTTGTAT
25450006 TATATATAATACATATGTGTGGGTT-TTG-TTA
1 TATATATAATACATATGTGT-GGTTCTTGATTA
*
25450037 TATATATAATATATATGTGTGGTTCTTGATTA
1 TATATATAATACATATGTGTGGTTCTTGATTA
25450069 TATATATAAT
1 TATATATAAT
25450079 GTATATGCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 4 0.10
31 22 0.56
32 13 0.33
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (32 bp):
TATATATAATACATATGTGTGGTTCTTGATTA
Found at i:25451563 original size:7 final size:7
Alignment explanation
Indices: 25451542--25451645 Score: 50
Period size: 7 Copynumber: 14.4 Consensus size: 7
25451532 TTAATTATCA
*
25451542 TTATAGT
1 TTATGGT
*
25451549 TTAGGGT
1 TTATGGT
25451556 TTATGGT
1 TTATGGT
*
25451563 TTAAGGT
1 TTATGGT
*
25451570 ATATGGT
1 TTATGGT
* *
25451577 TAAGGGT
1 TTATGGT
*
25451584 TTAAGGT
1 TTATGGT
25451591 TTATGAGT
1 TTATG-GT
25451599 TATCAT--T
1 T-T-ATGGT
*
25451606 TTAAGGT
1 TTATGGT
*
25451613 TTATGGA
1 TTATGGT
25451620 TTATGGGGT
1 TTAT--GGT
* *
25451629 TTAGGGA
1 TTATGGT
25451636 TTATGGT
1 TTATGGT
25451643 TTA
1 TTA
25451646 AGGGGGTTGA
Statistics
Matches: 70, Mismatches: 20, Indels: 14
0.67 0.19 0.13
Matches are distributed among these distances:
5 1 0.01
6 1 0.01
7 57 0.81
8 3 0.04
9 6 0.09
10 2 0.03
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:25451564 original size:14 final size:14
Alignment explanation
Indices: 25451542--25451593 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
25451532 TTAATTATCA
*
25451542 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
25451556 TTATGGTTTAAGGT
1 TTATGGTTTAGGGT
* *
25451570 ATATGGTTAAGGGT
1 TTATGGTTTAGGGT
*
25451584 TTAAGGTTTA
1 TTATGGTTTA
25451594 TGAGTTATCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:25451631 original size:16 final size:16
Alignment explanation
Indices: 25451610--25451641 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25451600 ATCATTTTAA
*
25451610 GGTTTATGGATTATGG
1 GGTTTAGGGATTATGG
25451626 GGTTTAGGGATTATGG
1 GGTTTAGGGATTATGG
25451642 TTTAAGGGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.41
Consensus pattern (16 bp):
GGTTTAGGGATTATGG
Found at i:25452051 original size:7 final size:7
Alignment explanation
Indices: 25452025--25452095 Score: 88
Period size: 7 Copynumber: 9.9 Consensus size: 7
25452015 TATATTTTAT
25452025 GATTCAGG
1 GATT-AGG
* *
25452033 GTTTATG
1 GATTAGG
25452040 GATTAGG
1 GATTAGG
25452047 GATTAGG
1 GATTAGG
25452054 GATTAGG
1 GATTAGG
25452061 GATTAGG
1 GATTAGG
25452068 GATTAGG
1 GATTAGG
25452075 GATTATGG
1 GATTA-GG
*
25452083 GTTTAGG
1 GATTAGG
*
25452090 GTTTAG
1 GATTAG
25452096 ATTATTTAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
7 48 0.84
8 9 0.16
ACGTcount: A:0.24, C:0.01, G:0.39, T:0.35
Consensus pattern (7 bp):
GATTAGG
Found at i:25452352 original size:21 final size:20
Alignment explanation
Indices: 25452291--25452373 Score: 60
Period size: 21 Copynumber: 4.0 Consensus size: 20
25452281 TTCAAGGGCT
25452291 GGGGTTTAAGGTTTAGAGGTTA
1 GGGG-TTAAGGTTTAG-GGTTA
** * *
25452313 TTGGTTACGGGTTACGGGTTA
1 GGGGTTAAGGTTTA-GGGTTA
25452334 GGGGTTCAAGGTTTAGGGTTTA
1 GGGGTT-AAGGTTTAGGG-TTA
* *
25452356 TGGG-TAGGGTTTAGGGTT
1 GGGGTTAAGGTTTAGGGTT
25452374 TAAGGTTTAG
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
19 2 0.04
20 10 0.21
21 21 0.44
22 15 0.31
ACGTcount: A:0.17, C:0.04, G:0.42, T:0.37
Consensus pattern (20 bp):
GGGGTTAAGGTTTAGGGTTA
Found at i:25452353 original size:7 final size:7
Alignment explanation
Indices: 25452343--25452385 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
25452333 AGGGGTTCAA
25452343 GGTTTAG
1 GGTTTAG
25452350 GGTTTATG
1 GGTTTA-G
25452358 GG--TAG
1 GGTTTAG
25452363 GGTTTAG
1 GGTTTAG
*
25452370 GGTTTAA
1 GGTTTAG
25452377 GGTTTAG
1 GGTTTAG
25452384 GG
1 GG
25452386 ATTACAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 3 0.10
6 2 0.06
7 23 0.74
8 3 0.10
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (7 bp):
GGTTTAG
Found at i:25452557 original size:14 final size:14
Alignment explanation
Indices: 25452521--25452557 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
25452511 GAAAAGAATG
*
25452521 AAATTATTTTGATT
1 AAATTATTTAGATT
25452535 AAATT-TTTAGATT
1 AAATTATTTAGATT
25452548 AAATTATTTA
1 AAATTATTTA
25452558 AGAGATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (14 bp):
AAATTATTTAGATT
Found at i:25453717 original size:105 final size:105
Alignment explanation
Indices: 25453581--25454379 Score: 1282
Period size: 105 Copynumber: 7.8 Consensus size: 105
25453571 TTATTTTAAA
25453581 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
1 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
*
25453646 ATTAAATTGTATTTAATGTTTTATTTTAAATATTTTATTT
66 ATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
*
25453686 TATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
1 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
25453751 ATTAAATTGTATTTAAAGTTTTATTTT-AA-A---TATTT
66 ATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
* *
25453786 TATTTTATTTTAATCACGAAAAATATTTTGTATACTTTTA-TTTATTTTTAAATTATCTAATT--
1 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
25453848 A--AAATT-TATTTAAAGTTTTATTTTAAATATTTTATTTTATTT
66 ATTAAATTGTATTTAAAGTTTTATTTT-AA-A---TATTTTATTT
*
25453890 TATTTTATTTTAATCACGAAAAATATTTTGTATACTTTTATTTTA-TTTTAAATTACCTAATTAA
1 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
*
25453954 ATTAAATTGTATTTAAAATTTTATTTTAAATATTTTATTT
66 ATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
*
25453994 TATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
1 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
* *
25454059 ATTAAATTGTATTTAAATTTTTATTTTAAATGTTTTATTT
66 ATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
25454099 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTA-TTTTAAATTACCTAATTAA
1 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
25454163 ATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
66 ATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
*
25454203 TATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
1 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
*
25454268 ATTAAATTGTATTT-AA----T-GTTT---TATTTTATTT
66 ATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
25454299 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATATT
1 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCT-A-ATT
25454364 AAATTAAATTGTATTT
64 AAATTAAATTGTATTT
25454380 TTAAATATTG
Statistics
Matches: 657, Mismatches: 17, Indels: 47
0.91 0.02 0.07
Matches are distributed among these distances:
94 18 0.03
95 5 0.01
96 69 0.11
97 3 0.00
98 19 0.03
99 24 0.04
100 44 0.07
101 1 0.00
103 1 0.00
104 219 0.33
105 228 0.35
106 1 0.00
107 1 0.00
108 7 0.01
109 17 0.03
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (105 bp):
TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
ATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
Found at i:25453874 original size:13 final size:14
Alignment explanation
Indices: 25453863--25453902 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
25453853 TTATTTAAAG
25453863 TTTTATTTTAAATA
1 TTTTATTTTAAATA
**
25453877 TTTTATTTTATTTTA
1 TTTTATTTTA-AATA
25453892 TTTTATTTTAA
1 TTTTATTTTAA
25453903 TCACGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTATTTTAAATA
Found at i:25453883 original size:5 final size:5
Alignment explanation
Indices: 25453875--25453901 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
25453865 TTATTTTAAA
25453875 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
25453902 ATCACGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:25453990 original size:14 final size:13
Alignment explanation
Indices: 25453965--25454006 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 13
25453955 TTAAATTGTA
25453965 TTTAAAATTTTAT
1 TTTAAAATTTTAT
25453978 TTTAAATATTTTAT
1 TTTAAA-ATTTTAT
25453992 TTT---ATTTTAT
1 TTTAAAATTTTAT
25454002 TTTAA
1 TTTAA
25454007 TCATGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 10 0.38
13 6 0.23
14 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTAAAATTTTAT
Found at i:25454096 original size:14 final size:13
Alignment explanation
Indices: 25454070--25454111 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 13
25454060 TTAAATTGTA
25454070 TTTAAATTTTTAT
1 TTTAAATTTTTAT
25454083 TTTAAATGTTTTAT
1 TTTAAAT-TTTTAT
25454097 TTT--A-TTTTAT
1 TTTAAATTTTTAT
25454107 TTTAA
1 TTTAA
25454112 TCACGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.35
12 1 0.04
13 7 0.27
14 9 0.35
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTAAATTTTTAT
Found at i:25454100 original size:209 final size:204
Alignment explanation
Indices: 25453521--25454379 Score: 1283
Period size: 209 Copynumber: 4.2 Consensus size: 204
25453511 ATTTTAAATA
* *
25453521 TTTTATTTTATTTTTAAATTACTTAATTAAATTCAATTGTATTTAAAGTTTTATTTT-AA-A---
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
25453581 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
66 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
*
25453646 ATTAAATTGTATTTAATGTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCATGAAAAATA
131 ATTAAATTGTATTTAAT-TTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAAAATA
25453711 TTTTGTCTAC
195 TTTTGTCTAC
25453721 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* *
25453786 TATTTTATTTTAATCACGAAAAATATTTTGTATACTTTTA-TTTATTTTTAAATTATCTAATT--
66 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
*
25453848 A--AAATT-TATTTAAAGTTTTATTTTAAATATTTTATTTTATTTTATTTTATTTTAATCACGAA
131 ATTAAATTGTATTT-AATTTTTATTTT-AA-A---TATTTTATTTTATTTTATTTTAATCACGAA
*
25453910 AAATATTTTGTATAC
190 AAATATTTTGTCTAC
*
25453925 TTTTATTTTA-TTTTAAATTACCTAATTAAATTAAATTGTATTTAAAATTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT-AA-A---
*
25453989 TATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
61 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
*
25454054 ATTAAATTAAATTGTATTTAAATTTTTATTTTAAATGTTTTATTTTATTTTATTTTAATCACGAA
126 ATTAAATTAAATTGTATTT-AATTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAA
25454119 AAATATTTTGTCTAC
190 AAATATTTTGTCTAC
25454134 TTTTATTTTA-TTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT-AA-A---
*
25454198 TATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
61 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
*
25454263 ATTAAATTAAATTGTATTTAA----T-GTTT---TATTTTATTTTATTTTATTTTAATCACGAAA
126 ATTAAATTAAATTGTATTTAATTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAA
25454320 AATATTTTGTCTAC
191 AATATTTTGTCTAC
25454334 TTTTATTTTATTTTTAAATTACCTAATATTAAATTAAATTGTATTT
1 TTTTATTTTATTTTTAAATTACCT-A-ATTAAATTAAATTGTATTT
25454380 TTAAATATTG
Statistics
Matches: 617, Mismatches: 17, Indels: 47
0.91 0.02 0.07
Matches are distributed among these distances:
199 14 0.02
200 118 0.19
201 16 0.03
202 3 0.00
203 67 0.11
204 77 0.12
205 40 0.06
208 45 0.07
209 211 0.34
211 1 0.00
212 1 0.00
213 7 0.01
214 17 0.03
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (204 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAA
ATTAAATTGTATTTAATTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAAAATAT
TTTGTCTAC
Found at i:25454294 original size:5 final size:5
Alignment explanation
Indices: 25454286--25454310 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25454276 GTATTTAATG
25454286 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
25454311 ATCACGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:25459760 original size:13 final size:14
Alignment explanation
Indices: 25459744--25459772 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25459734 TTATAAATAT
25459744 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
25459757 TTATAATGGTTTAA
1 TTATAATGGTTTAA
25459771 TT
1 TT
25459773 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:25460530 original size:31 final size:33
Alignment explanation
Indices: 25460468--25460542 Score: 109
Period size: 31 Copynumber: 2.3 Consensus size: 33
25460458 TTAGAATTAA
*
25460468 TGTTTTTGGTTGTATTGTTTATGCGAAATTTGC
1 TGTTTTTGGTTGCATTGTTTATGCGAAATTTGC
* *
25460501 TGTTTTTGGTTGCA-T-TTTATGCTATATTTGC
1 TGTTTTTGGTTGCATTGTTTATGCGAAATTTGC
25460532 TGTTTTTGGTT
1 TGTTTTTGGTT
25460543 AGATTTAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
31 25 0.64
32 1 0.03
33 13 0.33
ACGTcount: A:0.12, C:0.07, G:0.23, T:0.59
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTGTTTATGCGAAATTTGC
Found at i:25465686 original size:18 final size:20
Alignment explanation
Indices: 25465642--25465686 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
25465632 AGCAATAAGC
25465642 TATTAATT-TAATATAAATG
1 TATTAATTATAATATAAATG
*
25465661 TGTT-ATTATAA-ATAAAT-
1 TATTAATTATAATATAAATG
25465678 TATTAATTA
1 TATTAATTA
25465687 ATTTTAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 3 0.14
18 13 0.59
19 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
TATTAATTATAATATAAATG
Found at i:25466153 original size:11 final size:11
Alignment explanation
Indices: 25466113--25466159 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
25466103 TTATTTCAGA
25466113 ATTAATATATG
1 ATTAATATATG
* *
25466124 ATTAA-ATTTAA
1 ATTAATATAT-G
*
25466135 AATAATATATG
1 ATTAATATATG
25466146 ATTAATATATG
1 ATTAATATATG
25466157 ATT
1 ATT
25466160 TTGTAAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
10 3 0.11
11 22 0.79
12 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (11 bp):
ATTAATATATG
Found at i:25468554 original size:89 final size:89
Alignment explanation
Indices: 25468448--25468617 Score: 243
Period size: 89 Copynumber: 1.9 Consensus size: 89
25468438 TTCAAACCAC
* * * * * **
25468448 CAAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAGGATTTAC-AGATCTTATTACCCTAAG
1 CAAGCCTTAAACCCCTAAACAGTAGGGTAACAAGCTGAAGATTGACGA-ATCTTAACACCCTAAG
25468512 CAGTAGGGAAACAGATCAAAGGTGA
65 CAGTAGGGAAACAGATCAAAGGTGA
*
25468537 CAAGCCTTAAACCCCTAAACAGTAGGGTAACAAGCTGAAGATTGACGAATCTTAACCCCCTAAGC
1 CAAGCCTTAAACCCCTAAACAGTAGGGTAACAAGCTGAAGATTGACGAATCTTAACACCCTAAGC
*
25468602 AGTAGGGAAATAGATC
66 AGTAGGGAAACAGATC
25468618 GAAAATGAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 70 0.99
90 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (89 bp):
CAAGCCTTAAACCCCTAAACAGTAGGGTAACAAGCTGAAGATTGACGAATCTTAACACCCTAAGC
AGTAGGGAAACAGATCAAAGGTGA
Found at i:25468605 original size:45 final size:44
Alignment explanation
Indices: 25468454--25468708 Score: 153
Period size: 45 Copynumber: 5.7 Consensus size: 44
25468444 CCACCAAGCT
* *
25468454 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAGGATTTACAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGATTGACA-ATC
*** * * * * *
25468499 TTATTACCCTAAGCAGTAGGGAAAC-AGATCAA-AGGTGACAAGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGA-TTGACAA-TC
* *
25468543 TTAAACCCCTAAACAGTAGGGTAACAAGCTGAAGATTGACGAATC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGATTGAC-AATC
* *
25468588 TTAACCCCCTAAGCAGTAGGG-AA-ATAGATCGAAAATGAATTTACAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACA-AGCT-G--AA-G-ATTGACA-ATC
* * * * ****
25468637 CTAACCCCCTAAGCAGTAGGGAAAC-AGATCGAAGA-TAATGGGC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCT-GAAGATTGACAATC
*
25468680 TTAACCCCCTAAGCAGTAAGGTAACAAGC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGC
25468709 CAAATTTACA
Statistics
Matches: 162, Mismatches: 33, Indels: 31
0.72 0.15 0.14
Matches are distributed among these distances:
43 26 0.16
44 38 0.23
45 52 0.32
46 4 0.02
47 4 0.02
48 2 0.01
49 34 0.21
50 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (44 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGATTGACAATC
Found at i:25471026 original size:19 final size:18
Alignment explanation
Indices: 25471002--25471049 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
25470992 ATTTTTATAT
25471002 ATTTTAATACTACGTACA
1 ATTTTAATACTACGTACA
* * *
25471020 CATTTTATTATTACGTATA
1 -ATTTTAATACTACGTACA
25471039 AGTTTTAATAC
1 A-TTTTAATAC
25471050 ATACATTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.46
Consensus pattern (18 bp):
ATTTTAATACTACGTACA
Found at i:25473278 original size:23 final size:23
Alignment explanation
Indices: 25473239--25473301 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
25473229 CCACTAAAAC
* *
25473239 ACAAAATGGCAGCAAAGCAA-AAA
1 ACAAAATGGAAGAAAAG-AATAAA
*
25473262 GCAAAATGGAAGAAAAGAATAAA
1 ACAAAATGGAAGAAAAGAATAAA
25473285 ACAAAA--GAAGAAAAGAA
1 ACAAAATGGAAGAAAAGAA
25473302 ACGAAAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 11 0.31
22 2 0.06
23 22 0.63
ACGTcount: A:0.67, C:0.10, G:0.19, T:0.05
Consensus pattern (23 bp):
ACAAAATGGAAGAAAAGAATAAA
Found at i:25476047 original size:40 final size:39
Alignment explanation
Indices: 25475990--25476174 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
25475980 ATTAAATGAT
* * *
25475990 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
25476030 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
25476070 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
25476110 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
25476150 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
25476175 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:25476126 original size:80 final size:80
Alignment explanation
Indices: 25475989--25476195 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
25475979 AATTAAATGA
* * ** * *
25475989 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
25476054 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
25476067 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
25476132 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
25476149 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
25476196 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:25476180 original size:40 final size:39
Alignment explanation
Indices: 25475988--25476195 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
25475978 CAATTAAATG
* * ** *
25475988 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
25476028 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
25476068 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
25476108 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
25476148 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
25476188 ATATCCGG
1 ATATCCGG
25476196 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:25477818 original size:32 final size:32
Alignment explanation
Indices: 25477777--25477839 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
25477767 CAGTGATTAC
25477777 ATAGTCGCTAATGGTGTAAAATTTGATCGAGT
1 ATAGTCGCTAATGGTGTAAAATTTGATCGAGT
25477809 ATAGTCGCTAATGGTGTAAAATTTGATCGAG
1 ATAGTCGCTAATGGTGTAAAATTTGATCGAG
25477840 CTCTTGCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (32 bp):
ATAGTCGCTAATGGTGTAAAATTTGATCGAGT
Found at i:25478011 original size:20 final size:20
Alignment explanation
Indices: 25477988--25478029 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
25477978 ATAAATATTT
*
25477988 AAAATTAGGAACAATAAATA
1 AAAATTAGAAACAATAAATA
**
25478008 AAAATTTTAAACAATAAATA
1 AAAATTAGAAACAATAAATA
25478028 AA
1 AA
25478030 TAAATAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAATTAGAAACAATAAATA
Found at i:25480823 original size:31 final size:32
Alignment explanation
Indices: 25480785--25480857 Score: 114
Period size: 31 Copynumber: 2.3 Consensus size: 32
25480775 TAGGTTGTAT
25480785 TATATATAATACATATGTGTGGGTT-TTG-TTA
1 TATATATAATACATATGTGT-GGTTCTTGATTA
*
25480816 TATATATAATATATATGTGTGGTTCTTGATTA
1 TATATATAATACATATGTGTGGTTCTTGATTA
25480848 TATATATAAT
1 TATATATAAT
25480858 GTATATGCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 4 0.10
31 22 0.56
32 13 0.33
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (32 bp):
TATATATAATACATATGTGTGGTTCTTGATTA
Found at i:25482537 original size:27 final size:28
Alignment explanation
Indices: 25482477--25482537 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
25482467 GAGGGACTAA
25482477 AATATGAAATAAATGAAATATATAGGCT
1 AATATGAAATAAATGAAATATATAGGCT
* * *
25482505 TATATGAACTACATG-AATATA-AGGCT
1 AATATGAAATAAATGAAATATATAGGCT
25482531 AAGTATG
1 AA-TATG
25482538 TGTATAAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.21
27 10 0.36
28 12 0.43
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.30
Consensus pattern (28 bp):
AATATGAAATAAATGAAATATATAGGCT
Found at i:25486837 original size:139 final size:138
Alignment explanation
Indices: 25486587--25486856 Score: 468
Period size: 139 Copynumber: 1.9 Consensus size: 138
25486577 GACTAATTTA
* * *
25486587 TAAAAGTTATAAATTTGTCATAAAAGTGTGATTTAGTGGAATTGTGGGTTTCTATAGTTATGAAG
1 TAAAAGTTATAAATTTGTCATAAAAGTGTGATTTAGTGGAATTGTGGGATGCTATAGTTATGAAA
*
25486652 ATGATTCAGCTAGGCTTAAAGTGTAAAGAAATTGAATGAAAATCATTTTACGAGCATAAAGTGCA
66 ATGATTCAGCTAGGCTTAAAGTGCAAAGAAATTGAATGAAAATCATTTTACGAGCATAAAG-GCA
25486717 AAGAAATTG
130 AAGAAATTG
*
25486726 TAAAAGTTATAAATTTGTCATAAAAGTGTGATTTAGTGGAATTGTGGGATGCTATAGTTGTGAAA
1 TAAAAGTTATAAATTTGTCATAAAAGTGTGATTTAGTGGAATTGTGGGATGCTATAGTTATGAAA
* *
25486791 ATGATTCAGCTTGGCTTAAAGTGCAAAGAAATTGAATGAAAATCATTTTACGAGCATAGAGGCAA
66 ATGATTCAGCTAGGCTTAAAGTGCAAAGAAATTGAATGAAAATCATTTTACGAGCATAAAGGCAA
25486856 A
131 A
25486857 AGTGTAAATA
Statistics
Matches: 124, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
138 5 0.04
139 119 0.96
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (138 bp):
TAAAAGTTATAAATTTGTCATAAAAGTGTGATTTAGTGGAATTGTGGGATGCTATAGTTATGAAA
ATGATTCAGCTAGGCTTAAAGTGCAAAGAAATTGAATGAAAATCATTTTACGAGCATAAAGGCAA
AGAAATTG
Found at i:25489392 original size:40 final size:39
Alignment explanation
Indices: 25489348--25489501 Score: 191
Period size: 39 Copynumber: 3.9 Consensus size: 39
25489338 GTTCAAAACA
* * ** * *
25489348 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
25489388 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
25489428 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
25489467 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
25489502 TTCATTCACA
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 60 0.60
40 40 0.40
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:25489459 original size:39 final size:39
Alignment explanation
Indices: 25489378--25489501 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
25489368 TATGGTAACC
* *
25489378 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
25489418 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
25489457 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
25489496 CGCACA
1 CGCACA
25489502 TTCATTCACA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 60 0.78
40 17 0.22
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:25497318 original size:40 final size:39
Alignment explanation
Indices: 25497274--25497427 Score: 191
Period size: 39 Copynumber: 3.9 Consensus size: 39
25497264 GTTCAAAACA
* * ** * *
25497274 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
25497314 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
25497354 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
25497393 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
25497428 TTCATTCACA
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 60 0.60
40 40 0.40
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:25497385 original size:39 final size:39
Alignment explanation
Indices: 25497304--25497427 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
25497294 TATGGTAACC
* *
25497304 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
25497344 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
25497383 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
25497422 CGCACA
1 CGCACA
25497428 TTCATTCACA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 60 0.78
40 17 0.22
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:25506347 original size:41 final size:41
Alignment explanation
Indices: 25506294--25506412 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
25506284 AATGCTATCA
* *
25506294 CATATCGATGCCACTGTCCCAGACAGGGTCTTACAC-ATAT
1 CATATCGATGCCAATGTCCCAGACATGGTCTTACACGATAT
* *
25506334 CATATACGATGCCAATGTCCCAGACATGGTCTTACACGTTTT
1 CATAT-CGATGCCAATGTCCCAGACATGGTCTTACACGATAT
25506376 C-TCACTTCGATGCCAATGTCCCAGACATGGTCTTACA
1 CAT-A--TCGATGCCAATGTCCCAGACATGGTCTTACA
25506413 TGAATCACAC
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
40 5 0.07
41 30 0.43
42 4 0.06
43 30 0.43
44 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (41 bp):
CATATCGATGCCAATGTCCCAGACATGGTCTTACACGATAT
Found at i:25506400 original size:43 final size:41
Alignment explanation
Indices: 25506294--25506412 Score: 152
Period size: 43 Copynumber: 2.9 Consensus size: 41
25506284 AATGCTATCA
* *
25506294 CATA-TCGATGCCACTGTCCCAGACAGGGTCTTACACATAT
1 CATATTCGATGCCAATGTCCCAGACATGGTCTTACACATAT
* * *
25506334 CATATACGATGCCAATGTCCCAGACATGGTCTTACACGTTTT
1 CATATTCGATGCCAATGTCCCAGACATGGTCTTACAC-ATAT
25506376 C-TCACTTCGATGCCAATGTCCCAGACATGGTCTTACA
1 CAT-A-TTCGATGCCAATGTCCCAGACATGGTCTTACA
25506413 TGAATCACAC
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
40 4 0.06
41 30 0.43
42 4 0.06
43 31 0.45
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (41 bp):
CATATTCGATGCCAATGTCCCAGACATGGTCTTACACATAT
Found at i:25509321 original size:15 final size:15
Alignment explanation
Indices: 25509301--25509332 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
25509291 GACGCAGTAA
25509301 GTTAGTGAATTGACT
1 GTTAGTGAATTGACT
25509316 GTTAGTGAATTGACT
1 GTTAGTGAATTGACT
25509331 GT
1 GT
25509333 ACAACCTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.41
Consensus pattern (15 bp):
GTTAGTGAATTGACT
Found at i:25510460 original size:102 final size:100
Alignment explanation
Indices: 25510271--25510488 Score: 239
Period size: 102 Copynumber: 2.2 Consensus size: 100
25510261 TTTGTCGAAT
* * **
25510271 TTTATATTTTTTTGTTTAAGAATTTTTTGGCCCTTTTGACGTGAAGTGGAATGACAATGCAAGCA
1 TTTATATTTTTTTGTTTAAAAATGTTTTGGCCCTTTTGACGTGAAGTGGAATGACAACCCAAGCA
* *
25510336 TCATACCTCAGTTACTCAGCCCAACACACTCCTAA
66 CCACACCTCAGTTACTCAGCCCAACACACTCCTAA
** *
25510371 TTTATTATTATTTTTGTTTAAAAATGTTTTGTTCTTTTTGAC-TCGAAGTGGAATGACAACCCAA
1 TTTA-TATT-TTTTTGTTTAAAAATGTTTTGGCCCTTTTGACGT-GAAGTGGAATGACAACCCAA
* ** **
25510435 GCACCCCACC-CTAGTTACTTGGCCCAACACACTATTAA
63 GCACCACACCTC-AGTTACTCAGCCCAACACACTCCTAA
25510473 -TT-T-TTTTTTTGTTTAA
1 TTTATATTTTTTTGTTTAA
25510489 TTCCGGTTGG
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
97 11 0.11
98 2 0.02
99 1 0.01
100 4 0.04
101 8 0.08
102 74 0.74
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (100 bp):
TTTATATTTTTTTGTTTAAAAATGTTTTGGCCCTTTTGACGTGAAGTGGAATGACAACCCAAGCA
CCACACCTCAGTTACTCAGCCCAACACACTCCTAA
Found at i:25518331 original size:17 final size:16
Alignment explanation
Indices: 25518302--25518356 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
25518292 TAATATAGGG
25518302 AATA-ATATATAATAA
1 AATATATATATAATAA
* *
25518317 TATATGATATGTAATAA
1 AATAT-ATATATAATAA
25518334 AATATATATATAAATAA
1 AATATATATAT-AATAA
25518351 AATATA
1 AATATA
25518357 ATGAAATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 3 0.09
16 5 0.15
17 25 0.76
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (16 bp):
AATATATATATAATAA
Found at i:25518536 original size:19 final size:20
Alignment explanation
Indices: 25518503--25518542 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
25518493 CACAAGGAAT
*
25518503 AATATATATATATATAGTAA
1 AATATATATATATATACTAA
25518523 AATATATA-ATATATACTAA
1 AATATATATATATATACTAA
25518542 A
1 A
25518543 TTTATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATATATATATATATACTAA
Found at i:25520069 original size:44 final size:44
Alignment explanation
Indices: 25520021--25520381 Score: 456
Period size: 44 Copynumber: 8.2 Consensus size: 44
25520011 CAAACTCAGG
*
25520021 GACGCCAAATCTACTATCTTCGATATGCTCTCTGACAATACAGA
1 GACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGA
* * *
25520065 GACGCCAAATCTGCTATCTTTGATCTACTCTCTGACAATACAGA
1 GACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGA
*
25520109 GACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATATAGA
1 GACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGA
* * * * * * *
25520153 GATGCCAAATCTA-TTTCTTTGATTTGTTTTCTAACAATACAGA
1 GACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGA
*
25520196 GATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGA
1 GACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGA
* *
25520240 GACACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGA
1 GACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGA
* * * * *
25520284 GACGCCAAATCTGCTATCTTTGATCTACTCTCTAACAATATAGA
1 GACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGA
* * * * * * *
25520328 GATGCCAAATCT-GTTTCTTCGATTTGTTCTCTAACAATTCAGA
1 GACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGA
*
25520371 GATGCCAAATC
1 GACGCCAAATC
25520382 ATCTTAAATC
Statistics
Matches: 277, Mismatches: 39, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
43 70 0.25
44 207 0.75
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (44 bp):
GACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGA
Found at i:25520221 original size:131 final size:131
Alignment explanation
Indices: 25520021--25520381 Score: 456
Period size: 131 Copynumber: 2.7 Consensus size: 131
25520011 CAAACTCAGG
* * * * *
25520021 GACGCCAAATCT-ACTATCTTCGATATGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTT
1 GACGCCAAATCTGA-TATCTTTGATCTACTCTCTAACAATACAGAGATGCCAAATCT-CTATCTT
* * *
25520085 TGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATAT
64 CGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATAC
25520150 AGA
129 AGA
* * * ** *
25520153 GATGCCAAATCT-ATTTCTTTGATTTGTTTTCTAACAATACAGAGATGCCAAATCTACTATCTTC
1 GACGCCAAATCTGATATCTTTGATCTACTCTCTAACAATACAGAGATGCCAAATCT-CTATCTTC
* *
25520217 GATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACA
65 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACA
25520282 GA
130 GA
* * * *
25520284 GACGCCAAATCTGCTATCTTTGATCTACTCTCTAACAATATAGAGATGCCAAATCTGTTTCTTCG
1 GACGCCAAATCTGATATCTTTGATCTACTCTCTAACAATACAGAGATGCCAAATCTCTATCTTCG
* * * * *
25520349 ATTTGTTCTCTAACAATTCAGAGATGCCAAATC
66 ATCTGCTCTCTGACAATACAGAGACGCCAAATC
25520382 ATCTTAAATC
Statistics
Matches: 198, Mismatches: 30, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
131 150 0.76
132 48 0.24
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (131 bp):
GACGCCAAATCTGATATCTTTGATCTACTCTCTAACAATACAGAGATGCCAAATCTCTATCTTCG
ATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAG
A
Found at i:25520324 original size:175 final size:175
Alignment explanation
Indices: 25520024--25520381 Score: 608
Period size: 175 Copynumber: 2.0 Consensus size: 175
25520014 ACTCAGGGAC
* *
25520024 GCCAAATCTACTATCTTCGATATGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTTGAT
1 GCCAAATCTACTATCTTCGATATGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGAT
* *
25520089 CTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATATAGAG
66 CTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCTAACAATATAGAG
* *
25520154 ATGCCAAATCTATTTCTTTGATTTGTTTTCTAACAATACAGAGAT
131 ATGCCAAATCTATTTCTTCGATTTGTTCTCTAACAATACAGAGAT
*
25520199 GCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGAT
1 GCCAAATCTACTATCTTCGATATGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGAT
* * *
25520264 CTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTTGATCTACTCTCTAACAATATAGAG
66 CTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCTAACAATATAGAG
* *
25520329 ATGCCAAATCTGTTTCTTCGATTTGTTCTCTAACAATTCAGAGAT
131 ATGCCAAATCTATTTCTTCGATTTGTTCTCTAACAATACAGAGAT
25520374 GCCAAATC
1 GCCAAATC
25520382 ATCTTAAATC
Statistics
Matches: 171, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
175 171 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (175 bp):
GCCAAATCTACTATCTTCGATATGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGAT
CTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCTAACAATATAGAG
ATGCCAAATCTATTTCTTCGATTTGTTCTCTAACAATACAGAGAT
Found at i:25520602 original size:219 final size:220
Alignment explanation
Indices: 25520292--25520866 Score: 852
Period size: 219 Copynumber: 2.6 Consensus size: 220
25520282 GAGACGCCAA
* * * *
25520292 ATCTGCTA--TCTTTGATCTACTCTCTAAC-AATATAGAGATGCCAAATCTGTTTCTTCGATTTG
1 ATCTGCTATGTCTTTGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
* * *
25520354 TTCTCTAACAATTCAGAGATGCCAAATCATCTTAAATCTGTTTCAGCGTAAACACGTGAAAGCCA
66 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACGTGAAAGCCA
* **
25520419 AATCTGCTACGTCTTCGATCTGCTCCTTGTAAATGCAAGGATGCCAAATCATCTTGGATCTGCTT
131 AATCTGCTACGTCTTCGATCTACTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTT
*
25520484 TGATAC-AAAACATCCGAAGGTTAG
196 CGATACAAAAACATCCGAAGGTTAG
*
25520508 ATCTGCTATGTCTTTGATCTGCTCTCCATCGAATATGGAGATGCCTAATCTGTTTCTTCGATTTG
1 ATCTGCTATGTCTTTGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
* * *
25520573 TTCTCTGACAATACAGAGATGCTAAATCATCTTAGATCTGTTTTAGCGCAAACACGTGAAAGCCA
66 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACGTGAAAGCCA
*
25520638 AATCTGCTACTTCTTCGATCTACTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTT
131 AATCTGCTACGTCTTCGATCTACTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTT
*
25520703 CGATGCAAAAACATCCGAAGGTTAG
196 CGATACAAAAACATCCGAAGGTTAG
* * * * *
25520728 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGTGATGCCAAATCTATTTTTTCGATTTG
1 ATCTGCTATGTCTTTGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
* * * * * * *
25520793 TTCTCTGACAATATAGAGATGCCAAATCATCTTGGATATGCTTCAGCGTAAACACCTGAAGGTCA
66 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACGTGAAAGCCA
*
25520858 GATCTGCTA
131 AATCTGCTA
25520867 TGCTTTAGCC
Statistics
Matches: 321, Mismatches: 34, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
216 8 0.02
218 17 0.05
219 156 0.49
220 140 0.44
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (220 bp):
ATCTGCTATGTCTTTGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACGTGAAAGCCA
AATCTGCTACGTCTTCGATCTACTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTT
CGATACAAAAACATCCGAAGGTTAG
Found at i:25526464 original size:29 final size:29
Alignment explanation
Indices: 25526430--25526532 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
25526420 TAATCAGCCG
** *
25526430 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
25526459 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
25526488 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
25526517 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
25526533 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:25534540 original size:29 final size:29
Alignment explanation
Indices: 25534506--25534608 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
25534496 TAATCAGCCG
** *
25534506 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
25534535 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
25534564 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
25534593 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
25534609 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Done.