Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008607.1 Hibiscus syriacus cultivar Beakdansim tig00111563_pilon, whole genome shotgun sequence
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: 531970
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:4780 original size:69 final size:69
Alignment explanation
Indices: 4664--4806 Score: 252
Period size: 69 Copynumber: 2.1 Consensus size: 69
4654 ATGTGATGAA
* * *
4664 TCCC-GCACCAGCCTGAAGTGTAGGCACCCAGCTCACCCCAACTTTGTGAAGCAACAGCTGCAGC
1 TCCCAGCACCAGCCCGAAGTGTAGGCACCCAACTCACCCCAACATTGTGAAGCAACAGCTGCAGC
4728 CACC
66 CACC
4732 TCCCAGCACCAGCCCGAAGTGTAGGCACCCAACTCACCCCAACATTGTGAAGCAACAGCTGCAGC
1 TCCCAGCACCAGCCCGAAGTGTAGGCACCCAACTCACCCCAACATTGTGAAGCAACAGCTGCAGC
4797 CACC
66 CACC
4801 TCCCAG
1 TCCCAG
4807 TGGTTTGTTA
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
68 4 0.06
69 67 0.94
ACGTcount: A:0.27, C:0.41, G:0.20, T:0.13
Consensus pattern (69 bp):
TCCCAGCACCAGCCCGAAGTGTAGGCACCCAACTCACCCCAACATTGTGAAGCAACAGCTGCAGC
CACC
Found at i:5101 original size:29 final size:30
Alignment explanation
Indices: 5055--5138 Score: 73
Period size: 31 Copynumber: 2.8 Consensus size: 30
5045 CAAATTTTGG
* **
5055 TTAGTGATCAAAACATAAATTTTG-AAAGT
1 TTAGTGACCAAAGTATAAATTTTGAAAAGT
*
5084 TTAGTGACCAAAGTATAAAGTTTAGAAAAGT
1 TTAGTGACCAAAGTATAAA-TTTTGAAAAGT
* *
5115 TCAAG-GACCAAAGTGATAATTTTT
1 T-TAGTGACCAAAGT-ATAAATTTT
5139 CCGAAAAAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
29 16 0.36
30 4 0.09
31 18 0.41
32 6 0.14
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (30 bp):
TTAGTGACCAAAGTATAAATTTTGAAAAGT
Found at i:11160 original size:55 final size:55
Alignment explanation
Indices: 11094--11201 Score: 171
Period size: 55 Copynumber: 2.0 Consensus size: 55
11084 GCGTTCAGAT
* *
11094 GATTCATGAAGAAGAACATTCGACGAATGAAGAAATTTGAACCTGACTGAAGAAC
1 GATTCATGAAGAAGAACATCCGACGAATGAAGAAATTTGAAACTGACTGAAGAAC
* * *
11149 GATTCATGAAGAAGGACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGA
1 GATTCATGAAGAAGAACATCCGACGAATGAAGAAATTTGAAACTGACTGAAGA
11202 CTGATCCACA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (55 bp):
GATTCATGAAGAAGAACATCCGACGAATGAAGAAATTTGAAACTGACTGAAGAAC
Found at i:11216 original size:55 final size:55
Alignment explanation
Indices: 11102--11224 Score: 149
Period size: 55 Copynumber: 2.2 Consensus size: 55
11092 ATGATTCATG
* * * * **
11102 AAGAAGAACATTCGACGAATGAAGAAATTTGAACCTGACTGAAGAACGATTCATG
1 AAGAAGGACATCCGACGAATGAAGAAATTTGAAACTGACTGAAGAACGATCCACA
* *
11157 AAGAAGGACATCCGATGAATGAAGAAATTTGAAACTGATTGAAG-ACTGATCCACA
1 AAGAAGGACATCCGACGAATGAAGAAATTTGAAACTGACTGAAGAAC-GATCCACA
*
11212 AAGAAAGACATCC
1 AAGAAGGACATCC
11225 TAAAGATGTT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 2 0.03
55 56 0.97
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (55 bp):
AAGAAGGACATCCGACGAATGAAGAAATTTGAAACTGACTGAAGAACGATCCACA
Found at i:11999 original size:72 final size:72
Alignment explanation
Indices: 11882--12032 Score: 257
Period size: 72 Copynumber: 2.1 Consensus size: 72
11872 GACCCTATTA
* * *
11882 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGAGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
11947 AAATGAT
66 AAATGAT
*
11954 CAAGAACAGATGAAGACTTCGAGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGAGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
*
12019 AACTGAT
66 AAATGAT
12026 CAAGAAC
1 CAAGAAC
12033 CTGTTAGGGG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.23
Consensus pattern (72 bp):
CAAGAACAGATGAAGACTTCGAGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
AAATGAT
Found at i:16895 original size:36 final size:37
Alignment explanation
Indices: 16810--16910 Score: 134
Period size: 36 Copynumber: 2.8 Consensus size: 37
16800 AAAGCCAAGT
* *
16810 CTTCACCAAAGAGTAATGAAGCAAATCCAATTTGAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCAATTTAAGC
*
16847 CTTCACCAAAGAGTAGTGAAGTAAA-CC-ATCTTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCAAT-TTAAGC
* *
16883 CTTCACCGAAGAGTAGTGAAGCATATCC
1 CTTCACCAAAGAGTAGTGAAGCAAATCC
16911 TTTTTAATCC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
35 2 0.04
36 29 0.52
37 25 0.45
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.22
Consensus pattern (37 bp):
CTTCACCAAAGAGTAGTGAAGCAAATCCAATTTAAGC
Found at i:16932 original size:73 final size:73
Alignment explanation
Indices: 16810--16949 Score: 165
Period size: 73 Copynumber: 1.9 Consensus size: 73
16800 AAAGCCAAGT
*
16810 CTTCACCAAAGAGTAATGAAGCAAATCCAATTTGAGCCTTCACCAAAGAGTAG-TGAAGTAAACC
1 CTTCACCAAAGAGTAATGAAGCAAATCCAATTTAAGCCTTCACCAAAGAGT-GTTGAAGTAAACC
16874 ATCTTAAGC
65 ATCTTAAGC
* * * ** * * ** *
16883 CTTCACCGAAGAGTAGTGAAGCATATCCTTTTTAATCCTTCTCGGAAGAGTGTTGGAGTAAACCA
1 CTTCACCAAAGAGTAATGAAGCAAATCCAATTTAAGCCTTCACCAAAGAGTGTTGAAGTAAACCA
16948 TC
66 TC
16950 AAACTATCAG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
72 1 0.02
73 54 0.98
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (73 bp):
CTTCACCAAAGAGTAATGAAGCAAATCCAATTTAAGCCTTCACCAAAGAGTGTTGAAGTAAACCA
TCTTAAGC
Found at i:17568 original size:54 final size:54
Alignment explanation
Indices: 17306--17549 Score: 398
Period size: 54 Copynumber: 4.5 Consensus size: 54
17296 TAAAGTGGTA
17306 AAGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT
1 AAGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT
17360 AAGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT
1 AAGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT
* * * * *
17414 AAAAAGAAGATGCTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCAAATCCAT
1 AAGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT
* *
17468 AAGAAGAAGATGTTCGAGTTCCATACCCCCTAGATAAAGAGGGAGCGAACCCGT
1 AAGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT
* * *
17522 AAGAAGAAGACGTTTGATTTCCATACTC
1 AAGAAGAAGATGTTCGAGTTCCATACTC
17550 TCTGAAGCAA
Statistics
Matches: 174, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 174 1.00
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (54 bp):
AAGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT
Found at i:17607 original size:51 final size:51
Alignment explanation
Indices: 17544--17721 Score: 275
Period size: 51 Copynumber: 3.5 Consensus size: 51
17534 TTTGATTTCC
* *
17544 ATACTCTCTGAAGCAATAGGGAGCGGACACATTTATTGAAGATCGAGTCTT
1 ATACTCTCTGAAGGAATAGGGAGCGGACACATTTATTGAAGATCGAGTCCT
**
17595 ATACTCTCTGAAGGAATAGGGAGCATACACATTTTATTGAAGATCGAGTCCT
1 ATACTCTCTGAAGGAATAGGGAGCGGACACA-TTTATTGAAGATCGAGTCCT
* * *
17647 ATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATCAAGTCCT
1 ATACTCTCTGAAGGAATAGGGAGCGGACACATTTATTGAAGATCGAGTCCT
*
17698 ATACTCTCTGAAGAAATAGGGAGC
1 ATACTCTCTGAAGGAATAGGGAGC
17722 AGACTTATCA
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
51 69 0.59
52 47 0.41
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (51 bp):
ATACTCTCTGAAGGAATAGGGAGCGGACACATTTATTGAAGATCGAGTCCT
Found at i:22195 original size:20 final size:21
Alignment explanation
Indices: 22165--22204 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
22155 TCTTAGAATA
*
22165 CTTTAGAATATTCTGGAACAC
1 CTTTAGAATATTCTAGAACAC
22186 CTTT-GAATATTCTAGAACA
1 CTTTAGAATATTCTAGAACA
22205 TTGTGGAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (21 bp):
CTTTAGAATATTCTAGAACAC
Found at i:39498 original size:2 final size:2
Alignment explanation
Indices: 39491--39519 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
39481 TTCGAAAATT
39491 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
39520 TGATTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42993 original size:25 final size:25
Alignment explanation
Indices: 42946--42995 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
42936 TTAAACTATT
* * *
42946 AATTTTAATATGTTTTAATACCTAA
1 AATTTTAATATATTTCAAAACCTAA
*
42971 AATTTTAATTTATTTCAAAACCTAA
1 AATTTTAATATATTTCAAAACCTAA
42996 CGTTAAATTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (25 bp):
AATTTTAATATATTTCAAAACCTAA
Found at i:50224 original size:20 final size:22
Alignment explanation
Indices: 50194--50233 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
50184 AATGTTTTTC
50194 TTAATATATATT-TTTTAAGAT
1 TTAATATATATTGTTTTAAGAT
50215 TTAA-ATATATTGTTTTAAG
1 TTAATATATATTGTTTTAAG
50234 GGGATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
TTAATATATATTGTTTTAAGAT
Found at i:50576 original size:24 final size:21
Alignment explanation
Indices: 50534--50582 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
50524 ATCATGTCAG
50534 CACCGTGGACCACCACATCAT
1 CACCGTGGACCACCACATCAT
*
50555 CACCGTGGACCACCACTTCAT
1 CACCGTGGACCACCACATCAT
50576 CACCGTG
1 CACCGTG
50583 AACTGGCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.43, G:0.16, T:0.16
Consensus pattern (21 bp):
CACCGTGGACCACCACATCAT
Found at i:54373 original size:33 final size:30
Alignment explanation
Indices: 54336--55833 Score: 913
Period size: 30 Copynumber: 49.7 Consensus size: 30
54326 CTTGTAAGCA
* *
54336 TATGGGGGAAGTGGGTGAGGTGATTCATACTTG
1 TATGGAGGAAGT-GGT--GGTGACTCATACTTG
*
54369 TATGGAGGAAGTGGTGGTGACTCGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* ** * * *
54399 TATGGTGGTGGAGGTGGCGACTCGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* **
54429 TATGGAGGAGGTGGTGGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* **
54459 TATGGAGGTGAA--GGTGGCGACTTGTACTTG
1 TATGGA-G-GAAGTGGTGGTGACTCATACTTG
** * * *
54489 TATGGAGGTGGAGGTGGCGACTCGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * * **
54519 TACGGAGGAGGAGGTGGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * * *
54549 TACGGAGGAGGAGGAGGTGACTCATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** * *
54579 TATGGAGGTGGTGGTGGCGACTTATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** * *
54609 TATGGAGGTGGAGGTGGTGACTCGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** **
54639 TATGGAGGTGGTGGTGGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** *
54669 TATGGAGGTGGAGGTGGTGACTCATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** * **
54699 TATGGAGGTGGTGGTTGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * * *
54729 TAAGGAGGAGGAGGAGGTGACTCATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** *
54759 TATGGAGGTGGTGGTGGTGACTTATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * * *
54789 TATAGAGGTGAA--GGTGGTGATTCGTACTTA
1 TATGGA-G-GAAGTGGTGGTGACTCATACTTG
* ** **
54819 TACGGAGGTGGTGGTGGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * * *
54849 TAAGGAGGAGGAGGAGGTGACTCATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** * **
54879 TATGGAGGTGGTGGTAGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** *
54909 TATGGAGGTGGAGGTGGTGACTCATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* ** * ** *
54939 TACGGAGGTGGAGGTGGTGACTTGTACTTA
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** * *
54969 TATGGAGGTGGAGGTGGAGACTCATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** **
54999 TATGGAGGTGGTGGTGGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * * *
55029 TATGGAGGAGGAGGAGGTGACTCGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** **
55059 TATGGAGGTGGTGGTGGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** *
55089 TATGGAGGTGGAGGTGGTGACTCATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* ** * **
55119 TACGGAGGTGGAGGTGGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* ** * *
55149 TATGAAGGTGGAGGTGGAGACTCATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** **
55179 TATGGAGGTGGTGGTGGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * * *
55209 TATGGAGGAGGAGGAGGTGACTCGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* ** * ** *
55239 TACGGAGGTGGTGGTGGAGACTTGTACTTA
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * * * **
55269 TAGGGAGGAGGAGGAGGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * * * *
55299 TACGAAAGAGGTGGTGGTGACTTATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * * *
55329 TATGGAGG-TG-GAGTAGGGGATTCGTACTTG
1 TATGGAGGAAGTG-GT-GGTGACTCATACTTG
* * *
55359 TACGGAGGAGGTGGTGGTGACTTATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * * * *
55389 TATGTAGGAGGAGGAGGTGACTCGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* ** **
55419 TATAGAGGTGGTGGTGGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** * *
55449 TATGGAGGTGGAGGTGGTGACTCGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* ** * * **
55479 TACGGAGGTGGTGTTGATGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** *
55509 TATGGAGGTGGAGGTGGTGACTCATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * *
55539 TACGGAGGAGGTGGTGGTGACTTATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** * *
55569 TATGGAGGTGGTGGTGGTGACTCGTACTTA
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * **
55599 TACGGAGGAGGTGGTGGTGACTTGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* * * *
55629 TACGGAGGAGGAGGAT-GTGACTCGTACTTG
1 TATGGAGGAAGTGG-TGGTGACTCATACTTG
* ** *
55659 TATGGAAGTGGTTGTGGTGACTCATACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* ** *
55689 TATGGAGGAGGTGGTGGTGGTGACTTGTACTTA
1 TATGGAGGA---AGTGGTGGTGACTCATACTTG
** * * *
55722 TATGGAGGTGGTGGTGGTGACTCGTACGTA
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** * * *
55752 TATGGAGGTGGTGTTGGTGACTTATATTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
** * * *
55782 TATGGAGGTGGAGGTGGCGACTCGTACTTG
1 TATGGAGGAAGTGGTGGTGACTCATACTTG
* ** *
55812 TACGGAGGTGGTAGTGGTGACT
1 TATGGAGGAAGTGGTGGTGACT
55834 TGTAAGGTGG
Statistics
Matches: 1215, Mismatches: 233, Indels: 37
0.82 0.16 0.02
Matches are distributed among these distances:
28 3 0.00
29 6 0.00
30 1157 0.95
31 6 0.00
32 7 0.01
33 36 0.03
ACGTcount: A:0.19, C:0.09, G:0.41, T:0.31
Consensus pattern (30 bp):
TATGGAGGAAGTGGTGGTGACTCATACTTG
Found at i:55834 original size:60 final size:60
Alignment explanation
Indices: 54363--55833 Score: 1886
Period size: 60 Copynumber: 24.5 Consensus size: 60
54353 AGGTGATTCA
** * * * * *
54363 TACTTGTATGGAGGAAGTGGTGGTGACTCGTACTTGTATGGTGGTGGAGGTGGCGACTCG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * ** *
54423 TACTTGTATGGAGGAGGTGGTGGTGACTTGTACTTGTATGGAGGTGAAGGTGGCGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * *
54483 TACTTGTATGGAGGTGGAGGTGGCGACTCGTACTTGTACGGAGGAGGAGGTGGTGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * * * *
54543 TACTTGTACGGAGGAGGAGGAGGTGACTCATACTTGTATGGAGGTGGTGGTGGCGACTTA
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
54603 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* *
54663 TACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTATGGAGGTGGTGGTTGTGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * * *
54723 TACTTGTAAGGAGGAGGAGGAGGTGACTCATACTTGTATGGAGGTGGTGGTGGTGACTTA
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * * *
54783 TACTTGTATAGAGGTGAAGGTGGTGATTCGTACTTATACGGAGGTGGTGGTGGTGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * * *
54843 TACTTGTAAGGAGGAGGAGGAGGTGACTCATACTTGTATGGAGGTGGTGGTAGTGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * *
54903 TACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGTGGAGGTGGTGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * *
54963 TACTTATATGGAGGTGGAGGTGGAGACTCATACTTGTATGGAGGTGGTGGTGGTGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* *
55023 TACTTGTATGGAGGAGGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * *
55083 TACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGTGGAGGTGGTGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * *
55143 TACTTGTATGAAGGTGGAGGTGGAGACTCATACTTGTATGGAGGTGGTGGTGGTGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * *
55203 TACTTGTATGGAGGAGGAGGAGGTGACTCGTACTTGTACGGAGGTGGTGGTGGAGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * * * * * * * *
55263 TACTTATAGGGAGGAGGAGGAGGTGACTTGTACTTGTACGAAAGAGGTGGTGGTGACTTA
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * * *
55323 TACTTGTATGGAGGTGGA-GTAGGGGATTCGTACTTGTACGGAGGAGGTGGTGGTGACTTA
1 TACTTGTATGGAGGTGGAGGT-GGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * *
55383 TACTTGTATGTAGGAGGAGGAGGTGACTCGTACTTGTATAGAGGTGGTGGTGGTGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * *
55443 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTACGGAGGTGGTGTTGATGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * *
55503 TACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGAGGTGGTGGTGACTTA
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * *
55563 TACTTGTATGGAGGTGGTGGTGGTGACTCGTACTTATACGGAGGAGGTGGTGGTGACTTG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * * **
55623 TACTTGTACGGAGGAGGAGGAT-GTGACTCGTACTTGTATGGAAGTGGTTGTGGTGACTCA
1 TACTTGTATGGAGGTGGAGG-TGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * *
55683 TACTTGTATGGAGGAGGTGGTGGTGGTGACTTGTACTTATATGGAGGTGGTGGTGGTGACTCG
1 TACTTGTAT---GGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
* * * * ** * * * *
55746 TACGTATATGGAGGTGGTGTTGGTGACTTATATTTGTATGGAGGTGGAGGTGGCGACTCG
1 TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
*
55806 TACTTGTACGGAGGTGGTA-GTGGTGACT
1 TACTTGTATGGAGGTGG-AGGTGGTGACT
55834 TGTAAGGTGG
Statistics
Matches: 1243, Mismatches: 160, Indels: 16
0.88 0.11 0.01
Matches are distributed among these distances:
59 1 0.00
60 1190 0.96
61 2 0.00
62 1 0.00
63 49 0.04
ACGTcount: A:0.19, C:0.09, G:0.41, T:0.31
Consensus pattern (60 bp):
TACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTG
Found at i:60610 original size:2 final size:2
Alignment explanation
Indices: 60603--60640 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
60593 ACGTATATCC
60603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60641 GAGATTCACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61505 original size:3 final size:3
Alignment explanation
Indices: 61497--61565 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
61487 TTTGATAGAG
61497 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61545 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
61566 ATTTATCTAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:67863 original size:2 final size:2
Alignment explanation
Indices: 67858--67885 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
67848 TGATGACTAA
67858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67886 TAATCAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72078 original size:29 final size:29
Alignment explanation
Indices: 72036--72094 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
72026 ATAGTCGAGT
*
72036 GATCATTTGATAACTTTTAATTGTCAAAG
1 GATCATTTGATAACTTTTAATAGTCAAAG
* *
72065 GATCATTTTATAACTTTTAATAGTCCAAG
1 GATCATTTGATAACTTTTAATAGTCAAAG
72094 G
1 G
72095 GCTTAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (29 bp):
GATCATTTGATAACTTTTAATAGTCAAAG
Found at i:92766 original size:105 final size:105
Alignment explanation
Indices: 92584--92793 Score: 420
Period size: 105 Copynumber: 2.0 Consensus size: 105
92574 CATTGATGAT
92584 GGGAGATGAGCTTCATAAATTCGGGCGATGCCGGCCCGAAATGGGCTGCAATCCAAGCTCTAGAC
1 GGGAGATGAGCTTCATAAATTCGGGCGATGCCGGCCCGAAATGGGCTGCAATCCAAGCTCTAGAC
92649 AGATATACTTGACATTTCCAGCCGACAGTACTTTCAAAGA
66 AGATATACTTGACATTTCCAGCCGACAGTACTTTCAAAGA
92689 GGGAGATGAGCTTCATAAATTCGGGCGATGCCGGCCCGAAATGGGCTGCAATCCAAGCTCTAGAC
1 GGGAGATGAGCTTCATAAATTCGGGCGATGCCGGCCCGAAATGGGCTGCAATCCAAGCTCTAGAC
92754 AGATATACTTGACATTTCCAGCCGACAGTACTTTCAAAGA
66 AGATATACTTGACATTTCCAGCCGACAGTACTTTCAAAGA
92794 AGAAGATGTT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.22
Consensus pattern (105 bp):
GGGAGATGAGCTTCATAAATTCGGGCGATGCCGGCCCGAAATGGGCTGCAATCCAAGCTCTAGAC
AGATATACTTGACATTTCCAGCCGACAGTACTTTCAAAGA
Found at i:95269 original size:30 final size:31
Alignment explanation
Indices: 95233--95298 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
95223 CACTATTAAA
*
95233 AATTTAAAGC-GTTTT-GTATTTAAATTATT
1 AATTTTAAGCAGTTTTAGTATTTAAATTATT
* * *
95262 AGTTTTAATCAGTTTTAGTATTTAAATTTTT
1 AATTTTAAGCAGTTTTAGTATTTAAATTATT
95293 AATTTT
1 AATTTT
95299 TTTAAAACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 7 0.23
30 5 0.17
31 18 0.60
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (31 bp):
AATTTTAAGCAGTTTTAGTATTTAAATTATT
Found at i:104859 original size:17 final size:17
Alignment explanation
Indices: 104832--104870 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
104822 AATTTACAAT
104832 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
104848 TAATTATAAATAATATC
1 TAATTATAAATAATATC
104865 TAATTA
1 TAATTA
104871 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:104999 original size:9 final size:9
Alignment explanation
Indices: 104985--105010 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
104975 TATATTTAAA
104985 GGTTAATTC
1 GGTTAATTC
104994 GGTTAATTC
1 GGTTAATTC
105003 GGTTAATT
1 GGTTAATT
105011 AACCGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (9 bp):
GGTTAATTC
Found at i:105567 original size:21 final size:20
Alignment explanation
Indices: 105486--105567 Score: 65
Period size: 21 Copynumber: 4.0 Consensus size: 20
105476 TCGCAATCAG
105486 TTTCCAAATCGCAACGCGAT
1 TTTCCAAATCGCAACGCGAT
** *
105506 TCTTGAAAATCGCAATGCGAT
1 T-TTCCAAATCGCAACGCGAT
** * **
105527 AGTACAAATTCGCATTGCGAT
1 TTTCCAAA-TCGCAACGCGAT
105548 TTTCCAGAATCGCAACGCGA
1 TTTCCA-AATCGCAACGCGA
105568 ATATGAAAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
20 5 0.11
21 39 0.85
22 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (20 bp):
TTTCCAAATCGCAACGCGAT
Found at i:105621 original size:20 final size:20
Alignment explanation
Indices: 105593--105784 Score: 275
Period size: 20 Copynumber: 9.7 Consensus size: 20
105583 ACGTGACACA
*
105593 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
105613 TAAACCGCAA--CGT-TCCG
1 TAAATCGCAACGCGTATCCG
105630 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
105650 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
105670 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
105690 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
105710 TAAATCGCAACGAGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
105730 TAAATCGCAACGAC-AATACG
1 TAAATCGCAACG-CGTATCCG
105750 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
105771 TAAATCGCAACGCG
1 TAAATCGCAACGCG
105785 ATTTTTAAAG
Statistics
Matches: 154, Mismatches: 12, Indels: 12
0.87 0.07 0.07
Matches are distributed among these distances:
17 13 0.08
18 3 0.02
19 3 0.02
20 119 0.77
21 16 0.10
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:105933 original size:233 final size:237
Alignment explanation
Indices: 105680--106150 Score: 914
Period size: 233 Copynumber: 2.0 Consensus size: 237
105670 TAAATCGCAA
105680 CGCGTATCCGTAAATCGCAATGCGTATCCGTAAATCGCAACGAGTATCCGTAAATCGCAACGACA
1 CGCGTATCCGTAAATCGCAATGCGTATCCGTAAATCGCAACGAGTATCCGTAAATCGCAACGACA
105745 ATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGCGATTTTTAAAGCGCCATTATAATCGC
66 ATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGCGATTTTTAAAGCGCCATTATAATCGC
105810 TACGCGTATTTTATTTTCAAATTACAAAAACGAATATTAAGACAAATCCCGTAATCGCAACTCAT
131 TACGCGTATTTTATTTTCAAATTACAAAAACGAATATTAAGACAAATCCCGTAATCGCAACTCAT
105875 -A-CTAAACCT-AAATCACAACTCAGTCCCA-CTCCATCTCT
196 AACCTAAACCTAAAATCACAACTCAGTCCCATCTCCATCTCT
105913 CGCGTATCCGTAAATCGCAATGCGTATCCGTAAATCGCAACGAGTATCCGTAAATCGCAACGACA
1 CGCGTATCCGTAAATCGCAATGCGTATCCGTAAATCGCAACGAGTATCCGTAAATCGCAACGACA
105978 ATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGCGATTTTTAAAGCGCCATTATAATCGC
66 ATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGCGATTTTTAAAGCGCCATTATAATCGC
106043 TACGCGTATTTTATTTTCAAATTACAAAAACGAATATTAAGACAAATCCCGTAATCGCAACTCAT
131 TACGCGTATTTTATTTTCAAATTACAAAAACGAATATTAAGACAAATCCCGTAATCGCAACTCAT
106108 AACCTAAACCTAAAATCACAACTCAGTCCCATCTCCATCTCT
196 AACCTAAACCTAAAATCACAACTCAGTCCCATCTCCATCTCT
106150 C
1 C
106151 ACTCTCTACG
Statistics
Matches: 234, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
233 195 0.83
234 1 0.00
235 8 0.03
236 19 0.08
237 11 0.05
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (237 bp):
CGCGTATCCGTAAATCGCAATGCGTATCCGTAAATCGCAACGAGTATCCGTAAATCGCAACGACA
ATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGCGATTTTTAAAGCGCCATTATAATCGC
TACGCGTATTTTATTTTCAAATTACAAAAACGAATATTAAGACAAATCCCGTAATCGCAACTCAT
AACCTAAACCTAAAATCACAACTCAGTCCCATCTCCATCTCT
Found at i:105939 original size:20 final size:20
Alignment explanation
Indices: 105913--106017 Score: 149
Period size: 20 Copynumber: 5.2 Consensus size: 20
105903 CTCCATCTCT
105913 CGCGTATCCGTAAATCGCAA
1 CGCGTATCCGTAAATCGCAA
*
105933 TGCGTATCCGTAAATCGCAA
1 CGCGTATCCGTAAATCGCAA
*
105953 CGAGTATCCGTAAATCGCAA
1 CGCGTATCCGTAAATCGCAA
* *
105973 CGAC-AATACGTAAAATCGCAA
1 CG-CGTATCCGT-AAATCGCAA
105994 CGCGTATCCGTAAATCGCAA
1 CGCGTATCCGTAAATCGCAA
106014 CGCG
1 CGCG
106018 ATTTTTAAAG
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
20 58 0.78
21 16 0.22
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (20 bp):
CGCGTATCCGTAAATCGCAA
Found at i:106001 original size:41 final size:40
Alignment explanation
Indices: 105913--106018 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 40
105903 CTCCATCTCT
* * *
105913 CGCGTATCCGTAAATCGCAATGCGTATCCGTAAATCGCAA
1 CGCGTATCCGTAAATCGCAACGCGAATACGTAAATCGCAA
*
105953 CGAGTATCCGTAAATCGCAACGAC-AATACGTAAAATCGCAA
1 CGCGTATCCGTAAATCGCAACG-CGAATACGT-AAATCGCAA
105994 CGCGTATCCGTAAATCGCAACGCGA
1 CGCGTATCCGTAAATCGCAACGCGA
106019 TTTTTAAAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
40 26 0.45
41 32 0.55
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (40 bp):
CGCGTATCCGTAAATCGCAACGCGAATACGTAAATCGCAA
Found at i:106411 original size:14 final size:14
Alignment explanation
Indices: 106392--106447 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
106382 TTTCATTTCG
106392 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
106406 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
106423 CGTGTGCTATTCTCT
1 CGT-TGCGATTCTCT
106438 CGTTGCGATT
1 CGTTGCGATT
106448 TTCAAGTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 14 0.41
15 5 0.15
16 6 0.18
17 5 0.15
18 4 0.12
ACGTcount: A:0.09, C:0.23, G:0.21, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:106440 original size:32 final size:33
Alignment explanation
Indices: 106382--106451 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 33
106372 TTTCACTATA
106382 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
* *
106415 TTTCATTTCGTG-TGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
106447 TTTCA
1 TTTCA
106452 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 24 0.69
33 11 0.31
ACGTcount: A:0.10, C:0.23, G:0.19, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
Found at i:106555 original size:19 final size:19
Alignment explanation
Indices: 106531--106639 Score: 95
Period size: 19 Copynumber: 5.8 Consensus size: 19
106521 TGCAGAAGAG
106531 TCGCAACGAGAGAATGAAA
1 TCGCAACGAGAGAATGAAA
* * *
106550 TCGCAACGCGAAAATGACTA
1 TCGCAACGAGAGAATGA-AA
106570 TCTGCAACGAGAGAAATGAAAA
1 TC-GCAACGAGAG-AATG-AAA
106592 TCGCAAC--GAG-A-G-AA
1 TCGCAACGAGAGAATGAAA
*
106606 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATG-AAA
106625 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
106640 CGCAACGCGA
Statistics
Matches: 72, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
14 9 0.12
16 4 0.06
17 2 0.03
19 30 0.42
20 6 0.08
21 13 0.18
22 7 0.10
23 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
TCGCAACGAGAGAATGAAA
Found at i:106597 original size:21 final size:21
Alignment explanation
Indices: 106531--106605 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
106521 TGCAGAAGAG
106531 TCGCAACGAGAG-AATG-AAA
1 TCGCAACGAGAGAAATGAAAA
* **
106550 TCGCAACGCGA-AAATGACTA
1 TCGCAACGAGAGAAATGAAAA
106570 TCTGCAACGAGAGAAATGAAAA
1 TC-GCAACGAGAGAAATGAAAA
106592 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
106606 TCGCAACGCG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 14 0.30
20 3 0.07
21 20 0.43
22 9 0.20
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:106609 original size:14 final size:14
Alignment explanation
Indices: 106590--106646 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
106580 GAGAAATGAA
106590 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
106604 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
106623 AATCGCAACGAGAG
1 AATCGCAACGAGAG
106637 AATCGCAACG
1 AATCGCAACG
106647 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:106620 original size:33 final size:33
Alignment explanation
Indices: 106582--106662 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
106572 TGCAACGAGA
106582 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
106615 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
106648 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
106663 TTGCGATTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:106698 original size:14 final size:14
Alignment explanation
Indices: 106679--106734 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
106669 TTTCATTTCA
106679 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
106693 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
106711 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
106725 CGTTGCGATT
1 CGTTGCGATT
106735 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 20 0.56
15 3 0.08
17 3 0.08
18 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:106704 original size:32 final size:32
Alignment explanation
Indices: 106663--106783 Score: 143
Period size: 32 Copynumber: 3.5 Consensus size: 32
106653 CAAAATCGCA
106663 TTGCGATTTCATTTCACGTTGCGATTCTCTCG
1 TTGCGATTTCATTTCACGTTGCGATTCTCTCG
*
106695 TTGCGATTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTCATTTCACGTTGCGATTCTCTCG
*
106727 TTGCGATTTTCATTTCTCTCGTTGCGATAGTCATTCTCTCG
1 TTGCGA-TTTCA-TT-TCACGTTGC----G--ATTCTCTCG
106768 TTGCGATTTCATTTCA
1 TTGCGATTTCATTTCA
106784 ACCAAAAGAC
Statistics
Matches: 77, Mismatches: 3, Indels: 12
0.84 0.03 0.13
Matches are distributed among these distances:
32 37 0.48
33 5 0.06
34 2 0.03
35 8 0.10
38 2 0.03
39 3 0.04
40 5 0.06
41 15 0.19
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.45
Consensus pattern (32 bp):
TTGCGATTTCATTTCACGTTGCGATTCTCTCG
Found at i:106745 original size:21 final size:21
Alignment explanation
Indices: 106719--106782 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
106709 CGCGTTGCGA
106719 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
106740 TTCTCTCGTTGCGATAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
106760 TTCTCTCGTTGCGA-TTTCAT
1 TTCTCTCGTTGCGATTTTCAT
106780 TTC
1 TTC
106783 AACCAAAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 3 0.08
20 17 0.45
21 18 0.47
ACGTcount: A:0.11, C:0.25, G:0.16, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:108709 original size:19 final size:19
Alignment explanation
Indices: 108669--108797 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
108659 TAGTTTACTT
* *
108669 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
108689 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
108708 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
* *
108727 TCACAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
108741 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
108760 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAACCAAAA
108774 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
108793 TCGCA
1 TCGCA
108798 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:108747 original size:14 final size:14
Alignment explanation
Indices: 108723--108781 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
108713 ACGCGAAATG
*
108723 AAAATCACAACGAC
1 AAAATCGCAACGAC
*
108737 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
108756 AAAATCGCAACGAC
1 AAAATCGCAACGAC
108770 AAAATCGCAACG
1 AAAATCGCAACG
108782 CGAAACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 21 0.57
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.27
ACGTcount: A:0.49, C:0.29, G:0.15, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:108795 original size:33 final size:33
Alignment explanation
Indices: 108703--108797 Score: 154
Period size: 33 Copynumber: 2.9 Consensus size: 33
108693 AACGCGAAAC
** *
108703 CAAAATCGCAACGCGAAATGAAAATCACAACGA
1 CAAAATCGCAACGCGAAACCAAAATCGCAACGA
*
108736 CAGAATCGCAACGCGAAACCAAAATCGCAACGA
1 CAAAATCGCAACGCGAAACCAAAATCGCAACGA
108769 CAAAATCGCAACGCGAAACCAAAATCGCA
1 CAAAATCGCAACGCGAAACCAAAATCGCA
108798 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.48, C:0.28, G:0.16, T:0.07
Consensus pattern (33 bp):
CAAAATCGCAACGCGAAACCAAAATCGCAACGA
Found at i:108795 original size:52 final size:52
Alignment explanation
Indices: 108669--108797 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
108659 TAGTTTACTT
** *
108669 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
* *
108721 T-G-AAAATC-ACAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACA-CGA-AAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CAAAA
*
108774 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
108798 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
50 4 0.06
51 5 0.08
52 40 0.65
53 5 0.08
54 5 0.08
55 3 0.05
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
Found at i:108815 original size:19 final size:19
Alignment explanation
Indices: 108793--108962 Score: 132
Period size: 19 Copynumber: 9.6 Consensus size: 19
108783 GAAACCAAAA
*
108793 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
108812 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
108826 T--CGTTGAGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
108843 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
108859 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
**
108875 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
108894 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
108913 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
108932 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
108952 TCGTGTTGCGA
1 TCGCGTTGCGA
108963 AAGTAAACTA
Statistics
Matches: 121, Mismatches: 17, Indels: 25
0.74 0.10 0.15
Matches are distributed among these distances:
12 7 0.06
14 11 0.09
15 3 0.02
16 4 0.03
17 7 0.06
18 8 0.07
19 69 0.57
20 12 0.10
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:108877 original size:32 final size:31
Alignment explanation
Indices: 108798--108887 Score: 137
Period size: 31 Copynumber: 2.9 Consensus size: 31
108788 CAAAATCGCA
108798 TTGCGATTTTCATTTCGCGTTGCGATTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCG
* *
108829 TTGAGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTC--TCG
108862 TTGCGA-TTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
108888 TTGGTTTCGC
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
31 26 0.49
32 19 0.36
33 8 0.15
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (31 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCG
Found at i:108896 original size:51 final size:54
Alignment explanation
Indices: 108827--108946 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 54
108817 TTGCGATTCT
*
108827 CGTTGAGATTTTCATTTCGCATTGCGATTCT-G-TCGTTGCGATT-TCATTTCG
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTGGTTCGTTGCGATTCTCATTTCG
** * *
108878 CGTTGCGATTTTGGTTTCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATTTCG
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTGG--T-TCGTTGCGATTCTCATTTCG
108935 CGTTGCGATTTT
1 CGTTGCGATTTT
108947 AAGTTTCGTG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
51 26 0.45
52 1 0.02
56 11 0.19
57 20 0.34
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (54 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTGGTTCGTTGCGATTCTCATTTCG
Found at i:110809 original size:14 final size:14
Alignment explanation
Indices: 110790--110825 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
110780 ATTGTTTAAT
110790 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
110804 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
110818 TGATTTGT
1 TGATTTGT
110826 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:110945 original size:20 final size:18
Alignment explanation
Indices: 110928--111043 Score: 122
Period size: 19 Copynumber: 6.7 Consensus size: 18
110918 CAAAATGACT
110928 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATG-AA
110948 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
110967 ATCGCAA--CGAGA-G-A
1 ATCGCAATGCGAAATGAA
110981 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAA
110999 ATCGCAATGCGGAAATGAA
1 ATCGCAATGC-GAAATGAA
*
111018 ATCGCAA--CGAGA-G-A
1 ATCGCAATGCGAAATGAA
111032 ATCGCAATGCGA
1 ATCGCAATGCGA
111044 TTTTCATTTC
Statistics
Matches: 86, Mismatches: 3, Indels: 18
0.80 0.03 0.17
Matches are distributed among these distances:
14 16 0.19
15 1 0.01
16 11 0.13
17 6 0.07
18 11 0.13
19 31 0.36
20 10 0.12
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.14
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:111007 original size:51 final size:52
Alignment explanation
Indices: 110928--111043 Score: 200
Period size: 51 Copynumber: 2.2 Consensus size: 52
110918 CAAAATGACT
110928 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAATGCGGAAATG-AAATCGCAACGAGAGA
110981 ATCGCAATGCGAAATG-AAATCGCAATGCGGAAATGAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAATCGCAACGAGAGA
111032 ATCGCAATGCGA
1 ATCGCAATGCGA
111044 TTTTCATTTC
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
51 40 0.65
52 12 0.19
53 10 0.16
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAATCGCAACGAGAGA
Found at i:111096 original size:19 final size:19
Alignment explanation
Indices: 111033--111224 Score: 196
Period size: 19 Copynumber: 10.7 Consensus size: 19
111023 AACGAGAGAA
*
111033 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
111052 TCCGTATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
*
111069 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
111086 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
111105 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
111122 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
111139 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
111158 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
111177 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
* *
111195 T-G-TTTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
111212 TCGCATTGCGATT
1 TCGCATTGCGATT
111225 CTCTCGTTGC
Statistics
Matches: 144, Mismatches: 12, Indels: 34
0.76 0.06 0.18
Matches are distributed among these distances:
14 12 0.08
15 11 0.08
16 10 0.07
17 13 0.09
18 8 0.06
19 56 0.39
20 34 0.24
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:111114 original size:53 final size:52
Alignment explanation
Indices: 111033--111238 Score: 258
Period size: 53 Copynumber: 3.9 Consensus size: 52
111023 AACGAGAGAA
* * *
111033 TCGCAATGCGATTTTCATTTCCGTATTGCGATTCTCTCGTTGCGATTTTTATT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATT
111086 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
111139 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCA--
1 TCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATT
* *
111195 T-G-TTTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
111239 GTAATTTCCG
Statistics
Matches: 140, Mismatches: 7, Indels: 17
0.85 0.04 0.10
Matches are distributed among these distances:
48 8 0.06
50 2 0.01
51 2 0.01
52 13 0.09
53 70 0.50
54 27 0.19
55 3 0.02
56 3 0.02
58 12 0.09
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:111134 original size:34 final size:35
Alignment explanation
Indices: 111090--111257 Score: 184
Period size: 34 Copynumber: 4.8 Consensus size: 35
111080 TTTATTTCGC
111090 ATTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 ATTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
*
111125 -TTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCG
1 ATTGCGATTTTCATTTCCGCATTGCGA--TTC-TCTCG
*
111161 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 -ATTGCGATTTTCATTTCCGCATTGCGATTCTC-TCG
* *
111197 TTTGGGATTTTCATTT-CGCATTGCGATTCTCTCG
1 ATTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
* * **
111231 -TTGCGATTGTAATTTCCGTGTTGCGAT
1 ATTGCGATTTTCATTTCCGCATTGCGAT
111258 AGTCAAATGC
Statistics
Matches: 113, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
33 23 0.20
34 39 0.35
35 17 0.15
36 6 0.05
37 3 0.03
38 15 0.13
39 10 0.09
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (35 bp):
ATTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
Found at i:111159 original size:72 final size:73
Alignment explanation
Indices: 111072--111224 Score: 256
Period size: 72 Copynumber: 2.1 Consensus size: 73
111062 GATTCTCTCG
*
111072 TTGCGATTTTTATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTC-TCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCAT-GTTTGCGATTTT
111135 CATTTCGCA
65 CATTTCGCA
* *
111144 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTTGGGATTTTC
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGTTTGCGATTTTC
111209 ATTTCGCA
66 ATTTCGCA
111217 TTGCGATT
1 TTGCGATT
111225 CTCTCGTTGC
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
72 49 0.64
73 27 0.36
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (73 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGTTTGCGATTTTC
ATTTCGCA
Found at i:113522 original size:12 final size:12
Alignment explanation
Indices: 113505--113529 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
113495 TTCTTCGGGA
113505 CTTTTTCTTCTT
1 CTTTTTCTTCTT
113517 CTTTTTCTTCTT
1 CTTTTTCTTCTT
113529 C
1 C
113530 AGGATTATGA
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:114467 original size:20 final size:20
Alignment explanation
Indices: 114442--114665 Score: 243
Period size: 20 Copynumber: 11.2 Consensus size: 20
114432 CCAGTGTTTT
* *
114442 GATTTACAGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
**
114462 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
* *
114482 GATTTACAGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
**
114502 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
*
114522 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* *
114542 GATTTACGGATACGCATTGC
1 GATTTACGGATTCGCGTTGC
*
114562 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* * *
114582 GATTTACGGATACACGTTGT
1 GATTTACGGATTCGCGTTGC
* *
114602 GGTTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
*
114622 GATTTATGTG-TTCGCGTTGC
1 GATTTACG-GATTCGCGTTGC
* **
114642 GATTTTCATATTCGCGTTGC
1 GATTTACGGATTCGCGTTGC
114662 GATT
1 GATT
114666 ATGGAAAATC
Statistics
Matches: 179, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 178 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GATTTACGGATTCGCGTTGC
Found at i:145817 original size:64 final size:64
Alignment explanation
Indices: 145741--145860 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
145731 AATGTTATAT
* *
145741 CATTTAATCGGAAATATTATTAAGTACAATAACATATTAGGTAGCGCTTATATAATAAAACAGG
1 CATTTAACCGGAAATATTATAAAGTACAATAACATATTAGGTAGCGCTTATATAATAAAACAGG
*
145805 CATTTAACCGGAAATATTATAAAGTACAATAACATATTAGGTAGCTCTTATATAAT
1 CATTTAACCGGAAATATTATAAAGTACAATAACATATTAGGTAGCGCTTATATAAT
145861 GTAATAGGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (64 bp):
CATTTAACCGGAAATATTATAAAGTACAATAACATATTAGGTAGCGCTTATATAATAAAACAGG
Found at i:146390 original size:200 final size:200
Alignment explanation
Indices: 145898--146604 Score: 754
Period size: 200 Copynumber: 3.5 Consensus size: 200
145888 TTTTCGAAGT
* * * * *
145898 AAACTGGTATATTTATACCGGTAACATTGCAAATTTACATATTACATTATTATTATCGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
** * *
145963 TGTTTTTTAGATCGATACAATTT--TAAATGTATCGACACTTTATGCT-TGCATCTCG-TTGAGC
66 TGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATG-TGTGCACCTCGTTTGA-C
* * *
146024 ATTCGTATTTCATTCTGGA-AAAAGTATCGACACAAACTAAAAAAATGTCGATACATTATTTAGA
128 A----TA--TCATTCTGGACAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATTATGTAGA
*
146088 CATAATTTTCTCATA
187 CAT-ATTTTCTAATA
* * * * * **
146103 AAACCGATATATTTATATCGGGTACATTGTAAATTTACCTATCACATTGTAATT-TTTGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * * *
146167 TGTTTTTGGGTTCGATACTTTTAATAAATATATTGACACTCTATGTGTGCACCCCGTTTGACATA
66 TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGACATA
* * * * * *
146232 T-ATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATTCTTTATGCT-GACCTATTT
131 TCATTCTGGACAAAA-GTATCGACACAAATTAAAAAAGTGTCGATACATTATG-TAGACATATTT
*
146295 TCTCATA
194 TCTAATA
* * *
146302 AAATCGGTATATTTATATCGGTTACATTGTAAAATTACCTATTACATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
146367 TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTACACCTCGTTTGGGCAT
66 TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTT-GACAT
** * * *
146432 -TCATTCTGGACAATAAGTATCGACACAAATTCCATAAGTGTCGATACATTATGTCGACATGTTT
130 ATCATTCTGGACAA-AAGTATCGACACAAATTAAAAAAGTGTCGATACATTATGTAGACATATTT
146496 TCTAAT-
194 TCTAATA
* * * *
146502 TAACCGGTATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTTGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
146567 TGTTTTTGGG-TCGATACTTATAGA-AAATGTATTGACAC
66 TGTTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
146605 ATATTTAGGT
Statistics
Matches: 425, Mismatches: 64, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
198 7 0.02
199 88 0.21
200 165 0.39
201 61 0.14
202 2 0.00
203 3 0.01
204 24 0.06
205 71 0.17
206 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (200 bp):
AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGACATA
TCATTCTGGACAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATTATGTAGACATATTTTC
TAATA
Found at i:147703 original size:200 final size:198
Alignment explanation
Indices: 147305--148443 Score: 1427
Period size: 200 Copynumber: 5.8 Consensus size: 198
147295 TGTGTTATTT
* * * *
147305 AAAAGTATCGACACAAAATAAAAAAATGGCGCTACATGTTGTAGACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
*
147370 GTATATTTATACC------TTA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
66 GTATATTTATACCATTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTC
* ** *
147428 GGGATTGACACTTTTTTGAAAATATATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCT
131 GGGATCGACACTTTAAT--AAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCT
147493 GGACA
194 GGACA
* * * *
147498 TAAAGTATCGATACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATTAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
*
147563 GTATATTTATACCGATTATATTACAAAATTACCTAATACATTATAATTATGGGTTTCGATGTTTT
66 GTATATTTATACC-ATTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * * *
147628 CAGAATCGACACATTTAATAAATGTATCGACACTTTGTGCGTTTACCCTTTTTGGCATCTATTCT
130 CGGGATCGACAC-TTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCT
*
147693 GGATA
194 GGACA
* * *
147698 TAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* *
147763 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTAT--G----GA---TTT
66 GTATATTTATACC-ATTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
** * * *
147819 C--GAT----A-TTT--T--TGGTATCGACACTTTGTCCGTTCACCTTTTTTGGCATCCATTTTG
130 CGGGATCGACACTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTG
147873 GACA
195 GACA
* *
147877 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* *
147942 ATATATTTATACCAGTTATATTACAAAATTACCTATTATATTATAATTATGGGTTTCGATGTTTT
66 GTATATTTATACCA-TTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * *
148007 CGGGATCGACACTTTTAATAAATGTATCGACACTTTGAGCGTTCATCCTTTTTGGTATCCATTCT
130 CGGGATCGACAC-TTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCT
148072 GGACA
194 GGACA
* * * *
148077 AAAAGTATCGACACAAAATAAAAAAATGTCGCTACATGTTGTATACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
*
148142 GTATATGTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
66 GTATATTTATACCA-TTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
*
148207 CGGGATCGACACTTTTAATAAATGTATCGACACTTTTGTGCGTTCATCCTTTTTTGGCATCCATT
130 CGGGATCGACAC-TTTAATAAATGTATCGACAC-TTTGTGCGTTCA-CCCTTTTTGGCATCCATT
148272 CTGGACA
192 CTGGACA
* * * *
148279 AAAAGTATCGACACAAAATTAAAAAGTGTTGATACATGTTATAGACCTATT-TTTCATAAAACCA
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * * * *
148343 TTATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATCGGTTTTGATGTTT
66 GTATATTTATACC-ATTATATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
* * ** * * *
148407 TTGGGGTCGTTACTTTTTATATATGGATCGACACTTT
129 TCGGGATCGACAC-TTTAATAAATGTATCGACACTTT
148444 ATGAGAAACT
Statistics
Matches: 828, Mismatches: 83, Indels: 63
0.85 0.09 0.06
Matches are distributed among these distances:
179 148 0.18
181 2 0.00
183 3 0.00
185 3 0.00
188 4 0.00
189 2 0.00
190 3 0.00
191 4 0.00
193 70 0.08
194 3 0.00
196 3 0.00
198 2 0.00
200 357 0.43
201 152 0.18
202 72 0.09
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (198 bp):
AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
GTATATTTATACCATTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTC
GGGATCGACACTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTGG
ACA
Found at i:147915 original size:20 final size:21
Alignment explanation
Indices: 147876--147916 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
147866 CATTTTGGAC
147876 AAAAAGTATCGACACAATATT
1 AAAAAGTATCGACACAATATT
* *
147897 AAAAAGTGTCGATAC-ATATT
1 AAAAAGTATCGACACAATATT
147917 GTAGACCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (21 bp):
AAAAAGTATCGACACAATATT
Found at i:148026 original size:379 final size:386
Alignment explanation
Indices: 147305--148443 Score: 1380
Period size: 379 Copynumber: 2.9 Consensus size: 386
147295 TGTGTTATTT
* *
147305 AAAAGTATCGACACAAAATAAAAAAATGGCGCTACATGTTGTAGACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATAAAAAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
*
147370 GTATATTTATACC-------TTA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
66 GTATATGTATACCAGTTATATTACAAAATTACCTATTACATTATAATTAT-GG--T-GA---TTT
* * ** *
147427 TGGGATTGACACTTTTTTGAAAATATATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTC
124 TCGGA-T--CAC--TTTT--ATAGGTATCGACACTTTGTGCGTTCACCTTTTTTGGCATCCATTC
* * *
147492 TGGACATAAAGTATCGATACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATT
182 TGGACAAAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATA
* *
147557 AAACCGGTATATTTATACCGATTATATTACAAAATTACCTAATACATTATAATTATGGGTTTCGA
247 AAACCGATATATTTATACCG-TTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGA
* * * * *
147622 TGTTTTCAGAATCGACACATTTAATAAATGTATCGACACTTTGTGCGTTTACCCTTTTTGGCATC
311 TGTTTTCGGGATCGACACTTTTAATAAATGTATCGACACTTTGAGCGTTCACCCTTTTTGGCATC
* *
147687 TATTCTGGATA
376 CATTCTGGACA
* * * * *
147698 TAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCG
1 AAAAGTATCGACACAAAATAAAAAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * *
147763 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTAT-G-GA-TTTC-GAT-
66 GTATATGTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGTGATTTTCGGATC
* *
147823 A-TTTT-T-GGTATCGACACTTTGTCCGTTCACCTTTTTTGGCATCCATTTTGGACAAAAAGTAT
131 ACTTTTATAGGTATCGACACTTTGTGCGTTCACCTTTTTTGGCATCCATTCTGGACAAAAAGTAT
*
147885 CGACACAATATTAAAAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACCGATATATTT
196 CGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTT
*
147950 ATACCAGTTATATTACAAAATTACCTATTATATTATAATTATGGGTTTCGATGTTTTCGGGATCG
261 ATACC-GTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTCGGGATCG
* *
148015 ACACTTTTAATAAATGTATCGACACTTTGAGCGTTCATCCTTTTTGGTATCCATTCTGGACA
325 ACACTTTTAATAAATGTATCGACACTTTGAGCGTTCACCCTTTTTGGCATCCATTCTGGACA
* *
148077 AAAAGTATCGACACAAAATAAAAAAATGTCGCTACATGTTGTATACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATAAAAAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
148142 GTATATGTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
66 GTATATGTATACCAGTTATATTACAAAATTACCTATTACATTATAATTAT-GG--T-GA--TTTT
*
148207 CGGGATCGACACTTTTAATAAATGTATCGACACTTTTGTGCGTTCATCCTTTTTTGGCATCCATT
125 C-GGAT---CACTTTT-AT--AGGTATCGACAC-TTTGTGCGTTCA-CCTTTTTTGGCATCCATT
* * * *
148272 CTGGACAAAAAGTATCGACACAAAATTAAAAAGTGTTGATACATGTTATAGACCTATT-TTTCAT
181 CTGGACAAAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCAT
* *
148336 AAAACC-ATTATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATCGGTTT
246 AAAACCGA-TATATTTATACC-GTTATATT-ACAAAATTACCTATTACATTATAATTATGGGTTT
* * * ** * * *
148399 TGATGTTTTTGGGGTCGTTACTTTTTATATATGGATCGACACTTT
308 CGATGTTTTCGGGATCGACACTTTTAATAAATGTATCGACACTTT
148444 ATGAGAAACT
Statistics
Matches: 651, Mismatches: 61, Indels: 60
0.84 0.08 0.08
Matches are distributed among these distances:
379 330 0.51
380 1 0.00
381 1 0.00
383 4 0.01
385 2 0.00
386 1 0.00
388 4 0.01
389 1 0.00
390 5 0.01
391 3 0.00
393 71 0.11
394 1 0.00
395 6 0.01
397 1 0.00
399 1 0.00
400 14 0.02
401 133 0.20
402 72 0.11
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (386 bp):
AAAAGTATCGACACAAAATAAAAAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
GTATATGTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGTGATTTTCGGATC
ACTTTTATAGGTATCGACACTTTGTGCGTTCACCTTTTTTGGCATCCATTCTGGACAAAAAGTAT
CGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTT
ATACCGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTCGGGATCGA
CACTTTTAATAAATGTATCGACACTTTGAGCGTTCACCCTTTTTGGCATCCATTCTGGACA
Found at i:150582 original size:2 final size:2
Alignment explanation
Indices: 150575--150606 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
150565 GTTTCCGAAG
150575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
150607 CATTCCCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:151389 original size:17 final size:17
Alignment explanation
Indices: 151367--151405 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
151357 ATTATAATTA
151367 TGGATTTCGATATTTTT
1 TGGATTTCGATATTTTT
151384 TGGATTTCGATATTTTT
1 TGGATTTCGATATTTTT
151401 TGGAT
1 TGGAT
151406 GAACACATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.05, G:0.21, T:0.56
Consensus pattern (17 bp):
TGGATTTCGATATTTTT
Found at i:151735 original size:178 final size:180
Alignment explanation
Indices: 151422--151985 Score: 578
Period size: 178 Copynumber: 3.0 Consensus size: 180
151412 ATTTTAAAAA
* *
151422 TGGATCGACACTTTATGGGTGCACCCTTTTTGTGCAATCATTCTGGACAAAAAGTATCGACACAA
1 TGGATCAACACTTTATGGGTGCACCCTTTTTGTGCAATCATTATGGACAAAAAGTATCGACACAA
* * * *
151487 AATTAAAAAGTGTCGATACATGTTGTAGACCTATTTTCTCATAAAATCGGTATAGTTATATCGAT
66 AATTAAAAAGTGTCGATACATGTTGTAGACATATTATCTCATAAAATCGGTATAGTTAGACCGAT
*
151552 TATATTACAAAATTACCTATTACATTATACTTATGGGTTTCGATATTTTT
131 TATATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATATTTTT
* * *
151602 TGGATCAACACTTTATGTGTGCACCC-TTTT-TGCATTCATTATGGACCAAAAGTATCGACACAA
1 TGGATCAACACTTTATGGGTGCACCCTTTTTGTGCAATCATTATGGACAAAAAGTATCGACACAA
* *
151665 AATTAAAAAGTGTCGATACATGTTGTAGACATATTATCTCATAAAA-CTGGTATATTTAGACCGG
66 AATTAAAAAGTGTCGATACATGTTGTAGACATATTATCTCATAAAATC-GGTATAGTTAGACCGA
* *
151729 TTATATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
130 TTATATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATATTTTT
* ** *** * * *
151780 GGGATCTATACTTTTTATAAATTGATCGACACTTTATGGGTGCACCCTTTTTGGCATTCATTCTG
1 TGGATC-A-ACACTTTAT-GGGTG--C-ACCCTTT-T---TG---------T-GCAATCATTATG
* * * * * * *
151845 GACCAAAAGTATCAACACAAAATTAAAAAGTATCGATACATGTTGTAAACCTACTCTCTCATAAA
46 GACAAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACATATTATCTCATAAA
* * * * *
151910 ACCGGTATATTTATACC-AGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGAT
111 ATCGGTATAGTTAGACCGA-TTATATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGAT
*
151974 GTTTTT
175 ATTTTT
151980 TGGATC
1 TGGATC
151986 GATACATTTT
Statistics
Matches: 325, Mismatches: 34, Indels: 30
0.84 0.09 0.08
Matches are distributed among these distances:
177 1 0.00
178 139 0.43
179 5 0.02
180 31 0.10
181 2 0.01
183 1 0.00
184 3 0.01
185 2 0.01
186 1 0.00
189 1 0.00
199 1 0.00
200 137 0.42
201 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (180 bp):
TGGATCAACACTTTATGGGTGCACCCTTTTTGTGCAATCATTATGGACAAAAAGTATCGACACAA
AATTAAAAAGTGTCGATACATGTTGTAGACATATTATCTCATAAAATCGGTATAGTTAGACCGAT
TATATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATATTTTT
Found at i:151865 original size:200 final size:200
Alignment explanation
Indices: 151602--152211 Score: 934
Period size: 200 Copynumber: 3.0 Consensus size: 200
151592 CGATATTTTT
* *
151602 TGGATCAACACTTTATGTGTGCACCCTTTTT-GCATTCATTATGGACCAAAAGTATCGACACAAA
1 TGGATCGACACTTTATGAGTGCACCCTTTTTGGCATTCATTATGGACCAAAAGTATCGACACAAA
* * * *
151666 ATTAAAAAGTGTCGATACATGTTGTAGACATATTATCTCATAAAACTGGTATATTTAGACCGGTT
66 ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTT
* * *
151731 ATATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCTATACTTTTT
131 ACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTT
151796 ATAAA
196 ATAAA
* * * *
151801 TTGATCGACACTTTATGGGTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCAACACAAA
1 TGGATCGACACTTTATGAGTGCACCCTTTTTGGCATTCATTATGGACCAAAAGTATCGACACAAA
* * * *
151866 ATTAAAAAGTATCGATACATGTTGTAAACCTACTCTCTCATAAAACCGGTATATTTATACCAGTT
66 ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTT
* * *
151931 ACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTTTTGGATCGATACATTTT
131 ACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTT
151996 ATAAA
196 ATAAA
* * *
152001 TGGATCGACACTTTATGATTGTACCCTTTTTGTGCATTCATTATGGACAAAAAGTATCGACACAA
1 TGGATCGACACTTTATGAGTGCACCCTTTTTG-GCATTCATTATGGACCAAAAGTATCGACACAA
**
152066 AATTAAAAAGTGTTAATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGT
65 AATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGT
* * *
152131 TAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTTGATGTTTCAGGGATCGATACTTTT
130 TACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTT
*
152196 TATATA
195 TATAAA
*
152202 TGAATCGACA
1 TGGATCGACA
152212 TATATGCTTA
Statistics
Matches: 369, Mismatches: 40, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
199 28 0.08
200 180 0.49
201 161 0.44
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (200 bp):
TGGATCGACACTTTATGAGTGCACCCTTTTTGGCATTCATTATGGACCAAAAGTATCGACACAAA
ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTT
ACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTT
ATAAA
Found at i:152587 original size:19 final size:19
Alignment explanation
Indices: 152563--152607 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
152553 GTACATTCAC
152563 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
152582 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
152601 ATACAAA
1 ATACAAA
152608 GTTAACCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:154477 original size:15 final size:15
Alignment explanation
Indices: 154452--154488 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
154442 CTTTCACCAC
154452 TCCATCTATTTTTCCG
1 TCCA-CTATTTTTCCG
*
154468 TCCACTATTTTTCCT
1 TCCACTATTTTTCCG
154483 TCCACT
1 TCCACT
154489 TCCCCCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.14, C:0.35, G:0.03, T:0.49
Consensus pattern (15 bp):
TCCACTATTTTTCCG
Found at i:154527 original size:21 final size:21
Alignment explanation
Indices: 154501--154541 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
154491 CCCCTTATGT
154501 CTCTCAAGTGTCTCTTCGACA
1 CTCTCAAGTGTCTCTTCGACA
*
154522 CTCTCAAGTTTCTCTTCGAC
1 CTCTCAAGTGTCTCTTCGAC
154542 TCTTGATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.34, G:0.12, T:0.37
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACA
Found at i:157038 original size:181 final size:183
Alignment explanation
Indices: 156735--157210 Score: 721
Period size: 181 Copynumber: 2.6 Consensus size: 183
156725 TACACGTACT
*
156735 TATTAAAGTATCGACACTTTCAATATA--CGGTAGCGCTTTACCGGTTTTATCATTTCGATGCCA
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCA
* * *
156798 GTTTTGTCATATTTCTACATGTTATATCGTTGTGGATCGATATATTTTT-TAAAAGTATCGACAC
66 GTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAAGTATCGACAC
156862 TTTATAGGCGCTAAAAATACTTATCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTTATAGGCGCTAAAAATACTTATCTTTTAAATTCACAAAGTGTCGATACTTA
* *
156915 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTATCAGTTTTATCATTTCGATACC-
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCA
** *
156979 GTTTTGTCATATTTTTATTTGTTATATCGTTATGGATTGATACATTTTTAT-AAAGTATCGACAC
66 GTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAAGTATCGACAC
* * *
157043 TTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTTATAGGCGCTAAAAATACTTATCTTTTAAATTCACAAAGTGTCGATACTTA
* * *
157096 TATTAAAGTATCGACACTTTTAATATATCCGGTAGCGCTTTACCGGTATTATCTTTTCG-TGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAT-ACC
* * * * *
157160 GGTTTTGTCATATTTTTACCTATTATATTGATATGGATCGATACATTTTTA
65 AGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTA
157211 ATTTGGATCG
Statistics
Matches: 268, Mismatches: 23, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
180 28 0.10
181 163 0.61
182 77 0.29
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (183 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCA
GTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAAGTATCGACAC
TTTATAGGCGCTAAAAATACTTATCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:157724 original size:2 final size:2
Alignment explanation
Indices: 157717--157754 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
157707 CCGGTTAGTT
157717 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
157755 ATGGATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:157768 original size:19 final size:16
Alignment explanation
Indices: 157750--157785 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
157740 ATATAATATA
*
157750 ATATAATGGATTATTT
1 ATATTATGGATTATTT
157766 ATATTATGGATTA-TT
1 ATATTATGGATTATTT
157781 ATATT
1 ATATT
157786 TTGTATTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (16 bp):
ATATTATGGATTATTT
Found at i:159486 original size:23 final size:23
Alignment explanation
Indices: 159459--159507 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
159449 CACCAAAGTG
* *
159459 CCACGTTGAAATATCCCGAAGGA
1 CCACGTAGAAATATCCCGAAAGA
*
159482 CCACGTAGAAATGTCCCGAAAGA
1 CCACGTAGAAATATCCCGAAAGA
159505 CCA
1 CCA
159508 TGTAAAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.37, C:0.29, G:0.20, T:0.14
Consensus pattern (23 bp):
CCACGTAGAAATATCCCGAAAGA
Found at i:164302 original size:21 final size:21
Alignment explanation
Indices: 164276--164320 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
164266 AGGGTTTATT
*
164276 TTTAGAGATTATGATATAGGG
1 TTTAGAGATTATAATATAGGG
* *
164297 TTTAGAGTTTATAATTTAGGG
1 TTTAGAGATTATAATATAGGG
164318 TTT
1 TTT
164321 TAAGTTAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (21 bp):
TTTAGAGATTATAATATAGGG
Found at i:166346 original size:60 final size:60
Alignment explanation
Indices: 166270--166384 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
166260 AGGGTCATCG
* *
166270 ATTATAGGATGTTGCTTTATTGAATAT-CTCGACTATTAAAAGTTATAAAATGATCCTTTA
1 ATTATAGAACGTTGCTTTATTGAAT-TGCTCGACTATTAAAAGTTATAAAATGATCCTTTA
* * *
166330 ATTATAGAACGTTGCTTTTTTGACTTGTTCGACTATTAAAAGTTATAAAATGATC
1 ATTATAGAACGTTGCTTTATTGAATTGCTCGACTATTAAAAGTTATAAAATGATC
166385 ATCTAACTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 1 0.02
60 48 0.98
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (60 bp):
ATTATAGAACGTTGCTTTATTGAATTGCTCGACTATTAAAAGTTATAAAATGATCCTTTA
Found at i:173964 original size:4 final size:4
Alignment explanation
Indices: 173955--174029 Score: 150
Period size: 4 Copynumber: 18.8 Consensus size: 4
173945 TTTACATGTT
173955 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
174003 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
174030 TATATCACCA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 71 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:175076 original size:42 final size:42
Alignment explanation
Indices: 175014--175093 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
175004 ATTTTTTTAA
*
175014 TTGGACTATCACAACGCTAACTTCGACTATCGCAATGCGAAC
1 TTGGACTATCACAACACTAACTTCGACTATCGCAATGCGAAC
* *
175056 TTGGACTATCGCAACACTAACTTGGACTATCGCAATGC
1 TTGGACTATCACAACACTAACTTCGACTATCGCAATGC
175094 AAATATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
TTGGACTATCACAACACTAACTTCGACTATCGCAATGCGAAC
Found at i:175145 original size:21 final size:21
Alignment explanation
Indices: 175014--175157 Score: 114
Period size: 21 Copynumber: 6.9 Consensus size: 21
175004 ATTTTTTTAA
* * *
175014 TTGGACTATCACAACGCTAAC
1 TTGGACTATCGCAATGCGAAC
*
175035 TTCGACTATCGCAATGCGAAC
1 TTGGACTATCGCAATGCGAAC
** *
175056 TTGGACTATCGCAACACTAAC
1 TTGGACTATCGCAATGCGAAC
*
175077 TTGGACTATCGCAATGC-AAA
1 TTGGACTATCGCAATGCGAAC
* * *
175097 TATGTA-AATTGCAATGCGATA-
1 T-TGGACTATCGCAATGCGA-AC
* * *
175118 GTCGACTATTGCAATGCGAAC
1 TTGGACTATCGCAATGCGAAC
*
175139 TTGGACTATCGCATTGCGA
1 TTGGACTATCGCAATGCGA
175158 TTTACATATT
Statistics
Matches: 96, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
20 15 0.16
21 80 0.83
22 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (21 bp):
TTGGACTATCGCAATGCGAAC
Found at i:175192 original size:21 final size:21
Alignment explanation
Indices: 175166--175323 Score: 178
Period size: 21 Copynumber: 7.6 Consensus size: 21
175156 GATTTACATA
175166 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
175187 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
175208 TTCGCGTTGTGTTAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
175229 TTCGCATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* *
175249 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
*
175270 TTAGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
175291 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
175312 TTCGCGTTGCGA
1 TTCGCATTGCGA
175324 ATCTGGAAAC
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
20 16 0.14
21 97 0.85
22 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:176647 original size:60 final size:59
Alignment explanation
Indices: 176583--176696 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 59
176573 ATCCTCAAAC
* *
176583 TCTCATTCTAAATT-AGTCCTTAAAC-TTTTGAAAATTCCAATTTCATACTCAAACTATGAA
1 TCTCATTCTAAATTGA-TCCCTAAACTTTTTG-AAATTCCAATTTCAT-CCCAAACTATGAA
**
176643 TCTCATTCTAAATTGATCCCTAAACTTTTTGATCTTCCAATTTCATCCCAAACT
1 TCTCATTCTAAATTGATCCCTAAACTTTTTGAAATTCCAATTTCATCCCAAACT
176697 CATCCAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 7 0.15
60 35 0.73
61 6 0.12
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.39
Consensus pattern (59 bp):
TCTCATTCTAAATTGATCCCTAAACTTTTTGAAATTCCAATTTCATCCCAAACTATGAA
Found at i:180868 original size:2 final size:2
Alignment explanation
Indices: 180861--180913 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
180851 TTTTAACCTT
180861 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
180903 TA TA TA T- TA TA
1 TA TA TA TA TA TA
180914 CTCCCTATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:181731 original size:21 final size:21
Alignment explanation
Indices: 181675--181732 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
181665 AATATGTTTC
* *
181675 TAAAAAATATATTAT-TTTTAT
1 TAAAAAA-ATAATATATTTAAT
181696 TCAATAAAAAT-ATATATTTAAT
1 T-AA-AAAAATAATATATTTAAT
181718 TAAAAAAATAATATA
1 TAAAAAAATAATATA
181733 GAAGGGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 6 0.19
21 11 0.35
22 10 0.32
23 4 0.13
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAAAAATAATATATTTAAT
Found at i:185198 original size:110 final size:110
Alignment explanation
Indices: 185031--185249 Score: 300
Period size: 110 Copynumber: 2.0 Consensus size: 110
185021 ATGGTTGAGA
* * * ** *
185031 TTAACTCTTTATTTTTTTTTGAGTGAATATTTTTATCGTCAAACGGTTCTATTTATGTGT-AAAC
1 TTAACTCTTTAGTTTTTTTCGAGTGAATATTTTTATCATCAAACGGTTCTAAATATGTATAAAAC
* *
185095 TAAA-AGAGTTTTATATTGTATAACAGGATCATATCCTCTCTCTCTC
66 TAAATA-A-TTTTACATTGTAAAACAGGATCATATCCTCTCTCTCTC
*
185141 TTAACTCTTT-GTTTTTTTCGAGTGAATATTTTTTATCATCAAATGGTTCTAAATATGTATAAAA
1 TTAACTCTTTAGTTTTTTTCGAGTGAATA-TTTTTATCATCAAACGGTTCTAAATATGTATAAAA
*
185205 CTAAATAATTTTACATTGTAAAACAGTATCATATCCTCTCTCTCT
65 CTAAATAATTTTACATTGTAAAACAGGATCATATCCTCTCTCTCT
185250 ATATGTGTGT
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
109 16 0.17
110 70 0.73
111 9 0.09
112 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.46
Consensus pattern (110 bp):
TTAACTCTTTAGTTTTTTTCGAGTGAATATTTTTATCATCAAACGGTTCTAAATATGTATAAAAC
TAAATAATTTTACATTGTAAAACAGGATCATATCCTCTCTCTCTC
Found at i:194727 original size:32 final size:36
Alignment explanation
Indices: 194654--194731 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 36
194644 TCATATGGAC
194654 TTGTGTTTTTTTAGATACCCCATCTCTCTCTCTTGTTT
1 TTGTGTTTTTTTAGATACCCCATCTCTCTCTC-TG-TT
194692 TTGTGTTTTTTTAGATA-CCCA-CTCTCTCTC-G-T
1 TTGTGTTTTTTTAGATACCCCATCTCTCTCTCTGTT
194724 TTGTGTTT
1 TTGTGTTT
194732 ATACATTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
32 9 0.22
34 1 0.03
36 9 0.22
37 4 0.10
38 17 0.43
ACGTcount: A:0.10, C:0.22, G:0.13, T:0.55
Consensus pattern (36 bp):
TTGTGTTTTTTTAGATACCCCATCTCTCTCTCTGTT
Found at i:197666 original size:70 final size:70
Alignment explanation
Indices: 197553--197741 Score: 333
Period size: 70 Copynumber: 2.7 Consensus size: 70
197543 CATCTGAGAT
* * * *
197553 GCGAGCCTCGGACATAGGTATGTTTTCGACATGGATGGGTTAAATTTTTCAATGTTCTTCTATTC
1 GCGAGTCTCGGACATAGGCATGTATCCGACATGGATGGGTTAAATTTTTCAATGTTCTTCTATTC
197618 AAGAC
66 AAGAC
197623 GCGAGTCTCGGACATAGGCATGTATCCGACATGGATGGGTTAAATTTTTCAATGTTCTTCTATTC
1 GCGAGTCTCGGACATAGGCATGTATCCGACATGGATGGGTTAAATTTTTCAATGTTCTTCTATTC
197688 AAGAC
66 AAGAC
*
197693 GCGAGTCTCGGACATAGGCATGTATCCAACATGGATGGGTTAAATTTTT
1 GCGAGTCTCGGACATAGGCATGTATCCGACATGGATGGGTTAAATTTTT
197742 GTATGCTTTT
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 114 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (70 bp):
GCGAGTCTCGGACATAGGCATGTATCCGACATGGATGGGTTAAATTTTTCAATGTTCTTCTATTC
AAGAC
Found at i:201769 original size:2 final size:2
Alignment explanation
Indices: 201762--201792 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
201752 TATGTTAATC
201762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
201793 AAAGTCGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:215177 original size:15 final size:15
Alignment explanation
Indices: 215157--215258 Score: 125
Period size: 15 Copynumber: 6.9 Consensus size: 15
215147 TGGTTTTCCA
215157 GAAAATGAATTACTG
1 GAAAATGAATTACTG
215172 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
215187 GAATTTGAATTACTG
1 GAAAATGAATTACTG
**
215202 GAATTTGAATTACTG
1 GAAAATGAATTACTG
215217 GAAAATGAATTACTG
1 GAAAATGAATTACTG
*** *
215232 GAGTTTGAA-TGCTG
1 GAAAATGAATTACTG
215246 GAAAATGAATTAC
1 GAAAATGAATTAC
215259 ATTTCTGTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
14 10 0.14
15 64 0.86
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (15 bp):
GAAAATGAATTACTG
Found at i:215226 original size:45 final size:44
Alignment explanation
Indices: 215157--215258 Score: 159
Period size: 45 Copynumber: 2.3 Consensus size: 44
215147 TGGTTTTCCA
215157 GAAAATGAATTACTGGAAAATGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAAAATGAATTACTGGAATTTGAA-TACTG
** * *
215202 GAATTTGAATTACTGGAAAATGAATTACTGGAGTTTGAATGCTG
1 GAAAATGAATTACTGGAAAATGAATTACTGGAATTTGAATACTG
215246 GAAAATGAATTAC
1 GAAAATGAATTAC
215259 ATTTCTGTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 15 0.29
45 36 0.71
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (44 bp):
GAAAATGAATTACTGGAAAATGAATTACTGGAATTTGAATACTG
Found at i:215272 original size:20 final size:20
Alignment explanation
Indices: 215243--215310 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
215233 AGTTTGAATG
215243 CTGGAAAATGAATTACATTT
1 CTGGAAAATGAATTACATTT
*
215263 CTGTAAAATGAATTACATTT
1 CTGGAAAATGAATTACATTT
215283 CTGGAAAATGAATTACATTT
1 CTGGAAAATGAATTACATTT
215303 CTGGAAAA
1 CTGGAAAA
215311 CATCTAGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (20 bp):
CTGGAAAATGAATTACATTT
Found at i:215533 original size:30 final size:29
Alignment explanation
Indices: 215476--215579 Score: 101
Period size: 29 Copynumber: 3.5 Consensus size: 29
215466 CTTTACTAAA
*
215476 ATATTATTGAAATATAT-AAATAATATTAT
1 ATATTATT-AAATATATAAAAAAATATTAT
215505 -TCATTATTAAATATATAAAAAAATTATTAT
1 AT-ATTATTAAATATATAAAAAAA-TATTAT
215535 ATATTATTAAA-ATA-AAAATATAATATCT-T
1 ATATTATTAAATATATAAAA-A-AATAT-TAT
215564 ATATTATTATAATATA
1 ATATTATTA-AATATA
215580 ATTGATTATT
Statistics
Matches: 65, Mismatches: 1, Indels: 16
0.79 0.01 0.20
Matches are distributed among these distances:
28 13 0.20
29 28 0.43
30 20 0.31
31 4 0.06
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATTATTAAATATATAAAAAAATATTAT
Found at i:215602 original size:15 final size:16
Alignment explanation
Indices: 215564--215639 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 16
215554 ATAATATCTT
215564 ATATTATTATAATATA
1 ATATTATTATAATATA
*
215580 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
215597 ATATTA--A-AATATA
1 ATATTATTATAATATA
*
215610 ATATATATTATTATA-A
1 ATAT-TATTATAATATA
215626 ATATTA--ATAATATA
1 ATATTATTATAATATA
215640 TTTTAAATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 18
0.69 0.06 0.26
Matches are distributed among these distances:
13 14 0.29
14 3 0.06
15 6 0.12
16 8 0.17
17 11 0.23
18 6 0.12
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:215608 original size:30 final size:30
Alignment explanation
Indices: 215509--215639 Score: 112
Period size: 30 Copynumber: 4.4 Consensus size: 30
215499 TATTATTCAT
* * *
215509 TATTAAATATATAA-AAAAATTATTATATAT
1 TATTAAA-ATATAATATATATTATTATATAA
* * *
215539 TATTAAAATA-AAAATATAATATCT-TATAT
1 TATTAAAATATAATATATATTAT-TATATAA
*
215568 TATTATAATATAAT-TGATTATT-TTATATAA
1 TATTAAAATATAATAT-A-TATTATTATATAA
215598 TATTAAAATATAATATATATTATTATA-AA
1 TATTAAAATATAATATATATTATTATATAA
215627 TATTAATAATATA
1 TATTAA-AATATA
215640 TTTTAAATAT
Statistics
Matches: 84, Mismatches: 8, Indels: 18
0.76 0.07 0.16
Matches are distributed among these distances:
28 2 0.02
29 37 0.44
30 41 0.49
31 4 0.05
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.46
Consensus pattern (30 bp):
TATTAAAATATAATATATATTATTATATAA
Found at i:215616 original size:20 final size:22
Alignment explanation
Indices: 215591--215650 Score: 74
Period size: 20 Copynumber: 2.9 Consensus size: 22
215581 TTGATTATTT
215591 TATATAATATTA-AAATA-TAA
1 TATATAATATTATAAATATTAA
*
215611 TATATATTATTATAAATATTAA
1 TATATAATATTATAAATATTAA
*
215633 TA-AT-ATATTTTAAATATT
1 TATATAATATTATAAATATT
215651 TTAATAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 23 0.66
21 7 0.20
22 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATAATATTATAAATATTAA
Found at i:215650 original size:32 final size:29
Alignment explanation
Indices: 215509--215658 Score: 103
Period size: 30 Copynumber: 5.0 Consensus size: 29
215499 TATTATTCAT
* *
215509 TATTAAATATATAA-AAAAATTATTATATAT
1 TATTAAA-ATATAATAAATATT-TTATATAA
* *
215539 TATTAAAATAAAAATATAATATCTTATAT--
1 TATTAAAAT-ATAATA-AATATTTTATATAA
* * *
215568 TATTATAATATAATTGATTATTTTATATAA
1 TATTAAAATATAA-TAAATATTTTATATAA
*
215598 TATTAAAATATAATATATATTATTATA-AA
1 TATTAAAATATAATAAATATT-TTATATAA
*
215627 TATTAATAATATATTTTAAATATTTTA-ATAA
1 TATTAA-AATATA--ATAAATATTTTATATAA
215658 T
1 T
215659 TAATATTTTG
Statistics
Matches: 95, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
28 13 0.14
29 24 0.25
30 34 0.36
31 13 0.14
32 11 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
TATTAAAATATAATAAATATTTTATATAA
Found at i:215654 original size:22 final size:22
Alignment explanation
Indices: 215603--215703 Score: 66
Period size: 22 Copynumber: 4.4 Consensus size: 22
215593 TATAATATTA
215603 AAATA-TAAT-ATATATTATTAT
1 AAATATTAATAATATATT-TTAT
215624 AAATATTAATAATATATTTTA-
1 AAATATTAATAATATATTTTAT
*
215645 AATATTTTAATAATTAATATTTTGAT
1 AA-ATATTAATAA-T-ATATTTT-AT
* *
215671 GAAA-ATGATATTAAAATATTTTAT
1 -AAATAT--TAATAATATATTTTAT
*
215695 TAATATTAA
1 AAATATTAA
215704 ATTCATAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
21 7 0.11
22 18 0.29
23 10 0.16
24 11 0.17
25 9 0.14
26 1 0.02
27 7 0.11
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.48
Consensus pattern (22 bp):
AAATATTAATAATATATTTTAT
Found at i:215898 original size:42 final size:42
Alignment explanation
Indices: 215839--215953 Score: 221
Period size: 42 Copynumber: 2.7 Consensus size: 42
215829 ATGAATTACA
*
215839 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
215881 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
215923 TTCCGGAAAACGAATTACGTGAAACAAACAC
1 TTCCGGAAAACGAATTACGTGAAACAAACAC
215954 AGAAATTCGA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:220939 original size:44 final size:44
Alignment explanation
Indices: 220891--221055 Score: 258
Period size: 44 Copynumber: 3.8 Consensus size: 44
220881 AATACCATGA
* *
220891 GCCAATAATGCACTATTATGCATTTTCATTTATGACACATTTCT
1 GCCAATAATGCACCATTATGCATTTTCATTTATGACACCTTTCT
* *
220935 GCCAATAATGTACCATTATGCATTTTCATTTATCACACCTTTCT
1 GCCAATAATGCACCATTATGCATTTTCATTTATGACACCTTTCT
* * *
220979 GTCAATAATGCACCGTTATGCATTTTCATTTATGGCACCTTTCT
1 GCCAATAATGCACCATTATGCATTTTCATTTATGACACCTTTCT
*
221023 GCCAATAATGCACCGTTATGCATTTTCATTTAT
1 GCCAATAATGCACCATTATGCATTTTCATTTAT
221056 TTCGGTAACA
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 111 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (44 bp):
GCCAATAATGCACCATTATGCATTTTCATTTATGACACCTTTCT
Found at i:244824 original size:2 final size:2
Alignment explanation
Indices: 244817--244852 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
244807 GCTTTGAAGT
244817 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
244853 ATCTTTTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:245373 original size:25 final size:25
Alignment explanation
Indices: 245323--245374 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
245313 ATTTTTGGTG
** * *
245323 TAATTAATCCATTAATAAGGTTAGT
1 TAATTAATAAATTAATAAGATGAGT
245348 TAATTAATAAATTAATAAGATGAGT
1 TAATTAATAAATTAATAAGATGAGT
245373 TA
1 TA
245375 TTTTCATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (25 bp):
TAATTAATAAATTAATAAGATGAGT
Found at i:250156 original size:30 final size:30
Alignment explanation
Indices: 250120--250180 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
250110 GGTAAATACT
250120 AACCAACGCTTATTACCATATGAACTTATC
1 AACCAACGCTTATTACCATATGAACTTATC
250150 AACCAACGCTTATTACCATATGAACTTATC
1 AACCAACGCTTATTACCATATGAACTTATC
250180 A
1 A
250181 GTGTCGAGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.30
Consensus pattern (30 bp):
AACCAACGCTTATTACCATATGAACTTATC
Found at i:250775 original size:48 final size:48
Alignment explanation
Indices: 250715--250809 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
250705 TATCAAACTT
* *
250715 TTATAGTCATTATAATGTTACAATAATCGTTCATC-CAGTAAAAAGATC
1 TTATAGTCATTATAATATTACAATAATCATTCATCAC-GTAAAAAGATC
*
250763 TTATAGTTATTATAATATTACAATAATCATTCATCACGTAAAAAGAT
1 TTATAGTCATTATAATATTACAATAATCATTCATCACGTAAAAAGAT
250810 GATAAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 42 0.98
49 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (48 bp):
TTATAGTCATTATAATATTACAATAATCATTCATCACGTAAAAAGATC
Found at i:258034 original size:21 final size:21
Alignment explanation
Indices: 258010--258051 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
258000 AGGAATCACG
*
258010 CGAGGAG-AAGGAGGGAGTGCA
1 CGAGGAGCAA-GAAGGAGTGCA
258031 CGAGGAGCAAGAAGGAGTGCA
1 CGAGGAGCAAGAAGGAGTGCA
258052 TGGCGACCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.36, C:0.12, G:0.48, T:0.05
Consensus pattern (21 bp):
CGAGGAGCAAGAAGGAGTGCA
Found at i:258077 original size:29 final size:29
Alignment explanation
Indices: 258044--258119 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
258034 GGAGCAAGAA
*
258044 GGAGTGCATGGCGACCTACAAGGTCGCCT
1 GGAGTGCATGGCGACCTACAAGGTCGCCC
*
258073 GGAGTGCATGGCGACCTACAAGGTCTCCC
1 GGAGTGCATGGCGACCTACAAGGTCGCCC
* *
258102 GGAGGGCATGCCGACCTA
1 GGAGTGCATGGCGACCTA
258120 TGCTTGGGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.21, C:0.29, G:0.34, T:0.16
Consensus pattern (29 bp):
GGAGTGCATGGCGACCTACAAGGTCGCCC
Found at i:259318 original size:271 final size:271
Alignment explanation
Indices: 258835--259378 Score: 1045
Period size: 271 Copynumber: 2.0 Consensus size: 271
258825 GCCGCATATA
258835 TGAAACCATTCTGGTCCTTGTCAAACACCCTGAACGCCTCTTTAAGTTCCTTTTCCGAATCAGTA
1 TGAAACCATTCTGGTCCTTGTCAAACACCCTGAACGCCTCTTTAAGTTCCTTTTCCGAATCAGTA
258900 TCCTTCATCTTCCTTGCCATCAGGTTAAGGAATTCGGGGAAATCGATGGTCCCATTTCCATCGGC
66 TCCTTCATCTTCCTTGCCATCAGGTTAAGGAATTCGGGGAAATCGATGGTCCCATTTCCATCGGC
258965 ATCAACTTCATTAATCATATCTTGGAGTTCCGCCTCAGTAGGGTTCTGGCCAAGCGATCGCATTA
131 ATCAACTTCATTAATCATATCTTGGAGTTCCGCCTCAGTAGGGTTCTGGCCAAGCGATCGCATTA
259030 CAGTTCCCAGCTCCTTGGTAGTAATGCACCCTGCAGCAAGGACAAGAATAAATGCAACAGACGAA
196 CAGTTCCCAGCTCCTTGGTAGTAATGCACCCTGCAGCAAGGACAAGAATAAATGCAACAGACGAA
259095 TACTACAATAC
261 TACTACAATAC
259106 TGAAACCATTCTGGTCCTTGTCAAACACCCTGAACGCCTCTTTAAGTTCCTCTTT-CGAATCAGT
1 TGAAACCATTCTGGTCCTTGTCAAACACCCTGAACGCCTCTTTAAGTTCCT-TTTCCGAATCAGT
*
259170 ATCCTTCATCTTCCTTGTCATCAGGTTAAGGAATTCGGGGAAATCGATGGTCCCATTTCCATCGG
65 ATCCTTCATCTTCCTTGCCATCAGGTTAAGGAATTCGGGGAAATCGATGGTCCCATTTCCATCGG
*
259235 CATCAACTTCATTAATCATATCTTGGAGTTCCGCCTCAGTAGGGTTCTGGCCAAGCGATCTCATT
130 CATCAACTTCATTAATCATATCTTGGAGTTCCGCCTCAGTAGGGTTCTGGCCAAGCGATCGCATT
*
259300 ACAGTTCCCAGCTCCTTGGTAGTAATGCACCCTGCAGCAAGGACAAGAATAAATGTAACAGACGA
195 ACAGTTCCCAGCTCCTTGGTAGTAATGCACCCTGCAGCAAGGACAAGAATAAATGCAACAGACGA
259365 ATACTACAATAC
260 ATACTACAATAC
259377 TG
1 TG
259379 GTAATGAAAC
Statistics
Matches: 269, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
271 266 0.99
272 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (271 bp):
TGAAACCATTCTGGTCCTTGTCAAACACCCTGAACGCCTCTTTAAGTTCCTTTTCCGAATCAGTA
TCCTTCATCTTCCTTGCCATCAGGTTAAGGAATTCGGGGAAATCGATGGTCCCATTTCCATCGGC
ATCAACTTCATTAATCATATCTTGGAGTTCCGCCTCAGTAGGGTTCTGGCCAAGCGATCGCATTA
CAGTTCCCAGCTCCTTGGTAGTAATGCACCCTGCAGCAAGGACAAGAATAAATGCAACAGACGAA
TACTACAATAC
Found at i:267708 original size:32 final size:32
Alignment explanation
Indices: 267672--267734 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
267662 TATTATTAAA
*
267672 AATTTAAAAATT-CAAAAATATATTTAATTTAT
1 AATTTAAAAATTGCAAAAAAATATTT-ATTTAT
* *
267704 AATTTCAAAATTGTAAAAAAATATTTATTTA
1 AATTTAAAAATTGCAAAAAAATATTTATTTA
267735 AAAATATCCG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (32 bp):
AATTTAAAAATTGCAAAAAAATATTTATTTAT
Found at i:268906 original size:20 final size:22
Alignment explanation
Indices: 268867--268907 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
268857 TTATTATTTT
268867 TTTTCTTTTTTCTTTCTCTGTA
1 TTTTCTTTTTTCTTTCTCTGTA
*
268889 TTTT-TTTTTTGTTT-TCTGT
1 TTTTCTTTTTTCTTTCTCTGT
268908 TTCTTTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.78
Consensus pattern (22 bp):
TTTTCTTTTTTCTTTCTCTGTA
Found at i:269396 original size:3 final size:3
Alignment explanation
Indices: 269388--269484 Score: 124
Period size: 3 Copynumber: 32.7 Consensus size: 3
269378 TTAATATATT
* * *
269388 TAA TAA TAA -AA TAA TAA TAA AAA TAA TAA TAA AAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
269435 TAA TAG TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAT TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
269483 TA
1 TA
269485 TGGATAAAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
2 2 0.03
3 77 0.97
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:269996 original size:113 final size:113
Alignment explanation
Indices: 269795--270929 Score: 1787
Period size: 113 Copynumber: 10.0 Consensus size: 113
269785 AGCATCAAAC
**
269795 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
269860 ATGAACTTTCTCTTGAAAGGCTGATCCATCAAATGATGAATTCAAGCA
66 ATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCA
269908 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
269973 ATGAACTTTTTCTGGAAAAGCTGATCCCTCAAATGATGAATTTAAACA
66 ATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCA
*
270021 ACAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-TTCTTCTCAT
1 A-AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
270084 TATGAACTTTCTCTGGAAATG-TGATCCATCAAATGATGAATTCAAGCA
65 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCA
270132 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
270197 ATGAACTTTTTCTGGAAAAGCTGATCCCTCAAATGATGAATTTAAACA
66 ATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCA
*
270245 ACAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 A-AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
270309 TATGAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCA
65 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCA
270358 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
270423 ATGAACTTTTTCTGGAAAAGCTGATCCCTCAAATGATGAATTTAAACA
66 ATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCA
*
270471 ACAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 A-AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
270535 TATGAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCA
65 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCA
270584 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTC
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTC
* * * *
270649 ATTGTGAACTCTTCCTCTGGAAACGATGATCCATCAATTTGATGAATTCAAGCA
63 ATTATGAACT-TT-CTCTGGAAAAGCTGATCCATCAA-ATGATGAATTCAAGCA
*
270703 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
270768 ATGAACCTTCTCTGGAAACA-ATGATCCATCAATTTGATGAATTCAAGCA
66 ATGAACTTTCTCTGGAAA-AGCTGATCCATCAA-ATGATGAATTCAAGCA
270817 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
270882 ATGAACCTTCTCTGGAAAAGAATGATCCATCAAGTCTGATGAATTCAA
66 ATGAACTTTCTCTGGAAAAG-CTGATCCATCAA--ATGATGAATTCAA
270930 ATCTTTGCTA
Statistics
Matches: 952, Mismatches: 52, Indels: 33
0.92 0.05 0.03
Matches are distributed among these distances:
110 2 0.00
111 73 0.08
112 62 0.07
113 535 0.56
114 126 0.13
115 14 0.01
116 52 0.05
117 2 0.00
118 21 0.02
119 65 0.07
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (113 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCA
Found at i:271632 original size:52 final size:52
Alignment explanation
Indices: 271534--271848 Score: 564
Period size: 52 Copynumber: 6.1 Consensus size: 52
271524 TTTAAATTCA
* *
271534 ATGCT-TGATTCTGTCCAATCAGATC--ATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATG-TTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
271584 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
271636 ATGCTATGTTCTGTCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
271688 ATGCTATGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
271740 ATGCTATGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
271792 ATGCTATGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
271844 ATGCT
1 ATGCT
271849 TGAGCATATT
Statistics
Matches: 258, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
50 21 0.08
51 2 0.01
52 235 0.91
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (52 bp):
ATGCTATGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
Found at i:272995 original size:1 final size:1
Alignment explanation
Indices: 272989--273067 Score: 59
Period size: 1 Copynumber: 79.0 Consensus size: 1
272979 CCTTGACCCC
* * * * ** * * * *
272989 TTTTTTTCTTTTTCTTTTTCTTCTTTTCCTTTTTTTTTTCTTTTTTTTTTCTTTTTCTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
273054 TTTCTTTTTTTTTT
1 TTTTTTTTTTTTTT
273068 CTTCAAGCAT
Statistics
Matches: 58, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:273002 original size:6 final size:6
Alignment explanation
Indices: 272991--273070 Score: 96
Period size: 6 Copynumber: 13.3 Consensus size: 6
272981 TTGACCCCTT
272991 TTTTTC TTTTTC TTTTTC TTCTTTTCC TTTTT- TTTTTC TTTTT- TTTTTC
1 TTTTTC TTTTTC TTTTTC -T-TTTT-C TTTTTC TTTTTC TTTTTC TTTTTC
273040 TTTTTC -TTTTC TTTTTTC TTTTT- TTTTTC TT
1 TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TT
273071 CAAGCATAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 16
0.80 0.00 0.20
Matches are distributed among these distances:
5 20 0.30
6 30 0.45
7 10 0.15
8 5 0.08
9 1 0.02
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:273020 original size:29 final size:28
Alignment explanation
Indices: 272987--273071 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 28
272977 CACCTTGACC
272987 CCTTTTTTTCTTTTTCTTTTTCTTCTTTT
1 CCTTTTTTTCTTTTT-TTTTTCTTCTTTT
273016 CCTTTTTTTTTTCTTTTTTTTTTCTTTTTCTTTT
1 CC---TTTTTTTCTTTTTTTTTTC---TTCTTTT
273050 -C-TTTTTTCTTTTTTTTTTCTTC
1 CCTTTTTTTCTTTTTTTTTTCTTC
273072 AAGCATAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
26 3 0.06
29 20 0.40
31 6 0.12
32 13 0.26
33 1 0.02
34 7 0.14
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (28 bp):
CCTTTTTTTCTTTTTTTTTTCTTCTTTT
Found at i:273070 original size:11 final size:11
Alignment explanation
Indices: 272989--273067 Score: 92
Period size: 11 Copynumber: 7.3 Consensus size: 11
272979 CCTTGACCCC
272989 TTTTTTTCTTT
1 TTTTTTTCTTT
273000 TTCTTTTTC--T
1 TT-TTTTTCTTT
* *
273010 TCTTTTCCTTT
1 TTTTTTTCTTT
273021 TTTTTTTCTTT
1 TTTTTTTCTTT
273032 TTTTTTTCTTT
1 TTTTTTTCTTT
*
273043 TTCTTTTCTTT
1 TTTTTTTCTTT
273054 TTTCTTTT-TTT
1 TTT-TTTTCTTT
273065 TTT
1 TTT
273068 CTTCAAGCAT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
9 5 0.09
10 2 0.03
11 41 0.71
12 10 0.17
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:284773 original size:20 final size:20
Alignment explanation
Indices: 284747--284786 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
284737 GTTTATTTTT
*
284747 TTTTTTTCTTTTTTTTCTGTA
1 TTTTTTT-TTTGTTTTCTGTA
284768 TTTTTTTTTTGTTTTCTGT
1 TTTTTTTTTTGTTTTCTGT
284787 TTCTTTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.82
Consensus pattern (20 bp):
TTTTTTTTTTGTTTTCTGTA
Found at i:285271 original size:3 final size:3
Alignment explanation
Indices: 285263--285355 Score: 97
Period size: 3 Copynumber: 32.7 Consensus size: 3
285253 TTTATATATT
* *
285263 TAA TAA TAA -AA TAA TAA TAA -AA -AA TAA TAA TAA AAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
285308 T-A TAG T-A TAA TAA TAA TAA TGA TAA TAA TAA TAA TAT TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
285354 TA
1 TA
285356 TGGATAAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
2 8 0.11
3 66 0.89
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:285993 original size:26 final size:26
Alignment explanation
Indices: 285964--286016 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
285954 TAGCGGTTAG
285964 AAATCGCCATTCTTATAGCTAATATA
1 AAATCGCCATTCTTATAGCTAATATA
285990 AAATCGCCATTCTTATAGCTAATATA
1 AAATCGCCATTCTTATAGCTAATATA
286016 A
1 A
286017 TTTGACAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (26 bp):
AAATCGCCATTCTTATAGCTAATATA
Found at i:294559 original size:4 final size:4
Alignment explanation
Indices: 294550--295203 Score: 963
Period size: 4 Copynumber: 163.8 Consensus size: 4
294540 ATCATCAATG
* * *
294550 ATAC ATAC ATAC ATAC ATAC GTAC ATAC GTAC ATAC ATAC ATAC GTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
294598 ATAC GTAC ATAC GTAC ACAC ACAC ATAC GTAC ACACGC ACAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA--C ATAC ATAC ATAC
* ** * * * * * * *
294648 ACAC ACGC ACAC ATAC ATAC ACAC ACAC ACAC ATAC ACAC ACAC ACAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
294696 ATAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
294744 ATAC --AC ACAC ATGC ATAC ATAC ATGC ATGC ATGC ATAC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
294790 ATGC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
294838 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
294886 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
294934 ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
294981 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
295029 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
295077 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
295125 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
295173 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
295204 AAGAAAGCTA
Statistics
Matches: 598, Mismatches: 47, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
2 2 0.00
3 3 0.01
4 589 0.98
6 4 0.01
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (4 bp):
ATAC
Found at i:298224 original size:31 final size:31
Alignment explanation
Indices: 298153--298225 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
298143 TTTTTCAAAA
* *
298153 ATTATAAAATAATCATTCAATTTATCAAATT
1 ATTATAAAATAATCATTAAATTTATCAAACT
* *
298184 TTTATAAAATGATCATTAAATTTATCAAACT
1 ATTATAAAATAATCATTAAATTTATCAAACT
*
298215 ATTACAAAATA
1 ATTATAAAATA
298226 GACGAATAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (31 bp):
ATTATAAAATAATCATTAAATTTATCAAACT
Found at i:298282 original size:20 final size:21
Alignment explanation
Indices: 298235--298283 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
298225 AGACGAATAA
298235 TAAATTTTATTGAAATATTAT
1 TAAATTTTATTGAAATATTAT
*
298256 AAAATTTTCATT-AAATA-TAT
1 TAAATTTT-ATTGAAATATTAT
298276 TAAATTTT
1 TAAATTTT
298284 TACCTTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.40
21 12 0.48
22 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TAAATTTTATTGAAATATTAT
Found at i:306921 original size:23 final size:23
Alignment explanation
Indices: 306888--306955 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
306878 ATTATTATAT
306888 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
306911 GGCACTCCGGTGTAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
306934 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
306956 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:307409 original size:2 final size:2
Alignment explanation
Indices: 307389--307427 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
307379 TTGTGAACCT
* * *
307389 TA TA TA AA TT TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
307428 GTAGATTATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:313033 original size:21 final size:21
Alignment explanation
Indices: 312991--313033 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
312981 TTTCTGGGCC
* *
312991 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
313012 AGGGGAATCGATCCCCCCTCA
1 AGGGGAATCGATACCCACTCA
313033 A
1 A
313034 CCGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:313166 original size:31 final size:31
Alignment explanation
Indices: 313131--313196 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
313121 GCTAACTATC
313131 AATTCCTTAAATTGTTAGGCTATTAGAGGTT
1 AATTCCTTAAATTGTTAGGCTATTAGAGGTT
313162 AATTCCTTAAATTGTTAGGCTATTAGAGGTT
1 AATTCCTTAAATTGTTAGGCTATTAGAGGTT
313193 AATT
1 AATT
313197 TCAAGACTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (31 bp):
AATTCCTTAAATTGTTAGGCTATTAGAGGTT
Done.