Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 144 of 313
Found at i:46282357 original size:34 final size:33
Alignment explanation
Indices: 46282317--46282395 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 33
46282307 TCACTTGAAA
*
46282317 AAAAAGAAGAGAAAAAATGAAAAGAA-AAAAAATG
1 AAAAAGAAGAGAAAAAAAG-AAAGAAGAAAAAA-G
*
46282351 AAAAAGAAAAGAAAAAAAGAAAGAATGAAAAAAG
1 AAAAAGAAGAGAAAAAAAGAAAGAA-GAAAAAAG
*
46282385 AAAAAGGAGAG
1 AAAAAGAAGAG
46282396 GCCAAGGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 6 0.15
34 27 0.69
35 6 0.15
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (33 bp):
AAAAAGAAGAGAAAAAAAGAAAGAAGAAAAAAG
Found at i:46282380 original size:21 final size:19
Alignment explanation
Indices: 46282312--46282390 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 19
46282302 ATACTTCACT
46282312 TGAAAAAAAAGAAGAGAAAAAA
1 TGAAAAAAAA-AA-AG-AAAAA
46282334 TGAAAAGAAAAAAAATGAAAAA
1 TG-AAA-AAAAAAAA-GAAAAA
46282356 -GAAAAGAAAAAAAGAAAGAA
1 TGAAAA-AAAAAAAGAAA-AA
46282376 TGAAAAAAGAAAAAG
1 TGAAAAAA-AAAAAG
46282391 GAGAGGCCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
19 5 0.10
20 14 0.28
21 12 0.24
22 8 0.16
23 6 0.12
24 5 0.10
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (19 bp):
TGAAAAAAAAAAAGAAAAA
Found at i:46282731 original size:45 final size:46
Alignment explanation
Indices: 46282668--46282755 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 46
46282658 TTTTATTCAT
* * *
46282668 TTTTGTATTTTTGACAAAATACGCCATCTTGATTAATTTATTCTCA
1 TTTTGTATTCTAGACAAAATACGCCATATTGATTAATTTATTCTCA
** *
46282714 TTTTGTATTCTAG-CAAAATTTGCTATATTGATTAATTTATTC
1 TTTTGTATTCTAGACAAAATACGCCATATTGATTAATTTATTC
46282756 ATTTAGAGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 25 0.69
46 11 0.31
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.50
Consensus pattern (46 bp):
TTTTGTATTCTAGACAAAATACGCCATATTGATTAATTTATTCTCA
Found at i:46282914 original size:108 final size:108
Alignment explanation
Indices: 46282725--46282920 Score: 295
Period size: 108 Copynumber: 1.8 Consensus size: 108
46282715 TTTGTATTCT
46282725 AGCAAAATTTGCTATATTGATTAATTTATTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
1 AGCAAAATTTGCTATATTGATTAATTTATTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
46282790 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
* * * * ** *
46282833 AGCAAAATTTGCTGTCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTT-CATTT
1 AGCAAAATTTGCTATATTGATTAATTTATTCATTTAGAGCTTTGCTCTCAAC-AAATTTCCATCT
* *
46282897 TGTCCATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
46282921 AGCATTTTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 72 0.92
109 6 0.08
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (108 bp):
AGCAAAATTTGCTATATTGATTAATTTATTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:46285494 original size:10 final size:9
Alignment explanation
Indices: 46285470--46285503 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
46285460 ATGTAAAAGG
46285470 AAAAATGAA
1 AAAAATGAA
46285479 ATAAAATAGAA
1 A-AAAAT-GAA
46285490 AAAAATGAA
1 AAAAATGAA
46285499 AAAAA
1 AAAAA
46285504 GATTCAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.39
10 10 0.43
11 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (9 bp):
AAAAATGAA
Found at i:46286589 original size:87 final size:87
Alignment explanation
Indices: 46286331--46287062 Score: 297
Period size: 87 Copynumber: 8.3 Consensus size: 87
46286321 ATCTACTCTA
* * *
46286331 CTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTTCACTGTAATTTCAGGGAGATAGG
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
* *
46286396 GTTACTATCTTCAATCTGCTCCG
66 ATTA-TGTCTTCAATCTGCTCCG
* * ** *** ** *
46286419 CTGATATC-TCAGGGAGATAAGAT-CTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGA
1 CTG-TAACTTCAGAGAGATAAGATCCT-TTA-T-TTTAATCCGCTCCACTGTAACTTCAGGGAGA
* ** * * * *
46286482 TAAGA-CCTG-GTGCGATCTGCTCTG
62 TAGGATTATGTCTTCAATCTGCTCCG
*
46286506 CTGTAACTTCAGAGAAATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
46286571 ATTATGTCTTCAATCTGCTCCG
66 ATTATGTCTTCAATCTGCTCCG
* * * ** *** ** *
46286593 ATGTAACCTCAGGGAGATAAGAT-CTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGAT
1 CTGTAACTTCAGAGAGATAAGATCCT-TTA-T-TTTAATCCGCTCCACTGTAACTTCAGGGAGAT
* ** * * * **
46286657 AAGA-CCTG-GTGCGATCTGCTCTA
63 AGGATTATGTCTTCAATCTGCTCCG
* * * * *
46286680 CTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATTTGATGCGATCTACTCTGCTGTAACTTCA
1 CTGTAACTTCAGAGAGATAAGATC-----CTTTATTTTAATCCG--CT-C-C-ACTGTAACTTCA
* * * * * *
46286745 GAGAGATAAGATCT-TTTATTTCAATCCGCTCCA
56 GGGAGATAGGAT-TATGT-CTTCAATCTGCTCCG
* * ** * * * * * * *
46286778 CTGTAACTTCAGGGAGATAGGATAGTGT-CTTTGATCTGCTCCGCTGCAA-TCTCAGGGAGATAA
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAG
* * *
46286841 GATCTCTGGCTTCAATCTGCTCCA
65 GAT-TATGTCTTCAATCTGCTCCG
* * ** ** ** * *
46286865 CTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGAT
1 CTGTAACTTCAGAGAGATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAACTTCAGGGAGAT
* ** * * * * *
46286929 AAGA-CCTG-ATGCGATCTACTCTG
63 AGGATTATGTCTTCAATCTGCTCCG
* * *
46286952 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTTAGGGAAATAGG
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
*
46287017 A-TAGTGTCTTTAATCTGCTCCG
66 ATTA-TGTCTTCAATCTGCTCCG
* *
46287039 CTGCAA-TCTCAGGGAGATAAGATC
1 CTGTAACT-TCAGAGAGATAAGATC
46287063 TCTGGCTTCA
Statistics
Matches: 470, Mismatches: 137, Indels: 75
0.69 0.20 0.11
Matches are distributed among these distances:
85 54 0.11
86 15 0.03
87 208 0.44
88 32 0.07
89 36 0.08
90 58 0.12
92 10 0.02
93 4 0.01
94 1 0.00
95 20 0.04
96 1 0.00
98 31 0.07
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (87 bp):
CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
ATTATGTCTTCAATCTGCTCCG
Found at i:46286605 original size:43 final size:45
Alignment explanation
Indices: 46286545--46287090 Score: 173
Period size: 44 Copynumber: 12.3 Consensus size: 45
46286535 TTTTAATCCG
* * * *
46286545 CTCCACTGTAACTTCAGGGAGATAGGAT-T-ATGTCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
**
46286588 CTCCGA-TGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTA
1 CTCC-ACTGTAACCTCAGGGAGATAAGATCT-AAAGTCTTCAATCTA
* * * * *
46286634 CTCCACTGTAACCTCAGGGAGATAAGACCT---G-GTGCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
* * * * * *
46286675 CTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAA-TTTGATGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATC-------TAAAGTCT--T-CAATCTA
** * * ** **
46286729 CTCTGCTGTAACTTCAGAGAGATAAGATCTTTTA-T-TTCAATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGATC-TAAAGTCTTCAATCTA
* * ** ** *
46286773 CTCCACTGTAACTTCAGGGAGATAGGA--TAGTGTCTTTGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
* * * ** * *
46286816 CTCCGCTGCAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
* **
46286860 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-AAAGTCTTCAATCTA
* * * * *
46286906 CTCCACTGTAACCTCAAGGAGATAAGACCT---G-ATGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
** * * ** * *
46286947 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTTA-T-TTTAATCCA
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTAAAGTCTTCAATCTA
* * * * ** * *
46286991 CTCCACTGTAACTTTAGGGAAATAGGA--TAGTGTCTTTAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
* * * ** *
46287034 CTCCGCTGCAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
*
46287078 CTCCACTGCAACC
1 CTCCACTGTAACC
46287091 GATGGATGCA
Statistics
Matches: 377, Mismatches: 92, Indels: 67
0.70 0.17 0.12
Matches are distributed among these distances:
41 62 0.16
42 5 0.01
43 79 0.21
44 113 0.30
45 4 0.01
46 72 0.19
47 1 0.00
48 6 0.02
51 1 0.00
54 34 0.09
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (45 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
Found at i:46286644 original size:174 final size:175
Alignment explanation
Indices: 46286320--46286703 Score: 655
Period size: 174 Copynumber: 2.2 Consensus size: 175
46286310 AATGTGATGT
* * * *
46286320 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTTCACTGTAATTTC
1 GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTC
* * *
46286385 AGGGAGATAGGGTTACTATCTTCAATCTGCTCCGCTGATATCTCAGGGAGATAAGATCTGAAAGT
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGATGATACCTCAGGGAGATAAGATCTGAAAGT
46286450 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGC
131 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGC
* *
46286495 GATCTGCTCTGCTGTAACTTCAGAGAAATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTC
1 GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTC
*
46286560 AGGGAGATAGGATTA-TGTCTTCAATCTGCTCCGATG-TAACCTCAGGGAGATAAGATCTGAAAG
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGATGAT-ACCTCAGGGAGATAAGATCTGAAAG
46286623 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGC
130 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGC
46286669 GATCTGCTCTACTGTAACTTCAGAGAGATAAGATC
1 GATCTGCTCTACTGTAACTTCAGAGAGATAAGATC
46286704 ATTGGTTTTA
Statistics
Matches: 196, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
173 1 0.01
174 122 0.62
175 73 0.37
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (175 bp):
GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTC
AGGGAGATAGGATTACTATCTTCAATCTGCTCCGATGATACCTCAGGGAGATAAGATCTGAAAGT
CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGC
Found at i:46287004 original size:44 final size:44
Alignment explanation
Indices: 46286321--46287004 Score: 188
Period size: 44 Copynumber: 15.4 Consensus size: 44
46286311 ATGTGATGTG
* * *
46286321 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
** * * * * * *
46286365 ATCCGCTTCACTGTAATTTCAGGGAGATAGGGT--TACTATCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCT-TTAT-TTCA
* * * * ** *
46286409 ATCTGCTCCGCTGATATC-TCAGGGAGATAAGAT-CTGAAAGTCTTCG
1 ATCTACTCCACTG-TAACTTCAGAGAGATAAGATCCT-TTA-T-TTCA
* * * ** * *
46286455 GTCTACTCCACTGTAACCTCAGGGAGATAAGA-CC--TGGTGCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
* ** * *
46286496 ATCTGCTCTGCTGTAACTTCAGAGAAATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
** * * * *
46286540 ATCCGCTCCACTGTAACTTCAGGGAGATAGGAT--TATGTCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTAT-TTCA
* * * ** *
46286583 ATCTGCTCCGA-TGTAACCTCAGGGAGATAAGAT-CTGAAAGTCTTCG
1 ATCTACTCC-ACTGTAACTTCAGAGAGATAAGATCCT-TTA-T-TTCA
* * * ** * *
46286629 GTCTACTCCACTGTAACCTCAGGGAGATAAGA-CC--TGGTGCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
* * * *
46286670 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATTTGATGCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATC-----CTTT-A-TT--T-CA
** *
46286724 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
** * * ** * * *
46286768 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTT-G
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
* * * * ***
46286811 ATCTGCTCCGCTGCAA-TCTCAGGGAGATAAGAT-CTCTGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTATTTCA
* * * ** *
46286855 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCT-TTA-T-TTCA
* * * * *
46286901 GTCTACTCCACTGTAACCTCA-AGGAGATAAGA-CC-TGA-TGCG
1 ATCTACTCCACTGTAACTTCAGA-GAGATAAGATCCTTTATTTCA
** *
46286942 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
*
46286986 ATCCACTCCACTGTAACTT
1 ATCTACTCCACTGTAACTT
46287005 TAGGGAAATA
Statistics
Matches: 477, Mismatches: 121, Indels: 84
0.70 0.18 0.12
Matches are distributed among these distances:
41 87 0.18
42 12 0.03
43 65 0.14
44 164 0.34
45 10 0.02
46 96 0.20
47 2 0.00
48 1 0.00
49 5 0.01
51 1 0.00
54 34 0.07
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
Found at i:46287277 original size:88 final size:86
Alignment explanation
Indices: 46287078--46287496 Score: 468
Period size: 86 Copynumber: 4.8 Consensus size: 86
46287068 CTTCAATCTA
* ** * *
46287078 CTCCACTGCAACCGATGGATGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGTAGGAAGGC
1 CTCCACTACAACCGAAAGAGGCAAGG-TTTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGC
**
46287143 AAGATCTGCT-TCTTTAACCAG
65 AAGATCTTTTGTCTTTAACCAG
* * * **
46287164 CTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATACAGGAAGG
1 CTCCACTACAACCGAAAGAGGCAAGGTTTGT-T-TTCGATCTGCTTCGCTGTCAATGTAGGAAGG
*
46287229 CAAGATCTTTTGTCTTCAACCAG
64 CAAGATCTTTTGTCTTTAACCAG
*
46287252 CTCTA-TCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAG
1 CTCCACT-ACAACCGAAAGAGGCAAGGTTTGT-T-TTCGATCTGCTTCGCTGTCAATGTAGGAAG
46287316 GCAAGATCTTTTGTCTTTAACCAG
63 GCAAGATCTTTTGTCTTTAACCAG
** * * * * *
46287340 CTCCACTGTAACC-AATGAAGGCAAAGCTTGTTTTCGATCTGCGTCGCTGTCAATGTAGGAAGAC
1 CTCCACTACAACCGAAAG-AGGCAAGGTTTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGC
46287404 AAGATCTTTTGTCTTTAACCAG
65 AAGATCTTTTGTCTTTAACCAG
** * * * * * * *
46287426 CTCCACTGTAACC-AATGAAGGGAAAGCTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
1 CTCCACTACAACCGAAAG-AGGCAAGGTTTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGC
46287490 AAGATCT
65 AAGATCT
46287497 GCTGTCTTCA
Statistics
Matches: 294, Mismatches: 33, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
85 5 0.02
86 140 0.48
87 40 0.14
88 108 0.37
89 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (86 bp):
CTCCACTACAACCGAAAGAGGCAAGGTTTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCA
AGATCTTTTGTCTTTAACCAG
Found at i:46287288 original size:43 final size:43
Alignment explanation
Indices: 46287153--46287288 Score: 109
Period size: 43 Copynumber: 3.1 Consensus size: 43
46287143 AAGATCTGCT
* *
46287153 TCTTTAACCAGCTCCA-CTACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCAACCAGCTCTATC-ACAACCGAGAGAGGCAAGGTTTGTG
* * * * * *
46287196 TCTTCGACCTGCTTCACTGTCA-ATACAG-GA-AGGCAAGATCTTTTG
1 TCTTCAACCAGC-T--CTATCACA-ACCGAGAGAGGCAAGGT-TTGTG
*
46287241 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTG
1 TCTTCAACCAGCTCTATCACAACCGAGAGAGGCAAGGTTTGTG
46287284 TCTTC
1 TCTTC
46287289 GATCTGCTTC
Statistics
Matches: 69, Mismatches: 15, Indels: 18
0.68 0.15 0.18
Matches are distributed among these distances:
42 8 0.12
43 20 0.29
44 18 0.26
45 17 0.25
46 5 0.07
47 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (43 bp):
TCTTCAACCAGCTCTATCACAACCGAGAGAGGCAAGGTTTGTG
Found at i:46287318 original size:44 final size:44
Alignment explanation
Indices: 46287182--46287320 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 44
46287172 CAACCGAGAG
46287182 AGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAAT-ACAGGA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGA-AGGA
* * * * ** * *
46287226 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTA-TCACAACCGAAAG-
1 AGGCAAGGT-TTGTGTCTTCGACCTGCTTC-ACTGTCAA-TGAAGGA
* * *
46287270 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGAAGGA
46287314 AGGCAAG
1 AGGCAAG
46287321 ATCTTTTGTC
Statistics
Matches: 69, Mismatches: 19, Indels: 14
0.68 0.19 0.14
Matches are distributed among these distances:
43 16 0.23
44 35 0.51
45 17 0.25
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGAAGGA
Found at i:46287360 original size:44 final size:44
Alignment explanation
Indices: 46287312--46287446 Score: 118
Period size: 44 Copynumber: 3.1 Consensus size: 44
46287302 GTCAATGTAG
46287312 GAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACTGTAACCAAT
1 GAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACTGTAACCAAT
* * * * * *** *
46287356 GAAGGCAA-AGC--TTGT-TTTCGATCTGCGT-CGCTGTCAATGTAG
1 GAAGGCAAGATCTTTTGTCTTT-AACCAGC-TCCACTGT-AACCAAT
*
46287398 GAAGACAAGATCTTTTGTCTTTAACCAGCTCCACTGTAACCAAT
1 GAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACTGTAACCAAT
46287442 GAAGG
1 GAAGG
46287447 GAAAGCTTGT
Statistics
Matches: 63, Mismatches: 20, Indels: 16
0.64 0.20 0.16
Matches are distributed among these distances:
40 3 0.05
41 13 0.21
42 11 0.17
43 4 0.06
44 16 0.25
45 13 0.21
46 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
GAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACTGTAACCAAT
Found at i:46287426 original size:174 final size:173
Alignment explanation
Indices: 46287098--46287504 Score: 491
Period size: 174 Copynumber: 2.3 Consensus size: 173
46287088 ACCGATGGAT
46287098 GCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCTTCTTTAACCA
1 GCAAGG-TTTGTTTTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCTTCTTTAACCA
* * * *
46287163 GCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATACAGGAAG
65 GCTCCACTACAACCAAGAGAGGCAAAGCTTGTGTCTTCGACCTGCGTCACTGTCAATACAGGAAG
* *
46287228 GCAAGATCTTTTGTCTTCAACCAGCTCTA-TCACAACCGAAAG-AG
130 ACAAGATCTTTTGTCTTCAACCAGCTCCACT-ACAACC-AAAGAAG
* **
46287272 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTTAAC
1 GCAAGGTTTGT-T-TTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCT-TCTTTAAC
** * * **
46287337 CAGCTCCACTGTAACCAATGA-AGGCAAAGCTTGT-T-TTCGATCTGCGTCGCTGTCAATGTAGG
63 CAGCTCCACTACAACCAA-GAGAGGCAAAGCTTGTGTCTTCGACCTGCGTCACTGTCAATACAGG
* ** *
46287399 AAGACAAGATCTTTTGTCTTTAACCAGCTCCACTGTAACCAATGAAG
127 AAGACAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCAAAGAAG
* * * * *
46287446 GGAAAGCTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTGTCTT
1 GCAAGGTTTGTTTTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCT-TCTT
46287505 CACTGATCTG
Statistics
Matches: 200, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
172 42 0.21
173 9 0.05
174 72 0.36
175 41 0.20
176 34 0.17
177 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (173 bp):
GCAAGGTTTGTTTTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCTTCTTTAACCAG
CTCCACTACAACCAAGAGAGGCAAAGCTTGTGTCTTCGACCTGCGTCACTGTCAATACAGGAAGA
CAAGATCTTTTGTCTTCAACCAGCTCCACTACAACCAAAGAAG
Found at i:46292243 original size:19 final size:20
Alignment explanation
Indices: 46292214--46292262 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
46292204 CACTTCGTGA
* *
46292214 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
46292233 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
46292253 AAATG-AATGC
1 AAATGTAATGC
46292263 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:46295873 original size:44 final size:44
Alignment explanation
Indices: 46295825--46296051 Score: 148
Period size: 44 Copynumber: 5.2 Consensus size: 44
46295815 AGACACAAAC
*
46295825 CTTGCCTCTCTCGGTTGTAGCAGAGCTGTTTGAAGACAACAGAT
1 CTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGAT
** * * * * * *
46295869 CTTGCCT-TC-CTGCCCTGACAGC-GAAGCAGATCGAAGAC-ACAAAC
1 CTTGCCTCTCTC-G-GTTG-TAGCAG-AGCTGGTTGAAGACAACAGAT
*
46295913 CTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAGCAGAT
1 CTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGAT
* * * * *
46295957 CTTGCCT-TCTTGCATTG-A-CAGTGAAG-TAGGTCGAAGAC-ACAAAC
1 CTTGCCTCTCTCG-GTTGTAGCA--G-AGCT-GGTTGAAGACAACAGAT
* * *
46296001 CTTGCCTCTCTCGGTTGTAGTAGAGCTGGTTGAGGACAATAGAT
1 CTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGAT
46296045 CTTGCCT
1 CTTGCCT
46296052 TCCTACATTG
Statistics
Matches: 134, Mismatches: 31, Indels: 36
0.67 0.15 0.18
Matches are distributed among these distances:
42 3 0.02
43 32 0.24
44 64 0.48
45 33 0.25
46 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (44 bp):
CTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGAT
Found at i:46295923 original size:88 final size:88
Alignment explanation
Indices: 46295774--46296435 Score: 767
Period size: 88 Copynumber: 7.5 Consensus size: 88
46295764 NNNNNNNNNN
*
46295774 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCAAAGACACAAACCTTGCCTCTCTCGG
1 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
*
46295839 TTGTAGCAGAGCTGTTTGAAGAC
66 TTGTAGCAGAGCTGGTTGAAGAC
**
46295862 AACAGATCTTGCCTTCCTGCCCTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
1 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
46295927 TTGTAGCAGAGCTGGTTGAAGAC
66 TTGTAGCAGAGCTGGTTGAAGAC
* * * * *
46295950 AGCAGATCTTGCCTTCTTGCATTGACAGTGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGG
1 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
* *
46296015 TTGTAGTAGAGCTGGTTGAGGAC
66 TTGTAGCAGAGCTGGTTGAAGAC
* * * * * * *
46296038 AATAGATCTTGCCTTCCTACATTGACAGAGAA-CAGATCAAAGAAATAGAAAACATTGCCTC-CA
1 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG--ACA-CAAACCTTGCCTCTC-
* ** ** *
46296101 TCGGTTGCAGTGGAGCTGGTCAAAGAT
62 TCGGTTGTAGCAGAGCTGGTTGAAGAC
* * *
46296128 AGCAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGG
1 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
*
46296193 TTGTAGCGGAGCTGGTTGAAGAC
66 TTGTAGCAGAGCTGGTTGAAGAC
* * ** * *
46296216 AGCAGATCTTGCGTTCCTATATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
1 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
* **
46296281 TTGTGGTGGAGCTGGTTGAAGAC
66 TTGTAGCAGAGCTGGTTGAAGAC
* * * * * *
46296304 AATAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATCAAAGATACAAGCCTTGCCTCCCTCGG
1 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
** * *
46296369 TTGTAGTGGAGCAGG-T-CAGAC
66 TTGTAGCAGAGCTGGTTGAAGAC
* * * *
46296390 ATTGCAGATCTTGCCTTCCTGTACTGAC-GACGAAGTAGATCGAAGA
1 A--ACAGATCTTGCCTTCCTGCATTGACAG-CGAAGCAGATCGAAGA
46296436 AGCCAGTCTT
Statistics
Matches: 495, Mismatches: 70, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
86 5 0.01
87 9 0.02
88 408 0.82
89 6 0.01
90 60 0.12
91 7 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
TTGTAGCAGAGCTGGTTGAAGAC
Found at i:46296184 original size:44 final size:43
Alignment explanation
Indices: 46296135--46296273 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 43
46296125 GATAGCAGAT
46296135 CTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACACAAAC
1 CTTGCCTTCCT-CATTGACAGCGAAGTAGGTCGAAGACACAAAC
* * * * * *
46296179 CTTGCC-TCTCTCGGTTG-TAGCGGAGCT-GGTTGAAGACAGCAGAT
1 CTTGCCTTC-CTC-ATTGACAGCGAAG-TAGGTCGAAGACA-CAAAC
* * * *
46296223 CTTGCGTTCCTATATTGACAGTGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCCT-CATTGACAGCGAAGTAGGTCGAAGACACAAAC
46296267 CTTGCCT
1 CTTGCCT
46296274 CTCTCGGTTG
Statistics
Matches: 70, Mismatches: 17, Indels: 16
0.68 0.17 0.16
Matches are distributed among these distances:
43 19 0.27
44 34 0.49
45 17 0.24
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (43 bp):
CTTGCCTTCCTCATTGACAGCGAAGTAGGTCGAAGACACAAAC
Found at i:46296216 original size:43 final size:43
Alignment explanation
Indices: 46296167--46296304 Score: 134
Period size: 44 Copynumber: 3.2 Consensus size: 43
46296157 GAAGTAGGTC
*
46296167 GAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTT
* * * *** * * * *
46296210 GAAGACAGCAGATCTTGCGT-TCCTATATTGACAGTGAAGCAGGTC
1 GAAGACA-CAAACCTTGCCTCT-CTCGGTTG-TAGTGGAGCTGGTT
*
46296255 GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTT
46296298 GAAGACA
1 GAAGACA
46296305 ATAGATCTTG
Statistics
Matches: 69, Mismatches: 22, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
43 24 0.35
44 28 0.41
45 17 0.25
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTT
Found at i:46296680 original size:84 final size:84
Alignment explanation
Indices: 46296581--46297740 Score: 1564
Period size: 84 Copynumber: 13.9 Consensus size: 84
46296571 TGAAGCCAAC
*
46296581 AGTCTTATCTCCCTAAGTAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCT-AGCCAG
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAG-CAG
46296645 TAGTGGAGCAGATCACATCA
65 TAGTGGAGCAGATCACATCA
46296665 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
46296730 AGTGGAGCAGATCACATCA
66 AGTGGAGCAGATCACATCA
46296749 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
46296814 AGTGGAGCAGATCACATCA
66 AGTGGAGCAGATCACATCA
* * * *
46296833 AGTCTTATCTCTCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAAATCTTATCTCCCTGAGTAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
*
46296898 AGTGGAGTAGATCACATCA
66 AGTGGAGCAGATCACATCA
*
46296917 GGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
*
46296982 AGTGGAGTAGATCACATCA
66 AGTGGAGCAGATCACATCA
*
46297001 GGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
*
46297066 AGTGGAGTAGATCACATCA
66 AGTGGAGCAGATCACATCA
* *
46297085 GGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACTAGATCTTATCTCCCTAAGCAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
46297150 AGTGGAGCAGATCACATCA
66 AGTGGAGCAGATCACATCA
* *
46297169 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCTTAAGCAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
*
46297234 AGTGGAGCAGATCGCATCA
66 AGTGGAGCAGATCACATCA
* * *
46297253 AGTCTTATCTCCCTAAGCAGTAGTAGAGCAGACGAAAGAAACCAGAACTTATCTCCCTAAGCAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
*
46297318 AGTGGAGCAGATCACATGA
66 AGTGGAGCAGATCACATCA
* *
46297337 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCTCTAAGCAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
46297402 AGTGGAGCA-ATCACATCA
66 AGTGGAGCAGATCACATCA
* *
46297420 AGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAAA-C---TCTTATCTCCCTAAGCAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
* * *
46297481 AGTGGAGCAGA-CGAAAGAAACC
66 AGTGGAGCAGATC---A-CATCA
* * * *
46297503 AGATCTTATCTCTCTAAGCAGTAGTGGAGCA-ATC---A-CATCAAG-TCTTATCTCCCTAAGCA
1 AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAGAAACCAGATCTTATCTCCCTAAGCA
* * *
46297562 GTAGTGGAGCAGA-CGAAAGAAACC
64 GTAGTGGAGCAGATC---A-CATCA
* * * *
46297586 AGATCTTATCTCTCTAAGCAGTAGTGGAGCA-ATC---A-CATCAAG-TCTTATCTCCCTAAGCA
1 AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAGAAACCAGATCTTATCTCCCTAAGCA
* * *
46297645 GTAGTGGAGCAGA-CGAAAGAAACC
64 GTAGTGGAGCAGATC---A-CATCA
* * * *
46297669 AGATCTTATCTCTCTAAGCAGTAGTGGAGCA-ATC---A-CATCAAG-TCTTATCTCCCTAAGCA
1 AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAGAAACCAGATCTTATCTCCCTAAGCA
46297728 GTAGTGGAGCAGA
64 GTAGTGGAGCAGA
46297741 CGAAAGAAAC
Statistics
Matches: 1028, Mismatches: 37, Indels: 23
0.94 0.03 0.02
Matches are distributed among these distances:
79 28 0.03
80 2 0.00
81 1 0.00
82 2 0.00
83 249 0.24
84 744 0.72
85 2 0.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (84 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCACATCA
Found at i:46297781 original size:83 final size:83
Alignment explanation
Indices: 46297422--46297762 Score: 587
Period size: 83 Copynumber: 4.1 Consensus size: 83
46297412 TCACATCAAG
* * * ** *
46297422 TCTTATCTCCCTAAGCAGTAGTGGAGTAGA-CGAAAGAAACTCTTATCTCCCTAAGCAGTAGTGG
1 TCTTATCTCTCTAAGCAGTAGTGGAGCA-ATC-ACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
46297486 AGCAGACGAAAGAAACCAGA
64 AGCAGACGAAAGAAACCAGA
46297506 TCTTATCTCTCTAAGCAGTAGTGGAGCAATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTTATCTCTCTAAGCAGTAGTGGAGCAATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
46297571 CAGACGAAAGAAACCAGA
66 CAGACGAAAGAAACCAGA
46297589 TCTTATCTCTCTAAGCAGTAGTGGAGCAATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTTATCTCTCTAAGCAGTAGTGGAGCAATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
46297654 CAGACGAAAGAAACCAGA
66 CAGACGAAAGAAACCAGA
46297672 TCTTATCTCTCTAAGCAGTAGTGGAGCAATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTTATCTCTCTAAGCAGTAGTGGAGCAATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
46297737 CAGACGAAAGAAACCA-A
66 CAGACGAAAGAAACCAGA
*
46297754 TCCTATCTC
1 TCTTATCTC
46297763 CCTGAAGTTG
Statistics
Matches: 249, Mismatches: 7, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
82 9 0.04
83 213 0.86
84 27 0.11
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (83 bp):
TCTTATCTCTCTAAGCAGTAGTGGAGCAATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
CAGACGAAAGAAACCAGA
Found at i:46298853 original size:13 final size:13
Alignment explanation
Indices: 46298808--46298855 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
46298798 CTTTTATTAT
46298808 TTATT-TTTTAAA
1 TTATTATTTTAAA
* * *
46298820 TTGTTGTTGTAAA
1 TTATTATTTTAAA
46298833 TTATTTATTTTAAA
1 TTA-TTATTTTAAA
46298847 TTATTATTT
1 TTATTATTT
46298856 ACTTTGAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 4 0.14
13 14 0.48
14 11 0.38
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (13 bp):
TTATTATTTTAAA
Found at i:46298865 original size:17 final size:17
Alignment explanation
Indices: 46298832--46298865 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46298822 GTTGTTGTAA
*
46298832 ATTATTTATTTTAAATT
1 ATTATTTACTTTAAATT
*
46298849 ATTATTTACTTTGAATT
1 ATTATTTACTTTAAATT
46298866 GATTTGCATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTATTTACTTTAAATT
Found at i:46300386 original size:25 final size:25
Alignment explanation
Indices: 46300343--46300391 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
46300333 AGGAGCCTTT
*
46300343 AAATTAATTTAAATAAAATAAAATC
1 AAATTAATTGAAATAAAATAAAATC
* * *
46300368 AAATTAATTGGAATCAAATCAAAT
1 AAATTAATTGAAATAAAATAAAAT
46300392 AAAGATATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (25 bp):
AAATTAATTGAAATAAAATAAAATC
Found at i:46302021 original size:22 final size:22
Alignment explanation
Indices: 46301990--46302031 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46301980 AGCTTGATTA
46301990 AGCTCATTCAT-ATTTAAGTTCG
1 AGCTCATTCATGA-TTAAGTTCG
*
46302012 AGCTCGTTCATGATTAAGTT
1 AGCTCATTCATGATTAAGTT
46302032 GTATTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (22 bp):
AGCTCATTCATGATTAAGTTCG
Found at i:46310382 original size:16 final size:16
Alignment explanation
Indices: 46310363--46310406 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
46310353 TAAAAATAAT
46310363 TTAAAATATAAATTTA
1 TTAAAATATAAATTTA
46310379 TTAATATATATAAATTTA
1 TTAA-A-ATATAAATTTA
*
46310397 TTAATATATA
1 TTAAAATATA
46310407 TAAAAATAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 9 0.36
17 1 0.04
18 15 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAAATATAAATTTA
Found at i:46310389 original size:18 final size:18
Alignment explanation
Indices: 46310368--46310410 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
46310358 ATAATTTAAA
46310368 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
46310386 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
46310404 ATATAAA
1 ATATAAA
46310411 AATAGCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:46310459 original size:32 final size:32
Alignment explanation
Indices: 46310423--46310510 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 32
46310413 TAGCTTTCTC
*
46310423 AGAAAATATTTTCAGGAAATC-TGCCAAATAAA
1 AGAAAATATTTTCAGGAAATCAT-CCAAACAAA
**
46310455 AGAAAATATTTTACA-GAAATTCATCCAAACACC
1 AGAAAATATTTT-CAGGAAA-TCATCCAAACAAA
*
46310488 AGAAAATATTTTCAGTAAATCAT
1 AGAAAATATTTTCAGGAAATCAT
46310511 TTTCCAGAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
32 22 0.46
33 25 0.52
34 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (32 bp):
AGAAAATATTTTCAGGAAATCATCCAAACAAA
Found at i:46310541 original size:34 final size:33
Alignment explanation
Indices: 46310491--46310555 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
46310481 AAACACCAGA
46310491 AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
1 AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
* *
46310524 AAATCATTTTCCA-TAAATTATTTTCCGGAAAA
1 AAAT-ATTTT-CAGTAAATCATTTTCCAGAAAA
46310556 CATTTTACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 22 0.79
35 2 0.07
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.37
Consensus pattern (33 bp):
AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
Found at i:46310653 original size:67 final size:67
Alignment explanation
Indices: 46310540--46310674 Score: 180
Period size: 67 Copynumber: 2.0 Consensus size: 67
46310530 TTTTCCATAA
* * * * *
46310540 ATTATTTTCCGGAAAACATTTTACTGGCAAACAATCGGACCCTTAATCTCAATTAAAGCTCTTTA
1 ATTATTTTCCAGAAAACATTTTACTGGCAAACAAACAGACCATTAATCTCAATTAAAGCCCTTTA
46310605 AT
66 AT
* * * * *
46310607 ATTATTTTCTAGAAAATATTTTACTGGCGAACAAACATACTATTAATCTCAATTAAAGCCCTTTA
1 ATTATTTTCCAGAAAACATTTTACTGGCAAACAAACAGACCATTAATCTCAATTAAAGCCCTTTA
46310672 AT
66 AT
46310674 A
1 A
46310675 ATCGGCCACT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.36
Consensus pattern (67 bp):
ATTATTTTCCAGAAAACATTTTACTGGCAAACAAACAGACCATTAATCTCAATTAAAGCCCTTTA
AT
Found at i:46317645 original size:18 final size:18
Alignment explanation
Indices: 46317622--46317657 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
46317612 ACAAAAAAGA
46317622 GTTAACTGGTTTTGGTCC
1 GTTAACTGGTTTTGGTCC
46317640 GTTAACTGGTTTTGGTCC
1 GTTAACTGGTTTTGGTCC
46317658 TGAAATGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.28, T:0.44
Consensus pattern (18 bp):
GTTAACTGGTTTTGGTCC
Found at i:46322845 original size:44 final size:44
Alignment explanation
Indices: 46322780--46323232 Score: 315
Period size: 44 Copynumber: 9.8 Consensus size: 44
46322770 ATCTGATGTG
* *
46322780 ATCTACTCTACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCT-CTAGCTTCA
* * *
46322824 ATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTAGCTTCA
*
46322868 ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCA
1 ATC-----T-A-CT-C-C-ACTGTAACTTCAGAGAGATAAGATCT-CTAGCTTCA
* * *
46322922 ATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTAGCTTCA
* * * ** ** *
46322966 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCT-CTA-GCTTCA
* ** * *
46323012 GTCTGTTCCACTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCTCTAGCTTCA
* * *
46323056 ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTTA
1 ATC-----T-A-CT-C-C-ACTGTAACTTCAGAGAGATAAGAT-CTCTAGCTTCA
** *
46323110 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCT-CTAGCTTCA
* *
46323154 ATCTACTCCGCTGTAA-TCTCAGAGAGATAAGATCTCTGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCTCTAGCTTCA
* * *
46323198 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCT
46323233 GAAATTCTTC
Statistics
Matches: 320, Mismatches: 56, Indels: 66
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 195 0.61
45 5 0.02
46 36 0.11
47 4 0.01
48 1 0.00
49 3 0.01
50 1 0.00
51 3 0.01
52 2 0.01
53 3 0.01
54 59 0.18
55 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTAGCTTCA
Found at i:46322918 original size:98 final size:98
Alignment explanation
Indices: 46322744--46323094 Score: 472
Period size: 98 Copynumber: 3.7 Consensus size: 98
46322734 CACTGCAACA
*
46322744 TCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATA
1 TCAGAGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATA
46322809 GGATTACTAGCTTCAATCTACTCCGCTGTAATT
66 GGATTACTAGCTTCAATCTACTCCGCTGTAATT
46322842 TCAGAGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATA
1 TCAGAGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATA
46322907 GGATTACTAGCTTCAATCTACTCCGCTGTAATT
66 GGATTACTAGCTTCAATCTACTCCGCTGTAATT
* *
46322940 TCAGAGAGATAAGATCTCTGGCTTCAATC-----TG--CT-C-C-ACTGTAACCTCAGGGAGATA
1 TCAGAGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATA
* * ** ** ** * *
46322995 AGATCTGA-AATTTTTCGGTCTGTTCCACTGTAATC
66 GGAT-T-ACTA-GCTTCAATCTACTCCGCTGTAATT
*
46323030 TCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATA
1 TCAGAGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATA
46323095 AGATCCTTTA
Statistics
Matches: 224, Mismatches: 16, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
88 21 0.09
89 3 0.01
90 46 0.21
91 2 0.01
93 2 0.01
95 2 0.01
97 2 0.01
98 127 0.57
99 1 0.00
100 18 0.08
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (98 bp):
TCAGAGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATA
GGATTACTAGCTTCAATCTACTCCGCTGTAATT
Found at i:46323074 original size:188 final size:187
Alignment explanation
Indices: 46322834--46323188 Score: 516
Period size: 188 Copynumber: 1.9 Consensus size: 187
46322824 ATCTACTCCG
*
46322834 CTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCA
1 CTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCA
* * * * *
46322899 GAGAGATAGGAT-TACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCT-CTGGC
66 GAGAGATAAGATCT-CTA-CTTCAATCCACTCCACTGTAACTTCAGAGAGATAAGAT-TACTAGC
* *
46322962 TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
128 TTCAATCTACTCCACTGTAACCTCAGAGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
*
46323022 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCA
1 CTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCA
* * * * *
46323087 GAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTT
66 GAGAGATAAGAT-CTCTACTTCAATCCACTCCACTGTAACTTCAGAGAGATAAGATTACTAGCTT
* *
46323152 CAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCT
130 CAATCTACTCCACTGTAACCTCAGAGAGATAAGATCT
46323189 CTGGCTTCAA
Statistics
Matches: 148, Mismatches: 16, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
187 1 0.01
188 144 0.97
189 2 0.01
190 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (187 bp):
CTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCA
GAGAGATAAGATCTCTACTTCAATCCACTCCACTGTAACTTCAGAGAGATAAGATTACTAGCTTC
AATCTACTCCACTGTAACCTCAGAGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
Found at i:46323118 original size:144 final size:142
Alignment explanation
Indices: 46322922--46323202 Score: 332
Period size: 144 Copynumber: 2.0 Consensus size: 142
46322912 ACTAGCTTCA
* * * *
46322922 ATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCA
* ** ** ** *
46322987 GGGAGATAAGATCTGAA-ATTTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGG
66 GAGAGATAAGAT-T-AATA-GCTTCAATCTACTCCACTGTAATCTCAGAGAGATAAGATCTCTGG
46323051 CTTCAATCTGATGTG
128 CTTCAATCTGATGTG
* * * * *
46323066 ATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACTTC
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACCTC
* * *
46323130 AGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCT
65 AGAGAGATAAGATTAATAGCTTCAATCTACTCCACTGTAATCTCAGAGAGATAAGATCTCTGGCT
46323195 TCAATCTG
130 TCAATCTG
46323203 CTCCACTGTA
Statistics
Matches: 115, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
142 48 0.42
143 3 0.03
144 64 0.56
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (142 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCA
GAGAGATAAGATTAATAGCTTCAATCTACTCCACTGTAATCTCAGAGAGATAAGATCTCTGGCTT
CAATCTGATGTG
Found at i:46323178 original size:88 final size:90
Alignment explanation
Indices: 46323066--46323275 Score: 223
Period size: 88 Copynumber: 2.4 Consensus size: 90
46323056 ATCTGATGTG
* * * * *
46323066 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACTT
1 ATCTACTCCACTGTAATC-TCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACCT
* *
46323129 CAGAGAGATAGGAT-T--ACTAGCTTCA
64 CAGAGAGATAAGATCTGAAAT-GCTTCA
* * *
46323154 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
1 ATCTACTCCACTGTAATCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCA
* * *
46323219 GGGAGATAAGATCTGAAATTCTTCG
66 GAGAGATAAGATCTGAAATGCTTCA
* *
46323244 GTCTACTCCACTGTAATCTCAGGGAGATAAGA
1 ATCTACTCCACTGTAATCTCAGAGAGATAAGA
46323276 CCTGTATAAT
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
88 63 0.62
89 3 0.03
90 33 0.33
91 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (90 bp):
ATCTACTCCACTGTAATCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCA
GAGAGATAAGATCTGAAATGCTTCA
Found at i:46323265 original size:46 final size:44
Alignment explanation
Indices: 46323115--46323275 Score: 157
Period size: 44 Copynumber: 3.6 Consensus size: 44
46323105 TTTTAATCCG
* * *
46323115 CTCCACTGTAA-CTTCAGAGAGATAGGAT-TACTAGCTTCAATCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTA-TGGCTTCAATCTA
* * * *
46323159 CTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTATGGCTTCAATCTA
* * **
46323203 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---ATGGCTTCAATCTA
46323249 CTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
46323276 CCTGTATAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
44 62 0.63
45 2 0.02
46 33 0.34
47 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTATGGCTTCAATCTA
Found at i:46332371 original size:49 final size:49
Alignment explanation
Indices: 46332296--46332395 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
46332286 AGTAGACTCT
46332296 TTCCCAAGGCGACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCA
1 TTCCCAAGGCGACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCA
*
46332345 TTCCCAAGGCGACTTCTCGAGTCCGAGTATCCTGAAATTTCTTTTCCCA
1 TTCCCAAGGCGACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCA
46332394 TT
1 TT
46332396 GATTAGCTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.33
Consensus pattern (49 bp):
TTCCCAAGGCGACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCA
Found at i:46337303 original size:56 final size:57
Alignment explanation
Indices: 46337206--46337314 Score: 211
Period size: 56 Copynumber: 1.9 Consensus size: 57
46337196 GAAATAGAAC
46337206 GAAAATAAAGAAAACTAAAAAAAACACAAGGTGAATCACCTTCTAAAGCCCCCAAAT
1 GAAAATAAAGAAAACTAAAAAAAACACAAGGTGAATCACCTTCTAAAGCCCCCAAAT
46337263 GAAAATAAAGAAAACTAAAAAAAA-ACAAGGTGAATCACCTTCTAAAGCCCCC
1 GAAAATAAAGAAAACTAAAAAAAACACAAGGTGAATCACCTTCTAAAGCCCCC
46337315 TTTTTTATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 28 0.54
57 24 0.46
ACGTcount: A:0.54, C:0.21, G:0.11, T:0.14
Consensus pattern (57 bp):
GAAAATAAAGAAAACTAAAAAAAACACAAGGTGAATCACCTTCTAAAGCCCCCAAAT
Found at i:46338035 original size:46 final size:46
Alignment explanation
Indices: 46337913--46338455 Score: 481
Period size: 44 Copynumber: 11.9 Consensus size: 46
46337903 AACGAAATTT
* * * * *
46337913 ATGTTTTCAGTCTGTTCCACTGCAACATCAGGGAGATAAGATCT--
1 ATGTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAA
* *
46337957 CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAA
1 ATGTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-AA
* ** * *
46338004 AT-TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCT--
1 ATGTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAA
* *
46338047 CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAA
1 ATGTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-AA
* ** * *
46338094 AT-TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCT--
1 ATGTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAA
* *
46338137 CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAA
1 ATGTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-AA
* ** * *
46338184 AT-TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCT--
1 ATGTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAA
* *
46338227 CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAA
1 ATGTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-AA
* ** * *
46338274 AT-TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCT--
1 ATGTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAA
* *
46338317 CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGACTCAGAGAGATAAGATCT--
1 ATGTCTTCAATCTGCTCCACTGTAACCTCA--G-----G-GAGATAAGATCTAA
* *
46338369 CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAA
1 ATGTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-AA
** * *
46338416 AT-TCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGA
1 ATGTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA
46338456 CCTGTATAAT
Statistics
Matches: 403, Mismatches: 69, Indels: 52
0.77 0.13 0.10
Matches are distributed among these distances:
43 4 0.01
44 175 0.43
45 1 0.00
46 174 0.43
47 5 0.01
50 1 0.00
51 1 0.00
52 42 0.10
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (46 bp):
ATGTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAA
Found at i:46338069 original size:90 final size:90
Alignment explanation
Indices: 46337916--46338350 Score: 836
Period size: 90 Copynumber: 4.8 Consensus size: 90
46337906 GAAATTTATG
* *
46337916 TTTTCAGTCTGTTCCACTGCAA-CATCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGT
1 TTTTCGGTCTGTTCCACTGTAATC-TCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGT
46337980 AACCTCAGGGAGATAAGATCTGAAAT
65 AACCTCAGGGAGATAAGATCTGAAAT
46338006 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTA
1 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTA
46338071 ACCTCAGGGAGATAAGATCTGAAAT
66 ACCTCAGGGAGATAAGATCTGAAAT
46338096 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTA
1 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTA
46338161 ACCTCAGGGAGATAAGATCTGAAAT
66 ACCTCAGGGAGATAAGATCTGAAAT
46338186 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTA
1 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTA
46338251 ACCTCAGGGAGATAAGATCTGAAAT
66 ACCTCAGGGAGATAAGATCTGAAAT
46338276 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTA
1 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTA
46338341 ACCTCAGGGA
66 ACCTCAGGGA
46338351 CTCAGAGAGA
Statistics
Matches: 342, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
90 341 1.00
91 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (90 bp):
TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTA
ACCTCAGGGAGATAAGATCTGAAAT
Found at i:46338377 original size:52 final size:52
Alignment explanation
Indices: 46338299--46338402 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
46338289 CCACTGTAAT
*
46338299 CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
1 CTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
46338351 CTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
1 CTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
46338403 GATAAGATCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (52 bp):
CTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
Found at i:46347475 original size:30 final size:30
Alignment explanation
Indices: 46347439--46347499 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
46347429 CCGGACCTTC
46347439 AACTCCGTCTTCTCGTCTTGGCAAACTAGT
1 AACTCCGTCTTCTCGTCTTGGCAAACTAGT
*
46347469 AACTCCGTCTTCTCGTCTTGGCAATCTAGT
1 AACTCCGTCTTCTCGTCTTGGCAAACTAGT
46347499 A
1 A
46347500 GATTCTTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (30 bp):
AACTCCGTCTTCTCGTCTTGGCAAACTAGT
Found at i:46354585 original size:30 final size:31
Alignment explanation
Indices: 46354549--46354608 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
46354539 TAAAATAGTG
*
46354549 ACTAAACTATTTAAAA-AATTTATTTAAGTT
1 ACTAAACTATTCAAAAGAATTTATTTAAGTT
**
46354579 ACTAAACTATTCAAAAGTTTTTATTTAAGT
1 ACTAAACTATTCAAAAGAATTTATTTAAGT
46354609 CACTGGACCG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (31 bp):
ACTAAACTATTCAAAAGAATTTATTTAAGTT
Found at i:46363915 original size:37 final size:37
Alignment explanation
Indices: 46363872--46363960 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
46363862 ATCATAAATA
*
46363872 AATAAACTAATCAATGTTCAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
46363909 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
46363946 AATGAACTAATCAAT
1 AATAAACTAATCAAT
46363961 ATATTTATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:46364040 original size:33 final size:33
Alignment explanation
Indices: 46364003--46364078 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
46363993 TTAAAACTTG
*
46364003 AATTATACATATACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
46364036 AATTATACATACACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
46364069 AATTATACAT
1 AATTATACAT
46364079 GCTTTATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (33 bp):
AATTATACATACACCAACAATTAATTTTAGGTC
Found at i:46366152 original size:36 final size:35
Alignment explanation
Indices: 46366112--46366227 Score: 135
Period size: 36 Copynumber: 3.2 Consensus size: 35
46366102 CTATCCGCAT
***
46366112 CACCACCATACAATCCTCTGCCCTGC-CCACCACAAC
1 CACCACCATACAATAAGCTGCCCT-CTCCACCAC-AC
* *
46366148 CACCATCATACAAAAAGCTGCCCTCTCCACCATCAC
1 CACCACCATACAATAAGCTGCCCTCTCCACCA-CAC
*
46366184 CACCACTATACAATAAGCTGCCCTCTCCACCACCAC
1 CACCACCATACAATAAGCTGCCCTCTCCACCA-CAC
46366220 CACCACCA
1 CACCACCA
46366228 CCACCACCAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.01
36 66 0.97
37 1 0.01
ACGTcount: A:0.31, C:0.49, G:0.05, T:0.15
Consensus pattern (35 bp):
CACCACCATACAATAAGCTGCCCTCTCCACCACAC
Found at i:46366218 original size:3 final size:3
Alignment explanation
Indices: 46366210--46366244 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
46366200 GCTGCCCTCT
*
46366210 CCA CCA CCA CCA CCA CCA CCA CCA CCA TCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
46366245 TCATTACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.66, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:46366228 original size:39 final size:37
Alignment explanation
Indices: 46366129--46366225 Score: 137
Period size: 36 Copynumber: 2.7 Consensus size: 37
46366119 ATACAATCCT
*
46366129 CTGCCCTGC-CCACCACAACCACCA-TCATACAAAAAG
1 CTGCCCT-CTCCACCACCACCACCACTCATACAAAAAG
* *
46366165 CTGCCCTCTCCACCATCACCACCACT-ATACAATAAG
1 CTGCCCTCTCCACCACCACCACCACTCATACAAAAAG
46366201 CTGCCCTCTCCACCACCACCACCAC
1 CTGCCCTCTCCACCACCACCACCAC
46366226 CACCACCACC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
35 1 0.02
36 53 0.96
37 1 0.02
ACGTcount: A:0.30, C:0.49, G:0.06, T:0.14
Consensus pattern (37 bp):
CTGCCCTCTCCACCACCACCACCACTCATACAAAAAG
Found at i:46372625 original size:14 final size:14
Alignment explanation
Indices: 46372606--46372644 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
46372596 AAGGGTCATT
46372606 TAAAATGTTTTCCG
1 TAAAATGTTTTCCG
* *
46372620 TAAAATGATTTCTG
1 TAAAATGTTTTCCG
*
46372634 GAAAATGTTTT
1 TAAAATGTTTT
46372645 ACGTTTCTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (14 bp):
TAAAATGTTTTCCG
Found at i:46372657 original size:34 final size:35
Alignment explanation
Indices: 46372614--46372679 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
46372604 TTTAAAATGT
* *
46372614 TTTCCGTAAAATGATTT-CTGGAAAATGTTTTACG
1 TTTCCGTAAAATAATTTACTGGAAAATATTTTACG
*
46372648 TTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTCCGTAAAATAATTTACTGGAAAATATTTT
46372680 TTGGTGTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (35 bp):
TTTCCGTAAAATAATTTACTGGAAAATATTTTACG
Found at i:46372665 original size:20 final size:20
Alignment explanation
Indices: 46372628--46372666 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46372618 CGTAAAATGA
**
46372628 TTTCTGGAAAATGTTTTACG
1 TTTCTGGAAAATAATTTACG
*
46372648 TTTCTGTAAAATAATTTAC
1 TTTCTGGAAAATAATTTAC
46372667 TGGAAAATAT
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:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACG
Found at i:46378607 original size:52 final size:51
Alignment explanation
Indices: 46378506--46378608 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 51
46378496 ATTTGTCTTG
*
46378506 GTAGTGTTTAAAAAAATATTTTTAAAAAAAATATGCTAAACTGTCTTGTTTA
1 GTAGTGTTTAAAAAAATATTTTTAAAAAAAATATGCTAAACAG-CTTGTTTA
46378558 GTAGTGTTTAAAAAAATATTTTTAAAAAAAAATATGCTAAACAAG-TTGTTT
1 GTAGTGTTTAAAAAAATATTTTT-AAAAAAAATATGCTAAAC-AGCTTGTTT
46378609 TTAGCTGAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
52 29 0.60
53 18 0.38
54 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.39
Consensus pattern (51 bp):
GTAGTGTTTAAAAAAATATTTTTAAAAAAAATATGCTAAACAGCTTGTTTA
Found at i:46378782 original size:21 final size:22
Alignment explanation
Indices: 46378742--46378783 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
46378732 TCTTGATGCT
*
46378742 TAATTACAAATGTGTTAATAGC
1 TAATTACAAATATGTTAATAGC
46378764 TAATTACAAATAT-TTAATAG
1 TAATTACAAATATGTTAATAG
46378784 TTATATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (22 bp):
TAATTACAAATATGTTAATAGC
Found at i:46378806 original size:31 final size:30
Alignment explanation
Indices: 46378771--46378871 Score: 78
Period size: 33 Copynumber: 3.1 Consensus size: 30
46378761 AGCTAATTAC
46378771 AAATATTTAATAGTTATATTTAAAAATTTTA
1 AAATATTTAATA-TTATATTTAAAAATTTTA
* * *
46378802 AAATATATATTA-TATATACTAATTAAATTTTA
1 AAATATTTAATATTATAT-TTAA--AAATTTTA
* *
46378834 TAAATAATTAATATTTATTACTTAAAAATATTTA
1 -AAATATTTAATA-TTA-TATTTAAAAAT-TTTA
46378868 AAAT
1 AAAT
46378872 TTATATTTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
29 5 0.09
30 3 0.06
31 10 0.19
32 8 0.15
33 17 0.31
34 4 0.07
35 5 0.09
36 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (30 bp):
AAATATTTAATATTATATTTAAAAATTTTA
Found at i:46383845 original size:15 final size:15
Alignment explanation
Indices: 46383791--46383846 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
46383781 TTTTTTTGAA
*
46383791 ATAAAAAT-TAAATC
1 ATAAAAATATAAAAC
* *
46383805 ATGAAAACTATAAAAT
1 AT-AAAAATATAAAAC
46383821 ATAAAAATATAAAAC
1 ATAAAAATATAAAAC
46383836 A-AAAATATATA
1 ATAAAA-ATATA
46383847 TATAAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 6 0.18
15 22 0.65
16 6 0.18
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (15 bp):
ATAAAAATATAAAAC
Found at i:46383855 original size:21 final size:21
Alignment explanation
Indices: 46383816--46383855 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46383806 TGAAAACTAT
*
46383816 AAAATATAAAAATATAAAACA
1 AAAATATAAAAATAAAAAACA
* *
46383837 AAAATATATATATAAAAAA
1 AAAATATAAAAATAAAAAA
46383856 AGTAAAGGTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATATAAAAATAAAAAACA
Found at i:46384660 original size:49 final size:49
Alignment explanation
Indices: 46384605--46384767 Score: 326
Period size: 49 Copynumber: 3.3 Consensus size: 49
46384595 GGTCTATCCA
46384605 AATGAATTAACAACCACTTAATTAATATTAAATGAATCCCACTGTTTTT
1 AATGAATTAACAACCACTTAATTAATATTAAATGAATCCCACTGTTTTT
46384654 AATGAATTAACAACCACTTAATTAATATTAAATGAATCCCACTGTTTTT
1 AATGAATTAACAACCACTTAATTAATATTAAATGAATCCCACTGTTTTT
46384703 AATGAATTAACAACCACTTAATTAATATTAAATGAATCCCACTGTTTTT
1 AATGAATTAACAACCACTTAATTAATATTAAATGAATCCCACTGTTTTT
46384752 AATGAATTAACAACCA
1 AATGAATTAACAACCA
46384768 GTAAATCGAA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 114 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (49 bp):
AATGAATTAACAACCACTTAATTAATATTAAATGAATCCCACTGTTTTT
Found at i:46387411 original size:42 final size:42
Alignment explanation
Indices: 46387361--46387441 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 42
46387351 TTTGTCGAAA
*
46387361 ATGGATAATTTGGTTCA-AATTCACGATCTTTTTGTTGCACCT
1 ATGGATAATTTGGTTCAGAA-CCACGATCTTTTTGTTGCACCT
*
46387403 ATGGATAATTTGGTTCAGAACCATGATCTTTTTGTTGCA
1 ATGGATAATTTGGTTCAGAACCACGATCTTTTTGTTGCA
46387442 TCTAGTCTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (42 bp):
ATGGATAATTTGGTTCAGAACCACGATCTTTTTGTTGCACCT
Found at i:46391297 original size:10 final size:9
Alignment explanation
Indices: 46391283--46391354 Score: 65
Period size: 10 Copynumber: 7.6 Consensus size: 9
46391273 AAAGAATGTT
*
46391283 AAAAAAAAT
1 AAAAAAAAG
46391292 AGAAAAAAAG
1 A-AAAAAAAG
46391302 -AAAAAAAG
1 AAAAAAAAG
*
46391310 AAAATAAAAT
1 AAAA-AAAAG
46391320 AAAATAAAAG
1 AAAA-AAAAG
*
46391330 AAGAAAAAG
1 AAAAAAAAG
46391339 AAAAGAAAAAG
1 -AAA-AAAAAG
46391350 AAAAA
1 AAAAA
46391355 GGAGAGGTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
8 8 0.15
9 11 0.21
10 28 0.53
11 6 0.11
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:46391323 original size:23 final size:22
Alignment explanation
Indices: 46391283--46391354 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
46391273 AAAGAATGTT
46391283 AAAA-AAAATAGAAAAAAAGAAA
1 AAAAGAAAATA-AAAAAAAGAAA
*
46391305 AAAAGAAAATAAAATAAAATAAA
1 AAAAGAAAATAAAA-AAAAGAAA
* *
46391328 AGAAGAAAAAGAAAAGAAAAAGAAA
1 AAAAG-AAAA-TAAA-AAAAAGAAA
46391353 AA
1 AA
46391355 GGAGAGGTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
22 7 0.17
23 17 0.43
24 4 0.10
25 11 0.28
26 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (22 bp):
AAAAGAAAATAAAAAAAAGAAA
Found at i:46392866 original size:45 final size:45
Alignment explanation
Indices: 46392732--46392866 Score: 105
Period size: 45 Copynumber: 3.0 Consensus size: 45
46392722 ATCAAAGAAG
* * * *
46392732 ATAGTAGATCTTGTCTTCC-TGTATTGGCAGTGAAGCAGATCGAAG
1 ATAGCAGATTTTGTC-TCCATGAATTGGCAGTGAAGCAGATCGAAA
* * * * * ** * * *
46392777 ACACCA-ATTTTGCCTCCAAGAGTTTACAGCGGAGCA-AACTGAAA
1 ATAGCAGATTTTGTCTCCATGAATTGGCAGTGAAGCAGATC-GAAA
46392821 ATAGCAGATTTTGTCTCCATGAATTGGCAGTGAAGCAGATCGAAA
1 ATAGCAGATTTTGTCTCCATGAATTGGCAGTGAAGCAGATCGAAA
46392866 A
1 A
46392867 AAAGAAGTCT
Statistics
Matches: 62, Mismatches: 24, Indels: 8
0.66 0.26 0.09
Matches are distributed among these distances:
43 5 0.08
44 24 0.39
45 31 0.50
46 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (45 bp):
ATAGCAGATTTTGTCTCCATGAATTGGCAGTGAAGCAGATCGAAA
Found at i:46392951 original size:43 final size:43
Alignment explanation
Indices: 46392877--46393038 Score: 112
Period size: 43 Copynumber: 3.7 Consensus size: 43
46392867 AAAGAAGTCT
* * * *
46392877 TATCTCCCTAAGTAGTAGTGAAGCAGATCGAAAGCACCAGCCC
1 TATCTCCCTAAGCAGCAGCGAAGTAGATCGAAAGCACCAGCCC
* * * * ** * *
46392920 TATCTCCCTGAGTAGCAGCGGAGTAGGTCG-AAG-ATTGTAGATCT
1 TATCTCCCTAAGCAGCAGCGAAGTAGATCGAAAGCA--CCAG-CCC
* * * *
46392964 TATCTCCCTAAACAGTAGTGGAGTAGATCGAAAGCACCAGCCC
1 TATCTCCCTAAGCAGCAGCGAAGTAGATCGAAAGCACCAGCCC
* * *
46393007 TATCTCCCTGAGCAGCAACGAAGTAGGTCGAA
1 TATCTCCCTAAGCAGCAGCGAAGTAGATCGAA
46393039 GATTGTAGAT
Statistics
Matches: 87, Mismatches: 27, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 52 0.60
44 27 0.31
45 3 0.03
46 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (43 bp):
TATCTCCCTAAGCAGCAGCGAAGTAGATCGAAAGCACCAGCCC
Found at i:46392987 original size:44 final size:44
Alignment explanation
Indices: 46392920--46393082 Score: 134
Period size: 44 Copynumber: 3.7 Consensus size: 44
46392910 GCACCAGCCC
* * * * *
46392920 TATCTCCCTGAGTAGCAGCGGAGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATTGTAGATCT
* * * * *
46392964 TATCTCCCTAAACAGTAGTGGAGTAGATCGAA-A--GCACCAGCCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATTGTA-GA-TCT
* * ** * *
46393007 TATCTCCCTGAGCAGCAACGAAGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATTGTAGATCT
*
46393051 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAA
46393083 AACCACAGAT
Statistics
Matches: 86, Mismatches: 28, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 27 0.31
44 53 0.62
45 1 0.01
46 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATTGTAGATCT
Found at i:46393006 original size:87 final size:87
Alignment explanation
Indices: 46392874--46393083 Score: 357
Period size: 87 Copynumber: 2.4 Consensus size: 87
46392864 AAAAAAGAAG
* * * *
46392874 TCTTATCTCCCTAAGTAGTAGTGAAGCAGATCGAAAGCACCAGCCCTATCTCCCTGAGTAGCAGC
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGCCCTATCTCCCTGAGCAGCAAC
*
46392939 GGAGTAGGTCGAAGATTGTAGA
66 GAAGTAGGTCGAAGATTGTAGA
* *
46392961 TCTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAAGCACCAGCCCTATCTCCCTGAGCAGCAAC
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGCCCTATCTCCCTGAGCAGCAAC
46393026 GAAGTAGGTCGAAGATTGTAGA
66 GAAGTAGGTCGAAGATTGTAGA
46393048 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
46393084 ACCACAGATC
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 114 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (87 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGCCCTATCTCCCTGAGCAGCAAC
GAAGTAGGTCGAAGATTGTAGA
Found at i:46393184 original size:43 final size:44
Alignment explanation
Indices: 46393136--46393313 Score: 104
Period size: 43 Copynumber: 4.1 Consensus size: 44
46393126 CATCCAGTCT
46393136 TATCTCCTTAAGCAGTAGTGGAGTAGA-CAGAAGAAACCAATCC
1 TATCTCCTTAAGCAGTAGTGGAGTAGAGCAGAAGAAACCAATCC
* ** * **
46393179 TATCTCTCTAAAGTTGTAGTGGAGTGGATTA-AA-AAACACAGATCC
1 TATCTC-CTTAAGCAGTAGTGGAGTAGAGCAGAAGAAAC-CA-ATCC
* * * * * **
46393224 TATCT-CTCT--GAAGT--TGCAGTAGAGCAGATCGCATCCAATTT
1 TATCTCCT-TAAGCAGTAGTGGAGTAGAGCAGA-AGAAACCAATCC
* * *
46393265 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAACTAATCC
1 TATCTCCTTAAGCAGTAGTGGAGTAGAGCAGAAGAAACCAATCC
46393308 TATCTC
1 TATCTC
46393314 TCTAAAGTTG
Statistics
Matches: 95, Mismatches: 27, Indels: 26
0.64 0.18 0.18
Matches are distributed among these distances:
40 8 0.08
41 9 0.09
42 6 0.06
43 30 0.32
44 25 0.26
45 17 0.18
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
TATCTCCTTAAGCAGTAGTGGAGTAGAGCAGAAGAAACCAATCC
Found at i:46393198 original size:129 final size:129
Alignment explanation
Indices: 46393081--46393372 Score: 485
Period size: 129 Copynumber: 2.3 Consensus size: 129
46393071 GAGCAGATCG
* *
46393081 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCTTA
1 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTA
*
46393146 AGCAGTAGTGGAGTAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTGTAGTGGAGTGGATTA
66 AGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTGTAGTGGAGTGGATTA
* * *
46393210 AAAAACACAGATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATTTTATCTCCCTA
1 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTA
* * *
46393275 AGCAGTAGTGGAGCAGACAGAAGAAACTAATCCTATCTCTCTAAAGTTGCAGTAGAGTGGATTA
66 AGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTGTAGTGGAGTGGATTA
* *
46393339 AAAACCGCAGATCTTATCTCCCTGAAGTTGCAGT
1 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
46393373 CTTATCTCCC
Statistics
Matches: 150, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 150 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (129 bp):
AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTA
AGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTGTAGTGGAGTGGATTA
Found at i:46393375 original size:22 final size:22
Alignment explanation
Indices: 46393345--46393394 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 22
46393335 ATTAAAAACC
46393345 GCAGATCTTATCTCCCTGAAGTT
1 GCAG-TCTTATCTCCCTGAAGTT
46393368 GCAGTCTTATCTCCCTGAAGTT
1 GCAGTCTTATCTCCCTGAAGTT
46393390 GCAGT
1 GCAGT
46393395 GGAACAGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (22 bp):
GCAGTCTTATCTCCCTGAAGTT
Found at i:46394158 original size:14 final size:14
Alignment explanation
Indices: 46394139--46394165 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46394129 GATTTTTCGT
46394139 TTCTTATTATTTTG
1 TTCTTATTATTTTG
46394153 TTCTTATTATTTT
1 TTCTTATTATTTT
46394166 TATTTAACTT
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:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (14 bp):
TTCTTATTATTTTG
Found at i:46395348 original size:12 final size:12
Alignment explanation
Indices: 46395328--46395366 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
46395318 TTATAATTCT
* *
46395328 TATATACATATA
1 TATACACATACA
46395340 TATACACATACA
1 TATACACATACA
*
46395352 CATACACATACA
1 TATACACATACA
46395364 TAT
1 TAT
46395367 TTTTATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (12 bp):
TATACACATACA
Found at i:46395405 original size:26 final size:28
Alignment explanation
Indices: 46395376--46395439 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 28
46395366 TTTTTATAAA
46395376 TTATATATATATGAAT-ATATACGT-AC
1 TTATATATATATGAATCATATACGTAAC
* * *
46395402 TTATATAT-TTTTATTCATATACGTAAC
1 TTATATATATATGAATCATATACGTAAC
46395429 -TATATATATAT
1 TTATATATATAT
46395440 TTACGTACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 4 0.13
26 23 0.74
27 4 0.13
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (28 bp):
TTATATATATATGAATCATATACGTAAC
Found at i:46401990 original size:40 final size:41
Alignment explanation
Indices: 46401945--46402079 Score: 118
Period size: 40 Copynumber: 3.4 Consensus size: 41
46401935 GTTTGGAACA
*
46401945 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTATC-C
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
* * * **
46401985 AAAGCGCCGCTAAAGATAGAGC-TTCAGCGGCGA-TTATCTG
1 AAAGCGCCACAAAAAATAGAGCATT-AGCGGCGATTTATCAC
* * * * * *
46402025 GAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA-CAT
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
46402064 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
46402080 CCTAAGACCA
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
39 29 0.38
40 48 0.62
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (41 bp):
AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
Found at i:46402176 original size:41 final size:41
Alignment explanation
Indices: 46402119--46402297 Score: 263
Period size: 41 Copynumber: 4.4 Consensus size: 41
46402109 TTTTTTAAAC
* * *
46402119 CTTTAGCGGCGTTTTTGTGTAAGCACCGCTAATGCTC-AGAT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAG-T
*
46402160 CTTTAGCGGCGTTTTTGTCTAGGTGCCGCTAATGCTCGAGT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAGT
* *
46402201 CTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCG-GAT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAG-T
*
46402242 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGAGT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAGT
46402283 CTTTAGCGGCGTTTT
1 CTTTAGCGGCGTTTT
46402298 CATACAAGCG
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
40 1 0.01
41 121 0.97
42 3 0.02
ACGTcount: A:0.13, C:0.23, G:0.28, T:0.36
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAGT
Found at i:46402256 original size:82 final size:82
Alignment explanation
Indices: 46402119--46402326 Score: 326
Period size: 82 Copynumber: 2.5 Consensus size: 82
46402109 TTTTTTAAAC
* * * *
46402119 CTTTAGCGGCGTTTTTGTGTAAGCACCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGTCTAGGT
1 CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAGGC
46402184 GCCGCTAATGCTCGAGT
66 GCCGCTAATGCTCGAGT
* *
46402201 CTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTATGC
1 CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAGGC
46402266 GCCGCTAATGCTCGAGT
66 GCCGCTAATGCTCGAGT
* ** *
46402283 CTTTAGCGGCGTTTTCATACAAGCGCCGCTAATTCTCGGATCTT
1 CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTT
46402327 NNNNNNNNNN
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 115 1.00
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAGGC
GCCGCTAATGCTCGAGT
Found at i:46402309 original size:41 final size:41
Alignment explanation
Indices: 46402119--46402326 Score: 239
Period size: 41 Copynumber: 5.1 Consensus size: 41
46402109 TTTTTTAAAC
* *
46402119 CTTTAGCGGCGTTTTTGTGTAAGCACCGCTAATGCTC-AGAT
1 CTTTAGCGGCGTTTTTGT-CAAGCGCCGCTAATGCTCGAGAT
* *
46402160 CTTTAGCGGCGTTTTTGTCTAGGTGCCGCTAATGCTCGAG-T
1 CTTTAGCGGCGTTTTTGTC-AAGCGCCGCTAATGCTCGAGAT
*
46402201 CTTTAGCGGCGTTTTCGTGT-AGGCGCCGCTAATGCTCG-GAT
1 CTTTAGCGGCGTTTT--TGTCAAGCGCCGCTAATGCTCGAGAT
*
46402242 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGAG-T
1 CTTTAGCGGCGTTTTTGTC-AAGCGCCGCTAATGCTCGAGAT
** *
46402283 CTTTAGCGGCGTTTTCATACAAGCGCCGCTAATTCTCG-GAT
1 CTTTAGCGGCGTTTTTGT-CAAGCGCCGCTAATGCTCGAGAT
46402324 CTT
1 CTT
46402327 NNNNNNNNNN
Statistics
Matches: 147, Mismatches: 10, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
39 3 0.02
40 2 0.01
41 135 0.92
42 4 0.03
43 3 0.02
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCAAGCGCCGCTAATGCTCGAGAT
Found at i:46407962 original size:15 final size:15
Alignment explanation
Indices: 46407941--46407981 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
46407931 TTTAAGGTTA
46407941 ATTTAAGGGTTAGAG
1 ATTTAAGGGTTAGAG
* *
46407956 GTTTAAGGGTTTGAG
1 ATTTAAGGGTTAGAG
46407971 ATTT-AGGGTTA
1 ATTTAAGGGTTA
46407982 ATTTCAACAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (15 bp):
ATTTAAGGGTTAGAG
Found at i:46409339 original size:37 final size:38
Alignment explanation
Indices: 46409279--46409350 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
46409269 AAATTTGATG
* *
46409279 TTTAGGGGTTAGGGGGATTTAGGGTTTAAGGGTTATGC
1 TTTAGGGGTTAGAGGGATTTAGGGGTTAAGGGTTATGC
*
46409317 TTTAGGGGTTA-AGGGATTTAGGGGTTAGGGGTTA
1 TTTAGGGGTTAGAGGGATTTAGGGGTTAAGGGTTA
46409351 GGATGGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 20 0.65
38 11 0.35
ACGTcount: A:0.19, C:0.01, G:0.43, T:0.36
Consensus pattern (38 bp):
TTTAGGGGTTAGAGGGATTTAGGGGTTAAGGGTTATGC
Found at i:46409369 original size:25 final size:24
Alignment explanation
Indices: 46409317--46409371 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
46409307 AGGGTTATGC
46409317 TTTAGGGGTTAAGGGATTTAGGGG
1 TTTAGGGGTTAAGGGATTTAGGGG
*
46409341 -TTAGGGGTTAGGATGGATTT-GGGG
1 TTTAGGGGTTA--AGGGATTTAGGGG
46409365 TTTAGGG
1 TTTAGGG
46409372 TTTCAACGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 10 0.37
24 4 0.15
25 13 0.48
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.35
Consensus pattern (24 bp):
TTTAGGGGTTAAGGGATTTAGGGG
Found at i:46412326 original size:23 final size:23
Alignment explanation
Indices: 46412293--46412339 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
46412283 AATATTATAC
46412293 ATAACTGACAACTTACATAACTT
1 ATAACTGACAACTTACATAACTT
*
46412316 ATAACTTACAACTTACATAACTT
1 ATAACTGACAACTTACATAACTT
46412339 A
1 A
46412340 CATTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAACTGACAACTTACATAACTT
Found at i:46412335 original size:16 final size:16
Alignment explanation
Indices: 46412290--46412342 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
46412280 ATTAATATTA
*
46412290 TACATAACTGACAACT
1 TACATAACTTACAACT
*
46412306 TACATAACTTATAACT
1 TACATAACTTACAACT
46412322 TAC--AACTTACATAACT
1 TACATAACTTAC--AACT
46412338 TACAT
1 TACAT
46412343 TTTTTTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 6 0.20
16 24 0.80
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:46413976 original size:40 final size:41
Alignment explanation
Indices: 46413931--46414065 Score: 118
Period size: 40 Copynumber: 3.4 Consensus size: 41
46413921 GTTTGGAACA
*
46413931 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTATC-C
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
* * * **
46413971 AAAGCGCCGCTAAAGATAGAGC-TTCAGCGGCGA-TTATCTG
1 AAAGCGCCACAAAAAATAGAGCATT-AGCGGCGATTTATCAC
* * * * * *
46414011 GAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA-CAT
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
46414050 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
46414066 CCTAAGACCA
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
39 29 0.38
40 48 0.62
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (41 bp):
AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
Found at i:46414162 original size:41 final size:40
Alignment explanation
Indices: 46414105--46414237 Score: 194
Period size: 41 Copynumber: 3.2 Consensus size: 40
46414095 TTTTTTAAAC
* *
46414105 CTTTAGCGGCGTTTTTGTGTAAGCACCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGTGTAGGCGCCGCTAATGCTC-GAT
* *
46414146 CTTTAGCGGCGTTTTTGTCTAGGTGCCGCTAATGCTCGAGT
1 CTTTAGCGGCGTTTTTGTGTAGGCGCCGCTAATGCTCGA-T
*
46414187 CTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTGTAGGCGCCGCTAATGCTC-GAT
46414228 CTTTAGCGGC
1 CTTTAGCGGC
46414238 TATCATACAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
40 2 0.02
41 79 0.95
42 2 0.02
ACGTcount: A:0.14, C:0.23, G:0.29, T:0.34
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTGTGTAGGCGCCGCTAATGCTCGAT
Found at i:46415342 original size:34 final size:33
Alignment explanation
Indices: 46415302--46417462 Score: 566
Period size: 31 Copynumber: 72.2 Consensus size: 33
46415292 ACCCATCTCT
46415302 AATTACATAACTTAGTTAATTAATATTATACATA
1 AATTACATAACTTA-TTAATTAATATTATACATA
* * *
46415336 ACTTAC--AACTTA-CAACTTACATAACT-TACATA
1 AATTACATAACTTATTAA-TTA-AT-ATTATACATA
* *
46415368 ACTTACAT---TT-TT--TT-A-ATTATTCATA
1 AATTACATAACTTATTAATTAATATTATACATA
46415393 AATTACATAAC--A-TACATTAATATTATACATA
1 AATTACATAACTTATTA-ATTAATATTATACATA
46415424 AATTACATAACTTAGTTAATTAATATTATACATA
1 AATTACATAACTTA-TTAATTAATATTATACATA
*
46415458 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46415484 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46415514 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46415540 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46415570 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46415596 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46415626 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46415652 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46415682 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46415708 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46415738 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46415764 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46415794 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46415820 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46415850 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46415876 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46415906 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46415932 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46415962 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46415988 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46416018 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46416044 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46416074 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46416100 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46416130 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46416156 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46416186 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46416212 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46416242 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46416268 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46416298 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46416324 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46416354 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46416380 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46416410 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46416436 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46416466 AATTACATAACTTAATT--TT-AT-GT-T-C-T-
1 AATTACATAACTT-ATTAATTAATATTATACATA
* *
46416492 TA-TACATAACTTA--CATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
46416522 AATTACATAACTTAGTTAATTAATATTATACATA
1 AATTACATAACTTA-TTAATTAATATTATACATA
* * * *
46416556 ACTGAC--AACTTACATAACTT-ATAACT-TAC--A
1 AATTACATAACTTA-TTAA-TTAAT-ATTATACATA
* ** * *
46416586 ACTTACATAACTTACATTTTTTTA-ATTATTCAT-
1 AATTACATAACTT--ATTAATTAATATTATACATA
** *
46416619 CTTATACATAACTTA--CATTAATATTATACATA
1 AAT-TACATAACTTATTAATTAATATTATACATA
46416651 AATTACATAACTTAATTAATTAATTAATATTATACATA
1 AATTACATAAC----TT-ATTAATTAATATTATACATA
*
46416689 AATTACATAACTTAATTTATTAATATTATACATA
1 AATTACATAACTT-ATTAATTAATATTATACATA
* * *
46416723 ACTTAC--AACTTACATAACTTACA-AAT-TACATA
1 AATTACATAACTTA-TTAA-TTA-ATATTATACATA
* * * *
46416755 ACTTAC--AATTTTTTAATTATTCGATTATACATA
1 AATTACATAACTTATTAATTAAT--ATTATACATA
* *
46416788 ACTTACATTAAAATTA-TACA-TAA-A-T-TACATA
1 AATTACA-T-AACTTATTA-ATTAATATTATACATA
* * *
46416819 ACTTA-AT---TAATTAATATACATAAGT-TACATA
1 AATTACATAACTTATTAAT-TA-AT-ATTATACATA
*
46416850 ACTTACATTAA--TATGATACA-TAA-A-T-TACATA
1 AATTACA-TAACTTAT--TA-ATTAATATTATACATA
* *
46416881 ACTTA-GT-------TAATTAATATTATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
** * *
46416906 TGTTACATAACTTA--CATTAATATGATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
46416937 AATTACATAACTTAGTTAATTAATATTATACATA
1 AATTACATAACTTA-TTAATTAATATTATACATA
** * *
46416971 TGTTACATAACTTA--CATTAATATGATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
46417002 AATTACATAACTTAGTTAATTAATATTATACATA
1 AATTACATAACTTA-TTAATTAATATTATACATA
** * *
46417036 TGTTACATAACTTA--CATTAATATGATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
46417067 AATTACATAACTTAGTTAATTAATATTATACATA
1 AATTACATAACTTA-TTAATTAATATTATACATA
** * *
46417101 TGTTACATAACTTA--CATTAATATGATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
46417132 AATTACATAACTTAGTTAATTAATATTATACATA
1 AATTACATAACTTA-TTAATTAATATTATACATA
** * *
46417166 TGTTACATAACTTA--CATTAATATGATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
46417197 AATTACATAACTTAGTTAATTAATATTATACATA
1 AATTACATAACTTA-TTAATTAATATTATACATA
** * *
46417231 TGTTACATAACTTA--CATTAATATGATACATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46417262 AATTACATAAGTTAGTTAATTAATATTATACATA
1 AATTACATAACTTA-TTAATTAATATTATACATA
* * *
46417296 ACTTAC--AACTTA-CAACTTACATAACT-TACATA
1 AATTACATAACTTATTAA-TTA-AT-ATTATACATA
* *
46417328 ACTTACAT---TT-TT--TT-A-ATTATTCATA
1 AATTACATAACTTATTAATTAATATTATACATA
*
46417353 AATTACATAACTTAATTAGTT-A-A-TATACATA
1 AATTACATAACTT-ATTAATTAATATTATACATA
46417384 AATTACATAACTTAATTAATTAATTAATATTATACATA
1 AATTACATAAC----TT-ATTAATTAATATTATACATA
46417422 AATTACATAACTTAGTTAATTAATATTATACATA
1 AATTACATAACTTA-TTAATTAATATTATACATA
*
46417456 ACTTACA
1 AATTACA
46417463 ACTTACATAA
Statistics
Matches: 1599, Mismatches: 182, Indels: 692
0.65 0.07 0.28
Matches are distributed among these distances:
21 1 0.00
22 5 0.00
23 1 0.00
24 62 0.04
25 264 0.17
26 44 0.03
27 40 0.03
28 45 0.03
29 42 0.03
30 59 0.04
31 495 0.31
32 152 0.10
33 32 0.02
34 280 0.18
35 16 0.01
36 8 0.01
37 7 0.00
38 46 0.03
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.42
Consensus pattern (33 bp):
AATTACATAACTTATTAATTAATATTATACATA
Found at i:46415361 original size:9 final size:9
Alignment explanation
Indices: 46415330--46415375 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
46415320 ATTAATATTA
46415330 TACATAACT
1 TACATAACT
46415339 TAC--AACT
1 TACATAACT
46415346 TAC--AACT
1 TACATAACT
46415353 TACATAACT
1 TACATAACT
46415362 TACATAACT
1 TACATAACT
46415371 TACAT
1 TACAT
46415376 TTTTTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 14 0.40
9 21 0.60
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (9 bp):
TACATAACT
Found at i:46415502 original size:56 final size:56
Alignment explanation
Indices: 46415442--46416667 Score: 2213
Period size: 56 Copynumber: 21.6 Consensus size: 56
46415432 AACTTAGTTA
46415442 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46415498 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46415554 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46415610 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46415666 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46415722 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46415778 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46415834 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46415890 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46415946 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46416002 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46416058 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46416114 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46416170 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46416226 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46416282 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46416338 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46416394 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
46416450 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
* * * *
46416506 ATTAATATTATACATAAATTACATAACTTAGTTAATTA--ATATTATACATAACTGAC
1 ATTAATATTATACATAAATTACATAACTTAATT--TTATGTTCTTATACATAACTTAC
* *
46416562 AACTTACATAACTTATAACTTACAACTTACATAACTTACATTTTTTTAATTATTCATCTTATACA
1 -A-TTA-AT-A-TTAT-ACATA-AA-TTACATAACTTA-A---TTTT-A-T-GT--TCTTATACA
46416627 TAACTTAC
49 TAACTTAC
46416635 ATTAATATTATACATAAATTACATAACTTAATT
1 ATTAATATTATACATAAATTACATAACTTAATT
46416668 AATTAATTAA
Statistics
Matches: 1139, Mismatches: 10, Indels: 37
0.96 0.01 0.03
Matches are distributed among these distances:
56 1055 0.93
57 1 0.00
58 6 0.01
59 2 0.00
60 1 0.00
61 6 0.01
62 4 0.00
63 2 0.00
64 13 0.01
65 12 0.01
66 4 0.00
67 5 0.00
68 6 0.01
69 1 0.00
70 2 0.00
71 3 0.00
72 1 0.00
73 15 0.01
ACGTcount: A:0.41, C:0.13, G:0.02, T:0.44
Consensus pattern (56 bp):
ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTAC
Found at i:46416576 original size:9 final size:9
Alignment explanation
Indices: 46416516--46416602 Score: 57
Period size: 9 Copynumber: 10.6 Consensus size: 9
46416506 ATTAATATTA
*
46416516 TACATAAAT
1 TACATAACT
46416525 TACATAACT
1 TACATAACT
**
46416534 TAGTTAA-T
1 TACATAACT
*
46416542 TA-AT-ATT
1 TACATAACT
46416549 ATACATAACT
1 -TACATAACT
*
46416559 GAC--AACT
1 TACATAACT
46416566 TACATAACT
1 TACATAACT
46416575 T--ATAACT
1 TACATAACT
46416582 TAC--AACT
1 TACATAACT
46416589 TACATAACT
1 TACATAACT
46416598 TACAT
1 TACAT
46416603 TTTTTTAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
6 1 0.02
7 22 0.36
8 5 0.08
9 31 0.51
10 2 0.03
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:46416586 original size:23 final size:23
Alignment explanation
Indices: 46416553--46416599 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
46416543 AATATTATAC
46416553 ATAACTGACAACTTACATAACTT
1 ATAACTGACAACTTACATAACTT
*
46416576 ATAACTTACAACTTACATAACTT
1 ATAACTGACAACTTACATAACTT
46416599 A
1 A
46416600 CATTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAACTGACAACTTACATAACTT
Found at i:46416595 original size:16 final size:16
Alignment explanation
Indices: 46416550--46416602 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
46416540 ATTAATATTA
*
46416550 TACATAACTGACAACT
1 TACATAACTTACAACT
*
46416566 TACATAACTTATAACT
1 TACATAACTTACAACT
46416582 TAC--AACTTACATAACT
1 TACATAACTTAC--AACT
46416598 TACAT
1 TACAT
46416603 TTTTTTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 6 0.20
16 24 0.80
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:46416713 original size:167 final size:159
Alignment explanation
Indices: 46416506--46416833 Score: 523
Period size: 167 Copynumber: 2.0 Consensus size: 159
46416496 CATAACTTAC
*
46416506 ATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTATACATAACTGACAACTTACAT
1 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTGACAACTTACAT
*
46416571 AACTTATAACTTACAACTTACATAACTTACATTTTTTTAATTATTC-ATCTTATACATAACTTAC
66 AAC-T-T-AC--A-AA-TTACATAACTTACAATTTTTTAATTATTCGA--TTATACATAACTTAC
*
46416635 ATTAATATTATACATAAATTACATAACTTAATTAATTA
122 ATTAAAATTATACATAAATTACATAACTTAATTAATTA
* *
46416673 ATTAATATTATACATAAATTACATAACTTAATTTATTAATATTATACATAACTTACAACTTACAT
1 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTGACAACTTACAT
46416738 AACTTACAAATTACATAACTTACAATTTTTTAATTATTCGATTATACATAACTTACATTAAAATT
66 AACTTACAAATTACATAACTTACAATTTTTTAATTATTCGATTATACATAACTTACATTAAAATT
46416803 ATACATAAATTACATAACTTAATTAATTA
131 ATACATAAATTACATAACTTAATTAATTA
46416832 AT
1 AT
46416834 ATACATAAGT
Statistics
Matches: 155, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
159 54 0.35
160 28 0.18
161 3 0.02
162 1 0.01
164 2 0.01
165 1 0.01
166 1 0.01
167 65 0.42
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (159 bp):
ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTGACAACTTACAT
AACTTACAAATTACATAACTTACAATTTTTTAATTATTCGATTATACATAACTTACATTAAAATT
ATACATAAATTACATAACTTAATTAATTA
Found at i:46416729 original size:9 final size:9
Alignment explanation
Indices: 46416717--46417666 Score: 114
Period size: 9 Copynumber: 107.3 Consensus size: 9
46416707 ATTAATATTA
46416717 TACATAACT
1 TACATAACT
46416726 TAC--AACT
1 TACATAACT
46416733 TACATAACT
1 TACATAACT
46416742 TACA-AA-T
1 TACATAACT
46416749 TACATAACT
1 TACATAACT
***
46416758 TACAATTTTT
1 TAC-ATAACT
*
46416768 TA-ATTA-T
1 TACATAACT
*
46416775 T-CGATTA--
1 TAC-ATAACT
46416782 TACATAACT
1 TACATAACT
*
46416791 TACATTAAAATT
1 TACA-T--AACT
*
46416803 ATACATAAAT
1 -TACATAACT
46416813 TACATAACT
1 TACATAACT
46416822 TA-ATTAA-T
1 TACA-TAACT
46416830 TA-AT-A--
1 TACATAACT
*
46416835 TACATAAGT
1 TACATAACT
46416844 TACATAACT
1 TACATAACT
*
46416853 TACATTAATAT
1 TACA-TAA-CT
*
46416864 GATACATAAAT
1 --TACATAACT
46416875 TACATAACT
1 TACATAACT
**
46416884 TAGTTAA-T
1 TACATAACT
*
46416892 TA-AT-ATT
1 TACATAACT
**
46416899 ATACATATGT
1 -TACATAACT
46416909 TACATAACT
1 TACATAACT
*
46416918 TACATTAATAT
1 TACA-TAA-CT
*
46416929 GATACATAAAT
1 --TACATAACT
46416940 TACATAACT
1 TACATAACT
**
46416949 TAGTTAA-T
1 TACATAACT
*
46416957 TA-AT-ATT
1 TACATAACT
**
46416964 ATACATATGT
1 -TACATAACT
46416974 TACATAACT
1 TACATAACT
*
46416983 TACATTAATAT
1 TACA-TAA-CT
*
46416994 GATACATAAAT
1 --TACATAACT
46417005 TACATAACT
1 TACATAACT
**
46417014 TAGTTAA-T
1 TACATAACT
*
46417022 TA-AT-ATT
1 TACATAACT
**
46417029 ATACATATGT
1 -TACATAACT
46417039 TACATAACT
1 TACATAACT
*
46417048 TACATTAATAT
1 TACA-TAA-CT
*
46417059 GATACATAAAT
1 --TACATAACT
46417070 TACATAACT
1 TACATAACT
**
46417079 TAGTTAA-T
1 TACATAACT
*
46417087 TA-AT-ATT
1 TACATAACT
**
46417094 ATACATATGT
1 -TACATAACT
46417104 TACATAACT
1 TACATAACT
*
46417113 TACATTAATAT
1 TACA-TAA-CT
*
46417124 GATACATAAAT
1 --TACATAACT
46417135 TACATAACT
1 TACATAACT
**
46417144 TAGTTAA-T
1 TACATAACT
*
46417152 TA-AT-ATT
1 TACATAACT
**
46417159 ATACATATGT
1 -TACATAACT
46417169 TACATAACT
1 TACATAACT
*
46417178 TACATTAATAT
1 TACA-TAA-CT
*
46417189 GATACATAAAT
1 --TACATAACT
46417200 TACATAACT
1 TACATAACT
**
46417209 TAGTTAA-T
1 TACATAACT
*
46417217 TA-AT-ATT
1 TACATAACT
**
46417224 ATACATATGT
1 -TACATAACT
46417234 TACATAACT
1 TACATAACT
*
46417243 TACATTAATAT
1 TACA-TAA-CT
*
46417254 GATACATAAAT
1 --TACATAACT
*
46417265 TACATAAGT
1 TACATAACT
**
46417274 TAGTTAA-T
1 TACATAACT
*
46417282 TA-AT-ATT
1 TACATAACT
46417289 ATACATAACT
1 -TACATAACT
46417299 TAC--AACT
1 TACATAACT
46417306 TAC--AACT
1 TACATAACT
46417313 TACATAACT
1 TACATAACT
46417322 TACATAACT
1 TACATAACT
***
46417331 TACATTTTTT
1 TACA-TAACT
*
46417341 TA-ATTA-T
1 TACATAACT
*
46417348 T-CATAAAT
1 TACATAACT
46417356 TACATAACT
1 TACATAACT
* *
46417365 TA-ATTAGT
1 TACATAACT
46417373 TA-AT-A--
1 TACATAACT
*
46417378 TACATAAAT
1 TACATAACT
46417387 TACATAACT
1 TACATAACT
46417396 TA-ATTAA-T
1 TACA-TAACT
*
46417404 TA-ATTAATATT
1 TACA-T-A-ACT
*
46417415 ATACATAAAT
1 -TACATAACT
46417425 TACATAACT
1 TACATAACT
**
46417434 TAGTTAA-T
1 TACATAACT
*
46417442 TA-AT-ATT
1 TACATAACT
46417449 ATACATAACT
1 -TACATAACT
46417459 TAC--AACT
1 TACATAACT
46417466 TACATAACT
1 TACATAACT
46417475 TACA-AA-T
1 TACATAACT
46417482 TACATAACT
1 TACATAACT
***
46417491 TACAATTTTT
1 TAC-ATAACT
*
46417501 TA-ATTA-T
1 TACATAACT
* *
46417508 T-CGTAAAT
1 TACATAACT
46417516 TACATAACT
1 TACATAACT
* *
46417525 TACTTAATT
1 TACATAACT
*
46417534 TTCATAA--
1 TACATAACT
*
46417541 TAAATAACT
1 TACATAACT
46417550 TACATAACT
1 TACATAACT
46417559 TAC--AACT
1 TACATAACT
46417566 TACATAACT
1 TACATAACT
* ** *
46417575 TATACGACA
1 TACATAACT
46417584 TACATAACT
1 TACATAACT
* *
46417593 TACATAGCA
1 TACATAACT
*
46417602 TA-ATTTGACT
1 TACA--TAACT
*
46417612 AATACACAACT
1 --TACATAACT
*
46417623 TACATAATT
1 TACATAACT
*
46417632 TTCATAA--
1 TACATAACT
*
46417639 TAAATAACT
1 TACATAACT
46417648 TACATAA--
1 TACATAACT
46417655 TACATAACT
1 TACATAACT
46417664 TAC
1 TAC
46417667 GTAGCTTAGT
Statistics
Matches: 705, Mismatches: 120, Indels: 232
0.67 0.11 0.22
Matches are distributed among these distances:
5 4 0.01
6 13 0.02
7 97 0.14
8 86 0.12
9 361 0.51
10 54 0.08
11 26 0.04
12 30 0.04
13 34 0.05
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:46416738 original size:16 final size:16
Alignment explanation
Indices: 46416717--46416762 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
46416707 ATTAATATTA
*
46416717 TACATAACTTACAACT
1 TACATAACTTACAAAT
46416733 TACATAACTTACAAAT
1 TACATAACTTACAAAT
46416749 TACATAACTTACAA
1 TACATAACTTACAA
46416763 TTTTTTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (16 bp):
TACATAACTTACAAAT
Found at i:46417090 original size:195 final size:189
Alignment explanation
Indices: 46416673--46417462 Score: 951
Period size: 195 Copynumber: 4.1 Consensus size: 189
46416663 TAATTAATTA
* * *
46416673 ATTAATATTATACATAAATTACATAACTTAATTTATTAATATTATACATAACTTACAACTTACAT
1 ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAACTTACAACTTACAT
* * ** * *
46416738 AACTTAC--AAATTACATAACTTA--CAATTTTTTAATTATTCGAT-T-ATACATAACTTACATT
66 AAATTACATAAATTACATAACTTAGTTAA-TTAAT-ATTATAC-ATATGTTACATAACTTACATT
* *
46416797 AAAATTATACATAAATTACATAACTTAATTAATT-A-A-TATACATAAGTTACATAACTTAC
128 AATATGATACATAAATTACATAACTTAATTAATTAATATTATACATAAGTTACATAACTTAC
**
46416856 ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTAC
1 ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAACTTAC--AACTTAC
46416921 ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTAC
64 A-TAA-AT--TACATAAATTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTAC
* *
46416986 ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTAC
125 ATTAATATGATACATAAATTACATAACTTAATTAATTAATATTATACATAAGTTACATAACTTAC
**
46417051 ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTAC
1 ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAACTTAC--AACTTAC
46417116 ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTAC
64 A-TAA-AT--TACATAAATTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTAC
* *
46417181 ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTAC
125 ATTAATATGATACATAAATTACATAACTTAATTAATTAATATTATACATAAGTTACATAACTTAC
*
46417246 ATTAATATGATACATAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACAACTTAC--
1 ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAACTTACAACTTACAT
* * * ** * * **
46417309 AACTTACATAACTTACATAACTTACATTTTTTTA-ATTATTCATAAATTACATAACTTA-ATTAG
66 AAATTACATAAATTACATAACTTA-GTTAATTAATATTATACATATGTTACATAACTTACATTA-
* *
46417372 TTAAT-ATACATAAATTACATAACTTAATTAATTAATTAATATTATACATAAATTACATAACTTA
129 AT-ATGATACATAAATTACATAAC----TTAATTAATTAATATTATACATAAGTTACATAACTTA
*
46417436 GTTA
189 ---C
* *
46417440 ATTAATATTATACATAACTTACA
1 ATTAATATGATACATAAATTACA
46417463 ACTTACATAA
Statistics
Matches: 548, Mismatches: 34, Indels: 39
0.88 0.05 0.06
Matches are distributed among these distances:
183 51 0.09
185 8 0.01
186 7 0.01
187 60 0.11
188 7 0.01
189 4 0.01
190 4 0.01
191 56 0.10
192 49 0.09
193 10 0.02
194 22 0.04
195 270 0.49
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (189 bp):
ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAACTTACAACTTACAT
AAATTACATAAATTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTACATTAAT
ATGATACATAAATTACATAACTTAATTAATTAATATTATACATAAGTTACATAACTTAC
Found at i:46417277 original size:65 final size:65
Alignment explanation
Indices: 46416782--46417462 Score: 967
Period size: 65 Copynumber: 10.5 Consensus size: 65
46416772 TATTCGATTA
* * * *
46416782 TACATAACTTACATTAAAATTATACATAAATTACATAACTTAATTAATT-A-A-TATACATAAGT
1 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
46416844 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
1 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
46416909 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
1 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
46416974 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
1 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
46417039 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
1 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
46417104 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
1 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
46417169 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
1 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
* **
46417234 TACATAACTTACATTAATATGATACATAAATTACATAAGTTAGTTAATTAATATTATACATAACT
1 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
* * * ** * * **
46417299 TAC--AACTTAC---AA-CT--TACATAACTTACATAACTTACATTTTTTTA-ATTATTCATAAA
1 TACATAACTTACATTAATATGATACATAAATTACATAACTTA-GTTAATTAATATTATACATATG
46417355 T
65 T
* *
46417356 TACATAACTTA-ATTAGTTAAT-ATACATAAATTACATAACTTAATTAATTAATTAATATTATAC
1 TACATAACTTACATTA-AT-ATGATACATAAATTACATAAC----TTAGTTAATTAATATTATAC
**
46417419 ATAAAT
60 ATATGT
* * *
46417425 TACATAACTTAGTTAATTAATATTATACATAACTTACA
1 TACATAACTTA---CATTAATATGATACATAAATTACA
46417463 ACTTACATAA
Statistics
Matches: 571, Mismatches: 25, Indels: 36
0.90 0.04 0.06
Matches are distributed among these distances:
57 32 0.06
58 5 0.01
59 7 0.01
60 2 0.00
61 1 0.00
62 46 0.08
63 8 0.01
64 2 0.00
65 416 0.73
68 6 0.01
69 26 0.05
71 2 0.00
72 14 0.02
73 4 0.01
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (65 bp):
TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
Found at i:46417471 original size:16 final size:16
Alignment explanation
Indices: 46417450--46417596 Score: 93
Period size: 16 Copynumber: 8.8 Consensus size: 16
46417440 ATTAATATTA
46417450 TACATAACTTACAACT
1 TACATAACTTACAACT
*
46417466 TACATAACTTACAAAT
1 TACATAACTTACAACT
46417482 TACATAACTTACAA-T
1 TACATAACTTACAACT
*** *
46417497 TTTTTAA-TTATTCGTAAAT
1 TACATAACTTA--C--AACT
*
46417516 TACATAACTTACTTAATT
1 TACATAACTTAC--AACT
* * *
46417534 TTCATAA-TAAATAACT
1 TACATAACT-TACAACT
46417550 TACATAACTTACAACT
1 TACATAACTTACAACT
* *
46417566 TACATAACTTATACGACA
1 TACATAAC-T-TACAACT
46417584 TACATAACTTACA
1 TACATAACTTACA
46417597 TAGCATAATT
Statistics
Matches: 102, Mismatches: 19, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
14 3 0.03
15 5 0.05
16 55 0.54
17 4 0.04
18 27 0.26
19 5 0.05
20 3 0.03
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:46417478 original size:25 final size:24
Alignment explanation
Indices: 46417450--46417576 Score: 64
Period size: 25 Copynumber: 5.1 Consensus size: 24
46417440 ATTAATATTA
46417450 TACATAACTTACAACTTACATAACT
1 TACATAA-TTACAACTTACATAACT
***
46417475 TACA-AATTACATAACTTACAATTTTT
1 TACATAATTAC--AACTTAC-ATAACT
* *
46417501 TA-ATTATT-CGTAAATTACATAACT
1 TACATAATTAC--AACTTACATAACT
* * * *
46417525 TACTTAATTTTCATA-ATAAATAACT
1 TACATAA-TTACA-ACTTACATAACT
46417550 TACATAACTTACAACTTACATAACT
1 TACATAA-TTACAACTTACATAACT
46417575 TA
1 TA
46417577 TACGACATAC
Statistics
Matches: 75, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
23 4 0.05
24 8 0.11
25 51 0.68
26 11 0.15
27 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.01, T:0.39
Consensus pattern (24 bp):
TACATAATTACAACTTACATAACT
Found at i:46417588 original size:34 final size:32
Alignment explanation
Indices: 46417449--46417596 Score: 95
Period size: 34 Copynumber: 4.4 Consensus size: 32
46417439 AATTAATATT
*
46417449 ATACATAACTTACAACTTACATAACT-TACAA
1 ATACATAACTTACAACTTACATAATTATACAA
*** *
46417480 ATTACATAACTTACAA-TTTTTTAATTATTCGTAA
1 A-TACATAACTTACAACTTACATAATTATAC--AA
* * * *
46417514 ATTACATAACTTACTTAATTTTCATAATAAATA-AC
1 A-TACATAACTTAC--AACTTACATAAT-TATACAA
* *
46417549 TTACATAACTTACAACTTACATAACTTATACGAC
1 ATACATAACTTACAACTTACATAA-TTATAC-AA
46417583 ATACATAACTTACA
1 ATACATAACTTACA
46417597 TAGCATAATT
Statistics
Matches: 91, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
31 7 0.08
32 28 0.31
33 1 0.01
34 43 0.47
35 1 0.01
36 2 0.02
37 7 0.08
38 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.36
Consensus pattern (32 bp):
ATACATAACTTACAACTTACATAATTATACAA
Found at i:46417645 original size:16 final size:16
Alignment explanation
Indices: 46417634--46417666 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46417624 ACATAATTTT
46417634 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
46417650 CATAATACATAACTTA
1 CATAATAAATAACTTA
46417666 C
1 C
46417667 GTAGCTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:46420996 original size:66 final size:65
Alignment explanation
Indices: 46420889--46421059 Score: 220
Period size: 66 Copynumber: 2.6 Consensus size: 65
46420879 GAGCAAATTA
* * *
46420889 CACAACTTAAAGCAGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCAA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCAA
46420953 G
65 G
* *
46420954 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCAA
46421019 G
65 G
* * *
46421020 CAGCAGCTTAAAGCAGATG-AGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCA-GCAGCGAGAGAAGCTGAGG
46421060 CCGCAGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
65 3 0.03
66 85 0.91
67 5 0.05
ACGTcount: A:0.43, C:0.18, G:0.27, T:0.12
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCAAG
Found at i:46421065 original size:21 final size:21
Alignment explanation
Indices: 46421041--46421142 Score: 114
Period size: 21 Copynumber: 4.9 Consensus size: 21
46421031 AGCAGATGAG
* * *
46421041 GCAGCAAGAGAAGCAGAGGCC
1 GCAGCGAGGGAAGCAGAGGCT
* * * *
46421062 GCAGCGAGAGAAGTATAGGAT
1 GCAGCGAGGGAAGCAGAGGCT
*
46421083 GCAGCGAGGGAAGCAGAAGCT
1 GCAGCGAGGGAAGCAGAGGCT
**
46421104 AAAGCGAGGGAAGCAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
46421125 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGGGAAGCAGAG
46421143 CAGTGTCAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.36, C:0.17, G:0.42, T:0.05
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGGCT
Found at i:46421541 original size:43 final size:43
Alignment explanation
Indices: 46421494--46421714 Score: 221
Period size: 43 Copynumber: 5.1 Consensus size: 43
46421484 AGGTGTTGGC
* *
46421494 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* ** * **
46421537 CTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATAGT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
*
46421580 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * ** * ** *
46421623 CTATT-GAGGCGTTTGAGGGGAAAGCGCCGCTAAAGACCTTGAT
1 CT-TTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * * *
46421666 CTTTAGTGGCGTTTTTGG-GAGAAGCGCCACTAAAGATAAGGGT
1 CTTTAGTGGCGTTTGTGGTCA-AAGCGCCGCTAAAGATCAGGGT
46421709 CTTTAG
1 CTTTAG
46421715 CGGTGCTTCC
Statistics
Matches: 142, Mismatches: 33, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
42 4 0.03
43 136 0.96
44 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (43 bp):
CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:46421599 original size:86 final size:86
Alignment explanation
Indices: 46421494--46421717 Score: 292
Period size: 86 Copynumber: 2.6 Consensus size: 86
46421484 AGGTGTTGGC
*
46421494 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGAGGAAAA
46421559 AGCGCCACTAAAGATCATAG-T
66 AGCGCCACTAAAGA-CATAGAT
* * * * **
46421580 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GAGGCGTTTGAGGGGA
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCGTTTGAGGAAA
* * *
46421644 AAGCGCCGCTAAAGACCTTGAT
65 AAGCGCCACTAAAGACATAGAT
* *
46421666 CTTTAGTGGCGTTTTTGG-GAGAAGCGCCACTAAAGATAAGGGTCTTTAGCGG
1 CTTTAGTGGCGTTTTTGGTCA-AAGCGCCGCTAAAGATAAGGGTCTTTAGCGG
46421718 TGCTTCCACT
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
85 6 0.05
86 110 0.93
87 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (86 bp):
CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGAGGAAAA
AGCGCCACTAAAGACATAGAT
Found at i:46422062 original size:27 final size:27
Alignment explanation
Indices: 46422032--46422099 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
46422022 AATATATATG
*
46422032 TACATATTATAAAA-ATGTATAAACATA
1 TACATATTATAAAACATG-AGAAACATA
* *
46422059 TACAAATTATAAAACATGGGAAACATA
1 TACATATTATAAAACATGAGAAACATA
* *
46422086 TAAATGTTATAAAA
1 TACATATTATAAAA
46422100 TATAAATGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 31 0.91
28 3 0.09
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (27 bp):
TACATATTATAAAACATGAGAAACATA
Found at i:46422118 original size:16 final size:16
Alignment explanation
Indices: 46422080--46422119 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
46422070 AAACATGGGA
46422080 AACATATAAATGTTAT
1 AACATATAAATGTTAT
*
46422096 AAAATATAAATG-TAT
1 AACATATAAATGTTAT
46422111 ATACATATA
1 A-ACATATA
46422120 TATAAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (16 bp):
AACATATAAATGTTAT
Found at i:46422244 original size:3 final size:3
Alignment explanation
Indices: 46422236--46422274 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
46422226 ATATGTAAGT
* *
46422236 ATA ATA ATA AT- ATA ATA ATG ATA ATA ATA ATA ATT ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
46422275 CCACTATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:46423760 original size:100 final size:100
Alignment explanation
Indices: 46423575--46424134 Score: 804
Period size: 100 Copynumber: 5.6 Consensus size: 100
46423565 CTCAAGTCCA
*
46423575 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGCTGTGGCTTCAATCTTTTTAATTGCGCTGTC
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
* *
46423640 GGAGAAACCAGATCCACCGTTATGACTTCAATCTG
66 GGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* *
46423675 CTACACTGCACCGCCAGGGAAGTAAGAT-TCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGT
1 CTCCACTGCACCACCAGGGAAGTAAGATCT-GCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGT
* * *
46423739 CGAAGAAATCAAATCCGCCGTTGTGACTTCAATCTG
65 CGGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* *
46423775 CTCCACTACACCACCAGGGAAGTAAGATCTGCTGTTGTGGCTTCAAAAAT-TTTTTAATTGCGCT
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTC---AATCTTTTTAATTGCGCT
*
46423839 ATC-GAGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
63 GTCGGA-GAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * * *
46423877 CTCCACTGCACCACCAAGGAAGTAAGATCTGCTGTTGTGGCTTCAAACTTTTAAATTGCGCTGTC
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
* *
46423942 GGAGAAACCAGATCCGCCGTTATGACTTTAATCTG
66 GGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * ***
46423977 CT-CACTGCACCGCCAGGGAAGTAAGATCCGTTATTGTGGCTTCAATCTTTTTAATTGCGCTGTC
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
*
46424041 GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
66 GGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* ** *
46424076 CTCCACTACACTGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGC
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGC
46424135 AATGCCAAAG
Statistics
Matches: 413, Mismatches: 38, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
99 92 0.22
100 226 0.55
101 4 0.01
102 88 0.21
103 3 0.01
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.29
Consensus pattern (100 bp):
CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
GGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
Found at i:46424141 original size:50 final size:50
Alignment explanation
Indices: 46423588--46424141 Score: 260
Period size: 50 Copynumber: 11.1 Consensus size: 50
46423578 CACTGCACCA
* * *
46423588 CCAGGGAAGTAAGATCTGCCGCTGTGGCTTCAATCTTTTTAATTGCGCTG
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
* *** * * * ** * *
46423638 TC-GGAGAAACCAGATCCACCGTTATGACTTCAATC-TGCTACACTGCACCG
1 CCAGG-GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA-ATTGCACTG
* *
46423688 CCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTG
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
* * * * ** ** * * **
46423738 TC-GAAGAAATCAA-ATCCGCCGTTGTGACTTCAATCTGCTCCACTACACCA
1 CCAG-GGAAGT-AAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
* * * *
46423788 CCAGGGAAGTAAGATCTGCTGTTGTGGCTTCAAAAAT-TTTTTAATTGCGCTA
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTC---AATCTTTTTAATTGCACTG
* *** * ** ** * **
46423840 TC-GAGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCA
1 CCAG-GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
* * * * * *
46423890 CCAAGGAAGTAAGATCTGCTGTTGTGGCTTCAAACTTTTAAATTGCGCTG
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
* *** * * * ** * * *
46423940 TC-GGAGAAACCAGATCCGCCGTTATGACTTTAATC-TGCTCACTGCACCG
1 CCAGG-GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
*** *
46423989 CCAGGGAAGTAAGATCCGTTATTGTGGCTTCAATCTTTTTAATTGCGCTG
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
* * *** * ** ** * *
46424039 TCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTACACTG
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
*
46424089 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATG
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
46424139 CCA
1 CCA
46424142 AAGAGATAAG
Statistics
Matches: 338, Mismatches: 149, Indels: 34
0.65 0.29 0.07
Matches are distributed among these distances:
49 41 0.12
50 256 0.76
51 9 0.03
52 29 0.09
53 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (50 bp):
CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
Found at i:46425560 original size:7 final size:7
Alignment explanation
Indices: 46425542--46425591 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
46425532 TAGCCTCTCC
*
46425542 TTTTTTA
1 TTTTTCA
46425549 TTTTTCCA
1 TTTTT-CA
46425557 TTTTTCA
1 TTTTTCA
46425564 TTTTTCA
1 TTTTTCA
*
46425571 TTTTT-T
1 TTTTTCA
46425577 TATTTTCA
1 T-TTTTCA
46425585 TTTTTCA
1 TTTTTCA
46425592 CATCTTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
6 1 0.03
7 29 0.78
8 7 0.19
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:46432063 original size:26 final size:25
Alignment explanation
Indices: 46432033--46432082 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
46432023 ACACCATTTA
*
46432033 TTTCTCCTTTCATCTTCCTCTTTTTT
1 TTTCTCCTTTCATCCTCC-CTTTTTT
*
46432059 TTTCTCCTTTCTTCCTCCCTTTTT
1 TTTCTCCTTTCATCCTCCCTTTTT
46432083 CTCTTATCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTCTCCTTTCATCCTCCCTTTTTT
Found at i:46433101 original size:22 final size:22
Alignment explanation
Indices: 46433032--46433107 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 22
46433022 GGAGGAAGTG
*
46433032 CTACTGGCGGTTTATTCGCATAT
1 CTACTGGCGG-TTATTTGCATAT
* * * * *
46433055 CTACTGGAAGTTTATCTACAAAT
1 CTACTGG-CGGTTATTTGCATAT
*
46433078 CTGCTGGCGGTTATTTGCATAT
1 CTACTGGCGGTTATTTGCATAT
46433100 CTACTGGC
1 CTACTGGC
46433108 AGTATATCCA
Statistics
Matches: 39, Mismatches: 13, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
22 17 0.44
23 21 0.54
24 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (22 bp):
CTACTGGCGGTTATTTGCATAT
Found at i:46434191 original size:100 final size:97
Alignment explanation
Indices: 46434079--46434362 Score: 292
Period size: 100 Copynumber: 2.9 Consensus size: 97
46434069 TAAAATATTT
46434079 CTTTTAACATAATGATATATAAAAATATATATTTCCATTATATAATTACATATTTATTATTTTAT
1 CTTTTAACATAATGATATATAAAAATATATATTT-CATTATATAATTACATATTTATTATTTTAT
**
46434144 TTATATAAATAATGGAAG-TATTAATTTTAAAAATA
65 TTATATAAATAAAAG-AGTTATTAA-TTT-AAAATA
* * * * *
46434179 TTTTTGACATAATGATATATATAAAATGTACATTTTATTATATAATTAC--ATTT-TTA--TTAT
1 CTTTTAACATAATGATATATA-AAAATATATATTTCATTATATAATTACATATTTATTATTTTAT
*
46434239 TTTTATAAATAAAAGAGTTATTAATTTAAAATA
65 TTATATAAATAAAAGAGTTATTAATTTAAAATA
* * * * *
46434272 CATTTAACATAATGATTTATGTAAATATATATATATTTTGATTATATAAGTACATGTTTATTATT
1 CTTTTAACATAATGA--TATATAAA-A-ATATATA-TTTCATTATATAATTACATATTTATTATT
* * *
46434337 TTGTTTATATAAATAAATGATTTATT
61 TTATTTATATAAATAAAAGAGTTATT
46434363 GTAACACCCC
Statistics
Matches: 151, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
93 18 0.12
94 7 0.05
95 28 0.19
96 5 0.03
97 18 0.12
98 4 0.03
99 3 0.02
100 35 0.23
101 11 0.07
102 22 0.15
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (97 bp):
CTTTTAACATAATGATATATAAAAATATATATTTCATTATATAATTACATATTTATTATTTTATT
TATATAAATAAAAGAGTTATTAATTTAAAATA
Found at i:46434344 original size:28 final size:29
Alignment explanation
Indices: 46434305--46434362 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
46434295 AATATATATA
* *
46434305 TATTTTGATTATATAAGTACATG-TTTAT
1 TATTTTGATTATATAAATAAATGATTTAT
*
46434333 TATTTTGTTTATATAAATAAATGATTTAT
1 TATTTTGATTATATAAATAAATGATTTAT
46434362 T
1 T
46434363 GTAACACCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (29 bp):
TATTTTGATTATATAAATAAATGATTTAT
Found at i:46446574 original size:15 final size:17
Alignment explanation
Indices: 46446534--46446575 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
46446524 TGTAATAATT
*
46446534 AAATATTGTTGGTGTAG
1 AAATATTATTGGTGTAG
*
46446551 AAATCTTATTGGT-TA-
1 AAATATTATTGGTGTAG
46446566 AAATATTATT
1 AAATATTATT
46446576 ATACTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 2 0.09
17 11 0.50
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (17 bp):
AAATATTATTGGTGTAG
Found at i:46449515 original size:8 final size:8
Alignment explanation
Indices: 46449502--46449526 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46449492 GGGATGCATT
46449502 GAAGTTGA
1 GAAGTTGA
46449510 GAAGTTGA
1 GAAGTTGA
46449518 GAAGTTGA
1 GAAGTTGA
46449526 G
1 G
46449527 CTTGGTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.24
Consensus pattern (8 bp):
GAAGTTGA
Found at i:46462307 original size:97 final size:97
Alignment explanation
Indices: 46462141--46462337 Score: 349
Period size: 97 Copynumber: 2.0 Consensus size: 97
46462131 ATTCGCAAAA
*
46462141 CAACTAACAAGCAAAGACATCCTAGATACATGCCATTACAAAATTAAACATCACCACACTTGAGA
1 CAACTAACAAGCAAAGACATCCTAGATACATGCCATTAAAAAATTAAACATCACCACACTTGAGA
*
46462206 TCGAGATCGTCGTTGGATGCTGAGTCGGTGAC
66 TCGAGATAGTCGTTGGATGCTGAGTCGGTGAC
*
46462238 CAACTAACAAGCAAAGACATCCTAGGTACATGCCATTAAAAAATTAAACATCACCACACTTGAGA
1 CAACTAACAAGCAAAGACATCCTAGATACATGCCATTAAAAAATTAAACATCACCACACTTGAGA
**
46462303 TCGAGATAGTCGTTGGATGCTGAGTTTGTGAC
66 TCGAGATAGTCGTTGGATGCTGAGTCGGTGAC
46462335 CAA
1 CAA
46462338 AAGAGAGCAC
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (97 bp):
CAACTAACAAGCAAAGACATCCTAGATACATGCCATTAAAAAATTAAACATCACCACACTTGAGA
TCGAGATAGTCGTTGGATGCTGAGTCGGTGAC
Found at i:46463115 original size:75 final size:73
Alignment explanation
Indices: 46462986--46463236 Score: 309
Period size: 74 Copynumber: 3.4 Consensus size: 73
46462976 CTGATGGAAG
* * * *
46462986 TTGCGCCCAATGCTAATTGGATAAATCGATG-AATAATTAGTGAGCCCAGCTCTAGTTGGATAAA
1 TTGCGCCCAGTGCTAGTCGGATAAA-CGACGAAATAATTAGT-AGCCCAGCTCTAGTTGGATAAA
46463050 CCAATGATAT
64 CCAATGATAT
* *
46463060 TTGCGCCCACTACTAGTCGGATAAACAGACGAAATAATTAGTAAGCCCAGCTCTAGTTGGATAAA
1 TTGCGCCCAGTGCTAGTCGGATAAAC-GACGAAATAATTAGT-AGCCCAGCTCTAGTTGGATAAA
*
46463125 CCAACGATAT
64 CCAATGATAT
*
46463135 TAT--GCCCAGTGCTAGTCGGATAAATCGATGAAATAATTAGTA----AGCTCTAGTTGGATAAA
1 T-TGCGCCCAGTGCTAGTCGGATAAA-CGACGAAATAATTAGTAGCCCAGCTCTAGTTGGATAAA
46463194 CCAATGATAT
64 CCAATGATAT
*
46463204 TTGCGCCCAGTGCTAGTCGGATAAGCCGACGAA
1 TTGCGCCCAGTGCTAGTCGGATAA-ACGACGAA
46463237 TGTGTGTCCG
Statistics
Matches: 157, Mismatches: 13, Indels: 18
0.84 0.07 0.10
Matches are distributed among these distances:
68 1 0.01
69 27 0.17
70 26 0.17
73 2 0.01
74 57 0.36
75 43 0.27
76 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (73 bp):
TTGCGCCCAGTGCTAGTCGGATAAACGACGAAATAATTAGTAGCCCAGCTCTAGTTGGATAAACC
AATGATAT
Found at i:46463122 original size:40 final size:40
Alignment explanation
Indices: 46463016--46463179 Score: 113
Period size: 34 Copynumber: 4.4 Consensus size: 40
46463006 ATAAATCGAT
* * *
46463016 GAATAATTAGTGAGCCCAGCT-CTAGTTGGATAAACCAAT
1 GAATAATTAGTAAGCCCAGCTACTAGTCGGATAAACCAAC
**
46463055 G-AT-ATT--TGCGCCCA-CTACTAGTCGGATAAA-CAGAC
1 GAATAATTAGTAAGCCCAGCTACTAGTCGGATAAACCA-AC
*
46463090 GAAATAATTAGTAAGCCCAGCT-CTAGTTGGATAAACCAAC
1 G-AATAATTAGTAAGCCCAGCTACTAGTCGGATAAACCAAC
* * * *
46463130 G-AT-ATTA-T--GCCCAG-TGCTAGTCGGATAAATCGAT
1 GAATAATTAGTAAGCCCAGCTACTAGTCGGATAAACCAAC
46463164 GAAATAATTAGTAAGC
1 G-AATAATTAGTAAGC
46463180 TCTAGTTGGA
Statistics
Matches: 99, Mismatches: 10, Indels: 31
0.71 0.07 0.22
Matches are distributed among these distances:
33 1 0.01
34 25 0.25
35 21 0.21
36 3 0.03
37 13 0.13
38 8 0.08
39 1 0.01
40 23 0.23
41 4 0.04
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (40 bp):
GAATAATTAGTAAGCCCAGCTACTAGTCGGATAAACCAAC
Found at i:46463220 original size:35 final size:35
Alignment explanation
Indices: 46463002--46463227 Score: 108
Period size: 35 Copynumber: 6.2 Consensus size: 35
46462992 CCAATGCTAA
* *
46463002 TTGGATAAATCGATGAATAATTAGTGAGCCCAGCTCTAG
1 TTGGATAAACCAATGAAT-ATT--TGAGCCCAG-TCTAG
* *
46463041 TTGGATAAACCAATG-ATATTTGCGCCCACTACTAG
1 TTGGATAAACCAATGAATATTTGAGCCCAGT-CTAG
* * *
46463076 TCGGATAAA-CAGACGAAATAATTAGTAAGCCCAGCTCTAG
1 TTGGATAAACCA-ATG-AAT-ATT--TGAGCCCAG-TCTAG
*
46463116 TTGGATAAACCAACG-ATA-TT-ATGCCCAGTGCTAG
1 TTGGATAAACCAATGAATATTTGA-GCCCAGT-CTAG
* * * * **
46463150 TCGGATAAATCGATGAAATAATT-AG-TAAGCTCTAG
1 TTGGATAAACCAATG-AATATTTGAGCCCAG-TCTAG
*
46463185 TTGGATAAACCAATG-ATATTTGCGCCCAGTGCTAG
1 TTGGATAAACCAATGAATATTTGAGCCCAGT-CTAG
*
46463220 TCGGATAA
1 TTGGATAA
46463228 GCCGACGAAT
Statistics
Matches: 145, Mismatches: 24, Indels: 40
0.69 0.11 0.19
Matches are distributed among these distances:
33 7 0.05
34 27 0.19
35 52 0.36
36 6 0.04
37 9 0.06
38 7 0.05
39 13 0.09
40 21 0.14
41 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (35 bp):
TTGGATAAACCAATGAATATTTGAGCCCAGTCTAG
Found at i:46464749 original size:30 final size:31
Alignment explanation
Indices: 46464710--46464769 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
46464700 GGAGGTGGGA
46464710 TGGGAAGGGAATAAAAATTTTAG-GGGAAAAG
1 TGGGAAGGGAATAAAAATTTT-GTGGGAAAAG
*
46464741 TGGG-AGGGAGTAAAAATTTTGTGGGAAAA
1 TGGGAAGGGAATAAAAATTTTGTGGGAAAA
46464770 TAAAAGGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 22 0.81
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGTGGGAAAAG
Found at i:46464966 original size:9 final size:9
Alignment explanation
Indices: 46464952--46464976 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
46464942 TATAGTTTGA
46464952 TATTCGAAT
1 TATTCGAAT
46464961 TATTCGAAT
1 TATTCGAAT
46464970 TATTCGA
1 TATTCGA
46464977 GCTATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:46465488 original size:7 final size:7
Alignment explanation
Indices: 46465464--46465507 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
46465454 TAATTGTTAC
46465464 TATATAA
1 TATATAA
46465471 T-TA-ATA
1 TATATA-A
46465477 TATATAA
1 TATATAA
46465484 TATATAA
1 TATATAA
46465491 TATATAA
1 TATATAA
46465498 TATATAA
1 TATATAA
46465505 TAT
1 TAT
46465508 CCTTATAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 1 0.03
6 4 0.12
7 28 0.82
8 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TATATAA
Done.