Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 141 of 228
Found at i:42332853 original size:40 final size:40
Alignment explanation
Indices: 42332738--42332920 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
42332728 TAACTCATAC
* *
42332738 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
42332778 AATGCCTTCGGG-CTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
42332817 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
42332857 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
42332898 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
42332921 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
38 3 0.02
39 35 0.29
40 73 0.60
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:42337505 original size:24 final size:24
Alignment explanation
Indices: 42337442--42337493 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
42337432 TTTCTAGAAG
* * *
42337442 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
42337466 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
42337490 ATTT
1 ATTT
42337494 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:42348651 original size:56 final size:56
Alignment explanation
Indices: 42348565--42348681 Score: 234
Period size: 56 Copynumber: 2.1 Consensus size: 56
42348555 ATTTCTCCTC
42348565 CCAAACCAACCACTTCCAAATTAACAACGCTACTATACATCCACGAAGCACATGGT
1 CCAAACCAACCACTTCCAAATTAACAACGCTACTATACATCCACGAAGCACATGGT
42348621 CCAAACCAACCACTTCCAAATTAACAACGCTACTATACATCCACGAAGCACATGGT
1 CCAAACCAACCACTTCCAAATTAACAACGCTACTATACATCCACGAAGCACATGGT
42348677 CCAAA
1 CCAAA
42348682 GTTTCATCCT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.40, C:0.34, G:0.09, T:0.17
Consensus pattern (56 bp):
CCAAACCAACCACTTCCAAATTAACAACGCTACTATACATCCACGAAGCACATGGT
Found at i:42352857 original size:45 final size:45
Alignment explanation
Indices: 42352793--42352928 Score: 193
Period size: 45 Copynumber: 3.0 Consensus size: 45
42352783 GTTTGCAAAC
* *
42352793 AAGCTGCTAGTACGGTGTGGATAAACCACTCATCGGTGCAGATAA
1 AAGCTACTAGTACGTTGTGGATAAACCACTCATCGGTGCAGATAA
* * * *
42352838 AAGCTACTAGTACATTGTGGATAAACTAGTCATTGGTGCAGATAA
1 AAGCTACTAGTACGTTGTGGATAAACCACTCATCGGTGCAGATAA
*
42352883 AAGCTACTAGTATGTTGTGGATAAACCACTCATCGGT-CGAGATAA
1 AAGCTACTAGTACGTTGTGGATAAACCACTCATCGGTGC-AGATAA
42352928 A
1 A
42352929 TCACTCATTG
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 1 0.01
45 78 0.99
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (45 bp):
AAGCTACTAGTACGTTGTGGATAAACCACTCATCGGTGCAGATAA
Found at i:42354602 original size:24 final size:24
Alignment explanation
Indices: 42354575--42354626 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
42354565 ATTTAACAGT
42354575 ATCAAAAGACATGCTGAACATGCA
1 ATCAAAAGACATGCTGAACATGCA
42354599 ATCAAAAGACATGCTGAACATGCA
1 ATCAAAAGACATGCTGAACATGCA
42354623 ATCA
1 ATCA
42354627 GTAATACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.17
Consensus pattern (24 bp):
ATCAAAAGACATGCTGAACATGCA
Found at i:42358620 original size:22 final size:22
Alignment explanation
Indices: 42358593--42358648 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
42358583 TACTTAGGTG
*
42358593 TAAATTAAAATTCATGGGTGTA
1 TAAATTAAAATTCAAGGGTGTA
*
42358615 TAAATT-AAATATCAAGGGTTTA
1 TAAATTAAAAT-TCAAGGGTGTA
42358637 TAAATTAAAATT
1 TAAATTAAAATT
42358649 GTAGAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 22 0.73
23 4 0.13
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (22 bp):
TAAATTAAAATTCAAGGGTGTA
Found at i:42360008 original size:18 final size:18
Alignment explanation
Indices: 42359985--42360027 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
42359975 ATAACATTGA
**
42359985 ATTTTGAAATTTTTTTAT
1 ATTTTGAAATCATTTTAT
42360003 ATTTTGAAATCATTTTAT
1 ATTTTGAAATCATTTTAT
42360021 ATTTTGA
1 ATTTTGA
42360028 TCTTTTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (18 bp):
ATTTTGAAATCATTTTAT
Found at i:42365612 original size:23 final size:23
Alignment explanation
Indices: 42365581--42365631 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
42365571 ACCTACTTTC
* *
42365581 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
42365604 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
42365627 TTACA
1 TTACA
42365632 ATATAGATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:42373250 original size:17 final size:17
Alignment explanation
Indices: 42373210--42373243 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
42373200 ACATATATAT
42373210 AAAAAATAATTACATTA
1 AAAAAATAATTACATTA
42373227 AAAAAATAATTACATTA
1 AAAAAATAATTACATTA
42373244 TGGAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAAATAATTACATTA
Found at i:42373447 original size:28 final size:30
Alignment explanation
Indices: 42373409--42373466 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
42373399 TTGTTCAAAT
* * *
42373409 AGGGCTAAATT-GAAATTAAAAAAAGTTAA
1 AGGGCTAAATTAAAAAATAAAAAAACTTAA
42373438 AGGGC-AAATTAAAAAATAAAAAAACTTAA
1 AGGGCTAAATTAAAAAATAAAAAAACTTAA
42373467 TTATAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21
Consensus pattern (30 bp):
AGGGCTAAATTAAAAAATAAAAAAACTTAA
Found at i:42375001 original size:44 final size:45
Alignment explanation
Indices: 42374745--42375217 Score: 164
Period size: 44 Copynumber: 10.9 Consensus size: 45
42374735 GATTTTAGAA
*
42374745 AGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTC-AGGG
1 AGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGAG
* * * * * *
42374789 AGATAAGACTAG-ATGC-GA-TCTGCT-CTCTGCAACTTC-ATAG
1 AGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGAG
** * * * *
42374829 AGATAAGATCCAAGATT--TTAATCCGCTCCACTGCAACTTCAGGA-
1 AGATAAGA--CTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGAG
* * * * * * *
42374873 ATATAGGA-TT-ATCGACTTTAATCTGCTCCACTGCAACTT-TAGGG
1 AGATAAGACTTGCT-TAC-TTAGTCTGCTCCACTGCAACTTCAAGAG
* * * *
42374917 AGATAAGATTTGC-CATCTTCAGTTTGC-CTCATTGCAACTTCAAGAG
1 AGATAAGACTTGCTTA-CTT-AGTCTGCTC-CACTGCAACTTCAAGAG
42374963 -GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAG-G
1 AGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGAG
* * * * * *
42375006 AGATAAGACTAG-ATGC-GA-TCTGCT-CTCTGTAACTTC-AGAG
1 AGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGAG
** * * * *
42375046 AGATAAGATCCAAGGTT--TTAATCCGCTCCACTGCAACTTC-AGGG
1 AGATAAGA--CTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGAG
* * * * * * *
42375090 AGATAGGATTATCGGC-T--TTAATCTGCTCTACTGTAACTT-TAGGG
1 AGATAAGACT-T--GCTTACTTAGTCTGCTCCACTGCAACTTCAAGAG
* *
42375134 AGATAAGATTTGCCATT--TTCAGTCTGC-CTCACTGCAACTTCAGGAG
1 AGATAAGACTTG-C-TTACTT-AGTCTGCTC-CACTGCAACTTCAAGAG
*
42375180 -GATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTT
1 AGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTT
42375218 TAGGGAGATC
Statistics
Matches: 322, Mismatches: 66, Indels: 82
0.69 0.14 0.17
Matches are distributed among these distances:
39 2 0.01
40 42 0.13
41 13 0.04
42 11 0.03
43 21 0.07
44 164 0.51
45 63 0.20
46 6 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
AGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGAG
Found at i:42375130 original size:217 final size:217
Alignment explanation
Indices: 42374746--42375318 Score: 966
Period size: 217 Copynumber: 2.6 Consensus size: 217
42374736 ATTTTAGAAA
42374746 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
* * *
42374811 CTCTCTGCAACTTCATAGAGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGAATA
66 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGAAGA
*
42374876 TAGGATTATCGACTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTT
131 TAGGATTATCGACTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTC
*
42374941 TGCCTCATTGCAACTTCAAGAG
196 TGCCTCACTGCAACTTCAAGAG
*
42374963 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTG
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
* *
42375028 CTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGA
66 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGAAGA
* * * *
42375093 TAGGATTATCGGCTTTAATCTGCTCTACTGTAACTTTAGGGAGATAAGATTTGCCATTTTCAGTC
131 TAGGATTATCGACTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTC
*
42375158 TGCCTCACTGCAACTTCAGGAG
196 TGCCTCACTGCAACTTCAAGAG
* * *
42375180 GATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATCAGACTAGATGCGATCTG
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
* ** *
42375245 CTCTCTACAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTGTACTGTAACTTCAGGAAGA
66 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGAAGA
42375310 TAGGATTAT
131 TAGGATTAT
42375319 TGGCCACCTA
Statistics
Matches: 333, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
217 333 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGAAGA
TAGGATTATCGACTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTC
TGCCTCACTGCAACTTCAAGAG
Found at i:42375173 original size:45 final size:42
Alignment explanation
Indices: 42375111--42375232 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 42
42375101 TCGGCTTTAA
* *
42375111 TCTGCTCTACTGTAACTTTAGGGAGATAAGATTTGCCATT-TTCAG
1 TCTGCTC-ACTGCAACTTTAGGGAGATAAGACTTG-C-TTATT-AG
*
42375156 TCTGCCTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAG
1 TCTG-CTCACTGCAACTTTAGGGA-GATAAGACTTGCTTA-TTAG
* *
42375200 TCTGCTCCACTACAACTTTAGGGAGATCAGACT
1 TCTGCT-CACTGCAACTTTAGGGAGATAAGACT
42375233 AGATGCGATC
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
43 4 0.06
44 29 0.45
45 29 0.45
46 3 0.05
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (42 bp):
TCTGCTCACTGCAACTTTAGGGAGATAAGACTTGCTTATTAG
Found at i:42399489 original size:29 final size:31
Alignment explanation
Indices: 42399454--42399511 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
42399444 TTCGAGCTTG
42399454 GGGACAAAAT-GTAATTATG-CAAAAGTTTA
1 GGGACAAAATCGTAATTATGACAAAAGTTTA
*
42399483 GGGACAAAATCGTAATTTTGACAAAAGTT
1 GGGACAAAATCGTAATTATGACAAAAGTT
42399512 GAGTCAAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.38
30 8 0.31
31 8 0.31
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (31 bp):
GGGACAAAATCGTAATTATGACAAAAGTTTA
Found at i:42400154 original size:102 final size:101
Alignment explanation
Indices: 42399978--42400321 Score: 424
Period size: 102 Copynumber: 3.4 Consensus size: 101
42399968 TATCGATGAA
* * * * *
42399978 CACGTGTGTAGTATTGTGTAAAGGCTACTACGTGTATCTATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
42400043 TAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGT
66 TAATTGAAGGCTACTATGTGTACCAA-AAGCTTTGGT
* *
42400080 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATTTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
42400145 TAATTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAATTGAAGGCTACTATGTGTACC-AAAAGCTTTGGT
* * * *** * *
42400182 TACGTGTGTAGTACTATGTGAAGGCTACTAGGTGAACCG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * * *
42400246 T-ATGTGAAGGCTACTACGTGAACCATAAAAC-TTGAT
66 TAAT-TGAAGGCTACTATGTGTACCA-AAAGCTTTGGT
* *
42400282 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
42400322 ATGATAAAAG
Statistics
Matches: 212, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
100 41 0.19
101 42 0.20
102 127 0.60
103 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAATTGAAGGCTACTATGTGTACCAAAAGCTTTGGT
Found at i:42400248 original size:50 final size:50
Alignment explanation
Indices: 42399978--42400315 Score: 319
Period size: 51 Copynumber: 6.7 Consensus size: 50
42399968 TATCGATGAA
* * * * *
42399978 CACGTGTGTAGTATTGTGTAAAGGCTACTACGTGTATC-TATAAA-TGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAACT--TGGT
* * * * *
42400029 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACC--AAGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAA-AA-C-TTGGT
* * ***
42400080 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * *
42400131 CACATTTGTAGTACTAAT-TGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACT-ATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGT
* * *
42400182 TACGTGTGTAGTACTATGTGAAGGCTACTAGGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
* *
42400232 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCATAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
*
42400282 CATGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
42400316 TATCGAATGA
Statistics
Matches: 238, Mismatches: 37, Indels: 25
0.79 0.12 0.08
Matches are distributed among these distances:
49 4 0.02
50 89 0.37
51 136 0.57
52 5 0.02
53 2 0.01
54 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:42404172 original size:50 final size:50
Alignment explanation
Indices: 42404095--42404202 Score: 189
Period size: 50 Copynumber: 2.2 Consensus size: 50
42404085 GTAGTATTAT
*
42404095 GTGAACCGTAAAACTTGATCACATGTGTAGTACTATGTGAAGGCTACTAC
1 GTGAATCGTAAAACTTGATCACATGTGTAGTACTATGTGAAGGCTACTAC
*
42404145 GTGAATCGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTAC
1 GTGAATCGTAAAACTTGATCACATGTGTAGTACTATGTGAAGGCTACTAC
*
42404195 GTGTATCG
1 GTGAATCG
42404203 AATGATAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (50 bp):
GTGAATCGTAAAACTTGATCACATGTGTAGTACTATGTGAAGGCTACTAC
Found at i:42422549 original size:68 final size:68
Alignment explanation
Indices: 42422395--42422551 Score: 181
Period size: 68 Copynumber: 2.3 Consensus size: 68
42422385 GGATTATTGC
* * * * * *
42422395 AACATGTGAAGTCTGCCAGGATAGTAAACATGACACTATATTATATAAAATCATAACTGGGATAT
1 AACATTTGAAGTCTACTAGGACAGTAAACATGACACCATATTATATAAAACCATAACTGGGATAT
*
42422460 GGA
66 GAA
* * * * * *
42422463 AACATTTGAAGTCTACTAGGACAGTAAATATGACACCATATTGTGTAAGACCATAGCTGGGCTAT
1 AACATTTGAAGTCTACTAGGACAGTAAACATGACACCATATTATATAAAACCATAACTGGGATAT
42422528 GAA
66 GAA
42422531 AACATTTGAAGT-TCACTAGGA
1 AACATTTGAAGTCT-ACTAGGA
42422552 TTGCGATCTA
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
67 1 0.01
68 74 0.99
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (68 bp):
AACATTTGAAGTCTACTAGGACAGTAAACATGACACCATATTATATAAAACCATAACTGGGATAT
GAA
Found at i:42434232 original size:17 final size:17
Alignment explanation
Indices: 42434210--42434242 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
42434200 ATGAATGAAA
42434210 AAATGCTAG-GGCAATTG
1 AAATGCT-GTGGCAATTG
42434227 AAATGCTGTGGCAATT
1 AAATGCTGTGGCAATT
42434243 CTCAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (17 bp):
AAATGCTGTGGCAATTG
Found at i:42438264 original size:51 final size:51
Alignment explanation
Indices: 42438096--42438284 Score: 150
Period size: 51 Copynumber: 3.7 Consensus size: 51
42438086 GAAGTTGCTA
* * * * *
42438096 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTATATTGGAATG-ATA-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGG-ATGAAAAT
* * * * * * ***
42438146 GGTCGCATGTGTAGTACTATGTTCAAGCTACTATGCGTACCGAAT-AGCTT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGAAAAT
* * * *
42438196 CGATCACGTGTGAAGTACTATGTGCAGGCTACTATTTGTATCGGATGAAAAT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGAAAAT
* * *
42438248 GGTCACATGTGTAGTACTACGTGTAGACTACTATGTG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
42438285 AACCGGGTAT
Statistics
Matches: 102, Mismatches: 33, Indels: 7
0.72 0.23 0.05
Matches are distributed among these distances:
49 2 0.02
50 33 0.32
51 65 0.64
52 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGAAAAT
Found at i:42459378 original size:19 final size:20
Alignment explanation
Indices: 42459341--42459378 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
42459331 TATGTGTTTT
42459341 GTTCAAATGTAACTTTGTTA
1 GTTCAAATGTAACTTTGTTA
*
42459361 GTTCAATTGTAA-TTTGTT
1 GTTCAAATGTAACTTTGTT
42459379 CAGCAAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (20 bp):
GTTCAAATGTAACTTTGTTA
Found at i:42461015 original size:21 final size:22
Alignment explanation
Indices: 42460985--42461028 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
42460975 TAATATGTTT
42460985 TAAATAGATATAACTATTAAAG
1 TAAATAGATATAACTATTAAAG
* *
42461007 TAAA-AGATATAATTATTCAAG
1 TAAATAGATATAACTATTAAAG
42461028 T
1 T
42461029 GACATCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (22 bp):
TAAATAGATATAACTATTAAAG
Found at i:42463789 original size:14 final size:14
Alignment explanation
Indices: 42463770--42463797 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42463760 TTAATTTATT
42463770 AATGAATTATTAAA
1 AATGAATTATTAAA
42463784 AATGAATTATTAAA
1 AATGAATTATTAAA
42463798 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:42466763 original size:14 final size:14
Alignment explanation
Indices: 42466744--42466777 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
42466734 AGGCTTATAT
42466744 ATATACAATACATA
1 ATATACAATACATA
42466758 ATATACAATACATA
1 ATATACAATACATA
42466772 ATATAC
1 ATATAC
42466778 TTATGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (14 bp):
ATATACAATACATA
Found at i:42468670 original size:17 final size:17
Alignment explanation
Indices: 42468650--42468684 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
42468640 ATTGAAAAAA
*
42468650 AAATTCGAAAAAAAAGG
1 AAATTCAAAAAAAAAGG
42468667 AAATTCAAAAAAAAAGG
1 AAATTCAAAAAAAAAGG
42468684 A
1 A
42468685 GTACGAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.14, T:0.11
Consensus pattern (17 bp):
AAATTCAAAAAAAAAGG
Found at i:42469550 original size:6 final size:6
Alignment explanation
Indices: 42469539--42469647 Score: 76
Period size: 6 Copynumber: 17.7 Consensus size: 6
42469529 ACATTGTAAT
* ** *
42469539 GAAAAA GAAAAA GAAAAC GAAAATA -AAAAA GAAAAA GAAATT GGAAAA
1 GAAAAA GAAAAA GAAAAA GAAAA-A GAAAAA GAAAAA GAAAAA GAAAAA
** ** * * *
42469587 GAAAAA GAAATC GAAAAA GTGAGA GAAAAA GAAAAT GAAGAAAA GAAAATT
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA G-A-AAAA GAAAA-A
42469638 GAAAAA GAAA
1 GAAAAA GAAA
42469648 TTGAGATTGA
Statistics
Matches: 76, Mismatches: 22, Indels: 10
0.70 0.20 0.09
Matches are distributed among these distances:
5 1 0.01
6 64 0.84
7 7 0.09
8 4 0.05
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (6 bp):
GAAAAA
Found at i:42469641 original size:27 final size:29
Alignment explanation
Indices: 42469611--42469677 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
42469601 AAAAGTGAGA
42469611 GAAAAAGAAAATGA-A-GA-AAAGAAAATT
1 GAAAAAGAAAATGAGATGAGAAA-AAAATT
*
42469638 GAAAAAGAAATTGAGATTGAGAAAAAAATT
1 GAAAAAGAAAATGAGA-TGAGAAAAAAATT
42469668 GAAAAA-AAAA
1 GAAAAAGAAAA
42469678 GATGTTGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 13 0.38
28 1 0.03
29 3 0.09
30 14 0.41
31 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (29 bp):
GAAAAAGAAAATGAGATGAGAAAAAAATT
Found at i:42469656 original size:18 final size:18
Alignment explanation
Indices: 42469635--42469669 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
42469625 AGAAAAGAAA
42469635 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
42469653 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
42469670 AAAAAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:42485279 original size:20 final size:20
Alignment explanation
Indices: 42485241--42485279 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42485231 AATAAATAAA
* **
42485241 TTATTACTATTCATTTAATT
1 TTATAACTATTCAAATAATT
42485261 TTATAACTATTCAAATAAT
1 TTATAACTATTCAAATAAT
42485280 ATTGTTTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATAACTATTCAAATAATT
Found at i:42509233 original size:24 final size:25
Alignment explanation
Indices: 42509181--42509233 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
42509171 CTTTCTAGAA
*
42509181 GATTTAGTATTTATTAGTATAATAT
1 GATTTAGCATTTATTAGTATAATAT
* *
42509206 -ATTTAGCCTTTATTAGTATAGT-T
1 GATTTAGCATTTATTAGTATAATAT
42509229 GATTT
1 GATTT
42509234 GACTCACTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.53
Consensus pattern (25 bp):
GATTTAGCATTTATTAGTATAATAT
Found at i:42511201 original size:24 final size:25
Alignment explanation
Indices: 42511149--42511201 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
42511139 CTTTCTAGAA
*
42511149 GATTTAGTATTTATTAGTATAATAT
1 GATTTAGCATTTATTAGTATAATAT
*
42511174 -ATTTAGCATTTATTAGTATAGT-T
1 GATTTAGCATTTATTAGTATAATAT
42511197 GATTT
1 GATTT
42511202 GACTTACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (25 bp):
GATTTAGCATTTATTAGTATAATAT
Found at i:42512324 original size:20 final size:20
Alignment explanation
Indices: 42512275--42512340 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 20
42512265 ATAAATATCG
42512275 TAAAAAATATA-AAAATTGCA
1 TAAAAAATATATAAAA-TGCA
***
42512295 -AAATGTTATA-AAAAT-CA
1 TAAAAAATATATAAAATGCA
42512312 TAAAAAATATATAAAATGCA
1 TAAAAAATATATAAAATGCA
*
42512332 TTAAAAATA
1 TAAAAAATA
42512341 CCCTTTAACC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 2 0.06
18 8 0.22
19 16 0.44
20 10 0.28
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (20 bp):
TAAAAAATATATAAAATGCA
Found at i:42512327 original size:19 final size:19
Alignment explanation
Indices: 42512237--42512340 Score: 56
Period size: 19 Copynumber: 5.5 Consensus size: 19
42512227 ATAAATTTTA
* *
42512237 ATAAAAATTATTTAAAAT-
1 ATAAAAAATATATAAAATC
* *
42512255 AGAATAAAT-TATAAATATC
1 ATAAAAAATATATAAA-ATC
*
42512274 GTAAAAAATATA-AAAAT-
1 ATAAAAAATATATAAAATC
** *
42512291 -TGCAAAATGTTATAAAAATC
1 ATAAAAAAT-ATAT-AAAATC
42512311 ATAAAAAATATATAAAATGC
1 ATAAAAAATATATAAAAT-C
*
42512331 ATTAAAAATA
1 ATAAAAAATA
42512341 CCCTTTAACC
Statistics
Matches: 63, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
16 6 0.10
17 7 0.11
18 10 0.16
19 19 0.30
20 15 0.24
21 6 0.10
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAAAAAATATATAAAATC
Found at i:42512470 original size:10 final size:10
Alignment explanation
Indices: 42512457--42512490 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
42512447 ATGATAAAAA
42512457 AATAAAAATT
1 AATAAAAATT
42512467 AATAAAAATT
1 AATAAAAATT
*
42512477 ATACAAAAATT
1 A-ATAAAAATT
42512488 AAT
1 AAT
42512491 GCATCTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAAAAATT
Found at i:42512602 original size:11 final size:12
Alignment explanation
Indices: 42512579--42512603 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42512569 CTTTATAAAA
42512579 TTTTCTAATTTT
1 TTTTCTAATTTT
42512591 TTTTCTAATTTT
1 TTTTCTAATTTT
42512603 T
1 T
42512604 AATAGATTAA
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTAATTTT
Found at i:42512660 original size:19 final size:19
Alignment explanation
Indices: 42512617--42512660 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
42512607 AGATTAAAAT
*
42512617 ATTTTTATATTTTTATTAA
1 ATTTTAATATTTTTATTAA
*
42512636 AATTTAATATTTTT-TCTAA
1 ATTTTAATATTTTTAT-TAA
42512655 ATTTTA
1 ATTTTA
42512661 TTGATTTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTAATATTTTTATTAA
Found at i:42512962 original size:92 final size:89
Alignment explanation
Indices: 42512797--42512981 Score: 255
Period size: 92 Copynumber: 2.0 Consensus size: 89
42512787 GGACCTTACG
* * * *
42512797 TTTTGGCAGTTCAAATACTCAATTGAGTGCAAAAAAAAAGTAGGGGCTTAATTGCTCTTTTGAAA
1 TTTTCGCAGTTCAAATACCCAATTGAGTCCAAAAAAAAAGCAGGGGCTTAATTGCTCTTTTGAAA
*
42512862 AAGTTTGAGGG-CATTTTTAATGCA
66 AAGTTTGAGGGTC-TTTTTAATACA
* *
42512886 TTTTCGCAGTTCAAGTACCCAATTGAGTTCCAAAAAAAAAAGCAGGGGCTTAATTGTTTCTTTTG
1 TTTTCGCAGTTCAAATACCCAATTGAG-TCC-AAAAAAAAAGCAGGGGCTTAATTG-CTCTTTTG
*
42512951 AAAATGTTTGAGGGTCTTTTTAATACA
63 AAAAAGTTTGAGGGTCTTTTTAATACA
42512978 TTTT
1 TTTT
42512982 GAAAGTTAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
89 24 0.29
90 2 0.02
91 23 0.27
92 34 0.40
93 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (89 bp):
TTTTCGCAGTTCAAATACCCAATTGAGTCCAAAAAAAAAGCAGGGGCTTAATTGCTCTTTTGAAA
AAGTTTGAGGGTCTTTTTAATACA
Found at i:42513000 original size:92 final size:91
Alignment explanation
Indices: 42512827--42513001 Score: 237
Period size: 92 Copynumber: 1.9 Consensus size: 91
42512817 AATTGAGTGC
* *
42512827 AAAAAAAAAGTAGGGGCTTAATTGCTCTTTTGAAAAAGTTTGAGGGCATTTTTAATGCATTTTCG
1 AAAAAAAAAGCAGGGGCTTAATTGCTCTTTTGAAAAAGTTTGAGGGCATTTTTAATACATTTTCG
* * * *
42512892 CAGTTCAAGTACCCAATTGAGTTCCA
66 AAGTTAAAATAACCAATTGAGTTCCA
* *
42512918 AAAAAAAAAGCAGGGGCTTAATTGTTTCTTTTGAAAATGTTTGAGGGTC-TTTTTAATACATTTT
1 AAAAAAAAAGCAGGGGCTTAATTG-CTCTTTTGAAAAAGTTTGAGGG-CATTTTTAATACATTTT
42512982 -GAAAGTTAAAATAACCAATT
64 CG-AAGTTAAAATAACCAATT
42513002 CAGTGAAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 24 0.33
92 48 0.66
93 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (91 bp):
AAAAAAAAAGCAGGGGCTTAATTGCTCTTTTGAAAAAGTTTGAGGGCATTTTTAATACATTTTCG
AAGTTAAAATAACCAATTGAGTTCCA
Found at i:42513430 original size:10 final size:10
Alignment explanation
Indices: 42513415--42513476 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
42513405 AGAATTAGAA
42513415 AAAATATTAT
1 AAAATATTAT
*
42513425 AAAATAGTA-
1 AAAATATTAT
42513434 AAAA-ATTAT
1 AAAATATTAT
*
42513443 AAAATTTTAT
1 AAAATATTAT
*
42513453 AAAA-ATCAT
1 AAAATATTAT
42513462 AAAA-ATATAT
1 AAAATAT-TAT
42513472 AAAAT
1 AAAAT
42513477 TGTATAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
8 3 0.07
9 17 0.40
10 22 0.52
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAATATTAT
Found at i:42513452 original size:28 final size:28
Alignment explanation
Indices: 42513415--42513504 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 28
42513405 AGAATTAGAA
*
42513415 AAAATATTATAAAATAGTAAAAAATTAT
1 AAAATTTTATAAAATAGTAAAAAATTAT
42513443 AAAATTTTATAAAA-A-TCATAAAAATATAT
1 AAAATTTTATAAAATAGT-A-AAAAAT-TAT
* * * *
42513472 AAAATTGTATAAAGTCGTAAGAAAATTAG
1 AAAATTTTATAAAATAGTAA-AAAATTAT
42513501 AAAA
1 AAAA
42513505 AAAAATGTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
26 1 0.02
27 2 0.04
28 19 0.37
29 22 0.43
30 6 0.12
31 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (28 bp):
AAAATTTTATAAAATAGTAAAAAATTAT
Found at i:42513456 original size:18 final size:18
Alignment explanation
Indices: 42513420--42513477 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
42513410 TAGAAAAAAT
*
42513420 ATTATAAAA-TAGTAAAAA
1 ATTATAAAATTA-TATAAA
*
42513438 ATTATAAAATTTTATAAAA
1 ATTATAAAATTATAT-AAA
* *
42513457 ATCATAAAAATATATAAA
1 ATTATAAAATTATATAAA
42513475 ATT
1 ATT
42513478 GTATAAAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
ATTATAAAATTATATAAA
Found at i:42513456 original size:19 final size:19
Alignment explanation
Indices: 42513415--42513475 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
42513405 AGAATTAGAA
42513415 AAAATATTATAAAA-TAGTA-
1 AAAA-ATTATAAAATTA-TAT
*
42513434 AAAAATTATAAAATTTTAT
1 AAAAATTATAAAATTATAT
* *
42513453 AAAAATCATAAAAATATAT
1 AAAAATTATAAAATTATAT
42513472 AAAA
1 AAAA
42513476 TTGTATAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.31
19 25 0.69
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAATTATAAAATTATAT
Found at i:42513785 original size:28 final size:28
Alignment explanation
Indices: 42513745--42513808 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
42513735 AAATTGTTTT
*
42513745 TTTTTCTATTTTTAGT-AAGTTTTAA-ATA
1 TTTTTATATTTTTAGTAAAG-TTTAATA-A
*
42513773 TTTTTATATTTTTATTAAAGTTTAATAA
1 TTTTTATATTTTTAGTAAAGTTTAATAA
42513801 TTTTTATA
1 TTTTTATA
42513809 ACTTTCATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (28 bp):
TTTTTATATTTTTAGTAAAGTTTAATAA
Found at i:42523513 original size:6 final size:6
Alignment explanation
Indices: 42523487--42523559 Score: 62
Period size: 6 Copynumber: 12.5 Consensus size: 6
42523477 TAAGTCCGAC
* * * * * *
42523487 AAAT-A AAATAA AAA-AT AAATAA CAATAA AAATAT AATTAG AATTAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
42523533 AAATAA AAATAA AAA-ATA AAATAA AAA
1 AAATAA AAATAA AAATA-A AAATAA AAA
42523560 ATTATAAAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
5 9 0.16
6 45 0.82
7 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:42552929 original size:36 final size:35
Alignment explanation
Indices: 42552878--42552947 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 35
42552868 TGTCCCATGA
*
42552878 AAATATATCTATTGAATGATAAATTATCACTTTCT
1 AAATATATCTATTGAATAATAAATTATCACTTTCT
*
42552913 AAATGTATCTTATTGAATAATAAATTATCACTTTC
1 AAATATATC-TATTGAATAATAAATTATCACTTTC
42552948 CAAAATTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 8 0.25
36 24 0.75
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (35 bp):
AAATATATCTATTGAATAATAAATTATCACTTTCT
Found at i:42555856 original size:22 final size:22
Alignment explanation
Indices: 42555828--42555871 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
42555818 TAAGCAGAAG
42555828 AATTAAATTTATTCATATTAAT
1 AATTAAATTTATTCATATTAAT
42555850 AATTAAATTTATTCATATTAAT
1 AATTAAATTTATTCATATTAAT
42555872 GCTCAACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTAAATTTATTCATATTAAT
Found at i:42567968 original size:205 final size:206
Alignment explanation
Indices: 42567660--42568112 Score: 502
Period size: 205 Copynumber: 2.2 Consensus size: 206
42567650 CTCCCAAAAA
* * * * *
42567660 TGAAAACAAGGTTCATAGGCAAAGAGCCGTATCCTCTAAAATAGTTAGCGAGAGCAAAGCTCTCA
1 TGAAAACAAGGTTCACAGGCGAAGAGCCGTAGCCTCTAAAACAGTTAGCGAGAGCAAACCTCTCA
* *
42567725 ACAGTAAAAATAAGGTTTGCAGGTGAAGAGTCGCAGCCTCTAAAACAGTTAGCAAGAGCAAAGCT
66 ACAGAAAAAATAAGGTTTGCAGGTGAAGAGTCGCAGCCTCTAAAACAATTAGCAAGAGCAAAGCT
* * * * * * *
42567790 CCCAACTATGAAAATAAGGCTCGCAGGC-AAAGAGCCGCAGCCACTAAAATAGTTAAC-GAGTAA
131 CCCAACCATGAAAACAAGGCTCACAGGCGAAA-AGCCACAGCCACTAAAACAATTAACAGAGCAA
42567853 AGCTACCAGCTG
195 AGCTACCAGCTG
* * *
42567865 TGAAAACAATGTTCACAGGCGAAGAGCCGTAGCCTCTAAAACAGTTAGCGGGAGTAAACCTC-CT
1 TGAAAACAAGGTTCACAGGCGAAGAGCCGTAGCCTCTAAAACAGTTAGCGAGAGCAAACCTCTC-
*** * * * *
42567929 AGTTGAAAAAATAAGGTTTGTAGGTGATA-AG-CTGCAGCCTTTAAAACAATTAGCGAGAGTAAA
65 AACAGAAAAAATAAGGTTTGCAGGTGA-AGAGTC-GCAGCCTCTAAAACAATTAGCAAGAGCAAA
* * * * *
42567992 GCTCCCAACCATGAAAACAAGGTTCATAGGCGAAAAGCCACAGCCTCTAATACAATTAGCGAGAG
128 GCTCCCAACCATGAAAACAAGGCTCACAGGCGAAAAGCCACAGCCACTAAAACAATTAAC-AGAG
*
42568057 CAAAGCTCCCAGCTG
192 CAAAGCTACCAGCTG
* * * ** *
42568072 TAAAAACAAGGTTCGCAGGAGAAGATTCGCAGCCTCTAAAA
1 TGAAAACAAGGTTCACAGGCGAAGAGCCGTAGCCTCTAAAA
42568113 TAAATAACGA
Statistics
Matches: 205, Mismatches: 37, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
204 2 0.01
205 149 0.73
206 4 0.02
207 50 0.24
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.18
Consensus pattern (206 bp):
TGAAAACAAGGTTCACAGGCGAAGAGCCGTAGCCTCTAAAACAGTTAGCGAGAGCAAACCTCTCA
ACAGAAAAAATAAGGTTTGCAGGTGAAGAGTCGCAGCCTCTAAAACAATTAGCAAGAGCAAAGCT
CCCAACCATGAAAACAAGGCTCACAGGCGAAAAGCCACAGCCACTAAAACAATTAACAGAGCAAA
GCTACCAGCTG
Found at i:42568137 original size:69 final size:69
Alignment explanation
Indices: 42567591--42568145 Score: 395
Period size: 69 Copynumber: 8.1 Consensus size: 69
42567581 ACTATCATCA
* * * * *
42567591 GTAAAAACAA-GTTTGCA-GACGAAGAGCCGCAGCCTTTAAAATAGTTAGTGAGAGCAAAGCTCC
1 GTAAAAACAAGGTTCGCAGGA-GAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGTAAAGCTCC
***
42567654 CAAAA
65 CAGCT
* * ** * * * * *
42567659 ATGAAAACAAGGTTCATAGGCA-AAGAGCCGTATCCTCTAAAATAGTTAGCGAGAGCAAAGCTCT
1 GTAAAAACAAGGTTCGCAGG-AGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGTAAAGCTCC
* *
42567723 CAACA
65 CAGCT
* * * * * *
42567728 GTAAAAATAAGGTTTGCAGGTGAAGAGTCGCAGCCTCTAAAACAGTTAGCAAGAGCAAAGCTCCC
1 GTAAAAACAAGGTTCGCAGGAGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGTAAAGCTCCC
*
42567793 AACT
66 AGCT
* * * * * * * *
42567797 ATGAAAATAAGGCTCGCAGGCA-AAGAGCCGCAGCCACTAAAATAGTTAAC--GAGTAAAGCTAC
1 GTAAAAACAAGGTTCGCAGG-AGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGTAAAGCTCC
42567859 CAGCT
65 CAGCT
* * * * * * * *
42567864 GTGAAAACAATGTTCACAGGCGAAGAGCCGTAGCCTCTAAAACAGTTAGCGGGAGTAAACCTCCT
1 GTAAAAACAAGGTTCGCAGGAGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGTAAAGCTCCC
*
42567929 AGTT
66 AGCT
* * * * * * * *
42567933 GAAAAAATAAGGTTTGTAGGTGATA-AGCTGCAGCCTTTAAAACAATTAGCGAGAGTAAAGCTCC
1 GTAAAAACAAGGTTCGCAGGAGA-AGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGTAAAGCTCC
* *
42567997 CAACC
65 CAGCT
* * ** * * * * * *
42568002 ATGAAAACAAGGTTCATAGGCGAAAAGCCACAGCCTCTAATACAATTAGCGAGAGCAAAGCTCCC
1 GTAAAAACAAGGTTCGCAGGAGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGTAAAGCTCCC
42568067 AGCT
66 AGCT
** * ** *
42568071 GTAAAAACAAGGTTCGCAGGAGAAGATTCGCAGCCTCTAAAATAAATAACGAGAGTAAAGCTCCC
1 GTAAAAACAAGGTTCGCAGGAGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGTAAAGCTCCC
*
42568136 AGTT
66 AGCT
42568140 GTAAAA
1 GTAAAA
42568146 CCAAAGCTTG
Statistics
Matches: 379, Mismatches: 98, Indels: 19
0.76 0.20 0.04
Matches are distributed among these distances:
67 53 0.14
68 9 0.02
69 314 0.83
70 2 0.01
71 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.18
Consensus pattern (69 bp):
GTAAAAACAAGGTTCGCAGGAGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGTAAAGCTCCC
AGCT
Found at i:42580028 original size:20 final size:21
Alignment explanation
Indices: 42580003--42580042 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
42579993 CCTCACACTA
*
42580003 AAACTA-TAGAAAACTAAATG
1 AAACTACTAGAAAACAAAATG
*
42580023 AAACTACTAGCAAACAAAAT
1 AAACTACTAGAAAACAAAAT
42580043 ATTCAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.60, C:0.15, G:0.07, T:0.17
Consensus pattern (21 bp):
AAACTACTAGAAAACAAAATG
Found at i:42585309 original size:51 final size:50
Alignment explanation
Indices: 42585237--42585532 Score: 283
Period size: 51 Copynumber: 5.9 Consensus size: 50
42585227 TAAATGATAC
* * * *
42585237 CCGGTTCACATAGTAGCCTGCAAATAGTACTACACATGTGACCATTTTCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCAT
* * * * *
42585288 CCGATACACGTAGTAGTCTGCACATAGTACTACACACGTGATCGA-AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATATC-AT
* * *
42585339 CTGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATATCAT
* * ** * * *
42585388 CCTGGTACATGTAATAGAGTGCACATAGTACTACACACGTAACCATTTTCAT
1 CC-GGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCAT
** * **
42585440 CCGACACGCGTAGTAGCCTGCACATAGTACTACACATGCAACC-TATCATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-T
* *
42585490 CCGGTACACATAGTAGCCTACACATAGTACTACACATGTGACC
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACC
42585533 TAGCAACGTC
Statistics
Matches: 194, Mismatches: 44, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
49 7 0.04
50 74 0.38
51 104 0.54
52 9 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATATCAT
Found at i:42585462 original size:101 final size:100
Alignment explanation
Indices: 42585245--42585530 Score: 322
Period size: 101 Copynumber: 2.8 Consensus size: 100
42585235 ACCCGGTTCA
* * * *
42585245 CATAGTAGCCTGCAAATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGTCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACC--TATCATCCGGTACACGTAGTAGACTGCA
* * * **
42585310 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
64 CATAGTACTACACACGTGAACCAAGCTATCCGACACG
* * *
42585347 CATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATCCTGGTACATGTAATAGAGTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATCC-GGTACACGTAGTAGACTGCAC
***
42585412 ATAGTACTACACACGT-AACCATTTTCATCCGACACG
65 ATAGTACTACACACGTGAACCAAGCT-ATCCGACACG
* ** * * *
42585448 CGTAGTAGCCTGCACATAGTACTACACATGCAACCTATCATTCCGGTACACATAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCTATCA-TCCGGTACACGTAGTAGACTGCAC
*
42585513 ATAGTACTACACATGTGA
65 ATAGTACTACACACGTGA
42585531 CCTAGCAACG
Statistics
Matches: 155, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
100 11 0.07
101 106 0.68
102 38 0.25
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (100 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATCCGGTACACGTAGTAGACTGCACA
TAGTACTACACACGTGAACCAAGCTATCCGACACG
Found at i:42585524 original size:12 final size:13
Alignment explanation
Indices: 42585494--42585526 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
42585484 ATCATTCCGG
42585494 TACACATAGTAGCC
1 TACACATAGTA-CC
42585508 TACACATAGTA-C
1 TACACATAGTACC
42585520 TACACAT
1 TACACAT
42585527 GTGACCTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
14 11 0.58
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (13 bp):
TACACATAGTACC
Found at i:42585708 original size:14 final size:15
Alignment explanation
Indices: 42585689--42585717 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42585679 AATCCAGTCC
42585689 AAAAA-TACATTTTT
1 AAAAATTACATTTTT
42585703 AAAAATTACATTTTT
1 AAAAATTACATTTTT
42585718 GCCCCTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAAATTACATTTTT
Found at i:42590362 original size:47 final size:47
Alignment explanation
Indices: 42590303--42590689 Score: 558
Period size: 47 Copynumber: 7.9 Consensus size: 47
42590293 TAGTATGGCG
*
42590303 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
42590350 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
42590397 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
42590444 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
42590491 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
42590540 TAATGGCCGATGTGATGAATGTTGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCC--------G-A---TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
42590599 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
42590646 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
42590690 TCCCGAAGGG
Statistics
Matches: 313, Mismatches: 13, Indels: 28
0.88 0.04 0.08
Matches are distributed among these distances:
47 240 0.77
49 25 0.08
50 1 0.00
51 1 0.00
57 1 0.00
58 1 0.00
59 25 0.08
61 19 0.06
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:42590603 original size:155 final size:153
Alignment explanation
Indices: 42590407--42590687 Score: 481
Period size: 155 Copynumber: 1.8 Consensus size: 153
42590397 TAATGGCCGA
42590407 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * *
42590472 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGG
66 GTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA-A-ATGTGATAGG
42590537 GCCTAATGGCCGATGTGATGAATGT
129 GCCTAATGGCCGATGTGATGAATGT
42590562 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * *
42590627 GTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
66 GTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATA
42590688 AGTCCCGAAG
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
153 8 0.07
154 1 0.01
155 110 0.92
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (153 bp):
TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAGGGC
CTAATGGCCGATGTGATGAATGT
Found at i:42590607 original size:59 final size:60
Alignment explanation
Indices: 42590501--42590620 Score: 215
Period size: 59 Copynumber: 2.0 Consensus size: 60
42590491 TAATGGCCGA
*
42590501 TGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 TGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
42590562 TGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 TGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
42590621 GAAAGTGTAT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 39 0.67
61 19 0.33
ACGTcount: A:0.30, C:0.07, G:0.31, T:0.33
Consensus pattern (60 bp):
TGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:42590864 original size:37 final size:37
Alignment explanation
Indices: 42590808--42590886 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
42590798 CCGAGCACTA
* * *
42590808 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
42590845 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
42590882 AAGAC
1 AAGAC
42590887 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:42591816 original size:42 final size:42
Alignment explanation
Indices: 42591736--42591817 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
42591726 CGTTTTCTCT
* **
42591736 ATGCCAAAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCAAAGCCCAACTATGGTCTTACACATATGCACATATTG
* *
42591778 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCAAAGCCCAACTATGGTCTTACACA-TATGCACATAT
42591818 CACACTGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCAAAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:42594717 original size:101 final size:101
Alignment explanation
Indices: 42594605--42594840 Score: 255
Period size: 101 Copynumber: 2.3 Consensus size: 101
42594595 CTGGTACGCA
* ** * *
42594605 TAGTAGCCTGCACATAGTACTACACATGTGACCT-A-TCATCCTGGTACATGTAGTAGAGTGCAC
1 TAGTAGCCTGCACATAGTACTACACATGTGACCTAAGTCATCC-AGTACACATAGTAGACTACAC
* *
42594668 ATAGTACTACACACGTAACCATTTTCA-TCCGACACACG
65 ATAGTACTACACACGCAACC--TATCATTCCGACACACG
* * * * * *
42594706 TAGTAGCCTGCACATAGTACTACACACGTGA-TTGAAGTTATTCAGTACGCATAGTAGCCTACAC
1 TAGTAGCCTGCACATAGTACTACACATGTGACCT-AAGTCATCCAGTACACATAGTAGACTACAC
* ** *
42594770 ATAGTACTACACATGCAACCTATCATTCCGGTACACT
65 ATAGTACTACACACGCAACCTATCATTCCGACACACG
42594807 TAGTAGCCTGCACATAGTACTACACATGTGACCT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCT
42594841 GGCAACTTCA
Statistics
Matches: 111, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
100 5 0.05
101 68 0.61
102 34 0.31
103 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCTAAGTCATCCAGTACACATAGTAGACTACACA
TAGTACTACACACGCAACCTATCATTCCGACACACG
Found at i:42594724 original size:51 final size:51
Alignment explanation
Indices: 42594503--42594832 Score: 224
Period size: 51 Copynumber: 6.5 Consensus size: 51
42594493 CCGGTTCATA
* * *
42594503 TAGTAGCCTGCATATAGTACTACACATGTGACCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTAACCATTTTCATCCGATACACG
* * * *** *** * * * *
42594554 TAGTAGTCTGCACATAGTACTAGACAAGTGATTGAAGCT-ATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGT-AACCATTTTCATCCGATACACG
* * * * *
42594605 TAGTAGCCTGCACATAGTACTACACATGTGACC--TATCATCCTGGTACATG
1 TAGTAGCCTGCACATAGTACTACACACGTAACCATTTTCATCC-GATACACG
** *
42594655 TAGTAGAGTGCACATAGTACTACACACGTAACCATTTTCATCCGACACACG
1 TAGTAGCCTGCACATAGTACTACACACGTAACCATTTTCATCCGATACACG
*** ** * * *
42594706 TAGTAGCCTGCACATAGTACTACACACGTGATTGAAGTT-ATTC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGT-AACCATTTTCATCCGA-TACACG
* * * * * *
42594757 TAGTAGCCTACACATAGTACTACACATGCAACC--TATCATTCCGGTACACT
1 TAGTAGCCTGCACATAGTACTACACACGTAACCATTTTCA-TCCGATACACG
42594807 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
42594833 TGTGACCTGG
Statistics
Matches: 209, Mismatches: 60, Indels: 21
0.72 0.21 0.07
Matches are distributed among these distances:
48 2 0.01
49 4 0.02
50 67 0.32
51 123 0.59
52 13 0.06
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTAACCATTTTCATCCGATACACG
Found at i:42594779 original size:152 final size:152
Alignment explanation
Indices: 42594503--42594832 Score: 477
Period size: 152 Copynumber: 2.2 Consensus size: 152
42594493 CCGGTTCATA
* * * * * *
42594503 TAGTAGCCTGCATATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGTCTGCACA
1 TAGTAGACTGCACATAGTACTACACACGTAACCATTTTCATCCGACACACGTAGTAGCCTGCACA
* * *
42594568 TAGTACTAGACAAGTGATTGAAGCTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATG
66 TAGTACTACACAAGTGATTGAAGCTATCTAGTACGCATAGTAGCCTACACATAGTACTACACATG
**
42594633 TGACCTATCA-TCCTGGTACA-T
131 CAACCTATCATTCC-GGTACACT
*
42594654 GTAGTAGAGTGCACATAGTACTACACACGTAACCATTTTCATCCGACACACGTAGTAGCCTGCAC
1 -TAGTAGACTGCACATAGTACTACACACGTAACCATTTTCATCCGACACACGTAGTAGCCTGCAC
* *
42594719 ATAGTACTACACACGTGATTGAAGTTAT-TCAGTACGCATAGTAGCCTACACATAGTACTACACA
65 ATAGTACTACACAAGTGATTGAAGCTATCT-AGTACGCATAGTAGCCTACACATAGTACTACACA
42594783 TGCAACCTATCATTCCGGTACACT
129 TGCAACCTATCATTCCGGTACACT
*
42594807 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGACTGCACATAGTACTACACA
42594833 TGTGACCTGG
Statistics
Matches: 159, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
151 1 0.01
152 154 0.97
153 4 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (152 bp):
TAGTAGACTGCACATAGTACTACACACGTAACCATTTTCATCCGACACACGTAGTAGCCTGCACA
TAGTACTACACAAGTGATTGAAGCTATCTAGTACGCATAGTAGCCTACACATAGTACTACACATG
CAACCTATCATTCCGGTACACT
Found at i:42595057 original size:30 final size:30
Alignment explanation
Indices: 42595006--42595062 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
42594996 AAAAATCATA
42595006 TTTTGACAAAATTACATTTTTCCCCTATAG
1 TTTTGACAAAATTACATTTTTCCCCTATAG
*
42595036 TTTT-ACAAAATTATGATTTTTCCCCTA
1 TTTTGACAAAATTA-CATTTTTCCCCTA
42595063 GGGTCGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.46
Consensus pattern (30 bp):
TTTTGACAAAATTACATTTTTCCCCTATAG
Found at i:42603262 original size:23 final size:23
Alignment explanation
Indices: 42603229--42603272 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
42603219 AAATTTACTC
*
42603229 TAAAAGGAAAAGAGAACAAAAAA
1 TAAAAGAAAAAGAGAACAAAAAA
*
42603252 TAAAAGAAAAAGAGAAGAAAA
1 TAAAAGAAAAAGAGAACAAAA
42603273 CCTAACCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (23 bp):
TAAAAGAAAAAGAGAACAAAAAA
Found at i:42610206 original size:42 final size:42
Alignment explanation
Indices: 42610067--42610381 Score: 305
Period size: 42 Copynumber: 7.5 Consensus size: 42
42610057 TTTAAACAGA
* * * * * *
42610067 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGAT-TCAG-
1 TTCACCGGCAATAAGCCTGCTAGACATAAAGTCTGATAT-TGT
* * * * *
42610108 TACACCGGCACTTAGCCTGCTAGACATATAGTCTGA-ACTGT
1 TTCACCGGCAATAAGCCTGCTAGACATAAAGTCTGATATTGT
* *
42610149 TTCACCGG-AATTAAGCCTGCTAGACGTAAAGTTTGATATTGT
1 TTCACCGGCAA-TAAGCCTGCTAGACATAAAGTCTGATATTGT
* * *
42610191 TTCACTGGCAATAAGCCTGCTAGACATAAAGTCTGAAATTAT
1 TTCACCGGCAATAAGCCTGCTAGACATAAAGTCTGATATTGT
* * * *
42610233 TTCACCGGCATTAAGCCTGATAGACATAAAGTCTAATTTTGT
1 TTCACCGGCAATAAGCCTGCTAGACATAAAGTCTGATATTGT
** * * * *
42610275 TTCACTAGCAATAAGCCTGCTAGGCGTAAAGTCTGAAATTAT
1 TTCACCGGCAATAAGCCTGCTAGACATAAAGTCTGATATTGT
* * * *
42610317 TTCACCAGCATTAAGCCTGCTAGACGTAAAGTTTGATATTGT
1 TTCACCGGCAATAAGCCTGCTAGACATAAAGTCTGATATTGT
*
42610359 TTCACTGGCAATAAGCCTGCTAG
1 TTCACCGGCAATAAGCCTGCTAG
42610382 GCGCTAAGCC
Statistics
Matches: 224, Mismatches: 45, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
40 2 0.01
41 59 0.26
42 161 0.72
43 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (42 bp):
TTCACCGGCAATAAGCCTGCTAGACATAAAGTCTGATATTGT
Found at i:42610384 original size:84 final size:84
Alignment explanation
Indices: 42610121--42610381 Score: 398
Period size: 84 Copynumber: 3.1 Consensus size: 84
42610111 ACCGGCACTT
* * * *
42610121 AGCCTGCTAGACATATAGTCTG-AACTGTTTCACCGGAATTAAGCCTGCTAGACGTAAAGTTTGA
1 AGCCTGCTAGACATAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTTTGA
42610185 TATTGTTTCACTGGCAATA
66 TATTGTTTCACTGGCAATA
* * * *
42610204 AGCCTGCTAGACATAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGATAGACATAAAGTCTAA
1 AGCCTGCTAGACATAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTTTGA
* *
42610269 TTTTGTTTCACTAGCAATA
66 TATTGTTTCACTGGCAATA
* * *
42610288 AGCCTGCTAGGCGTAAAGTCTGAAATTATTTCACCAGCATTAAGCCTGCTAGACGTAAAGTTTGA
1 AGCCTGCTAGACATAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTTTGA
42610353 TATTGTTTCACTGGCAATA
66 TATTGTTTCACTGGCAATA
42610372 AGCCTGCTAG
1 AGCCTGCTAG
42610382 GCGCTAAGCC
Statistics
Matches: 158, Mismatches: 19, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
83 21 0.13
84 137 0.87
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (84 bp):
AGCCTGCTAGACATAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTTTGA
TATTGTTTCACTGGCAATA
Found at i:42613734 original size:27 final size:27
Alignment explanation
Indices: 42613704--42613764 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
42613694 TTGGAGTCAA
* *
42613704 TAAACATGTGATAGTCCGCC-AGGACAG
1 TAAACACGGGATAGTCCGCCGA-GACAG
* *
42613731 TAAACACGGGATAGTCTGTCGAGACAG
1 TAAACACGGGATAGTCCGCCGAGACAG
42613758 TAAACAC
1 TAAACAC
42613765 TGGTTCATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
TAAACACGGGATAGTCCGCCGAGACAG
Found at i:42618683 original size:14 final size:15
Alignment explanation
Indices: 42618664--42618697 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
42618654 ATGTAGCAGA
*
42618664 TTTTGT-TGTTTCTG
1 TTTTGTATGGTTCTG
42618678 TTTTGTATGGTTCTG
1 TTTTGTATGGTTCTG
42618693 TTTTG
1 TTTTG
42618698 GATGAACACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.03, C:0.06, G:0.24, T:0.68
Consensus pattern (15 bp):
TTTTGTATGGTTCTG
Found at i:42620237 original size:120 final size:118
Alignment explanation
Indices: 42620111--42620396 Score: 450
Period size: 120 Copynumber: 2.4 Consensus size: 118
42620101 AATTATTTTA
* *
42620111 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAAAAAAT-TTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATT-ATTATTT-AAAAAAATATTT
42620175 TA-TAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TACT-GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAA-TATTAAG
* ***
42620231 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATTTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAAT-ATTATTATTTAAAAAAATATTTT
42620296 ACTGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATATTAAG
65 ACTGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATATTAAG
42620350 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAAT-ATTAT
42620397 GTTTAAATAT
Statistics
Matches: 157, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
119 58 0.37
120 95 0.61
121 4 0.03
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (118 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTATTATTTAAAAAAATATTTTA
CTGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATATTAAG
Found at i:42620293 original size:15 final size:14
Alignment explanation
Indices: 42620241--42620296 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
42620231 AATTTTATTA
42620241 AATTATA-TATTTT
1 AATTATATTATTTT
*
42620254 AATTATAATATATTT
1 AATTATATTAT-TTT
*
42620269 AATAATTATTATTTT
1 AATTA-TATTATTTT
42620284 AATT-TA-TATTTT
1 AATTATATTATTTT
42620296 A
1 A
42620297 CTGTATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.19
13 9 0.24
14 3 0.08
15 13 0.35
16 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATATTATTTT
Found at i:42620497 original size:148 final size:150
Alignment explanation
Indices: 42620343--42620613 Score: 501
Period size: 151 Copynumber: 1.8 Consensus size: 150
42620333 AGAATATTAA
*
42620343 TATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA-TT-TAATAATTATGTTTAAATA
1 TATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTATAATAATTATGTTTAAATA
*
42620406 TGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAATAATTTAC
66 TGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAATAATTTAC
42620471 CAAAACAAATTTCTGCTAAT
131 CAAAACAAATTTCTGCTAAT
42620491 TATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT-ATAATAATTATGTTTAAAT
42620556 ATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAA
65 ATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAA
42620614 CAATAATCAT
Statistics
Matches: 118, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
148 41 0.35
149 2 0.02
151 75 0.64
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (150 bp):
TATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTATAATAATTATGTTTAAATA
TGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAATAATTTAC
CAAAACAAATTTCTGCTAAT
Found at i:42620527 original size:18 final size:17
Alignment explanation
Indices: 42620499--42620533 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42620489 ATTATTAAGA
*
42620499 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
42620516 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
42620534 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:42620723 original size:39 final size:43
Alignment explanation
Indices: 42620680--42620787 Score: 125
Period size: 45 Copynumber: 2.6 Consensus size: 43
42620670 TTCCATTATG
42620680 CTATTACACCTCTATTCCATT-CA-A-CCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTACATAGCCAAACACAAGATTTA
* *** *
42620719 CTATTACGCCTCTATTCCATTACATTCAGCCAAACAGTTGATTTG
1 CTATTACACCTCTATTCCATTACA-T-AGCCAAACACAAGATTTA
42620764 CTATTACACCTCTATTCCATTACA
1 CTATTACACCTCTATTCCATTACA
42620788 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 9 0.16
45 25 0.44
ACGTcount: A:0.31, C:0.30, G:0.06, T:0.33
Consensus pattern (43 bp):
CTATTACACCTCTATTCCATTACATAGCCAAACACAAGATTTA
Found at i:42620787 original size:16 final size:16
Alignment explanation
Indices: 42620766--42620803 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
42620756 TTGATTTGCT
*
42620766 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
42620782 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
42620798 AATACA
1 ATTACA
42620804 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:42624246 original size:28 final size:27
Alignment explanation
Indices: 42624198--42624276 Score: 122
Period size: 28 Copynumber: 2.9 Consensus size: 27
42624188 TTAGTGAAAA
*
42624198 AATTTAATAAAAAATTTTGTTAATATT
1 AATTGAATAAAAAATTTTGTTAATATT
*
42624225 AATTGAATAAAAAACTTTTGTTAGTATT
1 AATTGAATAAAAAA-TTTTGTTAATATT
*
42624253 AATTGAATAAAAAGTTTTGTTAAT
1 AATTGAATAAAAAATTTTGTTAAT
42624277 GTCATTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
27 22 0.47
28 25 0.53
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (27 bp):
AATTGAATAAAAAATTTTGTTAATATT
Found at i:42626344 original size:41 final size:40
Alignment explanation
Indices: 42626235--42626361 Score: 168
Period size: 41 Copynumber: 3.2 Consensus size: 40
42626225 CTACGTATAC
* * *
42626235 AATTTTGAAAAAAATATTAAAAATAAGATACGAACAGATA
1 AATTTTGAAAAAAAGATTAAAAATAAAATACGAACTGATA
** *
42626275 AATTTTG-AAATGAGGTTAAAAATAAAATAC-AAGCTGATA
1 AATTTTGAAAAAAAGATTAAAAATAAAATACGAA-CTGATA
42626314 AATTTTGAAAAAAAAGATTAAAAATAAAATACGAACTGATA
1 AATTTTG-AAAAAAAGATTAAAAATAAAATACGAACTGATA
42626355 AATTTTG
1 AATTTTG
42626362 GAACAGTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.03
39 30 0.41
40 7 0.09
41 33 0.45
42 2 0.03
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.28
Consensus pattern (40 bp):
AATTTTGAAAAAAAGATTAAAAATAAAATACGAACTGATA
Found at i:42629405 original size:19 final size:19
Alignment explanation
Indices: 42629383--42629461 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 19
42629373 TAATAAAATT
42629383 ATTATGAAA-TTATAAAAAA
1 ATTAT-AAACTTATAAAAAA
*
42629402 ATTA-AAATTTGAT-AAAAA
1 ATTATAAACTT-ATAAAAAA
* *
42629420 A-TATAAAACTTATTAAAAT
1 ATTAT-AAACTTATAAAAAA
* *
42629439 ATTATAAATTTTTAAAAAA
1 ATTATAAACTTATAAAAAA
42629458 ATTA
1 ATTA
42629462 AAAAATTTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
17 5 0.10
18 10 0.21
19 30 0.62
20 3 0.06
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (19 bp):
ATTATAAACTTATAAAAAA
Found at i:42632871 original size:67 final size:67
Alignment explanation
Indices: 42632800--42632947 Score: 224
Period size: 67 Copynumber: 2.2 Consensus size: 67
42632790 ACAAATTGTT
* * * * * *
42632800 AATATGTGCAAACAAGTTGCTAGTATTATGGACAAGCCACTAGTAATGGTAATGCAGATAAACTG
1 AATATATGCAAACAAGCTGCTAGTATTACGGACAAGCCACCAGTAACGGTAATGCAGATAAACTA
42632865 CC
66 CC
**
42632867 AATATAAACAAACAAGCTGCTAGTATTACGGACAAGCCACCAGTAACGGTAATGCAGATAAACTA
1 AATATATGCAAACAAGCTGCTAGTATTACGGACAAGCCACCAGTAACGGTAATGCAGATAAACTA
42632932 CC
66 CC
42632934 AATATATGCAAACA
1 AATATATGCAAACA
42632948 GGCTACCAGT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.22
Consensus pattern (67 bp):
AATATATGCAAACAAGCTGCTAGTATTACGGACAAGCCACCAGTAACGGTAATGCAGATAAACTA
CC
Found at i:42635684 original size:48 final size:48
Alignment explanation
Indices: 42635630--42635727 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
42635620 ATATTTATAC
42635630 TTAGGTTTGATTAGGCATGGGCGGCACACACTTAAAAAGAAGAAGGGA
1 TTAGGTTTGATTAGGCATGGGCGGCACACACTTAAAAAGAAGAAGGGA
42635678 TTAGGTTTGATTAGGCATGGGCGGCACACACTTAAAAAGAAGAAGGGA
1 TTAGGTTTGATTAGGCATGGGCGGCACACACTTAAAAAGAAGAAGGGA
42635726 TT
1 TT
42635728 TAGTAAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (48 bp):
TTAGGTTTGATTAGGCATGGGCGGCACACACTTAAAAAGAAGAAGGGA
Found at i:42637567 original size:17 final size:17
Alignment explanation
Indices: 42637547--42637584 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
42637537 TAGGTGCAAT
*
42637547 ATATATAAAATAATAGA
1 ATATATAAAATAATAAA
*
42637564 ATATGTAAAATAATAAA
1 ATATATAAAATAATAAA
42637581 ATAT
1 ATAT
42637585 TTACAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
ATATATAAAATAATAAA
Found at i:42670971 original size:40 final size:40
Alignment explanation
Indices: 42670943--42671190 Score: 372
Period size: 40 Copynumber: 6.2 Consensus size: 40
42670933 ATTAAGATCA
* * * *
42670943 GAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
42670983 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
42671023 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
* *
42671063 GAAGGCATTCGTGCTAGTTGTTAAATCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
* *
42671103 GAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCC
1 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
* * * * *
42671143 GAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCC
1 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
42671182 GAAGGCATT
1 GAAGGCATT
42671191 TGAACGAGGA
Statistics
Matches: 195, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
39 34 0.17
40 161 0.83
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
Found at i:42671027 original size:80 final size:80
Alignment explanation
Indices: 42670888--42671190 Score: 378
Period size: 80 Copynumber: 3.8 Consensus size: 80
42670878 TTGAATGCTG
* * * * * * * * *
42670888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CAGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
42670951 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA
42670968 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
42671033 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
* *
42671048 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
42671113 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * * *
42671128 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
42671191 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
79 33 0.17
80 159 0.80
81 6 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:42675803 original size:22 final size:25
Alignment explanation
Indices: 42675757--42675804 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 25
42675747 TTTATTTGAT
42675757 AATATGTTTTGATATAACAAATTAA
1 AATATGTTTTGATATAACAAATTAA
42675782 AATAT-TTTTGA-ATAA-AAATTAA
1 AATATGTTTTGATATAACAAATTAA
42675804 A
1 A
42675805 GTTGAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.35
23 4 0.17
24 6 0.26
25 5 0.22
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
AATATGTTTTGATATAACAAATTAA
Found at i:42675936 original size:20 final size:19
Alignment explanation
Indices: 42675911--42675968 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 19
42675901 CCTTTAAATT
42675911 AAGTTAAAATGGTTTCAATC-
1 AAGTTAAAAT--TTTCAATCA
42675931 AAGTTAGAAATTTTCAATCA
1 AAGTTA-AAATTTTCAATCA
42675951 AAGTTAAACTATTTTCAA
1 AAGTTAAA--ATTTTCAA
42675969 AACAAGTCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 10 0.29
20 12 0.35
21 12 0.35
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (19 bp):
AAGTTAAAATTTTCAATCA
Found at i:42678207 original size:21 final size:20
Alignment explanation
Indices: 42678143--42678213 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
42678133 CGTGATTTTG
*
42678143 TATCGATACCATTTTAAAAT
1 TATCGATACCATTTAAAAAT
* *
42678163 TATCAATA-TATTTATAAAAT
1 TATCGATACCATTTA-AAAAT
*
42678183 TATCGATACCATCTTAAAAAA
1 TATCGATACCAT-TTAAAAAT
42678204 TATCGATACC
1 TATCGATACC
42678214 TATCGGGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
19 4 0.10
20 19 0.45
21 16 0.38
22 3 0.07
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (20 bp):
TATCGATACCATTTAAAAAT
Found at i:42680458 original size:20 final size:19
Alignment explanation
Indices: 42680433--42680490 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
42680423 TCAACCTTTA
42680433 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
* *
42680453 AATCAAGTTAGAATTTTTC
1 AATCAAGTTAAAATGTTTC
*
42680472 AATCAAAGTTAAATTGTTT
1 AATC-AAGTTAAAATGTTT
42680491 TTAAAACAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 8 0.25
20 24 0.75
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:42686295 original size:10 final size:11
Alignment explanation
Indices: 42686268--42686296 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
42686258 GGTAATTAAA
42686268 AATATTTTTTT
1 AATATTTTTTT
42686279 AATATTTTTTT
1 AATATTTTTTT
42686290 AA-ATTTT
1 AATATTTT
42686297 CAATAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:42692361 original size:18 final size:18
Alignment explanation
Indices: 42692328--42692362 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42692318 GTCCTCTTAT
*
42692328 TCTTCGGGATCTTCCTCC
1 TCTTCGGGATCCTCCTCC
*
42692346 TCTTCGGGGTCCTCCTC
1 TCTTCGGGATCCTCCTC
42692363 ATCAATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.40, G:0.20, T:0.37
Consensus pattern (18 bp):
TCTTCGGGATCCTCCTCC
Found at i:42695136 original size:26 final size:26
Alignment explanation
Indices: 42695078--42695136 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
42695068 TTCTTTTAAG
42695078 TTAGAA-AATTCTTTTTGAGTTTTAT
1 TTAGAAGAATTCTTTTTGAGTTTTAT
**
42695103 TTTCAAGAATT-TTTGTTGAGTTTCT-T
1 TTAGAAGAATTCTTT-TTGAGTTT-TAT
42695129 TTAGAAGA
1 TTAGAAGA
42695137 CTTATAACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
25 7 0.26
26 19 0.70
27 1 0.04
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.53
Consensus pattern (26 bp):
TTAGAAGAATTCTTTTTGAGTTTTAT
Found at i:42696577 original size:16 final size:17
Alignment explanation
Indices: 42696544--42696577 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
42696534 AGATTCATCC
42696544 TCGAATCTTGGCTTTGA
1 TCGAATCTTGGCTTTGA
42696561 TCGAATCTTGG-TTTGA
1 TCGAATCTTGGCTTTGA
42696577 T
1 T
42696578 TTGCTTGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.44
Consensus pattern (17 bp):
TCGAATCTTGGCTTTGA
Found at i:42697704 original size:14 final size:14
Alignment explanation
Indices: 42697685--42697711 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42697675 AAATTATAAA
42697685 TTTAGGGTTTAGAG
1 TTTAGGGTTTAGAG
42697699 TTTAGGGTTTAGA
1 TTTAGGGTTTAGA
42697712 ATTTGTCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTTAGAG
Found at i:42698786 original size:85 final size:85
Alignment explanation
Indices: 42698686--42698849 Score: 265
Period size: 85 Copynumber: 1.9 Consensus size: 85
42698676 TTATCTATGA
* *** *
42698686 ATGTAACGAGTTCCATTGTATACGGAAATGAAGAAGTGCCATTGTTTGCATGGCTGTGCCCCTGC
1 ATGTAACGAGTTCCATTATATACGGAAATGAAGAAGTGCCATTGTTTGCACAACTGTGCCCCTAC
42698751 GTGCCCATGTATACACTCTG
66 GTGCCCATGTATACACTCTG
* *
42698771 ATGTAATGAGTTCCATTATATACGGAAATGAAGAAGTGCCCTTGTTTGCACAACTGTGCCCCTAC
1 ATGTAACGAGTTCCATTATATACGGAAATGAAGAAGTGCCATTGTTTGCACAACTGTGCCCCTAC
42698836 GTGCCCATGTATAC
66 GTGCCCATGTATAC
42698850 GGAAATGAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (85 bp):
ATGTAACGAGTTCCATTATATACGGAAATGAAGAAGTGCCATTGTTTGCACAACTGTGCCCCTAC
GTGCCCATGTATACACTCTG
Found at i:42698855 original size:56 final size:57
Alignment explanation
Indices: 42698789--42698906 Score: 220
Period size: 57 Copynumber: 2.1 Consensus size: 57
42698779 AGTTCCATTA
42698789 TATACGGAAATGAAGAAGTGCCC-TTGTTTGCACAACTGTGCCCCTACGTGCCCATG
1 TATACGGAAATGAAGAAGTGCCCTTTGTTTGCACAACTGTGCCCCTACGTGCCCATG
*
42698845 TATACGGAAATGAAGAAGTGCCCTTTGTTTGCACAACTGTGCCCCTGCGTGCCCATG
1 TATACGGAAATGAAGAAGTGCCCTTTGTTTGCACAACTGTGCCCCTACGTGCCCATG
42698902 TATAC
1 TATAC
42698907 ACTCTGGTGT
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 23 0.38
57 37 0.62
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (57 bp):
TATACGGAAATGAAGAAGTGCCCTTTGTTTGCACAACTGTGCCCCTACGTGCCCATG
Found at i:42699071 original size:60 final size:60
Alignment explanation
Indices: 42698893--42699078 Score: 248
Period size: 60 Copynumber: 3.1 Consensus size: 60
42698883 GTGCCCCTGC
* * * ** * **
42698893 GTGCCCATGTATACACTCTGGTGTCTCTATTTGCACGCCTGTGCTCCTGTTCGCACTTCA
1 GTGCCCCTATATACACTCTGGTGTCCCTATTTGCACGTATGTGCCCCTGTTCGCACTTTG
* * *
42698953 ATGCCCCTATATACACTCTGGTGTCCCTGTTTGCACGTATGTGCCCTTGTTCGCACTTTG
1 GTGCCCCTATATACACTCTGGTGTCCCTATTTGCACGTATGTGCCCCTGTTCGCACTTTG
*
42699013 GTGCCCCTATATACACT-TCGGTGTCCCTATTTGCACGTATCTGCCCCTGTTCGCACTTTG
1 GTGCCCCTATATACACTCT-GGTGTCCCTATTTGCACGTATGTGCCCCTGTTCGCACTTTG
42699073 GTGCCC
1 GTGCCC
42699079 ATGACTGTAC
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
59 1 0.01
60 109 0.99
ACGTcount: A:0.13, C:0.32, G:0.20, T:0.35
Consensus pattern (60 bp):
GTGCCCCTATATACACTCTGGTGTCCCTATTTGCACGTATGTGCCCCTGTTCGCACTTTG
Found at i:42699077 original size:20 final size:20
Alignment explanation
Indices: 42698966--42699078 Score: 61
Period size: 20 Copynumber: 5.7 Consensus size: 20
42698956 CCCCTATATA
* * *
42698966 CACTCTGGTGTCCCTGTTTG
1 CACTTTGGTGCCCCTGTTCG
* *
42698986 CACGTAT-GTGCCCTTGTTCG
1 CAC-TTTGGTGCCCCTGTTCG
* *
42699006 CACTTTGGTGCCCCTATAT-A
1 CACTTTGGTGCCCCTGT-TCG
* * * *
42699026 CACTTCGGTGTCCCTATTTG
1 CACTTTGGTGCCCCTGTTCG
* *
42699046 CACGTAT-CTGCCCCTGTTCG
1 CAC-TTTGGTGCCCCTGTTCG
42699066 CACTTTGGTGCCC
1 CACTTTGGTGCCC
42699079 ATGACTGTAC
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
19 5 0.07
20 59 0.87
21 4 0.06
ACGTcount: A:0.11, C:0.33, G:0.21, T:0.35
Consensus pattern (20 bp):
CACTTTGGTGCCCCTGTTCG
Found at i:42702323 original size:4 final size:4
Alignment explanation
Indices: 42702314--42702352 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
42702304 ATGAGTTATT
* * *
42702314 TAAG TAAG TAAG TAAG TAAA CAAG TAAG CAAG TAAG TAA
1 TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAA
42702353 AGAAGTGAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.54, C:0.05, G:0.21, T:0.21
Consensus pattern (4 bp):
TAAG
Found at i:42708553 original size:23 final size:24
Alignment explanation
Indices: 42708503--42708553 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
42708493 TTACTTATAA
* *
42708503 ATTTTTAATAAATTTAAAATTTTT
1 ATTTTTAATAAATTTAAAATTATG
* *
42708527 ATTTTT-ATATATTTTAAATTATG
1 ATTTTTAATAAATTTAAAATTATG
42708550 ATTT
1 ATTT
42708554 CATTATGATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTTTAATAAATTTAAAATTATG
Found at i:42713196 original size:26 final size:26
Alignment explanation
Indices: 42713167--42713218 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
42713157 TTCAATGCAT
42713167 ATTACTTGATCATATCCAAAGGACAA
1 ATTACTTGATCATATCCAAAGGACAA
42713193 ATTACTTGATCATATCCAAAGGACAA
1 ATTACTTGATCATATCCAAAGGACAA
42713219 CTCAGCCAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (26 bp):
ATTACTTGATCATATCCAAAGGACAA
Found at i:42719078 original size:138 final size:140
Alignment explanation
Indices: 42718702--42719234 Score: 698
Period size: 140 Copynumber: 3.8 Consensus size: 140
42718692 ATTCGCAATC
* * * * *
42718702 ATCTAACCATCTAACGAAAGGAGCTAACATGTT-AAAAATATTAATTAAAATAATAAAAAATGCT
1 ATCTAACCATCTAACGAAA-AAACTAATATGTTAAAAAACATTAATTAAAA-AATTAAAAA-GCT
** * *
42718766 TGAAGCAACATGAAATGCAAAATACAAATGTGATTAGTAGAGGAATCCAACTCGAGACTC-AAGA
63 TGAAGCAACATGAAATAAAAAATACAAATGTGAGTAGTAGAGGAATCAAACTCGAGACTCAAAG-
42718830 ATGTAATTACAACT
127 ATGTAATTACAACT
* *
42718844 ATGTAACCATCTAACGAAAAAACTAATATGTTAAAAAACATTAATTAAAAATTTAAAAAGCTTGA
1 ATCTAACCATCTAACGAAAAAACTAATATGTTAAAAAACATTAATTAAAAAATTAAAAAGCTTGA
* * * *
42718909 AGCAACATGAAATAAAAAATACAAGTTTGAGTAGAAGAGAAATCAAACTCGAGACTCAAAGATGT
66 AGCAACATGAAATAAAAAATACAAATGTGAGTAGTAGAGGAATCAAACTCGAGACTCAAAGATGT
** *
42718974 AACAATAACT
131 AATTACAACT
* * * *
42718984 ATCTAACCATCTAAC-AAAAGAATTAATATGTT-AACAA-ATTAATTAAAAATTTAAAAAGATTG
1 ATCTAACCATCTAACGAAAA-AACTAATATGTTAAAAAACATTAATTAAAAAATTAAAAAGCTTG
* * * * * *
42719046 AAGCAACATGAGACAAAAAATACAAATGTGAGTAGTAGATGAATCCAACTCGAGACTTAAGGATG
65 AAGCAACATGAAATAAAAAATACAAATGTGAGTAGTAGAGGAATCAAACTCGAGACTCAAAGATG
42719111 TAATTACAACT
130 TAATTACAACT
* *
42719122 ATCTAACCATCTAACGAAAAACCTAATATGTTAAAAAACATTAATTAAAAAATTAAAAAGCTTAA
1 ATCTAACCATCTAACGAAAAAACTAATATGTTAAAAAACATTAATTAAAAAATTAAAAAGCTTGA
* *
42719187 AGCAACATGAAATAAAAAATACAAATGTGAGCAGGAGAGGAATCAAAC
66 AGCAACATGAAATAAAAAATACAAATGTGAGTAGTAGAGGAATCAAAC
42719235 CTAGAACTCA
Statistics
Matches: 338, Mismatches: 47, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
138 112 0.33
139 16 0.05
140 156 0.46
141 20 0.06
142 34 0.10
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (140 bp):
ATCTAACCATCTAACGAAAAAACTAATATGTTAAAAAACATTAATTAAAAAATTAAAAAGCTTGA
AGCAACATGAAATAAAAAATACAAATGTGAGTAGTAGAGGAATCAAACTCGAGACTCAAAGATGT
AATTACAACT
Found at i:42719117 original size:278 final size:282
Alignment explanation
Indices: 42718702--42719234 Score: 813
Period size: 278 Copynumber: 1.9 Consensus size: 282
42718692 ATTCGCAATC
* * *
42718702 ATCTAACCATCTAACGAAAGGAGCTAACATGTTAAAAATATTAATTAAAATAATAAAAAATGCTT
1 ATCTAACCATCTAACGAAAAGAACTAACATGTTAAAAATATTAATTAAAATAATAAAAAATGATT
*** *
42718767 GAAGCAACATGAAATGCAAAATACAAATGTGATTAGTAGAGGAATCCAACTCGAGACTCAAGAAT
66 GAAGCAACATGAAACAAAAAATACAAATGTGAGTAGTAGAGGAATCCAACTCGAGACTCAAGAAT
* *
42718832 GTAATTACAACTATGTAACCATCTAACGAAAAAACTAATATGTTAAAAAACATTAATTAAAAATT
131 GTAATTACAACTATCTAACCATCTAACGAAAAAACTAATATGTTAAAAAACATTAATTAAAAAAT
* * * *
42718897 TAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAGTTTGAGTAGAAGAGAAATCAAACTCGAG
196 TAAAAAGCTTAAAGCAACATGAAATAAAAAATACAAATGTGAGCAGAAGAGAAATCAAACTCGAG
42718962 ACTCAAAGATGTAACAATAACT
261 ACTCAAAGATGTAACAATAACT
* * * * *
42718984 ATCTAACCATCTAAC-AAAAGAATTAATATGTTAACAA-ATTAATTAAAA-ATTTAAAAA-GATT
1 ATCTAACCATCTAACGAAAAGAACTAACATGTTAAAAATATTAATTAAAATAATAAAAAATGATT
* * * *
42719045 GAAGCAACATGAGACAAAAAATACAAATGTGAGTAGTAGATGAATCCAACTCGAGACTTAAGGAT
66 GAAGCAACATGAAACAAAAAATACAAATGTGAGTAGTAGAGGAATCCAACTCGAGACTCAAGAAT
*
42719110 GTAATTACAACTATCTAACCATCTAACGAAAAACCTAATATGTTAAAAAACATTAATTAAAAAAT
131 GTAATTACAACTATCTAACCATCTAACGAAAAAACTAATATGTTAAAAAACATTAATTAAAAAAT
* *
42719175 TAAAAAGCTTAAAGCAACATGAAATAAAAAATACAAATGTGAGCAGGAGAGGAATCAAAC
196 TAAAAAGCTTAAAGCAACATGAAATAAAAAATACAAATGTGAGCAGAAGAGAAATCAAAC
42719235 CTAGAACTCA
Statistics
Matches: 226, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
278 176 0.78
279 7 0.03
280 11 0.05
281 17 0.08
282 15 0.07
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (282 bp):
ATCTAACCATCTAACGAAAAGAACTAACATGTTAAAAATATTAATTAAAATAATAAAAAATGATT
GAAGCAACATGAAACAAAAAATACAAATGTGAGTAGTAGAGGAATCCAACTCGAGACTCAAGAAT
GTAATTACAACTATCTAACCATCTAACGAAAAAACTAATATGTTAAAAAACATTAATTAAAAAAT
TAAAAAGCTTAAAGCAACATGAAATAAAAAATACAAATGTGAGCAGAAGAGAAATCAAACTCGAG
ACTCAAAGATGTAACAATAACT
Found at i:42724693 original size:18 final size:18
Alignment explanation
Indices: 42724664--42724710 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
42724654 TCAACATCAT
42724664 AATTAGAATAAAATATTTA
1 AATTA-AATAAAATATTTA
42724683 AATTAAATAAAATATTTA
1 AATTAAATAAAATATTTA
42724701 AATTAAATAA
1 AATTAAATAA
42724711 CGATATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AATTAAATAAAATATTTA
Found at i:42725196 original size:19 final size:19
Alignment explanation
Indices: 42725169--42725205 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
42725159 TTTCATTAAA
*
42725169 TATTTAAAAATTATAAAAG
1 TATTAAAAAATTATAAAAG
*
42725188 TATTAAAAAATTTTAAAA
1 TATTAAAAAATTATAAAA
42725206 ATTAACATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
TATTAAAAAATTATAAAAG
Found at i:42725929 original size:16 final size:17
Alignment explanation
Indices: 42725893--42725929 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
42725883 AATTTTATTT
*
42725893 TAATAGTAACTTTTAAA
1 TAATAATAACTTTTAAA
42725910 -AATAATAA-TTTTAAA
1 TAATAATAACTTTTAAA
42725925 TAATA
1 TAATA
42725930 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
TAATAATAACTTTTAAA
Found at i:42731978 original size:3 final size:3
Alignment explanation
Indices: 42731970--42732004 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
42731960 TGAATTCTAA
42731970 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
42732005 AGAAATGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:42732787 original size:29 final size:29
Alignment explanation
Indices: 42732702--42732787 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 29
42732692 GGGTTTAAAA
* *
42732702 GTTCTGAAAAAAATAA-TTTGTACAATATGG
1 GTTCTG-AAAAAATAATTTTG-ACGAGATGG
* * *
42732732 GTT-TGAAAAAATATTTTTGAGGGGATGG
1 GTTCTGAAAAAATAATTTTGACGAGATGG
42732760 GTTCT-AAAGAAATAATTTTGACGAGATG
1 GTTCTGAAA-AAATAATTTTGACGAGATG
42732788 AGTTGAGTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
28 19 0.42
29 23 0.51
30 3 0.07
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (29 bp):
GTTCTGAAAAAATAATTTTGACGAGATGG
Found at i:42735079 original size:42 final size:43
Alignment explanation
Indices: 42735012--42735116 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 43
42735002 GATTTGAGAT
* * *
42735012 TTACGTGTAAGACCATGTTTGGGACA-TTAGC-GC-TGTATATGA
1 TTACATGTAAGACCATGTCTAGGACAGTT-GCAGCAT-TATATGA
* * *
42735054 TTACATGTAAGACCCTGTCTAGGACAGTTGCATCATTATTTGA
1 TTACATGTAAGACCATGTCTAGGACAGTTGCAGCATTATATGA
*
42735097 TTACATGTAAGACCACGTCT
1 TTACATGTAAGACCATGTCT
42735117 GGCACGTTGG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 24 0.46
43 27 0.52
44 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTAGGACAGTTGCAGCATTATATGA
Found at i:42737617 original size:31 final size:31
Alignment explanation
Indices: 42737579--42737637 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
42737569 ATTAAAAAGA
*
42737579 TTAAAATTTATTCTTACCATTTGCAATTGGT
1 TTAAAATTTATTATTACCATTTGCAATTGGT
42737610 TTAAAATTTATTATTACCATTTGCAATT
1 TTAAAATTTATTATTACCATTTGCAATT
42737638 AGTTGACAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (31 bp):
TTAAAATTTATTATTACCATTTGCAATTGGT
Found at i:42737782 original size:18 final size:19
Alignment explanation
Indices: 42737759--42737804 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
42737749 ATAAAAAATA
*
42737759 ATAAAATTTATAATTTA-G
1 ATAAAATTTAGAATTTAGG
*
42737777 ATAAAA-ATAGAATTTAGG
1 ATAAAATTTAGAATTTAGG
*
42737795 AAAAAATTTA
1 ATAAAATTTA
42737805 AGAGATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 8 0.36
18 12 0.55
19 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.35
Consensus pattern (19 bp):
ATAAAATTTAGAATTTAGG
Found at i:42739796 original size:29 final size:30
Alignment explanation
Indices: 42739740--42739796 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
42739730 ATTTTGTAGC
* * **
42739740 AAAATTCAATAAATTTCAAAGTTTAATAAA
1 AAAATTCAATAAATATAAAAGTCGAATAAA
42739770 AAAATTCAAT-AATATAAAAGTCGAATA
1 AAAATTCAATAAATATAAAAGTCGAATA
42739797 TTAAATTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 13 0.57
30 10 0.43
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (30 bp):
AAAATTCAATAAATATAAAAGTCGAATAAA
Found at i:42741078 original size:13 final size:15
Alignment explanation
Indices: 42741055--42741086 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
42741045 AATCCCACCC
42741055 AATACACAGAT-ACA
1 AATACACAGATAACA
42741069 AATA-ACAGATAACA
1 AATACACAGATAACA
42741083 AATA
1 AATA
42741087 TATATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.62, C:0.16, G:0.06, T:0.16
Consensus pattern (15 bp):
AATACACAGATAACA
Found at i:42742328 original size:69 final size:68
Alignment explanation
Indices: 42742217--42742353 Score: 256
Period size: 69 Copynumber: 2.0 Consensus size: 68
42742207 GGGACTTGAA
*
42742217 CCCAAGACTTTAAACACACAATCAGAACACTTAACCATCGAAGTAGATTACTTATTTATGACAAA
1 CCCAAGACTTTAAACACACAATCAGAACACTTAACCACCGAAGTAGA-TACTTATTTATGACAAA
42742282 TTTC
65 TTTC
42742286 CCCAAGACTTTAAACACACAATCAGAACACTTAACCACCGAAGTAGATACTTATTTATGACAAAT
1 CCCAAGACTTTAAACACACAATCAGAACACTTAACCACCGAAGTAGATACTTATTTATGACAAAT
42742351 TTC
66 TTC
42742354 ACAAAAACAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 21 0.31
69 46 0.69
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (68 bp):
CCCAAGACTTTAAACACACAATCAGAACACTTAACCACCGAAGTAGATACTTATTTATGACAAAT
TTC
Found at i:42744457 original size:45 final size:45
Alignment explanation
Indices: 42744359--42744591 Score: 328
Period size: 45 Copynumber: 5.2 Consensus size: 45
42744349 AATAATAACA
* * * *
42744359 GATACACGGTGG-ATCAGCACATAGC-ACCACCTTTATAGTCAAT
1 GATACCCGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
* * * *
42744402 GATACTCGGTGGAATCAGCACATAGCAACCACCTTCATAATCAAT
1 GATACCCGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
42744447 -AGTACCCGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
1 GA-TACCCGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
*
42744492 GATACCTGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
* *
42744537 GATACCCGGTGGAATCAGTACACAACAACCGCCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
*
42744582 GGTACCCGGT
1 GATACCCGGT
42744592 ACACGTAGTA
Statistics
Matches: 174, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
43 11 0.06
44 14 0.08
45 148 0.85
46 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (45 bp):
GATACCCGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
Found at i:42746056 original size:31 final size:29
Alignment explanation
Indices: 42746021--42746114 Score: 107
Period size: 29 Copynumber: 3.1 Consensus size: 29
42746011 GTATTAGGAG
42746021 GTCCCTATATTATTGAAACTAGATCAAATTA
1 GTCCCTATATTATT-AAA-TAGATCAAATTA
* * *
42746052 GTCCCTCTATTATTAAATGGATCAATTTA
1 GTCCCTATATTATTAAATAGATCAAATTA
* * *
42746081 GTCCCTATACTATTAAAAAGAATCAAATAA
1 GTCCCTATATTATTAAATAG-ATCAAATTA
42746111 GTCC
1 GTCC
42746115 ATATTGTAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
29 26 0.49
30 14 0.26
31 13 0.25
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (29 bp):
GTCCCTATATTATTAAATAGATCAAATTA
Found at i:42746345 original size:29 final size:31
Alignment explanation
Indices: 42746281--42746347 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 31
42746271 ATTTGGTCTT
*
42746281 ATTTGATTCATTTTAATAGTACAAGGATCAA
1 ATTTGATCCATTTTAATAGTACAAGGATCAA
*
42746312 A-TTGATCCA-TTTAATAGTA-GAGCGA-CAA
1 ATTTGATCCATTTTAATAGTACAAG-GATCAA
42746340 ATTTGATC
1 ATTTGATC
42746348 AAATCCCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 6 0.19
29 18 0.56
30 7 0.22
31 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (31 bp):
ATTTGATCCATTTTAATAGTACAAGGATCAA
Found at i:42753822 original size:10 final size:9
Alignment explanation
Indices: 42753805--42753830 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
42753795 TTTTCTTTTT
42753805 ATAAAAAAA
1 ATAAAAAAA
42753814 ATAAAAAAA
1 ATAAAAAAA
42753823 ATAAAAAA
1 ATAAAAAA
42753831 TTTATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:42759555 original size:27 final size:28
Alignment explanation
Indices: 42759512--42759575 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 28
42759502 GAACATATCT
42759512 TAACATAT-AAAAGCATATTATAAATCA
1 TAACATATCAAAAGCATATTATAAATCA
*
42759539 TACCATATCAAAA-CATATTATAAATCA
1 TAACATATCAAAAGCATATTATAAATCA
42759566 TAACATATCA
1 TAACATATCA
42759576 TATCATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 30 0.88
28 4 0.12
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.30
Consensus pattern (28 bp):
TAACATATCAAAAGCATATTATAAATCA
Found at i:42760288 original size:48 final size:49
Alignment explanation
Indices: 42760236--42760373 Score: 179
Period size: 49 Copynumber: 2.8 Consensus size: 49
42760226 ATCTGCATGG
* * * * *
42760236 TTTCACACAACCGTGTGCCCCAC-ACGCCTACCCACATGGCTTGCTTTA
1 TTTCAAACGACCGTGTGCCCTACAAGGCCTACCCACATGGCTTGCATTA
* *
42760284 TTTCAAACGGCCATGTGCCCTACAAGGCCTACCCACATGGCTTGCATTA
1 TTTCAAACGACCGTGTGCCCTACAAGGCCTACCCACATGGCTTGCATTA
* * *
42760333 TTTCAAAGGACCGTGTGTCCTACAAGGCTTACCCACATGGC
1 TTTCAAACGACCGTGTGCCCTACAAGGCCTACCCACATGGC
42760374 CTACAAAAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
48 18 0.23
49 59 0.77
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (49 bp):
TTTCAAACGACCGTGTGCCCTACAAGGCCTACCCACATGGCTTGCATTA
Found at i:42763335 original size:114 final size:114
Alignment explanation
Indices: 42763202--42763432 Score: 390
Period size: 114 Copynumber: 2.0 Consensus size: 114
42763192 TTAAACTAAA
* *
42763202 TTTATATTAAATTTATATATTTTATAATTAAATTGAAATAAAAATTAAAATATCATTAAATGGTA
1 TTTATATTAAATTTATATATTTTATAATTAAATTGAAATAAAAATAAAAATATCATTAAATAGTA
* *
42763267 ATTCGGATTGGATTAAATTTAATTTATATAATCTTTATCCAAGGTCTTT
66 ATTCGGATTGGATTAAATTGAACTTATATAATCTTTATCCAAGGTCTTT
* *
42763316 TTTATATTAAATTTTTATATTTTATAATTAAATTTAAATAAAAATAAAAATATCATTAAATAGTA
1 TTTATATTAAATTTATATATTTTATAATTAAATTGAAATAAAAATAAAAATATCATTAAATAGTA
* *
42763381 ATTCGGATTGGATTAGATTGAACTTATATAATCTTTATCCAAGGTTTTT
66 ATTCGGATTGGATTAAATTGAACTTATATAATCTTTATCCAAGGTCTTT
42763430 TTT
1 TTT
42763433 TTATGTTTGA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 109 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (114 bp):
TTTATATTAAATTTATATATTTTATAATTAAATTGAAATAAAAATAAAAATATCATTAAATAGTA
ATTCGGATTGGATTAAATTGAACTTATATAATCTTTATCCAAGGTCTTT
Found at i:42764919 original size:17 final size:16
Alignment explanation
Indices: 42764881--42764919 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
42764871 TGATAACAAT
42764881 ATTTTTAATTATTTAA
1 ATTTTTAATTATTTAA
* *
42764897 AATTTTAATATATTTTA
1 ATTTTTAAT-TATTTAA
42764914 ATTTTT
1 ATTTTT
42764920 TTAAAAACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTTAATTATTTAA
Found at i:42765197 original size:22 final size:22
Alignment explanation
Indices: 42765156--42765197 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
42765146 TGTTGGTAAC
*
42765156 TTTAAATTTGTTTAGTTTTTTT
1 TTTAAATTTGTATAGTTTTTTT
*
42765178 TTTAAATTT-TATAGTATTTT
1 TTTAAATTTGTATAGTTTTTT
42765198 GGTTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTAAATTTGTATAGTTTTTTT
Found at i:42772273 original size:15 final size:14
Alignment explanation
Indices: 42772245--42772281 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
42772235 TACCGATTTG
42772245 AAGTA-TTTTGGGT
1 AAGTATTTTTGGGT
42772258 AAGTATTTTATGGGT
1 AAGTATTTT-TGGGT
42772273 AAGTATTTT
1 AAGTATTTT
42772282 GATTTCGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 5 0.23
14 3 0.14
15 14 0.64
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
AAGTATTTTTGGGT
Done.