Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold327
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 596179
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 2 of 5
Found at i:139685 original size:6 final size:6
Alignment explanation
Indices: 139674--139708 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
139664 ATTTTTTATT
139674 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
139709 TTTAAGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:149323 original size:24 final size:24
Alignment explanation
Indices: 149290--149361 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
149280 CATGTGTATG
* *
149290 ACTTGTCATAAAAAGCAATGGCAA
1 ACTTGCCATAAATAGCAATGGCAA
149314 ACTTGCCATAAATAGCAATGGCAA
1 ACTTGCCATAAATAGCAATGGCAA
*
149338 ACTTGCCATAAATAGTAATGGCAA
1 ACTTGCCATAAATAGCAATGGCAA
149362 TATTTTCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (24 bp):
ACTTGCCATAAATAGCAATGGCAA
Found at i:149969 original size:32 final size:32
Alignment explanation
Indices: 149925--150022 Score: 91
Period size: 30 Copynumber: 3.2 Consensus size: 32
149915 TATTTAATAT
*
149925 ATATTTTATAATTTAATATAAATATAATTTTA
1 ATATTTTTTAATTTAATATAAATATAATTTTA
* * *
149957 ATATTTTTTAA-TT-ATATATATTTAA-TAT-
1 ATATTTTTTAATTTAATATAAATATAATTTTA
* *
149985 ATAATTTATT-ATTTAATATAAATAT-TTTTTA
1 AT-ATTTTTTAATTTAATATAAATATAATTTTA
150016 ATATTTT
1 ATATTTT
150023 AATTTTATTA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
28 3 0.06
29 10 0.20
30 24 0.47
31 4 0.08
32 10 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
ATATTTTTTAATTTAATATAAATATAATTTTA
Found at i:149973 original size:24 final size:24
Alignment explanation
Indices: 149946--150034 Score: 67
Period size: 24 Copynumber: 3.7 Consensus size: 24
149936 TTTAATATAA
149946 ATATAATTTTAATATTTTTTAATT
1 ATATAATTTTAATATTTTTTAATT
*
149970 ATAT-ATATTTAATATATAATTT-ATT
1 ATATAAT-TTTAATAT-T-TTTTAATT
* * *
149995 ATTTAATATAAATATTTTTTAA-T
1 ATATAATTTTAATATTTTTTAATT
* *
150018 ATTTTAATTTTATTATT
1 A-TATAATTTTAATATT
150035 ATAATCACAT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
23 7 0.14
24 26 0.51
25 13 0.25
26 5 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
ATATAATTTTAATATTTTTTAATT
Found at i:150001 original size:12 final size:12
Alignment explanation
Indices: 149908--150019 Score: 58
Period size: 11 Copynumber: 9.6 Consensus size: 12
149898 ATTATTCAAC
149908 TTAA-ATAT-AT
1 TTAATATATAAT
149918 TTAATATAT-AT
1 TTAATATATAAT
* *
149929 TTTATAATTTAAT
1 TTAAT-ATATAAT
*
149942 ATAA-ATATAATT
1 TTAATATATAA-T
*
149954 TTAATAT-T-TT
1 TTAATATATAAT
149964 TTAATTATATATAT
1 TTAA-TATATA-AT
149978 TTAATATATAAT
1 TTAATATATAAT
* *
149990 TTATTATTTAAT
1 TTAATATATAAT
* **
150002 ATAA-ATATTTT
1 TTAATATATAAT
150013 TTAATAT
1 TTAATAT
150020 TTTAATTTTA
Statistics
Matches: 76, Mismatches: 16, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
10 9 0.12
11 25 0.33
12 25 0.33
13 12 0.16
14 5 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTAATATATAAT
Found at i:153308 original size:40 final size:40
Alignment explanation
Indices: 153264--153344 Score: 96
Period size: 40 Copynumber: 2.0 Consensus size: 40
153254 CGATGGTTGC
*
153264 TTTCTCTTTCTTTTATTT-TTT-TGCTGTTTCGATTCTATT
1 TTTCTCTTTCTTTT-TTTCTTTCTGCTATTTCGATTCTATT
* *
153303 TTT-TCTTTCTTTTTTTCGTTTCTGTTATTTCGATTCTGTT
1 TTTCTCTTTCTTTTTTTC-TTTCTGCTATTTCGATTCTATT
153343 TT
1 TT
153345 CTTCCTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 3 0.08
38 10 0.28
39 6 0.17
40 17 0.47
ACGTcount: A:0.06, C:0.15, G:0.09, T:0.70
Consensus pattern (40 bp):
TTTCTCTTTCTTTTTTTCTTTCTGCTATTTCGATTCTATT
Found at i:153333 original size:14 final size:14
Alignment explanation
Indices: 153290--153344 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
153280 TTTTTTGCTG
*
153290 TTTCGATTCTATTT
1 TTTCGATTCTGTTT
*
153304 TTTC-TTTCT-TTT
1 TTTCGATTCTGTTT
* *
153316 TTTCGTTTCTGTTA
1 TTTCGATTCTGTTT
153330 TTTCGATTCTGTTT
1 TTTCGATTCTGTTT
153344 T
1 T
153345 CTTCCTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
12 7 0.20
13 9 0.26
14 19 0.54
ACGTcount: A:0.07, C:0.15, G:0.09, T:0.69
Consensus pattern (14 bp):
TTTCGATTCTGTTT
Found at i:153432 original size:69 final size:69
Alignment explanation
Indices: 153302--153433 Score: 162
Period size: 69 Copynumber: 1.9 Consensus size: 69
153292 TCGATTCTAT
* * * * *
153302 TTTTTCTTTCTTTTTTTCGTTTCTGTTATTTCGATTCTGTTTTCTTCCTTTTTCTTTTTTGCTAT
1 TTTTTCTTCCTTTTTTTCGTTTCTGCTATTTCAATTC-GCTTTCTTCCTTTTTCTTGTTTGCTAT
153367 TTTGA
65 TTTGA
153372 TTTTT-TTCCTTTTTTTCGTTTCTGCTATTTCAATTC-CTTTCTTCGCTTCCTTT-TTGTTTGCT
1 TTTTTCTTCCTTTTTTTCGTTTCTGCTATTTCAATTCGCTTTCTTC-CTT--TTTCTTGTTTGCT
153434 GCTTGATTGC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
67 7 0.13
68 3 0.06
69 36 0.67
70 8 0.15
ACGTcount: A:0.05, C:0.19, G:0.08, T:0.67
Consensus pattern (69 bp):
TTTTTCTTCCTTTTTTTCGTTTCTGCTATTTCAATTCGCTTTCTTCCTTTTTCTTGTTTGCTATT
TTGA
Found at i:153670 original size:29 final size:29
Alignment explanation
Indices: 153634--153701 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
153624 GTTTTGTTGG
**
153634 TGTCTTCATTACAATGGCAGTTTCTTTTT
1 TGTCTTCATTACAACAGCAGTTTCTTTTT
* * * *
153663 TGTTTTCATTGCTACAGCTGTTTCTTTTT
1 TGTCTTCATTACAACAGCAGTTTCTTTTT
153692 TGTCTTCATT
1 TGTCTTCATT
153702 GCTGCAGCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (29 bp):
TGTCTTCATTACAACAGCAGTTTCTTTTT
Found at i:153702 original size:29 final size:29
Alignment explanation
Indices: 153653--153710 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
153643 TACAATGGCA
*
153653 GTTTCTTTTTTGTTTTCATTGCTACAGCT
1 GTTTCTTTTTTGTCTTCATTGCTACAGCT
*
153682 GTTTCTTTTTTGTCTTCATTGCTGCAGCT
1 GTTTCTTTTTTGTCTTCATTGCTACAGCT
153711 TAATTGCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.09, C:0.19, G:0.16, T:0.57
Consensus pattern (29 bp):
GTTTCTTTTTTGTCTTCATTGCTACAGCT
Found at i:154885 original size:42 final size:42
Alignment explanation
Indices: 154830--154986 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 42
154820 GAGATAAAAC
* *
154830 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAAGTAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAA
* * * ** * **
154872 AATCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGGTGAGGT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAA
** * *
154914 AGTCTCCAGAATCAAAGCCAACAGGCAGATTGAAGGTAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAA
* * *
154956 AGTCTCCAAGGTCAAAGCTGGCAGGCAGACT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACT
154987 TTAGGTGAGG
Statistics
Matches: 86, Mismatches: 29, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (42 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAA
Found at i:154953 original size:84 final size:84
Alignment explanation
Indices: 154841--154996 Score: 231
Period size: 84 Copynumber: 1.9 Consensus size: 84
154831 GTCTCCAAGG
* * * *
154841 TCAAAGCCGACAGGCAGACTGAAAGTAAGAAAATCTCTAGGGTCAAAGCCGACAGGTAGACTTTA
1 TCAAAGCCAACAGGCAGACTGAAAGTAAGAAAATCTCCAAGGTCAAAGCCGACAGGCAGACTTTA
154906 GGTGAGGTAGTCTCCAGAA
66 GGTGAGGTAGTCTCCAGAA
* * * * *
154925 TCAAAGCCAACAGGCAGATTGAAGGTAAGAAAGTCTCCAAGGTCAAAGCTGGCAGGCAGACTTTA
1 TCAAAGCCAACAGGCAGACTGAAAGTAAGAAAATCTCCAAGGTCAAAGCCGACAGGCAGACTTTA
154990 GGTGAGG
66 GGTGAGG
154997 CAACAGACTG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.17
Consensus pattern (84 bp):
TCAAAGCCAACAGGCAGACTGAAAGTAAGAAAATCTCCAAGGTCAAAGCCGACAGGCAGACTTTA
GGTGAGGTAGTCTCCAGAA
Found at i:155047 original size:61 final size:61
Alignment explanation
Indices: 154939--155059 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
154929 AGCCAACAGG
* * **
154939 CAGATTGAAGGTAAGAAAGTCTCCAAGGTCAAAGCTGGCAGGCAGACTTTAGGTGAGGCAA
1 CAGACTGAAGGTAAGAAAGTCTCCAAAGTCAAAGCTAACAGGCAGACTTTAGGTGAGGCAA
* * *
155000 CAGACTGAAGGTAAGAAAGTTTCCAAAGTTAAAGCTAACAGGTAGACTTTAGGTGAGGCA
1 CAGACTGAAGGTAAGAAAGTCTCCAAAGTCAAAGCTAACAGGCAGACTTTAGGTGAGGCA
155060 GTCTCTAAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (61 bp):
CAGACTGAAGGTAAGAAAGTCTCCAAAGTCAAAGCTAACAGGCAGACTTTAGGTGAGGCAA
Found at i:155076 original size:42 final size:42
Alignment explanation
Indices: 155000--156950 Score: 956
Period size: 42 Copynumber: 46.4 Consensus size: 42
154990 GGTGAGGCAA
* * * * * * **
155000 CAGACTGAAGGTAAGAAAGTTTCCAAAGTTAAAGCTAACAGG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * *
155042 TAGACTTTAGGTGAGGCAGTCTCTAAGGTCAAAGCTGATAGG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * *
155084 TAGACTGAAGGT-AGGAAAGTCTCCAAGGTCAAAGTCC-ACAGG
1 CAGACTTAAGGTAAGG-AAGTCTCTAAGGTCAAAG-CCGACAGG
* * * * * *
155126 TAGACTTTAGGTGAGGTAGTCTCTAGGGTCAAAGCCGACAGT
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * ** * *
155168 TAGACTCAAGGGTAAAAAAGTCTCCAAGGTCAAAGCTGACAGG
1 CAGACTTAA-GGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * *
155211 CAGACTTAAGATAAGGCAGACTCTAGGGTCAAAGTCGACAAG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * *
155253 CATACTGAAGGT-AGGAAAGTCTGC-AGGGTCAAAGCCAACAGG
1 CAGACTTAAGGTAAGG-AAGTCT-CTAAGGTCAAAGCCGACAGG
* * * * *
155295 TAGACTTGAGGTAA-GCAGTCTCTAGGGTCAAAGCCGACAAG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
** * * *
155336 CAGA-TTGAAGGGTAAAAAAGTCACTAGGGTCAAAGCCGATAGG
1 CAGACTT-AA-GGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * *
155379 CAGACTTGAGATAA-GACAGTCTCCAAGGTCAAAGCCGACAGA
1 CAGACTTAAGGTAAGGA-AGTCTCTAAGGTCAAAGCCGACAGG
* ** * *
155421 CAGACTGAAGGTAAAAAAGTCTCTAGGGTCAAAGCCGATAGG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * * *
155463 CAGATTTTAGGTGAGGCAGTCTCTAGGGTTAAAGCCAACAGG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * *
155505 TAGACTTTAGGTGAGGTAGTCTCTAAAGTTAAAGCCGACAGG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * *
155547 CAGACTGAA-GTTAGGAAAGTCTCTAAGGTCAAAACCGACAGG
1 CAGACTTAAGGTAAGG-AAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * *
155589 CAGACTTTAGGTGAGGCAA-TCTCCAAAGTCAAAGTCGATAGG
1 CAGACTTAAGGTAAGG-AAGTCTCTAAGGTCAAAGCCGACAGG
* * *
155631 CAGACTAAAGGTAA-GAGAGTCT-TCAAGGTCAAAGCCGATAAG
1 CAGACTTAAGGTAAGGA-AGTCTCT-AAGGTCAAAGCCGACAGG
* * * * *
155673 CAGGCTAAAGGGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGG
1 CAGACTTAA-GGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * * *
155716 CAGACTTGAA-ATAAGGTAGTTTCCAAAGTCAAAGTCGATA--
1 CAGACTT-AAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * *
155756 -AGTACTGAAGGT-AGGAAAGTCTC-CAGAGTCAAAGCCGATAGG
1 CAG-ACTTAAGGTAAGG-AAGTCTCTAAG-GTCAAAGCCGACAGG
* * * * *
155798 CAGACTTGAGATAAGGCAGTCTTTAAGGTCAAAGCCGACAAG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * *
155840 CAGACTTAAGATGAGGCAGTCTCCAAGGTCAAAGCTGACAAG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * *
155882 CAGGCTGAAGGGTAAGAAAGTGTCCAAGGTCAAAGCCGACAGG
1 CAGACTTAA-GGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * * *
155925 CAGGCTTTAGGTGAGGTAGTCTCCAAGGTTAAAGCTGACAGG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * *
155967 GAGA-TTAAAGGTAAGAAAGTCTCTAAGGTCAAAGTCAATAGG
1 CAGACTT-AAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * *
156009 CAGACTGAAAGTAAGAAAGTCTCTAAAGACAAAGCTGACAGG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * *
156051 CAGACTTTAGATGAGGCAA-TCTCTAAGGTCAAAGTCAACAGG
1 CAGACTTAAGGTAAGG-AAGTCTCTAAGGTCAAAGCCGACAGG
*
156093 CAGA-TTAAAGGT-AGGAAAGTCTCTAAGGTCAAAACCGACAGG
1 CAGACTT-AAGGTAAGG-AAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * * *
156135 TAGACTTTAGGT-GGTGCAGTCTCCAAGGTCAAAACCGATAGG
1 CAGACTTAAGGTAAG-GAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * *
156177 CAGACTGAAGGT-AGGAAAGTCTCCAAGGTCAAGGCCGACTGA
1 CAGACTTAAGGTAAGG-AAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * *
156219 CAGACTTTAA-GTGAGGCATTCTCTAGGGTAAAAGTCGACAGG
1 CAGAC-TTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* ** * * * * *
156261 TAGACGGAAAGGTAAGAAAATCTCCATGGTCAAAGCCGACAAG
1 CAGAC-TTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * *
156304 CAGACTTGAA-ATAAGGTAA-TCTCCAAGGTCAAAGCCGATAGG
1 CAGACTT-AAGGTAAGG-AAGTCTCTAAGGTCAAAGCCGACAGG
* *
156346 CAGAC-TAGAGGTTGAA--AAGTCT-TCAAGGTCAAAGCCGGCAAG
1 CAGACTTA-AGG-T-AAGGAAGTCTCT-AAGGTCAAAGCCGACAGG
* * * * * * * * *
156388 CAAACTTGAGATGAGGCAGTCTCTAGGGTAAAAACCAACTA-G
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGAC-AGG
* * ** * *
156430 TAGACTGAAAGGTAAAAAAGTCTCTAGGGTCACAGCCGACAGAG
1 CAGACT-TAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAG-G
* * * * *
156474 -AGACTTGAGATAA-GACAATCTCCATGGTCAAAGCCGACAGG
1 CAGACTTAAGGTAAGGA-AGTCTCTAAGGTCAAAGCCGACAGG
* * * * * * ** * *
156515 AAAACTGAAGGGTAAGAAAGCCTCCAAAATCAAAGCCAATAGG
1 CAGACTTAA-GGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * *
156558 CAGACTTTAGATGAA-GCAGTCTCTAGGGTCAAAGCTGACATG
1 CAGACTTAAGGT-AAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* ** * * *
156600 CAGACTAAAGGTAAAAAAGTCTCCAGGGTCAAAGCTGACAGG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * *
156642 CAGACTTTAGGTGA-GACAGTCTCTAAGGTCAAAGTCGACAGG
1 CAGACTTAAGGTAAGGA-AGTCTCTAAGGTCAAAGCCGACAGG
* * * * * *
156684 CAAACTAAAAGT-AGGAAAGTCTCCAAGGTTAAAGCCGATAGG
1 CAGACTTAAGGTAAGG-AAGTCTCTAAGGTCAAAGCCGACAGG
* ** * ** *
156726 CAGACTGATA-GTAAAAAAGTCTCTAGGGTCAAAGCTAACAAG
1 CAGACTTA-AGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * *
156768 CAGACTTGAGATAAGGCAGTCTGTAGGGTCAAAGCCTACAGG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * *
156810 CAGACTAAAGG-GAGGAAAGTCTCCAAGGTCAAAGTCGATAGG
1 CAGACTTAAGGTAAGG-AAGTCTCTAAGGTCAAAGCCGACAGG
* * * * * * * * *
156852 CAAACTTGAGATGAGGTAGTCTCTAGGGTCAAAGTCAATAGG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* * * * *
156894 CA-ACTGAGGGTAAGAAAGTCTCTAGGGTCAAAGTCGACAGG
1 CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
* *
156935 TAGACTAAAGGGTAAG
1 CAGACTTAA-GGTAAG
156951 AAAATTCATA
Statistics
Matches: 1431, Mismatches: 401, Indels: 153
0.72 0.20 0.08
Matches are distributed among these distances:
39 8 0.01
40 27 0.02
41 97 0.07
42 1031 0.72
43 259 0.18
44 9 0.01
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (42 bp):
CAGACTTAAGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGG
Found at i:155147 original size:84 final size:84
Alignment explanation
Indices: 155000--156731 Score: 1200
Period size: 84 Copynumber: 20.6 Consensus size: 84
154990 GGTGAGGCAA
* * * * ** * * *
155000 CAGACTGAAGGTAAGAAAGTTTCCAAAGTTAAAGCTAACAGGTAGACTTTAGGTGAGGCAGTCTC
1 CAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTCTC
* *
155065 TAAGGTCAAAGCTGATAGG
66 TAAGGTCAAAGCCGACAGG
* * * * *
155084 TAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGTCC-ACAGGTAGACTTTAGGTGAGGTAGTCT
1 CAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAG-CCGACAGGCAGACTTGAGGTAAGGCAGTCT
* *
155148 CTAGGGTCAAAGCCGACAGT
65 CTAAGGTCAAAGCCGACAGG
* * ** * * * *
155168 TAGACTCAAGGGTAAAAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTAAGATAAGGCAGACT
1 CAGACTGAA-GGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTCT
* * *
155233 CTAGGGTCAAAGTCGACAAG
65 CTAAGGTCAAAGCCGACAGG
* * * * *
155253 CATACTGAAGGTAGGAAAGTCTGCAGGGTCAAAGCCAACAGGTAGACTTGAGGTAA-GCAGTCTC
1 CAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTCTC
* *
155317 TAGGGTCAAAGCCGACAAG
66 TAAGGTCAAAGCCGACAGG
* ** * * * * * *
155336 CAGATTGAAGGGTAAAAAAGTCACTAGGGTCAAAGCCGATAGGCAGACTTGAGATAAGACAGTCT
1 CAGACTGAA-GGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTCT
* *
155401 CCAAGGTCAAAGCCGACAGA
65 CTAAGGTCAAAGCCGACAGG
** * * * * * *
155421 CAGACTGAAGGTAAAAAAGTCTCTAGGGTCAAAGCCGATAGGCAGATTTTAGGTGAGGCAGTCTC
1 CAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTCTC
* * *
155486 TAGGGTTAAAGCCAACAGG
66 TAAGGTCAAAGCCGACAGG
* ** * * * * * * *
155505 TAGACTTTAGGTGAGG-TAGTCTCTAAAGTTAAAGCCGACAGGCAGAC-TGAAGTTAGGAAAGTC
1 CAGACTGAAGGT-AGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGG-CAGTC
*
155568 TCTAAGGTCAAAACCGACAGG
64 TCTAAGGTCAAAGCCGACAGG
** * * * * **
155589 CAGACTTTAGGTGAGGCAA-TCTCCAAAGTCAAAGTCGATAGGCAGACTAAAGGTAAGAG-AGTC
1 CAGACTGAAGGT-AGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAG-GCAGTC
* *
155652 T-TCAAGGTCAAAGCCGATAAG
64 TCT-AAGGTCAAAGCCGACAGG
* * * * ** * *
155673 CAGGCTAAAGGGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTGAAATAAGGTAGTTT
1 CAGACTGAA-GGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTCT
* * * *
155738 CCAAAGTCAAAGTCGATA--
65 CTAAGGTCAAAGCCGACAGG
* *
155756 -AGTACTGAAGGTAGGAAAGTCTCC-AGAGTCAAAGCCGATAGGCAGACTTGAGATAAGGCAGTC
1 CAG-ACTGAAGGTAGGAAAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTC
* *
155819 TTTAAGGTCAAAGCCGACAAG
64 TCTAAGGTCAAAGCCGACAGG
* * * * * * **
155840 CAGACTTAAGATGAGG-CAGTCTCCAAGGTCAAAGCTGACAAGCAGGC-TGAAGGGTAAGAAAGT
1 CAGACTGAAGGT-AGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTG-A-GGTAAGGCAGT
* *
155903 GTCCAAGGTCAAAGCCGACAGG
63 CTCTAAGGTCAAAGCCGACAGG
* ** * * * * * **
155925 CAGGCTTTAGGTGAGG-TAGTCTCCAAGGTTAAAGCTGACAGGGAGA-TTAAAGGTAAGAAAGTC
1 CAGACTGAAGGT-AGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTT-GAGGTAAGGCAGTC
* * *
155988 TCTAAGGTCAAAGTCAATAGG
64 TCTAAGGTCAAAGCCGACAGG
* * * * * * * * * *
156009 CAGACTGAAAGTAAGAAAGTCTCTAAAGACAAAGCTGACAGGCAGACTTTAGATGAGGCAATCTC
1 CAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTCTC
* *
156074 TAAGGTCAAAGTCAACAGG
66 TAAGGTCAAAGCCGACAGG
* * * * * * *
156093 CAGATTAAAGGTAGGAAAGTCTCTAAGGTCAAAACCGACAGGTAGACTTTAGGT-GGTGCAGTCT
1 CAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAG-GCAGTCT
* * *
156157 CCAAGGTCAAAACCGATAGG
65 CTAAGGTCAAAGCCGACAGG
* * * * * * *
156177 CAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAGGCCGACTGACAGACTTTAAGTGAGGCATTCTC
1 CAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTCTC
* * *
156242 TAGGGTAAAAGTCGACAGG
66 TAAGGTCAAAGCCGACAGG
* * * * * * ** * *
156261 TAGACGGAAAGGTAAGAAAATCTCCATGGTCAAAGCCGACAAGCAGACTTGAAATAAGGTAATCT
1 CAGACTG-AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTCT
* *
156326 CCAAGGTCAAAGCCGATAGG
65 CTAAGGTCAAAGCCGACAGG
* * * * * * * *
156346 CAGACT-AGAGGTTGAAAAGTCTTCAAGGTCAAAGCCGGCAAGCAAACTTGAGATGAGGCAGTCT
1 CAGACTGA-AGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTCT
* * * *
156410 CTAGGGTAAAAACCAACTA-G
65 CTAAGGTCAAAGCCGAC-AGG
* ** * * * * * *
156430 TAGACTGAAAGGTAAAAAAGTCTCTAGGGTCACAGCCGACAGAG-AGACTTGAGATAAGACAATC
1 CAGACTG-AAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAG-GCAGACTTGAGGTAAGGCAGTC
* *
156494 TCCATGGTCAAAGCCGACAGG
64 TCTAAGGTCAAAGCCGACAGG
* * * * ** * * * *
156515 AAAACTGAAGGGTAAGAAAGCCTCCAAAATCAAAGCCAATAGGCAGACTTTAGATGAA-GCAGTC
1 CAGACTGAA-GGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGT-AAGGCAGTC
* * *
156579 TCTAGGGTCAAAGCTGACATG
64 TCTAAGGTCAAAGCCGACAGG
* ** * * * * *
156600 CAGACTAAAGGTAAAAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTAGGTGAGACAGTCTC
1 CAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTCTC
*
156665 TAAGGTCAAAGTCGACAGG
66 TAAGGTCAAAGCCGACAGG
* * * * *
156684 CAAACTAAAAGTAGGAAAGTCTCCAAGGTTAAAGCCGATAGGCAGACT
1 CAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACT
156732 GATAGTAAAA
Statistics
Matches: 1298, Mismatches: 309, Indels: 82
0.77 0.18 0.05
Matches are distributed among these distances:
81 2 0.00
82 61 0.05
83 51 0.04
84 762 0.59
85 417 0.32
86 5 0.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (84 bp):
CAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGGCAGTCTC
TAAGGTCAAAGCCGACAGG
Found at i:156405 original size:169 final size:169
Alignment explanation
Indices: 156154--156721 Score: 483
Period size: 169 Copynumber: 3.4 Consensus size: 169
156144 GGTGGTGCAG
* * * *
156154 TCTCCAAGGTCAAAACCGATAGGCAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAGGCCGACTGA
1 TCTCCAAGGTCAAAGCCGATAGGCAGACTGAAGGTAGAAAAGTCTCCAAGGTCAAAGCCGACAGA
* * * ** *
156219 CAGACTTTAAGTGAGGCATTCTCTAGGGTAAAAGTCGAC-AGGTAGACGGAAAGGTAAGAAAA-T
66 CAAACTTGAAGTGAGGCAGTCTCTAGGGTAAAAACCAACTA-GTAGACGGAAAGGTAA-AAAAGT
* **
156282 CTCCATGGTCAAAGCCGACA-AGCAGACTTGAAATAAGGTAA
129 CTCCAGGGTCAAAGCCGACAGAG-AGACTTGAAATAAGACAA
* * *
156323 TCTCCAAGGTCAAAGCCGATAGGCAGACT-AGAGGTTGAAAAGTCTTCAAGGTCAAAGCCGGCA-
1 TCTCCAAGGTCAAAGCCGATAGGCAGACTGA-AGGTAGAAAAGTCTCCAAGGTCAAAGCCGACAG
*
156386 AGCAAACTTG-AGATGAGGCAGTCTCTAGGGTAAAAACCAACTAGTAGACTGAAAGGTAAAAAAG
65 A-CAAACTTGAAG-TGAGGCAGTCTCTAGGGTAAAAACCAACTAGTAGACGGAAAGGTAAAAAAG
* * *
156450 TCTCTAGGGTCACAGCCGACAGAGAGACTTGAGATAAGACAA
128 TCTCCAGGGTCAAAGCCGACAGAGAGACTTGAAATAAGACAA
* * * * * ** * *
156492 TCTCCATGGTCAAAGCCGACAGGAAAACTGAAGGGTA-AGAAAGCCTCCAAAATCAAAGCCAATA
1 TCTCCAAGGTCAAAGCCGATAGGCAGACTGAA-GGTAGA-AAAGTCTCCAAGGTCAAAGCCGACA
* * * * * * ** * *
156556 GGCAGACTT-TAGATGAAGCAGTCTCTAGGGTCAAAGCTGAC-ATGCAGAC-TAAAGGTAAAAAA
64 GACAAACTTGAAG-TGAGGCAGTCTCTAGGGTAAAAACCAACTA-GTAGACGGAAAGGTAAAAAA
* * ** * *
156618 GTCTCCAGGGTCAAAGCTGACAG-GCAGACTTTAGGTGAGACAG
127 GTCTCCAGGGTCAAAGCCGACAGAG-AGACTTGAAATAAGACAA
* * * * * * * *
156661 TCTCTAAGGTCAAAGTCGACAGGCAAACTAAAAGTAGGAAAGTCTCCAAGGTTAAAGCCGA
1 TCTCCAAGGTCAAAGCCGATAGGCAGACTGAAGGTAGAAAAGTCTCCAAGGTCAAAGCCGA
156722 TAGGCAGACT
Statistics
Matches: 325, Mismatches: 60, Indels: 29
0.79 0.14 0.07
Matches are distributed among these distances:
168 30 0.09
169 233 0.72
170 62 0.19
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (169 bp):
TCTCCAAGGTCAAAGCCGATAGGCAGACTGAAGGTAGAAAAGTCTCCAAGGTCAAAGCCGACAGA
CAAACTTGAAGTGAGGCAGTCTCTAGGGTAAAAACCAACTAGTAGACGGAAAGGTAAAAAAGTCT
CCAGGGTCAAAGCCGACAGAGAGACTTGAAATAAGACAA
Found at i:157035 original size:44 final size:43
Alignment explanation
Indices: 156964--157083 Score: 131
Period size: 44 Copynumber: 2.7 Consensus size: 43
156954 ATTCATATGG
* *
156964 TTTGACTAGGGTAG-AACCATCACGTCAAAT-AGAA-AGAAAGAGGA
1 TTTGACTAGGGTGGTAACCA-CATGTCAAATCAGAAGAGAAA-A--A
*
157008 TTTGACTAGGGTGGTAACCAGATGTCAAATCAGAATGAGAAAAA
1 TTTGACTAGGGTGGTAACCACATGTCAAATCAGAA-GAGAAAAA
157052 TCTT-ACTAGGGTGGTAACCACATGTCAAATCA
1 T-TTGACTAGGGTGGTAACCACATGTCAAATCA
157084 AAAATGATGG
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
44 50 0.75
45 11 0.16
46 1 0.01
47 5 0.07
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (43 bp):
TTTGACTAGGGTGGTAACCACATGTCAAATCAGAAGAGAAAAA
Found at i:161602 original size:30 final size:30
Alignment explanation
Indices: 161567--161627 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
161557 ACTTATTCTT
*
161567 TTATCTTCAAAAGCATCTTTAGTTTCATTC
1 TTATCTTCAAAAGCATCTCTAGTTTCATTC
161597 TTATCTTCAAAAGCATCTCTAGTTTCATTC
1 TTATCTTCAAAAGCATCTCTAGTTTCATTC
161627 T
1 T
161628 CCTTAACTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.46
Consensus pattern (30 bp):
TTATCTTCAAAAGCATCTCTAGTTTCATTC
Found at i:168070 original size:17 final size:16
Alignment explanation
Indices: 168048--168112 Score: 78
Period size: 16 Copynumber: 4.0 Consensus size: 16
168038 AAACCAGCCA
*
168048 ACCTGAAACCCGAAATG
1 ACCTG-AACCTGAAATG
*
168065 ACCTGAACTTGAAATG
1 ACCTGAACCTGAAATG
*
168081 ACCCGAACCTGAAATG
1 ACCTGAACCTGAAATG
168097 ATCC-GAACCTGAAATG
1 A-CCTGAACCTGAAATG
168113 GCTCGGACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
16 36 0.84
17 7 0.16
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.17
Consensus pattern (16 bp):
ACCTGAACCTGAAATG
Found at i:171852 original size:11 final size:10
Alignment explanation
Indices: 171831--171876 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
171821 TAATCCCAAG
171831 TTTTTTCTTT
1 TTTTTTCTTT
*
171841 CTTTTTCTTT
1 TTTTTTCTTT
*
171851 TCTTTCTCTTT
1 T-TTTTTCTTT
171862 TTTTTT-TTT
1 TTTTTTCTTT
171871 TTTTTT
1 TTTTTT
171877 TGCGTCAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
9 9 0.29
10 13 0.42
11 9 0.29
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:171877 original size:11 final size:11
Alignment explanation
Indices: 171832--171876 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
171822 AATCCCAAGT
171832 TTTTTC-TTTC
1 TTTTTCTTTTC
171842 TTTTTCTTTTC
1 TTTTTCTTTTC
*
171853 TTTCTCTTTT-
1 TTTTTCTTTTC
171863 TTTTT-TTTT-
1 TTTTTCTTTTC
171872 TTTTT
1 TTTTT
171877 TGCGTCAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
9 9 0.28
10 10 0.31
11 13 0.41
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:172353 original size:37 final size:36
Alignment explanation
Indices: 172298--172423 Score: 132
Period size: 37 Copynumber: 3.5 Consensus size: 36
172288 TTTCTTTTAT
* *
172298 TTTCTTGCTGTTTCGATTCTATTTTTTTCTTTTTTTCA
1 TTTC-TGCTATTTCGATTCT-TTTTTTTCTTTTTTTCG
* *
172336 TTTCTGCTATTTCGATTCTGTTTTCTTCCTTTTTT-G
1 TTTCTGCTATTTCGATTCT-TTTTTTTCTTTTTTTCG
* ** *
172372 TTTCTGTTATTTTAATTC--TTTTTCCTTTTTTTCG
1 TTTCTGCTATTTCGATTCTTTTTTTTCTTTTTTTCG
172406 TTTCTGCTATTTCGATTC
1 TTTCTGCTATTTCGATTC
172424 CTCTCTTCTC
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
33 11 0.15
34 16 0.22
36 15 0.21
37 27 0.37
38 4 0.05
ACGTcount: A:0.08, C:0.17, G:0.09, T:0.66
Consensus pattern (36 bp):
TTTCTGCTATTTCGATTCTTTTTTTTCTTTTTTTCG
Found at i:172409 original size:34 final size:33
Alignment explanation
Indices: 172321--172423 Score: 116
Period size: 34 Copynumber: 3.0 Consensus size: 33
172311 CGATTCTATT
* *
172321 TTTTTCTTTTTTTCATTTCTGCTATTTCGATTC
1 TTTTTCTTTTTTTCGTTTCTGCTATTTCAATTC
* * *
172354 TGTTTTCTTCCTTTTTTGTTTCTGTTATTTTAATTC
1 T-TTTTCTT--TTTTTCGTTTCTGCTATTTCAATTC
*
172390 TTTTTCCTTTTTTTCGTTTCTGCTATTTCGATTC
1 TTTTT-CTTTTTTTCGTTTCTGCTATTTCAATTC
172424 CTCTCTTCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
33 1 0.02
34 28 0.49
35 4 0.07
36 24 0.42
ACGTcount: A:0.08, C:0.17, G:0.08, T:0.67
Consensus pattern (33 bp):
TTTTTCTTTTTTTCGTTTCTGCTATTTCAATTC
Found at i:172463 original size:70 final size:69
Alignment explanation
Indices: 172320--172463 Score: 166
Period size: 70 Copynumber: 2.1 Consensus size: 69
172310 TCGATTCTAT
* * * * * *
172320 TTTTTTCTTTTTTTCATTTCTGCTATTTCGATTCTGTTTTCTTCCTTTTTTGTTTCTGTTATTTT
1 TTTTTCCTTTTTTTCATTTCTGCTATTTCGATTCTCTCTTCTCCCTTTTTTGTTTCTGCTATGTT
*
172385 AATTC
66 -ATGC
*
172390 TTTTTCCTTTTTTTCGTTTCTGCTATTTCGATTCCTCTCTTCTCCTCTTTTTTGTTTGCTGCT-T
1 TTTTTCCTTTTTTTCATTTCTGCTATTTCGATT-CTCTCTTCTCC-CTTTTTTGTTT-CTGCTAT
172454 GTT-TGC
63 GTTATGC
172460 TTTT
1 TTTT
172464 ATAGCAGCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
70 37 0.59
71 8 0.13
72 14 0.22
73 4 0.06
ACGTcount: A:0.06, C:0.19, G:0.09, T:0.66
Consensus pattern (69 bp):
TTTTTCCTTTTTTTCATTTCTGCTATTTCGATTCTCTCTTCTCCCTTTTTTGTTTCTGCTATGTT
ATGC
Found at i:172664 original size:29 final size:29
Alignment explanation
Indices: 172630--172723 Score: 125
Period size: 29 Copynumber: 3.2 Consensus size: 29
172620 TTCATTTTGT
* **
172630 AGCAGCTGTTTCGTTAGTGTCTTCATTGC
1 AGCAGCTGTTTCTTTTTTGTCTTCATTGC
* *
172659 AGCAGCGGTTTCTTTTTTATCTTCATTGC
1 AGCAGCTGTTTCTTTTTTGTCTTCATTGC
*
172688 TGCAGCTGTTTCTTTTTTGTCTTCATTGC
1 AGCAGCTGTTTCTTTTTTGTCTTCATTGC
*
172717 ATCAGCT
1 AGCAGCT
172724 TAATTGCTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (29 bp):
AGCAGCTGTTTCTTTTTTGTCTTCATTGC
Found at i:173266 original size:8 final size:8
Alignment explanation
Indices: 173255--173313 Score: 68
Period size: 8 Copynumber: 7.5 Consensus size: 8
173245 TAATTATTAC
173255 TATTTTAT
1 TATTTTAT
*
173263 TATTATAT
1 TATTTTAT
*
173271 TTTTATTAT
1 TATT-TTAT
173280 TATTTTAT
1 TATTTTAT
173288 T-TTTTAT
1 TATTTTAT
173295 T-TTTTAT
1 TATTTTAT
*
173302 TTTTTTAT
1 TATTTTAT
173310 TATT
1 TATT
173314 CATGTTGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
7 14 0.32
8 24 0.55
9 6 0.14
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TATTTTAT
Found at i:173266 original size:14 final size:14
Alignment explanation
Indices: 173247--173302 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
173237 TAATTGATTA
173247 ATTATTACTA-TTTT
1 ATTATTA-TATTTTT
173261 ATTATTATATTTTT
1 ATTATTATATTTTT
173275 ATTATTAT-TTTATT
1 ATTATTATATTT-TT
173289 -TT-TTAT-TTTTT
1 ATTATTATATTTTT
173300 ATT
1 ATT
173303 TTTTTATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.05
12 9 0.23
13 7 0.18
14 21 0.54
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTATTATATTTTT
Found at i:173277 original size:25 final size:25
Alignment explanation
Indices: 173248--173313 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
173238 AATTGATTAA
173248 TTATTACTATTTTATTATTATA-TTT
1 TTATTA-TATTTTATTATTATATTTT
*
173273 TTATTATTATTTTATT-TTTTATTTT
1 TTATTA-TATTTTATTATTATATTTT
173298 TTATT-T-TTTTATTATT
1 TTATTATATTTTATTATT
173314 CATGTTGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
22 7 0.19
23 3 0.08
24 4 0.11
25 23 0.62
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.76
Consensus pattern (25 bp):
TTATTATATTTTATTATTATATTTT
Found at i:173303 original size:14 final size:15
Alignment explanation
Indices: 173257--173313 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
173247 ATTATTACTA
*
173257 TTTTATTATTATATTT
1 TTTTATTATTTTA-TT
173273 TTATTATTATTTTATT
1 TT-TTATTATTTTATT
173289 TTTTATT-TTTTATTT
1 TTTTATTATTTTA-TT
173304 TTTTATTATT
1 TTTTATTATT
173314 CATGTTGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
14 5 0.14
15 14 0.38
16 8 0.22
17 10 0.27
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTATTTTATT
Found at i:179021 original size:13 final size:12
Alignment explanation
Indices: 179000--179052 Score: 56
Period size: 13 Copynumber: 4.3 Consensus size: 12
178990 AAAAAGAATT
179000 TTTTATTATTTTA
1 TTTT-TTATTTTA
179013 TTTTGTTA--TTA
1 TTTT-TTATTTTA
179024 TTTTTTATTTTTA
1 TTTTTTA-TTTTA
*
179037 TTTTTTATTTAA
1 TTTTTTATTTTA
179049 TTTT
1 TTTT
179053 AATTTTGTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
10 3 0.09
11 7 0.20
12 8 0.23
13 17 0.49
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:179023 original size:16 final size:15
Alignment explanation
Indices: 178997--179046 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 15
178987 ATGAAAAAGA
178997 ATTTTTTATTATTTT
1 ATTTTTTATTATTTT
179012 ATTTTGTTATTATTTT
1 ATTTT-TTATTATTTT
*
179028 TTATTTTTATT-TTTT
1 AT-TTTTTATTATTTT
179043 ATTT
1 ATTT
179047 AATTTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 2 0.06
15 10 0.32
16 16 0.52
17 3 0.10
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (15 bp):
ATTTTTTATTATTTT
Found at i:179044 original size:23 final size:26
Alignment explanation
Indices: 178997--179045 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
178987 ATGAAAAAGA
178997 ATTTTTTATTATTTTATTTTGTTATT
1 ATTTTTTATTATTTTATTTTGTTATT
179023 ATTTTTTA-T-TTTTATTTT-TTATT
1 ATTTTTTATTATTTTATTTTGTTATT
179046 TAATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 9 0.39
25 1 0.04
26 8 0.35
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (26 bp):
ATTTTTTATTATTTTATTTTGTTATT
Found at i:180956 original size:138 final size:138
Alignment explanation
Indices: 180793--181357 Score: 1015
Period size: 138 Copynumber: 4.1 Consensus size: 138
180783 AACCCCCCCA
* *
180793 CATG-TTGCATGCTTTATGATTTTCTCCATGTGGGCTCCAATTCATTTTGTTTGCCATATGTTTC
1 CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
*
180857 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTACTTTGCTTTCTTTCCATTTGCTT
66 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
180922 GTGTTCCT
131 GTGTTCCT
*
180930 CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTTCAATTCATTTTGTTTGCCATATGTTTC
1 CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
* *
180995 TTCATGATTTGTATCTCCTATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
66 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
181060 GTGTTCCT
131 GTGTTCCT
* *
181068 CATGATTGCATGCTTCATGATTTTCTCTATGTGGGCTCCAATTCATTTTGTTTGCCATATGTTTC
1 CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
* * *
181133 TTCATGATTTGCGTCTCCCATCATTTTTTCATTTGCACATTGCTTTGCTTTCTTTCCATTTGCTT
66 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
181198 GTGTTCCT
131 GTGTTCCT
*
181206 CATGATTACATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
1 CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
181271 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
66 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
181336 GTGTTCCT
131 GTGTTCCT
181344 CATGATTGCATGCT
1 CATGATTGCATGCT
181358 ACATTGCATT
Statistics
Matches: 406, Mismatches: 21, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
137 4 0.01
138 402 0.99
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (138 bp):
CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
GTGTTCCT
Found at i:185274 original size:7 final size:7
Alignment explanation
Indices: 185254--185285 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
185244 CATTTAGTAG
185254 ATAATAT
1 ATAATAT
185261 AATAATAT
1 -ATAATAT
185269 ATAATAT
1 ATAATAT
185276 ATAATAT
1 ATAATAT
185283 ATA
1 ATA
185286 TCACTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATAATAT
Found at i:189109 original size:12 final size:12
Alignment explanation
Indices: 189094--189118 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
189084 GATAAAAAAG
189094 TTATCATTATGT
1 TTATCATTATGT
189106 TTATCATTATGT
1 TTATCATTATGT
189118 T
1 T
189119 ATAAGAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TTATCATTATGT
Found at i:190765 original size:2 final size:2
Alignment explanation
Indices: 190760--190802 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
190750 GAATGTGTGC
190760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
190802 A
1 A
190803 AGAAGTGCAG
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:193102 original size:22 final size:22
Alignment explanation
Indices: 193074--193118 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
193064 TTTTTAATGT
193074 ATTTAAAT-ATAATTATTATTTA
1 ATTTAAATAATAATTA-TATTTA
193096 ATTTAAATAATAATTATATTTA
1 ATTTAAATAATAATTATATTTA
193118 A
1 A
193119 ATATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTAAATAATAATTATATTTA
Found at i:193125 original size:10 final size:11
Alignment explanation
Indices: 193106--193151 Score: 57
Period size: 10 Copynumber: 4.6 Consensus size: 11
193096 ATTTAAATAA
193106 TAAT-TATATT
1 TAATATATATT
193116 TAA-ATATATT
1 TAATATATATT
193126 TAATATATATT
1 TAATATATATT
193137 T--TATA-ATT
1 TAATATATATT
193145 TAATATA
1 TAATATA
193152 AATATAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 4 0.12
9 4 0.12
10 16 0.50
11 8 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TAATATATATT
Found at i:193129 original size:23 final size:20
Alignment explanation
Indices: 193103--193149 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 20
193093 TTAATTTAAA
193103 TAATAATTATATTTAAATATATT
1 TAATAA-TATATTT-AATA-ATT
*
193126 TAAT-ATATATTTTATAATT
1 TAATAATATATTTAATAATT
193145 TAATA
1 TAATA
193150 TAAATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 7 0.32
20 3 0.14
21 7 0.32
22 1 0.05
23 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATAATATATTTAATAATT
Found at i:193149 original size:28 final size:28
Alignment explanation
Indices: 193109--193211 Score: 86
Period size: 28 Copynumber: 3.5 Consensus size: 28
193099 TAAATAATAA
193109 TTAT-ATTTAAATATATTTAATATATATT
1 TTATAATTT-AATATATTTAATATATATT
* *
193137 TTATAATTTAATATAAATATAATTTCAATACTT
1 TTATAATTTAATAT--ATTTAATAT--ATA-TT
*
193170 TT-TAATTATAA-ATATTTAATATATAAT
1 TTATAATT-TAATATATTTAATATATATT
*
193197 TTATTATTTAATATA
1 TTATAATTTAATATA
193212 AATATTTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
27 6 0.10
28 19 0.32
29 4 0.07
30 14 0.23
32 10 0.17
33 7 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATAATTTAATATATTTAATATATATT
Found at i:193206 original size:19 final size:19
Alignment explanation
Indices: 193182--193246 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 19
193172 TAATTATAAA
193182 TATTTAATATATAATTTAT
1 TATTTAATATATAATTTAT
193201 TATTTAATATA-AA--TAT
1 TATTTAATATATAATTTAT
* *
193217 TTTTTAATATTTAAATTTTAT
1 TATTTAATATAT-AA-TTTAT
193238 TATTATAAT
1 TATT-TAAT
193247 CACATTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 12 0.32
18 4 0.11
19 11 0.30
21 6 0.16
22 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTAATATATAATTTAT
Found at i:193217 original size:16 final size:16
Alignment explanation
Indices: 193073--193226 Score: 65
Period size: 16 Copynumber: 9.6 Consensus size: 16
193063 TTTTTTAATG
*
193073 TATTTAAATATAATTAT
1 TATTT-AATATAAATAT
* *
193090 TATTTAATTTAAATAA
1 TATTTAATATAAATAT
* *
193106 TAATTATATTTAAATA-
1 TATTTA-ATATAAATAT
*
193122 TATTTAATATATATTTTAT
1 TATTTAATATA-A--ATAT
*
193141 AATTTAATATAAATAT
1 TATTTAATATAAATAT
* * *
193157 AATTTCA-AT--A-CT
1 TATTTAATATAAATAT
193169 T-TTTAAT-TATAA-A-
1 TATTTAATATA-AATAT
193182 TATTTAATATATAATTTAT
1 TATTTAATATA-AA--TAT
193201 TATTTAATATAAATAT
1 TATTTAATATAAATAT
*
193217 TTTTTAATAT
1 TATTTAATAT
193227 TTAAATTTTA
Statistics
Matches: 107, Mismatches: 15, Indels: 31
0.70 0.10 0.20
Matches are distributed among these distances:
11 5 0.05
12 1 0.01
13 2 0.02
14 7 0.07
15 11 0.10
16 40 0.37
17 14 0.13
18 6 0.06
19 21 0.20
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTAATATAAATAT
Found at i:193821 original size:15 final size:13
Alignment explanation
Indices: 193799--193835 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
193789 AAAATATGCC
193799 AAAAAAAAAGTATA
1 AAAAAAAAAGTA-A
193813 AAAAGAAAAAGTAA
1 AAAA-AAAAAGTAA
193827 AAAAAAAAA
1 AAAAAAAAA
193836 AAAAGAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 9 0.41
15 8 0.36
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAAAAAGTAA
Found at i:193836 original size:15 final size:15
Alignment explanation
Indices: 193799--193837 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
193789 AAAATATGCC
*
193799 AAAAAAAAAGTATAA
1 AAAAAAAAAGTAAAA
*
193814 AAAGAAAAAGTAAAA
1 AAAAAAAAAGTAAAA
193829 AAAAAAAAA
1 AAAAAAAAA
193838 AAGAGTAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAAAAGTAAAA
Found at i:194218 original size:2 final size:2
Alignment explanation
Indices: 194164--194203 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
194154 TTACTTGTTG
194164 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
194204 TGCATTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:194618 original size:21 final size:21
Alignment explanation
Indices: 194592--194640 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
194582 AATTAAATAC
194592 AAATAATTTTA-TTAATTTAAT
1 AAATAATTTTATTTAATTT-AT
*
194613 AAATAAATTTATTTAATTTAT
1 AAATAATTTTATTTAATTTAT
*
194634 TAATAAT
1 AAATAAT
194641 ATATAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATAATTTTATTTAATTTAT
Found at i:195693 original size:24 final size:24
Alignment explanation
Indices: 195666--195713 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
195656 GAGAAGAAAG
195666 AGCACAATGATATTAAAGTTGATC
1 AGCACAATGATATTAAAGTTGATC
*
195690 AGCACATTGATATTAAAGTTGATC
1 AGCACAATGATATTAAAGTTGATC
195714 TTCGTGCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (24 bp):
AGCACAATGATATTAAAGTTGATC
Found at i:200354 original size:7 final size:7
Alignment explanation
Indices: 200337--200372 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
200327 TTGTCATATC
200337 TTATTTCT
1 TTATTT-T
200345 TTATTTT
1 TTATTTT
200352 TTATTTT
1 TTATTTT
200359 TTAATTTT
1 TT-ATTTT
200367 TTATTT
1 TTATTT
200373 GACCAAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 14 0.52
8 13 0.48
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (7 bp):
TTATTTT
Found at i:200357 original size:15 final size:15
Alignment explanation
Indices: 200337--200372 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
200327 TTGTCATATC
200337 TTATTTCTTT-ATTTT
1 TTATTT-TTTAATTTT
200352 TTATTTTTTAATTTT
1 TTATTTTTTAATTTT
200367 TTATTT
1 TTATTT
200373 GACCAAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (15 bp):
TTATTTTTTAATTTT
Found at i:200979 original size:19 final size:18
Alignment explanation
Indices: 200948--200985 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
200938 ACTTTTATTT
200948 TTAAATAATAATTATATA
1 TTAAATAATAATTATATA
*
200966 TTAAATACATAATTGTATA
1 TTAAATA-ATAATTATATA
200985 T
1 T
200986 CGATGTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (18 bp):
TTAAATAATAATTATATA
Found at i:201157 original size:3 final size:3
Alignment explanation
Indices: 201149--201176 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
201139 TTATATGCAA
201149 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
201177 TAAATATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:201874 original size:21 final size:20
Alignment explanation
Indices: 201835--201874 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
201825 AATTTACGAA
* *
201835 TATATTAAATTTATCTATAG
1 TATATCAAATTTATATATAG
201855 TATATCAAATTTTATATATA
1 TATATCAAA-TTTATATATA
201875 TGTAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
TATATCAAATTTATATATAG
Found at i:204495 original size:2 final size:2
Alignment explanation
Indices: 204488--204520 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
204478 ATTAAAAACC
204488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
204521 ATGAAATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:205807 original size:14 final size:14
Alignment explanation
Indices: 205788--205818 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
205778 TTTAAACTTG
205788 AAATTAGAAATTAA
1 AAATTAGAAATTAA
*
205802 AAATTAGAAGTTAA
1 AAATTAGAAATTAA
205816 AAA
1 AAA
205819 AGGCCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.26
Consensus pattern (14 bp):
AAATTAGAAATTAA
Found at i:206664 original size:26 final size:24
Alignment explanation
Indices: 206628--206677 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
206618 ATTTTCTCTT
206628 TTGTTTCTTCTTTCATCGAAAAAAAA
1 TTGTTTCTTCTTTCAT--AAAAAAAA
*
206654 TTGTTTTTTCTTTCATAAAAAAAA
1 TTGTTTCTTCTTTCATAAAAAAAA
206678 GAGAATTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
26 15 0.65
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (24 bp):
TTGTTTCTTCTTTCATAAAAAAAA
Found at i:209153 original size:18 final size:18
Alignment explanation
Indices: 209130--209164 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
209120 AGGATTTGGT
209130 TTGTTTATTTTATTATTA
1 TTGTTTATTTTATTATTA
209148 TTGTTTATTTTATTATT
1 TTGTTTATTTTATTATT
209165 TATTTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTGTTTATTTTATTATTA
Found at i:209172 original size:11 final size:12
Alignment explanation
Indices: 209138--209177 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
209128 GTTTGTTTAT
*
209138 TTTATTATTATTG
1 TTTATT-TTATTA
209151 TTTATTTTATTA
1 TTTATTTTATTA
209163 TTTA-TTTATTA
1 TTTATTTTATTA
209174 TTTA
1 TTTA
209178 AATATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 11 0.42
12 9 0.35
13 6 0.23
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:209189 original size:14 final size:13
Alignment explanation
Indices: 209172--209201 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
209162 ATTTATTTAT
209172 TATTTAAATATATA
1 TATTTAAATA-ATA
209186 TATTTAAATAATA
1 TATTTAAATAATA
209199 TAT
1 TAT
209202 AAATGTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTTAAATAATA
Found at i:209214 original size:21 final size:20
Alignment explanation
Indices: 209178--209245 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
209168 TTATTATTTA
209178 AATATAT-ATA-T-TTAAAT
1 AATATATAATAGTATTAAAT
209195 AATATATAA-ATGTAATTAAAT
1 AATATATAATA-GT-ATTAAAT
*
209216 -ATATGTAATAGTATT-AAT
1 AATATATAATAGTATTAAAT
209234 AATATAATAATA
1 AATAT-ATAATA
209246 TAGACTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
17 8 0.20
18 4 0.10
19 8 0.20
20 14 0.34
21 7 0.17
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
AATATATAATAGTATTAAAT
Found at i:210472 original size:110 final size:111
Alignment explanation
Indices: 210331--210554 Score: 380
Period size: 110 Copynumber: 2.0 Consensus size: 111
210321 AGATCATGCA
* * *
210331 CACTGAACTAAAACAAATTGAACTTCAATTCAAATTTGACCTTTTTGGATTAAATTATTAAATTT
1 CACTAAACTAAAACAAATTGAACTTCAATTCAAATTTGACCTCTTTAGATTAAATTATTAAATTT
**
210396 TAGGGATCAATAAAAAATATGTTAATTAAACAAAGATCCAACTGAT
66 TAAAGATCAATAAAAAATATGTTAATTAAACAAAGATCCAACTGAT
210442 CACTAAACTAAAA-AAATTGAA-TTACAATTCAAATTTGACCTCTTTAGATTAAATTATTAAATT
1 CACTAAACTAAAACAAATTGAACTT-CAATTCAAATTTGACCTCTTTAGATTAAATTATTAAATT
210505 TTAAAGATCAATAAAAAATATGTTAATTAAACAAAGATCCAACTGAT
65 TTAAAGATCAATAAAAAATATGTTAATTAAACAAAGATCCAACTGAT
210552 CAC
1 CAC
210555 CATGTCTATA
Statistics
Matches: 107, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
109 2 0.02
110 93 0.87
111 12 0.11
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (111 bp):
CACTAAACTAAAACAAATTGAACTTCAATTCAAATTTGACCTCTTTAGATTAAATTATTAAATTT
TAAAGATCAATAAAAAATATGTTAATTAAACAAAGATCCAACTGAT
Found at i:213077 original size:20 final size:20
Alignment explanation
Indices: 213052--213101 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
213042 ACTTATCATA
213052 TTATATTTAT-TTTATACCTT
1 TTATA-TTATCTTTATACCTT
213072 TTATATTATCTTTATACCTT
1 TTATATTATCTTTATACCTT
*
213092 ATTCTATTAT
1 -TTATATTAT
213102 AAGTAAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.15
20 15 0.56
21 8 0.30
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATATTATCTTTATACCTT
Found at i:215921 original size:14 final size:15
Alignment explanation
Indices: 215896--215924 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
215886 AGAGTCCAGG
215896 AATTATTGAAAAAAA
1 AATTATTGAAAAAAA
215911 AATTA-TGAAAAAAA
1 AATTATTGAAAAAAA
215925 TTATGTCGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (15 bp):
AATTATTGAAAAAAA
Found at i:219037 original size:110 final size:110
Alignment explanation
Indices: 218902--219102 Score: 348
Period size: 110 Copynumber: 1.8 Consensus size: 110
218892 GATGTTTCGC
* * * * *
218902 TGCTGATATTTTGTGTTGATTACGTTGCAAGGTGGATTTTGTTGATTCGTTCTTTTTGGACTTTT
1 TGCTGATACTTTGTGTTGATCACGTTGCAAGGTGGATTTTGTTGATTCGCTCTTTTGGGACTTTC
*
218967 GGTTTAGATAAAAGGTGATGTTATATGTTCTTAATTTTTTAATTT
66 GGTTTAGATAAAAGGTAATGTTATATGTTCTTAATTTTTTAATTT
219012 TGCTGATACTTTGTGTTGATCACGTTGCAAGGTGGATTTTGTTGATTCGCTCTTTTGGGACTTTC
1 TGCTGATACTTTGTGTTGATCACGTTGCAAGGTGGATTTTGTTGATTCGCTCTTTTGGGACTTTC
219077 GGTTTAGATAAAAGGTAATGTTATAT
66 GGTTTAGATAAAAGGTAATGTTATAT
219103 ATATATATAT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 85 1.00
ACGTcount: A:0.20, C:0.08, G:0.23, T:0.48
Consensus pattern (110 bp):
TGCTGATACTTTGTGTTGATCACGTTGCAAGGTGGATTTTGTTGATTCGCTCTTTTGGGACTTTC
GGTTTAGATAAAAGGTAATGTTATATGTTCTTAATTTTTTAATTT
Found at i:219105 original size:2 final size:2
Alignment explanation
Indices: 219098--219134 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
219088 AAGGTAATGT
219098 TA 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 TA T
219135 TATTTTGCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:219801 original size:42 final size:42
Alignment explanation
Indices: 219742--219822 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
219732 AGACTCTGAT
*
219742 ATCTTATCCTAAGTTTATTTGGGACCGTGAATAAATATCTAC
1 ATCTTATCCTAAGTTTATTTGGGACCATGAATAAATATCTAC
*
219784 ATCTTATCCTAATTTTATTTGGGACCATGAATAAATATC
1 ATCTTATCCTAAGTTTATTTGGGACCATGAATAAATATC
219823 CATACTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (42 bp):
ATCTTATCCTAAGTTTATTTGGGACCATGAATAAATATCTAC
Found at i:220411 original size:55 final size:55
Alignment explanation
Indices: 220346--220456 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
220336 TGGCTTCTTC
** *
220346 ATTGAGTGAAGTTCAATGGTTTCCTGGTCAATGGAATTCTTTATCACTATGGAGT
1 ATTGAGTGAAGTTCAACAGTTTCCTGGACAATGGAATTCTTTATCACTATGGAGT
*
220401 ATTGAGTGAAGTTCAACAGTTTCCTGGACGATGGAATTCTTTATCACTATGGAGT
1 ATTGAGTGAAGTTCAACAGTTTCCTGGACAATGGAATTCTTTATCACTATGGAGT
220456 A
1 A
220457 GCTAGACACA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (55 bp):
ATTGAGTGAAGTTCAACAGTTTCCTGGACAATGGAATTCTTTATCACTATGGAGT
Found at i:224278 original size:16 final size:16
Alignment explanation
Indices: 224257--224304 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
224247 TGTTGAACTA
**
224257 TTTAAAAATTATTTAT
1 TTTAAAAATTAAATAT
*
224273 TTTAAAATTTAAATAT
1 TTTAAAAATTAAATAT
*
224289 TTTTAAAATTAAATAT
1 TTTAAAAATTAAATAT
224305 AATAAATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTAAAAATTAAATAT
Found at i:224317 original size:25 final size:27
Alignment explanation
Indices: 224282--224334 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
224272 TTTTAAAATT
*
224282 TAAATATTTTTA-AAATTAAAT-ATAA
1 TAAATAATTTTATAAATTAAATAATAA
*
224307 TAAATAATTTTATTAATTAAATAATAA
1 TAAATAATTTTATAAATTAAATAATAA
224334 T
1 T
224335 TTGGGTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 11 0.46
26 8 0.33
27 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
TAAATAATTTTATAAATTAAATAATAA
Found at i:228077 original size:59 final size:59
Alignment explanation
Indices: 228004--228122 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
227994 GGTATACAAG
* *
228004 TTATTTAGTGCTCAACTGTAAAACAAATTGGCTGGTATACAAGTTATCTTGTTCAATGC
1 TTATTTAATGCTCAACTATAAAACAAATTGGCTGGTATACAAGTTATCTTGTTCAATGC
*
228063 TTATTTAATGCTCAACTATAAAACAAATTGGCTGGTATACAAGTTATCTTGTTTAATGC
1 TTATTTAATGCTCAACTATAAAACAAATTGGCTGGTATACAAGTTATCTTGTTCAATGC
228122 T
1 T
228123 CAACTGTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (59 bp):
TTATTTAATGCTCAACTATAAAACAAATTGGCTGGTATACAAGTTATCTTGTTCAATGC
Found at i:234378 original size:22 final size:23
Alignment explanation
Indices: 234343--234385 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
234333 GATATTAATT
234343 TAATAAAATTATTAAAATAAAAA
1 TAATAAAATTATTAAAATAAAAA
* *
234366 TAATATAA-TATTAAATTAAA
1 TAATAAAATTATTAAAATAAA
234386 TATATTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
TAATAAAATTATTAAAATAAAAA
Found at i:235230 original size:10 final size:11
Alignment explanation
Indices: 235183--235258 Score: 54
Period size: 11 Copynumber: 7.1 Consensus size: 11
235173 TAGTTTATAT
235183 TAAATTTGAATA
1 TAAATTT-AATA
235195 TAAAATTTAA-A
1 T-AAATTTAATA
* *
235206 TTAATTTAATT
1 TAAATTTAATA
235217 TAAATTTAA-A
1 TAAATTTAATA
235227 TAAA---AATA
1 TAAATTTAATA
*
235235 AAAATATTAATA
1 TAAAT-TTAATA
*
235247 TAAATATAATA
1 TAAATTTAATA
235258 T
1 T
235259 TTTTAAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
7 2 0.04
8 4 0.08
10 11 0.22
11 16 0.32
12 11 0.22
13 6 0.12
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (11 bp):
TAAATTTAATA
Found at i:236688 original size:20 final size:20
Alignment explanation
Indices: 236663--236703 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
236653 CAAGTTAATA
*
236663 AGGTAAAACAGATTCAAATG
1 AGGTAAAACAAATTCAAATG
236683 AGGTAAAACAAATTCAAATG
1 AGGTAAAACAAATTCAAATG
236703 A
1 A
236704 AATATTGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.20
Consensus pattern (20 bp):
AGGTAAAACAAATTCAAATG
Found at i:240669 original size:16 final size:17
Alignment explanation
Indices: 240648--240682 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
240638 ACAGTCTTTC
*
240648 TATC-TTAAGTATTTTT
1 TATCTTTAAGTATTGTT
240664 TATCTTTAAGTATTGTT
1 TATCTTTAAGTATTGTT
240681 TA
1 TA
240683 GTGTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.60
Consensus pattern (17 bp):
TATCTTTAAGTATTGTT
Found at i:243362 original size:19 final size:20
Alignment explanation
Indices: 243323--243363 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
243313 CCCTTTTTAG
*
243323 AAAATAAATTTCTCCCCCTT
1 AAAATAAATTTCTCCCACTT
*
243343 AAAA-AAATTTCTCTCACTT
1 AAAATAAATTTCTCCCACTT
243362 AA
1 AA
243364 TCGGTTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATAAATTTCTCCCACTT
Found at i:245306 original size:13 final size:13
Alignment explanation
Indices: 245288--245313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
245278 TAGTAACCCT
245288 TGTATCGATACAA
1 TGTATCGATACAA
245301 TGTATCGATACAA
1 TGTATCGATACAA
245314 GGAATGTTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:251009 original size:23 final size:22
Alignment explanation
Indices: 250979--251061 Score: 67
Period size: 23 Copynumber: 3.4 Consensus size: 22
250969 TCATGCTCCC
250979 TTTTATTATTCATGCTTTTTCT
1 TTTTATTATTCATGCTTTTTCT
* * *
251001 TTTTCATTATTTCATTCCATCATGTTACA
1 TTTT-ATTA-TTCA-TGC-T--T-TTTCT
251030 TTTTATTATTCATGCTTTTTCTT
1 TTTTATTATTCATGCTTTTTC-T
251053 TTTTATTAT
1 TTTTATTAT
251062 ATTTTATTCC
Statistics
Matches: 47, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
22 7 0.15
23 14 0.30
24 4 0.09
25 3 0.06
26 3 0.06
27 4 0.09
28 5 0.11
29 7 0.15
ACGTcount: A:0.18, C:0.14, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTTATTATTCATGCTTTTTCT
Found at i:251020 original size:51 final size:51
Alignment explanation
Indices: 250957--251367 Score: 611
Period size: 51 Copynumber: 8.1 Consensus size: 51
250947 CTTTTTTCCT
* * *
250957 TTATTT-ATTCCATCATGCTCCCTTTTATTATTCATGCTTTTTCTTTTTCA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
251007 TTATTTCATTCCATCATGTTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
* * *
251058 TTATATTTTATTCCATCATGCTACATTTTTTTATTTATGCTTTTTCTTTTTTA
1 -T-TATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
* *
251111 TTATTTCATTCCATCATGCTATATTTTATTATTCATGCTTTTTTCTTTTTTTT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGC-TTTTTC-TTTTTTA
*
251164 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTGTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
251215 TTATTTCAGTCCATCATGCTACATTTTATTATTCATGC--TTT-TTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
* *
251263 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTT-TCTTCT-
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
251312 TT-TTTCATTCCATCATGCTACATTTTATTATTCATGCCTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
251362 TTATTT
1 TTATTT
251368 TTTGATTGAT
Statistics
Matches: 327, Mismatches: 24, Indels: 19
0.88 0.06 0.05
Matches are distributed among these distances:
48 82 0.25
49 9 0.03
50 15 0.05
51 118 0.36
52 14 0.04
53 89 0.27
ACGTcount: A:0.18, C:0.17, G:0.04, T:0.60
Consensus pattern (51 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
Found at i:251075 original size:104 final size:104
Alignment explanation
Indices: 250960--251370 Score: 599
Period size: 104 Copynumber: 4.0 Consensus size: 104
250950 TTTTCCTTTA
* *
250960 TTTATTCCATCATGCTCCCTTTTATTATTCATGCTTTTTCTTTTTCATTATTTCATTCCATCATG
1 TTTATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTCATTATTTCATTCCATCATG
*
251025 TTACATTTTATTATTCATGCTTTTTCTTTTTTATTATAT
66 CTACATTTTATTATTCATGCTTTTTCTTTTTTATTATAT
* * *
251064 TTTATTCCATCATGCTACATTTTTTTATTTATGCTTTTTCTTTTTTATTATTTCATTCCATCATG
1 TTTATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTCATTATTTCATTCCATCATG
* *
251129 CTATATTTTATTATTCATGCTTTTTTCTTTTTT-TTTTAT
66 CTACATTTTATTATTCATGC-TTTTTCTTTTTTATTATAT
* *
251168 TTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTGTT-ATTATTTCAGTCCATCAT
1 TTTATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTT-TTCATTATTTCATTCCATCAT
251232 GCTACATTTTATTATTCATGC--TTT-TTTTTTA-T-TAT
65 GCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATAT
* * *
251267 TTCATTCCATCATGCTACATTTTATTATTCATGC-TTTT-TTCTTC-TTTTTTCATTCCATCATG
1 TTTATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTCATTATTTCATTCCATCATG
* *
251329 CTACATTTTATTATTCATGCCTTTTCTTTTTTATTATTT
66 CTACATTTTATTATTCATGCTTTTTCTTTTTTATTATAT
251368 TTT
1 TTT
251371 GATTGATTTT
Statistics
Matches: 280, Mismatches: 18, Indels: 21
0.88 0.06 0.07
Matches are distributed among these distances:
96 38 0.14
97 2 0.01
98 7 0.03
99 44 0.16
100 8 0.03
101 7 0.03
104 160 0.57
105 14 0.05
ACGTcount: A:0.18, C:0.17, G:0.04, T:0.60
Consensus pattern (104 bp):
TTTATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTCATTATTTCATTCCATCATG
CTACATTTTATTATTCATGCTTTTTCTTTTTTATTATAT
Found at i:251816 original size:15 final size:17
Alignment explanation
Indices: 251785--251816 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
251775 CAAGAAGAAT
251785 AAAACAAGAATGCAGGA
1 AAAACAAGAATGCAGGA
251802 AAAACAA-AA-GCAGGA
1 AAAACAAGAATGCAGGA
251817 CCACATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.62, C:0.12, G:0.22, T:0.03
Consensus pattern (17 bp):
AAAACAAGAATGCAGGA
Found at i:251980 original size:42 final size:42
Alignment explanation
Indices: 251913--252931 Score: 1097
Period size: 42 Copynumber: 24.2 Consensus size: 42
251903 AAAATCAACG
* * *
251913 GGCAGACTTAGGGAAAAAAAAGTCTCCAGGGACAAAGCCGACA
1 GGCAGACTAAGGG-AAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * *
251956 GGCAGACTGAA-TGAAGGAAAGTCTCCAAGGTCAAAGTCGACA
1 GGCAGACT-AAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * ** *
251998 GGCAGAGTGAGGGTTGAAAAGTCTCCAGGGTCAAAGCCGATA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
*
252040 GGCAGACTAAGGGAAGAAAAGTCTTCAGGGTCAAAGCCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* ** ** * *
252082 AGCAGACTTTAAATG-AG-GCAGTCTCCAAGATCAAAGCCGACA
1 GGCAGAC--TAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * *
252124 GGTAGACTGAGGGATGAAAAGTCTCCAAGGTCAAAGCCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
252166 GGCAGACTAAGGGAAGAAAAGTCTCCAGAGTCAAAGGCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
252208 GGCAGACTAAGGGAAGAAAAGTCTCTAGGGTCAAAGCTGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
252250 GGCAGACTAAAGGAAGAAAAGTCTCTAGGGTCAAAGCCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
252292 GGCAGACTAAGGGTAGAACAGTCTCCAGGGTCAAAGCCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
*
252334 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGTCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
252376 GGTAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGTCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
** ** * * *
252418 GGCAGACTTTAAATG-AG-TCAGTCTCCAGGGACGAAGCCTACA
1 GGCAGAC--TAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
252460 TGTAGACTGAAGGGTAAG-AAAGTCTCCAGGGTCAAAGCCGACA
1 GGCAGACT-AAGGG-AAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * *
252503 GGCAGACTTTA--GATGAAGCAGTCTCCAAGGTCAAAGCCGACA
1 GGCAGAC-TAAGGGAAGAA-AAGTCTCCAGGGTCAAAGCCGACA
* * *
252545 GGCAGACAAAGAGAAGAAAAGTCTCCAGGGTCAAAACCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * *
252587 GACAGACTAAGGGATAAAAAAGTCTCCAGGGTCAAAGTCGACA
1 GGCAGACTAAGGGA-AGAAAAGTCTCCAGGGTCAAAGCCGACA
252630 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
252672 GGCACACTAAGGGAAGAAAAGTCTCTAGGGTCAAAGCCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * * * * *
252714 AGCAAACTAAGGGTAGGAAAGTCTCCAAGGTCAAAGCCAATA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * *
252756 GGCAGACTAAGGGAAGAAAAGTCTCTAGGATCAAAGTCGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
** ** * *
252798 GGCAGACTTTAA-ATAAG-GCAGTCTCTAGAGTCAAAGCCGACA
1 GGCAGAC--TAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * * * *
252840 GGTAGACTGAGGGAAAGGAAAGTCTCTAGGGTCAAAACCGATA
1 GGCAGACTAAGGG-AAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * *
252883 GGCAGACTAAGGGAAAAAAAGTCTCCAGTGTTAAA-CTGACA
1 GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
252924 GGCAGACT
1 GGCAGACT
252932 GAGAGAAAAC
Statistics
Matches: 811, Mismatches: 143, Indels: 46
0.81 0.14 0.05
Matches are distributed among these distances:
40 8 0.01
41 20 0.02
42 652 0.80
43 118 0.15
44 13 0.02
ACGTcount: A:0.38, C:0.20, G:0.29, T:0.14
Consensus pattern (42 bp):
GGCAGACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGCCGACA
Found at i:261208 original size:22 final size:19
Alignment explanation
Indices: 261160--261208 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
261150 TAATTAAGCA
261160 AATACTGATGAATGATTATG
1 AATA-TGATGAATGATTATG
*
261180 AAAATGATGAATGAATGTCATG
1 AATATGATGAATG-AT-T-ATG
261202 AATATGA
1 AATATGA
261209 ATGCCATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 9 0.38
20 5 0.21
21 1 0.04
22 9 0.38
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.31
Consensus pattern (19 bp):
AATATGATGAATGATTATG
Found at i:266543 original size:51 final size:51
Alignment explanation
Indices: 266480--266892 Score: 692
Period size: 51 Copynumber: 8.1 Consensus size: 51
266470 CTTTTTTCCT
* *
266480 TTATTT-ATTCCATCATGCTCCTTTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
* *
266530 TTATTTCATTCCATTATGTTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
266581 TTATATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCATTTTTA
1 -T-TATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
266634 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTTCTTTTCT-
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGC-TTTTTCTTTTTTA
*
266685 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTCTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
266736 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
266787 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTT-TCTTTTT-
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCT-TTTTTA
266837 TT-TTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
266887 TTATTT
1 TTATTT
266893 TTTGATTGAT
Statistics
Matches: 342, Mismatches: 12, Indels: 17
0.92 0.03 0.05
Matches are distributed among these distances:
49 45 0.13
50 22 0.06
51 216 0.63
52 12 0.04
53 47 0.14
ACGTcount: A:0.19, C:0.17, G:0.04, T:0.60
Consensus pattern (51 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
Found at i:270339 original size:13 final size:13
Alignment explanation
Indices: 270299--270351 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
270289 CCGTTACAAG
270299 CAATGTATCGATA
1 CAATGTATCGATA
270312 CAA--T-TC-AT-
1 CAATGTATCGATA
270320 C-ATGTATCGATA
1 CAATGTATCGATA
270332 CAATGTATCGATA
1 CAATGTATCGATA
270345 CAATGTA
1 CAATGTA
270352 CCATGTATCG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 21 0.62
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:270339 original size:33 final size:33
Alignment explanation
Indices: 270299--270367 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
270289 CCGTTACAAG
*
270299 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGT-ACCATGTATCGATA
270332 CAATGTATCGATACAATGTACCATGTATCGATA
1 CAATGTATCGATACAATGTACCATGTATCGATA
270365 CAA
1 CAA
270368 ACAATGGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATGTATCGATA
Found at i:270440 original size:19 final size:19
Alignment explanation
Indices: 270397--270451 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
270387 TGCCAGTTTT
**
270397 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAA-TGAAC
270417 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
270436 ATGTATCGATACAATG
1 ATGTATCGATACAATG
270452 TATCGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:270454 original size:13 final size:13
Alignment explanation
Indices: 270436--270462 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
270426 TACAATGAAC
270436 ATGTATCGATACA
1 ATGTATCGATACA
270449 ATGTATCGATACA
1 ATGTATCGATACA
270462 A
1 A
270463 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:271754 original size:52 final size:52
Alignment explanation
Indices: 271692--271798 Score: 187
Period size: 52 Copynumber: 2.1 Consensus size: 52
271682 CAATTTGGTC
*
271692 ATAATCTTGAATCTAATACCATGGCGAAGAAAATAAAAGATAAATATGACAA
1 ATAATCTTGAATCTAATACCATGGAGAAGAAAATAAAAGATAAATATGACAA
* *
271744 ATAATTTTGAATTTAATACCATGGAGAAGAAAATAAAAGATAAATATGACAA
1 ATAATCTTGAATCTAATACCATGGAGAAGAAAATAAAAGATAAATATGACAA
271796 ATA
1 ATA
271799 TCAGGGAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.25
Consensus pattern (52 bp):
ATAATCTTGAATCTAATACCATGGAGAAGAAAATAAAAGATAAATATGACAA
Found at i:276516 original size:16 final size:17
Alignment explanation
Indices: 276476--276517 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
276466 ATTCGAGTTG
276476 AATTATTTCGAATTTTA
1 AATTATTTCGAATTTTA
*
276493 AAAT-TTTCGAA-TTTA
1 AATTATTTCGAATTTTA
*
276508 ATTTATTTCG
1 AATTATTTCG
276518 GTTTTAGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.29
16 12 0.57
17 3 0.14
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (17 bp):
AATTATTTCGAATTTTA
Found at i:276560 original size:16 final size:16
Alignment explanation
Indices: 276521--276550 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
276511 TATTTCGGTT
276521 TTAGA-TCACTTCAAA
1 TTAGAGTCACTTCAAA
276536 TTAGAGTCACTTCAA
1 TTAGAGTCACTTCAA
276551 TTTCAAGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (16 bp):
TTAGAGTCACTTCAAA
Found at i:277601 original size:2 final size:2
Alignment explanation
Indices: 277596--277632 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
277586 CCTTTTTTAA
277596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
277633 CACAGACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:281696 original size:2 final size:2
Alignment explanation
Indices: 281689--281728 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
281679 CACTGATGCC
281689 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
281729 ATGTATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:286686 original size:2 final size:2
Alignment explanation
Indices: 286679--286713 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
286669 TAAAAGTAAT
286679 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
286714 TATGCATTTT
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:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:287534 original size:22 final size:23
Alignment explanation
Indices: 287508--287560 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
287498 GCATTGAAAT
287508 TTTAATATTGAATT-TAATAAGTA
1 TTTAATATTGAATTATAA-AAGTA
* *
287531 TTAAAT-TTGAATTATAAAATTA
1 TTTAATATTGAATTATAAAAGTA
287553 TTTAATAT
1 TTTAATAT
287561 ATCATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (23 bp):
TTTAATATTGAATTATAAAAGTA
Found at i:292800 original size:2 final size:2
Alignment explanation
Indices: 292795--292862 Score: 91
Period size: 2 Copynumber: 34.0 Consensus size: 2
292785 TATATATAGT
* * * * *
292795 GA GA GA GA GA GA GA GA GT GT GA GT GA GA GA CA TA 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
292837 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
292863 AAAGAGTTCA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.46, C:0.01, G:0.47, T:0.06
Consensus pattern (2 bp):
GA
Found at i:293505 original size:48 final size:48
Alignment explanation
Indices: 293434--293529 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
293424 CAGCAAAAGA
293434 TGTAATGTCATAACACAACCATGTAATCTATTAGGAGAGTGTTCGACT
1 TGTAATGTCATAACACAACCATGTAATCTATTAGGAGAGTGTTCGACT
*
293482 TGTAATGTCATAACACAACCATGTAATCTATTAGTAGAGTGTTCGACT
1 TGTAATGTCATAACACAACCATGTAATCTATTAGGAGAGTGTTCGACT
293530 CTTAATTCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (48 bp):
TGTAATGTCATAACACAACCATGTAATCTATTAGGAGAGTGTTCGACT
Found at i:304695 original size:13 final size:12
Alignment explanation
Indices: 304668--304694 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
304658 TGCGTGATAT
304668 AAATTTTTAAAA
1 AAATTTTTAAAA
304680 AAATTTTTAAAA
1 AAATTTTTAAAA
304692 AAA
1 AAA
304695 AATCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATTTTTAAAA
Found at i:306117 original size:23 final size:22
Alignment explanation
Indices: 306072--306122 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
306062 GTTCAATAAT
* *
306072 ATAAAAACTTATTTTAAAAAAA
1 ATAAAAACTAATTATAAAAAAA
* *
306094 ATTAAAAACTAATTATACATAAA
1 A-TAAAAACTAATTATAAAAAAA
306117 ATAAAA
1 ATAAAA
306123 TTGTAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (22 bp):
ATAAAAACTAATTATAAAAAAA
Found at i:307437 original size:19 final size:22
Alignment explanation
Indices: 307399--307444 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 22
307389 TAAATTTATT
307399 TATTATTTATTATATAATTAAA
1 TATTATTTATTATATAATTAAA
307421 TATTATTT-TTAT-T-ATTAAA
1 TATTATTTATTATATAATTAAA
307440 TATTA
1 TATTA
307445 AATTTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.46
20 1 0.04
21 4 0.17
22 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTATTTATTATATAATTAAA
Found at i:316115 original size:52 final size:52
Alignment explanation
Indices: 316037--316165 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
316027 CGAAATATAA
*
316037 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTGGGC
* *
316089 AAATTTGCCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTGGGC
* *
316141 AAATTTACTTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
316166 AAAATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTGGGC
Found at i:316178 original size:52 final size:52
Alignment explanation
Indices: 316037--316185 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 52
316027 CGAAATATAA
*
316037 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* * *
316089 AAATTTGCCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* * **
316141 AAATTTACTTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
316186 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:316192 original size:13 final size:13
Alignment explanation
Indices: 316174--316198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
316164 CAAAAATCAG
316174 TGTATCGATACAA
1 TGTATCGATACAA
316187 TGTATCGATACA
1 TGTATCGATACA
316199 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:316265 original size:19 final size:18
Alignment explanation
Indices: 316237--316340 Score: 84
Period size: 19 Copynumber: 6.1 Consensus size: 18
316227 GCAGTAGCCT
316237 ACTT-TGTATCGATACAAA
1 ACTTATGTATCGATAC-AA
316255 ACTTATGTATCGATAC--
1 ACTTATGTATCGATACAA
316271 A--T-TGTATCGATACAA
1 ACTTATGTATCGATACAA
*
316286 TACTTATATATCGATAC--
1 -ACTTATGTATCGATACAA
316303 ACTTA--TATCGATACATA
1 ACTTATGTATCGATACA-A
316320 CACTTTATGTATCGATACAA
1 -AC-TTATGTATCGATACAA
316340 A
1 A
316341 TCGTTGAAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 27
0.72 0.01 0.27
Matches are distributed among these distances:
13 11 0.15
14 10 0.14
16 7 0.10
18 7 0.10
19 25 0.35
20 1 0.01
21 10 0.14
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (18 bp):
ACTTATGTATCGATACAA
Found at i:316278 original size:13 final size:13
Alignment explanation
Indices: 316260--316284 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
316250 ACAAAACTTA
316260 TGTATCGATACAT
1 TGTATCGATACAT
316273 TGTATCGATACA
1 TGTATCGATACA
316285 ATACTTATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:316281 original size:32 final size:33
Alignment explanation
Indices: 316240--316338 Score: 137
Period size: 32 Copynumber: 3.0 Consensus size: 33
316230 GTAGCCTACT
316240 TTGTATCGATACAAAACTTATGTATCGATACA-
1 TTGTATCGATACAAAACTTATGTATCGATACAC
* *
316272 TTGTATCGATACAATACTTATATATCGATACAC
1 TTGTATCGATACAAAACTTATGTATCGATACAC
* *
316305 TTATATCGATACATACACTTTATGTATCGATACA
1 TTGTATCGATACA-AAAC-TTATGTATCGATACA
316339 AATCGTTGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
32 30 0.51
33 12 0.20
34 3 0.05
35 14 0.24
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACAAAACTTATGTATCGATACAC
Found at i:318579 original size:28 final size:26
Alignment explanation
Indices: 318517--318589 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 26
318507 TTATTTTTGC
*
318517 AAAAAAAATAATCTTAAAATATCTAT
1 AAAAAAAATAATCTAAAAATATCTAT
*
318543 AAACTAAAATAAT-TAAAAATGTATCTAT
1 AAA-AAAAATAATCTAAAAA--TATCTAT
*
318571 AACAAAAAAAAATCTAAAA
1 AA-AAAAAATAATCTAAAA
318590 TTATAAACTC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 8 0.21
27 8 0.21
28 16 0.42
29 6 0.16
ACGTcount: A:0.64, C:0.08, G:0.01, T:0.26
Consensus pattern (26 bp):
AAAAAAAATAATCTAAAAATATCTAT
Found at i:319663 original size:88 final size:88
Alignment explanation
Indices: 319514--319691 Score: 347
Period size: 88 Copynumber: 2.0 Consensus size: 88
319504 GAACTTGTGG
*
319514 TATATACAATCCTCAACCAGATTCATCTCAAAATTGAATGGGGCAATAACTTTGTGAAATTTGTA
1 TATATACAATCCTCAACCAGATTCATCTCAAAATTGAATGAGGCAATAACTTTGTGAAATTTGTA
319579 ATACCATTGATGAGACGCTTGTT
66 ATACCATTGATGAGACGCTTGTT
319602 TATATACAATCCTCAACCAGATTCATCTCAAAATTGAATGAGGCAATAACTTTGTGAAATTTGTA
1 TATATACAATCCTCAACCAGATTCATCTCAAAATTGAATGAGGCAATAACTTTGTGAAATTTGTA
319667 ATACCATTGATGAGACGCTTGTT
66 ATACCATTGATGAGACGCTTGTT
319690 TA
1 TA
319692 AGCCTATAGA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (88 bp):
TATATACAATCCTCAACCAGATTCATCTCAAAATTGAATGAGGCAATAACTTTGTGAAATTTGTA
ATACCATTGATGAGACGCTTGTT
Found at i:325894 original size:17 final size:16
Alignment explanation
Indices: 325863--325899 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
325853 ATATTAGAAA
*
325863 ATAATTAAAATATAAT
1 ATAATTAAAAAATAAT
325879 ATAATATAAAAAATAAT
1 ATAAT-TAAAAAATAAT
325896 ATAA
1 ATAA
325900 ATACGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATTAAAAAATAAT
Found at i:326943 original size:11 final size:12
Alignment explanation
Indices: 326905--326943 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
326895 TTAACTTTTG
326905 TATTATTTTTCA
1 TATTATTTTTCA
*
326917 TATTTTGTTTTCA
1 TATTAT-TTTTCA
326930 TATTATTTTT-A
1 TATTATTTTTCA
326941 TAT
1 TAT
326944 GTTTAAAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 4 0.17
12 9 0.38
13 11 0.46
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (12 bp):
TATTATTTTTCA
Found at i:329072 original size:21 final size:22
Alignment explanation
Indices: 329050--329091 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
329040 AAAATAAATA
329050 AAATTA-T-TTATAAAATTTTT
1 AAATTACTATTATAAAATTTTT
*
329070 AAATTACTATTATAAATTTTTT
1 AAATTACTATTATAAAATTTTT
329092 TACTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 12 0.63
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
AAATTACTATTATAAAATTTTT
Found at i:329075 original size:20 final size:21
Alignment explanation
Indices: 329050--329090 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
329040 AAAATAAATA
329050 AAATTA-T-TTATAAAATTTTT
1 AAATTACTATTAT-AAATTTTT
329070 AAATTACTATTATAAATTTTT
1 AAATTACTATTATAAATTTTT
329091 TTACTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATTACTATTATAAATTTTT
Found at i:331004 original size:34 final size:34
Alignment explanation
Indices: 330926--331017 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 34
330916 CATATTGTGT
* *
330926 CATATTTATTATACTAATTTTTTTATTAAAAATAT
1 CATATTTATTATATTAA-TTTTTTATTAAAAATAC
* * * * *
330961 GATACTTATTACATTAATTTTTTATTAGATATAC
1 CATATTTATTATATTAATTTTTTATTAAAAATAC
330995 CATATTTATTATATT-ATTTTTTA
1 CATATTTATTATATTAATTTTTTA
331018 GAATGTAAGA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
33 8 0.17
34 26 0.55
35 13 0.28
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (34 bp):
CATATTTATTATATTAATTTTTTATTAAAAATAC
Found at i:331444 original size:9 final size:9
Alignment explanation
Indices: 331432--331461 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
331422 TTGATATATT
331432 TAATAAATA
1 TAATAAATA
331441 TAATAAATA
1 TAATAAATA
331450 TAATAAATA
1 TAATAAATA
331459 TAA
1 TAA
331462 AATAAGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAATAAATA
Found at i:333333 original size:39 final size:39
Alignment explanation
Indices: 333255--333334 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
333245 TAAGTTTTAC
* *
333255 AACTAAGCAATTCAATTTATATAAGATATAAGCTGCTAT
1 AACTAAGCAATTCAATTTATATAAGATATAAACTACTAT
* *
333294 AACTAAGCATTTCAATTTCTATAAGAT-TAAAACTACTAT
1 AACTAAGCAATTCAATTTATATAAGATAT-AAACTACTAT
333333 AA
1 AA
333335 ATTTTAAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 35 0.97
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (39 bp):
AACTAAGCAATTCAATTTATATAAGATATAAACTACTAT
Found at i:340340 original size:15 final size:17
Alignment explanation
Indices: 340316--340347 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
340306 TTAGTTTTCT
340316 TTTTTAAATTTA-TAAA
1 TTTTTAAATTTAGTAAA
340332 TTTTT-AATTTAGTAAA
1 TTTTTAAATTTAGTAAA
340348 AACGAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTTAAATTTAGTAAA
Found at i:348855 original size:26 final size:26
Alignment explanation
Indices: 348835--348886 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
348825 TATGTTATGT
348835 TATAATAA-TATTTTATTATGTGATA
1 TATAATAATTATTTTATTATGTGATA
*
348860 TATAATAATTTTTTTATTAT-T-ATA
1 TATAATAATTATTTTATTATGTGATA
348884 TAT
1 TAT
348887 GTGTTGTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 6 0.24
25 9 0.36
26 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
TATAATAATTATTTTATTATGTGATA
Found at i:348870 original size:23 final size:21
Alignment explanation
Indices: 348829--348876 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
348819 GATTTGTATG
*
348829 TTATGTTATAATAATATTTTA
1 TTATGTGATAATAATATTTTA
*
348850 TTATGTGATATATAATAATTTTT
1 TTATGTGATA-ATAAT-ATTTTA
348873 TTAT
1 TTAT
348877 TATTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 9 0.39
22 5 0.22
23 9 0.39
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (21 bp):
TTATGTGATAATAATATTTTA
Found at i:349902 original size:79 final size:79
Alignment explanation
Indices: 349819--350444 Score: 509
Period size: 79 Copynumber: 7.9 Consensus size: 79
349809 CATCCCCCAA
** * * * *
349819 TGAAAAATTAATATTTTGGATATAAAATAGGGATTGGAGTATCCTCTCAAAAATAACGAGGTTGG
1 TGAAAAATTGGTATTTTAGAAATAAAATAGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGG
*
349884 AGTATCCCCGATAG
66 AGTATCCCCGATGG
* * * * *
349898 TG-AAAATCGGTGTTTTAGAAATAAAATCA-GGGTTGGAATATCTCCGCAAAAATAACG-GGATT
1 TGAAAAATTGGTATTTTAGAAATAAAAT-AGGGGTTGGAGTATCCCCTCAAAAATAACGAGG-TT
* *
349960 GGAGTATCTCCGATGA
64 GGAGTATCCCCGATGG
* * * *** **
349976 TGGAAAATCGGTATTTTAGAAATAAAATCGATATTGGAGTATCCCCTCGGAAATAAC-AGGGTTG
1 TGAAAAATTGGTATTTTAGAAATAAAATAGGGGTTGGAGTATCCCCTCAAAAATAACGA-GGTTG
* **
350040 AAGTATCCCATATGG
65 GAGTATCCCCGATGG
* * * * * * *
350055 TGAAAAATTGGTATTTTAGAAATAAAACCA-AGGTTAGAGTATCCCTTCCAAAATAAAGAGGTTA
1 TGAAAAATTGGTATTTTAGAAATAAAA-TAGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTG
350119 GAGTATCCCCGATGG
65 GAGTATCCCCGATGG
* ** * * * *
350134 -GAAAAAATTGGTATTTTAAAAATAAAACCGGGGTTGGAGTGTCTCCTCAGAAATAACGGGGTTG
1 TG-AAAAATTGGTATTTTAGAAATAAAATAGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTG
*
350198 GAGTATCCCTGATGG
65 GAGTATCCCCGATGG
* * * * ** * * *
350213 TGGAACATTGATGTTTTA-AATATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACAAGATTG
1 TGAAAAATTGGTATTTTAGAA-ATAAAATAGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTG
** * *
350277 GAGTATCATCAATTG
65 GAGTATCCCCGATGG
* * *
350292 TGAAAAATCGG-AGTTTTAGAAATAAAA-ATGGGGTTGGAGTATCCCCTCAGAAAT-ACTGAGAT
1 TGAAAAATTGGTA-TTTTAGAAATAAAATA-GGGGTTGGAGTATCCCCTCAAAAATAAC-GAGGT
*
350354 TGGAGTATTCCCGATGG
63 TGGAGTATCCCCGATGG
* * * * * *
350371 TGAAAAATTAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCGCTTAAAAATAAC-AGAGTCG
1 TGAAAAATTGGTATTTTAGAAATAAAATAGGGGTTGGAGTATCCCCTCAAAAATAACGAG-GTTG
*
350435 GAGCATCCCC
65 GAGTATCCCC
350445 TCAAAAATAA
Statistics
Matches: 433, Mismatches: 94, Indels: 40
0.76 0.17 0.07
Matches are distributed among these distances:
77 2 0.00
78 67 0.15
79 356 0.82
80 8 0.02
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.27
Consensus pattern (79 bp):
TGAAAAATTGGTATTTTAGAAATAAAATAGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGG
AGTATCCCCGATGG
Found at i:350252 original size:237 final size:236
Alignment explanation
Indices: 349855--350413 Score: 619
Period size: 237 Copynumber: 2.4 Consensus size: 236
349845 ATAGGGATTG
* * * *
349855 GAGTAT-CCTCTCAAAAATAACGAGGTTGGAGTATCCCCGATAGTG-AAAATCGGTGTTTTAGAA
1 GAGTATCCCT-TCCAAAATAAAGAGGTTGGAGTATCCCCGAT-GGGAAAAATTGGTGTTTTAGAA
* *
349918 ATAAAATCAGGGTTGGAATATCTCCGCAAAAATAACGGGATTGGAGTATCTCCGATGATGGAAAA
64 ATAAAATCGGGGTTGGAGTATCTCCGCAAAAATAACGGGATTGGAGTATCTCCGATGATGGAAAA
* * * * * *
349983 TCGGTATTTTAGAAATAAAATCGATATTGGAGTATCCCCTCGGAAATAACAGGGTTGAAGTATC-
129 TCGATATTTTAGAAATAAAACCGAGATTGGAGTATCCCCTCAGAAATAACAAGATTGAAGTATCA
* *
350047 CCATATGGTGAAAAATTGGTA-TTTTAGAAATAAAACCAAGGTTA
194 CCA-ATGGTGAAAAATCGG-AGTTTTAGAAATAAAAACAAGGTTA
* * *
350091 GAGTATCCCTTCCAAAATAAAGAGGTTAGAGTATCCCCGATGGGAAAAAATTGGTATTTTAAAAA
1 GAGTATCCCTTCCAAAATAAAGAGGTTGGAGTATCCCCGATGGG-AAAAATTGGTGTTTTAGAAA
* * * * * * *
350156 TAAAACCGGGGTTGGAGTGTCTCCTCAGAAATAACGGGGTTGGAGTATC-CCTGATGGTGGAACA
65 TAAAATCGGGGTTGGAGTATCTCCGCAAAAATAACGGGATTGGAGTATCTCC-GATGATGGAAAA
* * * * *
350220 TTGATGTTTTA-AATATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACAAGATTGGAGTATC
129 TCGATATTTTAGAA-ATAAAACCGAGATTGGAGTATCCCCTCAGAAATAACAAGATTGAAGTATC
* * *** *
350284 ATCAATTGTGAAAAATCGGAGTTTTAGAAATAAAAATGGGGTTG
193 ACCAATGGTGAAAAATCGGAGTTTTAGAAATAAAAACAAGGTTA
* ** * * *
350328 GAGTATCCCCT-CAGAAATACTGAGATTGGAGTATTCCCGATGGTGAAAAATTAGTGTTTTAGAA
1 GAGTATCCCTTCCA-AAATAAAGAGGTTGGAGTATCCCCGATGG-GAAAAATTGGTGTTTTAGAA
350392 ATAAAATCGGGGTTGGAGTATC
64 ATAAAATCGGGGTTGGAGTATC
350414 CGCTTAAAAA
Statistics
Matches: 268, Mismatches: 46, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
235 2 0.01
236 41 0.15
237 222 0.83
238 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.27
Consensus pattern (236 bp):
GAGTATCCCTTCCAAAATAAAGAGGTTGGAGTATCCCCGATGGGAAAAATTGGTGTTTTAGAAAT
AAAATCGGGGTTGGAGTATCTCCGCAAAAATAACGGGATTGGAGTATCTCCGATGATGGAAAATC
GATATTTTAGAAATAAAACCGAGATTGGAGTATCCCCTCAGAAATAACAAGATTGAAGTATCACC
AATGGTGAAAAATCGGAGTTTTAGAAATAAAAACAAGGTTA
Found at i:350470 original size:28 final size:28
Alignment explanation
Indices: 350407--350471 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
350397 ATCGGGGTTG
* * *
350407 GAGTATCCGCTTAAAAATAACAGAGTCG
1 GAGTATCCCCTCAAAAATAACAGAGTCA
* *
350435 GAGCATCCCCTCAAAAATAAC-GAGATTA
1 GAGTATCCCCTCAAAAATAACAGAG-TCA
350463 GAGTATCCC
1 GAGTATCCC
350472 GATGGTGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (28 bp):
GAGTATCCCCTCAAAAATAACAGAGTCA
Found at i:350517 original size:264 final size:264
Alignment explanation
Indices: 350178--350660 Score: 641
Period size: 264 Copynumber: 1.8 Consensus size: 264
350168 TGGAGTGTCT
* * * * * * * *
350178 CCTCAGAAATAACGGGGTTGGAGTATCCCTGATGGTGGAACATTGATGTTTTAAATATAAAACCG
1 CCTCAAAAATAACGAGATTAGAGTATCCCTGATGGTGAAAAATCGATGTTTTAAAAATAAAACCG
* * * *
350243 GGGTTGGAGTATCCCCTCAGAAATAACAAGATTGGAGTATCAT-CAATTGTGAAAAATCGGA-GT
66 GGGTTGGAGTATCCCCTCAAAAATAACAAGATTAGAGTATC-TCCAATGGTGAAAAATC-GATAT
* * * *
350306 TTTAGAAATAAAAAT-GGGGTTGGAGTATCCCCTCAGAAATACTGAGATTGGAGTATTCCCGATG
129 TTTAAAAAT-AAAATCGGGGTTGAAGTATCCCCTCAAAAATAATGAGATTGGAGTA-TCCCGATG
* *
350370 GTGAAAAATTAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCGCTTAAAAATAACAGAGTCG
192 GTGAAAAATCAGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCGCTTAAAAATAACAGAGTCG
350435 GAGCATCC
257 GAGCATCC
* *
350443 CCTCAAAAATAACGAGATTAGAGTATCCC-GATGGTGAAAAATCGGTGTTTTAAAAATAAAATCG
1 CCTCAAAAATAACGAGATTAGAGTATCCCTGATGGTGAAAAATCGATGTTTTAAAAATAAAACCG
*** *
350507 GGGTTGGAGTATCCCCTCAAAAATAATTGGATTAGAGTATCTCCGATGGTGAAAAATCGATATTT
66 GGGTTGGAGTATCCCCTCAAAAATAACAAGATTAGAGTATCTCCAATGGTGAAAAATCGATATTT
** * *
350572 TAAAAATAAAATCGGGGTTGAAGTATCCTTTCAAAAATAATGGGGTTGGAGTATCCCGATGGTGA
131 TAAAAATAAAATCGGGGTTGAAGTATCCCCTCAAAAATAATGAGATTGGAGTATCCCGATGGTGA
*
350637 AAAATCGGTGTTTTAAAAATAAAA
196 AAAATCAGTGTTTTAAAAATAAAA
350661 ACATAAATAA
Statistics
Matches: 186, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
263 41 0.22
264 120 0.65
265 25 0.13
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.27
Consensus pattern (264 bp):
CCTCAAAAATAACGAGATTAGAGTATCCCTGATGGTGAAAAATCGATGTTTTAAAAATAAAACCG
GGGTTGGAGTATCCCCTCAAAAATAACAAGATTAGAGTATCTCCAATGGTGAAAAATCGATATTT
TAAAAATAAAATCGGGGTTGAAGTATCCCCTCAAAAATAATGAGATTGGAGTATCCCGATGGTGA
AAAATCAGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCGCTTAAAAATAACAGAGTCGGAGC
ATCC
Done.