Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold389
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: 982648
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 5 of 7
Found at i:610936 original size:32 final size:32
Alignment explanation
Indices: 610895--610957 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
610885 TAGCTAATTA
*
610895 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
610927 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
610958 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:611021 original size:21 final size:21
Alignment explanation
Indices: 610995--611072 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
610985 GTTGGGACCC
610995 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTAGAA
611016 TGTATCGATACATTTGT-GAA
1 TGTATCGATACATTTGTAGAA
* *
611036 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTGTA-GAA
611057 TGTATCGATACATTTG
1 TGTATCGATACATTTG
611073 GAATTTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 31 0.61
22 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTGTAGAA
Found at i:611059 original size:41 final size:40
Alignment explanation
Indices: 610995--611076 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
610985 GTTGGGACCC
* *
610995 TGTATCGATACATTTGTAGAATGTATCGATACATTTGTGAA
1 TGTATCGATACATTTCTAAAATGTATCGATACATTTG-GAA
611036 TGTATCGATACA-TTCTACAAATGTATCGATACATTTGGAA
1 TGTATCGATACATTTCTA-AAATGTATCGATACATTTGGAA
611076 T
1 T
611077 TTTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (40 bp):
TGTATCGATACATTTCTAAAATGTATCGATACATTTGGAA
Found at i:611100 original size:18 final size:18
Alignment explanation
Indices: 611077--611112 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
611067 CATTTGGAAT
611077 TTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTCAA
611095 TTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTCAA
611113 ACACTTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTCAA
Found at i:611874 original size:55 final size:55
Alignment explanation
Indices: 611788--612586 Score: 1033
Period size: 55 Copynumber: 14.3 Consensus size: 55
611778 ATAAACTGTA
* * * * *
611788 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * *
611843 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTATGTAGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
611898 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
**
611953 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
** * *
612014 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
612069 TCCTGCTCTTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
612124 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
612179 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
612234 TCCTGCTCTTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
**
612289 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
** * * *
612350 TCCTGCTCTTTGAGGACTGAAAAATGGCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
612405 TCCTGCTCTTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
612460 TCCTGCTCTTTGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
612515 TCCTGCTCTTTGAGGA-TGGAAGGCGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
612569 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
612587 AAAAAGCGGA
Statistics
Matches: 664, Mismatches: 54, Indels: 52
0.86 0.07 0.07
Matches are distributed among these distances:
54 73 0.11
55 467 0.70
56 27 0.04
60 8 0.01
61 89 0.13
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:612144 original size:26 final size:26
Alignment explanation
Indices: 612115--612202 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
612105 GTGTGGGCTT
612115 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
612141 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
*
612168 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
*
612196 TGGAAGG
1 TGAAAGG
612203 CGCCACCAAC
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 15 0.34
27 7 0.16
28 8 0.18
29 8 0.18
30 3 0.07
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:612356 original size:281 final size:274
Alignment explanation
Indices: 611787--612591 Score: 1120
Period size: 281 Copynumber: 2.9 Consensus size: 274
611777 AATAAACTGT
* * *
611787 ATCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTC
1 ATCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTC
* * *
611851 TTTGGGGAATGAAAGGTGCCACCAACTTATGTAGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT
65 TTTGAGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT
**
611916 GGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT-GAAAGGTG
130 GGAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGA-TGGAAA-GTG
**
611979 CCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCAC
192 CCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTGAAAAATGCCAC
*
612044 CAACCTGTGTGGGCTTTAAAAGGT
251 CAACCTGTGTGGGCTTTAAAAGGC
* * *
612068 GTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
*
612133 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
66 TTGAGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
* *
612198 GAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCA
131 GAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGA-TGGAAAGTGCCA
** *
612263 CCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
195 CCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTG
612328 TGGGCTTTGAAAAGAAAAAGC
260 TGGGCTTT-AAAAG-----GC
* * *
612349 ATCCTGCTCTTTGAGGACTGAAAAATGGCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* *
612414 TTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGAC
66 TTGAGGAAT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGAC
* * * *
612477 TGAAAGGTGCCACTAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGATGGAAGGCGCC
129 TGGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGATGGAAAGTGCC
612542 ACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACT-AAAAA
194 ACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGAAAAA
612592 GCGGAAGGAG
Statistics
Matches: 476, Mismatches: 36, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
275 45 0.09
276 5 0.01
279 5 0.01
280 56 0.12
281 351 0.74
282 14 0.03
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (274 bp):
ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
TTGAGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
GAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGATGGAAAGTGCCAC
CAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGT
GGGCTTTAAAAGGC
Found at i:612401 original size:336 final size:335
Alignment explanation
Indices: 611788--612586 Score: 1447
Period size: 336 Copynumber: 2.4 Consensus size: 335
611778 ATAAACTGTA
* * * * *
611788 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCT
* * * * *
611852 TTGGGGAATGAAAGGTGCCACCAACTTATGTAGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
65 TTGAGG-ATGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
611917 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
129 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
611982 CCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
194 CCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
612047 CCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGG
259 CCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGG
612112 CTTTGAAAGGTG
324 CTTTGAAAGGTG
612124 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
*
612189 TGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGATTGG
66 TGAGGA-TGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGG
612254 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
130 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
*
612319 CAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGGCACCAAC
195 CAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAAC
612384 CTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGC
260 CTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGC
612449 TTTGAAAGGTG
325 TTTGAAAGGTG
*
612460 TCCTGCTCTTTGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
612525 TGAGGATGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT
66 TGAGGATGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT
612587 AAAAAGCGGA
Statistics
Matches: 447, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
335 58 0.13
336 389 0.87
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (335 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
TGAGGATGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGA
AAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACC
AACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACC
TGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCT
TTGAAAGGTG
Found at i:613621 original size:11 final size:11
Alignment explanation
Indices: 613592--613621 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
613582 TGTTTTTTTG
*
613592 TTTTTTTCCTT
1 TTTTTTTGCTT
613603 TTTTTTTGCTT
1 TTTTTTTGCTT
613614 TTTTTTTG
1 TTTTTTTG
613622 AAGAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTGCTT
Found at i:626094 original size:28 final size:28
Alignment explanation
Indices: 626013--626094 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
626003 TTTTGGAGAT
*
626013 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
626041 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
626069 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
626095 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:626237 original size:51 final size:51
Alignment explanation
Indices: 626077--626247 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
626067 GAAATAACGA
* * *
626077 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
626129 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
626182 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
626233 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
626248 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:626293 original size:27 final size:28
Alignment explanation
Indices: 626230--626305 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
626220 AAAATAAAGT
*
626230 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
626258 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
626285 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
626306 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:628800 original size:13 final size:13
Alignment explanation
Indices: 628782--628806 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
628772 CAAAGATCCA
628782 TGTATCGATACAT
1 TGTATCGATACAT
628795 TGTATCGATACA
1 TGTATCGATACA
628807 CAGAAAAAAT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:628804 original size:33 final size:34
Alignment explanation
Indices: 628762--628829 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
628752 AATTTCCAAA
***
628762 TGTATCGATACAAAG-ATCCATGTATCGATACAT
1 TGTATCGATACAAAGAAAAAATGTATCGATACAT
*
628795 TGTATCGATACACAGAAAAAATGTATCGATACAT
1 TGTATCGATACAAAGAAAAAATGTATCGATACAT
628829 T
1 T
628830 TCCTTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (34 bp):
TGTATCGATACAAAGAAAAAATGTATCGATACAT
Found at i:628871 original size:19 final size:18
Alignment explanation
Indices: 628847--628914 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
628837 CAGTAGCTAA
628847 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
628866 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
628881 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
628898 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
628915 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:628887 original size:13 final size:13
Alignment explanation
Indices: 628869--628893 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
628859 ACAATACTTA
628869 TGTATCGATACAT
1 TGTATCGATACAT
628882 TGTATCGATACA
1 TGTATCGATACA
628894 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:628891 original size:32 final size:32
Alignment explanation
Indices: 628850--628912 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
628840 TAGCTAATTA
*
628850 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
628882 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
628913 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:628976 original size:21 final size:21
Alignment explanation
Indices: 628950--629027 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
628940 GTTGGGACCC
628950 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTAGAA
628971 TGTATCGATACATTTGT-GAA
1 TGTATCGATACATTTGTAGAA
* *
628991 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTGTA-GAA
629012 TGTATCGATACATTTG
1 TGTATCGATACATTTG
629028 GAATTTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 31 0.61
22 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTGTAGAA
Found at i:629014 original size:41 final size:40
Alignment explanation
Indices: 628950--629031 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
628940 GTTGGGACCC
* *
628950 TGTATCGATACATTTGTAGAATGTATCGATACATTTGTGAA
1 TGTATCGATACATTTCTAAAATGTATCGATACATTTG-GAA
628991 TGTATCGATACA-TTCTACAAATGTATCGATACATTTGGAA
1 TGTATCGATACATTTCTA-AAATGTATCGATACATTTGGAA
629031 T
1 T
629032 TTTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (40 bp):
TGTATCGATACATTTCTAAAATGTATCGATACATTTGGAA
Found at i:629055 original size:17 final size:17
Alignment explanation
Indices: 629033--629066 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
629023 ATTTGGAATT
629033 TTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTCAA
629050 TTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTCAA
629067 ACACTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTTTTTCAA
Found at i:630581 original size:13 final size:13
Alignment explanation
Indices: 630563--630589 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
630553 ATAGTAACTC
630563 ATGTATCGATACA
1 ATGTATCGATACA
630576 ATGTATCGATACA
1 ATGTATCGATACA
630589 A
1 A
630590 GGAATGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:639127 original size:52 final size:52
Alignment explanation
Indices: 638979--639107 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
638969 CGAAATATGA
*
638979 AAATTTGCATGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
639031 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
639083 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
639108 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:639134 original size:13 final size:13
Alignment explanation
Indices: 639116--639140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
639106 CAAAGATCAG
639116 TGTATCGATACAA
1 TGTATCGATACAA
639129 TGTATCGATACA
1 TGTATCGATACA
639141 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:639137 original size:33 final size:31
Alignment explanation
Indices: 639095--639289 Score: 101
Period size: 32 Copynumber: 6.0 Consensus size: 31
639085 ATTTGCCTGC
639095 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGAT-A-TGTATCGATACA
**
639128 ATGTATCGATACATTTGAGTAATGTATCGATAC-
1 ATGTATCGATACA-AAGA-T-ATGTATCGATACA
* * * * * *
639161 AT-TTTC-TTAGCAGTAGCCT-CGTAGCGATACA
1 ATGTATCGATA-CA-AAG-ATATGTATCGATACA
* *
639192 TTGTATCGATACAAAGCTTATGTATCGATACA
1 ATGTATCGATACAAAG-ATATGTATCGATACA
* **
639224 TTGTATCGATACAACACTTTATGTATCGATACA
1 ATGTATCGATACAA-A-GATATGTATCGATACA
* ** *
639257 TTGTATCGATACAACATTTTTGTATCGATACA
1 ATGTATCGATACAA-AGATATGTATCGATACA
639289 A
1 A
639290 ATCGTTGAAA
Statistics
Matches: 132, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
30 9 0.07
31 7 0.05
32 52 0.39
33 49 0.37
34 13 0.10
35 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (31 bp):
ATGTATCGATACAAAGATATGTATCGATACA
Found at i:639203 original size:13 final size:13
Alignment explanation
Indices: 639185--639269 Score: 53
Period size: 13 Copynumber: 5.5 Consensus size: 13
639175 AGCCTCGTAG
639185 CGATACATTGTAT
1 CGATACATTGTAT
639198 CGATACAAAGCTTATGTAT
1 CGATAC--A--TT--GTAT
639217 CGATACATTGTAT
1 CGATACATTGTAT
639230 CGATACAACACTTTATGTAT
1 CGAT---ACA---T-TGTAT
639250 CGATACATTGTAT
1 CGATACATTGTAT
639263 CGATACA
1 CGATACA
639270 ACATTTTTGT
Statistics
Matches: 59, Mismatches: 0, Indels: 26
0.69 0.00 0.31
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 3 0.05
16 3 0.05
17 6 0.10
19 11 0.19
20 9 0.15
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:639226 original size:32 final size:32
Alignment explanation
Indices: 639185--639288 Score: 165
Period size: 32 Copynumber: 3.2 Consensus size: 32
639175 AGCCTCGTAG
639185 CGATACATTGTATCGATACAA-AGCTTATGTAT
1 CGATACATTGTATCGATACAACA-CTTATGTAT
639217 CGATACATTGTATCGATACAACACTTTATGTAT
1 CGATACATTGTATCGATACAACAC-TTATGTAT
* *
639250 CGATACATTGTATCGATACAACATTTTTGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
639282 CGATACA
1 CGATACA
639289 AATCGTTGAA
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
32 36 0.53
33 32 0.47
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:639281 original size:19 final size:19
Alignment explanation
Indices: 639224--639289 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
639214 TATCGATACA
639224 TTGTATCGATACAACACTTT
1 TTGTATCGATACAACA-TTT
*
639244 ATGTATCGAT---ACA---
1 TTGTATCGATACAACATTT
639257 TTGTATCGATACAACATTT
1 TTGTATCGATACAACATTT
639276 TTGTATCGATACAA
1 TTGTATCGATACAA
639290 ATCGTTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 9 0.24
16 3 0.08
17 3 0.08
19 14 0.37
20 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACAACATTT
Found at i:640081 original size:49 final size:49
Alignment explanation
Indices: 640015--640728 Score: 804
Period size: 49 Copynumber: 14.9 Consensus size: 49
640005 GAAGATGAGA
* *
640015 AAGGCGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
640064 AAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
640113 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
640157 -AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGATG
*
640206 ACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
640253 -AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
640301 AATGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT---G--G
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
640345 -AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
640393 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
640437 -AGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
640485 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
640528 AAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGATG
* *
640578 ACAAAAGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTTAAAGATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-TTAAAGATG
* * *
640631 AAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
640680 ACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
640729 GAAGATGCCA
Statistics
Matches: 561, Mismatches: 62, Indels: 81
0.80 0.09 0.12
Matches are distributed among these distances:
43 187 0.33
45 1 0.00
46 6 0.01
47 2 0.00
48 1 0.00
49 207 0.37
50 35 0.06
52 42 0.07
53 78 0.14
54 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:640199 original size:92 final size:92
Alignment explanation
Indices: 639969--640724 Score: 1055
Period size: 92 Copynumber: 7.9 Consensus size: 92
639959 AAAAGGATGT
* * * * * *
639969 CAATGTGTTGATTCACGGTCAGCGACATTTAGACTTGAAGATGAGAAAGGCGCCAATATGCTGAT
1 CAATGTGCTGATTCAAGGCCAGCTACA-TTGGACTT-AA-A-GATAAAGGCGCCAATATGCTGAT
*
640034 TCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGC
62 TCAAGGCCAGCGATATTGGACTT---G--G-AGGTGC
*
640071 CAATGTGCTGATTCAAGGCCAG-TGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATAAAGGCGCCAATATGCTGATTCA
640135 AGGCCAGCGATATTGGACTTGGAGGTGC
65 AGGCCAGCGATATTGGACTTGGAGGTGC
640163 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCTGAT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGAT---AAAGGCGCCAATATGCTGAT
640228 TCAAGGCCAGCGATATTGGACTTGGAGGTGC
62 TCAAGGCCAGCGATATTGGACTTGGAGGTGC
* * *
640259 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAATGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGCGCCAATATGCTGATTCAA
*
640324 GGCCAGTGATATTGGACTTGGAGGTGC
66 GGCCAGCGATATTGGACTTGGAGGTGC
*
640351 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGCGCCAATATGCTGATTCAA
640416 GGCCAGCGATATTGGACTTGGAGGTGC
66 GGCCAGCGATATTGGACTTGGAGGTGC
* *
640443 CAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGCGCCAATATGCTGATTCAA
**
640508 GGCCAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCGATATTGGACTTGGAGGTGC
* *
640535 CAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAAGCGCCAATATGCTGAT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGAT---AAAGGCGCCAATATGCTGAT
*
640600 TCAAGGCCAGCGATATTGGACTTTAAAGATGAAGATGC
62 TCAAGGCCAGCGATATTGGAC-TT---G--G-AGGTGC
*
640638 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGCGCCAATATGCTGATT
640703 CAAGGCCAGCGATATTGGACTT
63 CAAGGCCAGCGATATTGGACTT
640725 AAAGGAAGAT
Statistics
Matches: 608, Mismatches: 29, Indels: 35
0.90 0.04 0.05
Matches are distributed among these distances:
92 298 0.49
93 14 0.02
95 7 0.01
96 123 0.20
97 2 0.00
98 43 0.07
99 1 0.00
100 2 0.00
101 9 0.01
102 71 0.12
103 38 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGCGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTGGAGGTGC
Found at i:640771 original size:33 final size:32
Alignment explanation
Indices: 640734--640887 Score: 186
Period size: 32 Copynumber: 4.8 Consensus size: 32
640724 TAAAGGAAGA
640734 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTG-AGAAGGT
* * * *
640767 TGCCACCGACTTGTGTAGGCTTTAGAG-GGGAT
1 TGCCACCAACTTGTGTGGGCTTTTGAGAAGG-T
* *
640799 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTG-AGAAGGT
640832 TGCCACCAACTTGTGTGGGC-TTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAGAA-GGT
**
640864 TGCCACTGACTTGTGTGGGCTTTT
1 TGCCACCAACTTGTGTGGGCTTTT
640888 AAAAAAGAGA
Statistics
Matches: 104, Mismatches: 12, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
31 5 0.05
32 50 0.48
33 47 0.45
34 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTTGAGAAGGT
Found at i:640838 original size:65 final size:65
Alignment explanation
Indices: 640734--640894 Score: 227
Period size: 65 Copynumber: 2.5 Consensus size: 65
640724 TAAAGGAAGA
* * * *
640734 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTAGGCTTT-AGAGGGGA
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTAGGCTTTGAGAAGGG-
640798 T
65 T
*
640799 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTAGGCTTTGAGAAGGGT
**
640864 TGCCACTGACTTGTGTGGGCTTTTA-AAAAAG
1 TGCCACCAACTTGTGTGGGC-TTTAGAAAAAG
640895 AGAAAGATGC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
65 77 0.89
66 10 0.11
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (65 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTAGGCTTTGAGAAGGGT
Found at i:640966 original size:34 final size:34
Alignment explanation
Indices: 640922--641495 Score: 573
Period size: 34 Copynumber: 17.8 Consensus size: 34
640912 TTGTGGACGT
* *
640922 AAAAGGGTGCCACGGAGTTGTAGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * * *
640956 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
640990 AAAAG-GTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* *
641023 AAAAGAGTGCCACGGAGTTGTGGGCTTA-AACG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
641055 ----G-GTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * * *
641084 AAAAGAGTTCCACGGAGTTGTGGGCTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
641118 AAAA-AGTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * * *
641151 AAAAAAGTGCTACGGAGTTGTGGGCTTA-AACG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
641183 ----G-GTGCCACGGAGTTGTGGACTTAGAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
641212 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
641246 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
641280 AAAAG-GTGCCACGGAGTTGCGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
641313 AAAAGAGTGCCACGGAGTTGTGGGCTT-------
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* *
641340 AAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
641374 AAAA-AGTGCCACGGAGTTGTGGGCTTTGCA-GA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* ** * *
641406 AAAGGA-TGCCACTAAGTCGTGGACTTTG-A-GA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
641437 CAAAAGA-TGCCACTGAGTCGTGGACTTTGAA-GA
1 -AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
641470 AAAGGA-TGCCACTGAGTCGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
641496 TGAGACAAAA
Statistics
Matches: 458, Mismatches: 55, Indels: 56
0.80 0.10 0.10
Matches are distributed among these distances:
27 65 0.14
28 7 0.02
31 3 0.01
32 74 0.16
33 120 0.26
34 189 0.41
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
Found at i:640978 original size:61 final size:61
Alignment explanation
Indices: 640897--641298 Score: 466
Period size: 61 Copynumber: 6.3 Consensus size: 61
640887 TAAAAAAGAG
* * * *
640897 AAAGA-TGCCACGAAGTTGTGGACGTAAAAGGGTGCCACGGAGTTGTAGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAA
*
640957 AAAGAGTGCCACAGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGG
1 AAAGAGTGCCACGGAGTTGTGGGCTT-AAAAG-----GGTGCCACGGAGTTGTGGACTTAGAAGG
641022 AA
60 AA
*
641024 AAAGAGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAA
* *
641085 AAAGAGTTCCACGGAGTTGTGGGCTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAGAAGG
1 AAAGAGTGCCACGGAGTTGTGGGCTT-AAAAG-----GGTGCCACGGAGTTGTGGACTTAGAAGG
641150 AA
60 AA
* * * *
641152 AAAAAGTGCTACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAA
* * * * *
641213 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTT-------AAAAGGGTGCCACGGAGTTGTGGACTTAGAAG
641278 GAA
59 GAA
641281 AAAG-GTGCCACGGAGTTG
1 AAAGAGTGCCACGGAGTTG
641299 CGGACTTAGA
Statistics
Matches: 299, Mismatches: 23, Indels: 33
0.84 0.06 0.09
Matches are distributed among these distances:
60 5 0.02
61 122 0.41
62 9 0.03
66 8 0.03
67 120 0.40
68 35 0.12
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (61 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAA
Found at i:641058 original size:128 final size:128
Alignment explanation
Indices: 640897--641298 Score: 628
Period size: 128 Copynumber: 3.1 Consensus size: 128
640887 TAAAAAAGAG
* * * * *
640897 AAAGA-TGCCACGAAGTTGTGGACGTAAAAGGGTGCCACGGAGTTGTAGACTTAGAAGGAAAAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
*
640961 AGTGCCACAGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAA
66 AGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAA
641024 AAAGAGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
* *
641089 AGTTCCACGGAGTTGTGGGCTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAGAAGGAA
66 AGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAA
* * *
641152 AAAAAGTGCTACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAAGAAAAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
* * * * * *
641217 AGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
66 AGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGACTTAGAAGGAA
641281 AAAG-GTGCCACGGAGTTG
1 AAAGAGTGCCACGGAGTTG
641299 CGGACTTAGA
Statistics
Matches: 252, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
127 5 0.02
128 218 0.87
129 29 0.12
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (128 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
AGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAA
Found at i:641344 original size:128 final size:121
Alignment explanation
Indices: 640897--641395 Score: 505
Period size: 128 Copynumber: 3.9 Consensus size: 121
640887 TAAAAAAGAG
* * * * * *
640897 AAAGATGCCACGAAGTTGTGGACGTAAAAGGGTGCCACGGAGTTGTAGACTTAGAAGGAAAAAGA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTT------AAAAAGA
* *
640962 GTGCCACAGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAA
60 GTGCCACAGAGTTGTGGACTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAGAAGGAA
641024 AAAGAGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
1 AAAG-GTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTT------AAAAAG
* * *
641089 AGTTCCACGGAGTTGTGGGCTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAGAAGGAAA
59 AGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAGAAGG-AA
* *
641153 AAAAGTGCTACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAAGAAAAAGA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTT------AAAAAGA
* * * * * *
641218 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
60 GTGCCACAGAGTTGTGGACTTAAAAAGAAAAA-AGTGCCACGGAGTTGTGGACTTAGAAGGAA
* * * *
641281 AAAGGTGCCACGGAGTTGCGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-AAAAG
1 AAAGGTGCCACGGAGTTGTGGGCTTA-AACG-----G-GTGCCACGGAGTTGTGGACTTAAAAAG
* * *
641345 GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAAGTGCCACGGAGTTGTGG
59 AGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAAGTGCCACGGAGTTGTGG
641396 GCTTTGCAGA
Statistics
Matches: 335, Mismatches: 27, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
127 22 0.07
128 259 0.77
129 33 0.10
134 1 0.00
135 20 0.06
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (121 bp):
AAAGGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAAAAAGAGTGCCA
CAGAGTTGTGGACTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAGAAGGAA
Found at i:641350 original size:162 final size:162
Alignment explanation
Indices: 640922--641395 Score: 624
Period size: 162 Copynumber: 2.9 Consensus size: 162
640912 TTGTGGACGT
* * * * * * * *
640922 AAAAGGGTGCCACGGAGTTGTAGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGACTTAGAA
* * * *
640987 AGAAAAAG-GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTA
65 GGAAAAAGAGTGCCACGGAGTTGTGGGCTT-------AAAAGGGTGCCACGGAGTTGTGGACTTA
*
641051 -AACG-----G-GTGCCACGGAGTTGTGGACTTAGAAGGA
123 GAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* *
641084 AAAAGAGTTCCACGGAGTTGTGGGCTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAGAAG
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
* * *
641149 GAAAAAAAGTGCTACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAAGAAA
66 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAAGAAA
641214 AAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
131 AAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
641246 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGCGGACTTAGAAG
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
* *
641311 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAA
66 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAAGAAA
641376 AA-AGTGCCACGGAGTTGTGG
131 AAGAGTGCCACGGAGTTGTGG
641396 GCTTTGCAGA
Statistics
Matches: 278, Mismatches: 26, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
155 25 0.09
156 3 0.01
161 47 0.17
162 203 0.73
ACGTcount: A:0.34, C:0.13, G:0.35, T:0.19
Consensus pattern (162 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAAGAAA
AAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
Found at i:641390 original size:60 final size:61
Alignment explanation
Indices: 641211--641399 Score: 263
Period size: 67 Copynumber: 3.0 Consensus size: 61
641201 ACTTAGAAAG
* *
641211 AAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAG-GTGCCACAGAGTTGCGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
641273 AAAAAGAAAAAGGTGCCACGGAGTTGCGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC
1 ------AAAAAGGTGCCACAGAGTTGCGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC
641338 TT
60 TT
* *
641340 AAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAA-AGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGTGCCACAGAGTTGCGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
641400 TGCAGAAAAG
Statistics
Matches: 117, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
60 22 0.19
61 35 0.30
67 54 0.46
68 6 0.05
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.19
Consensus pattern (61 bp):
AAAAAGGTGCCACAGAGTTGCGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:641475 original size:64 final size:63
Alignment explanation
Indices: 641340--641557 Score: 266
Period size: 64 Copynumber: 3.4 Consensus size: 63
641330 TTGTGGGCTT
* * * * * *
641340 AAAAGGGTGCCAC-AGAGTTGTGGACTTAGAAGGAAAAAAG-TGCCACGGAGTTGTGGGCTTTGC
1 AAAAGGATGCCACTA-AGTCGTGGACTTTG-A-GACAAAAGATGCCACTGAGTCGTGGGCTTTG-
641403 AG
62 AG
*
641405 AAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTCGTGGGCTTTG-AG
*
641469 AAAAGGATGCCACTGAGTCGTGGACTTTGAGAC-AAA-ATGCCACTGAGTCGTGGGCTTTGAG
1 AAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTCGTGGGCTTTGAG
*
641530 AAGA-GATTGCCACTAAGTCGTGGACTTT
1 AAAAGGA-TGCCACTAAGTCGTGGACTTT
641558 AAGAAGGTAT
Statistics
Matches: 138, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
60 2 0.01
61 25 0.18
62 22 0.16
63 10 0.07
64 54 0.39
65 24 0.17
66 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (63 bp):
AAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTCGTGGGCTTTGAG
Found at i:641549 original size:31 final size:30
Alignment explanation
Indices: 641347--641562 Score: 218
Period size: 32 Copynumber: 6.9 Consensus size: 30
641337 CTTAAAAGGG
* * * *
641347 TGCCACAGAGTTGTGGACTTAGAAGGAAAAAA
1 TGCCACTGAGTCGTGGACTTTG-A-GAAAAGA
* * *
641379 GTGCCACGGAGTTGTGGGCTTTGCAGAAAAGGA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAAA-GA
*
641412 TGCCACTAAGTCGTGGACTTTGAGACAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAG--AAAAGA
641444 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAA-GA
641476 TGCCACTGAGTCGTGGACTTTGAGACAAA-A
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAGA
* *
641506 TGCCACTGAGTCGTGGGCTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGA
* *
641536 TTGCCACTAAGTCGTGGACTTTAAGAA
1 -TGCCACTGAGTCGTGGACTTTGAGAA
641563 GGTATTTGAA
Statistics
Matches: 160, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
29 2 0.01
30 26 0.16
31 32 0.20
32 73 0.46
33 27 0.17
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.23
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAGA
Found at i:642862 original size:14 final size:13
Alignment explanation
Indices: 642844--642882 Score: 62
Period size: 12 Copynumber: 3.0 Consensus size: 13
642834 TGCTTTTGCA
642844 CTTTTTTTTTACT
1 CTTTTTTTTTACT
642857 C-TTTTTTTTACT
1 CTTTTTTTTTACT
642869 CCTTTTTTTTTACT
1 -CTTTTTTTTTACT
642883 TTTGTTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.46
13 2 0.08
14 11 0.46
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTTTTTTTTACT
Found at i:649900 original size:13 final size:13
Alignment explanation
Indices: 649882--649939 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
649872 ACAAAGCTTA
649882 TGTATCGATACAT
1 TGTATCGATACAT
649895 TGTATCGATACAACACTTT
1 TGTATCGAT---ACA---T
649914 ATGTATCGATACAT
1 -TGTATCGATACAT
649928 TGTATCGATACA
1 TGTATCGATACA
649940 ACATTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 3 0.08
17 3 0.08
19 1 0.03
20 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:649921 original size:33 final size:33
Alignment explanation
Indices: 649857--649958 Score: 156
Period size: 32 Copynumber: 3.2 Consensus size: 33
649847 CCTCGTAGCA
649857 ATACATTGTATCGATACAA-AGC-TTATGTATCG
1 ATACATTGTATCGATACAACA-CTTTATGTATCG
649889 ATACATTGTATCGATACAACACTTTATGTATCG
1 ATACATTGTATCGATACAACACTTTATGTATCG
* *
649922 ATACATTGTATCGATACAACA-TTTTTGTATCA
1 ATACATTGTATCGATACAACACTTTATGTATCG
649954 ATACA
1 ATACA
649959 AATCGTTGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
32 34 0.52
33 32 0.48
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
ATACATTGTATCGATACAACACTTTATGTATCG
Found at i:651510 original size:20 final size:20
Alignment explanation
Indices: 651469--651511 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
651459 ATATTGAATC
* *
651469 TTTTTATTTAATTAAGTTAT
1 TTTTTATTTAATTAAATGAT
651489 TTTTTATTTAATTAAATGAT
1 TTTTTATTTAATTAAATGAT
651509 TTT
1 TTT
651512 ATTACATGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTTATTTAATTAAATGAT
Found at i:651736 original size:4 final size:4
Alignment explanation
Indices: 651729--651755 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
651719 AAATAAAAAA
651729 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
651756 CACATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:663690 original size:24 final size:24
Alignment explanation
Indices: 663663--663711 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
663653 TGTGTCTTCC
663663 CACACCAAATATGTTTATCGTATT
1 CACACCAAATATGTTTATCGTATT
663687 CACACCAAATATGTTTATCGTATT
1 CACACCAAATATGTTTATCGTATT
663711 C
1 C
663712 TTTTTAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (24 bp):
CACACCAAATATGTTTATCGTATT
Found at i:667132 original size:48 final size:48
Alignment explanation
Indices: 667016--667412 Score: 387
Period size: 48 Copynumber: 8.1 Consensus size: 48
667006 TGGGGCAGGG
* *
667016 GGTGGAGGAGGAATAGAACCTGGCCGAACAGGTCCTGC---A-CA--A
1 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGAGGA
* * * *
667058 GGCGGAGGTGGAATCGAACCTGGCCGAGCAGTTCCTGCAGGAGGAGGA
1 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGAGGA
667106 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGCA-GA
1 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGG-AGGA
* * * *
667154 GATGGAGAAGGAATAGAGCCAGGCCGAGCAGGTCCTGCAGGAGGCGGAGGTAGA
1 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGA---GGA-G--GA
* *
667208 GGTGGAGTAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGTGGA
1 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGAGGA
* * ** *
667256 GGTGGAGGAGGAATAGAACCTGGCCGAGCAAGTCCAGGTGGAGGCGGA
1 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGAGGA
* * * *
667304 GGTGGAGGAGGAGTAGAACCCGGACAAGCAGGTCCTGCAGGAGGTGGAGGTGGA
1 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGA---GGA---GGA
* * * *
667358 GGTGGAGGAGGAATAGAAACTGGCTGAGCAGGCCCCGCAGGAGGCA-GA
1 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGG-AGGA
667406 GGTGGAG
1 GGTGGAG
667413 TTGGAGGAGG
Statistics
Matches: 292, Mismatches: 42, Indels: 36
0.79 0.11 0.10
Matches are distributed among these distances:
42 33 0.11
45 1 0.00
46 1 0.00
48 168 0.58
49 1 0.00
50 2 0.01
51 8 0.03
52 1 0.00
54 77 0.26
ACGTcount: A:0.27, C:0.18, G:0.44, T:0.11
Consensus pattern (48 bp):
GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGAGGA
Found at i:667237 original size:102 final size:99
Alignment explanation
Indices: 667016--667423 Score: 358
Period size: 102 Copynumber: 4.1 Consensus size: 99
667006 TGGGGCAGGG
* ** * *
667016 GGTGGAGGAGGAATAGAACCTGGCCGAACAGGTCCTGCACAAGGCG-GA--G-GTGGAATCGAAC
1 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGCGAGATGGAGAGGAATAGAAC
*
667077 CTGGCCGAGCAGTTCCTGCAGGA---GGA-G-GA
66 CTGGCCGAGCAGGTCCTGCAGGAGGCGGAGGTGA
667106 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGCAGAGATGGAGAAGGAATAGA
1 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGC-GAGATGGAG-AGGAATAGA
* *
667171 GCCAGGCCGAGCAGGTCCTGCAGGAGGCGGAGGTAGA
64 ACCTGGCCGAGCAGGTCCTGCAGGAGGCGGAGGT-GA
* * *
667208 GGTGGAGTAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGTGGAGGTGGAGGAGGAATAGA
1 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGG-CGAGATGGA-GAGGAATAGA
* * * *
667273 ACCTGGCCGAGCAAGT-C--CAGGTGGAGG-CG-GA
64 ACCTGGCCGAGCAGGTCCTGCAGGAGGCGGAGGTGA
* * * * *
667304 GGTGGAGGAGGAGTAGAACCCGGACAAGCAGGTCCTGCAGGAGGTGGAGGTGGAGGTGGAGGAGG
1 GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGG-CGA----GA--TGGA-GAGG
* * * * *
667369 AATAGAAACTGGCTGAGCAGGCCCCGCAGGAGGCAGAGGTGGA
58 AATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGCGGAGGT-GA
*
667412 GTTGGAGGAGGA
1 GGTGGAGGAGGA
667424 GGTGGCTGAG
Statistics
Matches: 260, Mismatches: 32, Indels: 34
0.80 0.10 0.10
Matches are distributed among these distances:
90 42 0.16
91 1 0.00
92 2 0.01
94 1 0.00
95 1 0.00
96 74 0.28
98 1 0.00
99 11 0.04
100 2 0.01
101 1 0.00
102 101 0.39
103 2 0.01
105 7 0.03
106 1 0.00
108 13 0.05
ACGTcount: A:0.27, C:0.17, G:0.45, T:0.11
Consensus pattern (99 bp):
GGTGGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGCGAGATGGAGAGGAATAGAAC
CTGGCCGAGCAGGTCCTGCAGGAGGCGGAGGTGA
Found at i:667251 original size:150 final size:150
Alignment explanation
Indices: 667061--667412 Score: 481
Period size: 150 Copynumber: 2.3 Consensus size: 150
667051 TGCACAAGGC
* * *
667061 GGAGGTGGAATCGAACCTGGCCGAGCAGTTCCTGCAGGAGGAGGAGGTGGAGGAGGAATAGAACC
1 GGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGAGGAGGTGGAGGAGGAATAGAACC
* * * * *
667126 TGGCCGAGCAGGTCCTGCAGGAGGCAGAGATGGAGAAGGAATAGAGCCAGGCCGAGCAGGTCCTG
66 TGGCCGAGCAAGTCCAGCAGGAGGCAGAGATGGAGAAGGAATAGAACCAGGACAAGCAGGTCCTG
667191 CAGGAGGCGGAGGTAGAGGT
131 CAGGAGGCGGAGGTAGAGGT
* *
667211 GGAGTAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGTGGAGGTGGAGGAGGAATAGAACC
1 GGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGAGGAGGTGGAGGAGGAATAGAACC
** * * * * *
667276 TGGCCGAGCAAGTCCAGGTGGAGGCGGAGGTGGAGGAGGAGTAGAACCCGGACAAGCAGGTCCTG
66 TGGCCGAGCAAGTCCAGCAGGAGGCAGAGATGGAGAAGGAATAGAACCAGGACAAGCAGGTCCTG
* *
667341 CAGGAGGTGGAGGTGGAGGT
131 CAGGAGGCGGAGGTAGAGGT
* * * *
667361 GGAGGAGGAATAGAAACTGGCTGAGCAGGCCCCGCAGGAGGCA-GAGGTGGAG
1 GGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGG-AGGAGGTGGAG
667413 TTGGAGGAGG
Statistics
Matches: 176, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
150 176 1.00
ACGTcount: A:0.27, C:0.17, G:0.45, T:0.11
Consensus pattern (150 bp):
GGAGGAGGAATAGAACCTGGCCGAGCAGGTCCTGCAGGAGGAGGAGGTGGAGGAGGAATAGAACC
TGGCCGAGCAAGTCCAGCAGGAGGCAGAGATGGAGAAGGAATAGAACCAGGACAAGCAGGTCCTG
CAGGAGGCGGAGGTAGAGGT
Found at i:667517 original size:3 final size:3
Alignment explanation
Indices: 667502--667540 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
667492 TGCCATTGGC
* *
667502 GGT GGT GGA GGT GGT GGT GGT GGT GGT TGT GGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
667541 TGTTGCTGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.03, C:0.00, G:0.64, T:0.33
Consensus pattern (3 bp):
GGT
Found at i:667609 original size:12 final size:12
Alignment explanation
Indices: 667594--667635 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
667584 GTGGAAGCAA
*
667594 GGGTGGGGGTAG
1 GGGTGGGGGCAG
* *
667606 GGGTGGAGGCAA
1 GGGTGGGGGCAG
667618 GGGTGGGGGCAG
1 GGGTGGGGGCAG
667630 GGGTGG
1 GGGTGG
667636 TGATAGCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.12, C:0.05, G:0.71, T:0.12
Consensus pattern (12 bp):
GGGTGGGGGCAG
Found at i:667617 original size:24 final size:24
Alignment explanation
Indices: 667583--667635 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
667573 GCCCGAGGAA
*
667583 GGTGGAAGCAAGGGTGGGGGTAGG
1 GGTGGAAGCAAGGGTGGGGGCAGG
*
667607 GGTGGAGGCAAGGGTGGGGGCAGG
1 GGTGGAAGCAAGGGTGGGGGCAGG
667631 GGTGG
1 GGTGG
667636 TGATAGCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.17, C:0.06, G:0.66, T:0.11
Consensus pattern (24 bp):
GGTGGAAGCAAGGGTGGGGGCAGG
Found at i:670603 original size:15 final size:14
Alignment explanation
Indices: 670583--670642 Score: 52
Period size: 13 Copynumber: 4.4 Consensus size: 14
670573 TTATAAAATT
670583 TTTAATTAAAAAAA
1 TTTAATTAAAAAAA
**
670597 TTATAATTATTAAAA
1 TT-TAATTAAAAAAA
* *
670612 TTT-ATTTAAAAAT
1 TTTAATTAAAAAAA
*
670625 TTTAA-TAAATAAA
1 TTTAATTAAAAAAA
670638 TTTAA
1 TTTAA
670643 AGTTTAAATT
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
13 19 0.54
14 4 0.11
15 12 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAATTAAAAAAA
Found at i:670650 original size:40 final size:43
Alignment explanation
Indices: 670570--670666 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 43
670560 TCAATTTTAA
*
670570 TATTTATAAAATTTTTAATTAAAAAAATTATAATTATTAAAATT
1 TATTTATAAAATTTTTAATTAAAAAAATTATAAGTATT-AAATT
*
670614 TATTTA-AAAA-TTTTAA-TAAATAAATT-TAAAGT-TTAAATT
1 TATTTATAAAATTTTTAATTAAAAAAATTAT-AAGTATTAAATT
670653 TAATTATATAAAAT
1 T-ATT-TATAAAAT
670667 ATAAGATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
39 6 0.13
40 6 0.13
41 14 0.30
42 10 0.22
43 4 0.09
44 6 0.13
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (43 bp):
TATTTATAAAATTTTTAATTAAAAAAATTATAAGTATTAAATT
Found at i:671518 original size:23 final size:23
Alignment explanation
Indices: 671488--671580 Score: 66
Period size: 23 Copynumber: 4.0 Consensus size: 23
671478 CATATATAAA
671488 ATAAAATATACATAAAAATATAT
1 ATAAAATATACATAAAAATATAT
* *
671511 ATAAAATA-AAATAAATTATTAATAT
1 ATAAAATATACATAAA--AAT-ATAT
* * *
671536 GTAAAAAATATATAAAAATATAAT
1 ATAAAATATACATAAAAATAT-AT
*
671560 ATATTAA-ATACA-AAAAATATA
1 ATA-AAATATACATAAAAATATA
671581 AATACAAACA
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
22 7 0.13
23 18 0.33
24 12 0.22
25 12 0.22
26 6 0.11
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (23 bp):
ATAAAATATACATAAAAATATAT
Found at i:671525 original size:38 final size:37
Alignment explanation
Indices: 671483--671580 Score: 89
Period size: 38 Copynumber: 2.7 Consensus size: 37
671473 TCTCCCATAT
671483 ATAAAATA-AAATATACATAAAAATATATATAAAATAAA
1 ATAAAATATAAATATACA-AAAAATATATA-AAAATAAA
* * **
671521 ATAAATTATTAATATGTAAAAAATATATAAAAAT---
1 ATAAAATATAAATATACAAAAAATATATAAAAATAAA
* *
671555 ATAATATATTAA-ATACAAAAAATATA
1 ATAAAATATAAATATACAAAAAATATA
671581 AATACAAACA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
33 12 0.24
34 10 0.20
37 5 0.10
38 18 0.35
39 6 0.12
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (37 bp):
ATAAAATATAAATATACAAAAAATATATAAAAATAAA
Found at i:671565 original size:34 final size:36
Alignment explanation
Indices: 671495--671580 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 36
671485 AAAATAAAAT
671495 ATACATAAAAATATATATAAAATAAAATAAATTATTAA
1 ATACA-AAAAATATATATAAAATAAAAT-AATTATTAA
** *
671533 TATGTAAAAAATATATA-AAAATATAAT-A-TATTAA
1 -ATACAAAAAATATATATAAAATAAAATAATTATTAA
671567 ATACAAAAAATATA
1 ATACAAAAAATATA
671581 AATACAAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
33 12 0.29
34 6 0.14
35 1 0.02
37 9 0.21
38 11 0.26
39 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (36 bp):
ATACAAAAAATATATATAAAATAAAATAATTATTAA
Found at i:671597 original size:23 final size:23
Alignment explanation
Indices: 671540--671598 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
671530 TAATATGTAA
*
671540 AAAATATATAAAAATATAATATAT
1 AAAATATA-AAAAATATAATATAC
* *
671564 TAAATACAAAAAATATAA-ATAC
1 AAAATATAAAAAATATAATATAC
671586 AAACATATAAAAA
1 AAA-ATATAAAAA
671599 TTTTCTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 5 0.17
23 18 0.62
24 6 0.21
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAATATAAAAAATATAATATAC
Found at i:671609 original size:4 final size:4
Alignment explanation
Indices: 671600--671659 Score: 68
Period size: 4 Copynumber: 15.0 Consensus size: 4
671590 ATATAAAAAT
* * * *
671600 TTTC TTTC TTTT TTTC TTTT TTTC -TTC TTTC TTTC TTCC TTTC TCTTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC
671648 TTTC TTTC TTTC
1 TTTC TTTC TTTC
671660 CTTTTTCAGC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 3 0.07
4 40 0.87
5 3 0.07
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:671617 original size:8 final size:8
Alignment explanation
Indices: 671599--671665 Score: 53
Period size: 8 Copynumber: 7.6 Consensus size: 8
671589 CATATAAAAA
671599 TTTTCTTTC
1 TTTT-TTTC
671608 TTTTTTTC
1 TTTTTTTC
671616 TTTTTTTC
1 TTTTTTTC
671624 TTCTTTCTTTC
1 -T-TTT-TTTC
**
671635 TTCCTTTC
1 TTTTTTTC
671643 TCTTTTTTC
1 T-TTTTTTC
*
671652 TTTCTTTCC
1 TTT-TTTTC
671661 TTTTT
1 TTTTT
671666 CAGCTGCGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
8 21 0.44
9 19 0.40
10 4 0.08
11 4 0.08
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTTC
Found at i:671621 original size:7 final size:7
Alignment explanation
Indices: 671604--671666 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
671594 AAAAATTTTC
671604 TTTCTTTT
1 TTTC-TTT
671612 TTTCTTTT
1 TTTC-TTT
*
671620 TTTCTTC
1 TTTCTTT
671627 TTTCTTT
1 TTTCTTT
* *
671634 CTTCCTT
1 TTTCTTT
*
671641 TCTCTTT
1 TTTCTTT
671648 TTTCTTT
1 TTTCTTT
*
671655 CTTTCCTT
1 -TTTCTTT
671663 TTTC
1 TTTC
671667 AGCTGCGTAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
7 27 0.60
8 18 0.40
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTCTTT
Found at i:671651 original size:21 final size:22
Alignment explanation
Indices: 671600--671663 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 22
671590 ATATAAAAAT
*
671600 TTTCT-TTCTTTTTTTCTTT--
1 TTTCTCTTCTTTCTTTCTTTCC
671619 TTT-TCTTCTTTCTTTC-TTCC
1 TTTCTCTTCTTTCTTTCTTTCC
*
671639 TTTCTCTTTTTTCTTTCTTTCC
1 TTTCTCTTCTTTCTTTCTTTCC
671661 TTT
1 TTT
671664 TTCAGCTGCG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.08
19 13 0.34
20 3 0.08
21 12 0.32
22 7 0.18
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTCTCTTCTTTCTTTCTTTCC
Found at i:671706 original size:18 final size:18
Alignment explanation
Indices: 671680--671726 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
671670 TGCGTAAAAA
671680 AAAAAAAAAGCTGAAAGC
1 AAAAAAAAAGCTGAAAGC
* *
671698 AAAAGAAAAGCTGAAGGC
1 AAAAAAAAAGCTGAAAGC
671716 AAAAAAAAAGC
1 AAAAAAAAAGC
671727 CTGTCACGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.66, C:0.11, G:0.19, T:0.04
Consensus pattern (18 bp):
AAAAAAAAAGCTGAAAGC
Found at i:671835 original size:17 final size:17
Alignment explanation
Indices: 671786--671840 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
671776 TATAAATTTT
671786 AATTATTATT-AATAA-A
1 AATT-TTATTAAATAATA
*
671802 AATTTAATTATAA-AATA
1 AATTTTATTA-AATAATA
671819 AATTTTATTAAATAAT-
1 AATTTTATTAAATAATA
671835 AATTTT
1 AATTTT
671841 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 4 0.12
16 14 0.42
17 15 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTATTAAATAATA
Found at i:672315 original size:12 final size:12
Alignment explanation
Indices: 672295--672324 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
672285 CTCACTCTCC
*
672295 TTTTCTTTTCTT
1 TTTTTTTTTCTT
672307 TTTTTTTTTCTT
1 TTTTTTTTTCTT
672319 TTTTTT
1 TTTTTT
672325 CTTTGCATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:674575 original size:18 final size:19
Alignment explanation
Indices: 674554--674607 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 19
674544 TATAATATTT
674554 TAAATATAAAAAATAAT-A
1 TAAATATAAAAAATAATAA
*
674572 TAAATATAAGAAAAAAATAA
1 TAAATATAA-AAAATAATAA
674592 TAATAATATAAAAAAT
1 T-A-AATATAAAAAAT
674608 TATGTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 9 0.30
19 7 0.23
20 2 0.07
21 5 0.17
22 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAATATAAAAAATAATAA
Found at i:674589 original size:22 final size:21
Alignment explanation
Indices: 674561--674606 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
674551 TTTTAAATAT
674561 AAAAAATAAT-ATAAATATAAGA
1 AAAAAATAATAAT-AATATAA-A
674583 AAAAAATAATAATAATATAAA
1 AAAAAATAATAATAATATAAA
674604 AAA
1 AAA
674607 TTATGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.17
22 17 0.74
23 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAAAATAATAATAATATAAA
Found at i:674856 original size:20 final size:17
Alignment explanation
Indices: 674806--674846 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
674796 TTAAAATTAA
* * *
674806 ATTATTAACTTATTATT
1 ATTATTAAGTTTTTGTT
674823 ATTATTAAGTTTTTGTT
1 ATTATTAAGTTTTTGTT
674840 ATTATTA
1 ATTATTA
674847 GAGATGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (17 bp):
ATTATTAAGTTTTTGTT
Found at i:674990 original size:28 final size:30
Alignment explanation
Indices: 674950--675005 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
674940 ATCACCCTTA
*
674950 AAAATAATATTTA-TAGTTAAAT-TTAAAT
1 AAAATAATATTTATTACTTAAATATTAAAT
674978 AAAAT-ATATTTTATTACTTAAATATTAA
1 AAAATAATA-TTTATTACTTAAATATTAA
675006 TTAATGTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 3 0.12
28 9 0.38
29 8 0.33
30 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (30 bp):
AAAATAATATTTATTACTTAAATATTAAAT
Found at i:676143 original size:6 final size:6
Alignment explanation
Indices: 676134--676165 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
676124 TAAGTTTAAA
*
676134 TTGGTT TTGGGT TTGGGT TTGGGT TTGGGT TT
1 TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TT
676166 TTTGGGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.44, T:0.56
Consensus pattern (6 bp):
TTGGGT
Found at i:678536 original size:21 final size:21
Alignment explanation
Indices: 678503--678543 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
678493 CTAAGTAAAA
678503 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
678524 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
678544 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:678608 original size:20 final size:20
Alignment explanation
Indices: 678577--678653 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
678567 GTCAAAACCC
*
678577 TGAAAAGTATCGATACACAT
1 TGAATAGTATCGATACACAT
* *
678597 TTAAGT-GTATCGATACAAAT
1 TGAA-TAGTATCGATACACAT
*
678617 TGCATAGTATCGATACACA-
1 TGAATAGTATCGATACACAT
**
678636 CAAATATGTATCGATACA
1 TGAATA-GTATCGATACA
678654 GGTCATTGGC
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
19 4 0.09
20 41 0.91
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.29
Consensus pattern (20 bp):
TGAATAGTATCGATACACAT
Found at i:678749 original size:10 final size:10
Alignment explanation
Indices: 678730--678760 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
678720 AATCTCATTT
678730 TCACTGTTCA
1 TCACTGTTCA
*
678740 TCACTATTCA
1 TCACTGTTCA
678750 TCACTGTTCA
1 TCACTGTTCA
678760 T
1 T
678761 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:678782 original size:21 final size:22
Alignment explanation
Indices: 678748--678803 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
678738 CATCACTATT
678748 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
678770 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
678791 CATCACTGTTCAT
1 CATCACTGTTCAT
678804 AGGTCATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:678907 original size:13 final size:13
Alignment explanation
Indices: 678889--678914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
678879 ACATATTTGT
678889 GTGTATCGATACA
1 GTGTATCGATACA
678902 GTGTATCGATACA
1 GTGTATCGATACA
678915 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:684280 original size:166 final size:163
Alignment explanation
Indices: 684098--684805 Score: 704
Period size: 166 Copynumber: 4.3 Consensus size: 163
684088 TTCAAGAATC
* * ** * * *
684098 AAAATTCTTCAAATATTTTTATTTAATTCCCATCAAATCAATTTTGAAAAATTCATT-TTATTTC
1 AAAATTCATCAAATATTATTATTTAATTCATAT-AAATCAGTTTTAAAAAATTCATTCAT-TTTC
* * *
684162 -TTAAGTTATT-AA-TTTTCTTTTAGAATTCCTCATGTTTTAAAATTACGGGATTTTCTTTTCCG
64 ATTAA-TTATTGAATTTTTCCTTGA-AATTCCTCAT-TTTTAAAA-TAC-GGATTTTCTTCTCCG
684224 TAAATTTTTTCGAGGAGATTTTTCCTAG-TTTTTAATTTTT
124 TAAATTTTTTCGAGGAGATTTTT-CTAGATTTTTAATTTTT
* * * *
684264 AAAATTCATAAAATATTATTATTTAATTTATAGTAAATCGGTTTTTAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTAATTCATA-TAAATCAGTTTTAAAAAATTCATTCATTTTCA
* * * * * **
684329 TTCATTTTTGAATTTTTCCTTGAAATTTCTCTATTTTCAAAAAATAGAGTTTTCTTCTCCGTAAA
65 TTAATTATTGAATTTTTCCTTGAAATTCCTC-ATTTTTAAAATACGGA-TTTTCTTCTCCGTAAA
684394 TTTTTTCGA-GAGGACTTTTAT-TAG-TTTTTAATTTTT
128 TTTTTTCGAGGA-GA-TTTT-TCTAGATTTTTAATTTTT
* **
684430 AAAATTCATCAAATATTATTATTTAATTCATAGTGAATCTCTTTTAAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTAATTCATA-TAAATCAGTTTTAAAAAATTCATTCATTTTCA
* * * *
684495 TGAA-TATTTGAATTTTTCCTTGAAATTCCCTTATTTTCAAAATACGGAGTTTTCTTCTCCATAA
65 TTAATTA-TTGAATTTTTCCTTGAAATT-CCTCATTTTTAAAATACGGA-TTTTCTTCTCCGTAA
*
684559 A-TTTTTCAGAAGGA-A-TTTTCTTGATTTTTAATTTTT
127 ATTTTTTC-G-AGGAGATTTTTCTAGATTTTTAATTTTT
* * *
684595 AAAATTCATAAAATATTATTATTTAATTCATATGGAATTAGTTTTAAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTAATTCATAT-AAATCAGTTTTAAAAAATTCATTCATTTTCA
* * * *
684660 TTTATTTTTGAATTTTTTCCTTGAAATTCCT-ATTTTTCAAAAAATCGAATTTTCTTCTCCGTAA
65 TTAATTATTGAA-TTTTTCCTTGAAATTCCTCATTTTT-AAAATA-CGGATTTTCTTCTCCGTAA
* **
684724 ATTTTTTCGGGGAGATTTTTCTAGATTTAAAATTTTT
127 ATTTTTTCGAGGAGATTTTTCTAGATTTTTAATTTTT
* * * * *
684761 AAAATTCATCTAATATTGTCATTAAATTCCTATTAAATCAGTTTT
1 AAAATTCATCAAATATTATTATTTAATTCATA-TAAATCAGTTTT
684806 GGGAAATTCA
Statistics
Matches: 457, Mismatches: 59, Indels: 52
0.80 0.10 0.09
Matches are distributed among these distances:
163 1 0.00
164 14 0.03
165 114 0.25
166 286 0.63
167 29 0.06
168 13 0.03
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.49
Consensus pattern (163 bp):
AAAATTCATCAAATATTATTATTTAATTCATATAAATCAGTTTTAAAAAATTCATTCATTTTCAT
TAATTATTGAATTTTTCCTTGAAATTCCTCATTTTTAAAATACGGATTTTCTTCTCCGTAAATTT
TTTCGAGGAGATTTTTCTAGATTTTTAATTTTT
Found at i:686460 original size:13 final size:13
Alignment explanation
Indices: 686442--686466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
686432 TACTAAGAAC
686442 ATGTATCGATACA
1 ATGTATCGATACA
686455 ATGTATCGATAC
1 ATGTATCGATAC
686467 TAAGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:686465 original size:32 final size:33
Alignment explanation
Indices: 686424--686487 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
686414 TATTTCAAGG
686424 TGTATCGATACTAAG-AACATGTATCGATACAA
1 TGTATCGATACTAAGCAACATGTATCGATACAA
*
686456 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCGATACTAAGCAACATGTATCGATACA
686488 TTTGGGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (33 bp):
TGTATCGATACTAAGCAACATGTATCGATACAA
Found at i:687172 original size:18 final size:17
Alignment explanation
Indices: 687125--687168 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
687115 TAAAACTCAT
*
687125 ACTTCTCCCCTTTAATA
1 ACTTTTCCCCTTTAATA
687142 ACTTTTCCCCTTTAATA
1 ACTTTTCCCCTTTAATA
687159 ACTTTTCCCC
1 ACTTTTCCCC
687169 CTTTTTAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.20, C:0.36, G:0.00, T:0.43
Consensus pattern (17 bp):
ACTTTTCCCCTTTAATA
Found at i:689008 original size:20 final size:21
Alignment explanation
Indices: 688980--689031 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
688970 TGTTTCTGAT
688980 GAGAATTTTGATG-AAAAACA
1 GAGAATTTTGATGCAAAAACA
*
689000 GAGAGTTTTGATGCAAAAA-A
1 GAGAATTTTGATGCAAAAACA
*
689020 GATGAAATTTGA
1 GA-GAATTTTGA
689032 AAAAGATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.46, C:0.04, G:0.23, T:0.27
Consensus pattern (21 bp):
GAGAATTTTGATGCAAAAACA
Found at i:692299 original size:33 final size:33
Alignment explanation
Indices: 692262--692328 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
692252 TTCAACGATT
*
692262 TGTATCGATAGATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
692295 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
692328 T
1 T
692329 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:692300 original size:13 final size:13
Alignment explanation
Indices: 692282--692306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
692272 GATAAAATGT
692282 TGTATCGATACAA
1 TGTATCGATACAA
692295 TGTATCGATACA
1 TGTATCGATACA
692307 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:692387 original size:13 final size:13
Alignment explanation
Indices: 692369--692393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
692359 ATTACTCAAA
692369 TGTATCGATACAT
1 TGTATCGATACAT
692382 TGTATCGATACA
1 TGTATCGATACA
692394 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:692495 original size:52 final size:52
Alignment explanation
Indices: 692402--692529 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
692392 CACTGATCTT
*
692402 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
692453 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
692505 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
692530 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:699395 original size:1 final size:1
Alignment explanation
Indices: 699391--699465 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
699381 AAAAGTGATG
* * * * * * * * * * *
699391 AAAAAAAAAACAAACAAACAAAAAAAACACACAAAAAAAAAAACAAAAAAACAATAAAAAACACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
699456 AAAAAAAAAA
1 AAAAAAAAAA
699466 TGCAAAGGCA
Statistics
Matches: 52, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:699428 original size:12 final size:12
Alignment explanation
Indices: 699397--699464 Score: 68
Period size: 12 Copynumber: 5.6 Consensus size: 12
699387 GATGAAAAAA
699397 AAAACAAACAAAC
1 AAAA-AAACAAAC
*
699410 AAAAAAAACACAC
1 -AAAAAAACAAAC
*
699423 AAAAAAAAAAAC
1 AAAAAAACAAAC
699435 AAAAAAACAATA-
1 AAAAAAACAA-AC
*
699447 AAAAACACAAA-
1 AAAAAAACAAAC
699458 AAAAAAA
1 AAAAAAA
699465 ATGCAAAGGC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
11 7 0.15
12 28 0.60
13 8 0.17
14 4 0.09
ACGTcount: A:0.84, C:0.15, G:0.00, T:0.01
Consensus pattern (12 bp):
AAAAAAACAAAC
Found at i:699449 original size:8 final size:8
Alignment explanation
Indices: 699394--699465 Score: 67
Period size: 9 Copynumber: 8.6 Consensus size: 8
699384 AGTGATGAAA
699394 AAAAAAAC
1 AAAAAAAC
*
699402 AAACAAAC
1 AAAAAAAC
699410 AAAAAAAAC
1 -AAAAAAAC
*
699419 ACACAAAA-
1 A-AAAAAAC
699427 AAAAAAAC
1 AAAAAAAC
699435 AAAAAAAC
1 AAAAAAAC
699443 AATAAAAAAC
1 -A-AAAAAAC
699453 ACAAAAAA-
1 A-AAAAAAC
699461 AAAAA
1 AAAAA
699466 TGCAAAGGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
7 9 0.17
8 18 0.33
9 20 0.37
10 7 0.13
ACGTcount: A:0.85, C:0.14, G:0.00, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:699485 original size:34 final size:34
Alignment explanation
Indices: 699391--699465 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
699381 AAAAGTGATG
*
699391 AAAAAAAAAACAAACAAACAA-AAAAAACACACA
1 AAAAAAAAAACAAAAAAACAATAAAAAACACACA
699424 AAAAAAAAAACAAAAAAACAATAAAAAACACA-A
1 AAAAAAAAAACAAAAAAACAATAAAAAACACACA
699457 AAAAAAAAA
1 AAAAAAAAA
699466 TGCAAAGGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.01
Consensus pattern (34 bp):
AAAAAAAAAACAAAAAAACAATAAAAAACACACA
Found at i:699723 original size:17 final size:16
Alignment explanation
Indices: 699701--699755 Score: 67
Period size: 15 Copynumber: 3.4 Consensus size: 16
699691 TGTTCTTTTC
699701 CAAAAAAAGAAACAAAA
1 CAAAAAAA-AAACAAAA
*
699718 CAAAAAAAAAAGAAAA
1 CAAAAAAAAAACAAAA
*
699734 -GAAAAAAAAACAAAA
1 CAAAAAAAAAACAAAA
*
699749 CAGAAAA
1 CAAAAAA
699756 GCTCGATAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 13 0.41
16 11 0.34
17 8 0.25
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAACAAAA
Found at i:699724 original size:16 final size:16
Alignment explanation
Indices: 699703--699756 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
699693 TTCTTTTCCA
699703 AAAAAAGAAACAAAAC
1 AAAAAAGAAACAAAAC
* * *
699719 AAAAAAAAAAGAAAAG
1 AAAAAAGAAACAAAAC
699735 AAAAAA-AAACAAAAC
1 AAAAAAGAAACAAAAC
*
699750 AGAAAAG
1 AAAAAAG
699757 CTCGATAAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAACAAAAC
Found at i:699755 original size:22 final size:21
Alignment explanation
Indices: 699702--699756 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
699692 GTTCTTTTCC
*
699702 AAAAAAAG-AAACAAAACAAA
1 AAAAAAAGAAAAGAAAACAAA
699722 AAAAAAAGAAAAGAAAA-AAA
1 AAAAAAAGAAAAGAAAACAAA
699742 AACAAAACAGAAAAG
1 AA-AAAA-AGAAAAG
699757 CTCGATAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 13 0.42
21 11 0.35
22 7 0.23
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAAAAGAAAACAAA
Found at i:700804 original size:31 final size:31
Alignment explanation
Indices: 700766--700879 Score: 219
Period size: 31 Copynumber: 3.7 Consensus size: 31
700756 ATACCTTTTT
700766 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
700797 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
700828 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
700859 AAAGTCCACGACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
700880 TTTTTTCTTC
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:700892 original size:31 final size:32
Alignment explanation
Indices: 700766--701079 Score: 199
Period size: 31 Copynumber: 9.7 Consensus size: 32
700756 ATACCTTTTT
* * * * *
700766 AAAGTCCACGACTCAGTGGCAATCTCTTC-TC
1 AAAGCCCACAACTCAGTGGCACTTTTTTCTTC
* * * * * *
700797 AAAGTCCACGACTCAGTGGCAATCTCTGC-TC
1 AAAGCCCACAACTCAGTGGCACTTTTTTCTTC
* * * * *
700828 AAAGTCCACGACTCAGTGGCAATCTCTTC-TC
1 AAAGCCCACAACTCAGTGGCACTTTTTTCTTC
* *
700859 AAAGTCCACGACTCAGTGGCA-TTTTTTCTTC
1 AAAGCCCACAACTCAGTGGCACTTTTTTCTTC
* * *
700890 AAAGCCCACAACTTC-GTGGCACCTTTTCCTTT
1 AAAGCCCACAAC-TCAGTGGCACTTTTTTCTTC
* *
700922 AAAGCCCACCACTCCGTGGCACCTTCTTCTT-TTC
1 AAAGCCCACAACTCAGTGGCA-CTT-TT-TTCTTC
* *
700956 AAAGCCCACAACTCCGTGGCACTTTTTTTCATCTT
1 AAAGCCCACAACTCAGTGGCAC-TTTTTTC-T-TC
* * * *
700991 TAAGTCCACAACTCCGTGGCACCTTTTTCTTTTC
1 AAAGCCCACAACTCAGTGGCA-CTTTTT-TCTTC
* * *
701025 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAAGCCCACAACTCAGTGGCACTTTTTTC-TTC
*
701058 AAAGCCCACAACTCTGTGGCAC
1 AAAGCCCACAACTCAGTGGCAC
701080 CTACAACTTT
Statistics
Matches: 244, Mismatches: 25, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
30 5 0.02
31 101 0.41
32 29 0.12
33 33 0.14
34 47 0.19
35 27 0.11
36 2 0.01
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (32 bp):
AAAGCCCACAACTCAGTGGCACTTTTTTCTTC
Found at i:701021 original size:69 final size:67
Alignment explanation
Indices: 700887--701081 Score: 279
Period size: 69 Copynumber: 2.9 Consensus size: 67
700877 GCATTTTTTC
* * * *
700887 TTCAAAGCCCACAACTTCGTGGCACCTTTTC-CTTTAAAGCCCACCACTCCGTGGCACCTTCTTC
1 TTCAAAGCCCACAACTCCGTGGCACTTTTTCTCTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
700951 TT
66 TT
*
700953 TTCAAAGCCCACAACTCCGTGGCACTTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCTTT
1 TTCAAAGCCCACAACTCCGTGGCAC--TTTTTC-TCTTTAAAGCCCACAACTCCGTGGCACCTTT
701017 TTCTT
63 TTCTT
*
701022 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCTGTGGCACCT
1 TTCAAAGCCCACAACTCCGTGGCA-CTTTTTCTCTTTAAAGCCCACAACTCCGTGGCACCT
701082 ACAACTTTGT
Statistics
Matches: 116, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
66 27 0.23
67 22 0.19
68 11 0.09
69 51 0.44
70 5 0.04
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (67 bp):
TTCAAAGCCCACAACTCCGTGGCACTTTTTCTCTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
TT
Found at i:701067 original size:33 final size:33
Alignment explanation
Indices: 700859--701276 Score: 341
Period size: 34 Copynumber: 12.8 Consensus size: 33
700849 ATCTCTTCTC
* * * * *
700859 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
700890 AAAGCCCACAACTTCGTGGCACC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
700922 AAAGCCCACCACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
700955 CAAAGCCCACAACTCCGTGGCACTTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCAC-CTTTTTC-T-TTT
*
700992 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
701024 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* ****
701058 AAAGCCCACAACTCTGTGGCACCTACAACTTTGT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTT-T
* * ** *
701092 ---G-GCAC-TCT-C-TTTC-CC---TT-TTTA
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
701113 -AAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
701146 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
* * *
701182 CAAAGCCCACAACGCCGTGGCACTTTTTTTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
701216 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
* * *
701252 -AAGTCCACAACTCCCTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
701277 CTCCCTTCCT
Statistics
Matches: 314, Mismatches: 43, Indels: 57
0.76 0.10 0.14
Matches are distributed among these distances:
22 3 0.01
23 1 0.00
24 3 0.01
25 2 0.01
26 3 0.01
27 4 0.01
28 2 0.01
29 2 0.01
30 3 0.01
31 25 0.08
32 27 0.09
33 58 0.18
34 93 0.30
35 49 0.16
36 13 0.04
37 26 0.08
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:701236 original size:158 final size:156
Alignment explanation
Indices: 700950--701237 Score: 454
Period size: 158 Copynumber: 1.8 Consensus size: 156
700940 GCACCTTCTT
* *
700950 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCT
1 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCATCTTTAAGCCCACAACTCCGTGGCACCT
* *
701015 TTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCAC
66 TTTTCTTTTCAAAGCCCACAACGCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC
701080 CTACAACTTTGTGGCACTCTCTTTCC
131 CTACAACTTTGTGGCACTCTCTTTCC
* *
701106 CTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC-TGTTTAAAGCCCACAACTCCGTGGCACT
1 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCATCTTT-AAGCCCACAACTCCGTGGCAC-
* *
701169 CTTTTTCCCTTTTCAAAGCCCACAACGCCGTGGCACTTTTTTTTTTTAAAGCCCACAACTCCGTG
64 CTTTTT--CTTTTCAAAGCCCACAACGCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTG
701234 GCAC
127 GCAC
701238 TCTTTTTCCC
Statistics
Matches: 120, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
154 4 0.03
155 26 0.22
156 33 0.28
158 57 0.47
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (156 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCATCTTTAAGCCCACAACTCCGTGGCACCT
TTTTCTTTTCAAAGCCCACAACGCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC
CTACAACTTTGTGGCACTCTCTTTCC
Found at i:701242 original size:70 final size:70
Alignment explanation
Indices: 701090--701276 Score: 279
Period size: 70 Copynumber: 2.7 Consensus size: 70
701080 CTACAACTTT
*
701090 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCAC
1 GTGGCACTCTTTTTCCC-TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCAC
701155 AACTCC
65 AACTCC
* * *
701161 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACGCCGTGGCA-CTTTTTTTTTTTAAAGCCCAC
1 GTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCAC
701225 AACTCC
65 AACTCC
* * *
701231 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCCTGGCATCTTT
1 GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTT
701277 CTCCCTTCCT
Statistics
Matches: 107, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
68 17 0.16
69 4 0.04
70 50 0.47
71 36 0.34
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.35
Consensus pattern (70 bp):
GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACA
ACTCC
Found at i:701276 original size:104 final size:104
Alignment explanation
Indices: 701107--701296 Score: 285
Period size: 104 Copynumber: 1.8 Consensus size: 104
701097 TCTCTTTCCC
** *
701107 TTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
1 TTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCCTGGCACTCTT
* *
701172 TTTCCCTT-TTCAAAGCCCACAACGCCGTGGCACTTTTTT
66 TCTCCCTTCCT-AAAGCCCACAACGCCGTGGCACTTTTTT
* *
701211 TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCCTGGCA-TCT
1 TTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCCTGGCACTCT
701275 TTCTCCCTTCCTAAAGCCCACA
65 TTCTCCCTTCCTAAAGCCCACA
701297 CAAGTCGGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
104 48 0.62
105 29 0.38
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.33
Consensus pattern (104 bp):
TTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCCTGGCACTCTT
TCTCCCTTCCTAAAGCCCACAACGCCGTGGCACTTTTTT
Found at i:701324 original size:33 final size:35
Alignment explanation
Indices: 701281--701350 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 35
701271 ATCTTTCTCC
701281 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
*
701315 CTTCC-AAAGCCCACATAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
701349 CT
1 CT
701351 AAGCCCAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 23 0.68
34 11 0.32
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.21
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:701324 original size:104 final size:102
Alignment explanation
Indices: 701112--701329 Score: 235
Period size: 104 Copynumber: 2.1 Consensus size: 102
701102 TTCCCTTTTT
** * *
701112 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCCTGGCACTCTTTCTCC
* * * * **
701177 CTTTTCAAAGCCCACAACGCCGTGGCACTTTTTTTTTTT
66 CTTCTCAAAGCCCACAAAGCCGTGGCAC--TCTTCTTCC
* *
701216 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCCTGGCA-TCTTTCTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCCTGGCACTCTTTCTC
*
701280 CCTTC-CTAAAGCCCACACAAGTCGGTGGCAAC-CTTCTTCC
65 CCTTCTC-AAAGCCCACA-AAG-CCGTGGC-ACTCTTCTTCC
701320 AAAGCCCACA
1 AAAGCCCACA
701330 TAAGTCGGTG
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
103 1 0.01
104 57 0.59
105 30 0.31
106 6 0.06
107 2 0.02
ACGTcount: A:0.22, C:0.36, G:0.13, T:0.29
Consensus pattern (102 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCCTGGCACTCTTTCTCC
CTTCTCAAAGCCCACAAAGCCGTGGCACTCTTCTTCC
Found at i:701414 original size:49 final size:49
Alignment explanation
Indices: 701350--702066 Score: 764
Period size: 49 Copynumber: 14.8 Consensus size: 49
701340 GCAACCCTTC
* * *
701350 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
701399 TAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
701442 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
701491 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
701534 TAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
701583 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
** * *
701632 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCCCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
701680 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
701723 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
701775 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
701818 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG--CATCTT-CATCTT
* * *
701870 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAT-C----T-TCATCTT
* * * * *
701925 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
701974 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG--CATCTT-CATCTT
* * *
702026 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
702067 CTTTTTCTCA
Statistics
Matches: 566, Mismatches: 63, Indels: 77
0.80 0.09 0.11
Matches are distributed among these distances:
43 151 0.27
45 6 0.01
47 2 0.00
48 43 0.08
49 197 0.35
50 9 0.02
51 5 0.01
52 111 0.20
54 1 0.00
55 40 0.07
56 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:701457 original size:43 final size:43
Alignment explanation
Indices: 701345--701857 Score: 504
Period size: 43 Copynumber: 11.0 Consensus size: 43
701335 CGGTGGCAAC
* * *
701345 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
701389 TCTTCATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * * *
701438 CCTTTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
701481 TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * * *
701530 CCTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
701573 TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
701622 CCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCCCA
1 -C-----CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CA
*
701676 CCATTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * *
701719 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
701762 CCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 -------C--CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* *
701814 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
701857 C
1 C
701858 ATTTTCCATC
Statistics
Matches: 400, Mismatches: 34, Indels: 67
0.80 0.07 0.13
Matches are distributed among these distances:
43 157 0.39
45 3 0.01
46 1 0.00
47 2 0.00
48 40 0.10
49 151 0.38
50 4 0.01
52 39 0.10
53 1 0.00
54 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:701512 original size:92 final size:92
Alignment explanation
Indices: 701345--702013 Score: 890
Period size: 92 Copynumber: 7.0 Consensus size: 92
701335 CGGTGGCAAC
*
701345 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
*
701410 TAGCTAGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* *
701438 CCTTTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
701503 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
701530 CCTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
701595 AGCTGGCCTTGACTCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * ** * *
701622 CCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCCCACCATTAAGTC
1 -C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTC
701686 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* *
701719 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAA
701784 TGTAGCTGGCCTTGAATCAGCACATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
* *
701814 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAA
* *
701879 TGTAGCTGGCCTTGAATCAGCACGTTGACA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
* * *
701909 TCCTTTTTCTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCACCTT
1 ----------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
701974 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
54 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
702013 C
1 C
702014 ATTTTCCATC
Statistics
Matches: 515, Mismatches: 37, Indels: 47
0.86 0.06 0.08
Matches are distributed among these distances:
91 39 0.08
92 173 0.34
93 5 0.01
94 1 0.00
95 130 0.25
96 1 0.00
97 45 0.09
98 38 0.07
104 39 0.08
105 6 0.01
107 38 0.07
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:701798 original size:52 final size:52
Alignment explanation
Indices: 701720--702124 Score: 447
Period size: 52 Copynumber: 7.9 Consensus size: 52
701710 ACATTGGCAC
*
701720 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
* *
701772 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
*
701815 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
* * ** *
701867 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
* * * *
701922 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
*
701971 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
* * ** *
702023 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
* * * * * *
702078 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
702125 ATCACTTTTC
Statistics
Matches: 294, Mismatches: 41, Indels: 35
0.79 0.11 0.09
Matches are distributed among these distances:
43 40 0.14
45 1 0.00
49 42 0.14
50 1 0.00
51 6 0.02
52 115 0.39
53 5 0.02
54 11 0.04
55 73 0.25
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
Found at i:702261 original size:171 final size:170
Alignment explanation
Indices: 701962--702515 Score: 713
Period size: 171 Copynumber: 3.2 Consensus size: 170
701952 AGCATATTGG
* * *
701962 CATCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTT
1 CATCATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTT
702027 AAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATA
63 AAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTT-AGCCCAATA
702092 TCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCT
127 TCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCT
* *
702136 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
1 CATCATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
702201 TTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCG
66 TTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTA-GCCCAATATCG
702266 TTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCT
130 TTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCT
* * * * *
702307 CATCTTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAG
1 CATCATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
* * * * ** * ** *
702372 TCCAATATCGCTAGCC--GCATATTGGCTC-TT-TTATCCTTTTTCTCATCTTTCAACCCAATAT
66 TTCAATGTAGCTGGCCTTG-A-ATCAGCACGTTGACATCCTTTTTCTCATCTTT-AGCCCAATAT
* * * * *
702433 CGTTGGCCGTGAATCAACGTATTGGTCCT-TTTATCGCTCTTCAT
128 CGTTGGCCATGAATCAACATATTGG-CATCTTTATCACTTTTC-T
* * * * *
702477 CCTCATCATCTTTAAGTCCAGTGTGGCAGGCCTTGAATC
1 CATCATCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
702516 TGCACAGTGG
Statistics
Matches: 342, Mismatches: 32, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
169 61 0.18
170 41 0.12
171 190 0.56
172 5 0.01
174 45 0.13
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (170 bp):
CATCATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
TTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGCCCAATATCGT
TGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCT
Found at i:706754 original size:3 final size:3
Alignment explanation
Indices: 706746--706791 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
706736 CAAGTCAACT
* *
706746 TCA TCA TCA TCA TCT TCA TCA TCA TCA TCA TCA TCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
706792 TGATGGTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:708049 original size:20 final size:20
Alignment explanation
Indices: 708024--708077 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
708014 GTTGGGCTCA
*
708024 ATGTATCGATACATTTCACC
1 ATGTATCGATACAATTCACC
* *
708044 ATGTATTGATACAATTCATC
1 ATGTATCGATACAATTCACC
*
708064 ATGTATCAATACAA
1 ATGTATCGATACAA
708078 AGTGAGTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:708161 original size:13 final size:13
Alignment explanation
Indices: 708143--708167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
708133 TAACAAGAAC
708143 ATGTATCGATACA
1 ATGTATCGATACA
708156 ATGTATCGATAC
1 ATGTATCGATAC
708168 TAAGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:709612 original size:13 final size:13
Alignment explanation
Indices: 709594--709630 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
709584 TGAATTTTTG
709594 TTAATTAAAAAAA
1 TTAATTAAAAAAA
709607 TTAATTAAAAAAA
1 TTAATTAAAAAAA
* *
709620 TCAAATAAAAA
1 TTAATTAAAAA
709631 TTATCATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
TTAATTAAAAAAA
Found at i:710065 original size:155 final size:155
Alignment explanation
Indices: 709888--710312 Score: 548
Period size: 155 Copynumber: 2.7 Consensus size: 155
709878 CAAAGTACCT
* * *
709888 TAGGGACATTTTCATAATTTTCTAGAACCAACTCTTAGGTCGTCACCGGGTCTGCTTTCATGCCG
1 TAGGGGCATTTTCATAATTTTCTAGAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTCATGCCG
* * * * *
709953 AATGTGGGTATTTATGATAGTTTCATCCCTTTTAAAATCTTTTTTAAGTC-TTTAAGCGTATTAG
66 AATGTGGGTATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTCAAGTCTTTTAAGAGTATTAG
* *
710017 GTACTTTTACGTTAAAGATATCCCC
131 GTACTTTTACATCAAAGATATCCCC
* *
710042 TAGGGGGCATTTTCATAATTTTCTAGAACCAACTCCTAGGTTGTCACCAGGTCCGCTTTCATGCC
1 TA-GGGGCATTTTCATAATTTTCTAGAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTCATGCC
* * *
710107 GAAGGTACTTTAGGAGTATTTAGGATAGGCTCATCCCTTTTAAAATCCTTTTCAAGTCTTTTAGG
65 G-A---A-TGT-GG-GTATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTCAAGTCTTTTAAG
* *
710172 AGTATTGGGTACTTTTACATCAAAGGTATCCCC
123 AGTATTAGGTACTTTTACATCAAAGATATCCCC
** * * *
710205 TAGGGGCATTTTTGTAATTTTTTAGAACTAAATCCTAGGTCGTCA-CGGAGTCCGCTTTCATGCC
1 TAGGGGCATTTTCATAATTTTCTAGAACCAACTCCTAGGTCGTCACCGG-GTCCGCTTTCATGCC
*
710269 GAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTAAAATCCTTT
65 GAATGTGGGTATTTAGGATAGGTTCATCCCTTTTAAAATCCTTT
710313 AGGGGTATCG
Statistics
Matches: 234, Mismatches: 27, Indels: 19
0.84 0.10 0.07
Matches are distributed among these distances:
154 2 0.01
155 93 0.40
156 3 0.01
157 1 0.00
158 1 0.00
159 1 0.00
160 2 0.01
161 5 0.02
162 91 0.39
163 35 0.15
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (155 bp):
TAGGGGCATTTTCATAATTTTCTAGAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTCATGCCG
AATGTGGGTATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTCAAGTCTTTTAAGAGTATTAG
GTACTTTTACATCAAAGATATCCCC
Found at i:710243 original size:162 final size:155
Alignment explanation
Indices: 709894--710312 Score: 527
Period size: 162 Copynumber: 2.7 Consensus size: 155
709884 ACCTTAGGGA
* * * * * *
709894 CATTTTCATAATTTTCTAGAACCAACTCTTAGGTCGTCACCGGGTCTGCTTTCATGCCGAATGTG
1 CATTTTCATAATTTTCTAGAACCAAATCCTAGGTCGTCACAGAGTCCGCTTTCATGCCGAAGGTG
* * * * *
709959 GGTATTTATGATAGTTTCATCCCTTTTAAAATCTTTTTTAAGTCTTTAAGCGTATTAGGTACTTT
66 GGTATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTCAAGTCTTTAAGAGTATTAGGTACTTT
* *
710024 TACGTTAAAGATATCCCCTAGGGGG
131 TACATCAAAGATATCCCCTAGGGGG
* *
710049 CATTTTCATAATTTTCTAGAACCAACTCCTAGGTTGTCACCAG-GTCCGCTTTCATGCCGAAGGT
1 CATTTTCATAATTTTCTAGAACCAAATCCTAGGTCGTCA-CAGAGTCCGCTTTCATGCCGAAGG-
* *
710113 ACTTTAGGAGTATTTAGGATAGGCTCATCCCTTTTAAAATCCTTTTCAAGTCTTTTAGGAGTATT
64 ----T-GG-GTATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTCAAGTC-TTTAAGAGTATT
* *
710178 GGGTACTTTTACATCAAAGGTATCCCCTA-GGGG
122 AGGTACTTTTACATCAAAGATATCCCCTAGGGGG
** * * *
710211 CATTTTTGTAATTTTTTAGAACTAAATCCTAGGTCGTCACGGAGTCCGCTTTCATGCCGAAGGTG
1 CATTTTCATAATTTTCTAGAACCAAATCCTAGGTCGTCACAGAGTCCGCTTTCATGCCGAAGGTG
710276 GGTATTTAGGATAGGTTCATCCCTTTTAAAATCCTTT
66 GGTATTTAGGATAGGTTCATCCCTTTTAAAATCCTTT
710313 AGGGGTATCG
Statistics
Matches: 230, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
155 90 0.39
156 4 0.02
157 1 0.00
160 1 0.00
161 4 0.02
162 95 0.41
163 35 0.15
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (155 bp):
CATTTTCATAATTTTCTAGAACCAAATCCTAGGTCGTCACAGAGTCCGCTTTCATGCCGAAGGTG
GGTATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTCAAGTCTTTAAGAGTATTAGGTACTTT
TACATCAAAGATATCCCCTAGGGGG
Found at i:718443 original size:20 final size:20
Alignment explanation
Indices: 718383--718436 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
718373 TTTGACAATT
*
718383 TGTATCGATATAATAAGTGAA
1 TGTATCGATA-CATAAGTGAA
718404 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
718424 TGTATCGATACAT
1 TGTATCGATACAT
718437 GTTTGAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 22 0.69
21 10 0.31
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:722151 original size:33 final size:32
Alignment explanation
Indices: 722096--722160 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
722086 TTTGAAGCAA
722096 TGTATCAATACAATTCATCATGTATCGATACAT
1 TGTATCAATACAATTCA-CATGTATCGATACAT
*
722129 TGTATCAATACAATGTGC-CATGTATTGATACA
1 TGTATCAATACAAT-T-CACATGTATCGATACA
722161 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
TGTATCAATACAATTCACATGTATCGATACAT
Found at i:722229 original size:13 final size:13
Alignment explanation
Indices: 722211--722237 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
722201 ACAATGATGC
722211 ATGTATCGATACA
1 ATGTATCGATACA
722224 ATGTATCGATACA
1 ATGTATCGATACA
722237 A
1 A
722238 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:722248 original size:33 final size:33
Alignment explanation
Indices: 722191--722256 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
722181 TACCGGTTTC
* *
722191 ATGTATCGATACAATGATGCATGTATCGATACA
1 ATGTATCGATACAAAGATGAATGTATCGATACA
*
722224 ATGTATCGATACAAAGCAT-AATGTATTGATACA
1 ATGTATCGATACAAAG-ATGAATGTATCGATACA
722257 TCTAAGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGATGAATGTATCGATACA
Found at i:722840 original size:21 final size:21
Alignment explanation
Indices: 722814--722878 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 21
722804 GCTCTCGTTT
722814 AAAATTTCTCCCCTTTGATAA
1 AAAATTTCTCCCCTTTGATAA
*
722835 AAAATTTCCTCCCCCTTGATAA
1 AAAATTT-CTCCCCTTTGATAA
722857 AAAATTTTCTCCCTCTTT-ATAA
1 AAAA-TTTCTCCC-CTTTGATAA
722879 TCGTTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.18
22 26 0.67
23 6 0.15
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.38
Consensus pattern (21 bp):
AAAATTTCTCCCCTTTGATAA
Found at i:724695 original size:19 final size:18
Alignment explanation
Indices: 724663--724701 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
724653 TGAATATTGA
724663 TGAAAAGATGTTAGGGTTT
1 TGAAAAGATGTTA-GGTTT
* *
724682 TGAAAGGATTTTAGGTTT
1 TGAAAAGATGTTAGGTTT
724700 TG
1 TG
724702 GGGGTTGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (18 bp):
TGAAAAGATGTTAGGTTT
Found at i:728677 original size:13 final size:13
Alignment explanation
Indices: 728659--728684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
728649 CAATTTTTTG
728659 TGTATCGATACAT
1 TGTATCGATACAT
728672 TGTATCGATACAT
1 TGTATCGATACAT
728685 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:728770 original size:20 final size:20
Alignment explanation
Indices: 728745--728817 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
728735 ATCTTTTTTT
728745 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
728765 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
728786 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
728806 ATGTATCGATAC
1 ATGTATCGATAC
728818 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:728796 original size:41 final size:42
Alignment explanation
Indices: 728723--728817 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
728713 CTGCCAAGAA
*
728723 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
728765 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
728806 ATGTATCGATAC
1 ATGTATCGATAC
728818 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:729455 original size:16 final size:16
Alignment explanation
Indices: 729424--729469 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
729414 CTCTCCTTTG
729424 TCTCCCCCGTTTAAAAAA
1 TCTCCCCC--TTAAAAAA
729442 TCTCCCCCTTAAAAAA
1 TCTCCCCCTTAAAAAA
729458 TCTCCCCCTTAA
1 TCTCCCCCTTAA
729470 TCAAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 20 0.71
18 8 0.29
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.28
Consensus pattern (16 bp):
TCTCCCCCTTAAAAAA
Done.