Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1552
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: 22342
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Found at i:7021 original size:52 final size:52
Alignment explanation
Indices: 6941--7060 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
6931 AAAAGTTGTT
* *
6941 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTGCC
*
6993 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAATTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTGCC
7045 TGCATGTATCGATACA
1 TGCATGTATCGATACA
7061 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTGCC
Found at i:7073 original size:52 final size:51
Alignment explanation
Indices: 6941--7080 Score: 201
Period size: 52 Copynumber: 2.7 Consensus size: 51
6931 AAAAGTTGTT
*
6941 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAATTGCC
* *
6993 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAATTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAATTGCC
*
7045 TGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATTA-AT-AGTGTATCGATACA
7081 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
TGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAATTGCC
Found at i:7087 original size:13 final size:13
Alignment explanation
Indices: 7069--7093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7059 CAAAGATCAG
7069 TGTATCGATACAA
1 TGTATCGATACAA
7082 TGTATCGATACA
1 TGTATCGATACA
7094 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:7171 original size:33 final size:33
Alignment explanation
Indices: 7134--7200 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
7124 AGTAGCTTAA
7134 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
7167 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
7200 A
1 A
7201 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:7174 original size:13 final size:13
Alignment explanation
Indices: 7156--7180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7146 CAAAAAAATA
7156 TGTATCGATACAT
1 TGTATCGATACAT
7169 TGTATCGATACA
1 TGTATCGATACA
7181 ACATTTTATG
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:7279 original size:21 final size:21
Alignment explanation
Indices: 7238--7279 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7228 GTTGGGACCT
*
7238 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
7259 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
7280 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:7508 original size:55 final size:55
Alignment explanation
Indices: 7416--7664 Score: 347
Period size: 55 Copynumber: 4.5 Consensus size: 55
7406 AAAGGAGAGA
* *
7416 GCGTCCTACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
7471 GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGACAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
7526 GCGTCCTGCTCTTTGAGGACTGGAGGGTGCCGCCAACTCGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
7581 GCGTCCTGCTCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* **
7636 GCGTCCTACTCTTTGAGGACAAAAAGGTG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTG
7665 AAAGGAGAGA
Statistics
Matches: 169, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 3 0.02
55 166 0.98
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:7614 original size:110 final size:110
Alignment explanation
Indices: 7416--7655 Score: 392
Period size: 110 Copynumber: 2.2 Consensus size: 110
7406 AAAGGAGAGA
*
7416 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
1 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCT
* *
7481 CTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGACAG
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
7526 GCGTCCTGCTCTTTGAGGACT-GGAGGGTGCCGCCAACTCGTGTGGGCTTTAAAAGGCGTCCTGC
1 GCGTCCTACTCTTTGAGGACTAGGA-AGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGC
*
7590 TCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAG
65 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
7636 GCGTCCTACTCTTTGAGGAC
1 GCGTCCTACTCTTTGAGGAC
7656 AAAAAGGTGA
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
109 3 0.03
110 117 0.98
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (110 bp):
GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:7800 original size:93 final size:94
Alignment explanation
Indices: 7581--7817 Score: 406
Period size: 94 Copynumber: 2.5 Consensus size: 94
7571 GCTTTAAAAG
* *
7581 GCGTCCTGCTCTTTGAGGACT-GAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTAC
1 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTAC
*
7645 TCTTTGAGGACAAAAAGGTGAAAGGAGAGA
65 TCTTTGAGGACAAAAAGGCGAAAGGAGAGA
* *
7675 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACT
7740 CTTTGAGGAC-AAAAGGCGAAAGGAGAGA
66 CTTTGAGGACAAAAAGGCGAAAGGAGAGA
7768 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT
7818 AAAAAGAGAA
Statistics
Matches: 136, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
93 66 0.49
94 67 0.49
95 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (94 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACT
CTTTGAGGACAAAAAGGCGAAAGGAGAGA
Found at i:7930 original size:55 final size:55
Alignment explanation
Indices: 7768--7957 Score: 240
Period size: 55 Copynumber: 3.4 Consensus size: 55
7758 AAAGGAGAGA
*
7768 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTT--AAA-AG
* * * *
7826 AAAGCGTCCTACTTTTTGAGGACTG-AAGGTGCCATCAACTTGTGTGGGCTTTAAAAG
1 ---GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
7883 GTGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
7938 GCGTCCTGCTCTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGAC
7958 AAAAAGGTGA
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
54 19 0.17
55 48 0.42
57 2 0.02
58 3 0.03
60 24 0.21
61 19 0.17
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:8044 original size:55 final size:55
Alignment explanation
Indices: 7977--8743 Score: 936
Period size: 55 Copynumber: 13.5 Consensus size: 55
7967 AAAGGAGAGA
*
7977 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTCGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
8032 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT---A--A-AAG
* *
8093 GCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
8147 GCGTCCTGCTCTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
8202 GAGTCCTGCTCTTTGAGGACT-GAAGGTTCCACCAACTTGTGTGGGCTTTGAATGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT--A---A-AAG
* *
8262 GCGTCCTGCTCTTTGAGGGCT-GAAGGTTCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
8316 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
8370 GCGTCCTGCTCTTTGAAGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* **
8425 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAG
* * *
8485 GTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAGAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* ** * *
8540 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAGAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
8595 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-------AAAAG
*
8657 GCGTCCTGCTCTTTGAGGACT-GAAGGTTCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
8717 GCGTCCTGCTCTTTGAGGACTGGAAGG
1 GCGTCCTGCTCTTTGAGGACTGGAAGG
8744 GCTAAAAGAG
Statistics
Matches: 632, Mismatches: 50, Indels: 54
0.86 0.07 0.07
Matches are distributed among these distances:
53 3 0.00
54 121 0.19
55 268 0.42
56 4 0.01
58 2 0.00
59 1 0.00
60 156 0.25
61 53 0.08
62 24 0.04
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:8046 original size:94 final size:94
Alignment explanation
Indices: 7885--8060 Score: 282
Period size: 94 Copynumber: 1.9 Consensus size: 94
7875 TTTAAAAGGT
* * *
7885 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCTCT
7950 TTGAGGACAAAAAGGTGAAAGGAGAGAGC
66 TTGAGGACAAAAAGGTGAAAGGAGAGAGC
*
7979 GTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCTC
1 GTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCTC
**
8043 TTTGAGGACTGAAAGGTG
65 TTTGAGGACAAAAAGGTG
8061 CCACCAACTT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 1 0.01
94 74 0.99
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (94 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCTCT
TTGAGGACAAAAAGGTGAAAGGAGAGAGC
Found at i:8179 original size:115 final size:113
Alignment explanation
Indices: 7977--8743 Score: 915
Period size: 115 Copynumber: 6.7 Consensus size: 113
7967 AAAGGAGAGA
* * *
7977 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
* *
8041 TCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAG
64 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-AAA-GAGAAG
*
8093 GCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
1 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
*
8158 TTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTT--A-A-AAG
66 TTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAG
* *
8202 GAGTCCTGCTCTTTGAGGACTGAAGGTTCCACCAACTTGTGTGGGCTTTGAATGGAGAAGGCGTC
1 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGC-TT---T-GA-AAGGCGTC
* *
8267 CTGCTCTTTGAGGGCT-GAAGGTTCCACCAACTTGTGTGGGCTTT--A-A-AAG
60 CTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAG
* *
8316 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTC
1 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
* * *
8381 TTTGAAGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT---GA-AAG
66 TTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAG
** * *
8425 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGTGTC
1 GCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAGGCGTC
*
8490 CTGCTCTTTGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTT--A-AG-AG
60 CTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAG
** *
8540 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
* *
8605 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAG
65 CTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-AAA-G-AGAAG
*
8657 GCGTCCTGCTCTTTGAGGACTGAAGGTTCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTC
8722 CTGCTCTTTGAGGACTGGAAGG
60 CTGCTCTTTGAGGACTGGAAGG
8744 GCTAAAAGAG
Statistics
Matches: 577, Mismatches: 41, Indels: 60
0.85 0.06 0.09
Matches are distributed among these distances:
108 21 0.04
109 98 0.17
110 79 0.14
112 1 0.00
113 7 0.01
114 75 0.13
115 193 0.33
116 50 0.09
117 23 0.04
121 1 0.00
122 29 0.05
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (113 bp):
GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
TTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAG
Found at i:8513 original size:393 final size:395
Alignment explanation
Indices: 7977--8711 Score: 1192
Period size: 393 Copynumber: 1.9 Consensus size: 395
7967 AAAGGAGAGA
* *
7977 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCT
1 GCGTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCT
** * *
8042 CTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGCATCCTGCTCTTT
66 CTTTGAGGACTGAAAAATGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGGCATCCTGCTCTTT
* *
8107 GAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGGACTAGG
131 GAGGACTGAAGGTGCCACCAACCTGTGTGGGCTTT-AAGAGGCGTCCTGCTCTTTGAGGACTAGA
* *
8171 AAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTG-AAGGTTCCACC
195 AAACGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACC
* * *
8235 AACTTGTGTGGGCTTTGAATGG-AGAAGGCGTCCTGCTCTTTGAGGGCTGAAGGTTCCACCAACT
260 AACTTGTGTGGGCTTTGAAAGGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAGGTTCCACCAACT
8299 TGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTT
325 TGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTT
8364 TAAAAG
390 TAAAAG
* * * *
8370 GCGTCCTGCTCTTTGAAGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAAGACTAGAAA-GTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGC
* **
8434 TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGGTGTCCTGCTCTT
65 TCTTTGAGGACTGAAAAATGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGGCATCCTGCTCTT
8498 TGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTAG
130 TGAGGACT-GAAGGTGCCACCAACCTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTAG
* * * *
8563 AAAATGCCACCAACTTGTGTGGGCTTTGAGAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
194 AAAACGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
8628 CAACTTGTGTGGGCTTTGAAAGGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAGGTTCCACCAAC
259 CAACTTGTGTGGGCTTTGAAAGGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAGGTTCCACCAAC
8693 TTGTGTGGGCTTTAAAAGG
324 TTGTGTGGGCTTTAAAAGG
8712 AAAAGGCGTC
Statistics
Matches: 313, Mismatches: 24, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
392 29 0.09
393 195 0.62
394 31 0.10
395 58 0.19
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (395 bp):
GCGTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCT
CTTTGAGGACTGAAAAATGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGGCATCCTGCTCTTT
GAGGACTGAAGGTGCCACCAACCTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTAGAA
AACGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCA
ACTTGTGTGGGCTTTGAAAGGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAGGTTCCACCAACTT
GTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT
AAAAG
Found at i:8552 original size:170 final size:166
Alignment explanation
Indices: 7977--8712 Score: 997
Period size: 170 Copynumber: 4.3 Consensus size: 166
7967 AAAGGAGAGA
*
7977 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
* *
8041 TCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGCATCCTGCTCTT
65 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT---A-GAGAAGGCGTCCTGCTCTT
*
8106 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
126 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
8147 GCGTCCTGCTCTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
*
8211 TCTTTGAGGACTG-AAGGTTCCACCAACTTGTGTGGGCTTTGAATGGAGAAGGCGTCCTGCTCTT
65 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--A--GAGAAGGCGTCCTGCTCTT
* *
8275 TGAGGGCTGAAGGTTCCACCAACTTGTGTGGGCTTTAAAAG
126 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
8316 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
* *
8380 CTTTGAAGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT-GA-AAGGCGTCCTGCTCTTTGAGG
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGCGTCCTGCTCTTTGAGG
**
8443 ACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAAG
131 ACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAG
* * * *
8485 GTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAGAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
*
8550 CTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTT-GAG-AGGCGTCCTGCTCTTTGAG
66 CTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGCGTCCTGCTCTTTGAG
8612 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAG
130 GACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-------AAAAG
*
8657 GCGTCCTGCTCTTTGAGGACT-GAAGGTTCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
8713 AAAGGCGTCC
Statistics
Matches: 517, Mismatches: 35, Indels: 27
0.89 0.06 0.05
Matches are distributed among these distances:
163 24 0.05
164 26 0.05
167 2 0.00
168 49 0.09
169 154 0.30
170 199 0.38
171 35 0.07
172 28 0.05
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (166 bp):
GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGCGTCCTGCTCTTTGAGG
ACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:9801 original size:79 final size:78
Alignment explanation
Indices: 9683--9923 Score: 376
Period size: 79 Copynumber: 3.1 Consensus size: 78
9673 GGTGTTATCG
9683 CGATTATGAAGAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGG
1 CGATTATGAA-AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGG
*
9748 GATTGGAGTATCCC
65 GGTTGGAGTATCCC
* *
9762 CGATTATGAAAATTTGATGTTTTAGAGATAAAACCGGGGTTAGAGTATCCCCTC-AGAAATAACG
1 CGATTATGAAAA-TTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGA-AAATAACG
9826 GGGTTGGAGTATCCC
64 GGGTTGGAGTATCCC
* * *
9841 CGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCTCCTCGGAAATAACGG
1 CGATTATG-AAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGG
*
9906 GGTTGAAGTATCCC
65 GGTTGGAGTATCCC
9920 CGAT
1 CGAT
9924 GATTAACGGG
Statistics
Matches: 149, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
78 3 0.02
79 142 0.95
80 4 0.03
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (78 bp):
CGATTATGAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGG
GTTGGAGTATCCC
Found at i:9942 original size:27 final size:28
Alignment explanation
Indices: 9875--9950 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
9865 GAAATAAAGC
9875 CGGGGTTGGAGTATCTCCTCG--GAAATAA
1 CGGGGTTGGAGTATC-CC-CGATGAAATAA
* *
9903 CGGGGTTGAAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
9930 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
9951 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.05
27 26 0.60
28 15 0.35
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:11239 original size:35 final size:34
Alignment explanation
Indices: 11165--11300 Score: 254
Period size: 35 Copynumber: 3.9 Consensus size: 34
11155 TTTCATTTTT
11165 ATGCCCATCATTCCATGCCTTCATTTTTTATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTTATTCC
11199 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
11234 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
11269 ATGCCCATCATTCCATGCCTTCATTTTTTATT
1 ATGCCCATCATTCCATGCCTTCATTTTTTATT
11301 ATTATTTTTT
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
34 32 0.32
35 69 0.68
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (34 bp):
ATGCCCATCATTCCATGCCTTCATTTTTTATTCC
Found at i:11329 original size:13 final size:13
Alignment explanation
Indices: 11291--11330 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
11281 CCATGCCTTC
11291 ATTTTTTATTATTA
1 ATTTTTTATT-TTA
*
11305 TTTTTTTAATTTTA
1 ATTTTTT-ATTTTA
11319 ATTTTTTATTTT
1 ATTTTTTATTTT
11331 CACTTATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 5 0.22
14 15 0.65
15 3 0.13
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
ATTTTTTATTTTA
Found at i:12225 original size:31 final size:31
Alignment explanation
Indices: 12178--12624 Score: 528
Period size: 31 Copynumber: 14.2 Consensus size: 31
12168 TCGTCAAATC
*
12178 TCTTTTCTT-CAAGTCCACGAATCAGTGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
12208 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
* * *
12239 TCTTTTTTCTTCAAAGTCCACAATTCAGTGGCA
1 TC--TTTTCTTCCAAGTCCACGACTCAGTGGCA
* * *
12272 TCTCTTCTTCAAAGTCCACGACTCAATGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
12303 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
*
12334 TCTTTTCTTCCAAGTCCACGACTCAGTGGCG
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
*
12365 TCTTTT-TTCCCCAAAGTCCACAACTCAGTGGCA
1 TCTTTTCTT--CC-AAGTCCACGACTCAGTGGCA
* *
12398 TCTTTTCTTCAAAGTCCACGACACAGTGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
*
12429 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
* *
12460 TCTTTTCTTCAAAGTCCACCACTCAGTGGCA
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
* * * *
12491 TCCTTTTTCTTCAAAAATGCACGACTCAGTAGCAA
1 T-C-TTTTCTTC-CAAGTCCACGACTCAGTGGC-A
*
12526 TCTCTTC--CCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCC-AAGTCCACGACTCAGTGGCA
*
12556 TCCGTTTCTTCCAAGTCCACGACTCAGTGGCAA
1 T-CTTTTCTTCCAAGTCCACGACTCAGTGGC-A
* *
12589 TCTCTTC--CCAAAGTCCACGACTCTGTGGCA
1 TCTTTTCTTCC-AAGTCCACGACTCAGTGGCA
*
12619 CCTTTT
1 TCTTTT
12625 TATTTTCAAA
Statistics
Matches: 365, Mismatches: 35, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
30 20 0.05
31 229 0.63
32 27 0.07
33 68 0.19
34 19 0.05
35 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (31 bp):
TCTTTTCTTCCAAGTCCACGACTCAGTGGCA
Found at i:12327 original size:95 final size:93
Alignment explanation
Indices: 12182--12624 Score: 529
Period size: 95 Copynumber: 4.7 Consensus size: 93
12172 CAAATCTCTT
*
12182 TTCTTC-AAGTCCACGAATCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATC--TTT
* *
12246 TCTTCAAAGTCCACAATTCAGTGGCATCTC
64 TCTTCAAAGTCCACGACTCAGTGGCATCTC
*
12276 TTCTTCAAAGTCCACGACTCAATGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTC
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTC
* *
12341 TTCCAAGTCCACGACTCAGTGGCGTCT-
66 TTCAAAGTCCACGACTCAGTGGCATCTC
* * * *
12368 TTTTTCCCCAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACACAGTGGCATCTT
1 TTCTT---CAAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTT
*
12433 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
63 TTCTTCAAAGTCCACGACTCAGTGGCATCTC
* * * * *
12464 TTCTTCAAAGTCCACCACTCAGTGGCATCCTTTTTCTTCAAAAATGCACGACTCAGTAGCAATCT
1 TTCTTCAAAGTCCACGACTCAGTGGCAT-C-TTTTCTTC-CAAGTCCACGACTCAGTGGC-ATCT
* *
12529 CTTC-CCAAAGTCCACGACTCAGTGGCATC-C
62 TTTCTTCAAAGTCCACGACTCAGTGGCATCTC
* * * *
12559 GTTTCTTCCAAGTCCACGACTCAGTGGCAATCTCTTC--CCAAAGTCCACGACTCTGTGGCACCT
1 --TTCTTCAAAGTCCACGACTCAGTGGC-ATCTTTTCTTCC-AAGTCCACGACTCAGTGGCATCT
12622 TTT
62 TTT
12625 TATTTTCAAA
Statistics
Matches: 304, Mismatches: 32, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
92 4 0.01
93 55 0.18
94 23 0.08
95 140 0.46
96 48 0.16
97 32 0.11
98 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (93 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTC
TTCAAAGTCCACGACTCAGTGGCATCTC
Found at i:12412 original size:126 final size:126
Alignment explanation
Indices: 12178--12625 Score: 625
Period size: 126 Copynumber: 3.5 Consensus size: 126
12168 TCGTCAAATC
*
12178 TCTTTTCTT-CAAGTCCACGAATCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCT
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCT
* * *
12242 TTTTTCTTCAAAGTCCACAATTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAATGGCA
66 TTTTTCTCCAAAGTCCACAACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCA
*
12303 TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCGTCT
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCT
* * *
12368 TTTTTCCCCAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACACAGTGGCA
66 TTTTTCTCCAAAGTCCACAACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCA
* * * *
12429 TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACCACTCAGTGGCATCC
1 TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCT
* * * * * *
12494 TTTTTCTTCAAAAATGCACGACTCAGTAGCAATCTCTTC-CCAAAGTCCACGACTCAGTGGCA
66 TTTTTC-TCCAAAGTCCACAACTCAGTGGC-ATCTCTTCTTCAAAGTCCACGACTCAGTGGCA
* * *
12556 TCCGTTTCTTCCAAGTCCACGACTCAGTGGCAATCTCTTC--CCAAAGTCCACGACTCTGTGGCA
1 T-CTTTTCTTCCAAGTCCACGACTCAGTGGC-ATCTTTTCTTCC-AAGTCCACGACTCAGTGGCA
*
12619 CCTTTTT
63 TCTTTTT
12626 ATTTTCAAAT
Statistics
Matches: 287, Mismatches: 30, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
125 9 0.03
126 174 0.61
127 40 0.14
128 57 0.20
129 7 0.02
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (126 bp):
TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCT
TTTTTCTCCAAAGTCCACAACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCA
Found at i:12736 original size:27 final size:27
Alignment explanation
Indices: 12704--12808 Score: 165
Period size: 27 Copynumber: 3.9 Consensus size: 27
12694 TTTTTAAAAC
* *
12704 CCCACAACTCCGCGGCACCCTTTTAGG
1 CCCACAACTCCGTGGCACCCTTTTAAG
*
12731 TCCACAACTCCGTGGCACCCTTTTAAG
1 CCCACAACTCCGTGGCACCCTTTTAAG
*
12758 CCCACAACTTCGTGGCACCCTTTTAAG
1 CCCACAACTCCGTGGCACCCTTTTAAG
*
12785 CCCACAACTCCGTGGCACTCTTTT
1 CCCACAACTCCGTGGCACCCTTTT
12809 TCCTTTTAAG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.20, C:0.40, G:0.15, T:0.25
Consensus pattern (27 bp):
CCCACAACTCCGTGGCACCCTTTTAAG
Found at i:12741 original size:62 final size:60
Alignment explanation
Indices: 12660--12817 Score: 175
Period size: 54 Copynumber: 2.6 Consensus size: 60
12650 GCATCTTTTT
*
12660 CCTTTTAAGTCCACCACTCCGTGGCACCTTTGTCTTTTTAAAACCCCACAACTCCGCGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTT-TC-TTTTAAAACCCCACAACTCCGCGGCAC
* * * *
12722 CCTTTTAGGTCCACAACTCCGTGGCACC----CTTTT--AAGCCCACAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTAAAACCCCACAACTCCGCGGCAC
*
12776 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAA
1 CCTTTTAAGTCCACAACTCCGTGGCAC-C-TTTT-CTTTTAA
12818 GTCCATAACT
Statistics
Matches: 80, Mismatches: 7, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
54 43 0.54
55 1 0.01
56 4 0.05
57 1 0.01
61 5 0.06
62 26 0.32
ACGTcount: A:0.20, C:0.37, G:0.13, T:0.30
Consensus pattern (60 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTAAAACCCCACAACTCCGCGGCAC
Found at i:12880 original size:33 final size:33
Alignment explanation
Indices: 12842--12908 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
12832 GGCACCCCCT
12842 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
*
12875 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
12908 T
1 T
12909 AAGACCAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.19
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
Found at i:13024 original size:49 final size:49
Alignment explanation
Indices: 12964--13901 Score: 826
Period size: 49 Copynumber: 19.6 Consensus size: 49
12954 AATATTACTA
* * *
12964 GCCTTGAATCAGCATATTGGCATCTTTATCTTTAAGACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* * * *
13013 GCCTTGAATCAGCACATCGG---C---A-C---AAGCCCAATATTGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* * * * *
13052 GCCTTGAATCAACATATTGGCATCTTTATCTTCAAGACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* * * *
13101 GCCTTGAATCAGCACATCGG---C---A-C---AAGCCCAATATTGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* * * * ** *
13140 GTCTTGAATTAGCATATTGGCAACTTTATCTTTAAAACCAATGTCACTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* *
13189 GCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATATCGCTT
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* * ** *
13232 GCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGAGCAATGTCCCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
*
13281 GCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* * *
13324 GCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCACTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* * *
13373 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTA
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* *
13422 GCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACC-TT-T-ATCTTTAAGTCCAATGTCGCTG
* * * *
13474 GCCTTGAATCAACGCATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* * *
13523 GCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACC-TT-T-ATCTTTAAGTCCAATGTCGCTG
* * *
13575 GCCTTGAATCAGCGCATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* * *
13624 GCCTTGAATCAGCATATTGGCATCTTTATTTTTAAGTCCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* * * *
13673 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCGATGTCGTTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* * ** * * * *
13722 GCCTTGAATCAGTACATCGGCACCTCAACCATTTTTAAGCCCAATATTGCTG
1 GCCTTGAATCAGCACATTGGCACCT---TTATCTTTAAGTCCAATGTCGCTG
* * * *
13774 GCCTTGAATCAGCATATTGGCA-CGTCATCTTTAAGTCTAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* * * ** * *
13822 ACCGTGAATCAGCACATTGGTATTTTTCTCATCTTCAAGTCTAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCA-CCTT-T-ATCTTTAAGTCCAATGTCGCTG
* * *
13874 ACCATGAATCAGCACATTGACATCCTTT
1 GCCTTGAATCAGCACATTGGCA-CCTTT
13902 TTCTCTTCTT
Statistics
Matches: 723, Mismatches: 121, Indels: 88
0.78 0.13 0.09
Matches are distributed among these distances:
39 59 0.08
42 4 0.01
43 75 0.10
44 2 0.00
45 2 0.00
46 4 0.01
48 38 0.05
49 368 0.51
50 5 0.01
51 6 0.01
52 160 0.22
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
Found at i:13055 original size:39 final size:39
Alignment explanation
Indices: 13009--13153 Score: 128
Period size: 39 Copynumber: 3.5 Consensus size: 39
12999 GACCAATGTC
13009 GCTGGCCTTGAATCAGCACATCGGCACAAGCCCAATATT
1 GCTGGCCTTGAATCAGCACATCGGCACAAGCCCAATATT
* * * * * *
13048 GCTGGCCTTGAATCAACATATTGGCATCTTTATCTTCAAGACCAATGTC
1 GCTGGCCTTGAATCAGCACATCGG---C---A----CAAGCCCAATATT
13097 GCTGGCCTTGAATCAGCACATCGGCACAAGCCCAATATT
1 GCTGGCCTTGAATCAGCACATCGGCACAAGCCCAATATT
* *
13136 GCTGGTCTTGAATTAGCA
1 GCTGGCCTTGAATCAGCA
13154 TATTGGCAAC
Statistics
Matches: 82, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
39 47 0.57
42 1 0.01
43 1 0.01
45 1 0.01
46 1 0.01
49 31 0.38
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
GCTGGCCTTGAATCAGCACATCGGCACAAGCCCAATATT
Found at i:13057 original size:88 final size:90
Alignment explanation
Indices: 12908--13694 Score: 857
Period size: 88 Copynumber: 8.4 Consensus size: 90
12898 GCAACCCTTC
* * ** *
12908 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATCGGCA-C-GAGTCCAATATTACTAGCCTTGA
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTAAGTCCAATATCGCTGGCCTTGA
*
12971 ATCAGCATATTGGCATCTTTATCTT
66 ATCAGCATATTGGCACCTTTATCTT
* * *
12996 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATCGGCA-C-AAGCCCAATATTGCTGGCCTTGA
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTAAGTCCAATATCGCTGGCCTTGA
* *
13059 ATCAACATATTGGCATCTTTATCTT
66 ATCAGCATATTGGCACCTTTATCTT
* * * * *
13084 CAAGACCAATGTCGCTGGCCTTGAATCAGCACATCGGCA-C-AAGCCCAATATTGCTGGTCTTGA
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTAAGTCCAATATCGCTGGCCTTGA
* *
13147 ATTAGCATATTGGCAACTTTATCTT
66 ATCAGCATATTGGCACCTTTATCTT
* * * *
13172 TAAAACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTTGCCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TCTAAGTCCAATATCGCTGGCCTT
*
13237 GAATCAGCATATTGGCACCTTTGTCTT
64 GAATCAGCATATTGGCACCTTTATCTT
* * *
13264 TAAGAGCAATGTCCCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TCTAAGTCCAATATCGCTGGCCTT
*
13329 GAATCAGCATATTGGCACCTTCATCTT
64 GAATCAGCATATTGGCACCTTTATCTT
* *
13356 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CATC--TAAGTCCAATATCGCT
* *
13421 AGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
58 GGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTT
* * *
13457 TAAGTCCAATGTCGCTGGCCTTGAATCAACGCATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CATC--TAAGTCCAATATCGCT
* *
13522 GGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTT
58 GGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTT
* *
13558 TAAGTCCAATGTCGCTGGCCTTGAATCAGCGCATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CATC--TAAGTCCAATATCGCT
* *
13623 GGCCTTGAATCAGCATATTGGCATCTTTATTTT
58 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
13656 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
13695 CCTTCATCTT
Statistics
Matches: 638, Mismatches: 46, Indels: 26
0.90 0.06 0.04
Matches are distributed among these distances:
88 201 0.32
92 163 0.26
96 1 0.00
98 81 0.13
99 3 0.00
100 2 0.00
101 187 0.29
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (90 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTAAGTCCAATATCGCTGGCCTTGA
ATCAGCATATTGGCACCTTTATCTT
Found at i:13493 original size:101 final size:100
Alignment explanation
Indices: 13128--13892 Score: 897
Period size: 101 Copynumber: 7.8 Consensus size: 100
13118 CGGCACAAGC
* * * * ** *
13128 CCAATATTGCTGGTCTTGAATTAGCATATTGGCAAC-TTT-ATCTTTAAAACCAATGTCACTGGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTCCAATGTCGCTGGC
13191 CTTGAATCAGCACATTGGCA----C--CTTTAAGT
66 CTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * ** *
13220 CCAATATCGCTTGCCTTGAATCAGCATATTGGCACC-TTT-GTCTTTAAGAGCAATGTCCCTGGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTCCAATGTCGCTGGC
13283 CTTGAATCAGCACATTGGCA----C--CTTTAAGT
66 CTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
13312 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TTCATCTTTAAGTCCAATGTCACTGGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTCCAATGTCGCTGGC
13375 CTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
66 CTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
13410 CCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCATCTTTAAGTCCAATGTCGCTGG
* *
13475 CCTTGAATCAACGCATTGGCACCTTCATCTTTAAGT
65 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
13511 CCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCATCTTTAAGTCCAATGTCGCTGG
*
13576 CCTTGAATCAGCGCATTGGCACCTTCATCTTTAAGT
65 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
13612 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-TTT-ATTTTTAAGTCCAATGTCGCTGGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTCCAATGTCGCTGGC
*
13675 CTTGAATCAGCACATTGGCACCTTCATCTTTAAGA
66 CTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * * * *** * * * *
13710 CCGATGTCGTTGGCCTTGAATCAGTACATCGGCACCTCAACCATTTTTAAGCCCAATATTGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-TTTCATCTTTAAGTCCAATGTCGCTGG
* *
13775 CCTTGAATCAGCATATTGGCA-CGTCATCTTTAAGT
65 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * * * ** * * *
13810 CTAATGTCGCTGACCGTGAATCAGCACATTGGTATTTTTCTCATCTTCAAGTCTAATGTCGCTGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCATCTTTAAGTCCAATGTCGCTGG
*
13875 CCATGAATCAGCACATTG
65 CCTTGAATCAGCACATTG
13893 ACATCCTTTT
Statistics
Matches: 593, Mismatches: 66, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
91 2 0.00
92 158 0.27
96 1 0.00
98 127 0.21
99 1 0.00
100 75 0.13
101 229 0.39
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (100 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTCCAATGTCGCTGGC
CTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:13604 original size:150 final size:148
Alignment explanation
Indices: 13136--13892 Score: 819
Period size: 150 Copynumber: 5.2 Consensus size: 148
13126 GCCCAATATT
* * * * * ** * *
13136 GCTGGTCTTGAATTAGCATATTGGCAACTTTATCTTTAAAACCAATGTCACTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* * * *
13201 CACATTGGCA---C--CTTTAAGTCCAATATCGCTTGCCTTGAATCAGCATATTGGCACC-TTT-
66 CATATTGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTC
* **
13259 GTCTTTAAGAGCAATGTC
131 ATCTTTAAGTCCAATGTC
*
13277 CCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
*
13336 CATATTGGCACCTTCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACC--TT
66 CATATTGGCA-CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTT
*
13399 CATCTTTAAGTCCAATATC
130 CATCTTTAAGTCCAATGTC
* * * *
13418 GCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAAT
1 GCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
* ** * * * *
13483 CAACGCATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCT
63 CAGCATATTGGCA-CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT
13548 TTGTCATCTTTAAGTCCAATGTC
127 TT-TCATCTTTAAGTCCAATGTC
*
13571 GCTGGCCTTGAATCAGCGCATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* *
13636 CATATTGGCATCTTTATTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--TT
66 CATATTGGCA-CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTT
* *
13699 CATCTTTAAGACCGATGTC
130 CATCTTTAAGTCCAATGTC
* * * * * * *
13718 GTTGGCCTTGAATCAGTACATCGGCACCTCAACCATTTTTAAGCCCAATATTGCTGGCCTTGAAT
1 GCTGGCCTTGAATCAGCACATTGGCACCT---TCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
* * * * * **
13783 CAGCATATTGGCACGTCATCTTTAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGGTATTTT
63 CAGCATATTGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
13848 TCTCATCTTCAAGTCTAATGTC
128 T-TCATCTTTAAGTCCAATGTC
* *
13870 GCTGACCATGAATCAGCACATTG
1 GCTGGCCTTGAATCAGCACATTG
13893 ACATCCTTTT
Statistics
Matches: 516, Mismatches: 75, Indels: 39
0.82 0.12 0.06
Matches are distributed among these distances:
135 37 0.07
139 1 0.00
140 2 0.00
141 98 0.19
147 43 0.08
148 2 0.00
149 41 0.08
150 212 0.41
151 2 0.00
152 35 0.07
153 43 0.08
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (148 bp):
GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
CATATTGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTC
ATCTTTAAGTCCAATGTC
Found at i:13909 original size:52 final size:52
Alignment explanation
Indices: 13798--13896 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
13788 TATTGGCACG
* * **
13798 TCATCTTTAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGGTATTTTTC
1 TCATCTTCAAGTCTAATGTCGCTGACCATGAATCAGCACATTGACATTTTTC
13850 TCATCTTCAAGTCTAATGTCGCTGACCATGAATCAGCACATTGACAT
1 TCATCTTCAAGTCTAATGTCGCTGACCATGAATCAGCACATTGACAT
13897 CCTTTTTCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (52 bp):
TCATCTTCAAGTCTAATGTCGCTGACCATGAATCAGCACATTGACATTTTTC
Found at i:14707 original size:33 final size:33
Alignment explanation
Indices: 14664--14729 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
14654 GCCAAGGAAA
14664 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
* *
14697 TGTATTGATACATTGATCTATGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
14730 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:14726 original size:20 final size:20
Alignment explanation
Indices: 14663--14729 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 20
14653 TGCCAAGGAA
*
14663 ATGTATCGATACATT-ACTCA
1 ATGTATCGATACATTGA-TCT
14683 ATGTATCGATACATTG---T
1 ATGTATCGATACATTGATCT
14700 A--T-T-GATACATTGATCT
1 ATGTATCGATACATTGATCT
14716 ATGTATCGATACAT
1 ATGTATCGATACAT
14730 CTGGGAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 16
0.69 0.02 0.29
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
15 1 0.03
16 2 0.05
17 1 0.03
18 1 0.03
19 1 0.03
20 22 0.58
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTGATCT
Found at i:21858 original size:13 final size:12
Alignment explanation
Indices: 21840--21882 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
21830 GCAAACTTAA
*
21840 AAAAAACAACACG
1 AAAAAACAA-AAG
21853 AAAAAACAAAAG
1 AAAAAACAAAAG
21865 AACAAAACAAAA-
1 AA-AAAACAAAAG
21877 AAAAAA
1 AAAAAA
21883 AATACACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 4 0.14
12 6 0.21
13 18 0.64
ACGTcount: A:0.81, C:0.14, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAAAACAAAAG
Found at i:21868 original size:21 final size:21
Alignment explanation
Indices: 21838--21884 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
21828 GTGCAAACTT
* *
21838 AAAAAAAACAACACGAAAAAA
1 AAAAAAAACAAAACAAAAAAA
* *
21859 CAAAAGAACAAAACAAAAAAA
1 AAAAAAAACAAAACAAAAAAA
21880 AAAAA
1 AAAAA
21885 TACACACAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.83, C:0.13, G:0.04, T:0.00
Consensus pattern (21 bp):
AAAAAAAACAAAACAAAAAAA
Done.