Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold235
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: 1667838
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 72548 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:10029 original size:44 final size:44
Alignment explanation
Indices: 9981--10692 Score: 125
Period size: 44 Copynumber: 16.2 Consensus size: 44
9971 AAGATTATAG
*
9981 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* * ** *
10025 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGAT-TAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCGA
* * * * * * ** *
10067 AGCCTTGTCTCCCTGAGCAGTAGTGGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* * *
10111 GATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGATGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* * ** *
10156 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTG-AG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA-TCGAAGACGGCGA
* * * * ** * * * ** *
10199 AGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* * * *
10243 GATTTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGATGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* * ** *
10288 ATCTTATCTTTCC-AAG--GTAGTGGGAAGCAGATTTG-AG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA-TCGAAGACGGCGA
* * * * * * * ** *
10331 AGCCTTGTCTCCCTGAGCAGTAGTAGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* * *
10375 GATCTTATCTCCCTAAGCAGTTGTGGAGTAGATCGAAGATGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* * ** *
10420 ATCTTATCTTTCC-AAG--GTAGTGGGAAGCAGATTTG-AG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA-TCGAAGACGGCGA
* * * * * * ** *
10463 AGCCTTGTCTCCCTGAGCAGTAGTGGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* * *
10507 GATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* * ** *
10552 ATCTTATCTTTCC-AAG--GTAGTGGGAAGCAGATTTG-AG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA-TCGAAGACGGCGA
* * * * * * * ** *
10595 AGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* * *
10639 GATCTTATCTGCTTAAGCAGTAGTGGAGTAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
10684 ATCTTATCT
1 ATCTTATCT
10693 TTCCAGGATA
Statistics
Matches: 464, Mismatches: 145, Indels: 118
0.64 0.20 0.16
Matches are distributed among these distances:
42 29 0.06
43 63 0.14
44 313 0.67
45 43 0.09
46 16 0.03
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
Found at i:10258 original size:132 final size:132
Alignment explanation
Indices: 9931--10805 Score: 1473
Period size: 132 Copynumber: 6.6 Consensus size: 132
9921 ATAGGTGAAA
* *
9931 CACCAAGCCTTGTCTCCCTAAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
9996 GCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA-TTAA
66 GCAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGA
10060 GC
131 GC
*
10062 CACCAAGCCTTGTCTCCCTGAGCAGTAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
10127 GTAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGA
66 GCAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGA
10192 GC
131 GC
** *
10194 CACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTGAAGATTGTAGATTTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
10259 GAAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTTCCAAGGTAGTGGGAAGCAGATTTGA
66 GCAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGA
10324 GC
131 GC
* *
10326 CACCAAGCCTTGTCTCCCTGAGCAGTAGTAGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
10391 GCAGTTGTGGAGTAGATCGAAGATGGCGAATCTTATCTTTCCAAGGTAGTGGGAAGCAGATTTGA
66 GCAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGA
10456 GC
131 GC
*
10458 CACCAAGCCTTGTCTCCCTGAGCAGTAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
10523 GCAGTAGTGGAGTAGATCAAAGATGGCGAATCTTATCTTTCCAAGGTAGTGGGAAGCAGATTTGA
66 GCAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGA
10588 GC
131 GC
* *
10590 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTGCTTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
10655 GCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTTCCAGGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGA
10720 GC
131 GC
* * * *
10722 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGAAAGTTGAAGATTGTAGATCTTATTTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
10787 GCAGTAGTGGAGCAGATCG
66 GCAGTAGTGGAGTAGATCG
10806 CATCCAATCT
Statistics
Matches: 706, Mismatches: 37, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
131 118 0.17
132 588 0.83
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGA
GC
Found at i:15687 original size:9 final size:9
Alignment explanation
Indices: 15673--15712 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
15663 ATATTATTTT
15673 ATTTAATTA
1 ATTTAATTA
15682 ATTTAATTA
1 ATTTAATTA
**
15691 ATCAAATTA
1 ATTTAATTA
*
15700 AATTAATTA
1 ATTTAATTA
15709 ATTT
1 ATTT
15713 TCCAATTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (9 bp):
ATTTAATTA
Found at i:17763 original size:28 final size:28
Alignment explanation
Indices: 17714--17771 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
17704 CACAATGACT
17714 AATTAATTTAATTTAATTTTAA-AACTTC
1 AATTAATTTAATTTAATTTTAATAA-TTC
17742 AATTAA-TTAA-TTAATTAATTAATAATTC
1 AATTAATTTAATTTAATT--TTAATAATTC
17770 AA
1 AA
17772 AAAATCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
26 6 0.22
27 4 0.15
28 15 0.56
29 2 0.07
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (28 bp):
AATTAATTTAATTTAATTTTAATAATTC
Found at i:33309 original size:10 final size:10
Alignment explanation
Indices: 33271--33329 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
33261 ACAATGGAGG
33271 CAAAATAAAAA
1 CAAAA-AAAAA
33282 CAAAAACAAAAA
1 C-AAAA-AAAAA
* *
33294 CAAAAAAGAG
1 CAAAAAAAAA
33304 CAAAAAAAAA
1 CAAAAAAAAA
*
33314 CAAAAAACAA
1 CAAAAAAAAA
33324 -AAAAAA
1 CAAAAAA
33330 CTCTACCGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 6 0.15
10 20 0.49
11 5 0.12
12 10 0.24
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.02
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:34333 original size:108 final size:108
Alignment explanation
Indices: 34144--34340 Score: 299
Period size: 108 Copynumber: 1.8 Consensus size: 108
34134 TCTCATTTTG
*
34144 TAGCAAAATTTACTATCTTGATTAATTTTTTCATTTAGAGCTTTGCTCTCAATAAATTTCCATCT
1 TAGCAAAATTTACTATCTTGATTAATTTTTTCATTTAGAGCTTTGCTCTCAAAAAATTTCCATCT
34209 TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCT
66 TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCT
** * *
34252 TAGCAAAATTTGTTATCTTGATTGATTTATTT-GTTTAGAGCTTTGCTCTCAACAAAATTT-CAT
1 TAGCAAAATTTACTATCTTGATTAATTT-TTTCATTTAGAGCTTTGCTCTCAA-AAAATTTCCAT
* *
34315 CTTGTCCATTTTGATAATCTTTTTCA
64 CTTATCCATTGTGATAATCTTTTTCA
34341 AGCATTTTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
108 71 0.89
109 9 0.11
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (108 bp):
TAGCAAAATTTACTATCTTGATTAATTTTTTCATTTAGAGCTTTGCTCTCAAAAAATTTCCATCT
TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCT
Found at i:35300 original size:46 final size:46
Alignment explanation
Indices: 35232--36020 Score: 1047
Period size: 46 Copynumber: 17.2 Consensus size: 46
35222 GACTAGAAGC
35232 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
* * *
35278 TGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAAAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
* * * *
35324 TGTAGAACTTGTCTTCCTATATTTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
*
35370 TGCAGATCTTGTCTTCCTGTATTTGGCAGC-AGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGAT
* * *
35416 AGTAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGA-T
*
35463 A-TAGATCTTGTCTTCCTGTATTTGGCAGC-AGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGAT
* * * * *
35508 AGTAGATCTTGTCTTTCTGTATTTGGTAGTGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
** * *
35554 AATAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGGTCAAAGATT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGA-T
*
35601 A-CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
*
35646 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAA-TAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAG-CGAAGTAGATCGAAGAT
**
35692 AATAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTA-AGTCGAAGATT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGA-TCGAAGA-T
*
35739 A-CAGATCTTGTCTTCCTATATTTGGCAGC-AGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGAT
* * *
35784 AGCAGATCTTGTCTTCTTGTATTTGGCAGTGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
* * * *
35830 AGTAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGGTCAAAAATT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGA-T
* *
35877 A-CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
* * * * *
35922 AGTAGATCTTGTCTTCCTATATTTAGCAGCGGAGCAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
* *
35968 AGCAGGTCTTATCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
*
36014 TGCAGAT
1 AGCAGAT
36021 TCTGTCACCC
Statistics
Matches: 657, Mismatches: 68, Indels: 36
0.86 0.09 0.05
Matches are distributed among these distances:
45 14 0.02
46 632 0.96
47 11 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (46 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
Found at i:35485 original size:138 final size:138
Alignment explanation
Indices: 35232--36020 Score: 1161
Period size: 138 Copynumber: 5.7 Consensus size: 138
35222 GACTAGAAGC
* * *
35232 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTGCAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* * ** * *
35297 TATTTGGCAGCGGAGTAGATCGAAAATTGTAGAACTTGTCTTCCTATATTTGGCAGCGAAGTAGA
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGA
35362 TCGAAGAT
131 TCGAAGAT
* *
35370 TGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* * *
35435 TATTTGGCAGTGGAGTAGATCGAAGATTATAGATCTTGTCTTCCTGTATTTGGCAGC-AGAGTAG
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAG
35499 ATCGAAGAT
130 ATCGAAGAT
* * * * *
35508 AGTAGATCTTGTCTTTCTGTATTTGGTAGTGGAGTAGATCGAAGATAATAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* * *
35573 TATTTGGCAGCGAAGTAGGTCAAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGA
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGA
35638 TCGAAGAT
131 TCGAAGAT
* * *
35646 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAATAGATCGAAGATAATAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
*
35711 TATTTGGCAGCGAAGTA-AGTCGAAGATTACAGATCTTGTCTTCCTATATTTGGCAGC-AGAGTA
66 TATTTGGCAGCGAAGTAGA-TCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTA
35774 GATCGAAGAT
129 GATCGAAGAT
* *
35784 AGCAGATCTTGTCTTCTTGTATTTGGCAGTGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* * * *
35849 TATTTGGCAGCGAAGTAGGTCAAAAATTACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGA
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGA
*
35914 TCAAAGAT
131 TCGAAGAT
* * * * * * *
35922 AGTAGATCTTGTCTTCCTATATTTAGCAGCGGAGCAGATCGAAGATAGCAGGTCTTATCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
*
35987 TATTTGGCAGCGAAGTAGATCGAAGATTGCAGAT
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGAT
36021 TCTGTCACCC
Statistics
Matches: 592, Mismatches: 53, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
137 1 0.00
138 591 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (138 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGA
TCGAAGAT
Found at i:36374 original size:128 final size:128
Alignment explanation
Indices: 36234--36918 Score: 1084
Period size: 128 Copynumber: 5.3 Consensus size: 128
36224 TATTTAAGCC
* * *
36234 ATCAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCCAGATCTTATCTCTCTGAAG
1 ATCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCCCAGATCTTATCTCTCTAAAG
* *
36299 TTGCAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* * *
36362 ATCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAACCCCAGATCTTATCTCTCTGAAG
1 ATCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCCCAGATCTTATCTCTCTAAAG
*
36427 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAAAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* * * *
36490 ATCAATCCTATCTCTCTGAAGTTACAATAGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAG
1 ATCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCCCAGATCTTATCTCTCTAAAG
*
36555 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAACAGTAGTGGAGTAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
*
36618 ATCAATCCTATCTCCCTGAAGTTACAGTGGGGCGGATTAAAACCCCAGATCTTATCTCTCTAAAG
1 ATCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCCCAGATCTTATCTCTCTAAAG
* *
36683 TTGCAGTAGAGTAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* * *
36746 ATCAATCATATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTTAAG
1 ATCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCCCAGATCTTATCTCTCTAAAG
* * * ** * *
36811 TTACAGTAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AGAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT-AAGCAGTAGTGGAGTAGACGA-AAGAA
* *
36875 ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
1 ATCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACC
36919 ACGAATCTCG
Statistics
Matches: 518, Mismatches: 37, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
128 457 0.88
129 61 0.12
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (128 bp):
ATCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCCCAGATCTTATCTCTCTAAAG
TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
Found at i:36584 original size:41 final size:41
Alignment explanation
Indices: 36237--36866 Score: 188
Period size: 44 Copynumber: 14.8 Consensus size: 41
36227 TTAAGCCATC
* * * * * * *
36237 AGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCC
1 AGTCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TAAAA-TCA
* *** *
36280 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCT
1 AG-TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATAAAATCA
* * * *
36322 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-C-GAAAGAAATCA
1 AGTCTTATCTCTCTAA--AGT--TGCAGTAGAGCAGATA-AAATCA
* * * * * *
36366 A-TCCTATCT-TCCTGAAGTTGCAGTGGAGCGGATTAAAACCCC
1 AGTCTTATCTCT-CTAAAGTTGCAGTAGAGCAGA-TAAAA-TCA
* ***
36408 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCA
1 AG-TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATAAAATCA
* * *
36450 AGTCTTATCTCCCTAAGCAGTAGTGGAGTAGA-C-GAAAAAAATCA
1 AGTCTTATCTCTCTAA--AGT--TGCAGTAGAGCAG-ATAAAATCA
* * * * * *
36494 A-TCCTATCTCTCTGAAGTTACAATAGAGCGGATTAAAACCA
1 AGTCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TAAAATCA
***
36535 CAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCA
1 -AG-TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATAAAATCA
* * *
36578 AGTCTTATCTCCCTAAACAGTAGTGGAGTAGA-C-GAAAGAAATCA
1 AGTCTTATCTCTCT-AA-AGT--TGCAGTAGAGCAGATA-AAATCA
* * * * * * * * *
36622 A-TCCTATCTCCCTGAAGTTACAGTGGGGCGGATTAAAACCCC
1 AGTCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TAAAA-TCA
* *** *
36664 AGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCATCC
1 AG-TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATAAAATCA
* * *
36706 AGTCTTATCTCCCTAAGCAGTAGTGGAGTAGA-C-GAAAGAAATCA
1 AGTCTTATCTCTCTAA--AGT--TGCAGTAGAGCAGATA-AAATCA
* * * * * * *
36750 A-TCATATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCA
1 AGTCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TAAAATCA
* * * * *
36791 CAGATCTTATCTCTCTTAAGTTACAGTAGAGCAGATCACATCT
1 -AG-TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATAAAATCA
* * *
36834 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AGTCTTATCTCTCTAAAGTTGCAGTAGAGCAGA
36867 CAGAAGAAAC
Statistics
Matches: 426, Mismatches: 114, Indels: 96
0.67 0.18 0.15
Matches are distributed among these distances:
39 23 0.05
40 5 0.01
41 111 0.26
42 26 0.06
43 79 0.19
44 150 0.35
45 32 0.08
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (41 bp):
AGTCTTATCTCTCTAAAGTTGCAGTAGAGCAGATAAAATCA
Found at i:45410 original size:23 final size:22
Alignment explanation
Indices: 45367--45410 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
45357 CAATTTAATC
* *
45367 TATATTTTTCATTTTAATATTG
1 TATATTTTTAATATTAATATTG
*
45389 TATATATTTTAATATTATTATT
1 TATAT-TTTTAATATTAATATT
45411 AATTAATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TATATTTTTAATATTAATATTG
Found at i:53872 original size:33 final size:35
Alignment explanation
Indices: 53830--53895 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
53820 TGTCTCCTGC
53830 GGTTAGGGTTTTGG-GTTATT-GGATTAGGGTTAG
1 GGTTAGGGTTTTGGTGTTATTAGGATTAGGGTTAG
* *
53863 GGTTAGGGTTTTGGTGTTTTTAGGTTTAGGGTT
1 GGTTAGGGTTTTGGTGTTATTAGGATTAGGGTT
53896 TTAGAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 14 0.48
34 5 0.17
35 10 0.34
ACGTcount: A:0.12, C:0.00, G:0.41, T:0.47
Consensus pattern (35 bp):
GGTTAGGGTTTTGGTGTTATTAGGATTAGGGTTAG
Found at i:54211 original size:97 final size:94
Alignment explanation
Indices: 53996--54225 Score: 257
Period size: 95 Copynumber: 2.4 Consensus size: 94
53986 TGTTTATTAT
* * * * *
53996 TTTTTAAGAAAAAATCAATTAAATTAAGGTTTATGGTTTCTTGAGTAATTTAATTAAAAAAATTT
1 TTTTTAAG-AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAAATTT
54061 AAAAATCAAATTAGGGTTTAGAGTTAAGGG
65 AAAAATCAAATTAGGGTTTAGAGTTAAGGG
* * * **
54091 TTTTTATGGAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTTA-AGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAAATTT
* * *
54156 AAAAATTTTAGATTAGGGTTTA-AGGTTTAGGG
65 AAAAA--TCAAATTAGGGTTTAGA-GTTAAGGG
*
54188 -TTTTAAGTAAAAACTTAAATAAATTAGGGTTTAGGGTT
1 TTTTTAAG-AAAAA-TCAAATAAATTAGGGTTTAGGGTT
54226 TACGGTTACT
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
95 59 0.52
96 12 0.11
97 42 0.37
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.39
Consensus pattern (94 bp):
TTTTTAAGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAAATTTA
AAAATCAAATTAGGGTTTAGAGTTAAGGG
Found at i:54669 original size:125 final size:125
Alignment explanation
Indices: 54258--54674 Score: 613
Period size: 126 Copynumber: 3.3 Consensus size: 125
54248 TTGTTAATTT
* * * *
54258 AAAGAATCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAAATAATTTCGAGTAGA
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGCTCCTG-AAAAAATAATTTCGAGTTGA
*
54323 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGTAGTACTG
65 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTA-GATGCTTTGTCAGCAGAAGTACTG
* * * *
54385 AAAGAAGCTCCCACGTGGTCGCGCTTTTGCTATAGTAGCTCCTGAAAAAATAATTTTGAGTTGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCGAGTTGAC
* * * * *
54450 GTTTCTGAGCAAATATTGTCAAAAACGTTTTAAGCAG-GGCACTTTGTCAGCA-ATAGTACTA
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGATG--CTTTGTCAGCAGA-AGTACTG
*
54511 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGCTCTTGAAAAAATAATTTCGAGTTGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCGAGTTGAC
* * *
54576 GTTTCTAAGAAAATAGTGTCAAAAACGCTTTAAGTAGATGCTTTGTTAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGATGCTTTGTCAGCAGAAGTACTG
54636 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGC
54675 GCATGTTTGG
Statistics
Matches: 260, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
124 1 0.00
125 56 0.22
126 162 0.62
127 41 0.16
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (125 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGATGCTTTGTCAGCAGAAGTACTG
Found at i:67698 original size:54 final size:55
Alignment explanation
Indices: 67582--67799 Score: 258
Period size: 55 Copynumber: 4.0 Consensus size: 55
67572 GGAACAATTA
* * ** * ** *
67582 ATTTAAATATATAAACAATCAATTTAAAAGAAGTAGTATTCCAACACAACAATTG
1 ATTTAAACATATAAACAATCAATTCAAAAGAAACAATATTCCAACATGACAATCG
* * *
67637 ATTTAAACATGTAAACAATCTATTCAAAAG-AACAATATTCCAACATGATAATCG
1 ATTTAAACATATAAACAATCAATTCAAAAGAAACAATATTCCAACATGACAATCG
* *
67691 ATTTAAACATATAAACAATCAATTCAAAAGAAACAGTATTCTAACATGACAATCG
1 ATTTAAACATATAAACAATCAATTCAAAAGAAACAATATTCCAACATGACAATCG
* * * * * *
67746 GTTTAAACATAAAAATAATCGATTCAAAAGAAATAATATTCCAGCATGACAATC
1 ATTTAAACATATAAACAATCAATTCAAAAGAAACAATATTCCAACATGACAATC
67800 AATTAAGTGC
Statistics
Matches: 138, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
54 45 0.33
55 93 0.67
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (55 bp):
ATTTAAACATATAAACAATCAATTCAAAAGAAACAATATTCCAACATGACAATCG
Found at i:67773 original size:109 final size:110
Alignment explanation
Indices: 67582--67799 Score: 285
Period size: 109 Copynumber: 2.0 Consensus size: 110
67572 GGAACAATTA
* * ** *
67582 ATTTAAATATATAAACAATCAATTTAAAAGAAGTAGTATTCCAACACAACAATTGATTTAAACAT
1 ATTTAAACATATAAACAATCAATTCAAAAGAAACAGTATTCCAACACAACAATCGATTTAAACAT
** * *
67647 GTAAACAATCTATTCAAAAG-AACAATATTCCAACATGATAATCG
66 AAAAACAATCGATTCAAAAGAAACAATATTCCAACATGACAATCG
* ** *
67691 ATTTAAACATATAAACAATCAATTCAAAAGAAACAGTATTCTAACATGACAATCGGTTTAAACAT
1 ATTTAAACATATAAACAATCAATTCAAAAGAAACAGTATTCCAACACAACAATCGATTTAAACAT
* * *
67756 AAAAATAATCGATTCAAAAGAAATAATATTCCAGCATGACAATC
66 AAAAACAATCGATTCAAAAGAAACAATATTCCAACATGACAATC
67800 AATTAAGTGC
Statistics
Matches: 92, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
109 72 0.78
110 20 0.22
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (110 bp):
ATTTAAACATATAAACAATCAATTCAAAAGAAACAGTATTCCAACACAACAATCGATTTAAACAT
AAAAACAATCGATTCAAAAGAAACAATATTCCAACATGACAATCG
Found at i:82608 original size:28 final size:26
Alignment explanation
Indices: 82574--82633 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
82564 ATCATTACTT
*
82574 TTTCAAT-ACAGAAATTTTAATCCAATCA
1 TTTCAATGA-AGAAAGTTTAAT-CAA-CA
*
82602 TTTCAATGAAGACAGTTTAATCAACA
1 TTTCAATGAAGAAAGTTTAATCAACA
82628 TTTCAA
1 TTTCAA
82634 ATATATGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.28
27 3 0.10
28 17 0.59
29 1 0.03
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (26 bp):
TTTCAATGAAGAAAGTTTAATCAACA
Found at i:84653 original size:12 final size:11
Alignment explanation
Indices: 84629--84663 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
84619 TTTCAACAAG
84629 TTTTCC-TTCA
1 TTTTCCTTTCA
84639 TTTTCCTTGTCA
1 TTTTCCTT-TCA
84651 TTTTCCTTTCA
1 TTTTCCTTTCA
84662 TT
1 TT
84664 GTCTGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 6 0.26
12 11 0.48
ACGTcount: A:0.09, C:0.26, G:0.03, T:0.63
Consensus pattern (11 bp):
TTTTCCTTTCA
Found at i:85566 original size:70 final size:70
Alignment explanation
Indices: 85478--85616 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 70
85468 GGGGCAGCTC
* *
85478 CAAATGTCTCTGATGCATATACCATCAATGCTCAACCTGGTGCTCTCTATAAATGCTCCTCCAAA
1 CAAATGTCTCTGATGCATATACCATCAATGCTCAACCTGGTGATCTCTACAAATGCTCCTCCAAA
85543 GGTAT
66 GGTAT
85548 CAAATGTCTCTGATGCATATACCATCAATGCTCAACCTGGTGATCTCTACAAATGCTCCTCCAAA
1 CAAATGTCTCTGATGCATATACCATCAATGCTCAACCTGGTGATCTCTACAAATGCTCCTCCAAA
85613 GGTA
66 GGTA
85617 ATTTGATCCG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (70 bp):
CAAATGTCTCTGATGCATATACCATCAATGCTCAACCTGGTGATCTCTACAAATGCTCCTCCAAA
GGTAT
Found at i:87332 original size:15 final size:15
Alignment explanation
Indices: 87285--87332 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
87275 AGGAGTTAAA
87285 AAAAAACATAAAATG
1 AAAAAACATAAAATG
*** *
87300 AAAAATTTTAAAA-A
1 AAAAAACATAAAATG
87314 AAAAAACATAAAATG
1 AAAAAACATAAAATG
87329 AAAA
1 AAAA
87333 GTATAGATTC
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (15 bp):
AAAAAACATAAAATG
Found at i:104686 original size:19 final size:21
Alignment explanation
Indices: 104648--104686 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
104638 CCTTTTTTAA
*
104648 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
104669 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
104687 AAAGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:104886 original size:22 final size:21
Alignment explanation
Indices: 104861--104940 Score: 96
Period size: 19 Copynumber: 3.9 Consensus size: 21
104851 TACAAATTAA
* *
104861 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTGC-ATATCAT
104883 ATCTTCTAAGATTGCATATCAT
1 ATC-TCTAAGATTGCATATCAT
104905 ATC-C-AAGATTGCATATCAT
1 ATCTCTAAGATTGCATATCAT
104924 A--TCTAAGATTGCATATC
1 ATCTCTAAGATTGCATATC
104941 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.02
19 29 0.55
20 1 0.02
22 12 0.23
23 10 0.19
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCTAAGATTGCATATCAT
Found at i:105198 original size:44 final size:44
Alignment explanation
Indices: 105145--105229 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 44
105135 AGGAATTCGT
105145 GCTTCAATCTACTCCACTGCAACTTC-AGAGAGATAAGACTTATA
1 GCTTCAATCTACTCCACTGCAACTTCAAGAG-GATAAGACTTATA
* *
105189 GCTTTAATCTGCTCCACTGCAACTTCAAGAGGATAAGACTT
1 GCTTCAATCTACTCCACTGCAACTTCAAGAGGATAAGACTT
105230 GCTGGCTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 34 0.89
45 4 0.11
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTGCAACTTCAAGAGGATAAGACTTATA
Found at i:105315 original size:44 final size:44
Alignment explanation
Indices: 105267--105843 Score: 241
Period size: 44 Copynumber: 13.1 Consensus size: 44
105257 TTGGGAAGAT
*
105267 AAGATTTGCTGTCTTCGATCTACTCCACTATTGCTTAGGGAGAA
1 AAGATTTGCTGTCTTCGATCTACTCCGCTATTGCTTAGGGAGAA
* * ** * ** * *
105311 AAGATCTACAATCTTC-AGCCTACTCCGCTGCTGCTCAGGGAGAC
1 AAGATTTGCTGTCTTCGA-TCTACTCCGCTATTGCTTAGGGAGAA
** * * ** * *
105355 AAGGCTTGGTGGCTTAAATCTGCTTCCCGCTA-T-CTT-GGGAAGAT
1 AAGATTTGCTGTCTTCGATCTAC-T-CCGCTATTGCTTAGGG-AGAA
*
105399 AAGATTTGCTGTCTTCGATCTACTCCCCTATTGCTTAGGGAGAA
1 AAGATTTGCTGTCTTCGATCTACTCCGCTATTGCTTAGGGAGAA
* * ** * ** * *
105443 AAGATCTACAATCTTC-AGCCTACTCCGCTGCTGCTCAGGGAGAC
1 AAGATTTGCTGTCTTCGA-TCTACTCCGCTATTGCTTAGGGAGAA
** * * ** * *
105487 AAGGCTTGGTGGCTTAAATCTGCTTCCCGCTA-T-CTT-GGGAAGAT
1 AAGATTTGCTGTCTTCGATCTAC-T-CCGCTATTGCTTAGGG-AGAA
*
105531 AAGATTTGCTGTCTTCGATCTACTCCCCTATTGCTTAGGGAGAA
1 AAGATTTGCTGTCTTCGATCTACTCCGCTATTGCTTAGGGAGAA
* * ** * ** * *
105575 AAGATCTACAATCTTC-AGCCTACTCCGCTGCTGCTCAGGGAGAC
1 AAGATTTGCTGTCTTCGA-TCTACTCCGCTATTGCTTAGGGAGAA
** * * ** * *
105619 AAGGCTTGGTGGCTTAAATCTGCTTCCCGCTA-T-CTT-GGGAAGAT
1 AAGATTTGCTGTCTTCGATCTAC-T-CCGCTATTGCTTAGGG-AGAA
*
105663 AAGATTTGCTGTCTTCGATCTACTCCCCTATTGCTTAGGGAGAA
1 AAGATTTGCTGTCTTCGATCTACTCCGCTATTGCTTAGGGAGAA
* * ** * ** * *
105707 AAGATCTACAATCTTC-AGCCTACTCCGCTGCTGCTCAGGGAGAC
1 AAGATTTGCTGTCTTCGA-TCTACTCCGCTATTGCTTAGGGAGAA
** * * ** * *
105751 AAGGCTTGGTGGCTTAAATCTGCTTCCCGCTA-T-CTT-GGGAAGAT
1 AAGATTTGCTGTCTTCGATCTAC-T-CCGCTATTGCTTAGGG-AGAA
*
105795 AAGATTTGCTGTCTTCGATCTACTCCCCTATTGCTTAGGGAGAA
1 AAGATTTGCTGTCTTCGATCTACTCCGCTATTGCTTAGGGAGAA
105839 AAGAT
1 AAGAT
105844 CTACAATCTT
Statistics
Matches: 369, Mismatches: 132, Indels: 64
0.65 0.23 0.11
Matches are distributed among these distances:
42 20 0.05
43 24 0.07
44 281 0.76
45 24 0.07
46 20 0.05
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (44 bp):
AAGATTTGCTGTCTTCGATCTACTCCGCTATTGCTTAGGGAGAA
Found at i:105398 original size:132 final size:132
Alignment explanation
Indices: 105227--106021 Score: 1439
Period size: 132 Copynumber: 6.0 Consensus size: 132
105217 GAGGATAAGA
* *
105227 CTTGCTGGCTTAAATCTGCTTCCCACTATCTTGGGAAGATAAGATTTGCTGTCTTCGATCTACTC
1 CTTGGTGGCTTAAATCTGCTTCCCGCTATCTTGGGAAGATAAGATTTGCTGTCTTCGATCTACTC
*
105292 CACTATTGCTTAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAGACAA
66 CCCTATTGCTTAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAGACAA
105357 GG
131 GG
105359 CTTGGTGGCTTAAATCTGCTTCCCGCTATCTTGGGAAGATAAGATTTGCTGTCTTCGATCTACTC
1 CTTGGTGGCTTAAATCTGCTTCCCGCTATCTTGGGAAGATAAGATTTGCTGTCTTCGATCTACTC
105424 CCCTATTGCTTAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAGACAA
66 CCCTATTGCTTAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAGACAA
105489 GG
131 GG
105491 CTTGGTGGCTTAAATCTGCTTCCCGCTATCTTGGGAAGATAAGATTTGCTGTCTTCGATCTACTC
1 CTTGGTGGCTTAAATCTGCTTCCCGCTATCTTGGGAAGATAAGATTTGCTGTCTTCGATCTACTC
105556 CCCTATTGCTTAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAGACAA
66 CCCTATTGCTTAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAGACAA
105621 GG
131 GG
105623 CTTGGTGGCTTAAATCTGCTTCCCGCTATCTTGGGAAGATAAGATTTGCTGTCTTCGATCTACTC
1 CTTGGTGGCTTAAATCTGCTTCCCGCTATCTTGGGAAGATAAGATTTGCTGTCTTCGATCTACTC
105688 CCCTATTGCTTAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAGACAA
66 CCCTATTGCTTAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAGACAA
105753 GG
131 GG
105755 CTTGGTGGCTTAAATCTGCTTCCCGCTATCTTGGGAAGATAAGATTTGCTGTCTTCGATCTACTC
1 CTTGGTGGCTTAAATCTGCTTCCCGCTATCTTGGGAAGATAAGATTTGCTGTCTTCGATCTACTC
105820 CCCTATTGCTTAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAGACAA
66 CCCTATTGCTTAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAGACAA
105885 GG
131 GG
* * * *
105887 CTTGGTGGCTTAAATCTGCTTCTCACTATCTTGGAAAGATAAGATTTG-TCGTCCTCGATCTACT
1 CTTGGTGGCTTAAATCTGCTTCCCGCTATCTTGGGAAGATAAGATTTGCT-GTCTTCGATCTACT
* * * * * * * *
105951 TCACTACTGCTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCGCTGTTGCTCAGGGAGACA
65 CCCCTATTGCTTAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAGACA
106016 AGG
130 AGG
106019 CTT
1 CTT
106022 AGTGTTTCAC
Statistics
Matches: 647, Mismatches: 15, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
131 1 0.00
132 646 1.00
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (132 bp):
CTTGGTGGCTTAAATCTGCTTCCCGCTATCTTGGGAAGATAAGATTTGCTGTCTTCGATCTACTC
CCCTATTGCTTAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAGACAA
GG
Found at i:113048 original size:21 final size:21
Alignment explanation
Indices: 113024--113069 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
113014 TACAAGTGAA
*
113024 AAATAT-TATGCATAAAATAAT
1 AAATATATATACATAAAA-AAT
113045 AAAT-TATATACATAAAAAAT
1 AAATATATATACATAAAAAAT
113065 AAATA
1 AAATA
113070 ATTGATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATATATATACATAAAAAAT
Found at i:113079 original size:18 final size:18
Alignment explanation
Indices: 113056--113096 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
113046 AATTATATAC
113056 ATAAAAAATAA-ATAATTG
1 ATAAAAAA-AAGATAATTG
113074 ATAAAAAAAAGATAATTG
1 ATAAAAAAAAGATAATTG
113092 -TAAAA
1 ATAAAA
113097 TTTATATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (18 bp):
ATAAAAAAAAGATAATTG
Found at i:114160 original size:18 final size:17
Alignment explanation
Indices: 114133--114166 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
114123 TTATTTGTAT
114133 TTTTAAATTAAATTTAAA
1 TTTTAAATT-AATTTAAA
*
114151 TTTTATATTAATTTAA
1 TTTTAAATTAATTTAA
114167 TATAATGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAAATTAATTTAAA
Found at i:117727 original size:17 final size:16
Alignment explanation
Indices: 117697--117735 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
117687 TCTAAAAATT
117697 ATAA-TAAAAATATAA
1 ATAATTAAAAATATAA
*
117712 ATCATTAAAAACTATAA
1 ATAATTAAAAA-TATAA
117729 ATAATTA
1 ATAATTA
117736 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 3 0.15
16 6 0.30
17 11 0.55
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATTAAAAATATAA
Found at i:117750 original size:21 final size:20
Alignment explanation
Indices: 117716--117754 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
117706 ATATAAATCA
117716 TTAAAAACTATAAATAATTAT
1 TTAAAAACTATAAA-AATTAT
* *
117737 TTAAAAATTCTAAAAATT
1 TTAAAAACTATAAAAATT
117755 CTAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAAACTATAAAAATTAT
Found at i:117801 original size:16 final size:16
Alignment explanation
Indices: 117759--117801 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
117749 AAAATTCTAA
117759 AAAAATATT-AATAAT
1 AAAAATATTAAATAAT
*
117774 AGAAAA-ATTAAATTAT
1 A-AAAATATTAAATAAT
117790 AAAAATATTAAA
1 AAAAATATTAAA
117802 AAGTATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAAATATTAAATAAT
Found at i:117984 original size:9 final size:8
Alignment explanation
Indices: 117972--118022 Score: 50
Period size: 9 Copynumber: 5.9 Consensus size: 8
117962 TTTTTCTTGG
117972 AATTTTAAT
1 AATTTT-AT
117981 AATTTTTAT
1 AA-TTTTAT
117990 AATTTTAT
1 AATTTTAT
117998 AATTATT-T
1 AATT-TTAT
118006 GAATTTCTAT
1 -AATTT-TAT
118016 AATTTTA
1 AATTTTA
118023 AAAACATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 14 0.38
9 18 0.49
10 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (8 bp):
AATTTTAT
Found at i:118031 original size:26 final size:26
Alignment explanation
Indices: 117981--118031 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
117971 GAATTTTAAT
* * **
117981 AATTTTTATAATTTTATAATTATTTG
1 AATTTCTATAATTTTAAAAACATTTG
118007 AATTTCTATAATTTTAAAAACATTT
1 AATTTCTATAATTTTAAAAACATTT
118032 TATGATTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (26 bp):
AATTTCTATAATTTTAAAAACATTTG
Found at i:126478 original size:16 final size:16
Alignment explanation
Indices: 126457--126492 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
126447 TTTGATTCGC
*
126457 TGTATTGGATTAGAGG
1 TGTATTGAATTAGAGG
126473 TGTATTGAATTAGAGG
1 TGTATTGAATTAGAGG
126489 TGTA
1 TGTA
126493 ATAGCAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGAATTAGAGG
Found at i:128253 original size:32 final size:32
Alignment explanation
Indices: 128215--128310 Score: 90
Period size: 31 Copynumber: 3.0 Consensus size: 32
128205 TATCTAATTA
*
128215 AGTTAATATCCGTTTAACTCATGACACAAGTG
1 AGTTAATATCCGTTTAACTCATCACACAAGTG
** * * *
128247 AGTTAATAAT-ATTTTTA-TCATTATC-CAATTG
1 AGTTAAT-ATCCGTTTAACTCATCA-CACAAGTG
*
128278 AGTTAATATCCGTTTAACTCATCACACAGGTG
1 AGTTAATATCCGTTTAACTCATCACACAAGTG
128310 A
1 A
128311 TTATCTCCCA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
30 2 0.04
31 22 0.46
32 22 0.46
33 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (32 bp):
AGTTAATATCCGTTTAACTCATCACACAAGTG
Found at i:128255 original size:63 final size:63
Alignment explanation
Indices: 128181--128310 Score: 215
Period size: 63 Copynumber: 2.1 Consensus size: 63
128171 CTTAAAACAG
* *
128181 GTGAGTTAATAATATTTTCATCATTATCTAATTAAGTTAATATCCGTTTAACTCATGACACAA
1 GTGAGTTAATAATATTTTCATCATTATCCAATTAAGTTAATATCCGTTTAACTCATCACACAA
* * *
128244 GTGAGTTAATAATATTTTTATCATTATCCAATTGAGTTAATATCCGTTTAACTCATCACACAG
1 GTGAGTTAATAATATTTTCATCATTATCCAATTAAGTTAATATCCGTTTAACTCATCACACAA
128307 GTGA
1 GTGA
128311 TTATCTCCCA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (63 bp):
GTGAGTTAATAATATTTTCATCATTATCCAATTAAGTTAATATCCGTTTAACTCATCACACAA
Found at i:128283 original size:31 final size:31
Alignment explanation
Indices: 128182--128285 Score: 95
Period size: 31 Copynumber: 3.3 Consensus size: 31
128172 TTAAAACAGG
* *
128182 TGAGTTAATAATATTTTCATCATTATCTAAT
1 TGAGTTAATAATATTTTAATCATTATCCAAT
* ** * *
128213 TAAGTTAAT-ATCCGTTTAACTCATGA-CACAAG
1 TGAGTTAATAAT-ATTTTAA-TCATTATC-CAAT
*
128245 TGAGTTAATAATATTTTTATCATTATCCAAT
1 TGAGTTAATAATATTTTAATCATTATCCAAT
128276 TGAGTTAATA
1 TGAGTTAATA
128286 TCCGTTTAAC
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
30 2 0.04
31 31 0.56
32 20 0.36
33 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (31 bp):
TGAGTTAATAATATTTTAATCATTATCCAAT
Found at i:131094 original size:15 final size:15
Alignment explanation
Indices: 131076--131106 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
131066 ATTTGTCTTA
131076 ATATGTTCATTAATT
1 ATATGTTCATTAATT
*
131091 ATATTTTCATTAATT
1 ATATGTTCATTAATT
131106 A
1 A
131107 CTTACAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (15 bp):
ATATGTTCATTAATT
Found at i:133226 original size:16 final size:16
Alignment explanation
Indices: 133207--133239 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
133197 TAAAATTTTG
133207 AAAAAATAAAAAATAC
1 AAAAAATAAAAAATAC
*
133223 AAAAAATAAAAATTAC
1 AAAAAATAAAAAATAC
133239 A
1 A
133240 TTTTGACCCT
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:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAATAAAAAATAC
Found at i:133962 original size:11 final size:12
Alignment explanation
Indices: 133946--133992 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
133936 CCCAAACAGT
133946 AAAGAAG-AAAG
1 AAAGAAGAAAAG
133957 AAAGAAGAAAAG
1 AAAGAAGAAAAG
133969 AAAGATAGGAAAAGG
1 AAAGA-A-GAAAA-G
133984 AAA-AAGAAA
1 AAAGAAGAAA
133993 TAAAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 7 0.22
12 13 0.41
13 2 0.06
14 6 0.19
15 4 0.12
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (12 bp):
AAAGAAGAAAAG
Found at i:134042 original size:11 final size:11
Alignment explanation
Indices: 134026--134062 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
134016 CCCATTTTTG
134026 GCAGTCCAGCA
1 GCAGTCCAGCA
134037 GCAGTCCAGCA
1 GCAGTCCAGCA
*
134048 GCAGTCCACCA
1 GCAGTCCAGCA
134059 GCAG
1 GCAG
134063 CAGCCCACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.27, C:0.38, G:0.27, T:0.08
Consensus pattern (11 bp):
GCAGTCCAGCA
Found at i:134051 original size:14 final size:14
Alignment explanation
Indices: 134031--134076 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
134021 TTTTGGCAGT
134031 CCAGCAGCAGT---
1 CCAGCAGCAGTCCA
134042 CCAGCAGCAGTCCA
1 CCAGCAGCAGTCCA
*
134056 CCAGCAGCAGCCCA
1 CCAGCAGCAGTCCA
134070 CCAGCAG
1 CCAGCAG
134077 TGGCCCACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 11 0.35
14 20 0.65
ACGTcount: A:0.28, C:0.43, G:0.24, T:0.04
Consensus pattern (14 bp):
CCAGCAGCAGTCCA
Found at i:134202 original size:15 final size:15
Alignment explanation
Indices: 134182--134210 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
134172 CCAACAGCAG
134182 CAGGCCACTGCCCAA
1 CAGGCCACTGCCCAA
134197 CAGGCCACTGCCCA
1 CAGGCCACTGCCCA
134211 GCCCAACGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.48, G:0.21, T:0.07
Consensus pattern (15 bp):
CAGGCCACTGCCCAA
Found at i:134630 original size:20 final size:20
Alignment explanation
Indices: 134602--134639 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
134592 GAAAATATTC
*
134602 AAAATTCCTCGTGTTTTAAT
1 AAAAATCCTCGTGTTTTAAT
134622 AAAAATCCTCGTGTTTTA
1 AAAAATCCTCGTGTTTTA
134640 TTAGAATCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
AAAAATCCTCGTGTTTTAAT
Found at i:134785 original size:17 final size:17
Alignment explanation
Indices: 134758--134803 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 17
134748 AAAAAAATCG
134758 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
134775 TGTCTTCAAAATTTCTCA
1 TGT-TTCAAAATTTCTCA
134793 TGTTTCAAAAT
1 TGTTTCAAAAT
134804 AATAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:134881 original size:49 final size:49
Alignment explanation
Indices: 134813--134942 Score: 244
Period size: 49 Copynumber: 2.7 Consensus size: 49
134803 TAATAATAAT
134813 AAAATTTCCCGTGTTTCAAAAAAATATATTCGTGTTTCTTTTTTTC-AA
1 AAAATTTCCCGTGTTTCAAAAAAATATATTCGTGTTTCTTTTTTTCAAA
134861 AAAATTTCCCAGTGTTTCAAAAAAATATATTCGTGTTTCTTTTTTTCAAA
1 AAAATTTCCC-GTGTTTCAAAAAAATATATTCGTGTTTCTTTTTTTCAAA
134911 AAAATTTCCCGTGTTTCAAAAAAATATATTCG
1 AAAATTTCCCGTGTTTCAAAAAAATATATTCG
134943 GCGAGGGTGC
Statistics
Matches: 80, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
48 10 0.12
49 58 0.73
50 12 0.15
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (49 bp):
AAAATTTCCCGTGTTTCAAAAAAATATATTCGTGTTTCTTTTTTTCAAA
Found at i:135085 original size:42 final size:42
Alignment explanation
Indices: 135038--135120 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
135028 CTTTTTTAGG
135038 AAAATTTAAAAATAAATTTTTCTTCTAAAAAGAGAATTTATA
1 AAAATTTAAAAATAAATTTTTCTTCTAAAAAGAGAATTTATA
135080 AAAATTTAAAAATAAATTTTTCTTCTAAAAAGAGAATTTAT
1 AAAATTTAAAAATAAATTTTTCTTCTAAAAAGAGAATTTAT
135121 TAGGTGTCCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (42 bp):
AAAATTTAAAAATAAATTTTTCTTCTAAAAAGAGAATTTATA
Found at i:143207 original size:164 final size:164
Alignment explanation
Indices: 142868--143265 Score: 484
Period size: 164 Copynumber: 2.4 Consensus size: 164
142858 TGGCAGCTTT
* * *
142868 GACGTCGATTTCGCCTCCTTTTT-CTTCCCTACAATCCCACAACCAAAACCCCACCAAGAAAACA
1 GACGTCGATTCCGTCT-CTTTTTCCTTCCCTACAATCCCATAACCAAAACCCCACCAAG-AAA-A
* * * * *
142932 GCATTATATATGCTTGTCAAACCCTAAAACAA---AGT-AAAAAACGGTAACCGAGTTAAGAACT
63 -C---A-ATGT-C-AGTCAAACTCTAAAA-AATTGAATAAAAAAACGATAACCGAGTTAAGAACT
* * ** * *
142993 GAGTCACCTGTTTCTTCAGGTTCCCCTCTCGCAAATGGCAGTTTC
120 GACTCACCTGTTTCTTCAGGTTCCCCTATAACAAATGGCAATTGC
*
143038 GACGTCGATTCCGTCTCTTCTTT-CTTCCCTATAATCCCATAACCAAAACCCCACCAAGAAAACA
1 GACGTCGATTCCGTCTCTT-TTTCCTTCCCTACAATCCCATAACCAAAACCCCACCAAGAAAACA
*
143102 ATGTCAGTCAAACTCTAAAAAATTGAATAAAAAAACGATGACCGAGTTAAGAACTGACTCACCTG
65 ATGTCAGTCAAACTCTAAAAAATTGAATAAAAAAACGATAACCGAGTTAAGAACTGACTCACCTG
143167 TTTCTTCAGGTTCCCCTATAACAAATGGCAATTGC
130 TTTCTTCAGGTTCCCCTATAACAAATGGCAATTGC
**
143202 GACGTCGATTTTGTCTCTTTTTCCTTCCCTACAATCCCATAACCAAAACCCCACCAAGAAAACA
1 GACGTCGATTCCGTCTCTTTTTCCTTCCCTACAATCCCATAACCAAAACCCCACCAAGAAAACA
143266 GCATTATATA
Statistics
Matches: 203, Mismatches: 19, Indels: 18
0.85 0.08 0.08
Matches are distributed among these distances:
160 2 0.01
161 13 0.06
162 1 0.00
163 8 0.04
164 121 0.60
167 1 0.00
168 1 0.00
169 6 0.03
170 50 0.25
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (164 bp):
GACGTCGATTCCGTCTCTTTTTCCTTCCCTACAATCCCATAACCAAAACCCCACCAAGAAAACAA
TGTCAGTCAAACTCTAAAAAATTGAATAAAAAAACGATAACCGAGTTAAGAACTGACTCACCTGT
TTCTTCAGGTTCCCCTATAACAAATGGCAATTGC
Found at i:144495 original size:18 final size:20
Alignment explanation
Indices: 144474--144516 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
144464 AAAATATATA
*
144474 AAATAT-AAAATGTT-TAAT
1 AAATATGAAAATATTATAAT
*
144492 AAATATGCAAATATTATAAT
1 AAATATGAAAATATTATAAT
144512 AAATA
1 AAATA
144517 CCAGTCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 6 0.29
20 9 0.43
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (20 bp):
AAATATGAAAATATTATAAT
Found at i:147984 original size:27 final size:26
Alignment explanation
Indices: 147954--148009 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
147944 TTTTTTTACT
*
147954 TTTAATAAT-TAATGAATTATTTTTAAA
1 TTTAATAATAT-ATGAAATA-TTTTAAA
*
147981 TTTAATGATATATGAAATATTTTAAA
1 TTTAATAATATATGAAATATTTTAAA
148007 TTT
1 TTT
148010 TTAAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 10 0.38
27 15 0.58
28 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (26 bp):
TTTAATAATATATGAAATATTTTAAA
Found at i:153654 original size:20 final size:20
Alignment explanation
Indices: 153629--153666 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
153619 CGTGATCCGA
153629 TTAAAACACGAGAATTTTTT
1 TTAAAACACGAGAATTTTTT
153649 TTAAAACACGAGAATTTT
1 TTAAAACACGAGAATTTT
153667 GGAAACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAAAACACGAGAATTTTTT
Found at i:153698 original size:33 final size:35
Alignment explanation
Indices: 153632--153717 Score: 97
Period size: 33 Copynumber: 2.5 Consensus size: 35
153622 GATCCGATTA
* * *
153632 AAACACGAGAATTTTTTTTAAAACACGAGAATTT-TGG
1 AAACACGAG-A-TTTTTTAAAAAAACGAAAATTTAT-G
153669 AAACAC-A-ATTTTTTAAAAAAACGAAAATTTATG
1 AAACACGAGATTTTTTAAAAAAACGAAAATTTATG
153702 AAACACGAGATTTTTT
1 AAACACGAGATTTTTT
153718 TTTGAAAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
33 26 0.60
34 3 0.07
35 7 0.16
36 1 0.02
37 6 0.14
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (35 bp):
AAACACGAGATTTTTTAAAAAAACGAAAATTTATG
Found at i:153762 original size:18 final size:18
Alignment explanation
Indices: 153740--153795 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
153730 AAAATTTTCA
153740 AAACACCGA-AATTTTTG
1 AAACACCGAGAATTTTTG
*
153757 ACAACA-CGAGGATTTTTG
1 A-AACACCGAGAATTTTTG
*
153775 AAACA-CGGGAATTTTCTG
1 AAACACCGAGAATTTT-TG
153793 AAA
1 AAA
153796 ACATGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 16 0.48
18 17 0.52
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (18 bp):
AAACACCGAGAATTTTTG
Found at i:153788 original size:17 final size:18
Alignment explanation
Indices: 153749--153795 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
153739 AAAACACCGA
153749 AATTTTTGACAACACGAGG
1 AATTTTTGA-AACACGAGG
153768 -ATTTTTGAAACACG-GG
1 AATTTTTGAAACACGAGG
153784 AATTTTCTGAAA
1 AATTTT-TGAAA
153796 ACATGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 2 0.08
17 11 0.42
18 13 0.50
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (18 bp):
AATTTTTGAAACACGAGG
Found at i:153843 original size:17 final size:17
Alignment explanation
Indices: 153631--153844 Score: 94
Period size: 17 Copynumber: 11.9 Consensus size: 17
153621 TGATCCGATT
*
153631 AAAACACGAGAATTTTTTTT
1 AAAACACGA-AA--TTTTTG
153651 AAAACACGAGAA-TTTTG
1 AAAACACGA-AATTTTTG
* * *
153668 GAAACAC-AATTTTTTA
1 AAAACACGAAATTTTTG
* *
153684 AAAAAACGAAAATTTATG
1 AAAACACG-AAATTTTTG
*
153702 -AAACACGAGATTTTTTTTTG
1 AAAACACGA-A---ATTTTTG
* * *
153722 AAAACACAAAAATTTTC
1 AAAACACGAAATTTTTG
153739 AAAACACCGAAATTTTTG
1 AAAACA-CGAAATTTTTG
* *
153757 ACAACACGAGGATTTTTG
1 AAAACACGA-AATTTTTG
*
153775 -AAACACGGGAATTTTCTG
1 AAAACAC-GAAATTTT-TG
* *
153793 AAAACATGTAAAATTTTG
1 AAAACACG-AAATTTTTG
*** *
153811 AAAATTGGAATTTTTTG
1 AAAACACGAAATTTTTG
153828 AAAACACGAAAATTTTT
1 AAAACACG-AAATTTTT
153845 CTGATTTTTT
Statistics
Matches: 143, Mismatches: 36, Indels: 32
0.68 0.17 0.15
Matches are distributed among these distances:
15 1 0.01
16 11 0.08
17 52 0.36
18 44 0.31
19 10 0.07
20 18 0.13
21 7 0.05
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (17 bp):
AAAACACGAAATTTTTG
Found at i:153983 original size:21 final size:18
Alignment explanation
Indices: 153949--153996 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 18
153939 TCGTTACTTT
153949 ATTTTTGAAAACACGAGAAA
1 ATTTTTGAAAACAC--GAAA
*
153969 ATTTTTCGAAGACACGAAA
1 ATTTTT-GAAAACACGAAA
153988 A-TTTTGAAA
1 ATTTTTGAAA
153997 CCCGAGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
18 4 0.16
19 5 0.20
20 6 0.24
21 7 0.28
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (18 bp):
ATTTTTGAAAACACGAAA
Found at i:154359 original size:11 final size:11
Alignment explanation
Indices: 154343--154396 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
154333 CAAATTGAAA
154343 TTTTCTTTTCT
1 TTTTCTTTTCT
*
154354 TTTTCTCTTCT
1 TTTTCTTTTCT
*
154365 TTTT-TTCTTTT
1 TTTTCTT-TTCT
154376 TTTTCTTTT-T
1 TTTTCTTTTCT
*
154386 TCTT-TTTTCT
1 TTTTCTTTTCT
154396 T
1 T
154397 CTCTCTTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
9 4 0.11
10 7 0.19
11 23 0.64
12 2 0.06
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:154372 original size:24 final size:24
Alignment explanation
Indices: 154343--154393 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
154333 CAAATTGAAA
154343 TTTTCTTTTCTTTT-TCTCTTCTTT
1 TTTTCTTTT-TTTTCTCTCTTCTTT
* *
154367 TTTTCTTTTTTTTCTTTTTTCTTT
1 TTTTCTTTTTTTTCTCTCTTCTTT
154391 TTT
1 TTT
154394 CTTCTCTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (24 bp):
TTTTCTTTTTTTTCTCTCTTCTTT
Found at i:154377 original size:7 final size:7
Alignment explanation
Indices: 154348--154396 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
154338 TGAAATTTTC
154348 TTTTCTT
1 TTTTCTT
154355 TTTCTCTT
1 TTT-TCTT
154363 CTTTT-TT
1 -TTTTCTT
*
154370 TCTT-TT
1 TTTTCTT
154376 TTTTCTT
1 TTTTCTT
154383 TTTTCTT
1 TTTTCTT
154390 TTTTCTT
1 TTTTCTT
154397 CTCTCTTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 8 0.22
7 21 0.57
8 5 0.14
9 3 0.08
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTCTT
Found at i:154381 original size:17 final size:18
Alignment explanation
Indices: 154348--154398 Score: 79
Period size: 16 Copynumber: 2.9 Consensus size: 18
154338 TGAAATTTTC
154348 TTTTCTTTTTCTCTTCTTT
1 TTTTCTTTTT-TCTTCTTT
154367 TTTTCTTTTTT-TTC-TT
1 TTTTCTTTTTTCTTCTTT
154383 TTTTCTTTTTTCTTCT
1 TTTTCTTTTTTCTTCT
154399 CTCTTCTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 13 0.43
17 6 0.20
18 1 0.03
19 10 0.33
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTTCTTCTTT
Found at i:154408 original size:28 final size:28
Alignment explanation
Indices: 154349--154409 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
154339 GAAATTTTCT
* *
154349 TTTCTTTTTCTCTTCTTTTTTTCTTTTT
1 TTTCTTTTTCTCTTCTTTTTTTCTCTTC
154377 TTTCTTTTT-TCTT-TTTTCTTCTCTCTTC
1 TTTCTTTTTCTCTTCTTTT-TT-TCTCTTC
154405 TTTCT
1 TTTCT
154410 GGCCTGCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.14
27 6 0.21
28 19 0.66
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (28 bp):
TTTCTTTTTCTCTTCTTTTTTTCTCTTC
Found at i:154730 original size:13 final size:13
Alignment explanation
Indices: 154699--154763 Score: 67
Period size: 13 Copynumber: 4.6 Consensus size: 13
154689 AATTTTTATT
*
154699 TTTTTATTTTTTC
1 TTTTTCTTTTTTC
154712 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
154725 TTTTTCTTCCTTCTTTC
1 TTTTTC-T--TT-TTTC
*
154742 TTTCTCTTTTTTC
1 TTTTTCTTTTTTC
154755 TTTCTTCTT
1 TTT-TTCTT
154764 CTCCGATCGG
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
13 25 0.57
14 7 0.16
16 3 0.07
17 9 0.20
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:154743 original size:17 final size:17
Alignment explanation
Indices: 154721--154765 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
154711 CTTTTTCTTT
154721 TTTCTTTTTCTTCCTTC
1 TTTCTTTTTCTTCCTTC
* **
154738 TTTCTTTCTCTTTTTTC
1 TTTCTTTTTCTTCCTTC
*
154755 TTTCTTCTTCT
1 TTTCTTTTTCT
154766 CCGATCGGCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTCTTTTTCTTCCTTC
Found at i:154756 original size:7 final size:7
Alignment explanation
Indices: 154698--154763 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
154688 TAATTTTTAT
*
154698 TTTTTTA
1 TTTTTTC
154705 TTTTTTC
1 TTTTTTC
154712 -TTTTTC
1 TTTTTTC
154718 TTTTTTC
1 TTTTTTC
154725 TTTTTCTTCC
1 -TTTT-TT-C
*
154735 TTCTTTC
1 TTTTTTC
*
154742 -TTTCTC
1 TTTTTTC
154748 TTTTTTC
1 TTTTTTC
*
154755 TTTCTTC
1 TTTTTTC
154762 TT
1 TT
154764 CTCCGATCGG
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
6 10 0.21
7 26 0.54
8 6 0.12
9 5 0.10
10 1 0.02
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTTC
Found at i:155171 original size:29 final size:29
Alignment explanation
Indices: 155100--155179 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
155090 GAGTTTTGAG
* * *
155100 AAAA-TTTAGGGGTTAAAATGTAATTTTA
1 AAAAGTTTAGTGGTCAAAATGTAATTTCA
*
155128 AAAAG-TTGGTGGGTCAAAATGTAATTTCA
1 AAAAGTTTAGT-GGTCAAAATGTAATTTCA
155157 AAAAGTTTAGTGGTCAAAATGTA
1 AAAAGTTTAGTGGTCAAAATGTA
155180 TTTTTTTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 7 0.16
29 33 0.75
30 4 0.09
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (29 bp):
AAAAGTTTAGTGGTCAAAATGTAATTTCA
Found at i:155665 original size:76 final size:77
Alignment explanation
Indices: 155403--156396 Score: 1544
Period size: 77 Copynumber: 12.8 Consensus size: 77
155393 CGCTCGGCAT
155403 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTT---AAAAAACAGAAATTTAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAA-TT-A
* *
155464 AAGAAATACTTCGGC
64 AA-AAATACCTCAGC
* ** * * * *
155479 ATGTTTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTG-AAAAAAATAGAAATT
1 GTG-ACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA--TTTTTGAAAAAAAACAGAAATT
*
155543 AAAAAAAAATAACTCAGC
63 ---AAAAAATACCTCAGC
155561 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATT-AA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
155625 AAATACCTCAGC
66 AAATACCTCAGC
* *
155637 GTGACCCGAGGCTCAACTCACCTCTCGTATTATAAGTTGATTTTTGAAAAAAAAATAGAAATTAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTG-AAAAAAAACAGAAATT--
155702 AAAAAATACCTCAGC
63 AAAAAATACCTCAGC
*
155717 GTGGCCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
* *
155782 AAATATCACAGC
66 AAATACCTCAGC
* * *
155794 TTGACCCGAGGCTCAACTCACCTCTTGTATTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATT--A
155859 AAAAATACCTCAGC
64 AAAAATACCTCAGC
*
155873 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAACAACAGAAATT-AA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
155937 AAATACCTCAGC
66 AAATACCTCAGC
155949 GTGACCCGAGGCTC-ACTCACCCTCTCGTATTATGAGTTGATTTTTGAAAAAAAAACAGAAATTA
1 GTGACCCGAGGCTCAACTCA-CCTCTCGTATTATGAGTTGATTTTTG-AAAAAAAACAGAAATTA
156013 AAAAATACCTCAGC
64 AAAAATACCTCAGC
156027 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAAACAGAAATTAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTG-AAAAAAAACAGAAATTAA
156092 AAAATACCTCAGC
65 AAAATACCTCAGC
156105 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTG--AAAAAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
156168 AAATACCTCAGC
66 AAATACCTCAGC
*
156180 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTT-AAAAACAACAGAAATT-AA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
156243 AAATACCTCAGC
66 AAATACCTCAGC
*
156255 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAATAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
156320 AAATACCTCAGC
66 AAATACCTCAGC
* *
156332 GTGACCCGAGGCACAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
156397 TTAAAAAAAT
Statistics
Matches: 855, Mismatches: 40, Indels: 45
0.91 0.04 0.05
Matches are distributed among these distances:
75 138 0.16
76 141 0.16
77 209 0.24
78 132 0.15
79 99 0.12
80 76 0.09
81 34 0.04
82 22 0.03
83 4 0.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (77 bp):
GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
AAATACCTCAGC
Found at i:155752 original size:156 final size:153
Alignment explanation
Indices: 155403--156396 Score: 1538
Period size: 156 Copynumber: 6.4 Consensus size: 153
155393 CGCTCGGCAT
155403 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTT---AAAAAACAGAAATTTAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAA-TT--
* * * ** * * *
155464 AAGAAATACTTCGGCATGTTTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTG-
63 AA-AAATACCTCAGCGTG-ACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA--TTTTTGA
* *
155528 AAAAAAATAGAAATTAAAAAAAAATAACTCAGC
124 AAAAAAACAGAAATT---AAAAAATACCTCAGC
155561 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
*
155626 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATAAGTTGATTTTTGAAAAAAAA
66 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTG-AAAAAAA
*
155691 ATAGAAATTAAAAAAAATACCTCAGC
130 ACAGAAATT--AAAAAATACCTCAGC
*
155717 GTGGCCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATT-AA
* * * * *
155782 AAATATCACAGCTTGACCCGAGGCTCAACTCACCTCTTGTATTATGAGTTGATTTTTGAAAAACA
65 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAA
155847 ACAGAAATTAAAAAAAATACCTCAGC
130 ACAGAAATT--AAAAAATACCTCAGC
*
155873 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
155938 AATACCTCAGCGTGACCCGAGGCTC-ACTCACCCTCTCGTATTATGAGTTGATTTTTGAAAAAAA
66 AATACCTCAGCGTGACCCGAGGCTCAACTCA-CCTCTCGTATTATGAGTTGATTTTTG-AAAAAA
156002 AACAGAAATTAAAAAATACCTCAGC
129 AACAGAAATTAAAAAATACCTCAGC
156027 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAAACAGAAATTAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTG-AAAAAAAACAGAAATT-A
156092 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTG--AAAA
64 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAA
156155 AACAGAAATTAAAAAATACCTCAGC
129 AACAGAAATTAAAAAATACCTCAGC
*
156180 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTT-AAAAACAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
156244 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAA
66 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAA
*
156309 TAGAAATTAAAAAATACCTCAGC
131 CAGAAATTAAAAAATACCTCAGC
* *
156332 GTGACCCGAGGCACAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
156397 TTAAAAAAAT
Statistics
Matches: 792, Mismatches: 29, Indels: 35
0.93 0.03 0.04
Matches are distributed among these distances:
150 60 0.08
151 15 0.02
152 72 0.09
153 93 0.12
154 66 0.08
155 71 0.09
156 237 0.30
157 106 0.13
158 52 0.07
159 6 0.01
161 2 0.00
162 12 0.02
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (153 bp):
GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAA
CAGAAATTAAAAAATACCTCAGC
Found at i:161910 original size:150 final size:151
Alignment explanation
Indices: 161749--162049 Score: 577
Period size: 150 Copynumber: 2.0 Consensus size: 151
161739 ATGTACCAGA
*
161749 AATTTAAATAAATATAAATAAATAGATAACAATAATAATAATAATAATGTAATATAAAATTAATA
1 AATTTAAATAAATATAAATAAATAGATAACAATAATAATAATAATAATGTAATATAAAAGTAATA
161814 ATATTATTAAAATAACTAATTTAATGATAAATTAACTAAAATAACAAATAAGGGATTAAATTCAA
66 ATATTATTAAAATAACTAATTTAATGATAAATTAACTAAAATAACAAATAAGGGATTAAATTCAA
161879 AACTAAACT-AAATTTGGGGG
131 AACTAAACTAAAATTTGGGGG
*
161899 AATTTAAATAAATATAAATAAATAGATAACAATAATAATAATAATAATGTAATATAATAGTAATA
1 AATTTAAATAAATATAAATAAATAGATAACAATAATAATAATAATAATGTAATATAAAAGTAATA
161964 ATATTATTAAAATAACTAATTTAATGATAAATTAACTAAAATAACAAATAAGGGATTAAATTCAA
66 ATATTATTAAAATAACTAATTTAATGATAAATTAACTAAAATAACAAATAAGGGATTAAATTCAA
162029 AACTAAACTAAAATTTGGGGG
131 AACTAAACTAAAATTTGGGGG
162050 TGAATCGCAA
Statistics
Matches: 148, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
150 137 0.93
151 11 0.07
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (151 bp):
AATTTAAATAAATATAAATAAATAGATAACAATAATAATAATAATAATGTAATATAAAAGTAATA
ATATTATTAAAATAACTAATTTAATGATAAATTAACTAAAATAACAAATAAGGGATTAAATTCAA
AACTAAACTAAAATTTGGGGG
Found at i:163666 original size:44 final size:44
Alignment explanation
Indices: 163610--164078 Score: 341
Period size: 44 Copynumber: 10.7 Consensus size: 44
163600 TGATGCGATT
* * **
163610 TGCTCCGCTGTAAACTCAGGGAGATAAGATCTCTGGCTTCAATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTTCTTCAATC
**
163654 TGCTCCACTGTAACCTCAGGGAGATAAGATCT-TAAATTCTTCGGTC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCTCT---TTCTTCAATC
* * * * * *
163700 TACTCCACCGTAACCTCAGGGAGATAAGA---CATTATGCGATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTTCTTCAATC
* * * * *
163741 TACTCTACTGTAACTTCAGAGAGATAAGATCAT-TTAT-TTTAATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATC-TCTT-TCTTCAATC
* * *
163785 CGCTCCACTGTAACCTCAGGGAGATAGGAT-TACTATCTTCAATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCT-CTTTCTTCAATC
* * * **
163829 TGCTACGCTGTAATCTCAGGGAGATAAGATCTCTAATTCTTCGGTC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCTCT--TTCTTCAATC
* ** * *
163875 TACTCCACTGTAACCTCAGGGAGATAAGA-C-C-TGATGCGATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTTCTTCAATC
* ** * * * *
163916 TACTCTGCTGTAACTTCAGAGAGATAAGATC-CTTTATTTTAATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTT-CTTCAATC
* * ** * *
163960 CGCTCCACTGTAACTTCAGGGAGATAAGAT-AGTGTCTTCGATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTTCTTCAATC
* * **
164003 TGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTTCTTCAATC
*
164047 TGCTCCACTGTAACCTCAGTGAGATAAGATCT
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCT
164079 AAAATATTCA
Statistics
Matches: 331, Mismatches: 74, Indels: 40
0.74 0.17 0.09
Matches are distributed among these distances:
41 63 0.19
42 3 0.01
43 34 0.10
44 163 0.49
45 3 0.01
46 65 0.20
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
TGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTTCTTCAATC
Found at i:163915 original size:175 final size:175
Alignment explanation
Indices: 163611--164075 Score: 679
Period size: 175 Copynumber: 2.7 Consensus size: 175
163601 GATGCGATTT
* * * * *
163611 GCTCCGCTGTAAACTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGG
1 GCTCCACTGTAACCTCAGGGAGATAAGAT-TACTGTCTTCAATCTGCTCCGCTGTAATCTCAGGG
* *
163675 AGATAAGATCT-TAAATTCTTCGGTCTACTCCACCGTAACCTCAGGGAGATAAGACATTATGCGA
65 AGATAAGATCTCT-AATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACATGATGCGA
163739 TCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCC
129 TCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCC
* * *
163786 GCTCCACTGTAACCTCAGGGAGATAGGATTACTATCTTCAATCTGCTACGCTGTAATCTCAGGGA
1 GCTCCACTGTAACCTCAGGGAGATAAGATTACTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGA
*
163851 GATAAGATCTCTAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
66 GATAAGATCTCTAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACATGATGCGATC
* *
163916 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
131 TACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCC
* * *
163961 GCTCCACTGTAACTTCAGGGAGATAAGA-TAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGA
1 GCTCCACTGTAACCTCAGGGAGATAAGATTACTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGA
** ** * *
164025 GATAAGATCTCT--GGCTTCAATCTGCTCCACTGTAACCTCAGTGAGATAAGA
66 GATAAGATCTCTAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA
164076 TCTAAAATAT
Statistics
Matches: 263, Mismatches: 25, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
172 33 0.13
174 45 0.17
175 184 0.70
176 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (175 bp):
GCTCCACTGTAACCTCAGGGAGATAAGATTACTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGA
GATAAGATCTCTAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACATGATGCGATC
TACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCC
Found at i:164002 original size:87 final size:87
Alignment explanation
Indices: 163702--164076 Score: 354
Period size: 87 Copynumber: 4.3 Consensus size: 87
163692 CTTCGGTCTA
* * *
163702 CTCCACCGTAACCTCAGGGAGATAAGACA-T-TATGCGATCTACTCTACTGTAA-CTTCAGAGAG
1 CTCCACTGTAACCTCAGGGAGATAAGATACTGTATGCGATCTACTCTGCTGTAATC-TCAGAGAG
163764 ATAAGATCAT-TTATTTTAATCCG
65 ATAAGATC-TCTTATTTTAATCCG
* * * * * * *
163787 CTCCACTGTAACCTCAGGGAGATAGGATTACTATCTTCAATCTGCTAC-GCTGTAATCTCAGGGA
1 CTCCACTGTAACCTCAGGGAGATAAGA-TACTGTATGCGATCTACT-CTGCTGTAATCTCAGAGA
* ** **
163851 GATAAGATCTCTAATTCTTCGGTCTA
64 GATAAGATCTCTTATT-TT-AATCCG
*
163877 CTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTACTCTGCTGTAA-CTTCAGAGAG
1 CTCCACTGTAACCTCAGGGAGATAAGATACTGTATGCGATCTACTCTGCTGTAATC-TCAGAGAG
163939 ATAAGATC-CTTTATTTTAATCCG
65 ATAAGATCTC-TTATTTTAATCCG
* * * * * * *
163962 CTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGA
1 CTCCACTGTAACCTCAGGGAGATAAGATACTGTATGCGATCTACTCTGCTGTAATCTCAGAGAGA
*** * *
164027 TAAGATCTCTGGCTTCAATCTG
66 TAAGATCTCTTATTTTAATCCG
*
164049 CTCCACTGTAACCTCAGTGAGATAAGAT
1 CTCCACTGTAACCTCAGGGAGATAAGAT
164077 CTAAAATATT
Statistics
Matches: 233, Mismatches: 42, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
85 53 0.23
86 8 0.03
87 102 0.44
88 38 0.16
89 4 0.02
90 28 0.12
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (87 bp):
CTCCACTGTAACCTCAGGGAGATAAGATACTGTATGCGATCTACTCTGCTGTAATCTCAGAGAGA
TAAGATCTCTTATTTTAATCCG
Found at i:164058 original size:131 final size:127
Alignment explanation
Indices: 163612--164078 Score: 406
Period size: 131 Copynumber: 3.6 Consensus size: 127
163602 ATGCGATTTG
*
163612 CTCCGCTGTAAACTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
1 CTCCACTGT-AACTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
* ** * * * * * *
163677 ATAAGATCTTAAATTCTTCGGTCTACTCCACCGTAACCTCAGGGAGATAAGACATTATGCGATCT
65 ATAAGATCTT-TATT-TT-AATCTGCTCCACTGTAACTTCAGGGAGATAAGATATTCTTCGATCT
163742 A
127 A
* * *** * *
163743 CTCTACTGTAACTTCAGAGAGATAAGATCAT-TTATTTTAATCCGCTCCACTGTAACCTCAGGGA
1 CTCCACTGTAAC-TCAGGGAGATAAGATC-TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
* * * * *
163807 GATAGGAT-TACTATCTTCAATCTGCTACGCTGTAA-TCTCAGGGAGATAAGATCTCTAATTCTT
64 GATAAGATCT-TTAT-TTTAATCTGCTCCACTGTAACT-TCAGGGAGATAAGA----T-ATTCTT
*
163870 CGGTCTA
121 CGATCTA
* * * * ** * *
163877 CTCCACTGTAACCTCAGGGAGATAAGA-C-CT-GATGCGATCTACTCTGCTGTAACTTCAGAGAG
1 CTCCACTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
*
163939 ATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCT
65 ATAAGAT-CTTTATTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATA-T-TCTTCGATCT
*
164004 G
127 A
* *
164005 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGTGAG
1 CTCCACTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
164070 ATAAGATCT
65 ATAAGATCT
164079 AAAATATTCA
Statistics
Matches: 262, Mismatches: 54, Indels: 41
0.73 0.15 0.11
Matches are distributed among these distances:
126 1 0.00
127 2 0.01
128 34 0.13
129 26 0.10
130 11 0.04
131 146 0.56
132 6 0.02
133 2 0.01
134 33 0.13
135 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (127 bp):
CTCCACTGTAACTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGA
TAAGATCTTTATTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATATTCTTCGATCTA
Found at i:186237 original size:20 final size:20
Alignment explanation
Indices: 186212--186250 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
186202 GCCTATGATC
186212 AATTAAAT-ATCTAATTATCT
1 AATTAAATAAT-TAATTATCT
186232 AATTAAATAATTAATTATC
1 AATTAAATAATTAATTATC
186251 CTAAATTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTAAATAATTAATTATCT
Found at i:187973 original size:337 final size:338
Alignment explanation
Indices: 187357--188033 Score: 1153
Period size: 337 Copynumber: 2.0 Consensus size: 338
187347 TTTTTTATGA
** * *
187357 TAACAATTTTTTGGTTGACTTGGTTCTGTTGGATGGGTTGGAAGATATGGAGTTTTATGAGCTAT
1 TAACAATTTTTTGGTTGACTTGGTTCAATTGGATGGGCTGGAAGATATGGAGTTTCATGAGCTAT
* *
187422 TGAGTGTTTGATGGTTCTTGTTGGGATGAAGGCTTGATTGTGGGTTTACTGTTACCTTATGGTGG
66 TGAGAGTTTGATGGTTCTTGTTGGGATGAAGGCTTGATTGTGGGTTTACTATTACCTTATGGTGG
* * *
187487 TGCTCGTATTCTTAATATGCCACTTGCTTATACCATGGGTTATGATCACCGAAATTATTTTTTCG
131 TGCTCATATTCTTAATATGCCACTTGCTTAGACCATGGGTTATGATCACCAAAATTATTTTTTCG
* * *
187552 TTGTGCCACGAGGCATACTGACGTTCTAATAGAACCTATGCCCACTTCAGGAGATTTCATCACCT
196 TTGTGCCACGAGGCATACTGACATTCCAATAGAACCCATGCCCACTTCAGGAGATTTCATCACCT
*
187617 TAACAAAGCTTGAAGAGTAGGTATAAATTCTTTAAGTGTTGTCTCCTATAGGTTTGGTATATACA
261 TAACAAAGCTTGAAGAGTAGGTATAAATTCTTTAAGTGTTGTCTCCTATAGGTTTGGTATATAAA
187682 TAGGTTGAACTCT
326 TAGGTTGAACTCT
187695 TAACAATTTTTTGGTTGACTTGGTTCAATTGGATGGGCTGGAAGATATGGAG-TTCAGTGAGCTA
1 TAACAATTTTTTGGTTGACTTGGTTCAATTGGATGGGCTGGAAGATATGGAGTTTCA-TGAGCTA
187759 TTGAGAG-TTGATGGTTCTTGTTGGGATGAAGGCTTGATTGTGGGTTTACTATTACCTTATGGTG
65 TTGAGAGTTTGATGGTTCTTGTTGGGATGAAGGCTTGATTGTGGGTTTACTATTACCTTATGGTG
* * *
187823 GTTCTCATATTCTTAATATGTCACTTGCTTAGACCATGGGTTGTGATCACCAAAATTATTTTTTC
130 GTGCTCATATTCTTAATATGCCACTTGCTTAGACCATGGGTTATGATCACCAAAATTATTTTTTC
*
187888 GTTGTGCCACGAGGTATA-TCGACATTCCAATAGAACCCATGCCCACTTCAGGAGATTTCATCAC
195 GTTGTGCCACGAGGCATACT-GACATTCCAATAGAACCCATGCCCACTTCAGGAGATTTCATCAC
*
187952 CTTAGCAAAGCTTGAAGAGTAGGTATAAATTCTTTAAGTGTTGTCTCCTATAGGTTTGGTATATA
259 CTTAACAAAGCTTGAAGAGTAGGTATAAATTCTTTAAGTGTTGTCTCCTATAGGTTTGGTATATA
188017 AATAGGTTGAACTCT
324 AATAGGTTGAACTCT
188032 TA
1 TA
188034 TCTAGTACCA
Statistics
Matches: 319, Mismatches: 18, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
336 1 0.00
337 256 0.80
338 62 0.19
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (338 bp):
TAACAATTTTTTGGTTGACTTGGTTCAATTGGATGGGCTGGAAGATATGGAGTTTCATGAGCTAT
TGAGAGTTTGATGGTTCTTGTTGGGATGAAGGCTTGATTGTGGGTTTACTATTACCTTATGGTGG
TGCTCATATTCTTAATATGCCACTTGCTTAGACCATGGGTTATGATCACCAAAATTATTTTTTCG
TTGTGCCACGAGGCATACTGACATTCCAATAGAACCCATGCCCACTTCAGGAGATTTCATCACCT
TAACAAAGCTTGAAGAGTAGGTATAAATTCTTTAAGTGTTGTCTCCTATAGGTTTGGTATATAAA
TAGGTTGAACTCT
Found at i:191031 original size:51 final size:51
Alignment explanation
Indices: 190975--191074 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
190965 TCTATTATTC
*
190975 TCTCAATTTCCTCTCAATTT-CTTTCCAAATTTCTCTCAAATCCCTATTTAA
1 TCTCAATTTCCTCTCAATTTGCTCT-CAAATTTCTCTCAAATCCCTATTTAA
* *
191026 TCTCAATTTGCTCTCAATTTGCTCTCAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTCCTCTCAATTTGCTCTCAAATTTCTCTCAAATCCCTATTT
191075 TTTAATTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 42 0.93
52 3 0.07
ACGTcount: A:0.24, C:0.28, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAATTTCCTCTCAATTTGCTCTCAAATTTCTCTCAAATCCCTATTTAA
Found at i:191061 original size:11 final size:11
Alignment explanation
Indices: 191026--191053 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
191016 CCCTATTTAA
191026 TCTCAATTTGC
1 TCTCAATTTGC
191037 TCTCAATTTGC
1 TCTCAATTTGC
191048 TCTCAA
1 TCTCAA
191054 ATTTCTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (11 bp):
TCTCAATTTGC
Found at i:191066 original size:11 final size:12
Alignment explanation
Indices: 191026--191066 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
191016 CCCTATTTAA
191026 TCTC-AATTTGC
1 TCTCAAATTTGC
191037 TCTC-AATTTGC
1 TCTCAAATTTGC
191048 TCTCAAATTT-C
1 TCTCAAATTTGC
*
191059 TCTTAAAT
1 TCTCAAAT
191067 CCCTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 23 0.82
12 5 0.18
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.46
Consensus pattern (12 bp):
TCTCAAATTTGC
Found at i:198077 original size:27 final size:27
Alignment explanation
Indices: 198007--198070 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
197997 TTTGGTTCAT
*
198007 TGAAATAGAGCTATACTAGAGATGTAA
1 TGAAATAGAGCTATAATAGAGATGTAA
198034 T-AGAATAGAGCTATAATAGAGATGTAA
1 TGA-AATAGAGCTATAATAGAGATGTAA
198061 TGAAATAGAG
1 TGAAATAGAG
198071 TTGTAATCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.25
Consensus pattern (27 bp):
TGAAATAGAGCTATAATAGAGATGTAA
Found at i:198229 original size:22 final size:22
Alignment explanation
Indices: 198202--198246 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
198192 TAATAGAATT
*
198202 TTTTAAGTAGATGATTGTTAAA
1 TTTTAAGTAGATGATTATTAAA
* *
198224 TTTTAATTAGATTATTATTAAA
1 TTTTAAGTAGATGATTATTAAA
198246 T
1 T
198247 ATAATTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (22 bp):
TTTTAAGTAGATGATTATTAAA
Found at i:205559 original size:12 final size:12
Alignment explanation
Indices: 205538--205591 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
205528 ACTCAAAAGA
*
205538 TAAAATCTTGAT
1 TAAAAACTTGAT
205550 TAAAAACTTGA-
1 TAAAAACTTGAT
** *
205561 TGGAAACTTGCT
1 TAAAAACTTGAT
205573 TAAAAACTTGAT
1 TAAAAACTTGAT
*
205585 GAAAAAC
1 TAAAAAC
205592 ATTTGATGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
11 8 0.24
12 25 0.76
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (12 bp):
TAAAAACTTGAT
Found at i:223436 original size:38 final size:39
Alignment explanation
Indices: 223392--223489 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 39
223382 GAAATCCTTG
*
223392 TTATAATTATTGTAATTATAA-TTTTCGAT-AGAATATTA
1 TTATAATTATTGTAATTATAATTTTTCGATCA-AACATTA
* * *
223430 TTATAATTATTGTAATTGTAATTTTTTGGGTCAAACATTA
1 TTATAATTATTGTAATTATAA-TTTTTCGATCAAACATTA
*
223470 TTATAATTATGGTAATTATA
1 TTATAATTATTGTAATTATA
223490 CTTATAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
38 20 0.39
40 30 0.59
41 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAATTTTTCGATCAAACATTA
Found at i:224386 original size:23 final size:23
Alignment explanation
Indices: 224360--224405 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
224350 AAACGAAAAT
224360 TAAAATG-TGGAAGATGGATAGAA
1 TAAAATGATGG-AGATGGATAGAA
* *
224383 TAAACTGATGGATATGGATAGAA
1 TAAAATGATGGAGATGGATAGAA
224406 AATAGTTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.46, C:0.02, G:0.28, T:0.24
Consensus pattern (23 bp):
TAAAATGATGGAGATGGATAGAA
Found at i:254522 original size:10 final size:11
Alignment explanation
Indices: 254499--254535 Score: 58
Period size: 10 Copynumber: 3.4 Consensus size: 11
254489 ATATTTTTAA
254499 TTTTAAAATAT
1 TTTTAAAATAT
254510 TTTTAAAAT-T
1 TTTTAAAATAT
254520 TTTTAAAATACT
1 TTTTAAAATA-T
254532 TTTT
1 TTTT
254536 TTAATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
11 9 0.38
12 5 0.21
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:254556 original size:22 final size:21
Alignment explanation
Indices: 254492--254557 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
254482 NNNNNNNATA
254492 TTTTTAA-TTTTAAAAT-ATT
1 TTTTTAATTTTTAAAATAATT
** *
254511 TTTAAAATTTTTTAAAATACTT
1 TTTTTAA-TTTTTAAAATAATT
*
254533 TTTTTAATTTTTAAAATAAAT
1 TTTTTAATTTTTAAAATAATT
254554 TTTT
1 TTTT
254558 GGTATTTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 5 0.14
21 25 0.68
22 7 0.19
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTAATTTTTAAAATAATT
Found at i:255601 original size:1 final size:1
Alignment explanation
Indices: 255597--255629 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
255587 TTTCGTTAGG
*
255597 TTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
255630 GTGCGTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:261825 original size:12 final size:12
Alignment explanation
Indices: 261808--261832 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
261798 TAATTGGTTC
261808 TCGTAGGAGACA
1 TCGTAGGAGACA
261820 TCGTAGGAGACA
1 TCGTAGGAGACA
261832 T
1 T
261833 TCATAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (12 bp):
TCGTAGGAGACA
Found at i:263101 original size:20 final size:20
Alignment explanation
Indices: 263076--263141 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
263066 CCCTTATTCT
263076 AATAAACTACTAAAAGATAA
1 AATAAACTACTAAAAGATAA
* * * **
263096 AATAAAATATTCCTAGAATATCT
1 AATAAACTA---CTAAAAGATAA
263119 AATAAACTACTAAAAGATAA
1 AATAAACTACTAAAAGATAA
263139 AAT
1 AAT
263142 GATTTATTCT
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
20 18 0.55
23 15 0.45
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.26
Consensus pattern (20 bp):
AATAAACTACTAAAAGATAA
Found at i:268546 original size:41 final size:40
Alignment explanation
Indices: 268447--268548 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 40
268437 TCTTTTAAAT
* *
268447 GCAGCCATATTGGACTGATG-AATATTGATGGTCGGTATA
1 GCAGCCATATTGGACTGATGAAAAATTGATGGTCGATATA
* * * *
268486 GCAACAATCTTGGATTGATGACAAAATTGATGGTCGATATA
1 GCAGCCATATTGGACTGATGA-AAAATTGATGGTCGATATA
**
268527 GCAGCCATATTAAACTGATGAA
1 GCAGCCATATTGGACTGATGAA
268549 GACAAAAAAT
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
39 16 0.33
40 1 0.02
41 32 0.65
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (40 bp):
GCAGCCATATTGGACTGATGAAAAATTGATGGTCGATATA
Found at i:279445 original size:16 final size:16
Alignment explanation
Indices: 279424--279456 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
279414 ATAAATATTA
279424 TTTAATT-AATTAATTT
1 TTTAATTCAA-TAATTT
279440 TTTAATTCAATAATTT
1 TTTAATTCAATAATTT
279456 T
1 T
279457 CTCAACTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATTCAATAATTT
Found at i:286133 original size:30 final size:30
Alignment explanation
Indices: 286099--286156 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
286089 TATCAACATG
*
286099 GTGTCACCCCAAAGGACTAGTAGATAACCA
1 GTGTCACCCCAAAGGACCAGTAGATAACCA
* *
286129 GTGTCACCCCGAAGGGCCAGTAGATAAC
1 GTGTCACCCCAAAGGACCAGTAGATAAC
286157 TGCCAACACG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.16
Consensus pattern (30 bp):
GTGTCACCCCAAAGGACCAGTAGATAACCA
Found at i:288753 original size:16 final size:17
Alignment explanation
Indices: 288728--288760 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
288718 GTTAAAACGC
*
288728 CATTGTAACTAT-TGTA
1 CATTGAAACTATGTGTA
288744 CATTGAAACTATGTGTA
1 CATTGAAACTATGTGTA
288761 AGTTTGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (17 bp):
CATTGAAACTATGTGTA
Found at i:302363 original size:25 final size:25
Alignment explanation
Indices: 302335--302385 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
302325 TAGCTATGTT
302335 CTGACCCACAGCTCATGTGAGCATA
1 CTGACCCACAGCTCATGTGAGCATA
** * *
302360 CTGATTCACAGCTTATGTGAGTATA
1 CTGACCCACAGCTCATGTGAGCATA
302385 C
1 C
302386 ATGTACAGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (25 bp):
CTGACCCACAGCTCATGTGAGCATA
Found at i:308203 original size:379 final size:378
Alignment explanation
Indices: 307488--308247 Score: 1385
Period size: 379 Copynumber: 2.0 Consensus size: 378
307478 AATACAAAAT
307488 AATTATATGCAATATATTAATCAAAATCTCAATTAAATATCATTACATCACATATGATCAAGTAA
1 AATTATATGCAATATATTAATCAAAATCTCAATTAAATATCATTACATCACATATGATCAAGTAA
*
307553 AACATGTAATTCAATCAATTTCAGGTCTCTATCAAGCTTACAAAAGCTTAAAAATAAGCCTTATC
66 AACATGTAATTCAATCAATTTCAGGTCTATATCAAGCTTACAAAAGCTTAAAAATAAGCCTTATC
* *
307618 AAACATTGATCAATTTGGAACAAAAACAAAAAGATAGGAAAAAACCTGTAAATAAGAGTCACAGA
131 AAACATTGATCAATTTGGAACAAAAACAAAAACATAGGAAAAAAACTGTAAATAAGAGTCACAGA
*
307683 ACCGTGTATTGTAACATCGCTAACTCGTATCCGTCGTCAAAATAGGGTTACGGAGTATTACTATA
196 ACCGTGTATTGTAACATCGCTAACTCGTATCCGTCGTCAAAATAGGGTTACAGAGTATTACTATA
307748 AAAACATAACATTGAAATATACATTTCATATATTAATATAAACATGGTATAAAACATTCATTCAC
261 AAAACATAACATTGAAATATACATTTCATATATTAATATAAACATGGTATAAAACATTCATTCAC
* *
307813 ATACAAACCGTCCCTAAATCGAGCTCTCGAGGACCTAAATATACTTTAGAAAC
326 ATACAAACCGTCCCTAAATCGAGCCCTCGAGGACATAAATATACTTTAGAAAC
*
307866 AATTATATGCAATGTATTAATCAAAATCTCAATTAAATATCATTACATCACATATGATCAAGTAA
1 AATTATATGCAATATATTAATCAAAATCTCAATTAAATATCATTACATCACATATGATCAAGTAA
* * * *
307931 AACATGTAATTCAATCAATTTTAGGTTTATATCGAGCTTACAAAAGCTTAATAATAAGCCTTATC
66 AACATGTAATTCAATCAATTTCAGGTCTATATCAAGCTTACAAAAGCTTAAAAATAAGCCTTATC
*
307996 AAACATTGATCAATTTGGAACAAAAACAAAAACATAGGAAAAAAAACTGTAAATAGGAGTCACAG
131 AAACATTGATCAATTTGGAACAAAAACAAAAACATAGG-AAAAAAACTGTAAATAAGAGTCACAG
* *
308061 AACCGTGTATTGTAACATCGCTAACTCGTATCCGTCGTCGAAATAGGGTTACAGAGTATTACTGT
195 AACCGTGTATTGTAACATCGCTAACTCGTATCCGTCGTCAAAATAGGGTTACAGAGTATTACTAT
308126 AAAAACATAACATTGAAATATACATTTCATATATTAATATAAACATGGTATAAAACATTCATTCA
260 AAAAACATAACATTGAAATATACATTTCATATATTAATATAAACATGGTATAAAACATTCATTCA
308191 CATACAAACCGTCCCTAAATCGAGCCCTCGAGGACATAAATATACTTTAGAAAC
325 CATACAAACCGTCCCTAAATCGAGCCCTCGAGGACATAAATATACTTTAGAAAC
308245 AAT
1 AAT
308248 CCGAGACTAA
Statistics
Matches: 367, Mismatches: 14, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
378 161 0.44
379 206 0.56
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.28
Consensus pattern (378 bp):
AATTATATGCAATATATTAATCAAAATCTCAATTAAATATCATTACATCACATATGATCAAGTAA
AACATGTAATTCAATCAATTTCAGGTCTATATCAAGCTTACAAAAGCTTAAAAATAAGCCTTATC
AAACATTGATCAATTTGGAACAAAAACAAAAACATAGGAAAAAAACTGTAAATAAGAGTCACAGA
ACCGTGTATTGTAACATCGCTAACTCGTATCCGTCGTCAAAATAGGGTTACAGAGTATTACTATA
AAAACATAACATTGAAATATACATTTCATATATTAATATAAACATGGTATAAAACATTCATTCAC
ATACAAACCGTCCCTAAATCGAGCCCTCGAGGACATAAATATACTTTAGAAAC
Found at i:326114 original size:43 final size:41
Alignment explanation
Indices: 326024--326172 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 41
326014 GTTACTCGGT
* * *
326024 GGAATCAGCACTTAGCAACCACC-TTATATTC-AGTGATACGG
1 GGAATCAACACTTAGCAACC-CCTTTACAATCAAG-GATACGG
* * *
326065 GGAATCATCACATAACAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAACACTTAGCAACCCCTTT-ACAATCAAGGATACGG
* * ** *
326107 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGG
1 -GGAATCAACACTTAGCAACC-CCTTTACAATCAAGGATACGG
326150 GGAATCAACACTTAGCAACCCCT
1 GGAATCAACACTTAGCAACCCCT
326173 CAGGGAATCT
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
40 2 0.02
41 22 0.24
42 30 0.33
43 31 0.34
44 5 0.06
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (41 bp):
GGAATCAACACTTAGCAACCCCTTTACAATCAAGGATACGG
Found at i:326162 original size:42 final size:43
Alignment explanation
Indices: 326020--326169 Score: 164
Period size: 42 Copynumber: 3.6 Consensus size: 43
326010 AACCGTTACT
* * *
326020 CGGTGGAATCAGCACTTAGCAACCACC-TTATATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
* * * *
326062 CGG-GGAATCATCACATAACAACC-CCTTTCACAATCAAGGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACAATCAATGATA
* * *
326104 CGGTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
*
326147 CGG-GGAATCAACACTTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACC
326170 CCTCAGGGAA
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
40 2 0.02
41 19 0.21
42 34 0.38
43 29 0.33
44 5 0.06
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (43 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
Found at i:329482 original size:23 final size:23
Alignment explanation
Indices: 329448--329513 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
329438 TAAAAATGAT
*
329448 AAAATT-TTAATTTAATCTTTTA
1 AAAATTATTAATTTATTCTTTTA
* *
329470 AAAATTATTAATTTATTATTATA
1 AAAATTATTAATTTATTCTTTTA
*
329493 AAAATTA-CAATTTATTCTTTT
1 AAAATTATTAATTTATTCTTTT
329514 TAACTCCTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
22 17 0.46
23 20 0.54
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (23 bp):
AAAATTATTAATTTATTCTTTTA
Found at i:333978 original size:4 final size:4
Alignment explanation
Indices: 333939--333963 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
333929 AATAGAAAGG
333939 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
333964 ATGACACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:336720 original size:54 final size:54
Alignment explanation
Indices: 336642--336753 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
336632 AGACCCCAAA
* * ** * * *
336642 ATAGGGTAAAATGATCGAAATACCCTTATAGGGTAAAATGACCGAAATATCCCC
1 ATAGGATAAAATAATCGAAATACCCCCATAGAGTAAAATAACCGAAATACCCCC
*
336696 ATAGGATAAAATAATTGAAATACCCCCATAGAGTAAAATAACCGAAATACCCCC
1 ATAGGATAAAATAATCGAAATACCCCCATAGAGTAAAATAACCGAAATACCCCC
336750 ATAG
1 ATAG
336754 AGTAAATCAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.21
Consensus pattern (54 bp):
ATAGGATAAAATAATCGAAATACCCCCATAGAGTAAAATAACCGAAATACCCCC
Found at i:336774 original size:26 final size:27
Alignment explanation
Indices: 336642--336759 Score: 130
Period size: 27 Copynumber: 4.4 Consensus size: 27
336632 AGACCCCAAA
* * * **
336642 ATAGGGTAAAATGATCGAAATACCCTT
1 ATAGAGTAAAATAACCGAAATACCCCC
* * *
336669 ATAGGGTAAAATGACCGAAATATCCCC
1 ATAGAGTAAAATAACCGAAATACCCCC
**
336696 ATAG-GATAAAATAATTGAAATACCCCC
1 ATAGAG-TAAAATAACCGAAATACCCCC
336723 ATAGAGTAAAATAACCGAAATACCCCC
1 ATAGAGTAAAATAACCGAAATACCCCC
336750 ATAGAGTAAA
1 ATAGAGTAAA
336760 TCACTATTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 77 0.97
28 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (27 bp):
ATAGAGTAAAATAACCGAAATACCCCC
Found at i:340185 original size:27 final size:27
Alignment explanation
Indices: 340143--340267 Score: 182
Period size: 27 Copynumber: 4.7 Consensus size: 27
340133 CTATAACGAG
*
340143 ACCCCTATAGTGTAAAATGACCGAAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
*
340170 ACCCCTATAGGATAAAATGACCGAAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
* *
340197 ACCCCCATAGGGTAAAATGATCGAAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
340224 AGCCCC-ATAGGGTAAAATGACCGAAAT
1 A-CCCCTATAGGGTAAAATGACCGAAAT
*
340251 ACCCC-GTAGGGTAAAAT
1 ACCCCTATAGGGTAAAAT
340268 CACTGTTATA
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
26 15 0.17
27 71 0.79
28 4 0.04
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.18
Consensus pattern (27 bp):
ACCCCTATAGGGTAAAATGACCGAAAT
Found at i:340278 original size:26 final size:25
Alignment explanation
Indices: 340154--340285 Score: 120
Period size: 27 Copynumber: 5.0 Consensus size: 25
340144 CCCCTATAGT
*
340154 GTAAAATGACCGAAATACCCCTATAGG
1 GTAAAATCACCGAAATACCCC--TAGG
* *
340181 ATAAAATGACCGAAATACCCCCATAGG
1 GTAAAATCACCGAAATA-CCCC-TAGG
* *
340208 GTAAAATGATCGAAATAGCCCCATAGG
1 GTAAAATCACCGAAATA-CCCC-TAGG
*
340235 GTAAAATGACCGAAATACCCCGTAGG
1 GTAAAATCACCGAAATACCCC-TAGG
* **
340261 GTAAAATCACTGTTATACCCCTAGG
1 GTAAAATCACCGAAATACCCCTAGG
340286 AGATGAAATG
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
25 4 0.04
26 25 0.27
27 61 0.65
28 4 0.04
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (25 bp):
GTAAAATCACCGAAATACCCCTAGG
Found at i:342805 original size:56 final size:52
Alignment explanation
Indices: 342734--342975 Score: 167
Period size: 50 Copynumber: 4.7 Consensus size: 52
342724 GGGAATGAGA
* * * *
342734 TCCCATGTAATACCATGTTTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-TACTGA-G--ATGAGAGG
* *
342790 TCCCACGTAAGACCATGTCTAGGACATGGCGTTGG--TACTGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATACTGAGATGAGAGG
* * * * * **
342840 TCCCCCGTAAGACCTTGTCTGGGACATGGCATGGGC--ACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATACTGAGATGAGAGG
* * * ** * * **
342890 TCTCATGTAAGACCATATCTGGGATTTGGCATTTGCAATAC--A-A-GAAACA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGC-ATACTGAGATGAGAGG
* *
342939 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
342976 AGTTATTATC
Statistics
Matches: 149, Mismatches: 33, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
48 1 0.01
49 33 0.22
50 76 0.51
51 1 0.01
52 1 0.01
53 7 0.05
56 30 0.20
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (52 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATACTGAGATGAGAGG
Found at i:344988 original size:17 final size:17
Alignment explanation
Indices: 344930--344989 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 17
344920 TGGATCATTT
* *
344930 TCAATTTTTTTATGAAG
1 TCAATTTTTTTGTGAGG
*
344947 TCAATTTTTTTGTGAGA
1 TCAATTTTTTTGTGAGG
*
344964 TCAATTTTTTTGTGGGG
1 TCAATTTTTTTGTGAGG
344981 TC-ATTTTTT
1 TCAATTTTTT
344990 AGTTTTTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
16 7 0.18
17 31 0.82
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.57
Consensus pattern (17 bp):
TCAATTTTTTTGTGAGG
Found at i:346409 original size:28 final size:28
Alignment explanation
Indices: 346378--346432 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
346368 ACTATAGAGT
* * * *
346378 CTATTTTTTTCGTACTTCGCCATAAAGG
1 CTATTCTTTTCATACTTCACCACAAAGG
346406 CTATTCTTTTCATACTTCACCACAAAG
1 CTATTCTTTTCATACTTCACCACAAAG
346433 ACTTCCATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.40
Consensus pattern (28 bp):
CTATTCTTTTCATACTTCACCACAAAGG
Found at i:350795 original size:109 final size:109
Alignment explanation
Indices: 350604--350822 Score: 438
Period size: 109 Copynumber: 2.0 Consensus size: 109
350594 GTACAAGTTG
350604 TTGTACACTTTATAACTTATTCATGGAATTTACTCATATTCACTTCCATTCATTATATTCACTCA
1 TTGTACACTTTATAACTTATTCATGGAATTTACTCATATTCACTTCCATTCATTATATTCACTCA
350669 TTACTTTAATGTCACTTCGTATGTTTTCACTTTACTAGTTTAAT
66 TTACTTTAATGTCACTTCGTATGTTTTCACTTTACTAGTTTAAT
350713 TTGTACACTTTATAACTTATTCATGGAATTTACTCATATTCACTTCCATTCATTATATTCACTCA
1 TTGTACACTTTATAACTTATTCATGGAATTTACTCATATTCACTTCCATTCATTATATTCACTCA
350778 TTACTTTAATGTCACTTCGTATGTTTTCACTTTACTAGTTTAAT
66 TTACTTTAATGTCACTTCGTATGTTTTCACTTTACTAGTTTAAT
350822 T
1 T
350823 ACTTATTTGT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (109 bp):
TTGTACACTTTATAACTTATTCATGGAATTTACTCATATTCACTTCCATTCATTATATTCACTCA
TTACTTTAATGTCACTTCGTATGTTTTCACTTTACTAGTTTAAT
Found at i:352120 original size:14 final size:14
Alignment explanation
Indices: 352101--352130 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
352091 AAGTTTGTTA
352101 CATGTGTCAAGTTC
1 CATGTGTCAAGTTC
352115 CATGTGTCAAGTTC
1 CATGTGTCAAGTTC
352129 CA
1 CA
352131 CTATAAGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (14 bp):
CATGTGTCAAGTTC
Found at i:368566 original size:19 final size:20
Alignment explanation
Indices: 368536--368585 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
368526 ATTGAAATAG
368536 AATAGAAGGAAA-AAGAGAAA
1 AATAGAAGGAAACAAGA-AAA
368556 AATAG-AGGAAACAAGAAAA
1 AATAGAAGGAAACAAGAAAA
368575 AA-AGAA-GAAAC
1 AATAGAAGGAAAC
368586 TGACAAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 7 0.25
19 12 0.43
20 9 0.32
ACGTcount: A:0.70, C:0.04, G:0.22, T:0.04
Consensus pattern (20 bp):
AATAGAAGGAAACAAGAAAA
Found at i:368574 original size:18 final size:19
Alignment explanation
Indices: 368536--368585 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
368526 ATTGAAATAG
*
368536 AATAGAAGGAAAAAGAGAAA
1 AATAG-AGGAAACAGAGAAA
368556 AATAGAGGAAACA-AGAAA
1 AATAGAGGAAACAGAGAAA
* *
368574 AAAAGAAGAAAC
1 AATAGAGGAAAC
368586 TGACAAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 15 0.56
19 7 0.26
20 5 0.19
ACGTcount: A:0.70, C:0.04, G:0.22, T:0.04
Consensus pattern (19 bp):
AATAGAGGAAACAGAGAAA
Found at i:384426 original size:50 final size:51
Alignment explanation
Indices: 384364--384553 Score: 235
Period size: 51 Copynumber: 3.7 Consensus size: 51
384354 ATTATCATTC
* *
384364 GATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCG
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTTCG
* *
384415 GAT-CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCG
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CTTTTCG
* * * *
384466 G-TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTA-TCTATC-
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACT-TTTCG
* *
384516 AATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTG
384554 TTTATAGGTA
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
50 39 0.32
51 80 0.67
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
GATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTTCG
Found at i:388804 original size:25 final size:25
Alignment explanation
Indices: 388775--388828 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
388765 GTAAGTGTAC
*
388775 ACAACCGTTATCAAGTAATAAAGTG
1 ACAACCATTATCAAGTAATAAAGTG
388800 ACAACCATTATCAAGTAATAAAGTG
1 ACAACCATTATCAAGTAATAAAGTG
388825 ACAA
1 ACAA
388829 GTAATAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (25 bp):
ACAACCATTATCAAGTAATAAAGTG
Found at i:388831 original size:15 final size:15
Alignment explanation
Indices: 388811--388843 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
388801 CAACCATTAT
388811 CAAGTAATAAAGTGA
1 CAAGTAATAAAGTGA
388826 CAAGTAATAAAGTGA
1 CAAGTAATAAAGTGA
388841 CAA
1 CAA
388844 CCGTTATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (15 bp):
CAAGTAATAAAGTGA
Found at i:388841 original size:40 final size:40
Alignment explanation
Indices: 388786--388868 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
388776 CAACCGTTAT
388786 CAAGTAATAAAGTGACAACCATTATCAAGTAATAAAGTGA
1 CAAGTAATAAAGTGACAACCATTATCAAGTAATAAAGTGA
* *
388826 CAAGTAATAAAGTGACAACCGTTATCAATTAATAAAGTGA
1 CAAGTAATAAAGTGACAACCATTATCAAGTAATAAAGTGA
388866 CAA
1 CAA
388869 TCATTATCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.23
Consensus pattern (40 bp):
CAAGTAATAAAGTGACAACCATTATCAAGTAATAAAGTGA
Found at i:388858 original size:25 final size:25
Alignment explanation
Indices: 388830--388893 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
388820 AAGTGACAAG
* *
388830 TAATAAAGTGACAACCGTTATCAAT
1 TAATAAAGTGACAACCATTATCAAC
*
388855 TAATAAAGTGACAATCATTATCAAC
1 TAATAAAGTGACAACCATTATCAAC
388880 TAATAAAGTGACAA
1 TAATAAAGTGACAA
388894 GTAAATGACG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (25 bp):
TAATAAAGTGACAACCATTATCAAC
Found at i:388884 original size:65 final size:65
Alignment explanation
Indices: 388775--388897 Score: 219
Period size: 65 Copynumber: 1.9 Consensus size: 65
388765 GTAAGTGTAC
*
388775 ACAACCGTTATCAAGTAATAAAGTGACAACCATTATCAAGTAATAAAGTGACAAGTAATAAAGTG
1 ACAACCGTTATCAAGTAATAAAGTGACAACCATTATCAACTAATAAAGTGACAAGTAATAAAGTG
* *
388840 ACAACCGTTATCAATTAATAAAGTGACAATCATTATCAACTAATAAAGTGACAAGTAA
1 ACAACCGTTATCAAGTAATAAAGTGACAACCATTATCAACTAATAAAGTGACAAGTAA
388898 ATGACGAGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (65 bp):
ACAACCGTTATCAAGTAATAAAGTGACAACCATTATCAACTAATAAAGTGACAAGTAATAAAGTG
Found at i:399812 original size:40 final size:41
Alignment explanation
Indices: 399768--399848 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
399758 GTAGCAGTTT
* *
399768 GGGCCTTAGCCCATCTCAGTA-CAGTATCAAAT-ATGCAGTA
1 GGGCCTTAGCCCATCACAGTATCAGTAGC-AATCATGCAGTA
*
399808 GGGCCTTAGCTCATCACAGTATCAGTAGCAATCATGCAGTA
1 GGGCCTTAGCCCATCACAGTATCAGTAGCAATCATGCAGTA
399849 TTCAGTAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 22 0.61
41 14 0.39
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (41 bp):
GGGCCTTAGCCCATCACAGTATCAGTAGCAATCATGCAGTA
Found at i:417817 original size:24 final size:23
Alignment explanation
Indices: 417793--417838 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
417783 AAACTACTTC
417793 TGAAGAAAACTCAAGAGAGAATTCT
1 TGAAG-AAACTCAA-AGAGAATTCT
*
417818 TGGAGAAACTCAAAGAGAATT
1 TGAAGAAACTCAAAGAGAATT
417839 TTCACTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 8 0.40
25 4 0.20
ACGTcount: A:0.48, C:0.11, G:0.22, T:0.20
Consensus pattern (23 bp):
TGAAGAAACTCAAAGAGAATTCT
Found at i:420349 original size:9 final size:9
Alignment explanation
Indices: 420335--420359 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
420325 GTCTTAGCTG
420335 CAAGATTTC
1 CAAGATTTC
420344 CAAGATTTC
1 CAAGATTTC
420353 CAAGATT
1 CAAGATT
420360 CAGTTTCTTA
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:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (9 bp):
CAAGATTTC
Found at i:420743 original size:21 final size:19
Alignment explanation
Indices: 420711--420749 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
420701 ATAGATTTTA
420711 GCAAAATTTAACACAATTT
1 GCAAAATTTAACACAATTT
*
420730 GCAACAATTATAACATAATT
1 GCAA-AATT-TAACACAATT
420750 AAACTAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (19 bp):
GCAAAATTTAACACAATTT
Found at i:423208 original size:41 final size:42
Alignment explanation
Indices: 423091--423212 Score: 133
Period size: 41 Copynumber: 2.9 Consensus size: 42
423081 TTCCGATATA
*
423091 TGTTATCGTGTAAGACCACGTCTGGGACATTGGCATCGACTTG
1 TGTT-TCGTGTAAGACCATGTCTGGGACATTGGCATCGACTTG
* * *
423134 TGTTACGTGTATGACCATGTCT-GAACCATTGGCATCGTA-TT-
1 TGTTTCGTGTAAGACCATGTCTGGGA-CATTGGCATCG-ACTTG
* * *
423175 TGTTTCGTGTAAGACCGTATCTGGGACAGTGGCATCGA
1 TGTTTCGTGTAAGACCATGTCTGGGACATTGGCATCGA
423213 TATGTGATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
40 1 0.02
41 30 0.45
42 30 0.45
43 5 0.08
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTTTCGTGTAAGACCATGTCTGGGACATTGGCATCGACTTG
Found at i:425475 original size:23 final size:23
Alignment explanation
Indices: 425449--425502 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
425439 AACAATTTTA
*
425449 AGTAAAAAGGTGATGAATTATAT
1 AGTAAAAAGGTGATGAATTAAAT
425472 AGTAAAAAGGTGATGAATTAAAT
1 AGTAAAAAGGTGATGAATTAAAT
*
425495 AGGAAAAA
1 AGTAAAAA
425503 TCCTATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (23 bp):
AGTAAAAAGGTGATGAATTAAAT
Done.