Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold168
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1096678
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.29
Warning! 140106 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:5121 original size:2 final size:2
Alignment explanation
Indices: 5104--5209 Score: 91
Period size: 2 Copynumber: 56.0 Consensus size: 2
5094 CACTACCCTG
*
5104 TA TA TA T- TA TA GA TA TA TA CTA -A TA -A TA -A TA -A TA -A TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * *
5141 TA TA TA TA TA TA TA TA TA TC TA TA TC TA TA TC TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
5183 TC TA TA TA TA TA T- TA AA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5210 GACGCTAAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
1 7 0.09
2 73 0.89
3 2 0.02
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (2 bp):
TA
Found at i:8624 original size:21 final size:19
Alignment explanation
Indices: 8576--8620 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
8566 AGTCATTAAT
* *
8576 AGAGAGAAAGAGAGAGATG
1 AGAGAGAAAGAAAAAGATG
*
8595 AGAGAGAAAGAAAAAGATA
1 AGAGAGAAAGAAAAAGATG
8614 AGAGAGA
1 AGAGAGA
8621 GAAAAGGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.04
Consensus pattern (19 bp):
AGAGAGAAAGAAAAAGATG
Found at i:21192 original size:2 final size:2
Alignment explanation
Indices: 21185--21262 Score: 138
Period size: 2 Copynumber: 39.0 Consensus size: 2
21175 TTAAAAGCAT
* *
21185 GA GA GA GA AA GG GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
21227 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
21263 TTTTCAGTCT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:22332 original size:29 final size:29
Alignment explanation
Indices: 22290--22355 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
22280 TCTTTGTACG
*
22290 AGTTAACTTGACACCAATGACTGCGAACC
1 AGTTTACTTGACACCAATGACTGCGAACC
22319 AGTTTACTTGACACCAATGACTGCGAACC
1 AGTTTACTTGACACCAATGACTGCGAACC
22348 AGTTTACT
1 AGTTTACT
22356 AATTTGGACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (29 bp):
AGTTTACTTGACACCAATGACTGCGAACC
Found at i:26125 original size:28 final size:28
Alignment explanation
Indices: 26080--26134 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
26070 TTTTGAATCG
26080 GATAAAAACGAAATTTTAAC-AAAAAACA
1 GATAAAAACGAAATTTT-ACGAAAAAACA
26108 GATAAAAACGGAAA-TTTACGAAAAAAC
1 GATAAAAAC-GAAATTTTACGAAAAAAC
26135 TCGAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 2 0.08
28 19 0.76
29 4 0.16
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.16
Consensus pattern (28 bp):
GATAAAAACGAAATTTTACGAAAAAACA
Found at i:32578 original size:16 final size:16
Alignment explanation
Indices: 32557--32588 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32547 TTTAATGACA
*
32557 TTCAGGTCTTTCGTAT
1 TTCAGGTCTTTAGTAT
32573 TTCAGGTCTTTAGTAT
1 TTCAGGTCTTTAGTAT
32589 GTCCCGCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (16 bp):
TTCAGGTCTTTAGTAT
Found at i:36539 original size:21 final size:21
Alignment explanation
Indices: 36509--36576 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
36499 AACGAACCGT
*
36509 ACCGTTCCGTGCA-AGAAACGA
1 ACCGTACCGTGCACA-AAACGA
*
36530 ACCGTACCGTTCACAAAACGA
1 ACCGTACCGTGCACAAAACGA
* * * *
36551 AACGTACCGTTCACAAAGCGT
1 ACCGTACCGTGCACAAAACGA
36572 ACCGT
1 ACCGT
36577 NGAAACATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (21 bp):
ACCGTACCGTGCACAAAACGA
Found at i:38019 original size:12 final size:12
Alignment explanation
Indices: 38002--38027 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37992 TGAAAAGTTT
38002 ACAGACAGACGG
1 ACAGACAGACGG
38014 ACAGACAGACGG
1 ACAGACAGACGG
38026 AC
1 AC
38028 GAAAGACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.27, G:0.31, T:0.00
Consensus pattern (12 bp):
ACAGACAGACGG
Found at i:42801 original size:4 final size:4
Alignment explanation
Indices: 42792--42978 Score: 286
Period size: 4 Copynumber: 46.8 Consensus size: 4
42782 TCTATCAATT
*
42792 GATA GATA GATA GATA GATA GATA GATA GAAA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * *
42840 GATA GATA GATA GATA GATA GATA GATA GATA GATA GACA GACA GACA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * *
42888 GACA GATA GACA GACA GACA GACT- GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GA-TA GATA GATA GATA GATA GATA GATA
42936 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GAT
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GAT
42979 TTTTTCCTTA
Statistics
Matches: 175, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
3 1 0.01
4 174 0.99
ACGTcount: A:0.50, C:0.04, G:0.25, T:0.21
Consensus pattern (4 bp):
GATA
Found at i:50308 original size:2 final size:2
Alignment explanation
Indices: 50301--50357 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
50291 GTTGCACTTT
50301 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
50343 AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG A
50358 CTGTATGTGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:51542 original size:22 final size:22
Alignment explanation
Indices: 51493--51542 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
51483 ACTATCGCTT
51493 TTTCGCCTTTGCAACTTCGCAC
1 TTTCGCCTTTGCAACTTCGCAC
* *
51515 TCTCGCCTTTG-AATCTTCGCGC
1 TTTCGCCTTTGCAA-CTTCGCAC
51537 TTTCGC
1 TTTCGC
51543 TTTTTTAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.10, C:0.36, G:0.16, T:0.38
Consensus pattern (22 bp):
TTTCGCCTTTGCAACTTCGCAC
Found at i:52987 original size:16 final size:16
Alignment explanation
Indices: 52966--53000 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
52956 TAAAGGTGGT
*
52966 CTCATAAAGTTGATGC
1 CTCATAAAGGTGATGC
52982 CTCATAAAGGTGATGC
1 CTCATAAAGGTGATGC
52998 CTC
1 CTC
53001 GTGTGCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (16 bp):
CTCATAAAGGTGATGC
Found at i:54177 original size:14 final size:14
Alignment explanation
Indices: 54155--54186 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
54145 GGAGCGATAG
*
54155 CTTCGCCTTCGCAC
1 CTTCACCTTCGCAC
54169 CTTCACCTTCGCAC
1 CTTCACCTTCGCAC
54183 CTTC
1 CTTC
54187 GCACTTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.50, G:0.09, T:0.31
Consensus pattern (14 bp):
CTTCACCTTCGCAC
Found at i:55176 original size:32 final size:32
Alignment explanation
Indices: 55138--55230 Score: 141
Period size: 32 Copynumber: 2.9 Consensus size: 32
55128 TCAGGCAAAA
55138 GGGTCATTTTTCTACGTAGAATAATGACCGGG
1 GGGTCATTTTTCTACGTAGAATAATGACCGGG
* *
55170 TGGTCATTTTTCTGCGTAGAATAATGACCGGG
1 GGGTCATTTTTCTACGTAGAATAATGACCGGG
* * *
55202 GGGTCATTATTCTACGTCGAAAAATGACC
1 GGGTCATTTTTCTACGTAGAATAATGACC
55231 CCCGGTCATT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (32 bp):
GGGTCATTTTTCTACGTAGAATAATGACCGGG
Found at i:56359 original size:16 final size:16
Alignment explanation
Indices: 56338--56371 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
56328 ATTTCCACTA
56338 GTTTGATGTATAAAAC
1 GTTTGATGTATAAAAC
56354 GTTTGATGTATAAAAC
1 GTTTGATGTATAAAAC
56370 GT
1 GT
56372 GTTGCTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (16 bp):
GTTTGATGTATAAAAC
Found at i:62808 original size:89 final size:89
Alignment explanation
Indices: 62657--62822 Score: 289
Period size: 89 Copynumber: 1.9 Consensus size: 89
62647 AATTATCCAT
*
62657 ATGCCCCAGTCACACATTCACAGATCAACTCCACGGTTCTACTACGGAATATTTTCCACGGTTGA
1 ATGCCCCAGTCACACATTCACAGATCAACACCACGGTTCTACTACGGAATATTTTCCACGGTTGA
62722 CACCGGAAAATCAAATAATCGTTA
66 CACCGGAAAATCAAATAATCGTTA
* *
62746 ATGCCCCAGTCACATATTCACAGATCAACACCTA-GGTTCTACTGCGGAATATTTTCCACGGTTG
1 ATGCCCCAGTCACACATTCACAGATCAACACC-ACGGTTCTACTACGGAATATTTTCCACGGTTG
62810 ACACCGGAAAATC
65 ACACCGGAAAATC
62823 TAATGATACG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
89 72 0.99
90 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (89 bp):
ATGCCCCAGTCACACATTCACAGATCAACACCACGGTTCTACTACGGAATATTTTCCACGGTTGA
CACCGGAAAATCAAATAATCGTTA
Found at i:74533 original size:16 final size:16
Alignment explanation
Indices: 74512--74542 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74502 AAAAAAGTTT
*
74512 ACAGACGGACGGACGG
1 ACAGACAGACGGACGG
74528 ACAGACAGACGGACG
1 ACAGACAGACGGACG
74543 ACGGACAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.39, T:0.00
Consensus pattern (16 bp):
ACAGACAGACGGACGG
Found at i:78649 original size:31 final size:31
Alignment explanation
Indices: 78614--78677 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
78604 CGCCATTGGT
78614 TTTTTTAAATCAACAAGTGACATCTTACCAA
1 TTTTTTAAATCAACAAGTGACATCTTACCAA
* *
78645 TTTTTTTAATCAACAAGTGCCATCTTACCAA
1 TTTTTTAAATCAACAAGTGACATCTTACCAA
78676 TT
1 TT
78678 CAAAATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.39
Consensus pattern (31 bp):
TTTTTTAAATCAACAAGTGACATCTTACCAA
Found at i:84565 original size:177 final size:176
Alignment explanation
Indices: 84269--84622 Score: 699
Period size: 177 Copynumber: 2.0 Consensus size: 176
84259 AACGTTGTTT
84269 ATTTCTTAATAAATCATGATTTTTTTAAGTATACACTCTCATAACTGCAGCAGTGTGTGCACACA
1 ATTTCTTAATAAATCATGATTTTTTTAAGTATACACTCTCATAACTGCAGCAGTGTGTGCACACA
84334 AATTGTATATAGTATATGTTCTACGTTGTGTTGCGTTGTGTTGCTATAGACAATAAACACCGACT
66 AATTGTATATAGTATATGTTCTACGTTGTGTTGCGTTGTGTTGCTATAGACAATAAACACCGACT
84399 AATGAAAACCGGTAACACGGTCGAAATATTTTGAAAGAGTGTTTTA
131 AATGAAAACCGGTAACACGGTCGAAATATTTTGAAAGAGTGTTTTA
84445 NATTTCTTAATAAATCATGATTTTTTTAAGTATACACTCTCATAACTGCAGCAGTGTGTGCACAC
1 -ATTTCTTAATAAATCATGATTTTTTTAAGTATACACTCTCATAACTGCAGCAGTGTGTGCACAC
84510 AAATTGTATATAGTATATGTTCTACGTTGTGTTGCGTTGTGTTGCTATAGACAATAAACACCGAC
65 AAATTGTATATAGTATATGTTCTACGTTGTGTTGCGTTGTGTTGCTATAGACAATAAACACCGAC
84575 TAATGAAAACCGGTAACACGGTCGAAATATTTTGAAAGAGTGTTTTA
130 TAATGAAAACCGGTAACACGGTCGAAATATTTTGAAAGAGTGTTTTA
84622 A
1 A
84623 AGTCTTTTAT
Statistics
Matches: 177, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
176 1 0.01
177 176 0.99
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (176 bp):
ATTTCTTAATAAATCATGATTTTTTTAAGTATACACTCTCATAACTGCAGCAGTGTGTGCACACA
AATTGTATATAGTATATGTTCTACGTTGTGTTGCGTTGTGTTGCTATAGACAATAAACACCGACT
AATGAAAACCGGTAACACGGTCGAAATATTTTGAAAGAGTGTTTTA
Found at i:103433 original size:23 final size:24
Alignment explanation
Indices: 103403--103449 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
103393 CGAGATCGCA
*
103403 GAAACTTTAAGTGATCA-AGACAT
1 GAAACTTTAACTGATCATAGACAT
*
103426 GAAACTTTCACTGATCATAGACAT
1 GAAACTTTAACTGATCATAGACAT
103450 TTGACTGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (24 bp):
GAAACTTTAACTGATCATAGACAT
Found at i:128553 original size:11 final size:11
Alignment explanation
Indices: 128521--128553 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
128511 TTTTGTCAGC
*
128521 AGTGATTCACC
1 AGTGATTCACA
128532 AGTGATTCACA
1 AGTGATTCACA
128543 AGTGATTCACA
1 AGTGATTCACA
128554 CTTCAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (11 bp):
AGTGATTCACA
Found at i:136166 original size:19 final size:19
Alignment explanation
Indices: 136123--136166 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
136113 TTTAGTTTGT
** *
136123 AACAAAAAAAAAGGAAATA
1 AACAAAAAAAAACCAAAAA
*
136142 ACCAAAAAAAAACCAAAAA
1 AACAAAAAAAAACCAAAAA
136161 AACAAA
1 AACAAA
136167 CGGAGATGCT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.80, C:0.14, G:0.05, T:0.02
Consensus pattern (19 bp):
AACAAAAAAAAACCAAAAA
Found at i:138364 original size:200 final size:200
Alignment explanation
Indices: 138021--138422 Score: 804
Period size: 200 Copynumber: 2.0 Consensus size: 200
138011 AGTGAAGACA
138021 TTTGCTTCACAAGTCCACCCTCATCACTATTTCCATGGTTGAGTTTTAGAGCTCATTGTGGTGTG
1 TTTGCTTCACAAGTCCACCCTCATCACTATTTCCATGGTTGAGTTTTAGAGCTCATTGTGGTGTG
138086 GCATGGTTTTGAAACAATGTCTTTCCAGATCCACCCATGTATTATTACATCATACTCTTTGACCA
66 GCATGGTTTTGAAACAATGTCTTTCCAGATCCACCCATGTATTATTACATCATACTCTTTGACCA
138151 TTGTCATAACGCGTCATCTGCGTCATCTATCCTTTACTTCATTAATCCGTTAACCCTCTCTCTCT
131 TTGTCATAACGCGTCATCTGCGTCATCTATCCTTTACTTCATTAATCCGTTAACCCTCTCTCTCT
138216 CTCTC
196 CTCTC
138221 TTTGCTTCACAAGTCCACCCTCATCACTATTTCCATGGTTGAGTTTTAGAGCTCATTGTGGTGTG
1 TTTGCTTCACAAGTCCACCCTCATCACTATTTCCATGGTTGAGTTTTAGAGCTCATTGTGGTGTG
138286 GCATGGTTTTGAAACAATGTCTTTCCAGATCCACCCATGTATTATTACATCATACTCTTTGACCA
66 GCATGGTTTTGAAACAATGTCTTTCCAGATCCACCCATGTATTATTACATCATACTCTTTGACCA
138351 TTGTCATAACGCGTCATCTGCGTCATCTATCCTTTACTTCATTAATCCGTTAACCCTCTCTCTCT
131 TTGTCATAACGCGTCATCTGCGTCATCTATCCTTTACTTCATTAATCCGTTAACCCTCTCTCTCT
138416 CTCTC
196 CTCTC
138421 TT
1 TT
138423 CTCTCTCTCT
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 202 1.00
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.38
Consensus pattern (200 bp):
TTTGCTTCACAAGTCCACCCTCATCACTATTTCCATGGTTGAGTTTTAGAGCTCATTGTGGTGTG
GCATGGTTTTGAAACAATGTCTTTCCAGATCCACCCATGTATTATTACATCATACTCTTTGACCA
TTGTCATAACGCGTCATCTGCGTCATCTATCCTTTACTTCATTAATCCGTTAACCCTCTCTCTCT
CTCTC
Found at i:138413 original size:2 final size:2
Alignment explanation
Indices: 138406--138455 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
138396 TCCGTTAACC
138406 CT CT CT CT CT CT CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
138447 CT CT CT CT C
1 CT CT CT CT C
138456 ATTCAAGTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:145972 original size:25 final size:25
Alignment explanation
Indices: 145938--145987 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
145928 GACTAAATTC
145938 TAATATCTATAACACAGTTTGAATG
1 TAATATCTATAACACAGTTTGAATG
**
145963 TAATATCTATAATGCAGTTTGAATG
1 TAATATCTATAACACAGTTTGAATG
145988 AGTTTATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (25 bp):
TAATATCTATAACACAGTTTGAATG
Found at i:148787 original size:20 final size:20
Alignment explanation
Indices: 148762--148802 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
148752 ATCCATACTG
148762 TATTAACAATGTTTACATGT
1 TATTAACAATGTTTACATGT
148782 TATTAACAATGTTTACATGT
1 TATTAACAATGTTTACATGT
148802 T
1 T
148803 TACTCACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
TATTAACAATGTTTACATGT
Found at i:153684 original size:20 final size:21
Alignment explanation
Indices: 153659--153698 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
153649 AATTAGATTC
*
153659 TATGAGATTGT-ATGCTATGA
1 TATGAGATTCTAATGCTATGA
153679 TATGAGATTCTAATGCTATG
1 TATGAGATTCTAATGCTATG
153699 GTGTATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (21 bp):
TATGAGATTCTAATGCTATGA
Found at i:157214 original size:338 final size:333
Alignment explanation
Indices: 156587--157257 Score: 1270
Period size: 338 Copynumber: 2.0 Consensus size: 333
156577 TAAAAGTATA
156587 GATGCTATATTATAAAATTGCTTCATGACATTTTCATATCACATCCTATTATTAGTCTGATGATG
1 GATGCTATATTATAAAATTGCTTCATGACATTTTCATATCACATCCTATTATTAGTCTGATGATG
*
156652 TTGTATTAGCTCGAGTTCCACTTGGTTGAAACCTGATATTCAGCGACACACACACAAATATATTT
66 TTGTATTAGCTCGAGTTCCACTTGGTTGAAACCTGATATTCAGCGACACACACACAAATATATTG
156717 TATATATAATATTGTCAAAAATGTACAGAATAGAGTGGCAAAAGTTATGGATTATACATGTTCAC
131 TATATATAATATTGTCAAAAATGTACAGAATAGAGTGGCAAAAGTTATGGATTATACATGTTCAC
*
156782 TATACTGTGGTATCATTTTTATCCGTGGGGGTCAAAATTCGTGGGTAGCCTATTTTGTCCTGGTT
196 TATACTGTGGTATCATTTTCATCCGTGGGGGTCAAAATTCGTGGGTAGCCTATTTTGTCCTGGTT
156847 TGTGGGGACGTAATTATGTCCACATTGACACCGCCCTAAGGCCTTAACCCTTTGACACAAGGACA
261 TGTGGGGACGTAATTATGTCCACATTGACACCGCCCTAAGGCCTTAACCCTTTGACACAAGGACA
156912 ATTAATAT
326 ATTAATAT
156920 NGATGCTATATTATAAAATTGCTTCATGACATTTTCATATCACATCCTATTATTAGTCTGATGAT
1 -GATGCTATATTATAAAATTGCTTCATGACATTTTCATATCACATCCTATTATTAGTCTGATGAT
156985 GTTGTATTAGCTCGAGTTCCACTTGGTTGAAACCTGATATTCAGCGACACACACACACAAATATA
65 GTTGTATTAGCTCGAGTTCCACTTGGTTGAAACCTGATATTCAGCG--ACACACACACAAATATA
157050 TTGTATATATAATATTGTCAAAAATGTACAGAATAGAGTGGCAAAAGATATATGGATTATACATG
128 TTGTATATATAATATTGTCAAAAATGTACAGAATAGAGTGGCAAAAG-T-TATGGATTATACATG
157115 TTCACTATACTGTGGTATCATTTTCATCCGTGGGGGTCAAAATTCGTGGGTAGCCTATTTTGTCC
191 TTCACTATACTGTGGTATCATTTTCATCCGTGGGGGTCAAAATTCGTGGGTAGCCTATTTTGTCC
*
157180 TGGTTTGTGGGGACGTAATTATGTCCATATTGACACCGCCCTAAGGCCTTAACCCTTTGACACAA
256 TGGTTTGTGGGGACGTAATTATGTCCACATTGACACCGCCCTAAGGCCTTAACCCTTTGACACAA
157245 GGACAATTAATAT
321 GGACAATTAATAT
157258 CACAATTTTA
Statistics
Matches: 330, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
334 110 0.33
336 63 0.19
337 1 0.00
338 156 0.47
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (333 bp):
GATGCTATATTATAAAATTGCTTCATGACATTTTCATATCACATCCTATTATTAGTCTGATGATG
TTGTATTAGCTCGAGTTCCACTTGGTTGAAACCTGATATTCAGCGACACACACACAAATATATTG
TATATATAATATTGTCAAAAATGTACAGAATAGAGTGGCAAAAGTTATGGATTATACATGTTCAC
TATACTGTGGTATCATTTTCATCCGTGGGGGTCAAAATTCGTGGGTAGCCTATTTTGTCCTGGTT
TGTGGGGACGTAATTATGTCCACATTGACACCGCCCTAAGGCCTTAACCCTTTGACACAAGGACA
ATTAATAT
Found at i:160539 original size:18 final size:18
Alignment explanation
Indices: 160513--160549 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
160503 TTTTTAAAGT
*
160513 ATATCCTGTTTCATAGTA
1 ATATACTGTTTCATAGTA
*
160531 ATATACTGTTTCATTGTA
1 ATATACTGTTTCATAGTA
160549 A
1 A
160550 AGACCAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
ATATACTGTTTCATAGTA
Found at i:170135 original size:16 final size:16
Alignment explanation
Indices: 170114--170146 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
170104 ATGCCATACT
170114 TTGGAATCTATTTTTG
1 TTGGAATCTATTTTTG
*
170130 TTGGAATTTATTTTTG
1 TTGGAATCTATTTTTG
170146 T
1 T
170147 ACCAATTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.18, T:0.61
Consensus pattern (16 bp):
TTGGAATCTATTTTTG
Found at i:177426 original size:16 final size:16
Alignment explanation
Indices: 177401--177437 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
177391 TACAGTCAAG
177401 TCGTACACAGACCAAC
1 TCGTACACAGACCAAC
* *
177417 TCGTAGACAGATCAAC
1 TCGTACACAGACCAAC
177433 TCGTA
1 TCGTA
177438 TACAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.19
Consensus pattern (16 bp):
TCGTACACAGACCAAC
Found at i:177483 original size:40 final size:40
Alignment explanation
Indices: 177427--177540 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 40
177417 TCGTAGACAG
*
177427 ATCAACTCGTATACAAAATTTTCCGCATAAAAAAACCAAA
1 ATCAACTCGTATACAAAAATTTCCGCATAAAAAAACCAAA
* * * *
177467 GTCAACTCGTATACAAAAATGTCCGCATAAAATACCCAAA
1 ATCAACTCGTATACAAAAATTTCCGCATAAAAAAACCAAA
* * *
177507 ATCAACTCGAATACAAAAAATTCCGCATATAAAA
1 ATCAACTCGTATACAAAAATTTCCGCATAAAAAA
177541 TAGGTATGCT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.49, C:0.23, G:0.07, T:0.21
Consensus pattern (40 bp):
ATCAACTCGTATACAAAAATTTCCGCATAAAAAAACCAAA
Found at i:177604 original size:40 final size:40
Alignment explanation
Indices: 177544--177654 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 40
177534 TATAAAATAG
* * *
177544 GTATGCTAAACCGAAGGTCAACTCGTATAC-AGAAATTCAC
1 GTATACTAAA-CGAAAGTCAACTCGTATACAAAAAATTCAC
*
177584 GTATACTAAACGGAAAGTCAACTCGTATACAAAAAATTCCC
1 GTATACTAAAC-GAAAGTCAACTCGTATACAAAAAATTCAC
** * *
177625 GGGTACAAAATCGAAAGTCAAGTCGTATAC
1 GTATACTAAA-CGAAAGTCAACTCGTATAC
177655 CAGAGTCTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.02
40 26 0.43
41 32 0.53
42 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.22
Consensus pattern (40 bp):
GTATACTAAACGAAAGTCAACTCGTATACAAAAAATTCAC
Found at i:180280 original size:17 final size:17
Alignment explanation
Indices: 180258--180293 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
180248 TATTATGAAT
180258 TTTAATTGATGTAAGTC
1 TTTAATTGATGTAAGTC
*
180275 TTTAATTGTTGTAAGTC
1 TTTAATTGATGTAAGTC
180292 TT
1 TT
180294 AACTTGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.53
Consensus pattern (17 bp):
TTTAATTGATGTAAGTC
Found at i:180806 original size:75 final size:76
Alignment explanation
Indices: 180683--180858 Score: 277
Period size: 75 Copynumber: 2.3 Consensus size: 76
180673 GGTTGAGTCA
* *
180683 GGCTCTGTTGGGGTTGAGTCAGGCTCTGGTTGTTCGTCAATCTCAGTCTCTGATGATTCCATCTC
1 GGCTCTGTTGGGGTTGAGTCAGGCTCTGGTTGTTCATCAATCCCAGTCTCTGATGATTCCATCTC
*
180748 CAAAGGCGT-T
66 CAAAAGCGTAT
180758 GGCTCTGTTGGGGTTGAGTCAGGCTCTGGTTGTTCATC-ATCCCCAGTCTCTGATGATTCCATCT
1 GGCTCTGTTGGGGTTGAGTCAGGCTCTGGTTGTTCATCAAT-CCCAGTCTCTGATGATTCCATCT
180822 CCAAAAGCGTAT
65 CCAAAAGCGTAT
* *
180834 -CCTCTGCTGGGGTTGAGTCAGGCTC
1 GGCTCTGTTGGGGTTGAGTCAGGCTC
180859 CATTGGTATA
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
74 2 0.02
75 91 0.97
76 1 0.01
ACGTcount: A:0.15, C:0.24, G:0.28, T:0.33
Consensus pattern (76 bp):
GGCTCTGTTGGGGTTGAGTCAGGCTCTGGTTGTTCATCAATCCCAGTCTCTGATGATTCCATCTC
CAAAAGCGTAT
Found at i:183740 original size:20 final size:22
Alignment explanation
Indices: 183707--183750 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
183697 ACGAGTTGAC
183707 TTCGTTTTTCTATGCGGA-AAT
1 TTCGTTTTTCTATGCGGACAAT
183728 TTCGTTTTT-TATGCGGACAAT
1 TTCGTTTTTCTATGCGGACAAT
183749 TT
1 TT
183751 TGTATACGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (22 bp):
TTCGTTTTTCTATGCGGACAAT
Found at i:183776 original size:16 final size:16
Alignment explanation
Indices: 183755--183798 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
183745 CAATTTTGTA
183755 TACGAGTTGACCTGTG
1 TACGAGTTGACCTGTG
**
183771 TACGAGTTGGTCTGTG
1 TACGAGTTGACCTGTG
*
183787 TACGACTTGACC
1 TACGAGTTGACC
183799 GGATACTAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (16 bp):
TACGAGTTGACCTGTG
Found at i:206451 original size:167 final size:169
Alignment explanation
Indices: 205925--206451 Score: 550
Period size: 167 Copynumber: 3.1 Consensus size: 169
205915 AATATAGAAG
* * * *
205925 TTAAAAGATCTTCTTCTCTACTCC-CATATATATATTTGTTTAAGACTAAATGCATGAATG-TGA
1 TTAAAA-ATCTTCTTTTCTACTCCATATATATATATTTGTTAAAAACTAAATGCATG-ATGATGA
* * ** * * * *
205988 TGCCCATGAAGCCCTCTTCCAAAATTATGAAGTTCATGACCCTGTATCAGGGGTTCAGGCTCTAG
64 TGTCCATGAAGCCATCAACCGAAATTGTGAAATTCATGACCCTGTGTCAGGGGTTCAGGCTCTAG
*
206053 GGTGGGGCCAATATGGCCATAAAGT-AAAATGTATTAAATC
129 GGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATC
*
206093 -TAAGGAAATCTTCTTATCTACTCCAATATATATATATATATTTGTTAAAAACTAAATGCATGAT
1 TTAA--AAATCTTCTTTTCTACTCC-----ATATATATATATTTGTTAAAAACTAAATGCATGAT
* ** * *** *
206157 GATGATGTCCATGAAGCCCTGTACCGAAATTGTGAAATTCATAACCCCAAAGTCAGGGCTTCAGG
59 GATGATGTCCATGAAGCCATCAACCGAAATTGTGAAATTCATGA-CCCTGTGTCAGGGGTTCAGG
* *
206222 CTCTAGGGTGGGGCCAATATAGCCATATAGTAAAAATGTATTAAATA
123 CTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATC
**
206269 TTAGGAAAA-CTTCTTTTCTACTCC-TAT-T-TATATTTGTTAAAAACTAAATGCATGATTTTGA
1 TTA--AAAATCTTCTTTTCTACTCCATATATATATATTTGTTAAAAACTAAATGCATGATGATGA
** * ** * *
206330 TGTTTATTAAG-CATCAACTTAAATTGTGAAATTCATGATCCCTGTGTCAGGGGTTCAGGTTCAA
64 TGTCCATGAAGCCATCAACCGAAATTGTGAAATTCATGA-CCCTGTGTCAGGGGTTCAGGCTCTA
* *
206394 AGGTGGGGCCAATATGGTCATATAGTAAAAATGTATTAAATC
128 GGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATC
206436 TTCAAAAATCTTCTTT
1 TT-AAAAATCTTCTTT
206452 ACCCCCACAC
Statistics
Matches: 301, Mismatches: 42, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
166 4 0.01
167 90 0.30
168 56 0.19
169 3 0.01
170 3 0.01
173 3 0.01
174 64 0.21
175 44 0.15
176 28 0.09
177 5 0.02
179 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (169 bp):
TTAAAAATCTTCTTTTCTACTCCATATATATATATTTGTTAAAAACTAAATGCATGATGATGATG
TCCATGAAGCCATCAACCGAAATTGTGAAATTCATGACCCTGTGTCAGGGGTTCAGGCTCTAGGG
TGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATC
Found at i:210217 original size:13 final size:13
Alignment explanation
Indices: 210199--210224 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
210189 GTGCATTGAG
210199 GTTAATGTGCCAA
1 GTTAATGTGCCAA
210212 GTTAATGTGCCAA
1 GTTAATGTGCCAA
210225 ATGTCATAAT
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):
GTTAATGTGCCAA
Found at i:214101 original size:448 final size:439
Alignment explanation
Indices: 213061--214502 Score: 1729
Period size: 436 Copynumber: 3.3 Consensus size: 439
213051 TACGATCGAG
* * * * * * *
213061 AACTTTGCTTCTATAATGCTTTACAAAATCTTGATCGTTTTTAAGGTATTTGTAAGAGACTTTAC
1 AACTTTGCTTCTATAATGCATAACAATATCTTTATCGTTTTTAAGTTATTTGTAATAGAATTTAC
** * * * *
213126 GAGTCTCTTGGCCCCTAATTTAAAGGA-CCAGCCCCTTTCCCTAGAGTTCATTCAAAAGGT-TCC
66 GAGTCTCTTGGCCCCTAA-TTAAAGGAGCCAGCCCCTTTTTCTTGATTTCTTTGAAAAGGTCT-C
* * * * * * * *
213189 ACGATTACTAACATTTTTTGTTCTTACAACCATCTAAAAATGGTTGTTCATTTTTGAGATA-AAA
129 AAGAATACAAACATGTTTTGCTCTTACACCCATCTTAAATTGG-TGTTCATTTTTGAGATACAAA
* * * *
213253 TGATTGAATATTTTAGGGGTCAGTCCTC--TAGATCCTTAATGGGGACAGACATAT-GTGCTTCG
193 TGTTTGAATATTTTAGGGGCCAG-CCTCTGTAGATCCTT-ATGGGGACAGACAT-TGGTGTTTTG
* **
213315 ATTAA-TGGAATCGATTAT-AATCATCAATGCAAACATTA-TTTTCTTCTACAATG-CTTAACAA
255 A-TAAGTGGAATCGATT-TCAATCATAAATGCAAACATTATTTTTCTTCTATGATGTC-TAACAA
* * * * * ** *
213376 AATATATCTCCTTCTCTAGATAAATTGCGTCCAAGTTTAAGTACTTTGGCCGCTTTAAA-CCCAT
317 AATATGTCTCCTTTTCTAGATATATTGCGTCCAAGTTTATGTACTTTGGCCCCTAAAAATCCCTT
* * * * * * * * **
213440 ATTACGCAATGAATGGTCGTGGCCTTGATTTTTTCTGAGATATATTGTTACGATCAAC
382 ATTACGTAATAAAGGGGCGTGGCATTGATTTTTTCTGATAGATATTGGTATTATCAAC
* * * *
213498 AACTTTGCTTCTATAATGCATTAA-AA-ACCGTTATTGTTTTTAAGTTATATGTAATAGAATTTA
1 AACTTTGCTTCTATAATGCA-TAACAATATCTTTATCGTTTTTAAGTTATTTGTAATAGAATTTA
* * * * * *
213561 CGAGTCTCTTGGCCCCTAATTAAAGGGGCCAGCTCC-ATATCTTGATTTCTTTGAAACGGTCTTA
65 CGAGTCTCTTGGCCCCTAATTAAAGGAGCCAGCCCCTTTTTCTTGATTTCTTTGAAAAGGTCTCA
** *
213625 AGAATACAAGTATGTTTTGCTCTTACACCCATCTTAACTTGGTGTTCATTTTTGAGATACAAATG
130 AGAATACAAACATGTTTTGCTCTTACACCCATCTTAAATTGGTGTTCATTTTTGAGATACAAATG
*
213690 TTTGAATATTTTAGGGGCCAGCCATGTACATGTAGATCCTTATGGGGACAGAAATTGGTGTTTTG
195 TTTGAATATTTTAGGGGCCAGCC---T-C-TGTAGATCCTTATGGGGACAGACATTGGTGTTTTG
*
213755 ATAAGTGGAATCGATTTCAATCATAAATGCAAACATTTTTATTTTCTCTTCTGTGATGTCTAACA
255 ATAAGTGGAATCGATTTCAATCATAAATGCAAACA---TTATTTT-TCTTCTATGATGTCTAACA
*
213820 AAATATGTCTCCTTTTTTAGATATATTGCGTCCAAGTTTATGTACTTTGGCCCCTAAAAATCCCT
316 AAATATGTCTCCTTTTCTAGATATATTGCGTCCAAGTTTATGTACTTTGGCCCCTAAAAATCCCT
* *
213885 TATTGCGTAATAAAGGGGCGTGGCATTGATTTTTTTTGATAGATATTGGTATTATCAAC
381 TATTACGTAATAAAGGGGCGTGGCATTGATTTTTTCTGATAGATATTGGTATTATCAAC
* * *
213944 AACTTTGCTTCTATAATTG-ATAACAATATCTTTATCGTTTTTAAGTTATTTGTAAAATAATTAA
1 AACTTTGCTTCTATAA-TGCATAACAATATCTTTATCGTTTTTAAGTTATTTGTAATAGAATTTA
* *
214008 CGAGTCT-TTCGGCCCCTAATTAAAGGAGCCAGTCCCTTTTTCTTGATTTCTTTGAAAAGGTCTG
65 CGAGTCTCTT-GGCCCCTAATTAAAGGAGCCAGCCCCTTTTTCTTGATTTCTTTGAAAAGGTCTC
*
214072 AAGAATACAAACATGTTTTGCTCTTACACCCATCTTAAATTGTTGTTCATTTTTGAGATACAAAT
129 AAGAATACAAACATGTTTTGCTCTTACACCCATCTTAAATTGGTGTTCATTTTTGAGATACAAAT
* *
214137 GTTTGAATATTTTAGGGGCCAGCC-CTGTAGATCCCTAATGGGGACAGACATTGGTGTTTTGATG
194 GTTTGAATATTTTAGGGGCCAGCCTCTGTAGAT-CCTTATGGGGACAGACATTGGTGTTTTGATA
* *
214201 AGTGG-GTCGATTTCAATCATAAATGCAAACA-T-TTTTTCTTCTATGATGTCTATCAAAATATG
258 AGTGGAATCGATTTCAATCATAAATGCAAACATTATTTTTCTTCTATGATGTCTAACAAAATATG
*
214263 TCTCCTTTTCTAGATATATTGCGTCAAAGTTTATGTACTTTGGCCCCTAAAAATCCCTTATTACG
323 TCTCCTTTTCTAGATATATTGCGTCCAAGTTTATGTACTTTGGCCCCTAAAAATCCCTTATTACG
*** * *
214328 TAATAAAGGGGCAAAGCAATGATGTTTTCTGATAGATATTGGTATTATCAAC
388 TAATAAAGGGGCGTGGCATTGATTTTTTCTGATAGATATTGGTATTATCAAC
* *
214380 AACTTTGCTTCTATAATTG-ATAACAATATCTTTATCGTTTATAAGTTATTTGTAATAGAGTTTA
1 AACTTTGCTTCTATAA-TGCATAACAATATCTTTATCGTTTTTAAGTTATTTGTAATAGAATTTA
* * ** * * *
214444 CCAGTCTCTTGGTCCCTAAAAAAAGGGGCCAGCCCCTTTTTCTTGATTTCGTTGGAAAG
65 CGAGTCTCTTGGCCCCTAATTAAAGGAGCCAGCCCCTTTTTCTTGATTTCTTTGAAAAG
214503 AACTTATGAT
Statistics
Matches: 869, Mismatches: 108, Indels: 57
0.84 0.10 0.06
Matches are distributed among these distances:
434 19 0.02
435 79 0.09
436 295 0.34
437 28 0.03
438 4 0.00
439 5 0.01
440 47 0.05
441 9 0.01
442 32 0.04
443 37 0.04
444 3 0.00
445 69 0.08
446 72 0.08
447 62 0.07
448 108 0.12
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (439 bp):
AACTTTGCTTCTATAATGCATAACAATATCTTTATCGTTTTTAAGTTATTTGTAATAGAATTTAC
GAGTCTCTTGGCCCCTAATTAAAGGAGCCAGCCCCTTTTTCTTGATTTCTTTGAAAAGGTCTCAA
GAATACAAACATGTTTTGCTCTTACACCCATCTTAAATTGGTGTTCATTTTTGAGATACAAATGT
TTGAATATTTTAGGGGCCAGCCTCTGTAGATCCTTATGGGGACAGACATTGGTGTTTTGATAAGT
GGAATCGATTTCAATCATAAATGCAAACATTATTTTTCTTCTATGATGTCTAACAAAATATGTCT
CCTTTTCTAGATATATTGCGTCCAAGTTTATGTACTTTGGCCCCTAAAAATCCCTTATTACGTAA
TAAAGGGGCGTGGCATTGATTTTTTCTGATAGATATTGGTATTATCAAC
Found at i:218126 original size:8 final size:8
Alignment explanation
Indices: 218105--218146 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
218095 GATCACATTT
218105 TGTCCGTC
1 TGTCCGTC
218113 -GTCCGTC
1 TGTCCGTC
218120 TGTCCGTC
1 TGTCCGTC
*
218128 TGTCTGTC
1 TGTCCGTC
218136 TGTCCGTC
1 TGTCCGTC
218144 TGT
1 TGT
218147 AAACTTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 7 0.23
8 24 0.77
ACGTcount: A:0.00, C:0.33, G:0.26, T:0.40
Consensus pattern (8 bp):
TGTCCGTC
Found at i:234353 original size:38 final size:38
Alignment explanation
Indices: 234303--234726 Score: 742
Period size: 38 Copynumber: 11.2 Consensus size: 38
234293 CTGTGTATAT
*
234303 TTTTATAATGATACATAAAACCAATAGCCGACTAATGA
1 TTTTATAATGATACATAAAACCAATAACCGACTAATGA
*
234341 TTTTATAATGATACATAAAACCAATAACCTACTAATGA
1 TTTTATAATGATACATAAAACCAATAACCGACTAATGA
* *
234379 TTTTATAATGATACATATAACCAATAACTGACTAATGA
1 TTTTATAATGATACATAAAACCAATAACCGACTAATGA
*
234417 TTTTATAATGATACTTAAAACCAATAACCGACTAATGA
1 TTTTATAATGATACATAAAACCAATAACCGACTAATGA
*
234455 TATTATAATGATACATAAAACCAATAACCGACTAATGA
1 TTTTATAATGATACATAAAACCAATAACCGACTAATGA
234493 TTTTATAATGATACATAAAACCAATAACCGACTAATGA
1 TTTTATAATGATACATAAAACCAATAACCGACTAATGA
*
234531 TATTT-TAATGATACATATAACCAATAACCGACTAATGA
1 T-TTTATAATGATACATAAAACCAATAACCGACTAATGA
234569 TTTTATAATGATACATAAAACCAATAACCGACTAATGA
1 TTTTATAATGATACATAAAACCAATAACCGACTAATGA
*
234607 TTTTATAATGATACATATAACCAATAACCGACTAATGA
1 TTTTATAATGATACATAAAACCAATAACCGACTAATGA
*
234645 TTTTATAATGATACATCAAACCAATAACCGACTAATGA
1 TTTTATAATGATACATAAAACCAATAACCGACTAATGA
*
234683 TTTGATAATGATACATAAAACCAATAACCGACTAATGA
1 TTTTATAATGATACATAAAACCAATAACCGACTAATGA
234721 TTTTAT
1 TTTTAT
234727 CTCCTCTGTA
Statistics
Matches: 365, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
37 3 0.01
38 359 0.98
39 3 0.01
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.31
Consensus pattern (38 bp):
TTTTATAATGATACATAAAACCAATAACCGACTAATGA
Found at i:239433 original size:146 final size:146
Alignment explanation
Indices: 239120--239435 Score: 409
Period size: 146 Copynumber: 2.2 Consensus size: 146
239110 TGTCTGGCCA
* * *
239120 ATATCTTTCTTATCAAGAATCACTGGAAGTTCATACTTCACACAAATATTGTTATGACAAAAATA
1 ATATCTTTATTATCGAGAATCACTGGAAGTTCATACTTCACACAAAGATTGTTATGACAAAAATA
* * * * * **
239185 TGTGACATGACCTTTGACTCAAGGTCATTTGGTCATGATCAAGGTCACTGACAATATAAGTTCGT
66 AGTGACATGACCCTTGACTCAAGGTCATTTCGTCAAGATCAAGGTCACTGACAAAATAAGTTCAA
* *
239250 AATTTGTGTCAGGTGC
131 AATTTGAGTCAGGGGC
* * * * * * *
239266 ATATCTTTACTATGGAAAATCACTGGAAGTTCATACTTCACATAGAGATTGTTATTACCAAAATA
1 ATATCTTTATTATCGAGAATCACTGGAAGTTCATACTTCACACAAAGATTGTTATGACAAAAATA
* *
239331 AGTGACATGACCCTTGACTGAAGGTCATTTCTTACAAG-TCAAGGTCACTGACAAAATAAGTTCA
66 AGTGACATGACCCTTGACTCAAGGTCATTTCGT-CAAGATCAAGGTCACTGACAAAATAAGTTCA
239395 AAATTTGAGTCAGGGGC
130 AAATTTGAGTCAGGGGC
* *
239412 ATATCTTTGTTATTGAGAATCACT
1 ATATCTTTATTATCGAGAATCACT
239436 AGTAGATTGT
Statistics
Matches: 144, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
146 141 0.98
147 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (146 bp):
ATATCTTTATTATCGAGAATCACTGGAAGTTCATACTTCACACAAAGATTGTTATGACAAAAATA
AGTGACATGACCCTTGACTCAAGGTCATTTCGTCAAGATCAAGGTCACTGACAAAATAAGTTCAA
AATTTGAGTCAGGGGC
Found at i:241605 original size:37 final size:37
Alignment explanation
Indices: 241564--241642 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
241554 CATGGTGATA
*
241564 CTATACAGGAACACAGTGGGTTTACTATAGAGCCGGG
1 CTATACAGAAACACAGTGGGTTTACTATAGAGCCGGG
241601 CTATACAGAAACACAGTGGGTTTACTATAGAGCCGGG
1 CTATACAGAAACACAGTGGGTTTACTATAGAGCCGGG
241638 CTATA
1 CTATA
241643 GGTGTCACTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (37 bp):
CTATACAGAAACACAGTGGGTTTACTATAGAGCCGGG
Found at i:242235 original size:41 final size:42
Alignment explanation
Indices: 242192--242272 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 42
242182 ACATGTATAT
242192 ACATGTATATACTTAATAATTGTT-TATGTTTCTTTTTTCATA
1 ACATGTATATACTTAATAATT-TTATATGTTTCTTTTTTCATA
242234 CACATGTATATACTTAATAATTTTATATGTTTCTTTTTT
1 -ACATGTATATACTTAATAATTTTATATGTTTCTTTTTT
242273 TACGGTATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.28, C:0.10, G:0.06, T:0.56
Consensus pattern (42 bp):
ACATGTATATACTTAATAATTTTATATGTTTCTTTTTTCATA
Found at i:247198 original size:2 final size:2
Alignment explanation
Indices: 247191--247258 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
247181 NNNNNNNNNN
247191 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
247233 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
247259 ATTGAATTCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:252742 original size:15 final size:16
Alignment explanation
Indices: 252707--252744 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
252697 AGCTTCGCAA
*
252707 AACACAGGGTTGCGCC
1 AACACAGGGTTGCACC
*
252723 AACACAGGTTTGCACC
1 AACACAGGGTTGCACC
252739 -ACACAG
1 AACACAG
252745 TGTCGCTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.13
Consensus pattern (16 bp):
AACACAGGGTTGCACC
Found at i:262444 original size:1 final size:1
Alignment explanation
Indices: 262438--262463 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
262428 GAAACTGGAT
262438 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
262464 TAAATAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:263850 original size:28 final size:28
Alignment explanation
Indices: 263813--263870 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
263803 GAAATGAATA
*
263813 TTTTAGCAACATTTGATAAAGTTCTTTT
1 TTTTAGCAACATTTGATAAAGTTATTTT
*
263841 TTTTTGCAACATTTGATAAAGTTATTTT
1 TTTTAGCAACATTTGATAAAGTTATTTT
263869 TT
1 TT
263871 ATTGATCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.53
Consensus pattern (28 bp):
TTTTAGCAACATTTGATAAAGTTATTTT
Found at i:265503 original size:21 final size:21
Alignment explanation
Indices: 265477--265539 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
265467 GTAAAACGTA
265477 TGCAACGAATGCGAGAGCTCG
1 TGCAACGAATGCGAGAGCTCG
*
265498 TGCAACGGAA-GCGAGGGCTCG
1 TGCAAC-GAATGCGAGAGCTCG
*
265519 TGCAACGTATGCGAGAGCTCG
1 TGCAACGAATGCGAGAGCTCG
265540 GGCGAAGCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 2 0.05
21 32 0.86
22 3 0.08
ACGTcount: A:0.25, C:0.24, G:0.37, T:0.14
Consensus pattern (21 bp):
TGCAACGAATGCGAGAGCTCG
Found at i:269556 original size:68 final size:68
Alignment explanation
Indices: 269458--269651 Score: 178
Period size: 68 Copynumber: 2.9 Consensus size: 68
269448 TCATGTTTTG
* * ** *
269458 TATACTAGAT-TTTTGTTGGATACACATGCTGTATCTAATAAGTCTTATATTGGACACATATAG-
1 TATACTAGATCGTTTATTGGATACATTTGCTGTATATAATAAGTCTTATATTGGACACAT-TAGT
269521 TATA
65 TATA
* * ** * * *
269525 TATACTAGGTC-TTCTATTGGATACATTTGCTGTATATATTAACACTTATAATAGACACATTTGT
1 TATACTAGATCGTT-TATTGGATACATTTGCTGTATATAATAAGTCTTATATTGGACACATTAGT
*
269589 TGTA
65 TATA
* * * * * *
269593 TATACTAGATCGTTTATTGGACACATTTGTTATATATACTAGGTCTTTTATTGGACACA
1 TATACTAGATCGTTTATTGGATACATTTGCTGTATATAATAAGTCTTATATTGGACACA
269652 CATGCTGTAT
Statistics
Matches: 100, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
67 13 0.13
68 85 0.85
69 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (68 bp):
TATACTAGATCGTTTATTGGATACATTTGCTGTATATAATAAGTCTTATATTGGACACATTAGTT
ATA
Found at i:269663 original size:34 final size:34
Alignment explanation
Indices: 269458--269665 Score: 150
Period size: 34 Copynumber: 6.1 Consensus size: 34
269448 TCATGTTTTG
* * * *
269458 TATACTAGAT-TTTTGTTGGATACACATGCTGTA
1 TATACTAGGTCTTTTATTGGACACATATGCTGTA
* * * * *
269491 TCTAATAAGTCTTATATTGGACACATATAG-TATA
1 TATACTAGGTCTTTTATTGGACACATAT-GCTGTA
* * *
269525 TATACTAGGTCTTCTATTGGATACATTTGCTGTA
1 TATACTAGGTCTTTTATTGGACACATATGCTGTA
* *** * * * * *
269559 TATATTAACACTTATAATAGACACATTTGTTGTA
1 TATACTAGGTCTTTTATTGGACACATATGCTGTA
* * * * *
269593 TATACTAGATCGTTTATTGGACACATTTGTTATA
1 TATACTAGGTCTTTTATTGGACACATATGCTGTA
*
269627 TATACTAGGTCTTTTATTGGACACACATGCTGTA
1 TATACTAGGTCTTTTATTGGACACATATGCTGTA
269661 TATAC
1 TATAC
269666 CCTTTTGGAT
Statistics
Matches: 132, Mismatches: 40, Indels: 5
0.75 0.23 0.03
Matches are distributed among these distances:
33 7 0.05
34 124 0.94
35 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (34 bp):
TATACTAGGTCTTTTATTGGACACATATGCTGTA
Found at i:270623 original size:17 final size:15
Alignment explanation
Indices: 270601--270639 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
270591 CCCCCCCCCT
270601 AAAAAAAAACCCTCACC
1 AAAAAAAAA-CC-CACC
270618 AAAAAAAAACCCACC
1 AAAAAAAAACCCACC
270633 AAAAAAA
1 AAAAAAA
270640 CACATACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 11 0.50
16 2 0.09
17 9 0.41
ACGTcount: A:0.69, C:0.28, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAAAAAAACCCACC
Found at i:279886 original size:53 final size:53
Alignment explanation
Indices: 278526--279866 Score: 2187
Period size: 53 Copynumber: 25.3 Consensus size: 53
278516 ATGAGTTGTC
*
278526 AACTGGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* * *
278579 AACTAGAGATCTGCTTGGTCGGTGCTCTCATTGGTCAATGCATTTAACCAACT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* * *
278632 AACCAGAGATCTGCTTGGTCGGTGCTCTCATTGGTCACTGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* * * *
278685 AACTAAAGATCTGATAGGTCGGTGCTCTCATTGGTCAATGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* *
278738 AACCAGAGATCTGCTTGGTCGGCACTCTCATTGGTCAATGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* *
278791 AACCAGAGATCTGCTTGGTCGGCACTCTCATTGGTCAATGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* * *
278844 AACTAGAGATCTGCTTGGTCGGTGCTCTCATTGGTCAATGCATTTAACCAACT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* * *
278897 AACCAGAGATCTGCTTGGTCGGTGCTCTCATTGGTCACTGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* * * *
278950 AACTAAAGATCTGATAGGTCGGTGCTCTCATTGGTCAATGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* *
279003 AACCAGAGATCTGCTTGGTCGGCACTCTCATTGGTCAATGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* * *
279056 AACCAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCATTTTACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* *
279109 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCATTTAACCAACT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* * *
279162 AACTAGAGATCTGCTTGGTCGGCACTCTCATTGGTCAATGCATTTAACCAACT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
*
279215 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCATTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* *
279268 AACTAGAGATCTGCTAGGTCGGTGCTCTCATTGGTCAATGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* *
279321 AACCAGAGATCTGCTTGGTCGGTGCTCTCATTGGTCAATGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
*
279374 AACCAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* * *
279427 AACCAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCATTTTACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* *
279480 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCATTTAACCAACT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
*
279533 AACTAGAGATCTGCTTGGTCGGCGCTCTCAATGGTCAATGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* *
279586 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCATTTAACCAACT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
*
279639 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGATCAATGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
279692 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
*
279745 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCATTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* *
279798 AACTAGAGATCTGCTTGGTCGGTGCTCTCATTGGTCACTGCGTTTAACCAGCT
1 AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
* *
279851 AACCAGAGATTTGCTT
1 AACTAGAGATCTGCTT
279867 AATTGAAACA
Statistics
Matches: 1213, Mismatches: 75, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 1213 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (53 bp):
AACTAGAGATCTGCTTGGTCGGCGCTCTCATTGGTCAATGCGTTTAACCAGCT
Found at i:280347 original size:95 final size:95
Alignment explanation
Indices: 280179--280356 Score: 257
Period size: 95 Copynumber: 1.9 Consensus size: 95
280169 ATCTTATTTG
* ** * *
280179 TACAACCCACCAAACTGTGAACTGTCATGGTTTTACACCTACATCATGCATGTATTACATACACA
1 TACAACCCACCAAACTGTGAACCGTCATGACTTAACACCTACATCATGCATGTATAACATACACA
* *
280244 AATATGTACATGTATGTAATGTATACTGTA
66 AACATGTACATATATGTAATGTATACTGTA
* *
280274 TACAACCCACCAAACTGTGTACCGTCATGACTTAACACCTACATCATGCATGTATAACATACATA
1 TACAACCCACCAAACTGTGAACCGTCATGACTTAACACCTACATCATGCATGTATAACATACACA
* *
280339 TACCTGTACATATATGTA
66 AACATGTACATATATGTA
280357 TGCAGAGTGT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 72 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (95 bp):
TACAACCCACCAAACTGTGAACCGTCATGACTTAACACCTACATCATGCATGTATAACATACACA
AACATGTACATATATGTAATGTATACTGTA
Found at i:280870 original size:69 final size:67
Alignment explanation
Indices: 280733--280871 Score: 179
Period size: 69 Copynumber: 2.0 Consensus size: 67
280723 GACTATACCC
* * * * * **
280733 TACTGCCATGTATTACATACATATAAATGTACATATATGTATACTTTTAACAACTCACCAGTCAG
1 TACTGCCATGTATTACATACACATAAATGTACATATATATATACTGTAAACAACCCACCAAACAG
280798 TG
66 TG
*
280800 TACTGCCATGTATTACATACACATACATGTACATATATATATATACTGTAAACAACCCACCAAAC
1 TACTGCCATGTATTACATACACATAAATGTAC--ATATATATATACTGTAAACAACCCACCAAAC
*
280865 TGTG
64 AGTG
280869 TAC
1 TAC
280872 CATCATGATT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
67 30 0.49
69 31 0.51
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (67 bp):
TACTGCCATGTATTACATACACATAAATGTACATATATATATACTGTAAACAACCCACCAAACAG
TG
Found at i:282336 original size:18 final size:18
Alignment explanation
Indices: 282315--282349 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
282305 TTTAGCTATG
282315 TAGCTTGATTTACCTACA
1 TAGCTTGATTTACCTACA
*
282333 TAGCTTTATTTACCTAC
1 TAGCTTGATTTACCTAC
282350 CTGAAATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.43
Consensus pattern (18 bp):
TAGCTTGATTTACCTACA
Found at i:282514 original size:16 final size:16
Alignment explanation
Indices: 282493--282543 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
282483 TAACTGAGAC
282493 GAGGCATCACCTTTAT
1 GAGGCATCACCTTTAT
282509 GAGGCATCACCTTTAT
1 GAGGCATCACCTTTAT
*
282525 GAGGCATCACCTCTAT
1 GAGGCATCACCTTTAT
282541 GAG
1 GAG
282544 ACCACCTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (16 bp):
GAGGCATCACCTTTAT
Found at i:283464 original size:30 final size:30
Alignment explanation
Indices: 283428--283544 Score: 155
Period size: 30 Copynumber: 3.9 Consensus size: 30
283418 ATACATTGCT
*
283428 GGTCCAATAGATCGCAGTCTATTGACCGGC
1 GGTCCAATAGATCACAGTCTATTGACCGGC
*
283458 GGTCCAATAGATCACATTCT-TCTGACCGGC
1 GGTCCAATAGATCACAGTCTAT-TGACCGGC
* * *
283488 GATCCAATAGATCAAAGTCTACTGACCGGC
1 GGTCCAATAGATCACAGTCTATTGACCGGC
* *
283518 GGTCTAATAGATCGCAGTCTATTGACC
1 GGTCCAATAGATCACAGTCTATTGACC
283545 AGCAGTTCAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
29 1 0.01
30 73 0.99
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (30 bp):
GGTCCAATAGATCACAGTCTATTGACCGGC
Found at i:286161 original size:13 final size:13
Alignment explanation
Indices: 286129--286161 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
286119 TTAAATTTTG
*
286129 TTGTTTGTTTGTT
1 TTGTTTTTTTGTT
286142 TTGTTTTTTTGTT
1 TTGTTTTTTTGTT
286155 TT-TTTTT
1 TTGTTTTT
286162 AATCACATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TTGTTTTTTTGTT
Found at i:287649 original size:53 final size:53
Alignment explanation
Indices: 287599--287699 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 53
287589 ACTATTATTG
* * *
287599 TATTATGTATTTATACATAATACGCAAGTGTACCAATTAACTCATTATTATAT
1 TATTAAGTATTTATACATAATACACAAGTATACCAATTAACTCATTATTATAT
* * * * *
287652 TATTAAGTATTTATGCATAGTACACAAGTATATCATTTAACTTATTAT
1 TATTAAGTATTTATACATAATACACAAGTATACCAATTAACTCATTAT
287700 AATGTAGCAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 40 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.43
Consensus pattern (53 bp):
TATTAAGTATTTATACATAATACACAAGTATACCAATTAACTCATTATTATAT
Found at i:288667 original size:20 final size:20
Alignment explanation
Indices: 288623--288673 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
288613 TCAAAAATAA
288623 ATTCCTATAGGAAAATAATT
1 ATTCCTATAGGAAAATAATT
* *
288643 TTTCCCATAGGAAAATCAA-T
1 ATTCCTATAGGAAAAT-AATT
288663 ATTCCTATAGG
1 ATTCCTATAGG
288674 TAATTTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (20 bp):
ATTCCTATAGGAAAATAATT
Found at i:311734 original size:16 final size:16
Alignment explanation
Indices: 311713--311744 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
311703 TCAAATATAT
311713 GTGGGAGTAGAGAACA
1 GTGGGAGTAGAGAACA
311729 GTGGGAGTAGAGAACA
1 GTGGGAGTAGAGAACA
311745 TTTTTGCACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.44, T:0.12
Consensus pattern (16 bp):
GTGGGAGTAGAGAACA
Found at i:314938 original size:15 final size:15
Alignment explanation
Indices: 314918--314947 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
314908 CATTTATGTA
314918 ACTTTTAATTGATTG
1 ACTTTTAATTGATTG
*
314933 ACTTTTAATTTATTG
1 ACTTTTAATTGATTG
314948 GTGACCTGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (15 bp):
ACTTTTAATTGATTG
Found at i:315379 original size:13 final size:13
Alignment explanation
Indices: 315361--315385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
315351 TTCCGTTTCA
315361 TTTTTTTTTTTAT
1 TTTTTTTTTTTAT
315374 TTTTTTTTTTTA
1 TTTTTTTTTTTA
315386 CAAATTTTCC
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:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTTTAT
Found at i:320699 original size:21 final size:18
Alignment explanation
Indices: 320650--320706 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
320640 ATTTAATTAA
320650 ATATAAAAAAGCACCATC
1 ATATAAAAAAGCACCATC
* *
320668 ACATTAAAAAGCACCAGCTTC
1 ATATAAAAAAGCACCA---TC
320689 ATATAAAAAAGCACCATC
1 ATATAAAAAAGCACCATC
320707 GACATATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 16 0.50
21 16 0.50
ACGTcount: A:0.51, C:0.25, G:0.07, T:0.18
Consensus pattern (18 bp):
ATATAAAAAAGCACCATC
Found at i:320712 original size:21 final size:20
Alignment explanation
Indices: 320650--320715 Score: 82
Period size: 21 Copynumber: 3.3 Consensus size: 20
320640 ATTTAATTAA
320650 ATATAAAAAAGCACCATCAC
1 ATATAAAAAAGCACCATCAC
* *
320670 AT-T-AAAAAGCACCAGCTTC
1 ATATAAAAAAGCACCATC-AC
320689 ATATAAAAAAGCACCATCGAC
1 ATATAAAAAAGCACCATC-AC
320710 ATATAA
1 ATATAA
320716 TGAAACACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.32
19 4 0.11
20 3 0.08
21 19 0.50
ACGTcount: A:0.52, C:0.23, G:0.08, T:0.18
Consensus pattern (20 bp):
ATATAAAAAAGCACCATCAC
Found at i:320798 original size:21 final size:21
Alignment explanation
Indices: 320733--320831 Score: 85
Period size: 21 Copynumber: 4.8 Consensus size: 21
320723 CAATCTTTGC
* * *
320733 ATAA-AAAGCAACATCTTCAC
1 ATAATAAAGCACCATCCTCAA
* * *
320753 ATAATAAATCACCAT-TTAAA
1 ATAATAAAGCACCATCCTCAA
* *
320773 TATAATAAAGTACCATCCTCAC
1 -ATAATAAAGCACCATCCTCAA
* *
320795 ATAAAAAAGCACCAACCTCAA
1 ATAATAAAGCACCATCCTCAA
320816 ATAATAAAGCACCATC
1 ATAATAAAGCACCATC
320832 TTCTAATGAA
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 7 0.11
21 52 0.85
22 2 0.03
ACGTcount: A:0.51, C:0.24, G:0.04, T:0.21
Consensus pattern (21 bp):
ATAATAAAGCACCATCCTCAA
Found at i:321503 original size:7 final size:7
Alignment explanation
Indices: 321488--321554 Score: 80
Period size: 7 Copynumber: 9.6 Consensus size: 7
321478 GAGAAGGATC
321488 ATTCGAG
1 ATTCGAG
*
321495 ATGCGAG
1 ATTCGAG
*
321502 ATTCGAA
1 ATTCGAG
*
321509 ATACGAG
1 ATTCGAG
*
321516 ATTCGAA
1 ATTCGAG
*
321523 ATACGAG
1 ATTCGAG
321530 ATTCGAG
1 ATTCGAG
*
321537 ATTCGAA
1 ATTCGAG
321544 ATTCGAG
1 ATTCGAG
321551 ATTC
1 ATTC
321555 AATATCTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (7 bp):
ATTCGAG
Found at i:323268 original size:2 final size:2
Alignment explanation
Indices: 323206--323248 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
323196 TTGTCGATAT
323206 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
323248 G
1 G
323249 GCAGACAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:323515 original size:93 final size:92
Alignment explanation
Indices: 323356--323540 Score: 352
Period size: 93 Copynumber: 2.0 Consensus size: 92
323346 AAGCCTCTAA
323356 AACGAGAAAAGAGAGGAGGTAGCTAGGGTAGGGCAGACCAACTAGCAAGCTTTAATTTTAACGGT
1 AACGAGAAAAGAGAGGAGGTAGCTAGGGTAGGGCAGACCAACTAGCAAGCTTTAATTTTAACGGT
*
323421 GTTAGCGCACCTGTGATTTACATCGAC
66 GTTAGCGCACCTGTGATTGACATCGAC
323448 NAACGAGAAAAGAGAGGAGGTAGCTAGGGTAGGGCAGACCAACTAGCAAGCTTTAATTTTAACGG
1 -AACGAGAAAAGAGAGGAGGTAGCTAGGGTAGGGCAGACCAACTAGCAAGCTTTAATTTTAACGG
323513 TGTTAGCGCACCTGTGATTGACATCGAC
65 TGTTAGCGCACCTGTGATTGACATCGAC
323541 TCTGACTCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (92 bp):
AACGAGAAAAGAGAGGAGGTAGCTAGGGTAGGGCAGACCAACTAGCAAGCTTTAATTTTAACGGT
GTTAGCGCACCTGTGATTGACATCGAC
Found at i:323553 original size:2 final size:2
Alignment explanation
Indices: 323546--323579 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
323536 TCGACTCTGA
323546 CT CT CT CT CT CT CT NCT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT -CT CT CT CT CT CT CT CT CT C
323580 ATCACCAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:327750 original size:7 final size:7
Alignment explanation
Indices: 327735--327801 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
327725 TTTAGATATT
327735 GAATCTC
1 GAATCTC
*
327742 GAATTTC
1 GAATCTC
327749 GAATCTC
1 GAATCTC
327756 GAATCTC
1 GAATCTC
* *
327763 GTATTTC
1 GAATCTC
327770 GAATCTC
1 GAATCTC
* *
327777 GTATTTC
1 GAATCTC
327784 GAATCTC
1 GAATCTC
327791 GAATCTC
1 GAATCTC
327798 GAAT
1 GAAT
327802 GATCCTTCTC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (7 bp):
GAATCTC
Found at i:327759 original size:21 final size:21
Alignment explanation
Indices: 327735--327801 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
327725 TTTAGATATT
327735 GAATCTCGAATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
*
327756 GAATCTCGTATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
* * *
327777 GTATTTCGAATCTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
327798 GAAT
1 GAAT
327802 GATCCTTCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (21 bp):
GAATCTCGAATTTCGAATCTC
Found at i:328675 original size:22 final size:22
Alignment explanation
Indices: 328636--328681 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
328626 AATACTTCTT
*
328636 ATGAATAAACATCAATATGAAC
1 ATGAATAAACATCAATATAAAC
* * *
328658 ATGAATATATATCTATATAAAC
1 ATGAATAAACATCAATATAAAC
328680 AT
1 AT
328682 TCAGTTACAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (22 bp):
ATGAATAAACATCAATATAAAC
Found at i:330351 original size:18 final size:18
Alignment explanation
Indices: 330328--330362 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
330318 AATACACATG
*
330328 AAAAAACAAACACCAAAA
1 AAAAAACAAACAACAAAA
*
330346 AAAAAACCAACAACAAA
1 AAAAAACAAACAACAAA
330363 CAATCAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAACAAACAACAAAA
Found at i:330885 original size:1 final size:1
Alignment explanation
Indices: 330834--330865 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
330824 NNNNNNNNNN
*
330834 AAAAAAAAAAAAACAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
330866 CCCCCCCCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:337349 original size:2 final size:2
Alignment explanation
Indices: 337342--337385 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
337332 TTGCAGACAC
337342 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
337384 CT
1 CT
337386 GAGATTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:342069 original size:438 final size:432
Alignment explanation
Indices: 341344--342516 Score: 1717
Period size: 438 Copynumber: 2.7 Consensus size: 432
341334 TATGGTTGTA
* *
341344 CATTGTTAAGCTCAATATTTTGAGCATCTTTTGTTAAATATTGCTT-TCCAAA-GTTTTCCTCTA
1 CATTGTTAAGCTCTATATTTTGAGCATCTTTTGTTAAATATTGCTTATCCAAATG-TTTCTTC-A
* * * * *
341407 TTTTGAGATATTAAACATCAAAGCTTTAGACCTCTGGTCCCTTAAAATCCCTAATTACGTAACAT
64 TTTTGAGATATT-AGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACGTAACAT
* * * * * *
341472 AAGTGTAAATGATTGCCATGTACAGGTACATAACATTAGAATGAACATAATTGCTTCTATAACGT
128 AGGAGTAAATGATTGCCATGTATAGGTAAATAAC-CTAGAATGAACATAATTGCTTCTATAACGC
* * *
341537 ATCACCAAATATTTAACAGTAAAAAGTTATCA-TTAATAGACTTAAGAGCCCCCTCAGCCCCTTA
192 ATCACAAAATATTTCACGGT-AAAAGTTATCATTTAA-AGACTTAAGAGCCCCCTCAGCCCCTTA
* * *
341601 -TTAGAAGGGCCAGCACCTTTTTCATGATTTCAAATGAAAGCTATTGTCAATTCTAACACTTTTT
255 TTTA-AAGGGCCAGCCCCTTTTTCATGATTTCAAATGAAAGCTATTGTCAATTCAAACACATTTT
* *
341665 GTTCAACAAGTAATTACAAATTTTGTACCGTTCTCGAGATATCTTGAGAGGGTCGTGTTAGGGGC
319 GTTCAAAAAGTAATTACAAATTATGTACCGTTCTCGAGATATCTTGAGAGGGTCGTGTTAGGGGC
*
341730 C-AGCCCTGTATCTCCTTTTAGGGACCGCATAACAAAGAAATTATAGTTGAT
384 CGA-CCCTGTAACTCCTTTTAGGGACCGCATAACAAAGAAATTATAGTT--T
* * **
341781 TATTGTTAAGCTCTATATTTTGAGCATCTTTTGTTAAATATTTCTTATTGAAATGTTTCTTCATT
1 CATTGTTAAGCTCTATATTTTGAGCATCTTTTGTTAAATATTGCTTATCCAAATGTTTCTTCATT
* **
341846 TTGAGATATTATGCATTAAAGTTTTGGACTTCTGGCCCCTTAAAAATTACTAATTACGTAACATA
66 TTGAGATATTA-GCATCAAAGTTTTGGACTTCTGGCCCCTT-AAAATCCCTAATTACGTAACATA
341911 GGAGTAAATGATTGCCATGTATAGGTAAATAATCCTAGAATGAACATAATTGCTTCTATAACGCA
129 GGAGTAAATGATTGCCATGTATAGGTAAATAA-CCTAGAATGAACATAATTGCTTCTATAACGCA
* * *
341976 TCACAAAATATTTCACGGTAAAAGGTTATCATTTAAAGACTTCAGAGCTCCCTCAGCCCCTAATT
193 TCACAAAATATTTCACGGTAAAA-GTTATCATTTAAAGACTTAAGAGCCCCCTCAGCCCCTTATT
* *
342041 TAAAGGGCCAGCCCCTTTTTCTTGATTTCAAATGAAAGCTTTTGTCAATTCAAACACATTTTGTT
257 TAAAGGGCCAGCCCCTTTTTCATGATTTCAAATGAAAGCTATTGTCAATTCAAACACATTTTGTT
** *
342106 CAAAAAGTGTTTACAAATTATGTACCGTTCTCGAGATATCTTGAGAGGGTCGTTTTAGGGGCCGA
322 CAAAAAGTAATTACAAATTATGTACCGTTCTCGAGATATCTTGAGAGGGTCGTGTTAGGGGCCGA
* *
342171 CCCTGTAACTCCTTTTAGGGACCGCATAACAAGGAAATTATGGTTT
387 CCCTGTAACTCCTTTTAGGGACCGCATAACAAAGAAATTATAGTTT
342217 CAGGTTGTTAAGCTCTATATTTTGAGCATCTTTTGTTAAATATTGCTTATCCAAATGTTTCTTCA
1 CA--TTGTTAAGCTCTATATTTTGAGCATCTTTTGTTAAATATTGCTTATCCAAATGTTTCTTCA
342282 TTTTGAGATATTGAGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACGTAACAT
64 TTTTGAGATATT-AGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACGTAACAT
* *
342347 AGAAGTAAATGATTGCCATGTATAGGTAAATAACCTAAGAATAAACATAATTGCTTCTATAACGC
128 AGGAGTAAATGATTGCCATGTATAGGTAAATAACCT-AGAATGAACATAATTGCTTCTATAACGC
* * * * *
342412 ATCACAAAATATTTCACGGTAAAAGTTATTATTAAAATACTTTAGAGCCCCCTTAGCCCCTTATT
192 ATCACAAAATATTTCACGGTAAAAGTTATCATTTAAAGACTTAAGAGCCCCCTCAGCCCCTTATT
* *
342477 TGAAGGGCCAGCCCCTTTTTCATGATCTCAAATGAAAGCT
257 TAAAGGGCCAGCCCCTTTTTCATGATTTCAAATGAAAGCT
342517 CTTGATTTAA
Statistics
Matches: 665, Mismatches: 58, Indels: 27
0.89 0.08 0.04
Matches are distributed among these distances:
436 77 0.12
437 186 0.28
438 391 0.59
439 11 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (432 bp):
CATTGTTAAGCTCTATATTTTGAGCATCTTTTGTTAAATATTGCTTATCCAAATGTTTCTTCATT
TTGAGATATTAGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACGTAACATAGG
AGTAAATGATTGCCATGTATAGGTAAATAACCTAGAATGAACATAATTGCTTCTATAACGCATCA
CAAAATATTTCACGGTAAAAGTTATCATTTAAAGACTTAAGAGCCCCCTCAGCCCCTTATTTAAA
GGGCCAGCCCCTTTTTCATGATTTCAAATGAAAGCTATTGTCAATTCAAACACATTTTGTTCAAA
AAGTAATTACAAATTATGTACCGTTCTCGAGATATCTTGAGAGGGTCGTGTTAGGGGCCGACCCT
GTAACTCCTTTTAGGGACCGCATAACAAAGAAATTATAGTTT
Found at i:358783 original size:63 final size:63
Alignment explanation
Indices: 358684--358880 Score: 351
Period size: 63 Copynumber: 3.1 Consensus size: 63
358674 AAAAAAAAAA
* * *
358684 TAATAAAAGGGAAAAAGAAA-CAAAGCAATAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
1 TAATAATAGGGAAAAAGAAACCTAAG-AAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
358747 TAATAATAGGGAAAAAGAAACCTAAGAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
1 TAATAATAGGGAAAAAGAAACCTAAGAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
358810 TAATAATAGGGAAAAAGAAACCTAAGAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
1 TAATAATAGGGAAAAAGAAACCTAAGAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
358873 TAATAATA
1 TAATAATA
358881 ATCAAATCAG
Statistics
Matches: 130, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
63 126 0.97
64 4 0.03
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.18
Consensus pattern (63 bp):
TAATAATAGGGAAAAAGAAACCTAAGAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
Found at i:361351 original size:179 final size:179
Alignment explanation
Indices: 361091--361414 Score: 424
Period size: 179 Copynumber: 1.8 Consensus size: 179
361081 TGGGGCCCTC
* * * **
361091 AAAAGGAATTGGGTTTACACGACCTGTAAGAGGCTTAGCTAGCCTGGCGAAAATGCGACATTTTT
1 AAAAGGAATCGGGTTTACACGACCTGTAACAGGCTTAGCTAGCCTGGCGAAAATGCGAAATTTCG
* * * * * * * *
361156 TATAATACAGTTATAATTGGATTTCTTTCAAGGGACTGGCTCACACCCTG-TATCCCATATT-TG
66 TATAAAACAATTATAATGGGATATCTTTCAAGGGACAGACTAACAACCTGAT-TCCCA-ATTCTG
*
361219 GTCCTTCATATTTGGTGGAGATTGGGTTTCGGGACAGCCCAGTCGACCATA
129 GGCCTTCATATTTGGTGGAGATTGGGTTTCGGGACAGCCCAGTCGACCATA
*
361270 AAAAGGAATCGGGTTTACACGGCCAT-TAACAGGCTTAGCTAGCCTGGC-AACAATAG-GAAATT
1 AAAAGGAATCGGGTTTACACGACC-TGTAACAGGCTTAGCTAGCCTGGCGAA-AAT-GCGAAATT
*
361332 TCGTATAAAACAATTATAATGGGATATCTTTCAAGGGGCAGACTAACAACCTGATTCCCAATTCT
63 TCGTATAAAACAATTATAATGGGATATCTTTCAAGGGACAGACTAACAACCTGATTCCCAATTCT
361397 GGGCCTTCATATTTGGTG
128 GGGCCTTCATATTTGGTG
361415 AGGATGGGAT
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
178 5 0.04
179 116 0.94
180 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (179 bp):
AAAAGGAATCGGGTTTACACGACCTGTAACAGGCTTAGCTAGCCTGGCGAAAATGCGAAATTTCG
TATAAAACAATTATAATGGGATATCTTTCAAGGGACAGACTAACAACCTGATTCCCAATTCTGGG
CCTTCATATTTGGTGGAGATTGGGTTTCGGGACAGCCCAGTCGACCATA
Found at i:371928 original size:25 final size:25
Alignment explanation
Indices: 371878--371939 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
371868 TATAATACCT
*
371878 TATTATATTATATCATTTGACTCAA
1 TATTATATTATATCATGTGACTCAA
371903 TATTATATTATATCATGTGA-TACAA
1 TATTATATTATATCATGTGACT-CAA
* *
371928 TGTTGTATTATA
1 TATTATATTATA
371940 ATTTAGTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (25 bp):
TATTATATTATATCATGTGACTCAA
Found at i:379578 original size:18 final size:18
Alignment explanation
Indices: 379551--379585 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
379541 CTTATCAAAT
379551 TGAGAAAGAGAGAGAGTG
1 TGAGAAAGAGAGAGAGTG
*
379569 TGAGAGAGAGAGAGAGT
1 TGAGAAAGAGAGAGAGT
379586 TTATTACCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.46, T:0.11
Consensus pattern (18 bp):
TGAGAAAGAGAGAGAGTG
Found at i:398600 original size:2 final size:2
Alignment explanation
Indices: 398593--398617 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
398583 CCGTTTACAC
398593 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
398618 AAGTTTAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:405779 original size:20 final size:20
Alignment explanation
Indices: 405753--405865 Score: 199
Period size: 20 Copynumber: 5.7 Consensus size: 20
405743 TCAATATCAT
405753 TTATCATTGACTTATAAACA
1 TTATCATTGACTTATAAACA
* *
405773 CTATCATTGACTTATAAACT
1 TTATCATTGACTTATAAACA
405793 TTATCATTGACTTATAAACA
1 TTATCATTGACTTATAAACA
*
405813 CTATCATTGACTTATAAACA
1 TTATCATTGACTTATAAACA
405833 TTATCATTGACTTATAAACA
1 TTATCATTGACTTATAAACA
405853 TTATCATTGACTT
1 TTATCATTGACTT
405866 GATCATAGTT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 87 1.00
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (20 bp):
TTATCATTGACTTATAAACA
Found at i:410686 original size:8 final size:8
Alignment explanation
Indices: 410675--410708 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
410665 TGAAAAGTTT
*
410675 ACGGACGG
1 ACGGACAG
410683 ACGGACAG
1 ACGGACAG
410691 ACGGACAG
1 ACGGACAG
410699 ACGGACAG
1 ACGGACAG
410707 AC
1 AC
410709 AGACGACAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.35, C:0.26, G:0.38, T:0.00
Consensus pattern (8 bp):
ACGGACAG
Found at i:410695 original size:12 final size:12
Alignment explanation
Indices: 410675--410713 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
410665 TGAAAAGTTT
*
410675 ACGGACGGACGG
1 ACGGACGGACAG
*
410687 ACAGACGGACAG
1 ACGGACGGACAG
*
410699 ACGGACAGACAG
1 ACGGACGGACAG
410711 ACG
1 ACG
410714 ACAGACAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.36, C:0.26, G:0.38, T:0.00
Consensus pattern (12 bp):
ACGGACGGACAG
Found at i:412845 original size:2 final size:2
Alignment explanation
Indices: 412838--412863 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
412828 TTGTATAAAA
412838 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
412864 AGAGGTGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:414463 original size:16 final size:16
Alignment explanation
Indices: 414431--414469 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
414421 TGAGTTGTGG
**
414431 TTGTTTTTTGGTTTTT
1 TTGTTTTTTGGGGTTT
414447 TTGTTTTTTGGGGTTT
1 TTGTTTTTTGGGGTTT
*
414463 TTATTTT
1 TTGTTTT
414470 ACATTTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.03, C:0.00, G:0.21, T:0.77
Consensus pattern (16 bp):
TTGTTTTTTGGGGTTT
Found at i:416769 original size:33 final size:33
Alignment explanation
Indices: 416732--416799 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
416722 TTACGCCCTC
416732 GAAACATATATATGATCCAAACAGTTATCCAGG
1 GAAACATATATATGATCCAAACAGTTATCCAGG
416765 GAAACATATATATGATCCAAACAGTTATCCAGG
1 GAAACATATATATGATCCAAACAGTTATCCAGG
416798 GA
1 GA
416800 GAAGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (33 bp):
GAAACATATATATGATCCAAACAGTTATCCAGG
Found at i:418746 original size:38 final size:38
Alignment explanation
Indices: 418703--418818 Score: 232
Period size: 38 Copynumber: 3.1 Consensus size: 38
418693 TGCTGAGTTT
418703 AATAGATGTAAGTGTATATTTCACTGGAGGCCAGTATC
1 AATAGATGTAAGTGTATATTTCACTGGAGGCCAGTATC
418741 AATAGATGTAAGTGTATATTTCACTGGAGGCCAGTATC
1 AATAGATGTAAGTGTATATTTCACTGGAGGCCAGTATC
418779 AATAGATGTAAGTGTATATTTCACTGGAGGCCAGTATC
1 AATAGATGTAAGTGTATATTTCACTGGAGGCCAGTATC
418817 AA
1 AA
418819 ATTCAACTTG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 78 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (38 bp):
AATAGATGTAAGTGTATATTTCACTGGAGGCCAGTATC
Found at i:424297 original size:9 final size:9
Alignment explanation
Indices: 424267--424299 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
424257 GGGGGGGTTG
424267 TTTTGTTTT
1 TTTTGTTTT
*
424276 TTTGGTTTT
1 TTTTGTTTT
424285 TTTTGTTTT
1 TTTTGTTTT
424294 TTTTGT
1 TTTTGT
424300 AATATGGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (9 bp):
TTTTGTTTT
Found at i:426241 original size:15 final size:15
Alignment explanation
Indices: 426223--426262 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
426213 TTTTATCAAT
*
426223 TTTTTTTTTGTTTTG
1 TTTTTATTTGTTTTG
426238 TTTTTATTTGTTTTG
1 TTTTTATTTGTTTTG
*
426253 TTTTTGTTTG
1 TTTTTATTTG
426263 GTGAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (15 bp):
TTTTTATTTGTTTTG
Found at i:428138 original size:200 final size:200
Alignment explanation
Indices: 427795--428195 Score: 802
Period size: 200 Copynumber: 2.0 Consensus size: 200
427785 TTTCTAGAGG
427795 GCATTATAATGCCTTTATTTTATTCGCGTTATGTCGCCTTTCGGAAATAATAGTTACATTGAAAT
1 GCATTATAATGCCTTTATTTTATTCGCGTTATGTCGCCTTTCGGAAATAATAGTTACATTGAAAT
427860 AAATGTCAAAACGGGCTTGGCCCCTGTGGTTCGAACACAAGGGTTGGCAAAAAAGAAAAAGATAA
66 AAATGTCAAAACGGGCTTGGCCCCTGTGGTTCGAACACAAGGGTTGGCAAAAAAGAAAAAGATAA
427925 CAAAAGGAAAAACAGAAAAAAACATTCGATCTCTACCTTATTAAAGTTGAATGTTTAAAAATTAC
131 CAAAAGGAAAAACAGAAAAAAACATTCGATCTCTACCTTATTAAAGTTGAATGTTTAAAAATTAC
427990 TTAAT
196 TTAAT
427995 GCATTATAATGCCTTTATTTTATTCGCGTTATGTCGCCTTTCGGAAATAATAGTTACATTGAAAT
1 GCATTATAATGCCTTTATTTTATTCGCGTTATGTCGCCTTTCGGAAATAATAGTTACATTGAAAT
428060 AAATGTCAAAACGGGCTTGGCCCCTGTGGTTCGAACACAAGGGTTGGCAAAAAAGAAAAAGATAA
66 AAATGTCAAAACGGGCTTGGCCCCTGTGGTTCGAACACAAGGGTTGGCAAAAAAGAAAAAGATAA
428125 CAAAAGGAAAAACAGAAAAAAACATTCGATCTCTACCTTATTAAAGTTGAATGTTTAAAAATTAC
131 CAAAAGGAAAAACAGAAAAAAACATTCGATCTCTACCTTATTAAAGTTGAATGTTTAAAAATTAC
428190 TTAAT
196 TTAAT
428195 G
1 G
428196 ATATTTGATG
Statistics
Matches: 201, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 201 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (200 bp):
GCATTATAATGCCTTTATTTTATTCGCGTTATGTCGCCTTTCGGAAATAATAGTTACATTGAAAT
AAATGTCAAAACGGGCTTGGCCCCTGTGGTTCGAACACAAGGGTTGGCAAAAAAGAAAAAGATAA
CAAAAGGAAAAACAGAAAAAAACATTCGATCTCTACCTTATTAAAGTTGAATGTTTAAAAATTAC
TTAAT
Found at i:434612 original size:4 final size:4
Alignment explanation
Indices: 434597--434638 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
434587 ATCACCCGTT
* * *
434597 GTCC GT-C GTCC GTCC GTCC GTCT GTCT GTCT GTCC GTCC GTC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTC
434639 TGTAAACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.00, C:0.40, G:0.26, T:0.33
Consensus pattern (4 bp):
GTCC
Found at i:435082 original size:166 final size:166
Alignment explanation
Indices: 434803--435613 Score: 1500
Period size: 166 Copynumber: 4.9 Consensus size: 166
434793 TATAGGGTGC
*
434803 ATGTCTTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACATAAAAGCT
1 ATGT-TTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCT
* *
434868 TGTATATAAAGTGAAGATACTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAG
65 TGTATATATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAG
434933 GCGGGGTTCAAAGTTTAACATAGAAATACATAGGAAA
130 GCGGGGTTCAAAGTTTAACATAGAAATACATAGGAAA
434970 ATGTTTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTT
1 ATGTTTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTT
435035 GTATATATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGG
66 GTATATATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGG
435100 CGGGGTTCAAAGTTTAACATAGAAATACATAGGAAA
131 CGGGGTTCAAAGTTTAACATAGAAATACATAGGAAA
*
435136 AT-TTTTAAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACATAAGCT
1 ATGTTTT-AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCT
*
435200 TGTATACATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAG
65 TGTATATATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAG
435265 GCGGGGTTCAAAGTTTAACATAGAAATACATAGGAAA
130 GCGGGGTTCAAAGTTTAACATAGAAATACATAGGAAA
*
435302 ATGTTTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAACTT
1 ATGTTTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTT
435367 GTATATATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGG
66 GTATATATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGG
435432 CGGGGTTCAAAGTTTAACATAGAAATACATAGGAAA
131 CGGGGTTCAAAGTTTAACATAGAAATACATAGGAAA
*
435468 AT-TTTTAAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACATAAGCT
1 ATGTTTT-AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCT
*
435532 TGTATACATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAG
65 TGTATATATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAG
*
435597 GCGGGGGTCAAAGTTTA
130 GCGGGGTTCAAAGTTTA
435614 NNNNNNNNNN
Statistics
Matches: 629, Mismatches: 12, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
165 8 0.01
166 613 0.97
167 8 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (166 bp):
ATGTTTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTT
GTATATATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGG
CGGGGTTCAAAGTTTAACATAGAAATACATAGGAAA
Found at i:436583 original size:165 final size:165
Alignment explanation
Indices: 436333--436740 Score: 482
Period size: 165 Copynumber: 2.5 Consensus size: 165
436323 CGGTATATAT
* * * * *
436333 GGAAAATGTTTAAAAATCTTCTTT-TCGAGAACTACAATGCATCAGTTTGTCAGATAACTACGTA
1 GGAAAATGTTTAAAAATCTT-TTTCTCGAGAACTATAATGCTTCAGTTTGTGAGATAACTATGCA
* * * *
436397 AGCACCCTCAAATAGTGTAGATTCGAAATTAT-AAAAGCTGT-GACCTCAATCTAATACTGGGGC
65 AGCATCCTCAAATAATGTAGATTCCAAATAATCAAAA-CTGTAGACCTCAA-CTAATACTGGGGC
* * *
436460 CCCAAGAGGTGTTCAAAGTTTAGCATAGAAATATAGAG
128 CCCAAGAGGGGTTCAAAGTTTAACATAGAAAGATAGAG
* * * *
436498 GGAAAATGTTGAAAAATCTTTTTCTAGGGAACTATAATGCTTCAGCTTGTGAGATAACTATGCAA
1 GGAAAATGTTTAAAAATCTTTTTCTCGAGAACTATAATGCTTCAGTTTGTGAGATAACTATGCAA
* * * * *
436563 GCATCCTTAAATAATGTAGATTCCAAATAATCAAAACTTTAGCCCTGAACTAATACTGTGGCCCC
66 GCATCCTCAAATAATGTAGATTCCAAATAATCAAAACTGTAGACCTCAACTAATACTGGGGCCCC
* *
436628 AAGAGGGGTTCAAAGTTTAACATAGAAAGATATAT
131 AAGAGGGGTTCAAAGTTTAACATAGAAAGATAGAG
* * * * *
436663 TGAAAATGTTTTTAAAAA-GTTTTTCTCGAGAACTATAATGCTACAGTTTGTGAGATTATTATGC
1 GGAAAATG--TTTAAAAATCTTTTTCTCGAGAACTATAATGCTTCAGTTTGTGAGATAACTATGC
*
436727 AAGGATCCTCAAAT
64 AAGCATCCTCAAAT
436741 TGTGTAAACT
Statistics
Matches: 204, Mismatches: 34, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
164 3 0.01
165 133 0.65
166 61 0.30
167 7 0.03
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (165 bp):
GGAAAATGTTTAAAAATCTTTTTCTCGAGAACTATAATGCTTCAGTTTGTGAGATAACTATGCAA
GCATCCTCAAATAATGTAGATTCCAAATAATCAAAACTGTAGACCTCAACTAATACTGGGGCCCC
AAGAGGGGTTCAAAGTTTAACATAGAAAGATAGAG
Found at i:457584 original size:24 final size:24
Alignment explanation
Indices: 457557--457606 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
457547 TGATATGTAT
*
457557 AAGATATTATATGCT-ATAGGGACC
1 AAGATATGATATG-TGATAGGGACC
*
457581 AAGATATGATATGTGCTAGGGACC
1 AAGATATGATATGTGATAGGGACC
457605 AA
1 AA
457607 ATTTTTCAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (24 bp):
AAGATATGATATGTGATAGGGACC
Found at i:467401 original size:14 final size:16
Alignment explanation
Indices: 467377--467410 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
467367 CCTTCCTATA
467377 GTCTCCCTTCTG-CAT
1 GTCTCCCTTCTGCCAT
467392 GTCT-CCTTCTGCCAT
1 GTCTCCCTTCTGCCAT
467407 GTCT
1 GTCT
467411 TCAAACTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.06, C:0.38, G:0.15, T:0.41
Consensus pattern (16 bp):
GTCTCCCTTCTGCCAT
Found at i:472277 original size:14 final size:14
Alignment explanation
Indices: 472245--472277 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
472235 TCCTATCCTA
472245 TTTTTATTTTTTTT
1 TTTTTATTTTTTTT
*
472259 ATTTTATTTTTTTT
1 TTTTTATTTTTTTT
472273 TTTTT
1 TTTTT
472278 GTGAGCTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTTATTTTTTTT
Found at i:472807 original size:16 final size:15
Alignment explanation
Indices: 472782--472812 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
472772 CTTAAAAGAG
472782 TAGAAAATAAATAAA
1 TAGAAAATAAATAAA
472797 TAGATAAATAAATAAA
1 TAGA-AAATAAATAAA
472813 AATTACAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
TAGAAAATAAATAAA
Found at i:473954 original size:11 final size:12
Alignment explanation
Indices: 473937--473968 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
473927 TAAACAAGGG
473937 GTTGTTTTTGTT
1 GTTGTTTTTGTT
473949 -TTGTTTTTGTT
1 GTTGTTTTTGTT
473960 GTTGTTTTT
1 GTTGTTTTT
473969 TGGTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (12 bp):
GTTGTTTTTGTT
Found at i:473962 original size:20 final size:20
Alignment explanation
Indices: 473937--473976 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
473927 TAAACAAGGG
*
473937 GTTGTT-TTTGTTTTGTTTTT
1 GTTGTTGTTT-TTTGGTTTTT
473957 GTTGTTGTTTTTTGGTTTTT
1 GTTGTTGTTTTTTGGTTTTT
473977 TTTGGGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.78
Consensus pattern (20 bp):
GTTGTTGTTTTTTGGTTTTT
Found at i:473978 original size:11 final size:11
Alignment explanation
Indices: 473941--473991 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
473931 CAAGGGGTTG
473941 TTTTT-GTTTT
1 TTTTTGGTTTT
*
473951 GTTTTTGTTGTTGT
1 -TTTTTG--GTTTT
473965 TTTTTGGTTTT
1 TTTTTGGTTTT
*
473976 TTTTGGGTTTT
1 TTTTTGGTTTT
473987 TTTTT
1 TTTTT
473992 TGGGGGGGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 23 0.70
13 6 0.18
14 4 0.12
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (11 bp):
TTTTTGGTTTT
Found at i:473978 original size:23 final size:23
Alignment explanation
Indices: 473937--473980 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
473927 TAAACAAGGG
*
473937 GTTGTTTTTGTTTTGTTTTTGTT
1 GTTGTTTTTGGTTTGTTTTTGTT
473960 GTTGTTTTTTGGTTT-TTTTTG
1 GTTG-TTTTTGGTTTGTTTTTG
473981 GGTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (23 bp):
GTTGTTTTTGGTTTGTTTTTGTT
Found at i:491673 original size:4 final size:4
Alignment explanation
Indices: 491664--491793 Score: 206
Period size: 4 Copynumber: 32.5 Consensus size: 4
491654 AGAGATTCAT
491664 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * *
491712 GAGA GAGA GAGA GAGA CAGA CAGA GAGA CAGA GAGA GAGA CAGA CAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
*
491760 GAGA GAGA GAGA GAGA GAGA GAAA GAGA GAGA GA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GA
491794 CAGACAGACA
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 118 1.00
ACGTcount: A:0.51, C:0.04, G:0.45, T:0.00
Consensus pattern (4 bp):
GAGA
Found at i:515414 original size:29 final size:29
Alignment explanation
Indices: 515376--515434 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
515366 TTGGGTATAT
*
515376 CCCTCTAACTATTTTTAGAATCGGTAGGA
1 CCCTCAAACTATTTTTAGAATCGGTAGGA
515405 CCCTCAAACTATTTTTAGAATCGGTAGGA
1 CCCTCAAACTATTTTTAGAATCGGTAGGA
515434 C
1 C
515435 AACAAAGTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (29 bp):
CCCTCAAACTATTTTTAGAATCGGTAGGA
Found at i:520568 original size:21 final size:21
Alignment explanation
Indices: 520536--520604 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
520526 TAGATATGTC
*
520536 TGAATTGAACCTATCTTCAAA
1 TGAATTGTACCTATCTTCAAA
* *
520557 TCAATTGTACCTATCTTTAAA
1 TGAATTGTACCTATCTTCAAA
*
520578 TGAATTTTACCTATCTTCAAA
1 TGAATTGTACCTATCTTCAAA
520599 TGAATT
1 TGAATT
520605 AGAGATAGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (21 bp):
TGAATTGTACCTATCTTCAAA
Found at i:527774 original size:27 final size:27
Alignment explanation
Indices: 527744--527855 Score: 197
Period size: 27 Copynumber: 4.1 Consensus size: 27
527734 GTTCATCACA
527744 GTACTCTTACGGGTGAGTGAATTCAAT
1 GTACTCTTACGGGTGAGTGAATTCAAT
*
527771 GTACTCTTACGGATGAGTGAATTCAAT
1 GTACTCTTACGGGTGAGTGAATTCAAT
527798 GTACTCTTACGGGTGAGTGAATTCAAT
1 GTACTCTTACGGGTGAGTGAATTCAAT
* *
527825 GTACTCTTATGGGTGAGTGAATTTAAT
1 GTACTCTTACGGGTGAGTGAATTCAAT
527852 GTAC
1 GTAC
527856 AGATTGAAAC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (27 bp):
GTACTCTTACGGGTGAGTGAATTCAAT
Found at i:534273 original size:26 final size:27
Alignment explanation
Indices: 534238--534288 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
534228 TCATTCTGTA
* *
534238 CATATATTCATGTATTTCATATATTAC
1 CATATATTCATATATATCATATATTAC
*
534265 CATAT-TTCATATATATCTTATATT
1 CATATATTCATATATATCATATATT
534289 TTATATGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.51
Consensus pattern (27 bp):
CATATATTCATATATATCATATATTAC
Found at i:535555 original size:19 final size:19
Alignment explanation
Indices: 535528--535574 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
535518 GTGACTTCTG
*
535528 GATTGTTGTTCCCGCTTTA
1 GATTATTGTTCCCGCTTTA
* *
535547 GATTTTTGTTGCCGCTTTA
1 GATTATTGTTCCCGCTTTA
535566 GATTATTGT
1 GATTATTGT
535575 AATTATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (19 bp):
GATTATTGTTCCCGCTTTA
Found at i:540183 original size:31 final size:30
Alignment explanation
Indices: 540137--540202 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
540127 CACCATTATG
*
540137 CACAATAAACGTAACAGTT-AGCGAGACTGA
1 CACAATAAACGTAACAATTCAG-GAGACTGA
* *
540167 CACAATTAAATGTAACAATTCAGGAGACTGG
1 CACAA-TAAACGTAACAATTCAGGAGACTGA
540198 CACAA
1 CACAA
540203 ATTTACTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 5 0.16
31 24 0.77
32 2 0.06
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (30 bp):
CACAATAAACGTAACAATTCAGGAGACTGA
Found at i:546367 original size:2 final size:2
Alignment explanation
Indices: 546360--546387 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
546350 ATCATGCGTT
546360 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
546388 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:549722 original size:2 final size:2
Alignment explanation
Indices: 549715--549749 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
549705 TAGTGCTTCT
549715 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
549750 GATGTTTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:558141 original size:11 final size:12
Alignment explanation
Indices: 558121--558146 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
558111 TATTCCATGT
558121 AAAATAAAAAAA
1 AAAATAAAAAAA
558133 AAAATAAAAAAA
1 AAAATAAAAAAA
558145 AA
1 AA
558147 TAATGTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAATAAAAAAA
Found at i:564861 original size:42 final size:42
Alignment explanation
Indices: 564814--564986 Score: 274
Period size: 42 Copynumber: 4.1 Consensus size: 42
564804 CTAGTTCACT
* * *
564814 AGTTGCTACCACCAGTATGCCATTTATTTTCACGAGTGCACC
1 AGTTGCCACCACAAGTATGCCAGTTATTTTCACGAGTGCACC
* * *
564856 TGTTGCTACCACCAGTATGCCAGTTATTTTCACGAGTGCACC
1 AGTTGCCACCACAAGTATGCCAGTTATTTTCACGAGTGCACC
* *
564898 AGTTGCCACCACAAGTATGCCAGATATTTTTACGAGTGCACC
1 AGTTGCCACCACAAGTATGCCAGTTATTTTCACGAGTGCACC
564940 AGTTGCCACCACAAGTATGCCAGTTATTTTCACGAGTGCACC
1 AGTTGCCACCACAAGTATGCCAGTTATTTTCACGAGTGCACC
564982 AGTTG
1 AGTTG
564987 NTAGATATTT
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 122 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (42 bp):
AGTTGCCACCACAAGTATGCCAGTTATTTTCACGAGTGCACC
Found at i:565379 original size:42 final size:42
Alignment explanation
Indices: 565332--565721 Score: 480
Period size: 42 Copynumber: 9.3 Consensus size: 42
565322 CTAGTTCACT
*
565332 AGTTGCTACCACCAGTATGCCATTTATTTTCACGAGTGCACC
1 AGTTGCTACCACCAGTATGCCAGTTATTTTCACGAGTGCACC
*
565374 TGTTGCTACCACCAGTATGCCAGTTATTTTCACGAGTGCACC
1 AGTTGCTACCACCAGTATGCCAGTTATTTTCACGAGTGCACC
* * * *
565416 AGTTGCCACCACAAGTATGCCAGATATTTTTACGAGTGCACC
1 AGTTGCTACCACCAGTATGCCAGTTATTTTCACGAGTGCACC
* *
565458 AGTTGCCACCACAAGTATGCCAGTTATTTTCACGAGTGCACC
1 AGTTGCTACCACCAGTATGCCAGTTATTTTCACGAGTGCACC
* * * *
565500 AGTTGCCACCACCGGTATGCCAGTTA-TTACAACGAGTGAACC
1 AGTTGCTACCACCAGTATGCCAGTTATTTTC-ACGAGTGCACC
* ** *
565542 AGTTGCTACCACCGGTATGCCAGTTATTACCACGAGTGCGCC
1 AGTTGCTACCACCAGTATGCCAGTTATTTTCACGAGTGCACC
* * *
565584 AGTTGCTACCACCAGAATGCCAGTTA-TTACAACGAGTGAACC
1 AGTTGCTACCACCAGTATGCCAGTTATTTTC-ACGAGTGCACC
* ** * *
565626 AGTTGCTACCACCGGTATGCCAGTTATTACCACAAGTGCGCC
1 AGTTGCTACCACCAGTATGCCAGTTATTTTCACGAGTGCACC
* * * *
565668 AATTGCTACCACCAGAATGCCAGTTA-TTACAACGAGTGAACC
1 AGTTGCTACCACCAGTATGCCAGTTATTTTC-ACGAGTGCACC
565710 AGTTGCTACCAC
1 AGTTGCTACCAC
565722 TAGCAGTCTA
Statistics
Matches: 303, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
41 7 0.02
42 292 0.96
43 4 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (42 bp):
AGTTGCTACCACCAGTATGCCAGTTATTTTCACGAGTGCACC
Found at i:565648 original size:21 final size:21
Alignment explanation
Indices: 565498--565692 Score: 94
Period size: 21 Copynumber: 9.3 Consensus size: 21
565488 CACGAGTGCA
*
565498 CCAGTTGCCACCACCGGTATG
1 CCAGTTGCTACCACCGGTATG
** * *
565519 CCAGTTATTA-CAACGAGTGA-A
1 CCAGTTGCTACCACCG-GT-ATG
565540 CCAGTTGCTACCACCGGTATG
1 CCAGTTGCTACCACCGGTATG
** **
565561 CCAGTTATTACCA-CGAGTGCG
1 CCAGTTGCTACCACCG-GTATG
* *
565582 CCAGTTGCTACCACCAGAATG
1 CCAGTTGCTACCACCGGTATG
** * *
565603 CCAGTTATTA-CAACGAGTGA-A
1 CCAGTTGCTACCACCG-GT-ATG
565624 CCAGTTGCTACCACCGGTATG
1 CCAGTTGCTACCACCGGTATG
** ** **
565645 CCAGTTATTACCACAAGTGCG
1 CCAGTTGCTACCACCGGTATG
* * *
565666 CCAATTGCTACCACCAGAATG
1 CCAGTTGCTACCACCGGTATG
565687 CCAGTT
1 CCAGTT
565693 ATTACAACGA
Statistics
Matches: 121, Mismatches: 43, Indels: 20
0.66 0.23 0.11
Matches are distributed among these distances:
20 11 0.09
21 99 0.82
22 11 0.09
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (21 bp):
CCAGTTGCTACCACCGGTATG
Found at i:567219 original size:8 final size:7
Alignment explanation
Indices: 567194--567294 Score: 66
Period size: 8 Copynumber: 13.7 Consensus size: 7
567184 GCCTTTAGGT
567194 CGAAGATG
1 CGAAG-TG
567202 CGAGAGTG
1 CGA-AGTG
567210 CGAAGTTG
1 CGAAG-TG
567218 CGAAG-G
1 CGAAGTG
567224 CGAAAGTG
1 CG-AAGTG
567232 CGATAGTG
1 CGA-AGTG
*
567240 CGACG-G
1 CGAAGTG
*
567246 CGAAGGAG
1 CGAA-GTG
567254 CGAAAGTG
1 CG-AAGTG
567262 CGAAGATG
1 CGAAG-TG
*
567270 CGATG-G
1 CGAAGTG
567276 CGAAAGTG
1 CG-AAGTG
567284 CGAAG-G
1 CGAAGTG
567290 CGAAG
1 CGAAG
567295 GAGCGATACT
Statistics
Matches: 77, Mismatches: 5, Indels: 24
0.73 0.05 0.23
Matches are distributed among these distances:
6 16 0.21
7 16 0.21
8 41 0.53
9 4 0.05
ACGTcount: A:0.32, C:0.15, G:0.43, T:0.11
Consensus pattern (7 bp):
CGAAGTG
Found at i:567231 original size:22 final size:21
Alignment explanation
Indices: 567201--567293 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 21
567191 GGTCGAAGAT
*
567201 GCGAGAGTGCGAAGTTGCGAAG
1 GCGAAAGTGCGAAG-TGCGAAG
*
567223 GCGAAAGTGCGATAGTGCGACG
1 GCGAAAGTGCGA-AGTGCGAAG
* *
567245 GCGAAGGAGCGAAAGTGCGAAG
1 GCGAAAGTGCG-AAGTGCGAAG
*
567267 ATGCG-ATG-GCGAAAGTGCGAAG
1 --GCGAAAGTGCG-AAGTGCGAAG
567289 GCGAA
1 GCGAA
567294 GGAGCGATAC
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
20 3 0.05
21 1 0.02
22 48 0.80
23 5 0.08
24 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.43, T:0.11
Consensus pattern (21 bp):
GCGAAAGTGCGAAGTGCGAAG
Done.