Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 83 of 255
Found at i:25280585 original size:10 final size:10
Alignment explanation
Indices: 25280570--25280607 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
25280560 GCTCGTTTCC
*
25280570 AGCTCACTCG
1 AGCTCAATCG
25280580 AGCTCAAGTC-
1 AGCTCAA-TCG
25280590 AGCTCAATCG
1 AGCTCAATCG
25280600 AGCTCAAT
1 AGCTCAAT
25280608 TTAGCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:25280613 original size:20 final size:20
Alignment explanation
Indices: 25280569--25280606 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25280559 AGCTCGTTTC
*
25280569 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
25280589 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
25280607 TTTAGCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:25284204 original size:18 final size:18
Alignment explanation
Indices: 25284181--25284215 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
25284171 CTCAACCGAG
25284181 ACATTTATCACAATTCAA
1 ACATTTATCACAATTCAA
25284199 ACATTTATCACAATTCA
1 ACATTTATCACAATTCA
25284216 TACTTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (18 bp):
ACATTTATCACAATTCAA
Found at i:25287579 original size:40 final size:40
Alignment explanation
Indices: 25287535--25287922 Score: 704
Period size: 40 Copynumber: 9.7 Consensus size: 40
25287525 GCAAACACAT
*
25287535 TTGCCTTCGGGTCTTAACCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
25287575 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
25287615 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
*
25287655 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
* *
25287695 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
25287735 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
* *
25287775 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
25287815 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
* *
25287855 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
25287895 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
25287923 TCCAATGCTC
Statistics
Matches: 337, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 337 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
Found at i:25296431 original size:40 final size:40
Alignment explanation
Indices: 25296387--25296814 Score: 748
Period size: 40 Copynumber: 10.7 Consensus size: 40
25296377 GCAAACACAT
* *
25296387 TTGCCTTCGGGTCTTAACCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25296427 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
25296467 TTGCCTTCGGGTCTTAGCCAGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25296507 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
25296547 TTGCCTTCAGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25296587 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25296627 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
25296667 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCTTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25296707 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25296747 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25296787 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
25296815 TCCAATGCTC
Statistics
Matches: 372, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 372 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:25299891 original size:16 final size:17
Alignment explanation
Indices: 25299859--25299898 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
25299849 TGAATTGAGA
*
25299859 AATTAATTTATTTAAAT
1 AATTAATTGATTTAAAT
25299876 AATTAATTGA-TTAAAT
1 AATTAATTGATTTAAAT
*
25299892 AAATAAT
1 AATTAAT
25299899 ATTTTGGGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
AATTAATTGATTTAAAT
Found at i:25301911 original size:20 final size:20
Alignment explanation
Indices: 25301886--25301927 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
25301876 GGAAGGACTT
25301886 GTTTGGTGGTTGATTGGCAG
1 GTTTGGTGGTTGATTGGCAG
*
25301906 GTTTGGTGGTTGATTGGTAG
1 GTTTGGTGGTTGATTGGCAG
25301926 GT
1 GT
25301928 GCAAAGTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.02, G:0.45, T:0.43
Consensus pattern (20 bp):
GTTTGGTGGTTGATTGGCAG
Found at i:25304289 original size:21 final size:22
Alignment explanation
Indices: 25304263--25304303 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25304253 CACTTAACAC
25304263 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
*
25304284 AGGGGCAACATGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
25304304 ACAAAATCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:25310942 original size:47 final size:46
Alignment explanation
Indices: 25310873--25311134 Score: 192
Period size: 47 Copynumber: 5.6 Consensus size: 46
25310863 GTAGGGTGCA
* * *
25310873 GATGCCATATCCCAGAAATGGTCTTACACTGGCTCATATCTC-AAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATATCTCGAAGCC
* * *
25310920 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATTTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCAT-ATCTCGAAGCC
* * ** * *
25310968 GATGCATGTCCCAGACATATCTTACACTGGCTTACGTCTCAAAGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCATATCTCGAAGCC
* * * * *
25311014 GATGCATGTCCCAGA-ATGTATTACACTAGCAC-TCGTCTCGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCAT-ATCTCGAAGCC
* * * * * **
25311059 GATGCCATGTACTAGACATGGTCTTACTCTGGCTCTTATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATAT-CTCGAAGCC
25311107 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
25311135 AGCCTACACT
Statistics
Matches: 170, Mismatches: 36, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
45 24 0.14
46 53 0.31
47 64 0.38
48 27 0.16
49 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCATATCTCGAAGCC
Found at i:25311068 original size:46 final size:46
Alignment explanation
Indices: 25310964--25311077 Score: 115
Period size: 46 Copynumber: 2.5 Consensus size: 46
25310954 ATCATTTCGT
* * *
25310964 AGCCGATGCATGTCCCAGACATATCTTACACTGGCTTACGTCTCAA
1 AGCCGATGCATGTCCCAGACATATATTACACTAGCCTACGTCTCAA
* * *
25311010 AGTCGATGCATGTCCCAGA-ATGTATTACACTAGCACT-CGTCTCGA
1 AGCCGATGCATGTCCCAGACATATATTACACTAGC-CTACGTCTCAA
* * *
25311055 TGCCGATGCCATGTACTAGACAT
1 AGCCGATG-CATGTCCCAGACAT
25311078 GGTCTTACTC
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
45 25 0.45
46 28 0.51
47 2 0.04
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (46 bp):
AGCCGATGCATGTCCCAGACATATATTACACTAGCCTACGTCTCAA
Found at i:25311084 original size:93 final size:93
Alignment explanation
Indices: 25310884--25311093 Score: 225
Period size: 93 Copynumber: 2.3 Consensus size: 93
25310874 ATGCCATATC
* * *
25310884 CCAGAAATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTACAC
1 CCAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAGACATGGTATTACAC
* *
25310949 TGACTATCATTTCGTAGCCGATGCATGTC
66 TGAC-ATCATCTCGTAGCCGATGCATGTA
* * *
25310978 CCAGACAT-ATCTTACACTGGCTTACGTCTCAAAGTCGATG-CATGTCCCAGA-AT-GTATTACA
1 CCAGACATGGTCTTACACTGGCTCACATCTC-AAGTCGATGCCATGTCCCAGACATGGTATTACA
*
25311039 CT-AGCACTCGTCTCG-ATGCCGATGCCATGTA
65 CTGA-CA-TCATCTCGTA-GCCGATG-CATGTA
* *
25311070 CTAGACATGGTCTTACTCTGGCTC
1 CCAGACATGGTCTTACACTGGCTC
25311094 TTATAATGTG
Statistics
Matches: 97, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
90 3 0.03
91 23 0.24
92 14 0.14
93 41 0.42
94 16 0.16
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (93 bp):
CCAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAGACATGGTATTACAC
TGACATCATCTCGTAGCCGATGCATGTA
Found at i:25313324 original size:27 final size:27
Alignment explanation
Indices: 25313294--25313417 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
25313284 AGTTTACTAG
25313294 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
25313321 AATTATCGAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
25313348 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
25313375 AATTACCAAAATACCCCT-GATTTAAAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
*
25313402 AATTACAAAAATACCC
1 AATTACCAAAATACCC
25313418 TTGACTTTCT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.04
27 74 0.91
28 4 0.05
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:25313442 original size:29 final size:27
Alignment explanation
Indices: 25313373--25313472 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
25313363 CTCAATTTGT
*
25313373 AAAATTACCAAAATACCCCTGATTTAA
1 AAAATTACAAAAATACCCCTGATTTAA
* *
25313400 AAAATTACAAAAATACCCTTGACTTTCTA
1 AAAATTACAAAAATACCCCTGA-TTT-AA
* * ** * *
25313429 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTACAAAAATACCCCTGATTTAA
**
25313456 AAAATTACTGAAATACC
1 AAAATTACAAAAATACC
25313473 TTTGGTTTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
27 35 0.58
28 6 0.10
29 19 0.32
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (27 bp):
AAAATTACAAAAATACCCCTGATTTAA
Found at i:25313468 original size:27 final size:27
Alignment explanation
Indices: 25313429--25313480 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
25313419 TGACTTTCTA
25313429 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
25313456 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
25313481 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:25313570 original size:27 final size:27
Alignment explanation
Indices: 25313521--25313599 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
25313511 AAATGACTAA
*
25313521 AATACCCCTATTAGGGTAAAATGACCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
25313549 AA-AGCCCCTGTAGGGTAAAATGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
* *
25313576 AATACCCTTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
25313600 GAATATGCCC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 38 0.83
28 8 0.17
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:25313610 original size:27 final size:28
Alignment explanation
Indices: 25313532--25313611 Score: 105
Period size: 27 Copynumber: 3.0 Consensus size: 28
25313522 ATACCCCTAT
*
25313532 TAGGGTAAAATGACCGTAA-AGCCCCTG
1 TAGGGTAAAATGACCGTAATAGCCCTTG
25313559 TAGGGTAAAATGACCGTAATA-CCCTTG
1 TAGGGTAAAATGACCGTAATAGCCCTTG
*
25313586 TATGGTAAAATGA-CG-AATATGCCCTT
1 TAGGGTAAAATGACCGTAATA-GCCCTT
25313612 ATGTTCCATC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
25 4 0.08
26 2 0.04
27 41 0.85
28 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (28 bp):
TAGGGTAAAATGACCGTAATAGCCCTTG
Found at i:25314788 original size:24 final size:24
Alignment explanation
Indices: 25314757--25314803 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
25314747 TTATAACATG
* *
25314757 AAAATGACCGTT-TGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
25314780 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
25314804 GTTTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
25 9 0.45
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:25314890 original size:18 final size:19
Alignment explanation
Indices: 25314851--25314890 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
25314841 CATTGTATGG
25314851 ATGATATGCACATGAAATGT
1 ATGATATGCACATG-AATGT
25314871 ATGATATGCACATG-ATGT
1 ATGATATGCACATGAATGT
25314889 AT
1 AT
25314891 TTATAAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (19 bp):
ATGATATGCACATGAATGT
Found at i:25314968 original size:23 final size:23
Alignment explanation
Indices: 25314941--25315032 Score: 148
Period size: 23 Copynumber: 4.0 Consensus size: 23
25314931 AGTGAAAAAA
25314941 GGCTTATGCCCCAGTTATTAAAG
1 GGCTTATGCCCCAGTTATTAAAG
*
25314964 GGCTTATGCCTCAGTTATTAAAG
1 GGCTTATGCCCCAGTTATTAAAG
*
25314987 GGCTTATGCCCCAGTTATAAAAAG
1 GGCTTATGCCCCAGTTAT-TAAAG
*
25315011 GGCTTTTGCCCCAGTTATTAAA
1 GGCTTATGCCCCAGTTATTAAA
25315033 AGAGGCTAGG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 42 0.67
24 21 0.33
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (23 bp):
GGCTTATGCCCCAGTTATTAAAG
Found at i:25315015 original size:24 final size:24
Alignment explanation
Indices: 25314935--25315054 Score: 138
Period size: 23 Copynumber: 5.0 Consensus size: 24
25314925 GGAGGAAGTG
*
25314935 AAAAAAGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
* *
25314959 -TAAAGGGCTTATGCCTCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
25314982 -TAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
25315005 AAAAAGGGCTTTTGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
* *
25315029 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAG-GGCTTATGCC-CCAGTTAT
25315054 A
1 A
25315055 TGATAAAGTA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
23 42 0.51
24 30 0.36
25 11 0.13
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAAGGGCTTATGCCCCAGTTAT
Found at i:25315029 original size:47 final size:49
Alignment explanation
Indices: 25314935--25315054 Score: 158
Period size: 47 Copynumber: 2.5 Consensus size: 49
25314925 GGAGGAAGTG
* * *
25314935 AAAAAAGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCTCAGTTATT
1 AAAAGAGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
*
25314983 -AAAG-GGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGAGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
*
25315030 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAGAGGCTTATGCC-CCAGTTATA
25315055 TGATAAAGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
46 18 0.29
47 24 0.38
48 9 0.14
49 12 0.19
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (49 bp):
AAAAGAGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
Found at i:25318105 original size:27 final size:27
Alignment explanation
Indices: 25318075--25318201 Score: 132
Period size: 27 Copynumber: 4.7 Consensus size: 27
25318065 TTTAGTTTAC
25318075 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
* *
25318102 TAAAATTACCGAAATACCACTAGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
* *** *
25318129 TGAAATTATTGAAATA-CCCTCAATTTG
1 TAAAATTACCAAAATACCCCT-AGTTTG
*
25318156 TAAAATTACCAAAATACCCCT-GATTTA
1 TAAAATTACCAAAATACCCCTAG-TTTG
* *
25318183 AAAAATTACAAAAATACCC
1 TAAAATTACCAAAATACCC
25318202 TTGACTTTTT
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
26 3 0.04
27 75 0.91
28 4 0.05
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTAGTTTG
Found at i:25318226 original size:29 final size:27
Alignment explanation
Indices: 25318157--25318256 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
25318147 CTCAATTTGT
*
25318157 AAAATTACCAAAATACCCCTGATTTAA
1 AAAATTACAAAAATACCCCTGATTTAA
* *
25318184 AAAATTACAAAAATACCCTTGACTTTTTA
1 AAAATTACAAAAATACCCCTGA--TTTAA
* * ** * *
25318213 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTACAAAAATACCCCTGATTTAA
**
25318240 AAAATTACTGAAATACC
1 AAAATTACAAAAATACC
25318257 TTTGGTTTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
27 38 0.63
29 22 0.37
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAATTACAAAAATACCCCTGATTTAA
Found at i:25318252 original size:27 final size:26
Alignment explanation
Indices: 25318209--25318264 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
25318199 CCCTTGACTT
25318209 TTTAAAAATTATAGAAATACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
25318235 TTTACAAAATTACT-GAAATACCTTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
25318262 TTT
1 TTT
25318265 GTTGATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:25318351 original size:27 final size:27
Alignment explanation
Indices: 25318305--25318383 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
25318295 AAATGACTAA
* *
25318305 AATACCCCTATTAGGGTAAAGTGACCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
25318333 AA-AGCCCCTGTAGGGTAAAATGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
* *
25318360 AATATCCCTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
25318384 GAATATGCCC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
27 37 0.82
28 8 0.18
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:25318398 original size:25 final size:27
Alignment explanation
Indices: 25318319--25318398 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
25318309 CCCCTATTAG
* * *
25318319 GGTAAAGTGACCGTAA-AGCCCCTGTAG
1 GGTAAAATGACCGTAATA-TCCCTGTAT
25318346 GGTAAAATGACCGTAATATCCCTGTAT
1 GGTAAAATGACCGTAATATCCCTGTAT
25318373 GGTAAAATGA-CG-AATATGCCCT-TAT
1 GGTAAAATGACCGTAATAT-CCCTGTAT
25318398 G
1 G
25318399 TTCCGTATGA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
25 9 0.19
26 6 0.12
27 32 0.67
28 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATATCCCTGTAT
Found at i:25319659 original size:20 final size:20
Alignment explanation
Indices: 25319631--25319671 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
25319621 ATAAACATTG
*
25319631 TATGGATGATATGCACCTGA
1 TATGGATGATATGCACATGA
*
25319651 TATGTATGATATGCACATGA
1 TATGGATGATATGCACATGA
25319671 T
1 T
25319672 GTATTCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (20 bp):
TATGGATGATATGCACATGA
Found at i:25319800 original size:24 final size:24
Alignment explanation
Indices: 25319721--25319838 Score: 170
Period size: 23 Copynumber: 5.0 Consensus size: 24
25319711 GAGGAAGTGA
*
25319721 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
25319745 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
25319768 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
25319791 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
25319815 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
25319839 ATGATAAAGT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
23 45 0.52
24 31 0.36
25 11 0.13
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:25319814 original size:47 final size:46
Alignment explanation
Indices: 25319722--25319817 Score: 165
Period size: 47 Copynumber: 2.1 Consensus size: 46
25319712 AGGAAGTGAA
*
25319722 AAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
25319768 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
25319815 AAA
1 AAA
25319818 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 22 0.47
47 25 0.53
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:25331286 original size:144 final size:144
Alignment explanation
Indices: 25331026--25331310 Score: 376
Period size: 144 Copynumber: 2.0 Consensus size: 144
25331016 GAGAATTGAA
* * * *
25331026 TGATATGTTTGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACCATATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTTAGGAACATGGCATCGACCACAATATGAGAGCCAGTG
** * * * * ** *
25331091 TAAGACCATGTTTGGGGCATGGCATCGACGTTGATATGTGCACTAGTGTAAGACCATGTCTGGGA
66 TAAGACCATGTTTGGAACATGGCATCGACATTAAGACGTAAACTAGTGTAAGACCATGACTGGGA
25331156 CATGGCATCGGCGT
131 CATGGCATCGGCGT
* * * *
25331170 TGATATGTGTGCTAGTGTAAGACCATGTCTAGG-ATATGGCGTCGGCCACAATATGAGAGCCGGT
1 TGATATGTGTGCTAGTGTAAGACCATGT-TAGGAACATGGCATCGACCACAATATGAGAGCCAGT
*
25331234 GTAAGACCATGTTTGGAACATGGCATCGGCATTAAGACG-AAAGCTAGTGTAAGACCATGACTGG
65 GTAAGACCATGTTTGGAACATGGCATCGACATTAAGACGTAAA-CTAGTGTAAGACCATGACTGG
25331298 GACATGGCATCGG
129 GACATGGCATCGG
25331311 TAATTTACTC
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
143 1 0.01
144 117 0.97
145 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (144 bp):
TGATATGTGTGCTAGTGTAAGACCATGTTAGGAACATGGCATCGACCACAATATGAGAGCCAGTG
TAAGACCATGTTTGGAACATGGCATCGACATTAAGACGTAAACTAGTGTAAGACCATGACTGGGA
CATGGCATCGGCGT
Found at i:25331310 original size:48 final size:48
Alignment explanation
Indices: 25331036--25331310 Score: 259
Period size: 48 Copynumber: 5.7 Consensus size: 48
25331026 TGATATGTTT
* * * *
25331036 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACCA-TATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCATTAATATGAGA
* * * * * * *
25331084 GCCAGTGTAAGACCATGTTTGGGGCATGGCATCGACGTTGATATGTGCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGAG-A
* * * *
25331133 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGAGA
* * * *
25331180 GCTAGTGTAAGACCATGTCTAGGATATGGCGTCGGCCA-CAATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTAATATGAGA
** * * * * *
25331228 GCCGGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAAGACGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGAGA
*
25331276 GCTAGTGTAAGACCATGACTGGGACATGGCATCGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
25331311 TAATTTACTC
Statistics
Matches: 185, Mismatches: 37, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
47 3 0.02
48 180 0.97
49 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGAGA
Found at i:25336950 original size:33 final size:33
Alignment explanation
Indices: 25336877--25336942 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
25336867 CAGATCAATA
* * *
25336877 ACAGTCTGGGCCTGAGCCCTATTCAGTATTAGT
1 ACAGTCTAGGCCTGAGCCCTATACAGTAATAGT
*
25336910 ACAGTCTAGGCCTTAGCCCTATACAGTAATAGT
1 ACAGTCTAGGCCTGAGCCCTATACAGTAATAGT
25336943 GTGGTCTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (33 bp):
ACAGTCTAGGCCTGAGCCCTATACAGTAATAGT
Found at i:25337351 original size:27 final size:27
Alignment explanation
Indices: 25337321--25337549 Score: 273
Period size: 27 Copynumber: 8.5 Consensus size: 27
25337311 GGCATAATAT
*
25337321 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * * *
25337348 TCATTTTACCTTATAGGGGCATTACAG
1 TCATTTTACCCTACAGGGGTATTACGG
* * *
25337375 TCATTTTACCCTACAGGGTTATTATGC
1 TCATTTTACCCTACAGGGGTATTACGG
*
25337402 TCATTTTACCCTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
25337429 TCATTTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
25337456 TTATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * *
25337483 TCACTTTACCTTA-TGAGGGTATTACGG
1 TCATTTTACCCTACAG-GGGTATTACGG
* * * *
25337510 TCATTTTATCCTA-AGAGGAATTACTG
1 TCATTTTACCCTACAGGGGTATTACGG
25337536 TCATTTTACCCTAC
1 TCATTTTACCCTAC
25337550 GGTCATTTTA
Statistics
Matches: 169, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 21 0.12
27 148 0.88
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACGG
Found at i:25337379 original size:54 final size:54
Alignment explanation
Indices: 25337321--25337669 Score: 382
Period size: 54 Copynumber: 6.7 Consensus size: 54
25337311 GGCATAATAT
* * * *
25337321 TCATTTTACCATACAGGGGTATTACGGTCATTTTACCTTATAGGGGCATTACAG
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG
* * *
25337375 TCATTTTACCCTACAGGGTTATTATGCTCATTTTACCCTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG
* * *
25337429 TCATTTTACCCTATAGGGGTATTACGGTTATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG
* * * * * * *
25337483 TCACTTTACCTTA-TGAGGGTATTACGGTCATTTTATCCTA-AGAGGAATTACTG
1 TCATTTTACCCTACAG-GGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG
*
25337536 TCATTTTA-CC--C--------TACGGTCATTTTACCCTACAGGGGCATTACTG
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG
* * * *
25337579 TCAATTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTATGG
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG
* *
25337633 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACC
1 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
25337670 TATTTTAGGG
Statistics
Matches: 249, Mismatches: 32, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
42 17 0.07
43 18 0.07
44 2 0.01
46 1 0.00
52 1 0.00
53 18 0.07
54 192 0.77
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (54 bp):
TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG
Found at i:25337426 original size:81 final size:81
Alignment explanation
Indices: 25337321--25337669 Score: 409
Period size: 81 Copynumber: 4.5 Consensus size: 81
25337311 GGCATAATAT
* * * *
25337321 TCATTTTACCATACAGGGGTATTACGGTCATTTTACCTTATAGGGGCATTACAGTCATTTTACCC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCC
* *
25337386 TACAGGGTTATTATGC
66 TACAGGGGTATTATGG
* *
25337402 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTTATTTTACCC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCC
*
25337467 TACAGGGGTATTACGG
66 TACAGGGGTATTATGG
* * * * * * * *
25337483 TCACTTTACCTTA-TGAGGGTATTACGGTCATTTTATCCTA-AGAGGAATTACTGTCATTTTACC
1 TCATTTTACCCTACAG-GGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACC
25337546 CTAC-----------GG
65 CTACAGGGGTATTATGG
* * *
25337552 TCATTTTACCCTACAGGGGCATTACTGTCAATTTACCCTACAGGGGCATTACGGTCATTTTACCC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCC
25337617 TACAGGGGTATTATGG
66 TACAGGGGTATTATGG
*
25337633 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACC
25337670 TATTTTAGGG
Statistics
Matches: 223, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
69 33 0.15
70 25 0.11
80 24 0.11
81 141 0.63
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (81 bp):
TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCC
TACAGGGGTATTATGG
Found at i:25337556 original size:16 final size:16
Alignment explanation
Indices: 25337535--25337565 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25337525 AGGAATTACT
25337535 GTCATTTTACCCTACG
1 GTCATTTTACCCTACG
25337551 GTCATTTTACCCTAC
1 GTCATTTTACCCTAC
25337566 AGGGGCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.10, T:0.39
Consensus pattern (16 bp):
GTCATTTTACCCTACG
Found at i:25337581 original size:27 final size:27
Alignment explanation
Indices: 25337547--25337669 Score: 201
Period size: 27 Copynumber: 4.6 Consensus size: 27
25337537 CATTTTACCC
25337547 TACGGTCATTTTACCCTACAGGGGCAT
1 TACGGTCATTTTACCCTACAGGGGCAT
* *
25337574 TACTGTCAATTTACCCTACAGGGGCAT
1 TACGGTCATTTTACCCTACAGGGGCAT
*
25337601 TACGGTCATTTTACCCTACAGGGGTAT
1 TACGGTCATTTTACCCTACAGGGGCAT
* *
25337628 TATGGTCATTTTACCCTACAAGGGCAT
1 TACGGTCATTTTACCCTACAGGGGCAT
25337655 TACGGTCATTTTACC
1 TACGGTCATTTTACC
25337670 TATTTTAGGG
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (27 bp):
TACGGTCATTTTACCCTACAGGGGCAT
Found at i:25337587 original size:43 final size:42
Alignment explanation
Indices: 25337505--25337592 Score: 131
Period size: 43 Copynumber: 2.1 Consensus size: 42
25337495 ATGAGGGTAT
* *
25337505 TACGGTCATTTTATCCTAAGAGGAATTACTGTCATTTTACCC
1 TACGGTCATTTTACCCTAAGAGGAATTACTGTCAATTTACCC
* *
25337547 TACGGTCATTTTACCCTACAGGGGCATTACTGTCAATTTACCC
1 TACGGTCATTTTACCCTA-AGAGGAATTACTGTCAATTTACCC
25337590 TAC
1 TAC
25337593 AGGGGCATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 17 0.41
43 24 0.59
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (42 bp):
TACGGTCATTTTACCCTAAGAGGAATTACTGTCAATTTACCC
Found at i:25341152 original size:41 final size:43
Alignment explanation
Indices: 25341105--25341191 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 43
25341095 ATGTCTGGGA
* * *
25341105 CATCGACAT-CGAT-GCATATAAGACCCTGTCTGGGACAG-TGG
1 CATCGACATGAGATAGCATATAAGACCATATCTGGGAC-GTTGG
*
25341146 CATCGACATGAGATAGCATGTAAGACCATATCTGGGACGTTGG
1 CATCGACATGAGATAGCATATAAGACCATATCTGGGACGTTGG
25341189 CAT
1 CAT
25341192 TGTATGATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 9 0.23
42 4 0.10
43 26 0.67
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (43 bp):
CATCGACATGAGATAGCATATAAGACCATATCTGGGACGTTGG
Found at i:25342572 original size:13 final size:13
Alignment explanation
Indices: 25342554--25342578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25342544 GTATTGATCA
25342554 TGTGTTCACACCT
1 TGTGTTCACACCT
25342567 TGTGTTCACACC
1 TGTGTTCACACC
25342579 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:25348429 original size:40 final size:40
Alignment explanation
Indices: 25348385--25348494 Score: 175
Period size: 40 Copynumber: 2.8 Consensus size: 40
25348375 GGAAAAAAAT
*
25348385 ATAACCGGGTTAAGTCCCGAAGGCTTTTGTACGGGTTATA
1 ATAACCGGGTTAAGTCCCGAAGGCATTTGTACGGGTTATA
* * * *
25348425 ATAACTGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATT
1 ATAACCGGGTTAAGTCCCGAAGGCATTTGTACGGGTTATA
25348465 ATAACCGGGTTAAGTCCCGAAGGCATTTGT
1 ATAACCGGGTTAAGTCCCGAAGGCATTTGT
25348495 GCTGGTTGTT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (40 bp):
ATAACCGGGTTAAGTCCCGAAGGCATTTGTACGGGTTATA
Found at i:25356165 original size:40 final size:40
Alignment explanation
Indices: 25356110--25356227 Score: 200
Period size: 40 Copynumber: 3.0 Consensus size: 40
25356100 TGGAAAAAAA
*
25356110 TATAACCGGGTTAAGTCTCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
25356150 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTCAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
25356190 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
25356228 GTTACATCCG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:25364695 original size:29 final size:30
Alignment explanation
Indices: 25364653--25364716 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
25364643 CCGTGACAGA
* *
25364653 GTATGAGCAGAAATTTTTGAGACT-TGTCG
1 GTATGAGCAGAAATTTGTGAGACTCCGTCG
*
25364682 GTATGAGCTGAAATTTGTGAGACTCCGTCG
1 GTATGAGCAGAAATTTGTGAGACTCCGTCG
25364712 GTATG
1 GTATG
25364717 CCCGAGAGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (30 bp):
GTATGAGCAGAAATTTGTGAGACTCCGTCG
Found at i:25368193 original size:8 final size:8
Alignment explanation
Indices: 25368180--25368204 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25368170 TCAAGGTGAT
25368180 AATATAAA
1 AATATAAA
25368188 AATATAAA
1 AATATAAA
25368196 AATATAAA
1 AATATAAA
25368204 A
1 A
25368205 GAGAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATATAAA
Found at i:25372249 original size:79 final size:81
Alignment explanation
Indices: 25372113--25372295 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
25372103 TCGAATGATG
* *
25372113 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
25372177 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
25372192 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
25372254 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
25372272 ACTGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
25372296 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:25372304 original size:40 final size:39
Alignment explanation
Indices: 25372114--25372297 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
25372104 CGAATGATGT
* * * *
25372114 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
25372154 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
25372194 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25372232 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
25372273 CTGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
25372298 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25372319 original size:79 final size:79
Alignment explanation
Indices: 25372166--25372330 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
25372156 GGACTAAGAT
* **
25372166 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
25372231 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
25372245 CCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
25372308 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
25372324 CCGAAGG
1 CCGAAGG
25372331 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:25377627 original size:42 final size:42
Alignment explanation
Indices: 25377571--25377682 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 42
25377561 CTATTGTGCG
* *
25377571 TGTAAGAACATGTCTGGGACATTGGCATCGTATCCTTT-TT-CA
1 TGTAAGACCCTGTCTGGGACATTGGCATCG-AT-CTTTATTACA
* *
25377613 TGTAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCCTGTCTGGGACATTGGCATCGATCTTT-ATTACA
*
25377656 TGTAAGACCAC-GTCTGGGACGTTGGCA
1 TGTAAGACC-CTGTCTGGGACATTGGCA
25377683 CTATATACGC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
40 3 0.05
41 2 0.03
42 29 0.48
43 25 0.42
44 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACATTGGCATCGATCTTTATTACA
Found at i:25380677 original size:46 final size:45
Alignment explanation
Indices: 25380618--25380795 Score: 157
Period size: 46 Copynumber: 3.8 Consensus size: 45
25380608 CTAACTATCA
*
25380618 TCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACG
1 TCTCG-AGGCGATGCATGTCCCAGACATGTCTTACACTGGCTTACG
* * *
25380664 TCTCGAGGTCGATGCATATCCCAAACATGTCTTACACTAGC--ACTTG
1 TCTCGAGG-CGATGCATGTCCCAGACATGTCTTACACTGGCTTAC--G
* *
25380710 TCTCGATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CA
1 TCTCGA-GGCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACG
* * *
25380758 TAAT-GTGGCTGACGCATGTCCCAGACATGTCTTACACT
1 T-CTCGAGGC-GATGCATGTCCCAGACATGTCTTACACT
25380796 AGCCCACAAT
Statistics
Matches: 108, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
44 2 0.02
45 2 0.02
46 56 0.52
47 29 0.27
48 17 0.16
49 1 0.01
50 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
TCTCGAGGCGATGCATGTCCCAGACATGTCTTACACTGGCTTACG
Found at i:25380786 original size:94 final size:92
Alignment explanation
Indices: 25380625--25380798 Score: 228
Period size: 94 Copynumber: 1.9 Consensus size: 92
25380615 TCATCTCGTA
* * *
25380625 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGTCGATGCATATCCCAAAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGTCGACGCATATCCCAAAC
25380690 ATGTCTTACACTAGCACTTGTCTCGAT
66 ATGTCTTACACTAGCACTTGTCTCGAT
* *
25380717 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGG-CTGACGCATGTCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGTC-GACGCATATCC
*
25380779 CAGACATGTCTTACACTAGC
61 CAAACATGTCTTACACTAGC
25380799 CCACAATAAC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
92 7 0.10
93 15 0.21
94 47 0.66
95 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGTCGACGCATATCCCAAAC
ATGTCTTACACTAGCACTTGTCTCGAT
Found at i:25399196 original size:44 final size:42
Alignment explanation
Indices: 25399124--25399282 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
25399114 ATATGTGTTA
* * * *
25399124 TCGTGTAAGACCACGTCTGAGACGTTGGCATCG-ACTTCTGTTT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGTA--TCTGATT
25399167 TGCGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATT
* * * * *
25399210 TCGTGTAAGACCCTGTCTGGGATAGTGG-AGTCGATGTTTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCA-TCG-TATCTGATT
* * * *
25399253 ACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGTGTAAGACCATGTCTGGGACATTGGCA
25399283 CTGTATATGC
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 36 0.38
44 30 0.32
45 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATT
Found at i:25399227 original size:42 final size:42
Alignment explanation
Indices: 25399124--25399231 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 42
25399114 ATATGTGTTA
* * *
25399124 TCGTGTAAGACCAC-GTCTGAGACGTTGGCATCGACTTCTGTTT
1 TCGTGTAAGACC-CTGTCTGGGACATTGGCATCGAC-TCTGATT
*
25399167 TGCGTGTAAGACCATGTCTGGGACATTGGCATCGTA-TCTGATT
1 T-CGTGTAAGACCCTGTCTGGGACATTGGCATCG-ACTCTGATT
25399210 TCGTGTAAGACCCTGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGA
25399232 TAGTGGAGTC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
42 20 0.35
43 8 0.14
44 28 0.49
45 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCCTGTCTGGGACATTGGCATCGACTCTGATT
Found at i:25402381 original size:44 final size:42
Alignment explanation
Indices: 25402318--25402476 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
25402308 TATGTGTTAT
*
25402318 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTTTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGA-TTTTG-TTTA
* * * *
25402362 CGTGTAAGACCATGTCTGGGACATTGGCATTGTATCTTATTT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCG-ATTTTGTTTA
* * *
25402404 CGTGTAAGGCCCTGTCTGGGACAG-TGGCATCGATGTTTGATTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTTGTTTA
* *
25402447 CATGTAAGACCATGTCTAGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
25402477 TGTATACGTT
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 32 0.34
43 27 0.29
44 32 0.34
45 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTTGTTTA
Found at i:25402481 original size:85 final size:86
Alignment explanation
Indices: 25402317--25402481 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 86
25402307 ATATGTGTTA
* * *
25402317 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTTTTACGTGTAAGACCATGTCTGGG
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGTCTAGG
25402382 ACATTGGCATTGTATCTTATT
66 ACATTGGCATTGTATCTTATT
*
25402403 TCGTGTAAGGCC-CTGTCTGGGACAG-TGGCATCGA-TGTTTG-ATTACATGTAAGACCATGTCT
1 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TTTGTATTACATGTAAGACCATGTCT
*
25402464 AGGACGTTGGCATTGTAT
63 AGGACATTGGCATTGTAT
25402482 ACGTTTTCCA
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
85 37 0.52
86 33 0.46
87 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (86 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGTCTAGG
ACATTGGCATTGTATCTTATT
Found at i:25412433 original size:27 final size:27
Alignment explanation
Indices: 25412403--25412553 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
25412393 ATATTGAGCC
* * *
25412403 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
25412430 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
25412458 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
25412485 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
25412512 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
25412539 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25412554 GTACAATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 81 0.76
28 25 0.24
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:25412515 original size:82 final size:81
Alignment explanation
Indices: 25412403--25412552 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
25412393 ATATTGAGCC
*
25412403 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTTA
25412468 GTGCCGCATGGTCAATT
65 GTGCCGCATGGTCAATT
* * **
25412485 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
25412549 GTGC
65 GTGC
25412553 TGTACAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAG
TGCCGCATGGTCAATT
Found at i:25428092 original size:40 final size:40
Alignment explanation
Indices: 25428038--25428248 Score: 318
Period size: 40 Copynumber: 5.3 Consensus size: 40
25428028 CCTTTGGGGT
* * *
25428038 TTAG-CCGGATATAGTTACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
*
25428077 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
25428117 ATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCAGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
*
25428157 TTGGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
* *
25428197 TTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGG-C
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
25428236 TTAGCCCGGTTAT
1 TTAGCCCGGTTAT
25428249 CAATCCGAAT
Statistics
Matches: 157, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 17 0.11
40 140 0.89
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:25437988 original size:46 final size:46
Alignment explanation
Indices: 25437841--25438108 Score: 210
Period size: 46 Copynumber: 5.7 Consensus size: 46
25437831 TGGGGTCAGG
** * * *
25437841 TGCCGATGCCATGTCCCAGACATGGTCTTACACAAGTTATAGCATATCTG-
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TA-CGTCTC-GA
* *
25437891 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTC-A
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGA
25437936 TAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGA
* * * *
25437983 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTACGTCTCGA
* * * * *
25438029 TACCGATGCCATATCCTAGACATGGTCTTACACTGGCTCTTA--TAAT-GT
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGG--CTTACGT-CTCGA
25438077 TGCCGATGCATGTCCCAGACATGTCTTACACT
1 TGCCGATGCATGTCCCAGACATGTCTTACACT
25438109 AGCTCACACA
Statistics
Matches: 183, Mismatches: 23, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
44 12 0.07
45 15 0.08
46 74 0.40
47 27 0.15
48 19 0.10
49 2 0.01
50 34 0.19
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGA
Found at i:25438083 original size:94 final size:91
Alignment explanation
Indices: 25437842--25438116 Score: 265
Period size: 94 Copynumber: 2.9 Consensus size: 91
25437832 GGGGTCAGGT
* ** *
25437842 GCCGATGCCATGTCCCAGACATGGTCTTACACAAGTTATAGCATATCTG-TGCCGATGCCATGTC
1 GCCGATG-CATATCCCAGACAT-GTCTTACACTGGCT-TA-C-TATC-GATGCCGATG-CATGTC
25437906 CCAGACATGGTCTTACACT-G-ACACATCTCATA
59 CCAGACAT-GTCTTACACTAGCACACATCTCATA
* * *
25437938 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGAC
1 GCCGATGCATATCCCAGACATGTCTTACACTGGCTTAC-TATCGATGCCGATGCATGTCCCAGAC
* *
25438003 ATGTCTTACACTAGCACTCGTCTCAATA
65 ATGTCTTACACTAGCACACATCTC-ATA
* *
25438031 -CCGATGCCATATCCTAGACATGGTCTTACACTGGCTCTTA-TAAT-GTTGCCGATGCATGTCCC
1 GCCGATG-CATATCCCAGACAT-GTCTTACACTGG--CTTACT-ATCGATGCCGATGCATGTCCC
*
25438093 AGACATGTCTTACACTAGCTCACA
61 AGACATGTCTTACACTAGCACACA
25438117 CAAGTGACCC
Statistics
Matches: 154, Mismatches: 16, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
90 10 0.06
91 16 0.10
92 24 0.16
93 17 0.11
94 61 0.40
95 15 0.10
96 11 0.07
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
GCCGATGCATATCCCAGACATGTCTTACACTGGCTTACTATCGATGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCACACATCTCATA
Found at i:25440491 original size:48 final size:49
Alignment explanation
Indices: 25440366--25440647 Score: 245
Period size: 48 Copynumber: 5.8 Consensus size: 49
25440356 GTAAGATGCT
* * * * *
25440366 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATATCAGT-GTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATATCAATGGCC
* * * * *
25440416 GATGCCATGTTCCA-AAACTGATATTACACTAGCTCACATATC-ATGGCT
1 GATGCCATGTCCCAGACA-TGGTCTTACACTAGCTCACATATCAATGGCC
* * *
25440464 GATGCGATGTCCCAGACATGGTCTTACACTAGTTCTCATATCAAT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGGCC
* * * * *
25440512 GATGCTATGTTCCAAACATGATCTTACACTAGCT-AGCATATCGA-GGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCA-CATATCAATGGCC
* * * *
25440560 GATGCCATGTCCCAGACATGTTCTTACACTAACTCTCACATCAAT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGGCC
** * *
25440608 GATGCCATGTTGCAAACATGGTCTTACACTAGCTTACATA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA
25440648 ACCCTAGTAT
Statistics
Matches: 183, Mismatches: 41, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
47 1 0.01
48 153 0.84
49 6 0.03
50 23 0.13
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGGCC
Found at i:25440552 original size:96 final size:96
Alignment explanation
Indices: 25440363--25440647 Score: 369
Period size: 96 Copynumber: 2.9 Consensus size: 96
25440353 AGCGTAAGAT
* * * *
25440363 GCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATATCAGTGTCGATGCCATGTTC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--ATATCAATGCCGATGCCATGTTC
*
25440428 CAAA-ACTGATATTACACTAGCTCACATATC-ATG
64 CAAACA-TGATCTTACACTAGCTCACATATCGA-G
* * *
25440461 GCTGATGCGATGTCCCAGACATGGTCTTACACTAGTTCTCATATCAATGCCGATGCTATGTTCCA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCA
25440526 AACATGATCTTACACTAGCT-AGCATATCGAG
66 AACATGATCTTACACTAGCTCA-CATATCGAG
* * * * *
25440557 GCCGATGCCATGTCCCAGACATGTTCTTACACTAACTCTCACATCAATGCCGATGCCATGTTGCA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCA
* *
25440622 AACATGGTCTTACACTAGCTTACATA
66 AACATGATCTTACACTAGCTCACATA
25440648 ACCCTAGTAT
Statistics
Matches: 166, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
95 1 0.01
96 126 0.76
97 3 0.02
98 36 0.22
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (96 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCA
AACATGATCTTACACTAGCTCACATATCGAG
Found at i:25446842 original size:17 final size:17
Alignment explanation
Indices: 25446804--25446842 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
25446794 GGCATGTATA
* *
25446804 GCTAGATTCATACACAT
1 GCTAGACTCATACACAC
*
25446821 ACTAGACTCATACACAC
1 GCTAGACTCATACACAC
25446838 GCTAG
1 GCTAG
25446843 GTTAGTTCAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (17 bp):
GCTAGACTCATACACAC
Found at i:25447142 original size:20 final size:21
Alignment explanation
Indices: 25447117--25447156 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25447107 CAATGCAAAC
*
25447117 AAGGGC-ACACGCCTGTGTGG
1 AAGGGCGAAACGCCTGTGTGG
25447137 AAGGGCGAAACGCCTGTGTG
1 AAGGGCGAAACGCCTGTGTG
25447157 TCCTCTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.15
Consensus pattern (21 bp):
AAGGGCGAAACGCCTGTGTGG
Found at i:25448520 original size:48 final size:47
Alignment explanation
Indices: 25448387--25448555 Score: 182
Period size: 48 Copynumber: 3.5 Consensus size: 47
25448377 CATATCCTAG
* * *
25448387 ACATGGTCTTACACTAGCTCCCATATCAATGCCGATGCTATCTTCCAA
1 ACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCAT-GTCCAA
* * * *
25448435 ACATTGTCTTACACTAGCT-T-ACTAAT-AGAGGCTGATGCCATGTCCTAG
1 ACATGGTCTTACACTAGCTCTCA-T-ATCA-ATGCCGATGCCATGTCC-AA
25448483 ACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATG-TCCAA
* *
25448531 ACATGGTCTTACACTGGCTCACATA
1 ACATGGTCTTACACTAGCTCTCATA
25448556 ACCCTAGTAT
Statistics
Matches: 100, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
46 1 0.01
47 5 0.05
48 87 0.87
49 6 0.06
50 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (47 bp):
ACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCAA
Found at i:25450164 original size:8 final size:8
Alignment explanation
Indices: 25450153--25450204 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
25450143 CGTAAATCCT
25450153 GAAATGTC
1 GAAATGTC
* *
25450161 GAAAAGTT
1 GAAATGTC
*
25450169 GAAATATC
1 GAAATGTC
*
25450177 GAAATGCC
1 GAAATGTC
*
25450185 GAAATGCC
1 GAAATGTC
*
25450193 AAAATGTC
1 GAAATGTC
25450201 GAAA
1 GAAA
25450205 AGCTGAAAGT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (8 bp):
GAAATGTC
Found at i:25450464 original size:29 final size:29
Alignment explanation
Indices: 25450422--25450529 Score: 173
Period size: 29 Copynumber: 3.8 Consensus size: 29
25450412 GAAAGCATGT
*
25450422 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
25450451 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
25450480 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
25450509 ATGTGAATGAGA-TTGGGCCTA
1 ATATGAATGTGATTTGGGCCTA
25450530 GTCCGCCATA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 9 0.12
29 65 0.88
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:25455220 original size:12 final size:12
Alignment explanation
Indices: 25455201--25455230 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
25455191 TGTTGGCATA
25455201 TCTTTTTTT-TT
1 TCTTTTTTTCTT
25455212 TCTTTTTTTCTT
1 TCTTTTTTTCTT
25455224 TCTTTTT
1 TCTTTTT
25455231 CTCGAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TCTTTTTTTCTT
Found at i:25456286 original size:13 final size:13
Alignment explanation
Indices: 25456254--25456301 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
25456244 GTAGGACTCA
*
25456254 CTGTATCTGTTCT
1 CTGTATCTGTTAT
* *
25456267 ATTTATCTGTTAT
1 CTGTATCTGTTAT
25456280 CTGTATCTG-TAT
1 CTGTATCTGTTAT
25456292 CTGTATCTGT
1 CTGTATCTGT
25456302 AAAGGATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 12 0.41
13 17 0.59
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.54
Consensus pattern (13 bp):
CTGTATCTGTTAT
Found at i:25456288 original size:6 final size:6
Alignment explanation
Indices: 25456270--25456302 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
25456260 CTGTTCTATT
25456270 TATCTG TTATCTG TATCTG TATCTG TATCTG TA
1 TATCTG -TATCTG TATCTG TATCTG TATCTG TA
25456303 AAGGATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
TATCTG
Found at i:25469457 original size:31 final size:31
Alignment explanation
Indices: 25469419--25469481 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
25469409 TTACACATAG
25469419 TCCCTTATTTGAGTCTACGGAGCCCAAAACA
1 TCCCTTATTTGAGTCTACGGAGCCCAAAACA
25469450 TCCCTTATTTGAGTCTACGGAGCCCAAAACA
1 TCCCTTATTTGAGTCTACGGAGCCCAAAACA
25469481 T
1 T
25469482 ACTTTAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (31 bp):
TCCCTTATTTGAGTCTACGGAGCCCAAAACA
Found at i:25471090 original size:49 final size:49
Alignment explanation
Indices: 25471037--25471214 Score: 189
Period size: 49 Copynumber: 3.6 Consensus size: 49
25471027 CTGGTACGCA
*
25471037 TAGTAGCCTGCACTTAGTACTACATATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
* ** * * *
25471086 TAGTAGCCTG-ACTTAGTACTACACACGTGACCTAACTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCCGGTACACG
* * * ** *
25471135 TAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGTTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATCCGGTACACG
25471186 TAGTAGCCTGCACTTAGTACTACACATGC
1 TAGTAGCCTGCACTTAGTACTACACATGC
25471215 GACCTAGCTA
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
48 18 0.17
49 35 0.33
50 17 0.16
51 35 0.33
52 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
Found at i:25471239 original size:98 final size:98
Alignment explanation
Indices: 25471021--25471220 Score: 249
Period size: 98 Copynumber: 2.0 Consensus size: 98
25471011 TATGTAGCCA
* * * * *
25471021 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCAACCAATTATCCGGTACACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACA
*
25471086 TAGTAGCCTGACTTAGTACTACACACGTGACCT
66 TAGTAGCCTGACTTAGTACTACACACGCGACCT
* * * *
25471119 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGTTATCGGGTAT
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATCCGGTAC
* *
25471183 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
63 ACATAGTAGCCTG-ACTTAGTACTACACACGCGACCT
25471220 A
1 A
25471221 GCTACATATA
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
98 38 0.44
99 4 0.05
100 22 0.26
101 22 0.26
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (98 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACA
TAGTAGCCTGACTTAGTACTACACACGCGACCT
Found at i:25472059 original size:30 final size:30
Alignment explanation
Indices: 25472025--25472085 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
25472015 TCCTTAACTC
25472025 AAACTTTTACAAATTTACAATTTTGCCCCT
1 AAACTTTTACAAATTTACAATTTTGCCCCT
* * *
25472055 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTACAAATTTACAATTTTGCCCCT
25472085 A
1 A
25472086 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTACAAATTTACAATTTTGCCCCT
Found at i:25474685 original size:28 final size:28
Alignment explanation
Indices: 25474645--25474768 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
25474635 ATATTAAGTC
* *
25474645 CGCACACTCAGTGCTATGTAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
25474673 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
25474701 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25474729 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25474758 CGCACACTTAG
1 CGCACACTTAG
25474769 CGCCAATCTC
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 73 0.82
29 16 0.18
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25477140 original size:40 final size:39
Alignment explanation
Indices: 25477042--25477304 Score: 269
Period size: 40 Copynumber: 6.6 Consensus size: 39
25477032 TCCTCGTTCA
* * * *
25477042 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
25477081 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
25477120 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
25477160 GAATGCCTTCGGGATTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
25477200 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
25477240 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
25477281 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25477305 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 40 0.21
40 143 0.73
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:25477313 original size:41 final size:41
Alignment explanation
Indices: 25477236--25477313 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
25477226 TTTGTATCTC
* * *
25477236 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
25477277 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
25477314 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:25484506 original size:39 final size:40
Alignment explanation
Indices: 25484461--25484725 Score: 279
Period size: 40 Copynumber: 6.7 Consensus size: 40
25484451 GCTCCTCGTT
* * * * *
25484461 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* * *
25484501 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
*
25484540 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
25484580 CGAATGCCTTCGGGATTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* * *
25484620 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCACA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
25484660 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
25484701 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
25484726 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 22, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
39 40 0.20
40 141 0.72
41 15 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:25487316 original size:20 final size:20
Alignment explanation
Indices: 25487291--25487346 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
25487281 AGATAGGGGC
*
25487291 ACATGCCCGTGTGGCCTGGG
1 ACATGCCCGTGCGGCCTGGG
*
25487311 ACATGCCCGTGCGGCTTGGG
1 ACATGCCCGTGCGGCCTGGG
*
25487331 ACATGCCCGTGGGGCC
1 ACATGCCCGTGCGGCC
25487347 AAGTCGTGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.32, G:0.39, T:0.18
Consensus pattern (20 bp):
ACATGCCCGTGCGGCCTGGG
Found at i:25489243 original size:16 final size:17
Alignment explanation
Indices: 25489222--25489253 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25489212 TAACATATAT
25489222 ATTATTAT-ATTATTAA
1 ATTATTATAATTATTAA
25489238 ATTATTATAATTATTA
1 ATTATTATAATTATTA
25489254 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATAATTATTAA
Found at i:25494799 original size:46 final size:44
Alignment explanation
Indices: 25494741--25494867 Score: 141
Period size: 47 Copynumber: 2.8 Consensus size: 44
25494731 TCACTTGTGT
25494741 GAGCTAGTGTAAGACATGTCTTGGACATGCATCGGCCACATTATGA-
1 GAGCTAGTGTAAGACATGTCTTGGACATGCATC-G--ACATTATGAC
* *
25494787 GAGCCAGTGTAAGACCATGT-TTGGGACATGGCATCGACATTGTGAC
1 GAGCTAGTGTAAGA-CATGTCTT-GGACAT-GCATCGACATTATGAC
*
25494833 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GA--GCTAGTGTAAGACATGTCTTGGACATGCATC
25494868 AGCTACGAGA
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
45 8 0.11
46 22 0.31
47 23 0.33
48 17 0.24
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTTGGACATGCATCGACATTATGAC
Found at i:25494912 original size:92 final size:93
Alignment explanation
Indices: 25494743--25494912 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 93
25494733 ACTTGTGTGA
* * *
25494743 GCTAGTGTAAGACATGTCTTGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGAT-AGAGCCAGTGTAAGACCATGTT
25494808 TGGGACATGGCATCGACATTGTGACGAGT
65 TGGGACATGGCATCGACATTGTGACGAGT
* * *
25494837 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GAT-GTGTCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATAGAGCCAGTGTAAGACCATGTT
25494900 TGGGACATGGCAT
65 TGGGACATGGCAT
25494913 TGGCACCTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
92 32 0.46
94 36 0.52
95 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATAGAGCCAGTGTAAGACCATGTTT
GGGACATGGCATCGACATTGTGACGAGT
Found at i:25497925 original size:46 final size:46
Alignment explanation
Indices: 25497793--25498012 Score: 205
Period size: 46 Copynumber: 4.7 Consensus size: 46
25497783 TATTGTGGGA
* * * * *
25497793 TAGTGTAAGACATGTTTGGGACATGCATCAGCCAC-ATTATGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAGAGC
** *
25497839 TAGTGTAAGACCATGTCTGGGACATGGCATCGGTATCGAGACGAGTGC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGAGC
* *
25497887 TAGTGTAAGAAATGTCTAGGACATGCATCGGCCTCGAGACGTA-AGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGAGC
* * * * *
25497933 CAGTGTAAGACATGTCTGGGACATGCATTGG-CTAAGAGATGATAG-
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGAGC
25497978 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 T-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
25498013 ACCTTACCCA
Statistics
Matches: 143, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
45 3 0.02
46 70 0.49
47 40 0.28
48 29 0.20
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGC
Found at i:25497996 original size:93 final size:95
Alignment explanation
Indices: 25497840--25498012 Score: 223
Period size: 93 Copynumber: 1.8 Consensus size: 95
25497830 TATGAGAGCT
*
25497840 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATCGAGACGAGTGCTAGTGTAAGAAATGTCTA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATAGAGACGAGTGCTAGTGTAAGAAATGTCTA
25497905 GGACAT-GCATCGGCCTCGAGACGTAAGCC
66 GGACATGGCATCGGCCTCGAGACGTAAGCC
* * *
25497934 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTA-AGAGATGA-TAG-TCAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-TATAGAGACGAGT-GCT-AGTGTAAGA-AATG
*
25497994 TCTGGGACATGGCATCGGC
62 TCTAGGACATGGCATCGGC
25498013 ACCTTACCCA
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
91 2 0.03
92 22 0.32
93 28 0.41
94 17 0.25
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGTATAGAGACGAGTGCTAGTGTAAGAAATGTCTA
GGACATGGCATCGGCCTCGAGACGTAAGCC
Found at i:25498599 original size:24 final size:25
Alignment explanation
Indices: 25498565--25498616 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
25498555 TGTTATGTTC
*
25498565 ATGGATAAGTAAAATGCACAAAT-A
1 ATGGATAAGTAAAATACACAAATGA
* *
25498589 ATGGATGAGTAAGATACACAAATGA
1 ATGGATAAGTAAAATACACAAATGA
25498614 ATG
1 ATG
25498617 TTTTCTATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (25 bp):
ATGGATAAGTAAAATACACAAATGA
Found at i:25505391 original size:47 final size:44
Alignment explanation
Indices: 25505325--25505592 Score: 195
Period size: 47 Copynumber: 5.8 Consensus size: 44
25505315 ATTGTGGGCT
* * *
25505325 AGTGTAAGACATGTATGGGACATGCATCAGCTACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-ACATGA-GAGAGCC
* *
25505371 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-GACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-C-ATGA-GAGAGCC
* * *
25505419 AGAGTAAGACATGTCTAGGACATGCATCGGC-CTTGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACATGAGA-G--AGCC
* * *
25505465 AGTGTAAGACATGTCAGGGACATGCATCGGCTACGA-GATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-AC-ATGA-GAGAGCC
* *
25505511 AGTGTAAGACCATGTCTGGGGCATGGCATC-G-ACATGAGATATGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATGAG--A-GAGCC
*
25505558 AGTGTAAGACCATGTCTGGGACACAGCATCGGCAC
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGGCAC
25505593 CTTACCCACG
Statistics
Matches: 177, Mismatches: 24, Indels: 39
0.74 0.10 0.16
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 4 0.02
46 60 0.34
47 69 0.39
48 31 0.18
49 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACATGAGAGAGCC
Found at i:25505458 original size:46 final size:46
Alignment explanation
Indices: 25505367--25505591 Score: 145
Period size: 46 Copynumber: 4.8 Consensus size: 46
25505357 ACATTATGAG
* *
25505367 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACG-A
1 AGCCAGAGTAAGA-CATGTCTAGGACAT-GCATCGGCATCGAGACGTA
* * * *
25505414 GTGCTAGAGTAAGACATGTCTAGGACATGCATCGGCCTTGAGACGTA
1 -AGCCAGAGTAAGACATGTCTAGGACATGCATCGGCATCGAGACGTA
* *
25505461 AGCCAGTGTAAGACATGTC-AGGGACATGCATCGGC-TACGAGATG-A
1 AGCCAGAGTAAGACATGTCTA-GGACATGCATCGGCAT-CGAGACGTA
* * * * * ** *
25505506 TAGTCAGTGTAAGACCATGTCTGGGGCATGGCATCGACAT-GAGATATG
1 -AGCCAGAGTAAGA-CATGTCTAGGACAT-GCATCGGCATCGAGACGTA
* * * *
25505554 AGCTAGTGTAAGACCATGTCTGGGACACAGCATCGGCA
1 AGCCAGAGTAAGA-CATGTCTAGGACA-TGCATCGGCA
25505592 CCTTACCCAC
Statistics
Matches: 145, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.02
46 62 0.43
47 62 0.43
48 17 0.12
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.20
Consensus pattern (46 bp):
AGCCAGAGTAAGACATGTCTAGGACATGCATCGGCATCGAGACGTA
Found at i:25505580 original size:140 final size:141
Alignment explanation
Indices: 25505325--25505590 Score: 362
Period size: 140 Copynumber: 1.9 Consensus size: 141
25505315 ATTGTGGGCT
*
25505325 AGTGTAAGACATGTATGGGACATGCATCAGCTACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTATGGGACATGCATCAGCTACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
25505390 GACATGGCATCGGCATCGAGACGAGTGCTAGAGTAAGACATGTCTAGGACA-TGCATCGGCCTTG
66 GACATGGCATCGACATCGAGACGAGAGCTAGAGTAAGACATGTCTAGGACACAGCATCGGCCTTG
25505454 AGACGTAAGCC
131 AGACGTAAGCC
* * *
25505465 AGTGTAAGACATGTCA-GGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGT-ATGGGACATGCATCAGCTAC-ATGATGAGAGCCAGTGTAAGACCATGTCT
* * * *
25505528 GGGGCATGGCATCGACAT-GAGA-TATGAGCTAGTGTAAGACCATGTCTGGGACACAGCATCGGC
64 GGGACATGGCATCGACATCGAGACGA-GAGCTAGAGTAAGA-CATGTCTAGGACACAGCATCGGC
25505591 ACCTTACCCA
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
138 1 0.01
139 16 0.15
140 83 0.75
141 10 0.09
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (141 bp):
AGTGTAAGACATGTATGGGACATGCATCAGCTACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCGAGACGAGAGCTAGAGTAAGACATGTCTAGGACACAGCATCGGCCTTG
AGACGTAAGCC
Found at i:25514891 original size:17 final size:19
Alignment explanation
Indices: 25514863--25514899 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
25514853 TGTAAAACCC
25514863 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
25514881 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
25514899 A
1 A
25514900 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:25523453 original size:24 final size:24
Alignment explanation
Indices: 25523418--25523525 Score: 141
Period size: 24 Copynumber: 4.6 Consensus size: 24
25523408 GAAGTGAAAG
* *
25523418 GCTG-TAA-GGAGAAGATTTGGGA
1 GCTGATAAGGGAGAGGATTTAGGA
25523440 GCTGATAAGGGAGAGGATTTAGGA
1 GCTGATAAGGGAGAGGATTTAGGA
*
25523464 GCTGATAAGGGA-AGGGATTTAGAA
1 GCTGATAAGGGAGA-GGATTTAGGA
*
25523488 GTTGATAAGGGAGAGGATTTAGGA
1 GCTGATAAGGGAGAGGATTTAGGA
*
25523512 GCTGATTAGGGAGA
1 GCTGATAAGGGAGA
25523526 ATGGTGTTGG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
22 4 0.05
23 4 0.05
24 66 0.88
25 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.41, T:0.22
Consensus pattern (24 bp):
GCTGATAAGGGAGAGGATTTAGGA
Found at i:25525042 original size:27 final size:26
Alignment explanation
Indices: 25524955--25525055 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
25524945 CCTGGTGCTA
25524955 TGCCACAATTATCTGATT-TGGTGGCAC
1 TGCCAC-ATTATCTG-TTCTGGTGGCAC
* *
25524982 TGCCACATATATCTGTTTTGGTGGCTC
1 TGCCACAT-TATCTGTTCTGGTGGCAC
*
25525009 TGCCACAATTATCTGTTCTGGTGACAC
1 TGCCAC-ATTATCTGTTCTGGTGGCAC
** *
25525036 TATCACATTATCTATTCTGG
1 TGCCACATTATCTGTTCTGG
25525056 CAGCCATGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 17 0.27
27 45 0.70
28 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (26 bp):
TGCCACATTATCTGTTCTGGTGGCAC
Found at i:25525043 original size:54 final size:52
Alignment explanation
Indices: 25524947--25525048 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 52
25524937 GGAAGCGTCC
* *
25524947 TGGTGCTATGCCACAATTATCTGATTTGGTGGCACTGCCACATATATCTGTTT
1 TGGTGCTATGCCACAATTATCTGATTTGGTGACACTACCACAT-TATCTGTTT
* *
25525000 TGGTGGCTCTGCCACAATTATCTG-TTCTGGTGACACTATCACATTATCT
1 TGGT-GCTATGCCACAATTATCTGATT-TGGTGACACTACCACATTATCT
25525049 ATTCTGGCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
53 11 0.26
54 32 0.74
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (52 bp):
TGGTGCTATGCCACAATTATCTGATTTGGTGACACTACCACATTATCTGTTT
Found at i:25526912 original size:27 final size:26
Alignment explanation
Indices: 25526825--25526925 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
25526815 CCTGGTGCTA
25526825 TGCCACAATTATCTGATT-TGGTGGCAC
1 TGCCAC-ATTATCTG-TTCTGGTGGCAC
* *
25526852 TGCCACATATATCTGTTTTGGTGGCTC
1 TGCCACAT-TATCTGTTCTGGTGGCAC
*
25526879 TGCCACAATTATCTGTTCTGGTGACAC
1 TGCCAC-ATTATCTGTTCTGGTGGCAC
** *
25526906 TATCACATTATCTATTCTGG
1 TGCCACATTATCTGTTCTGG
25526926 CAGCCATGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 17 0.27
27 45 0.70
28 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (26 bp):
TGCCACATTATCTGTTCTGGTGGCAC
Found at i:25526913 original size:54 final size:52
Alignment explanation
Indices: 25526817--25526918 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 52
25526807 GGAAGCGTCC
* *
25526817 TGGTGCTATGCCACAATTATCTGATTTGGTGGCACTGCCACATATATCTGTTT
1 TGGTGCTATGCCACAATTATCTGATTTGGTGACACTACCACAT-TATCTGTTT
* *
25526870 TGGTGGCTCTGCCACAATTATCTG-TTCTGGTGACACTATCACATTATCT
1 TGGT-GCTATGCCACAATTATCTGATT-TGGTGACACTACCACATTATCT
25526919 ATTCTGGCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
53 11 0.26
54 32 0.74
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (52 bp):
TGGTGCTATGCCACAATTATCTGATTTGGTGACACTACCACATTATCTGTTT
Found at i:25528420 original size:27 final size:27
Alignment explanation
Indices: 25528390--25528567 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25528380 ATATTGAGTC
* * * *
25528390 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25528417 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25528444 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25528472 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25528499 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25528526 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25528553 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25528568 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25528529 original size:82 final size:81
Alignment explanation
Indices: 25528411--25528566 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25528401 TGCTATATAA
* *
25528411 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25528476 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25528493 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25528557 CACTTAGTGC
65 CACTTAGTGC
25528567 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25528581 original size:82 final size:83
Alignment explanation
Indices: 25528390--25528581 Score: 216
Period size: 82 Copynumber: 2.3 Consensus size: 83
25528380 ATATTGAGTC
* * * * *
25528390 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
25528454 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
25528472 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
25528533 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
25528553 CGCACACTTAGTGCTGTACAATTTAATTC
1 CGCACACTTAGTGCTGTACAATTCAATTC
25528582 CCGCGCACTT
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 70 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:25530983 original size:23 final size:23
Alignment explanation
Indices: 25530953--25530999 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
25530943 CGGCATTTAC
25530953 GACCGTACAAAGCCTCATAAGGT
1 GACCGTACAAAGCCTCATAAGGT
25530976 GACCGTACAAAGCCTCATAAGGT
1 GACCGTACAAAGCCTCATAAGGT
25530999 G
1 G
25531000 CCATCTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (23 bp):
GACCGTACAAAGCCTCATAAGGT
Found at i:25536885 original size:27 final size:26
Alignment explanation
Indices: 25536798--25536898 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
25536788 CCTGGTGCTA
25536798 TGCCACAATTATCTGATT-TGGTGGCAC
1 TGCCAC-ATTATCTG-TTCTGGTGGCAC
* *
25536825 TGCCACATATATCTGTTTTGGTGGCTC
1 TGCCACAT-TATCTGTTCTGGTGGCAC
*
25536852 TGCCACAATTATCTGTTCTGGTGACAC
1 TGCCAC-ATTATCTGTTCTGGTGGCAC
** *
25536879 TATCACATTATCTATTCTGG
1 TGCCACATTATCTGTTCTGG
25536899 CAGCCATGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 17 0.27
27 45 0.70
28 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (26 bp):
TGCCACATTATCTGTTCTGGTGGCAC
Found at i:25536886 original size:54 final size:52
Alignment explanation
Indices: 25536790--25536891 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 52
25536780 GGAAGCGTCC
* *
25536790 TGGTGCTATGCCACAATTATCTGATTTGGTGGCACTGCCACATATATCTGTTT
1 TGGTGCTATGCCACAATTATCTGATTTGGTGACACTACCACAT-TATCTGTTT
* *
25536843 TGGTGGCTCTGCCACAATTATCTG-TTCTGGTGACACTATCACATTATCT
1 TGGT-GCTATGCCACAATTATCTGATT-TGGTGACACTACCACATTATCT
25536892 ATTCTGGCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
53 11 0.26
54 32 0.74
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (52 bp):
TGGTGCTATGCCACAATTATCTGATTTGGTGACACTACCACATTATCTGTTT
Found at i:25538396 original size:27 final size:27
Alignment explanation
Indices: 25538366--25538543 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25538356 ATATTGAGTC
* * * *
25538366 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25538393 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25538420 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25538448 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25538475 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25538502 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25538529 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25538544 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25538505 original size:82 final size:81
Alignment explanation
Indices: 25538387--25538542 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25538377 TGCTATATAA
* *
25538387 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25538452 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25538469 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25538533 CACTTAGTGC
65 CACTTAGTGC
25538543 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25538557 original size:82 final size:83
Alignment explanation
Indices: 25538366--25538557 Score: 216
Period size: 82 Copynumber: 2.3 Consensus size: 83
25538356 ATATTGAGTC
* * * * *
25538366 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
25538430 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
25538448 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
25538509 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
25538529 CGCACACTTAGTGCTGTACAATTTAATTC
1 CGCACACTTAGTGCTGTACAATTCAATTC
25538558 CCGCGCACTT
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 70 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:25551445 original size:42 final size:41
Alignment explanation
Indices: 25551379--25551499 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 41
25551369 GGGTTACTAC
*
25551379 GATTACGTGTAAGACCATATTTGGGATATGGAATTGATATGA
1 GATTACGTGTAAGACCATA-TTGGGATATGGCATTGATATGA
* * * *
25551421 GACTT-TGTGTAAGACCATAGTTGGGCTATTAGCATCGATATGA
1 GA-TTACGTGTAAGACCATA-TTGGGATA-TGGCATTGATATGA
*
25551464 GATTACATGTAAGACCATATCTGGGATATGGCATTG
1 GATTACGTGTAAGACCATAT-TGGGATATGGCATTG
25551500 GTACAGTAGT
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 31 0.48
43 33 0.52
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.32
Consensus pattern (41 bp):
GATTACGTGTAAGACCATATTGGGATATGGCATTGATATGA
Found at i:25553140 original size:20 final size:20
Alignment explanation
Indices: 25553115--25553186 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
25553105 CGGGTTCGGG
* *
25553115 ACACGGGTGTGTCCCAAACC
1 ACACGGGCGTGTTCCAAACC
*
25553135 ACACGGGCTTGTTCCAAACC
1 ACACGGGCGTGTTCCAAACC
25553155 ACACGGGCGTGTTCCAAACC
1 ACACGGGCGTGTTCCAAACC
*
25553175 ACTCGGGCGTGT
1 ACACGGGCGTGT
25553187 GACCCTTGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.22, C:0.33, G:0.26, T:0.18
Consensus pattern (20 bp):
ACACGGGCGTGTTCCAAACC
Found at i:25566683 original size:24 final size:24
Alignment explanation
Indices: 25566651--25566736 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
25566641 GTGTTCCTCA
25566651 CACACATAGTGCTATATAATCTCG
1 CACACATAGTGCTATATAATCTCG
* * * * *
25566675 CACACATAGTGCCATGTAGTTTTTG
1 CACACATAGTGCTATATA-ATCTCG
** *
25566700 CACACATAGTG-TCGCATAACCTCG
1 CACACATAGTGCT-ATATAATCTCG
25566724 CACACATAGTGCT
1 CACACATAGTGCT
25566737 GAAATTTCTT
Statistics
Matches: 46, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
24 29 0.63
25 17 0.37
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (24 bp):
CACACATAGTGCTATATAATCTCG
Found at i:25580683 original size:39 final size:40
Alignment explanation
Indices: 25580588--25580849 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
25580578 TTGAATGATG
*
25580588 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
25580626 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
25580667 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
25580706 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
25580745 TCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
25580784 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
25580823 AACCGGGCTATGTCTCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
25580850 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 131 0.65
40 57 0.28
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:25584301 original size:40 final size:40
Alignment explanation
Indices: 25584210--25584376 Score: 201
Period size: 40 Copynumber: 4.2 Consensus size: 40
25584200 TCCTCGTTCA
* * * * *
25584210 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
25584249 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
25584289 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
25584329 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
25584369 AAGGCCTT
1 AATGCCTT
25584377 TGGATCTTAG
Statistics
Matches: 109, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 77 0.71
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:25584311 original size:79 final size:80
Alignment explanation
Indices: 25584210--25584356 Score: 215
Period size: 79 Copynumber: 1.9 Consensus size: 80
25584200 TCCTCGTTCA
* * * * *
25584210 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-CATGCCTTCGGGACGTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACGAATGCCCTCGGGACGTAACCCGGAT
25584274 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* * *
25584289 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACGAATGCCCTCGGGACGTAACCCGGAT
25584354 TTA
66 TTA
25584357 GTATCTCGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 34 0.58
80 25 0.42
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACGAATGCCCTCGGGACGTAACCCGGAT
TTAACAACTCGCACG
Found at i:25590841 original size:49 final size:47
Alignment explanation
Indices: 25590785--25590910 Score: 153
Period size: 49 Copynumber: 2.6 Consensus size: 47
25590775 GAGTTGTGTT
*
25590785 AGTGTAAGACCTGTTTGGAACCTAGCATCGACACAGATAAGTGAGAGCC
1 AGTGTAAGACCTGTTTGGAACATAGCATCGACACAGAT--GTGAGAGCC
* * * ** *
25590834 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATGTGAGAGCT
1 AGTGTAAGACCTGTTTGGAACATAGCATCGACACAGATGTGAGAGCC
*
25590881 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACC-TGTTTGGAACATAGCATC
25590911 AACATCGTAC
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
47 19 0.28
48 16 0.24
49 32 0.48
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCTGTTTGGAACATAGCATCGACACAGATGTGAGAGCC
Found at i:25594287 original size:51 final size:51
Alignment explanation
Indices: 25594232--25594384 Score: 306
Period size: 51 Copynumber: 3.0 Consensus size: 51
25594222 TGAAACAGAT
25594232 AGCTTATCTCACTTTTATGTTGAATACTCAAGTAACTGAAGTGAAGATTGA
1 AGCTTATCTCACTTTTATGTTGAATACTCAAGTAACTGAAGTGAAGATTGA
25594283 AGCTTATCTCACTTTTATGTTGAATACTCAAGTAACTGAAGTGAAGATTGA
1 AGCTTATCTCACTTTTATGTTGAATACTCAAGTAACTGAAGTGAAGATTGA
25594334 AGCTTATCTCACTTTTATGTTGAATACTCAAGTAACTGAAGTGAAGATTGA
1 AGCTTATCTCACTTTTATGTTGAATACTCAAGTAACTGAAGTGAAGATTGA
25594385 GTCAGTACCA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 102 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (51 bp):
AGCTTATCTCACTTTTATGTTGAATACTCAAGTAACTGAAGTGAAGATTGA
Found at i:25601457 original size:20 final size:20
Alignment explanation
Indices: 25601432--25601472 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
25601422 TCCCTAAATG
25601432 ACTGCCTTGTTCTCTTGAAA
1 ACTGCCTTGTTCTCTTGAAA
25601452 ACTGCCTTGTTCTCTTGAAA
1 ACTGCCTTGTTCTCTTGAAA
25601472 A
1 A
25601473 GCTCTCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (20 bp):
ACTGCCTTGTTCTCTTGAAA
Found at i:25612078 original size:70 final size:70
Alignment explanation
Indices: 25611964--25612098 Score: 198
Period size: 70 Copynumber: 1.9 Consensus size: 70
25611954 TAGTTTATTA
* * * * * * *
25611964 CTAATTAATTTGCTGCTGTAATGTTGTAAAATATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATAAATATGCTACTGTAATGCTGTAAAATATTGGCTATCCAAATTAGGACAAAATCATGGTG
25612029 CTTAG
66 CTTAG
*
25612034 CTAATAAATATGCTACTGTAATGCTGTAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTG
1 CTAATAAATATGCTACTGTAATGCTGTAAAATATTGGCTATCCAAATTAGGACAAAATCATGGTG
25612099 TTATGTGCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 57 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (70 bp):
CTAATAAATATGCTACTGTAATGCTGTAAAATATTGGCTATCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:25612935 original size:43 final size:43
Alignment explanation
Indices: 25612871--25612955 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
25612861 TATCGAAATG
** * * *
25612871 TGATATACGGGCTTCGGGCCTAGTAGGCTATAATGCCGGTGAAA
1 TGATATACGGGCTTCAAGCCTAGCAGCCGA-AATGCCGGTGAAA
25612915 TGATAT-CGGGCTTCAAGCCTAGCAGCCGAAATGCCGGTGAA
1 TGATATACGGGCTTCAAGCCTAGCAGCCGAAATGCCGGTGAA
25612956 TGAATTCAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 12 0.33
43 18 0.50
44 6 0.17
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (43 bp):
TGATATACGGGCTTCAAGCCTAGCAGCCGAAATGCCGGTGAAA
Found at i:25626895 original size:20 final size:20
Alignment explanation
Indices: 25626858--25626912 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
25626848 TGTGGGCAGG
*
25626858 CCGTGTGG-TCA-CACACGC
1 CCGTGTGGCTCAGGACACGC
25626876 CCGTGTGGCTCAGGACACGC
1 CCGTGTGGCTCAGGACACGC
*
25626896 CCATGTGGCTCAGGACA
1 CCGTGTGGCTCAGGACA
25626913 TGCTCGTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.24
19 3 0.09
20 22 0.67
ACGTcount: A:0.18, C:0.35, G:0.31, T:0.16
Consensus pattern (20 bp):
CCGTGTGGCTCAGGACACGC
Found at i:25628885 original size:48 final size:48
Alignment explanation
Indices: 25628832--25628978 Score: 222
Period size: 48 Copynumber: 3.1 Consensus size: 48
25628822 CCATGTCCCA
25628832 ACATTGGCTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTT
1 ACATTGGCTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTT
* * * *
25628880 ACATTGGCTCGCATAACAATGTCGATGCCATGTCCCAAATATGGTCTT
1 ACATTGGCTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTT
* ** *
25628928 ACACTGGCTCATGTAACAATGCCGATGTCATGTCCCAGACATGGTCTT
1 ACATTGGCTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTT
25628976 ACA
1 ACA
25628979 CTGTTACACA
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (48 bp):
ACATTGGCTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTT
Found at i:25634763 original size:35 final size:35
Alignment explanation
Indices: 25634685--25634755 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
25634675 ATATATAAGC
* *
25634685 TCAATATAAACTCACATGTAACCAAATTCACATGT
1 TCAATATAAACTCACATGTAACCAAATACACAAGT
* * *
25634720 TCAATATAAATTCACATGTAACCGAATACTCAAGT
1 TCAATATAAACTCACATGTAACCAAATACACAAGT
25634755 T
1 T
25634756 TGATATAAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (35 bp):
TCAATATAAACTCACATGTAACCAAATACACAAGT
Found at i:25637730 original size:6 final size:6
Alignment explanation
Indices: 25637700--25637821 Score: 52
Period size: 6 Copynumber: 19.8 Consensus size: 6
25637690 TATCAAAACT
* * * * * *
25637700 AGAATC AAAATG AGAATC AGGATC AGAATC AG-GTGAC AGAACC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * * *
25637749 AGAATT AGAATC AGAATT AGGTGAT- AGAATT AGAACC AGAATC AGTATC
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC
*
25637798 AGGTAA-C AGAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
25637822 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 24, Indels: 18
0.66 0.19 0.14
Matches are distributed among these distances:
5 5 0.06
6 67 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:25637746 original size:37 final size:37
Alignment explanation
Indices: 25637700--25637821 Score: 103
Period size: 37 Copynumber: 3.5 Consensus size: 37
25637690 TATCAAAACT
* * *
25637700 AGAATCAAAATGAGAATCAGGATCAGAATCAGGTGAC
1 AGAACCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
25637737 AGAACCAAAATCAGAATTAGAATCAGAATTAGGTGAT
1 AGAACCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * * *
25637774 AG------AATTAGAACCAGAATCAGTATCAGGTAAC
1 AGAACCAAAATCAGAATCAGAATCAGAATCAGGTGAC
*
25637805 AGAATCAAAATCAGAAT
1 AGAACCAAAATCAGAAT
25637822 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
31 24 0.38
37 40 0.62
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (37 bp):
AGAACCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:25638275 original size:27 final size:27
Alignment explanation
Indices: 25638245--25638440 Score: 241
Period size: 27 Copynumber: 7.3 Consensus size: 27
25638235 GGGGTAAAAT
* * *
25638245 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
25638272 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
** *
25638299 AATAATTCTACCCTACAAGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
25638326 GGTATTTCTACCCTAAAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
25638353 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
25638380 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
25638407 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
25638434 GATAATT
1 GGTAATT
25638441 TTGTAAATCA
Statistics
Matches: 143, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 3 0.02
27 137 0.96
28 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:25638371 original size:81 final size:81
Alignment explanation
Indices: 25638261--25638440 Score: 279
Period size: 81 Copynumber: 2.2 Consensus size: 81
25638251 TTTACCCCAC
* *
25638261 AAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAATAATTCTACCCTACAAGGGTATTTA
1 AAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAATAATTCTACCCTACAAGGGTATTTA
25638326 GGTATTTCTACCCTAA
66 GGTATTTCTACCCTAA
* * * * *
25638342 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAATAATTCTACCCTACAAGGGTATTTA
*
25638407 GGTATTTCTACCCTAC
66 GGTATTTCTACCCTAA
*
25638423 AAGGGTATTTCGATAATT
1 AAGGGTATTTCGGTAATT
25638441 TTGTAAATCA
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 90 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (81 bp):
AAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAATAATTCTACCCTACAAGGGTATTTA
GGTATTTCTACCCTAA
Done.