Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 121 of 206
Found at i:36113068 original size:13 final size:13
Alignment explanation
Indices: 36113004--36113070 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 13
36112994 GGGTCCCTTG
*
36113004 TTATTAATTATT-
1 TTATTATTTATTA
*
36113016 TTATTATTAAAATTAA
1 TTATTATT--TATT-A
36113032 TTATT-TTTATTA
1 TTATTATTTATTA
36113044 -TATTATTTATTA
1 TTATTATTTATTA
*
36113056 TTATTATTGATTA
1 TTATTATTTATTA
36113069 TT
1 TT
36113071 GTCATATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
11 4 0.09
12 15 0.33
13 16 0.36
14 3 0.07
15 2 0.04
16 5 0.11
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:36118145 original size:7 final size:7
Alignment explanation
Indices: 36118120--36118161 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
36118110 AGTGATGTGA
36118120 AAAAATG
1 AAAAATG
36118127 AAAAGATG
1 AAAA-ATG
36118135 -AAAATG
1 AAAAATG
36118141 AAAAATG
1 AAAAATG
36118148 AAAAA-G
1 AAAAATG
36118154 TAAAAATG
1 -AAAAATG
36118162 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:36118159 original size:21 final size:21
Alignment explanation
Indices: 36118120--36118161 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36118110 AGTGATGTGA
*
36118120 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
36118141 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
36118162 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:36119635 original size:132 final size:132
Alignment explanation
Indices: 36119468--36120228 Score: 1200
Period size: 132 Copynumber: 5.8 Consensus size: 132
36119458 ATAGACAACA
* * * * *
36119468 GAGCAGATCAAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAAGCCAATAA
1 GAGCAAATCAAAAATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
36119533 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGAGCTTGTCTCCCTAAGCAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGAGCTTGTCTCCCTAAGCAGTAG
36119598 TG
131 TG
* *
36119600 GAGCAAATAAAAAATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCCGTAA
1 GAGCAAATCAAAAATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
*** **
36119665 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATATTGTCTCCCTAAGCAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGAGCTTGTCTCCCTAAGCAGTAG
36119730 TG
131 TG
* * * * * *
36119732 GAGCAGATCAAAGATGGCAGATTTTACCCCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAAATCAAAAATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
*** *
36119797 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGAGCTTGTCTCCCTAAGCAGTAG
36119862 TG
131 TG
36119864 GAGCAAATCAAAAATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAAATCAAAAATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
*
36119929 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGAGCTTGTCTCTCTAAGCAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGAGCTTGTCTCCCTAAGCAGTAG
36119994 TG
131 TG
* *
36119996 GAGCAAATAAAAAATGGCAAATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAAATCAAAAATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
36120061 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGAGCTTGTCTCCCTAAGCAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGAGCTTGTCTCCCTAAGCAGTAG
36120126 TG
131 TG
* * * * * *
36120128 GAGCAGACCAAAGATGGCAGATTTTACCTCCCTATGGTTACAGCGGAGTACATTGAAGCCAGTAA
1 GAGCAAATCAAAAATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
** *
36120193 TTCTA-TCTCCCTAAGCAGCAGTGGAACAGATTGAAG
66 TTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAG
36120229 CTACGACGGT
Statistics
Matches: 584, Mismatches: 44, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
131 1 0.00
132 583 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
GAGCAAATCAAAAATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGAGCTTGTCTCCCTAAGCAGTAG
TG
Found at i:36120324 original size:100 final size:100
Alignment explanation
Indices: 36120210--36120844 Score: 887
Period size: 100 Copynumber: 6.3 Consensus size: 100
36120200 TCCCTAAGCA
* * * * *
36120210 GCAGTGGAACAGATTGAAGCTACGACGGTGGATCTGGTTTCCCTGATATTGCCATTAAAAAGATT
1 GCAGTGGAACAGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAAAGATT
*
36120275 GAAGCCACAACGGCGGATCTTAATTCCTTAGCAGT
66 GAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
* *
36120310 GCAGTGGAACAGATTGAAGCCACAACGGCGGACCTGATTTCCCTGATACTGCAATTAAAAAGATT
1 GCAGTGGAACAGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAAAGATT
* * *
36120375 GAAGCCATAACTGCGGATCTTACTTCTTTAGCAGT
66 GAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
* * *
36120410 GCAGTGGAACAGATTGAAGCCATAACGGCGGACCTGATTTCCTTGATATTGCAATTAAAAAGATT
1 GCAGTGGAACAGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAAAGATT
36120475 GAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
66 GAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
* * * *
36120510 GCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTACAATTAAAAAGATT
1 GCAGTGGAACAGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAAAGATT
** *
36120575 GAAGCCACAACCACGGATCTTAATTCCTTAGCAGT
66 GAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
*
36120610 GCAGTGGAACAGATTGAAGCCACAACGGCGGA-CTTGATTTCCCTGATATTGTAATTAAAAAGAT
1 GCAGTGGAACAGATTGAAGCCACAACGGCGGATC-TGATTTCCCTGATATTGCAATTAAAAAGAT
*
36120674 TGAAGCCACAACGGCGGATCTTACTTCTTTAGCAGT
65 TGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
* * * * * *
36120710 GCAGTGGAACAGATTGAAGCTACGATGGCGGATCTGGTTTCCCTAATATTGCCATTAAAAAGATT
1 GCAGTGGAACAGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAAAGATT
* * * * * *
36120775 GAAGCCACAACGGCGGACCTGATTTTCCTGA-TATT
66 GAAGCCACAACGGCGGATCTTA-CTTCCTTAGCAGT
* ** *
36120810 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCT
1 GCAGTGGAACAGATTGAAGCCACAACGGCGGATCT
36120845 TACTTCTTTA
Statistics
Matches: 475, Mismatches: 57, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
99 1 0.00
100 468 0.99
101 6 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (100 bp):
GCAGTGGAACAGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAAAGATT
GAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
Found at i:36120491 original size:150 final size:150
Alignment explanation
Indices: 36120270--36120941 Score: 706
Period size: 150 Copynumber: 4.5 Consensus size: 150
36120260 GCCATTAAAA
* * * * * * ** *
36120270 AGATTGAAGCCACAACGGCGGATCTTAATT-CCTTAGCAGTGCAGTGGAACAGATTGAAGCCACA
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGA-TATTGCAATTAAAAAGATTGAAGCCACA
* * *
36120334 ACGGCGGACCTGATTTCCCTGATACTGCAATTAAAAAGATTGAAGCCATAACTGCGGATCTTACT
65 ACGGCGGACCTGATTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACT
36120399 TCTTTAGCAGTGCAGTGGAAC
130 TCTTTAGCAGTGCAGTGGAAC
* * *
36120420 AGATTGAAGCCATAACGGCGGACCTGATTTCCTTGATATTGCAATTAAAAAGATTGAAGCCACAA
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
* * * * * * * ** * * * ***
36120485 CGGCGGATCTTACTT-CCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTT
66 CGGCGGACCTGATTTCCCTGA-TATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACT
** * * * * ** *
36120549 TCCCT-GATATTACAATTAAAA
130 TCTTTAG-CAGTGCAGTGGAAC
** * * * * * * ** *
36120570 AGATTGAAGCCACAACCACGGATCTTAATT-CCTTAGCAGTGCAGTGGAACAGATTGAAGCCACA
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGA-TATTGCAATTAAAAAGATTGAAGCCACA
* *
36120634 ACGGCGGACTTGATTTCCCTGATATTGTAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACT
65 ACGGCGGACCTGATTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACT
36120699 TCTTTAGCAGTGCAGTGGAAC
130 TCTTTAGCAGTGCAGTGGAAC
* * * * * *
36120720 AGATTGAAGCTACGATGGCGGATCTGGTTTCCCTAATATTGCCATTAAAAAGATTGAAGCCACAA
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
*
36120785 CGGCGGACCTGATTTTCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTT
66 CGGCGGACCTGATTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTT
36120850 CTTTAGCAGTGCAGTGGAAC
131 CTTTAGCAGTGCAGTGGAAC
* * *
36120870 AGATTGAAGCTACGACGGCGGATCT-AGTTTCCCTGATATTGCCATTAAAAAGATTGAAGCCACA
1 AGATTGAAGCCACAACGGCGGATCTGA-TTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACA
36120934 ACGGCGGA
65 ACGGCGGA
36120942 TCTTACTTCC
Statistics
Matches: 414, Mismatches: 100, Indels: 16
0.78 0.19 0.03
Matches are distributed among these distances:
149 8 0.02
150 394 0.95
151 12 0.03
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (150 bp):
AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
CGGCGGACCTGATTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTT
CTTTAGCAGTGCAGTGGAAC
Found at i:36120874 original size:100 final size:100
Alignment explanation
Indices: 36120770--36121099 Score: 493
Period size: 100 Copynumber: 3.3 Consensus size: 100
36120760 GCCATTAAAA
* * *
36120770 AGATTGAAGCCACAACGGCGGACCT-GATTTTCCTGATATTGCAATTAAAAAGATTGAAGCCACA
1 AGATTGAAGCTACGACGGCGGATCTAG-TTTTCCTGATATTGCAATTAAAAAGATTGAAGCCACA
*
36120834 ACGGCGGATCTTACTTCTTTAGCAGTGCAGTGGAAC
65 ACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAAC
* *
36120870 AGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCCATTAAAAAGATTGAAGCCACAA
1 AGATTGAAGCTACGACGGCGGATCTAGTTTTCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
* *
36120935 CGGCGGATCTTACTTCCTTAGCAGTGCAATGGAAT
66 CGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAAC
* * *
36120970 AGATTGAAGCTGCGACGGCGGATCTAGTTTTCCTGACATTGCAATTAAAAATATTGAAGCCACAA
1 AGATTGAAGCTACGACGGCGGATCTAGTTTTCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
* * *
36121035 CGGCGGATCTTACTTCCCT-GACGGTGCGGTGGAAC
66 CGGCGGATCTTACTTCCTTAG-CAGTGCAGTGGAAC
*
36121070 AGATTGAAGCTACGACGGCGGATCTGGTTT
1 AGATTGAAGCTACGACGGCGGATCTAGTTT
36121100 CCCCGACATT
Statistics
Matches: 208, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
99 1 0.00
100 206 0.99
101 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (100 bp):
AGATTGAAGCTACGACGGCGGATCTAGTTTTCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
CGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAAC
Found at i:36120876 original size:200 final size:200
Alignment explanation
Indices: 36120220--36121094 Score: 776
Period size: 200 Copynumber: 4.4 Consensus size: 200
36120210 GCAGTGGAAC
* * * *** * * * *
36120220 AGATTGAAGCTACGACGGTGGATCTGGTTTCCCTGATATTGCCATTAAAAAGATTGAAGCCACAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAATGAAAAAGATTGAAGCCACAA
* *
36120285 CGGCGGATCTTAATTCCTTAGCAGTGCAGTGGAACAGATTGAAGCCACAACGGCGGACCTGATTT
66 CGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCCACAACGGCGGATCTGATTT
* * * * * * * *
36120350 CCCTGATACTGCAATTAAAAAGATTGAAGCCATAACTGCGGATCTTACTTCTTTAGCAGTGCAGT
131 CCCTAATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCTGAGCAGTGCAAT
* *
36120415 GGAAC
196 GAAAA
* * * * * * * *
36120420 AGATTGAAGCCATAACGGCGGACCTGATTTCCTTGATATTGCAATTAAAAAGATTGAAGCCACAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAATGAAAAAGATTGAAGCCACAA
* * *
36120485 CGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTT
66 CGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCCACAACGGCGGATCTGATTT
* * ** * * *
36120550 CCCTGATATTACAATTAAAAAGATTGAAGCCACAACCACGGATCTTAATTCCTTAGCAGTGCAGT
131 CCCTAATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCTGAGCAGTGCAAT
* *
36120615 GGAAC
196 GAAAA
* * * * *
36120620 AGATTGAAGCCACAACGGCGGA-CTTGATTTCCCTGATATTGTAATTAAAAAGATTGAAGCCACA
1 AGATTGAAGCCACAACGGCGGATCTT-ACTTCCCTGACAGTGCAATGAAAAAGATTGAAGCCACA
* * * * *
36120684 ACGGCGGATCTTACTTCTTTAGCAGTGCAGTGGAACAGATTGAAGCTACGATGGCGGATCTGGTT
65 ACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCCACAACGGCGGATCTGATT
* * * * *
36120749 TCCCTAATATTGCCATTAAAAAGATTGAAGCCACAACGGCGGACCTGATTTTCCTGA-TATTGCA
130 TCCCTAATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTA-TTTCCTGAGCAGTGCA
*
36120813 ATTAAAA
194 ATGAAAA
* * * * * * *
36120820 AGATTGAAGCCACAACGGCGGATCTTACTT-CTTTAGCAGTGCAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA-CAGTGCAATGAAAAAGATTGAAGCCACA
* * * * ** * *
36120884 ACGGCGGATC-TAGTTTCCCT-GATATTGCCA-TTAAAAAGATTGAAGCCACAACGGCGGATCTT
65 ACGGCGGATCTTA-CTTCCTTAG-CAGTG-CAGTGGAACAGATTGAAGCCACAACGGCGGATCTG
* * ** * ** * ** * *
36120946 ACTTCCTTAGCAGTGCAATGGAATAGATTGAAGCTGCGACGGCGGATC-TAGTTTTCCTGA-CAT
127 ATTTCCCTAATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTA--TTTCCTGAGCAG
*
36121009 TGCAATTAAAA
190 TGCAATGAAAA
* * ** * * * *
36121020 ATATTGAAGCCACAACGGCGGATCTTACTTCCCTGACGGTGCGGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAATGAAAAAGATTGAAGCCACAA
36121085 CGGCGGATCT
66 CGGCGGATCT
36121095 GGTTTCCCCG
Statistics
Matches: 579, Mismatches: 86, Indels: 19
0.85 0.13 0.03
Matches are distributed among these distances:
199 9 0.02
200 556 0.96
201 14 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (200 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAATGAAAAAGATTGAAGCCACAA
CGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCCACAACGGCGGATCTGATTT
CCCTAATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCTGAGCAGTGCAAT
GAAAA
Found at i:36121074 original size:150 final size:150
Alignment explanation
Indices: 36120266--36121094 Score: 627
Period size: 150 Copynumber: 5.5 Consensus size: 150
36120256 TATTGCCATT
* * * * *
36120266 AAAAAGATTGAAGCCACAACGGCGGATCTTAATT-CCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGA-CAGTGCAATGAAAAAGATTGAAGC
* * * * * * *
36120330 CACAACGGCGGACCTGATTTCCCT-GATACTGCAATTAAAAAGATTGAAGCCATAACTGCGGATC
65 CACAACGGCGGATCTTATTTCCTTAG-TAGTGCAATGAAAAAGATTGAAGCCACAACGGCGGATC
*
36120394 TTACTTCTTTAGCAGTGCAGTG
129 TTACTTCTTTAGCAGTGCAATG
* * * * * * * * *
36120416 GAACAGATTGAAGCCATAACGGCGGACCTGATTTCCTTGATATTGCAATTAAAAAGATTGAAGCC
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACAGTGCAATGAAAAAGATTGAAGCC
* * * * * * * *
36120481 ACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTG
66 ACAACGGCGGATCTTATTTCCTTAGTAGTGCAATGAAAAAGATTGAAGCCACAACGGCGGATCTT
** ** * * * *
36120546 GTTTCCCT-GATATTACAATT
131 ACTTCTTTAG-CAGTGCAATG
** * * * * *
36120566 AAAAAGATTGAAGCCACAACCACGGATCTTAATT-CCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGA-CAGTGCAATGAAAAAGATTGAAGC
* * * *
36120630 CACAACGGCGGA-CTTGATTTCCCT-GATATTGTAATTAAAAAGATTGAAGCCACAACGGCGGAT
65 CACAACGGCGGATCTT-ATTTCCTTAG-TAGTGCAATGAAAAAGATTGAAGCCACAACGGCGGAT
*
36120693 CTTACTTCTTTAGCAGTGCAGTG
128 CTTACTTCTTTAGCAGTGCAATG
* * * * * ** * * * * *
36120716 GAACAGATTGAAGCTACGATGGCGGATCTGGTTTCCCTAATATTGCCATTAAAAAGATTGAAGCC
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACAGTGCAATGAAAAAGATTGAAGCC
* * * * *
36120781 ACAACGGCGGACCTGATTTTCCTGA-TATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCT
66 ACAACGGCGGATCTTA-TTTCCTTAGTAGTGCAATGAAAAAGATTGAAGCCACAACGGCGGATCT
*
36120845 TACTTCTTTAGCAGTGCAGTG
130 TACTTCTTTAGCAGTGCAATG
* * * * * * * *
36120866 GAACAGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTGATATTGCCATTAAAAAGATTGAAGC
1 AAAAAGATTGAAGCCACAACGGCGGATCTTA-TTTCCCTGACAGTGCAATGAAAAAGATTGAAGC
* * * * ** *
36120930 CACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAATAGATTGAAGCTGCGACGGCGGATC-
65 CACAACGGCGGATCTTATTTCCTTAGTAGTGCAATGAAAAAGATTGAAGCCACAACGGCGGATCT
* * *
36120994 TAGTT-TTCCT-GACATTGCAATT
130 TACTTCTT--TAG-CAGTGCAATG
* * * ** * * *
36121016 AAAAATATTGAAGCCACAACGGCGGATCTTACTTCCCTGACGGTGCGGTGGAACAGATTGAAGCT
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACAGTGCAATGAAAAAGATTGAAGCC
*
36121081 ACGACGGCGGATCT
66 ACAACGGCGGATCT
36121095 GGTTTCCCCG
Statistics
Matches: 529, Mismatches: 133, Indels: 34
0.76 0.19 0.05
Matches are distributed among these distances:
148 2 0.00
149 19 0.04
150 490 0.93
151 18 0.03
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (150 bp):
AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACAGTGCAATGAAAAAGATTGAAGCC
ACAACGGCGGATCTTATTTCCTTAGTAGTGCAATGAAAAAGATTGAAGCCACAACGGCGGATCTT
ACTTCTTTAGCAGTGCAATG
Found at i:36122601 original size:3 final size:3
Alignment explanation
Indices: 36122581--36122649 Score: 61
Period size: 3 Copynumber: 22.3 Consensus size: 3
36122571 GGGTCCCTTG
** *
36122581 TTA TTAA TTA TT- TTA TTA TTA AAA TTAA TTA TTT TTA TTA -TA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
36122626 TTTA TTA TTA TTA TTGA TTA TTA T
1 -TTA TTA TTA TTA TT-A TTA TTA T
36122650 CATATTTTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
2 4 0.07
3 38 0.70
4 12 0.22
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:36122632 original size:21 final size:22
Alignment explanation
Indices: 36122581--36122649 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 22
36122571 GGGTCCCTTG
36122581 TTATTAATTA-TTTTATTATTA
1 TTATTAATTATTTTTATTATTA
**
36122602 AAATTAATTATTTTTATTA-TA
1 TTATTAATTATTTTTATTATTA
* *
36122623 TTATTTATTATTATTATTGATTA
1 TTATTAATTATTTTTATT-ATTA
36122646 TTAT
1 TTAT
36122650 CATATTTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 24 0.62
22 9 0.23
23 6 0.15
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (22 bp):
TTATTAATTATTTTTATTATTA
Found at i:36122645 original size:13 final size:13
Alignment explanation
Indices: 36122581--36122649 Score: 63
Period size: 13 Copynumber: 5.3 Consensus size: 13
36122571 GGGTCCCTTG
*
36122581 TTATTAATTATT-
1 TTATTATTTATTA
*
36122593 TTATTATTAAAATTAA
1 TTATTATT--TATT-A
36122609 TTATT-TTTATTA
1 TTATTATTTATTA
36122621 -TATTATTTATTA
1 TTATTATTTATTA
*
36122633 TTATTATTGATTA
1 TTATTATTTATTA
36122646 TTAT
1 TTAT
36122650 CATATTTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
11 4 0.09
12 15 0.32
13 18 0.38
14 3 0.06
15 2 0.04
16 5 0.11
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:36122648 original size:10 final size:9
Alignment explanation
Indices: 36122581--36122649 Score: 61
Period size: 10 Copynumber: 7.4 Consensus size: 9
36122571 GGGTCCCTTG
36122581 TTATTAATTA
1 TTATT-ATTA
36122591 TT-TTATTA
1 TTATTATTA
**
36122599 TTAAAATTAA
1 TTATTATT-A
*
36122609 TTATTTTTA
1 TTATTATTA
36122618 TTA-TATTA
1 TTATTATTA
36122626 TTTATTATTA
1 -TTATTATTA
36122636 TTATTGATTA
1 TTATT-ATTA
36122646 TTAT
1 TTAT
36122650 CATATTTTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
8 10 0.21
9 17 0.35
10 21 0.44
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (9 bp):
TTATTATTA
Found at i:36124137 original size:126 final size:125
Alignment explanation
Indices: 36123876--36124440 Score: 757
Period size: 126 Copynumber: 4.5 Consensus size: 125
36123866 CCCAAACATG
* *
36123876 CTACTGTAGCAAAAGTGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * *
36123941 TAGAAGCA-ATTTTATACTATTTGCTCAGAAACGTTAAGTCGAAATTATTTTTCCAGGAC
66 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* *
36124000 CTACTGTAGCAAAAACGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* *
36124064 CTTGCAGCATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
65 CTTGAAGCATT-TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
*
36124126 CTACTGTAGCAAAAGCGCGTCCAC-ATGGGCG-GAATTTCACAAAATT-TTCTTATAAAGCATCC
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGGCGCG-ATTTCAC-AAATTCTTCTCATAAAGCATCC
* * *
36124188 TGCTT-AGAGCATTTTTTTTAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGA
63 TGCTTGA-AGCATTTTTTAT-ACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGA
36124252 C
125 C
*
36124253 CAACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
** *
36124318 TTGAAGCGGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
66 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* * * * * * * *
36124378 CTATTGTAGCAAAAGCGTGTACAC-ATGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCT
36124441 ACTTTGATTT
Statistics
Matches: 390, Mismatches: 36, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
123 2 0.01
124 65 0.17
125 67 0.17
126 176 0.45
127 77 0.20
128 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
Found at i:36131919 original size:18 final size:17
Alignment explanation
Indices: 36131898--36131932 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36131888 CTATTATTAA
*
36131898 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
36131916 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
36131933 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:36131979 original size:61 final size:59
Alignment explanation
Indices: 36131913--36132103 Score: 144
Period size: 66 Copynumber: 3.2 Consensus size: 59
36131903 TTTTAATTAA
*
36131913 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTGAAAACAT
1 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTT-CT-AAAACAT
* * * * ** *
36131974 AATATATGATACTATAAAATATAATT-TGAAATAATTAATATT-AAATAT--ATTT-TAATTA-A
1 AATATAT-A-A-T-T-TAATAAAATTCT-TAATAATAAATATTCTTATATGAATTTCTAA-AACA
36132033 -
59 T
* *
36132033 AATATATGATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAA-TTTCTAAAA-CAT
36132094 AATATATAAT
1 AATATATAAT
36132104 ACTATAAAAT
Statistics
Matches: 97, Mismatches: 17, Indels: 32
0.66 0.12 0.22
Matches are distributed among these distances:
54 19 0.20
55 6 0.06
56 1 0.01
57 2 0.02
58 4 0.04
59 10 0.10
60 4 0.04
61 18 0.19
62 1 0.01
63 5 0.05
64 1 0.01
65 6 0.06
66 20 0.21
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (59 bp):
AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTCTAAAACAT
Found at i:36132041 original size:59 final size:58
Alignment explanation
Indices: 36131974--36132159 Score: 166
Period size: 59 Copynumber: 3.1 Consensus size: 58
36131964 CTGAAAACAT
* *
36131974 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
36132033 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* *
36132093 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
36132153 AATATAT
1 AATATAT
36132160 AATTTATCAT
Statistics
Matches: 99, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.38
60 19 0.19
61 31 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:36132106 original size:120 final size:120
Alignment explanation
Indices: 36131878--36132165 Score: 454
Period size: 120 Copynumber: 2.4 Consensus size: 120
36131868 TTAATCATAT
* *
36131878 TTTAACATAACTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
36131943 CAATATTCTTATATGAATTTACTGAAAACATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTGAAAACATAATATATAATACTATAAAATATAA
* *
36131998 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
36132062 TAAATATTCTTATATGAATTTTCT-AAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTGAAAA-CATAATATATAATACTATAAAATATAA
* * *
36132118 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTA
1 TTTAACATAATTAATATTAAATATATTTTAATTAAAATATATAATTTA
36132166 TCATCATACT
Statistics
Matches: 154, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
119 6 0.04
120 146 0.95
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTGAAAACATAATATATAATACTATAAAATATAA
Found at i:36132111 original size:61 final size:61
Alignment explanation
Indices: 36131913--36132113 Score: 150
Period size: 61 Copynumber: 3.3 Consensus size: 61
36131903 TTTTAATTAA
* * * *
36131913 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTGAAAA-CAT
1 AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCT-AAAATCAT
* * * * * * *
36131974 AATATATGATACT-ATAAAA-T-ATAAT-TTGAAATAAT-TAATATTAAATATATT-T-TAATTA
1 AATATATAAT-CTAATAAAATTCTTAATATT-AAATATTCTTATA-TGAAT-T-TTCTAAAATCA
*
36132032 A
61 T
* *
36132033 AATATATGATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
36132094 AATATATAATACT-ATAAAAT
1 AATATATAAT-CTAATAAAAT
36132114 ATAATTTAAC
Statistics
Matches: 104, Mismatches: 22, Indels: 28
0.68 0.14 0.18
Matches are distributed among these distances:
58 8 0.08
59 32 0.31
60 6 0.06
61 50 0.48
62 8 0.08
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (61 bp):
AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
Found at i:36138943 original size:23 final size:23
Alignment explanation
Indices: 36138917--36139037 Score: 208
Period size: 23 Copynumber: 5.3 Consensus size: 23
36138907 ATAAGTGCCA
*
36138917 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36138940 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36138963 CACTGA-ATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36138985 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36139008 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36139031 CACTGAT
1 CACTGAT
36139038 CAATAACACT
Statistics
Matches: 95, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
22 22 0.23
23 73 0.77
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:36138982 original size:45 final size:45
Alignment explanation
Indices: 36138917--36139037 Score: 206
Period size: 45 Copynumber: 2.6 Consensus size: 45
36138907 ATAAGTGCCA
*
36138917 CACTGATATGTAGCTGAAGCTACCACTGATATGTAGCCGAAGCTAC
1 CACTGA-ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
*
36138963 CACTGAATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGAATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
36139008 CACTGAAATGTAGCCGAAGCTACCACTGAT
1 CACTG-AATGTAGCCGAAGCTACCACTGAT
36139038 CAATAACACT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
45 42 0.59
46 29 0.41
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (45 bp):
CACTGAATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
Found at i:36139137 original size:8 final size:8
Alignment explanation
Indices: 36139124--36139152 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
36139114 ACCCGGGACT
36139124 CACTGTAA
1 CACTGTAA
36139132 CACTGTAA
1 CACTGTAA
36139140 CACTGTAA
1 CACTGTAA
36139148 CACTG
1 CACTG
36139153 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:36151837 original size:15 final size:15
Alignment explanation
Indices: 36151817--36151846 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36151807 TATTTTGATT
36151817 TTAAAATTTAATTAC
1 TTAAAATTTAATTAC
*
36151832 TTAAAATTTGATTAC
1 TTAAAATTTAATTAC
36151847 AAATCTAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAAAATTTAATTAC
Found at i:36152005 original size:34 final size:35
Alignment explanation
Indices: 36151961--36152027 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
36151951 CAGTAAAATA
36151961 TTTTTCGTAAAATGATTT-CGGGAAAATATTTTAC
1 TTTTTCGTAAAATGATTTACGGGAAAATATTTTAC
* *
36151995 TTTTTTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTTCGTAAAATGATTTACGGGAAAATATTTT
36152028 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTTCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:36153237 original size:11 final size:12
Alignment explanation
Indices: 36153200--36153244 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
36153190 CTTAACTCCC
36153200 TTTTTTTAAATA
1 TTTTTTTAAATA
* **
36153212 ATTTTAAAAATA
1 TTTTTTTAAATA
36153224 TTTTTTTAAA-A
1 TTTTTTTAAATA
36153235 TTTTTTTAAA
1 TTTTTTTAAA
36153245 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 11 0.41
12 16 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTTTTAAATA
Found at i:36154411 original size:321 final size:321
Alignment explanation
Indices: 36153966--36154609 Score: 1092
Period size: 321 Copynumber: 2.0 Consensus size: 321
36153956 CAATTGAGTT
* *
36153966 GGGGGTCTGCCATCTTGGCAACGTTATATCGGGAGATGTGCGGGGTGACGCGACCGAGGAGAGTA
1 GGGGGTCTGCCATCTTGGCAACGTTATATCGGGAGATGTGCGGGCTGACGCGACCGAGGAGAGCA
* *
36154031 AAAATCGGAGGTTGCATGTCACTACTGCAGTTATGGGCACGGTTTCGCTTTCCATTTCTACGTCC
66 AAAATCGGAGGTTGCATGTCACTACTGCAGTCATGGGCACGGTTTCGCTTTCCATTTCTACGTCA
* *
36154096 TCGAGTGGACCATCCATATACATTCCCACTCATAACGAGGTAAATTTTATATTAGATTTTACAAT
131 TCGAGTAGACCACCCATATACATTCCCACTCATAACGAGGTAAATTTTATATTAGATTTTACAAT
* *
36154161 TCTTATGTAGATTTTTAAAAATAAAAGTATGATAAAAATTTATTTAATTAGGTGGAACCATCCGG
196 TATTATGTAGATTTTTAAAAATAAAAGTATGATAAAAACTTATTTAATTAGGTGGAACCATCCGG
36154226 CAAGTCATGCTCGATTACCTACCTCTCTTGAAGATATACAGCTTCTATTAGACCAACGGTC
261 CAAGTCATGCTCGATTACCTACCTCTCTTGAAGATATACAGCTTCTATTAGACCAACGGTC
* * *
36154287 GGGGGATCTGCCGTCTTGGCAATGTT-TATTGGGAGATGTGCGGGCTGACGCGACCGAGGAGAGC
1 GGGGG-TCTGCCATCTTGGCAACGTTATATCGGGAGATGTGCGGGCTGACGCGACCGAGGAGAGC
* *
36154351 AAAAATCGGAGGTTGCCTGTCACTACTGCAGTCATGGGCACGGTTTCGCTTTCTATTTCTACGTC
65 AAAAATCGGAGGTTGCATGTCACTACTGCAGTCATGGGCACGGTTTCGCTTTCCATTTCTACGTC
* * *
36154416 ATCGAGTAGACCACCCATATACATTCTCACTCATAATGAGGTGAATTTTATATTAGATTTTACAA
130 ATCGAGTAGACCACCCATATACATTCCCACTCATAACGAGGTAAATTTTATATTAGATTTTACAA
* *
36154481 TTATTATGTAGATTTTTAAAAATAAAAGTATGCTAAAAACTTATTTAATTAGGTGGAACCATCTG
195 TTATTATGTAGATTTTTAAAAATAAAAGTATGATAAAAACTTATTTAATTAGGTGGAACCATCCG
* *
36154546 GCAAGTCATGCTCGATTACCTACCTCTCTTGAAGATATACGGCTTCTATTGGACCAACGGTC
260 GCAAGTCATGCTCGATTACCTACCTCTCTTGAAGATATACAGCTTCTATTAGACCAACGGTC
36154608 GG
1 GG
36154610 AAGCACAAGT
Statistics
Matches: 302, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
321 284 0.94
322 18 0.06
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (321 bp):
GGGGGTCTGCCATCTTGGCAACGTTATATCGGGAGATGTGCGGGCTGACGCGACCGAGGAGAGCA
AAAATCGGAGGTTGCATGTCACTACTGCAGTCATGGGCACGGTTTCGCTTTCCATTTCTACGTCA
TCGAGTAGACCACCCATATACATTCCCACTCATAACGAGGTAAATTTTATATTAGATTTTACAAT
TATTATGTAGATTTTTAAAAATAAAAGTATGATAAAAACTTATTTAATTAGGTGGAACCATCCGG
CAAGTCATGCTCGATTACCTACCTCTCTTGAAGATATACAGCTTCTATTAGACCAACGGTC
Found at i:36157092 original size:45 final size:45
Alignment explanation
Indices: 36157043--36157211 Score: 171
Period size: 45 Copynumber: 3.6 Consensus size: 45
36157033 ATATTTTGAA
*
36157043 TATTTTGATATTATTTTATGTAATAAAATAAAAAATTTTTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAAAAAATTTTTTGAGT
* *
36157088 TATTTTGATATTATTTGATGTAATAAAAT-AGAAGTTTATTTGATGT
1 TATTTTGATATTATTTGATGTAATAAAATAAAAAATTT-TTTGA-GT
** * * * *
36157134 AATAAAATAGA-AGTTTAGTTGATGTAATAAAATAGAAATTTTTTTGAGT
1 --T-ATTTTGATA--TTATTTGATGTAATAAAATAAAAAATTTTTTGAGT
*
36157183 TATTTTGATATTATTCGATGTAATAAAAT
1 TATTTTGATATTATTTGATGTAATAAAAT
36157212 GAGCTTAATT
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
44 6 0.06
45 50 0.50
46 6 0.06
47 2 0.02
48 2 0.02
49 6 0.06
50 23 0.23
51 5 0.05
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.47
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAAAAAATTTTTTGAGT
Found at i:36157132 original size:25 final size:25
Alignment explanation
Indices: 36157098--36157180 Score: 139
Period size: 25 Copynumber: 3.3 Consensus size: 25
36157088 TATTTTGATA
36157098 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
36157123 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
36157148 TTAGTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
*
36157173 TTTTTTGA
1 TTATTTGA
36157181 GTTATTTTGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:36157251 original size:95 final size:94
Alignment explanation
Indices: 36157054--36157224 Score: 242
Period size: 95 Copynumber: 1.8 Consensus size: 94
36157044 ATTTTGATAT
*
36157054 TATTTT-ATGTAATAAAATAAAAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TATTTTGATGTAATAAAATAAAAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAATA
* * *
36157118 GAAGTTTATTTGATGTAATAAAATAGAAG
66 GAAGCTTAATTAATGTAATAAAATAGAAG
* *
36157147 T-TTAGTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAA
1 TATT--TTGATGTAATAAAATAAAAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAA
36157211 T-G-AGCTTAATTAAT
64 TAGAAGCTTAATTAAT
36157225 TTGTACAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 2 0.03
93 10 0.14
94 3 0.04
95 54 0.78
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.45
Consensus pattern (94 bp):
TATTTTGATGTAATAAAATAAAAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAATA
GAAGCTTAATTAATGTAATAAAATAGAAG
Found at i:36160569 original size:125 final size:125
Alignment explanation
Indices: 36160347--36160724 Score: 614
Period size: 125 Copynumber: 3.0 Consensus size: 125
36160337 CCCAAACATG
* *
36160347 CTACTATAACAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * ** *
36160412 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGATCACAAACGTCAACTCAAAA-TTATTTCTTCCAGGAC
* **
36160472 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
36160537 TAGAAACGATTTTATACTATTTGATCACAAACGTCAACTCAAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGATCACAAACGTCAACTCAAAATTATTTCTTCCAGGAC
* *
36160597 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
36160662 TAGAAGCGATTTTATACTATTTGATCACAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGATCACAAACGTCAACTCAAAATTATTTCTTCCAGGAC
36160722 CTA
1 CTA
36160725 AAAACCCTAA
Statistics
Matches: 234, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
125 230 0.98
126 4 0.02
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGATCACAAACGTCAACTCAAAATTATTTCTTCCAGGAC
Found at i:36161381 original size:30 final size:31
Alignment explanation
Indices: 36161322--36161381 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
36161312 TGATCATTTT
36161322 AAAAATTACAAAAAAATTTAAAATAATCTTC
1 AAAAATTACAAAAAAATTTAAAATAATCTTC
* *
36161353 AAAAATT-CAAAATATTTATAAAAT-ATCTT
1 AAAAATTACAAAAAAATT-TAAAATAATCTT
36161382 TTCCAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (31 bp):
AAAAATTACAAAAAAATTTAAAATAATCTTC
Found at i:36161466 original size:2 final size:2
Alignment explanation
Indices: 36161459--36161484 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36161449 AAAAATGCTA
36161459 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
36161485 TAAAATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36161603 original size:2 final size:2
Alignment explanation
Indices: 36161596--36161632 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
36161586 GAGTTTTCAA
36161596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
36161633 TTATGTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36161637 original size:9 final size:9
Alignment explanation
Indices: 36161596--36161637 Score: 54
Period size: 8 Copynumber: 5.0 Consensus size: 9
36161586 GAGTTTTCAA
36161596 ATATATAT-
1 ATATATATG
36161604 ATATATAT-
1 ATATATATG
36161612 ATATATAT-
1 ATATATATG
36161620 ATATATATG
1 ATATATATG
*
36161629 ATATTTATG
1 ATATATATG
36161638 TTCTTTAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 24 0.75
9 8 0.25
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (9 bp):
ATATATATG
Found at i:36177605 original size:37 final size:37
Alignment explanation
Indices: 36177555--36177626 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
36177545 AAGGAATAAA
*
36177555 TAAATGGTTTCTACAATGTGAAGGATTTGTATCTGGC
1 TAAATGGTTTCTACAATGTGAAGCATTTGTATCTGGC
36177592 TAAATGGTTTCTACAATGTGAAGCATTTGTATCTG
1 TAAATGGTTTCTACAATGTGAAGCATTTGTATCTG
36177627 ACCTTTTAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (37 bp):
TAAATGGTTTCTACAATGTGAAGCATTTGTATCTGGC
Found at i:36181630 original size:25 final size:26
Alignment explanation
Indices: 36181602--36181666 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
36181592 ATAAAATTTA
*
36181602 TATTTTATATATTA-TCATATTAAAT
1 TATTTTAAATATTATTCATATTAAAT
* *
36181627 TA-TTTAAATATTATTTATTTTAAAT
1 TATTTTAAATATTATTCATATTAAAT
*
36181652 TA-TTTAAATCTTATT
1 TATTTTAAATATTATT
36181667 TGTTACTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 10 0.29
25 25 0.71
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTTTAAATATTATTCATATTAAAT
Found at i:36181744 original size:25 final size:24
Alignment explanation
Indices: 36181699--36181749 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
36181689 AAATGTTCTA
* *
36181699 TATATTATTAATTTTACAAATAGTT
1 TATATTATTAATTTAAAAAATA-TT
36181724 TATATTAATT-ATTTAAAAAATATT
1 TATATT-ATTAATTTAAAAAATATT
36181748 TA
1 TA
36181750 AATTTGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 16 0.70
26 3 0.13
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TATATTATTAATTTAAAAAATATT
Found at i:36181883 original size:19 final size:20
Alignment explanation
Indices: 36181859--36181897 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
36181849 TAATTTAATA
*
36181859 TAATAGAAATTTC-ATTTAT
1 TAATAGAAACTTCTATTTAT
36181878 TAATAGAAACTTCTATTTAT
1 TAATAGAAACTTCTATTTAT
36181898 AGAAGTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (20 bp):
TAATAGAAACTTCTATTTAT
Found at i:36182829 original size:2 final size:2
Alignment explanation
Indices: 36182824--36182876 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
36182814 ATTACAAAGT
36182824 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
*
36182866 TA TA TA AA TA T
1 TA TA TA TA TA T
36182877 GATAGTTGTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:36185849 original size:20 final size:20
Alignment explanation
Indices: 36185813--36185859 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
36185803 ACAATAAGAG
* *
36185813 ATAA-TAAAGTATGAATAAT
1 ATAATTAAAATATAAATAAT
*
36185832 ATAATTAAAATATAAATATT
1 ATAATTAAAATATAAATAAT
36185852 AT-ATTAAA
1 ATAATTAAA
36185860 TTAAAGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (20 bp):
ATAATTAAAATATAAATAAT
Found at i:36186305 original size:43 final size:43
Alignment explanation
Indices: 36186244--36186345 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 43
36186234 ATATCACATA
* *
36186244 ATAATATCCTATAATATCCCATTAGGAATCAAATTGTTAAGAG
1 ATAATATCCTATAATATCCCATTAGGAATCAAATTATTAAAAG
* * * *
36186287 ATAATATCTTGTAATATCCTATTAGGAATCAAATTATTAAAAT
1 ATAATATCCTATAATATCCCATTAGGAATCAAATTATTAAAAG
36186330 ATAATATCCTATAATA
1 ATAATATCCTATAATA
36186346 ATATCCTAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (43 bp):
ATAATATCCTATAATATCCCATTAGGAATCAAATTATTAAAAG
Found at i:36190454 original size:46 final size:46
Alignment explanation
Indices: 36190398--36190522 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 46
36190388 TTTGATCTCT
** *
36190398 TGCATATGTTGTAGACTCGAGAATACATGAATAGGTTTCGAACTCC
1 TGCATATGTTGCGGACTTGAGAATACATGAATAGGTTTCGAACTCC
* * * * * * *
36190444 TGTATATGTTGCGGACTTGAGAATAAAGGATTAGGTTTTGAGCTCT
1 TGCATATGTTGCGGACTTGAGAATACATGAATAGGTTTCGAACTCC
36190490 TGCATATGTTGCGGACTTGAGAATACATGAATA
1 TGCATATGTTGCGGACTTGAGAATACATGAATA
36190523 TTAAGACCTG
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (46 bp):
TGCATATGTTGCGGACTTGAGAATACATGAATAGGTTTCGAACTCC
Found at i:36194153 original size:49 final size:50
Alignment explanation
Indices: 36194093--36194279 Score: 182
Period size: 50 Copynumber: 3.8 Consensus size: 50
36194083 GATAGTACCA
* * * *
36194093 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTTCCTGT-GC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATATCGC
* * *
36194142 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGA-GTTCTCATATCGAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCATATCG-C
* ** ** * * *
36194193 -GCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATATCGC
* *
36194242 TGCCAACGCCATGTCCCAGACATGGTCTTACCTGGGAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
36194280 CTCTCATAAC
Statistics
Matches: 113, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
48 3 0.03
49 38 0.34
50 70 0.62
51 2 0.02
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATATCGC
Found at i:36196453 original size:13 final size:13
Alignment explanation
Indices: 36196435--36196469 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
36196425 TTACTAAAAG
36196435 ATAATATCCCATA
1 ATAATATCCCATA
36196448 ATAATATCCCATA
1 ATAATATCCCATA
36196461 ATAATATCC
1 ATAATATCC
36196470 TATTAGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAATATCCCATA
Found at i:36201020 original size:113 final size:115
Alignment explanation
Indices: 36200819--36201050 Score: 441
Period size: 113 Copynumber: 2.0 Consensus size: 115
36200809 TGTCCATTAA
36200819 AAGTAAAATTTTATATCATTTATGTGTATGTTTATAAATATATATTTTAGAAAAATATTGTAAAT
1 AAGTAAAATTTTATATCATTTATGTGTATG-TTATAAATATATATTTTAGAAAAATATTGTAAAT
36200884 ATACATCTTTCTCTATTCTTCTATATCTTGTTGTTTTTAAAATTGCTAAGT
65 ATACATCTTTCTCTATTCTTCTATATCTTGTTGTTTTTAAAATTGCTAAGT
36200935 AAGTAAAATTTTATATCATTTATGTGTATG-T-TAAATATATATTTTAGAAAAATATTGTAAATA
1 AAGTAAAATTTTATATCATTTATGTGTATGTTATAAATATATATTTTAGAAAAATATTGTAAATA
36200998 TACATCTTTCTCTATTCTTCTATATCTTGTTGTTTTTAAAATTGCTAAGT
66 TACATCTTTCTCTATTCTTCTATATCTTGTTGTTTTTAAAATTGCTAAGT
36201048 AAG
1 AAG
36201051 ATGGCAATAA
Statistics
Matches: 116, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
113 85 0.73
114 1 0.01
116 30 0.26
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (115 bp):
AAGTAAAATTTTATATCATTTATGTGTATGTTATAAATATATATTTTAGAAAAATATTGTAAATA
TACATCTTTCTCTATTCTTCTATATCTTGTTGTTTTTAAAATTGCTAAGT
Found at i:36206732 original size:38 final size:38
Alignment explanation
Indices: 36206681--36206770 Score: 146
Period size: 38 Copynumber: 2.4 Consensus size: 38
36206671 TAATTGTTGT
*
36206681 ACATTTATGGTATGCTCACACACTTCGCTAAAATTTGC
1 ACATTTATGGTATGCTCACACACTTCGCTAAAATTTAC
* *
36206719 ACATTTATGGTATGCTCATACACTTTGCTAAAATTTAC
1 ACATTTATGGTATGCTCACACACTTCGCTAAAATTTAC
36206757 ACATTTAT-GTATGC
1 ACATTTATGGTATGC
36206771 AAATAAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 6 0.12
38 43 0.88
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (38 bp):
ACATTTATGGTATGCTCACACACTTCGCTAAAATTTAC
Found at i:36209587 original size:30 final size:30
Alignment explanation
Indices: 36209551--36209607 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
36209541 CGAGCTTTGG
36209551 GGAAAAAATGTAAATATGCAAAAGTTTAGA
1 GGAAAAAATGTAAATATGCAAAAGTTTAGA
* * * *
36209581 GGAAAAATTGTAATTTTGCCAAAGTTT
1 GGAAAAAATGTAAATATGCAAAAGTTT
36209608 GAGTTAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (30 bp):
GGAAAAAATGTAAATATGCAAAAGTTTAGA
Found at i:36209978 original size:26 final size:26
Alignment explanation
Indices: 36209942--36209994 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
36209932 TGGATAAAAA
36209942 AGGGGTTGCTAAGTGCAAATTCCCCG
1 AGGGGTTGCTAAGTGCAAATTCCCCG
**
36209968 AGGGGTTGCTAAGTGCCGATTCCCCG
1 AGGGGTTGCTAAGTGCAAATTCCCCG
36209994 A
1 A
36209995 ATTATTGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.23
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCAAATTCCCCG
Found at i:36210031 original size:42 final size:42
Alignment explanation
Indices: 36209971--36210190 Score: 181
Period size: 42 Copynumber: 5.4 Consensus size: 42
36209961 TTCCCCGAGG
* * * *
36209971 GGTTGCTAAGTGCCGATTCCCCGAATTATTGACTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGAATATAAAGGT
* *
36210013 GGTTGCTAAGTGCTGATTCCACCGTATCT-TTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGAATAT-AAAGGT
* * * *
36210056 GGTTGCTATGTGCTGATTCCCCGTATGACTGAATATAAATGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGAATATAAAGGT
* *
36210098 GGTTGCTAAGTGCTGATT---C-TA-T-TTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGAATAT-AAAGGT
* * * * *
36210134 GGTTGCTATGTGTTGATTCCCCGTATCACTGAAT-TTAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGAATATAAAGGT
36210175 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
36210191 ATCCATCGAG
Statistics
Matches: 141, Mismatches: 24, Indels: 27
0.73 0.12 0.14
Matches are distributed among these distances:
36 21 0.15
37 4 0.03
38 2 0.01
39 2 0.01
40 6 0.04
41 19 0.13
42 51 0.36
43 30 0.21
44 6 0.04
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGAATATAAAGGT
Found at i:36210111 original size:85 final size:80
Alignment explanation
Indices: 36209968--36210195 Score: 282
Period size: 85 Copynumber: 2.8 Consensus size: 80
36209958 AAATTCCCCG
* * * * * *
36209968 AGGGGTTGCTAAGTGCCGATTCCCCGAATTATTGACTCTAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
36210033 ACCGTATCTTTGATTGTGAA
65 A-C-TA--TTTGATTGTGAA
* *
36210053 AGGGGTTGCTATGTGCTGATTCCCCGTATGACTGAATATAAATGTGGTTGCTAAGTGCTGATT--
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
36210116 -CTATTTGATTGTGAA
65 ACTATTTGATTGTGAA
* * *
36210131 AGGGGTTGCTATGTGTTGATTCCCCGTATCACTGAATTTAAGGTGGTTGCTAAGTGCTGAATCCA
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
36210196 TCGAGTAATG
Statistics
Matches: 127, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
77 22 0.17
78 47 0.37
80 2 0.02
81 1 0.01
85 55 0.43
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (80 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CTATTTGATTGTGAA
Found at i:36229709 original size:25 final size:25
Alignment explanation
Indices: 36229681--36229756 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
36229671 TAGCTACGTT
36229681 CTGACCCACAGCTCGTGTGAGCATA
1 CTGACCCACAGCTCGTGTGAGCATA
** * * *
36229706 CTGACTTATAGATCGTGAGAGCATA
1 CTGACCCACAGCTCGTGTGAGCATA
* * *
36229731 CCGATCCACAGCTCGAGTGAGCATA
1 CTGACCCACAGCTCGTGTGAGCATA
36229756 C
1 C
36229757 CAATTCACAG
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (25 bp):
CTGACCCACAGCTCGTGTGAGCATA
Found at i:36229757 original size:25 final size:25
Alignment explanation
Indices: 36229724--36229781 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
36229714 TAGATCGTGA
*
36229724 GAGCATACCGATCCACAGCTCG-AGT
1 GAGCATACCAATCCACAGCTCGTA-T
* *
36229749 GAGCATACCAATTCACAGTTCGTAT
1 GAGCATACCAATCCACAGCTCGTAT
36229774 GAGCATAC
1 GAGCATAC
36229782 ATGTACATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (25 bp):
GAGCATACCAATCCACAGCTCGTAT
Found at i:36233918 original size:22 final size:22
Alignment explanation
Indices: 36233893--36233935 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36233883 TTATGATGAT
*
36233893 TGATATGT-TGGGATTGATATTC
1 TGATATGTATGCGATT-ATATTC
36233915 TGATATGTATGCGATTATATT
1 TGATATGTATGCGATTATATT
36233936 TGTGATGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.47
Consensus pattern (22 bp):
TGATATGTATGCGATTATATTC
Found at i:36248020 original size:2 final size:2
Alignment explanation
Indices: 36248013--36248044 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36248003 TTAATAAAAC
36248013 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
36248045 GACAAGCTAA
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:36250366 original size:61 final size:63
Alignment explanation
Indices: 36250261--36250384 Score: 180
Period size: 62 Copynumber: 2.0 Consensus size: 63
36250251 ATATCTCTGC
* *
36250261 TGAGCATATATGAGACACATGTGGAGATTCAAAATCATTGATTACTGAGC-TGCCTAAGACGT
1 TGAGCATATATGAGACACATGTGGAGATTCAAAATAATTAATTACTGAGCTTGCCTAAGACGT
* ** *
36250323 TGAGTATATATGAGATGCATGT-GAGATTCAAAATAATTAATTACTGAGCTTTCCTAAGACGT
1 TGAGCATATATGAGACACATGTGGAGATTCAAAATAATTAATTACTGAGCTTGCCTAAGACGT
36250385 CAAATCCTAG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 25 0.45
62 30 0.55
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.31
Consensus pattern (63 bp):
TGAGCATATATGAGACACATGTGGAGATTCAAAATAATTAATTACTGAGCTTGCCTAAGACGT
Found at i:36258701 original size:25 final size:25
Alignment explanation
Indices: 36258673--36258819 Score: 122
Period size: 25 Copynumber: 5.9 Consensus size: 25
36258663 ATAAGCCATG
*
36258673 AATCGGTATGCTCTCACGAGCTGCA
1 AATCGGTAAGCTCTCACGAGCTGCA
**
36258698 AATCGGTAAGCTCAT-ACGAGCTGGG
1 AATCGGTAAGCTC-TCACGAGCTGCA
** * *
36258723 AATTAGTAAGCTCTCATGAGCTACA
1 AATCGGTAAGCTCTCACGAGCTGCA
*
36258748 AATCGGTAAGCTCAT-ACGAGTTG-A
1 AATCGGTAAGCTC-TCACGAGCTGCA
* *
36258772 GAATCAGTAAGCTCTCACAAGCTGCA
1 -AATCGGTAAGCTCTCACGAGCTGCA
**
36258798 AATCAATAAGCTCAT-ACGAGCT
1 AATCGGTAAGCTC-TCACGAGCT
36258820 ATGGTGTGTT
Statistics
Matches: 96, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
24 3 0.03
25 89 0.93
26 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (25 bp):
AATCGGTAAGCTCTCACGAGCTGCA
Found at i:36258744 original size:50 final size:50
Alignment explanation
Indices: 36258672--36258819 Score: 206
Period size: 50 Copynumber: 3.0 Consensus size: 50
36258662 TATAAGCCAT
* * *
36258672 GAATCGGTATGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTGG
1 GAATCAGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTGA
* * * *
36258722 GAATTAGTAAGCTCTCATGAGCTACAAATCGGTAAGCTCATACGAGTTGA
1 GAATCAGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTGA
* **
36258772 GAATCAGTAAGCTCTCACAAGCTGCAAATCAATAAGCTCATACGAGCT
1 GAATCAGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCT
36258820 ATGGTGTGTT
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 84 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (50 bp):
GAATCAGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTGA
Found at i:36267944 original size:20 final size:20
Alignment explanation
Indices: 36267921--36267986 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
36267911 GGGCAGATAT
36267921 GTACAATCAGGGGTACCAAA
1 GTACAATCAGGGGTACCAAA
* * ** *
36267941 GTACAAACAGGGGCACGTAT
1 GTACAATCAGGGGTACCAAA
* * *
36267961 GTTCAATTAGGGGTACCGAA
1 GTACAATCAGGGGTACCAAA
36267981 GTACAA
1 GTACAA
36267987 ATAGGGGCGC
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (20 bp):
GTACAATCAGGGGTACCAAA
Found at i:36267991 original size:20 final size:20
Alignment explanation
Indices: 36267929--36267993 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
36267919 ATGTACAATC
* *
36267929 AGGGGTACCAAAGTACAAAC
1 AGGGGTACCGAAGTACAAAT
* * * *
36267949 AGGGGCA-CGTATGTTCAATT
1 AGGGGTACCG-AAGTACAAAT
36267969 AGGGGTACCGAAGTACAAAT
1 AGGGGTACCGAAGTACAAAT
36267989 AGGGG
1 AGGGG
36267994 CGCGTATGTG
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.91
21 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.17
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAAAT
Found at i:36268002 original size:40 final size:40
Alignment explanation
Indices: 36267851--36267994 Score: 171
Period size: 40 Copynumber: 3.6 Consensus size: 40
36267841 ATACGTTCAA
* * *
36267851 GGGTATCGAAGTACAAACAGGGGCACATACGTGCAATCAG
1 GGGTACCGAAGTACAAACAGGGGCACATATGTACAATCAG
** * * *
36267891 GGGTATTGAAATACTAACAGGGGCAGATATGTACAATCAG
1 GGGTACCGAAGTACAAACAGGGGCACATATGTACAATCAG
* * * *
36267931 GGGTACCAAAGTACAAACAGGGGCACGTATGTTCAATTAG
1 GGGTACCGAAGTACAAACAGGGGCACATATGTACAATCAG
*
36267971 GGGTACCGAAGTACAAATAGGGGC
1 GGGTACCGAAGTACAAACAGGGGC
36267995 GCGTATGTGC
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (40 bp):
GGGTACCGAAGTACAAACAGGGGCACATATGTACAATCAG
Found at i:36276785 original size:24 final size:24
Alignment explanation
Indices: 36276744--36276811 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
36276734 ATATGCTCTC
* *
36276744 ACGAGCTATAAATTAGTAAGCTCAT
1 ACGAGCT-GAAATCAGTAAGCTCAT
*
36276769 ACGAGTTGAAATCAGTAAGCTCAT
1 ACGAGCTGAAATCAGTAAGCTCAT
*
36276793 ACGAGCTGAGAATCGGTAA
1 ACGAGCTGA-AATCAGTAA
36276812 TCCCTAATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 23 0.62
25 14 0.38
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (24 bp):
ACGAGCTGAAATCAGTAAGCTCAT
Found at i:36281359 original size:25 final size:25
Alignment explanation
Indices: 36281331--36281381 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
36281321 CAGAATAATA
* * * *
36281331 ACGCAGCAGAGCTGTCAGTAATAGT
1 ACGCAACAAAGCTGCCAGTAACAGT
36281356 ACGCAACAAAGCTGCCAGTAACAGT
1 ACGCAACAAAGCTGCCAGTAACAGT
36281381 A
1 A
36281382 TATGTGGCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.16
Consensus pattern (25 bp):
ACGCAACAAAGCTGCCAGTAACAGT
Found at i:36281567 original size:27 final size:27
Alignment explanation
Indices: 36281508--36281839 Score: 338
Period size: 27 Copynumber: 12.4 Consensus size: 27
36281498 AGGGGTATAA
*
36281508 CAGTCATTTTACCCTTTG-GGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
36281534 CAGTCATTTTACCCATCGGGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * *
36281561 CAATCATTTTACCCATCGGGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
36281588 CAGTCATTTTACCCTTCGAGAGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
36281615 C-GATCATTTTACCCTTTGAGGGTATTT
1 CAG-TCATTTTACCCTTCGAGGGTATTT
*
36281642 -TGATCATTTTACCCTTCGAGGGTATTT
1 CAG-TCATTTTACCCTTCGAGGGTATTT
* *
36281669 TAGTCATTTTACCTTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
36281696 C-GATCATTTTATCTTTCG-GGGTTATTT
1 CAG-TCATTTTACCCTTCGAGGG-TATTT
**
36281723 TGGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * **
36281750 CAGTTATTTTA-ACTTTTAGGGGTATTT
1 CAGTCATTTTACCCTTCGA-GGGTATTT
**
36281777 TGGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * *
36281804 C-GATCGTTTTATCCTTAG-GGGTATTT
1 CAG-TCATTTTACCCTTCGAGGGTATTT
36281830 CAGTCATTTT
1 CAGTCATTTT
36281840 CCCATGAATT
Statistics
Matches: 260, Mismatches: 34, Indels: 24
0.82 0.11 0.08
Matches are distributed among these distances:
26 41 0.16
27 210 0.81
28 9 0.03
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGAGGGTATTT
Found at i:36281638 original size:81 final size:81
Alignment explanation
Indices: 36281499--36281839 Score: 377
Period size: 81 Copynumber: 4.2 Consensus size: 81
36281489 TCAACTCCTA
** * * *
36281499 GGGGTATAACAGTCATTTTACCCTTTG-GGGTATTTC-AGTCATTTTACCCATCGGGGGTATTTC
1 GGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTC
* *
36281562 AATCATTTTACCCATCG
65 GATCATTTTACCCTTCG
* * *
36281579 GGGGTATTTCAGTCATTTTACCCTTCGAGAGTATTTCGATCATTTTACCCTTTGAGGGTATTTTG
1 GGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
36281644 ATCATTTTACCCTTCG
66 ATCATTTTACCCTTCG
* * * * * *
36281660 AGGGTATTTTAGTCATTTTACCTTTCGAGGGTATTTCGATCATTTTATCTTTCG-GGGTTATTTT
1 GGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGG-TATTTC
*
36281724 GGTCATTTTACCCTTCG
65 GATCATTTTACCCTTCG
* * * ** * *
36281741 AGGGTATTTCAGTTATTTTA-ACTTTTAGGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTC
1 GGGGTATTTCAGTCATTTTACCCTTCGA-GGGTATTTCGATCATTTTACCCTTCGAGGGTATTTC
* * *
36281805 GATCGTTTTATCCTT-A
65 GATCATTTTACCCTTCG
36281821 GGGGTATTTCAGTCATTTT
1 GGGGTATTTCAGTCATTTT
36281840 CCCATGAATT
Statistics
Matches: 221, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
80 47 0.21
81 170 0.77
82 4 0.02
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.44
Consensus pattern (81 bp):
GGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
ATCATTTTACCCTTCG
Found at i:36293990 original size:24 final size:25
Alignment explanation
Indices: 36293931--36294014 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
36293921 TTTGAGCTAT
* *
36293931 GAATCGGTAAGCTTATACGAGCTGA
1 GAATCGATAAGCTCATACGAGCTGA
*
36293956 GAATCGGTAAGCTC-TCACGAGCT-A
1 GAATCGATAAGCTCAT-ACGAGCTGA
*
36293980 AAATCGATAAGCTCATACGAGCTGA
1 GAATCGATAAGCTCATACGAGCTGA
36294005 GAATCGATAA
1 GAATCGATAA
36294015 TCCCTAATGA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
24 21 0.40
25 31 0.60
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (25 bp):
GAATCGATAAGCTCATACGAGCTGA
Found at i:36294937 original size:69 final size:69
Alignment explanation
Indices: 36294853--36294990 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
36294843 TTTTGTTTTA
36294853 TTTTAATTATTATTTATTTACTTAATTACCTAATTAACCTTTATAAACTTTAACAATTACATAAA
1 TTTTAATTATTATTTATTTACTTAATTACCTAATTAACCTTTATAAACTTTAACAATTACATAAA
36294918 ATGC
66 ATGC
36294922 TTTTAATTATTATTTATTTACTTAATTACCTAATTAACCTTTATAAACTTTAACAATTACATAAA
1 TTTTAATTATTATTTATTTACTTAATTACCTAATTAACCTTTATAAACTTTAACAATTACATAAA
36294987 ATGC
66 ATGC
36294991 CAAGCCATTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.39, C:0.13, G:0.01, T:0.46
Consensus pattern (69 bp):
TTTTAATTATTATTTATTTACTTAATTACCTAATTAACCTTTATAAACTTTAACAATTACATAAA
ATGC
Found at i:36300400 original size:28 final size:28
Alignment explanation
Indices: 36300356--36300413 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
36300346 CAATATCAAT
* * *
36300356 ATAGTGTGGGCCTTAGCCCATTACAGTA
1 ATAGTGTAGGCCCTAGCCCAATACAGTA
36300384 ATAGTGTAGGCCCTAGCCCAATACAGTA
1 ATAGTGTAGGCCCTAGCCCAATACAGTA
36300412 AT
1 AT
36300414 CAGAGTACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (28 bp):
ATAGTGTAGGCCCTAGCCCAATACAGTA
Found at i:36300550 original size:26 final size:26
Alignment explanation
Indices: 36300521--36300580 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
36300511 ATATCGCAAT
* *
36300521 AAAGCTGCCAGCAATAATAACGTAGC
1 AAAGCTGCCAGCAACAATAACGCAGC
* * *
36300547 AAAGCTGCCAGTAACAGTAATGCAGC
1 AAAGCTGCCAGCAACAATAACGCAGC
36300573 AAAGCTGC
1 AAAGCTGC
36300581 TAGTAACAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (26 bp):
AAAGCTGCCAGCAACAATAACGCAGC
Found at i:36300585 original size:26 final size:27
Alignment explanation
Indices: 36300544--36300619 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 27
36300534 ATAATAACGT
*
36300544 AGCAAAGCTGCCAGTAACAGTA-ATGC
1 AGCAAAGCTGCTAGTAACAGTATATGC
*
36300570 AGCAAAGCTGCTAGTAACAGTATATGT
1 AGCAAAGCTGCTAGTAACAGTATATGC
* **
36300597 GGCAAAGCCACTAGT-ACAGTATA
1 AGCAAAGCTGCTAGTAACAGTATA
36300620 CTTCACCTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 29 0.66
27 15 0.34
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (27 bp):
AGCAAAGCTGCTAGTAACAGTATATGC
Found at i:36300803 original size:27 final size:26
Alignment explanation
Indices: 36300773--36300992 Score: 208
Period size: 27 Copynumber: 8.2 Consensus size: 26
36300763 TATAACAGTT
*
36300773 ATTTTACCCTATAGGGGTATTTTGATC
1 ATTTTACCCT-TAGGGGTATTTTGGTC
* *
36300800 ATTTTACCCTTCGGGGGTATTTTGGTT
1 ATTTTACCCTT-AGGGGTATTTTGGTC
**
36300827 ATTTTACCCATT-GGCGGTATTTTAATC
1 ATTTTACCC-TTAGG-GGTATTTTGGTC
*
36300854 ATTTTACCCTTCGAGGGTATTTTGGTC
1 ATTTTACCCTTAG-GGGTATTTTGGTC
* * * *
36300881 ATTTTACCCTTCGAAGCTATTTCGGTC
1 ATTTTACCCTTAG-GGGTATTTTGGTC
* *
36300908 ATTTTACCTTTTGAGGGTATTTTGGTC
1 ATTTTACCCTTAG-GGGTATTTTGGTC
* *
36300935 ATTTTACTCTTTAAGGGTATTTTGGTC
1 ATTTTAC-CCTTAGGGGTATTTTGGTC
* *
36300962 ATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTAG-GGGTATTTTGGTC
36300989 ATTT
1 ATTT
36300993 GTGGCCCATT
Statistics
Matches: 164, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.05
27 149 0.91
28 7 0.04
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (26 bp):
ATTTTACCCTTAGGGGTATTTTGGTC
Found at i:36300846 original size:54 final size:54
Alignment explanation
Indices: 36300773--36300992 Score: 257
Period size: 54 Copynumber: 4.1 Consensus size: 54
36300763 TATAACAGTT
* *
36300773 ATTTTACCC-TATAGGGGTATTTTGATCATTTTACCCTTCGGGGGTATTTTGGTT
1 ATTTTACCCAT-TAGGGGTATTTTGATCATTTTACCCTTCGAGGGTATTTTGGTC
*
36300827 ATTTTACCCATT-GGCGGTATTTTAATCATTTTACCCTTCGAGGGTATTTTGGTC
1 ATTTTACCCATTAGG-GGTATTTTGATCATTTTACCCTTCGAGGGTATTTTGGTC
* * * * * * *
36300881 ATTTTACCC-TTCGAAGCTATTTCGGTCATTTTACCTTTTGAGGGTATTTTGGTC
1 ATTTTACCCATTAG-GGGTATTTTGATCATTTTACCCTTCGAGGGTATTTTGGTC
* * * * *
36300935 ATTTTACTCTTTAAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCATTAGGGGTATTTTGATCATTTTACCCTTCGAGGGTATTTTGGTC
36300989 ATTT
1 ATTT
36300993 GTGGCCCATT
Statistics
Matches: 142, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
53 4 0.03
54 135 0.95
55 3 0.02
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (54 bp):
ATTTTACCCATTAGGGGTATTTTGATCATTTTACCCTTCGAGGGTATTTTGGTC
Found at i:36300883 original size:81 final size:81
Alignment explanation
Indices: 36300773--36300992 Score: 284
Period size: 81 Copynumber: 2.7 Consensus size: 81
36300763 TATAACAGTT
* * * *
36300773 ATTTTACCCTATAG-GGGTATTTTGATCATTTTACCCTTCGGGGGTATTTTGGTTATTTTACCCA
1 ATTTTACCCT-TAGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCA
36300837 TTG-GCGGTATTTTAATC
65 TTGAG-GGTATTTTAATC
* * * **
36300854 ATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTCGAAGCTATTTCGGTCATTTTACCTTT
1 ATTTTACCCTTAGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCAT
**
36300919 TGAGGGTATTTTGGTC
66 TGAGGGTATTTTAATC
*
36300935 ATTTTACTCTTTA-AGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTT
1 ATTTTAC-CCTTAGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTT
36300993 GTGGCCCATT
Statistics
Matches: 121, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.02
81 115 0.95
82 4 0.03
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (81 bp):
ATTTTACCCTTAGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCAT
TGAGGGTATTTTAATC
Found at i:36317512 original size:21 final size:21
Alignment explanation
Indices: 36317473--36317514 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36317463 AACCCTATAC
* *
36317473 AAGAGTTTTATGATGGATTAT
1 AAGAGTTTGATGATAGATTAT
*
36317494 AAGAGTTTGATGTTAGATTAT
1 AAGAGTTTGATGATAGATTAT
36317515 TATGTTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (21 bp):
AAGAGTTTGATGATAGATTAT
Found at i:36332247 original size:40 final size:40
Alignment explanation
Indices: 36332201--36332377 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 40
36332191 CGGCACTAAA
* * * *
36332201 GTGCAATCAAGGGTACTGAAGTACAAATAGGGGCACGTAT
1 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
* * *
36332241 GTGCAATTAGGAGTACCAAAGTACGAACA---G---GTAT
1 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
*
36332275 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACATAT
1 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
*
36332315 GTGCAATCAGGGGTACCAAAGTACGAACAGGGGCACGTAT
1 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
36332355 GTGCAATCAGGGGTACCGAAGTA
1 GTGCAATCAGGGGTACCGAAGTA
36332378 TAATAATTTT
Statistics
Matches: 117, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
34 30 0.26
37 2 0.02
40 85 0.73
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.18
Consensus pattern (40 bp):
GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
Found at i:36332307 original size:20 final size:20
Alignment explanation
Indices: 36332278--36332377 Score: 71
Period size: 20 Copynumber: 5.0 Consensus size: 20
36332268 CAGGTATGTG
36332278 CAATCAGGGGTACCGAAGTA
1 CAATCAGGGGTACCGAAGTA
* ** * *
36332298 CGAA-CAGGGGCACATATGTG
1 C-AATCAGGGGTACCGAAGTA
*
36332318 CAATCAGGGGTACCAAAGTA
1 CAATCAGGGGTACCGAAGTA
* * *
36332338 CGAA-CAGGGGCA-CGTATGTG
1 C-AATCAGGGGTACCG-AAGTA
36332358 CAATCAGGGGTACCGAAGTA
1 CAATCAGGGGTACCGAAGTA
36332378 TAATAATTTT
Statistics
Matches: 57, Mismatches: 17, Indels: 12
0.66 0.20 0.14
Matches are distributed among these distances:
19 5 0.09
20 46 0.81
21 6 0.11
ACGTcount: A:0.33, C:0.20, G:0.32, T:0.15
Consensus pattern (20 bp):
CAATCAGGGGTACCGAAGTA
Found at i:36332331 original size:74 final size:76
Alignment explanation
Indices: 36332201--36332377 Score: 241
Period size: 74 Copynumber: 2.3 Consensus size: 76
36332191 CGGCACTAAA
* * * * *
36332201 GTGCAATCAAGGGTACTGAAGTACAAATAGGGGCACGTATGTGCAATTAGGAGTACCAAAGTACG
1 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGAGTACCAAAGTACG
36332266 AACA-G-GTAT
66 AACAGGCGTAT
* *
36332275 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACATATGTGCAATCAGGGGTACCAAAGTACG
1 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGAGTACCAAAGTACG
36332340 AACAGGGGCACGTAT
66 AACA--GG--CGTAT
36332355 GTGCAATCAGGGGTACCGAAGTA
1 GTGCAATCAGGGGTACCGAAGTA
36332378 TAATAATTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
74 62 0.69
77 1 0.01
80 27 0.30
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.18
Consensus pattern (76 bp):
GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGAGTACCAAAGTACG
AACAGGCGTAT
Found at i:36341352 original size:27 final size:26
Alignment explanation
Indices: 36341311--36341363 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
36341301 AATGTGAAAG
*
36341311 GGGGTTGCTATGTGCTGATTTCCCCGA
1 GGGGTTGCTAAGTGCTGA-TTCCCCGA
36341338 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
36341364 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.13, C:0.23, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:36341462 original size:103 final size:103
Alignment explanation
Indices: 36341233--36341498 Score: 408
Period size: 103 Copynumber: 2.6 Consensus size: 103
36341223 TGTATATAAA
** * * *
36341233 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGT-ATCCACCATATCTT
** *
36341298 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTTCCCCG
65 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
36341337 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TATCCACCATATCTT
36341402 TGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
36341440 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGC-GTATCCACCA
36341499 ATAACGGCTA
Statistics
Matches: 150, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
103 84 0.56
104 65 0.43
105 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCATATCTTT
GAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:36361782 original size:16 final size:15
Alignment explanation
Indices: 36361734--36361783 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
36361724 AAATGAAAAG
36361734 ATTATAA-T-TATTA
1 ATTATAATTATATTA
**
36361747 ATATATAATTATATCC
1 AT-TATAATTATATTA
36361763 ATTATAATATATATTA
1 ATTATAAT-TATATTA
36361779 ATTAT
1 ATTAT
36361784 TATCAGCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.07
14 5 0.17
15 7 0.24
16 15 0.52
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAATTATATTA
Found at i:36370049 original size:15 final size:15
Alignment explanation
Indices: 36370026--36370057 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36370016 CTCCACACTG
36370026 ACCAACACCTCTACC
1 ACCAACACCTCTACC
*
36370041 ACCATCACCTCTACC
1 ACCAACACCTCTACC
36370056 AC
1 AC
36370058 GGCCCCACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.53, G:0.00, T:0.16
Consensus pattern (15 bp):
ACCAACACCTCTACC
Found at i:36371909 original size:45 final size:43
Alignment explanation
Indices: 36371845--36371994 Score: 133
Period size: 45 Copynumber: 3.4 Consensus size: 43
36371835 AATAAATGTG
* * * *
36371845 GTTGCCATGTGTTTATTTCACCGGATACCAATGGTTATATAGGTC
1 GTTGCTATGTGCTGATTTCACCGGATACCATTGG-TATA-AGGTC
** *
36371890 GTTGCTATGTGCTGATTTCACCCAATACCATTGAGTATAAAGGTG
1 GTTGCTATGTGCTGATTTCACCGGATACCATTG-GTAT-AAGGTC
* * *
36371935 GTTGCTATGTGTTGATTTCA-CGGAGTACTATTGACTATAAGGGTC
1 GTTGCTATGTGCTGATTTCACCGGA-TACCATTG-GTATAA-GGTC
36371980 G-TGCTATGTGCTGAT
1 GTTGCTATGTGCTGAT
36371995 CCACCGTCTA
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
44 17 0.20
45 68 0.78
46 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.37
Consensus pattern (43 bp):
GTTGCTATGTGCTGATTTCACCGGATACCATTGGTATAAGGTC
Found at i:36379133 original size:45 final size:44
Alignment explanation
Indices: 36378962--36379159 Score: 157
Period size: 45 Copynumber: 4.4 Consensus size: 44
36378952 TTAAAAAAAA
* * * ** **
36378962 GTGGATGCTATGTGCTGATTCCACCTGATATTAATGAAAATAAAG
1 GTGGTTGCTATGTGCTGATTTCACC-GGTACCAATGAGTATAAAG
* * *
36379007 GTGGTTGTTATGTGCTGATTTCACTGGATACCAATG-GTTATATAG
1 GTGGTTGCTATGTGCTGATTTCACCGG-TACCAATGAG-TATAAAG
** * * *
36379052 GTCATTGCTATGTGGTGATTTCACCCGGTACCATTGAGTACAAAG
1 GTGGTTGCTATGTGCTGATTTCA-CCGGTACCAATGAGTATAAAG
* * * *
36379097 GTGGTTGCTATGTGCTGATTTCACCGAGTACTATTGACTATAAGG
1 GTGGTTGCTATGTGCTGATTTCACCG-GTACCAATGAGTATAAAG
*
36379142 GTGG-TGCTGTGTGCTGAT
1 GTGGTTGCTATGTGCTGAT
36379160 CCACCATGTA
Statistics
Matches: 122, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
44 17 0.14
45 101 0.83
46 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.35
Consensus pattern (44 bp):
GTGGTTGCTATGTGCTGATTTCACCGGTACCAATGAGTATAAAG
Found at i:36385573 original size:20 final size:21
Alignment explanation
Indices: 36385515--36385574 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
36385505 TCAGAATGCT
* *
36385515 AACAGAGGAACCGTAGTGCAA
1 AACAGAGGCACCGAAGTGCAA
* * *
36385536 ATACAGAGGCATCAAAGTTC-A
1 A-ACAGAGGCACCGAAGTGCAA
36385557 AACAGAGGCACCGAAGTG
1 AACAGAGGCACCGAAGTG
36385575 TAAATCTTGT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 14 0.47
21 3 0.10
22 13 0.43
ACGTcount: A:0.42, C:0.20, G:0.27, T:0.12
Consensus pattern (21 bp):
AACAGAGGCACCGAAGTGCAA
Found at i:36389724 original size:50 final size:50
Alignment explanation
Indices: 36389594--36389746 Score: 236
Period size: 50 Copynumber: 3.0 Consensus size: 50
36389584 ATAGGGGATA
36389594 AAAGCTAAACGAGCAGATAAGAGGGAATCTACTTTTACAAAGTG-AAGAC
1 AAAGCTAAACGAGCAGATAAGAGGGAATCTACTTTTACAAAGTGAAAGAC
36389643 ATCAAGCTAAACGAGCAGATAAGAGGGAATCTACTTTTACAAAGTGAAAGAC
1 A--AAGCTAAACGAGCAGATAAGAGGGAATCTACTTTTACAAAGTGAAAGAC
** * * *
36389695 AAAGCTAAACGAGCAGATAAGAGACAATCTGCTTTCACAAAATGAAAGAC
1 AAAGCTAAACGAGCAGATAAGAGGGAATCTACTTTTACAAAGTGAAAGAC
36389745 AA
1 AA
36389747 TTATTCATAT
Statistics
Matches: 96, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
49 1 0.01
50 46 0.48
51 43 0.45
52 6 0.06
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (50 bp):
AAAGCTAAACGAGCAGATAAGAGGGAATCTACTTTTACAAAGTGAAAGAC
Found at i:36400778 original size:297 final size:297
Alignment explanation
Indices: 36400244--36400836 Score: 1132
Period size: 297 Copynumber: 2.0 Consensus size: 297
36400234 GAGCACTGAT
*
36400244 GTGCTAATAATAGAAGTATCAAAGTACAAAACAAGAGTCCCCTATTAGCATGTCAATCATACCCT
1 GTGCTAATAATAGAAGTATCAAAGTACAAAACAAGAGTCCCCTATTAGCATGTAAATCATACCCT
**
36400309 AACTATGTATGTAAGATACCAGGGCCTTGTTTCATGGTTTTCAGAATATTAGTAAATTCATGTGT
66 AACTATGTATGTAAGATACCAGGGCCTTGTTTCATGGTTTTCAGAATATTAGTAAAACCATGTGT
*
36400374 CAAATCAAATTACAGTGCAATATCAATATTCATGGAGTAAACCACTATAATATAAATCAATAATT
131 CAAATCAAATTACAGTGCAATATCAATATTCATGGAGTAAACCACTACAATATAAATCAATAATT
36400439 AAAATCATGGAATTATGCCACTACACAAGATCTCAAAGCTTTCATTCTTATCTCCATAAGGAGAG
196 AAAATCATGGAATTATGCCACTACACAAGATCTCAAAGCTTTCATTCTTATCTCCATAAGGAGAG
36400504 ATTTTACAACGTTTTTTTCTTAAATTCATTTTCATGA
261 ATTTTACAACGTTTTTTTCTTAAATTCATTTTCATGA
*
36400541 GTGCTAATAATAGGAGTATCAAAGTACAAAACAAGAGTCCCCTATTAGCATGTAAATCATACCCT
1 GTGCTAATAATAGAAGTATCAAAGTACAAAACAAGAGTCCCCTATTAGCATGTAAATCATACCCT
36400606 AACTATGTATGTAAGATACCAGGGCCTTGTTTCATGGTTTTCAGAATATTAGTAAAACCATGTGT
66 AACTATGTATGTAAGATACCAGGGCCTTGTTTCATGGTTTTCAGAATATTAGTAAAACCATGTGT
36400671 CAAATCAAATTACAGTGCAATATCAATATTCATGGAGTAAACCACTACAATATAAATCAATAATT
131 CAAATCAAATTACAGTGCAATATCAATATTCATGGAGTAAACCACTACAATATAAATCAATAATT
*
36400736 AAAATCATGGAATTATGCCACTACACAAGATCTCAGAGCTTTCATTCTTATCTCCATAAGGAGAG
196 AAAATCATGGAATTATGCCACTACACAAGATCTCAAAGCTTTCATTCTTATCTCCATAAGGAGAG
36400801 ATTTTACAACGTTTTTTTCTTAAATTCATTTTCATG
261 ATTTTACAACGTTTTTTTCTTAAATTCATTTTCATG
36400837 CCAATAATCA
Statistics
Matches: 290, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
297 290 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (297 bp):
GTGCTAATAATAGAAGTATCAAAGTACAAAACAAGAGTCCCCTATTAGCATGTAAATCATACCCT
AACTATGTATGTAAGATACCAGGGCCTTGTTTCATGGTTTTCAGAATATTAGTAAAACCATGTGT
CAAATCAAATTACAGTGCAATATCAATATTCATGGAGTAAACCACTACAATATAAATCAATAATT
AAAATCATGGAATTATGCCACTACACAAGATCTCAAAGCTTTCATTCTTATCTCCATAAGGAGAG
ATTTTACAACGTTTTTTTCTTAAATTCATTTTCATGA
Found at i:36402918 original size:22 final size:22
Alignment explanation
Indices: 36402880--36402932 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
36402870 ATATCTCCCG
*
36402880 CAAAAAAATCAGTAGAAAAAAGT
1 CAAAAAAATCAGAAGAAAAAA-T
*
36402903 CAAAAAAAT-AGAAGAAGAAAT
1 CAAAAAAATCAGAAGAAAAAAT
36402924 CAAATAAAA
1 CAAA-AAAA
36402933 ATTAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 5 0.19
22 13 0.48
23 9 0.33
ACGTcount: A:0.70, C:0.08, G:0.11, T:0.11
Consensus pattern (22 bp):
CAAAAAAATCAGAAGAAAAAAT
Found at i:36409400 original size:7 final size:7
Alignment explanation
Indices: 36409390--36409415 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36409380 AGTTTTTAAG
36409390 GTTTAGA
1 GTTTAGA
36409397 GTTTAGA
1 GTTTAGA
36409404 GTTTAGA
1 GTTTAGA
36409411 GTTTA
1 GTTTA
36409416 TAAACTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (7 bp):
GTTTAGA
Found at i:36410289 original size:24 final size:24
Alignment explanation
Indices: 36410262--36410313 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
36410252 TCAGTATCAA
* *
36410262 TCATACAATTCATAGACAAAACAG
1 TCATACAAATCACAGACAAAACAG
** *
36410286 TCATTTAAATCACAGACAAATCAG
1 TCATACAAATCACAGACAAAACAG
36410310 TCAT
1 TCAT
36410314 TTTCATCACG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.25
Consensus pattern (24 bp):
TCATACAAATCACAGACAAAACAG
Found at i:36410314 original size:24 final size:24
Alignment explanation
Indices: 36410275--36410341 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
36410265 TACAATTCAT
*
36410275 AGACAAAACAGTCATTTAAATCAC
1 AGACAAATCAGTCATTTAAATCAC
**
36410299 AGACAAATCAGTCATTTTCATCAC
1 AGACAAATCAGTCATTTAAATCAC
* *
36410323 GGACAAATCAATCATTTAA
1 AGACAAATCAGTCATTTAA
36410342 CCTCGAGGGA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.25
Consensus pattern (24 bp):
AGACAAATCAGTCATTTAAATCAC
Found at i:36410372 original size:27 final size:26
Alignment explanation
Indices: 36410342--36410559 Score: 140
Period size: 27 Copynumber: 8.1 Consensus size: 26
36410332 AATCATTTAA
*
36410342 CCTCGAGGGAAAAATTTACTGAAATAC
1 CCTCGAGGGTAAAA-TTACTGAAATAC
*
36410369 CCTCAATGGGTAAAATTA-TCGAAATAC
1 CCTCGA-GGGTAAAATTACT-GAAATAC
* *
36410396 CCTCGAAGGTTAAAATCACTGAAATAC
1 CCTCG-AGGGTAAAATTACTGAAATAC
**
36410423 CC-CTGAAGGGTAAAATTACCAAAATATC
1 CCTC-G-AGGGTAAAATTACTGAAATA-C
* ** *
36410451 CTTAAAGGGTAAAATTA-TCGAAGTAC
1 CCTCGAGGGTAAAATTACT-GAAATAC
* * *
36410477 CC-CTGAAGCGTAAAACTACCGAAATAC
1 CCTC-G-AGGGTAAAATTACTGAAATAC
*
36410504 CCTCGAAGGGTAAAATTATTGAAATAC
1 CCTCG-AGGGTAAAATTACTGAAATAC
**
36410531 CCTTAAAGGGTAAAATTA-TCGAAATAC
1 CC-TCGAGGGTAAAATTACT-GAAATAC
36410558 CC
1 CC
36410560 AATCCAACCA
Statistics
Matches: 149, Mismatches: 28, Indels: 28
0.73 0.14 0.14
Matches are distributed among these distances:
26 5 0.03
27 131 0.88
28 13 0.09
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (26 bp):
CCTCGAGGGTAAAATTACTGAAATAC
Found at i:36410424 original size:54 final size:54
Alignment explanation
Indices: 36410342--36410559 Score: 244
Period size: 54 Copynumber: 4.0 Consensus size: 54
36410332 AATCATTTAA
* * *
36410342 CCTCG-AGGGAAAAATTTACTGAAATA-CCCTCAATGGGTAAAATTATCGAAATAC
1 CCTCGAAGGGTAAAA-TTACTGAAATACCCCTGAA-GGGTAAAATTACCGAAATAC
* * * *
36410396 CCTCGAAGGTTAAAATCACTGAAATACCCCTGAAGGGTAAAATTACCAAAATAT
1 CCTCGAAGGGTAAAATTACTGAAATACCCCTGAAGGGTAAAATTACCGAAATAC
** * * *
36410450 CCTTAAAGGGTAAAATTA-TCGAAGTACCCCTGAAGCGTAAAACTACCGAAATAC
1 CCTCGAAGGGTAAAATTACT-GAAATACCCCTGAAGGGTAAAATTACCGAAATAC
* * * *
36410504 CCTCGAAGGGTAAAATTATTGAAATACCCTTAAAGGGTAAAATTATCGAAATAC
1 CCTCGAAGGGTAAAATTACTGAAATACCCCTGAAGGGTAAAATTACCGAAATAC
36410558 CC
1 CC
36410560 AATCCAACCA
Statistics
Matches: 136, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 121 0.89
55 14 0.10
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (54 bp):
CCTCGAAGGGTAAAATTACTGAAATACCCCTGAAGGGTAAAATTACCGAAATAC
Found at i:36410463 original size:81 final size:81
Alignment explanation
Indices: 36410363--36410559 Score: 258
Period size: 81 Copynumber: 2.4 Consensus size: 81
36410353 AAATTTACTG
* * *
36410363 AAATACCCTCAATGGGTAAAATTATCGAAATA-CCCTCGAAG-GTTAAAA-TCACTGAAATACCC
1 AAATACCCTTAAAGGGTAAAATTATCGAAATACCCCT-GAAGCG-TAAAACT-ACCGAAATACCC
36410425 -CTGAAGGGTAAAATTACCA
63 TC-GAAGGGTAAAATTACCA
* *
36410444 AAATATCCTTAAAGGGTAAAATTATCGAAGTACCCCTGAAGCGTAAAACTACCGAAATACCCTCG
1 AAATACCCTTAAAGGGTAAAATTATCGAAATACCCCTGAAGCGTAAAACTACCGAAATACCCTCG
***
36410509 AAGGGTAAAATTATTG
66 AAGGGTAAAATTACCA
36410525 AAATACCCTTAAAGGGTAAAATTATCGAAATACCC
1 AAATACCCTTAAAGGGTAAAATTATCGAAATACCC
36410560 AATCCAACCA
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
81 95 0.93
82 7 0.07
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (81 bp):
AAATACCCTTAAAGGGTAAAATTATCGAAATACCCCTGAAGCGTAAAACTACCGAAATACCCTCG
AAGGGTAAAATTACCA
Found at i:36419606 original size:47 final size:48
Alignment explanation
Indices: 36419555--36419649 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 48
36419545 ATGCTGAAAT
*
36419555 TATTTAAGCAACT-A-AAAATTCAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAGAAAATT-AAAACAACTGAATTAATTAAACTAAG
*
36419602 TATTTAAGCAACTAAAGAAAATTAAAACAACTGGATTAATTAAACTAA
1 TATTTAAGCAACT-AAGAAAATTAAAACAACTGAATTAATTAAACTAA
36419650 ACATATTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 13 0.30
49 24 0.56
50 6 0.14
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (48 bp):
TATTTAAGCAACTAAGAAAATTAAAACAACTGAATTAATTAAACTAAG
Found at i:36422925 original size:18 final size:16
Alignment explanation
Indices: 36422883--36422928 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
36422873 TTTAAGATTT
36422883 TCTTTTCTTTTT-TTC
1 TCTTTTCTTTTTCTTC
*
36422898 TCTATT-TTTTTCTTC
1 TCTTTTCTTTTTCTTC
36422913 TTCTTTTTCTTTTTCT
1 -TC-TTTTCTTTTTCT
36422929 ATTGTCTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 5 0.20
15 8 0.32
16 2 0.08
17 3 0.12
18 7 0.28
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (16 bp):
TCTTTTCTTTTTCTTC
Found at i:36426163 original size:49 final size:47
Alignment explanation
Indices: 36426077--36426171 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 47
36426067 ATGCCGAAAT
*
36426077 TATTTAAGCAACTAAAAATTCAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAAATTCAAAACAACTAAATTAATTAAACTAAG
36426124 TATTTAAGCAACTAAAGAAAATT-AAAACAACTAAATTAATTAAACTAA
1 TATTTAAGCAACT--A-AAAATTCAAAACAACTAAATTAATTAAACTAA
36426172 ACATATTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 13 0.30
49 25 0.57
50 6 0.14
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (47 bp):
TATTTAAGCAACTAAAAATTCAAAACAACTAAATTAATTAAACTAAG
Found at i:36432631 original size:3 final size:3
Alignment explanation
Indices: 36432616--36432716 Score: 114
Period size: 3 Copynumber: 34.0 Consensus size: 3
36432606 TTTAAGATTT
* ** * * *
36432616 TTA TTA TTG TTA TTA TTA TTA TTA TTA CCA TCA TCA -TA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
36432663 TTA TTA TTA CCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36432711 TTA TTA
1 TTA TTA
36432717 AATTGTTTTA
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
2 1 0.01
3 82 0.99
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:36442283 original size:50 final size:50
Alignment explanation
Indices: 36442194--36442310 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 50
36442184 AGGTCCTATA
* * * * ** *
36442194 TAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAACTCCCACG
* *
36442244 TAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAACTCCCACG
*
36442294 TAAGACCATATCTGGGA
1 TAAGACCATGTCTGGGA
36442311 TATGACATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAACTCCCACG
Found at i:36442622 original size:20 final size:20
Alignment explanation
Indices: 36442584--36442622 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36442574 TAAGTAAGCA
* *
36442584 AGTAAGTAAATAAGTAAGAG
1 AGTAAGTAAAGAAGAAAGAG
36442604 AGTAAGTAAAGAAGAAAGA
1 AGTAAGTAAAGAAGAAAGA
36442623 AAAGATCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (20 bp):
AGTAAGTAAAGAAGAAAGAG
Found at i:36448796 original size:12 final size:11
Alignment explanation
Indices: 36448779--36448831 Score: 72
Period size: 11 Copynumber: 4.7 Consensus size: 11
36448769 AGCATCTTCG
36448779 AAAAAAAATTTC
1 AAAAAAAA-TTC
36448791 AAAAAAAAATTC
1 -AAAAAAAATTC
36448803 AAAAAAAA-TC
1 AAAAAAAATTC
*
36448813 GAAAAAAATTC
1 AAAAAAAATTC
36448824 AAAAAAAA
1 AAAAAAAA
36448832 AGTTTCCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
10 9 0.24
11 17 0.46
12 3 0.08
13 8 0.22
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:36448832 original size:12 final size:12
Alignment explanation
Indices: 36448779--36448832 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 12
36448769 AGCATCTTCG
*
36448779 AAAAAAAATTTC
1 AAAAAAAAATTC
36448791 AAAAAAAAATTC
1 AAAAAAAAATTC
36448803 -AAAAAAAA-TC
1 AAAAAAAAATTC
*
36448813 -GAAAAAAATTC
1 AAAAAAAAATTC
36448824 AAAAAAAAA
1 AAAAAAAAA
36448833 GTTTCCATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 9 0.24
11 10 0.27
12 18 0.49
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:36448887 original size:14 final size:14
Alignment explanation
Indices: 36448868--36448905 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
36448858 GATATCAAGT
36448868 TGAAAAAAAAATCG
1 TGAAAAAAAAATCG
*
36448882 TG-AAAAAAAATTG
1 TGAAAAAAAAATCG
36448895 TGAAAAAAAAA
1 TGAAAAAAAAA
36448906 AAGAAGAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.68, C:0.03, G:0.13, T:0.16
Consensus pattern (14 bp):
TGAAAAAAAAATCG
Found at i:36451716 original size:68 final size:68
Alignment explanation
Indices: 36451641--36451785 Score: 290
Period size: 68 Copynumber: 2.1 Consensus size: 68
36451631 ATAGTTTGCA
36451641 CATCATTAATATGTGTTCTTCATTTAATAAAGTCATGCATTATGTAACTTTCATGTTAGTTAAGT
1 CATCATTAATATGTGTTCTTCATTTAATAAAGTCATGCATTATGTAACTTTCATGTTAGTTAAGT
36451706 TTG
66 TTG
36451709 CATCATTAATATGTGTTCTTCATTTAATAAAGTCATGCATTATGTAACTTTCATGTTAGTTAAGT
1 CATCATTAATATGTGTTCTTCATTTAATAAAGTCATGCATTATGTAACTTTCATGTTAGTTAAGT
36451774 TTG
66 TTG
36451777 CATCATTAA
1 CATCATTAA
36451786 ATTAAGTCAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 77 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (68 bp):
CATCATTAATATGTGTTCTTCATTTAATAAAGTCATGCATTATGTAACTTTCATGTTAGTTAAGT
TTG
Found at i:36451748 original size:37 final size:37
Alignment explanation
Indices: 36451641--36451748 Score: 97
Period size: 37 Copynumber: 3.1 Consensus size: 37
36451631 ATAGTTTGCA
36451641 CATCATTAATATGTGTTCTTCATTTAATAAAGTCATG
1 CATCATTAATATGTGTTCTTCATTTAATAAAGTCATG
** * * *
36451678 ---CA-T--TATGT-AACTTTCATGTTAGTTAAGT-TTG
1 CATCATTAATATGTGTTC-TTCAT-TTAATAAAGTCATG
36451709 CATCATTAATATGTGTTCTTCATTTAATAAAGTCATG
1 CATCATTAATATGTGTTCTTCATTTAATAAAGTCATG
36451746 CAT
1 CAT
36451749 TATGTAACTT
Statistics
Matches: 51, Mismatches: 10, Indels: 20
0.63 0.12 0.25
Matches are distributed among these distances:
30 1 0.02
31 12 0.24
32 8 0.16
33 1 0.02
34 4 0.08
35 1 0.02
36 8 0.16
37 15 0.29
38 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (37 bp):
CATCATTAATATGTGTTCTTCATTTAATAAAGTCATG
Found at i:36451762 original size:31 final size:31
Alignment explanation
Indices: 36451659--36451762 Score: 86
Period size: 31 Copynumber: 3.2 Consensus size: 31
36451649 ATATGTGTTC
36451659 TTCATTTAATAAAGTCATGCATTATGTAACT
1 TTCATTTAATAAAGTCATGCATTATGTAACT
* * **
36451690 TTCATGTTAGTTAAGTTTGCAT-CATTAATATGT-GTT
1 TTCAT-TTAATAAAG--T-CATGCA-T--TATGTAACT
36451726 CTTCATTTAATAAAGTCATGCATTATGTAACT
1 -TTCATTTAATAAAGTCATGCATTATGTAACT
36451758 TTCAT
1 TTCAT
36451763 GTTAGTTAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
31 15 0.27
32 8 0.15
33 4 0.07
34 6 0.11
35 4 0.07
36 8 0.15
37 10 0.18
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (31 bp):
TTCATTTAATAAAGTCATGCATTATGTAACT
Found at i:36451779 original size:31 final size:31
Alignment explanation
Indices: 36451676--36451779 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 31
36451666 AATAAAGTCA
36451676 TGCATTATGTAACTTTCATGTTAGTTAAGTT
1 TGCATTATGTAACTTTCATGTTAGTTAAGTT
** * * *
36451707 TGCATCATTAATATGT-GTTCTTCAT-TTAATAAAGTCA
1 TG---CA-T--TATGTAACT-TTCATGTTAGTTAAGT-T
36451744 TGCATTATGTAACTTTCATGTTAGTTAAGTT
1 TGCATTATGTAACTTTCATGTTAGTTAAGTT
36451775 TGCAT
1 TGCAT
36451780 CATTAAATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 20
0.64 0.12 0.24
Matches are distributed among these distances:
31 17 0.32
32 9 0.17
33 1 0.02
34 4 0.08
35 1 0.02
36 9 0.17
37 12 0.23
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (31 bp):
TGCATTATGTAACTTTCATGTTAGTTAAGTT
Found at i:36452109 original size:22 final size:22
Alignment explanation
Indices: 36452081--36452127 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
36452071 TTTATTTAAG
36452081 TAAGTTTAATGTTTGTTATGAT
1 TAAGTTTAATGTTTGTTATGAT
36452103 TAAGTTTAATGTTTGTTATGAT
1 TAAGTTTAATGTTTGTTATGAT
36452125 TAA
1 TAA
36452128 TAAGTGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (22 bp):
TAAGTTTAATGTTTGTTATGAT
Found at i:36455438 original size:46 final size:47
Alignment explanation
Indices: 36455360--36455472 Score: 201
Period size: 46 Copynumber: 2.4 Consensus size: 47
36455350 GTCACAGTAA
*
36455360 TGCAGATAAACTGCCAATAATCAAAATTGTGGACAAGCCACCAAAAT
1 TGCAGATAAACTGCCAATAATCAAAATCGTGGACAAGCCACCAAAAT
*
36455407 TGCATATAAACTGCCAA-AATCAAAATCGTGGACAAGCCACCAAAAT
1 TGCAGATAAACTGCCAATAATCAAAATCGTGGACAAGCCACCAAAAT
36455453 TGCAGATAAACTGCCAATAA
1 TGCAGATAAACTGCCAATAA
36455473 CTTCCACCTT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
46 44 0.71
47 18 0.29
ACGTcount: A:0.45, C:0.22, G:0.14, T:0.19
Consensus pattern (47 bp):
TGCAGATAAACTGCCAATAATCAAAATCGTGGACAAGCCACCAAAAT
Found at i:36469149 original size:50 final size:50
Alignment explanation
Indices: 36469084--36469306 Score: 151
Period size: 50 Copynumber: 4.4 Consensus size: 50
36469074 TATGTTGTAA
* *
36469084 TATGTGTAGGGTACTACGTGTACCGGAATGAAAGGTTGCA-TGTGTAGTAC
1 TATGTGCAGGCTACTACGTGTACCGGAAT-AAAGGTTGCAGTGTGTAGTAC
* * * *
36469134 TATGTGCAAGCTACTATGCG-ACCGG-AT--AGCTTCGATCACGTGTGTAGTAC
1 TATGTGCAGGCTACTACGTGTACCGGAATAAAGGTT-G--CA-GTGTGTAGTAC
* *
36469184 TATGTGCAGGCTACTACGTGTATCGGATATTAATGG-T-CATGTGTGTAGTAC
1 TATGTGCAGGCTACTACGTGTACCGGA-A-TAAAGGTTGCA-GTGTGTAGTAC
* * * **
36469235 TATGTGCAGGCTACTACGTGAACC---AGAAAGTTTGATCACGTGTGTAGTTG
1 TATGTGCAGGCTACTACGTGTACCGGAATAAAGGTTG--CA-GTGTGTAGTAC
*
36469285 TATGTGAAGGCTACTACGTGTA
1 TATGTGCAGGCTACTACGTGTA
36469307 TCGAATGATA
Statistics
Matches: 135, Mismatches: 23, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
45 4 0.03
46 4 0.03
47 2 0.01
48 4 0.03
49 5 0.04
50 73 0.54
51 39 0.29
53 1 0.01
54 1 0.01
55 1 0.01
56 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (50 bp):
TATGTGCAGGCTACTACGTGTACCGGAATAAAGGTTGCAGTGTGTAGTAC
Found at i:36469232 original size:51 final size:50
Alignment explanation
Indices: 36469124--36469309 Score: 196
Period size: 50 Copynumber: 3.7 Consensus size: 50
36469114 AAAGGTTGCA
* * * * * *
36469124 TGTGTAGTACTATGTGCAAGCTACTATGCG-ACCGGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAAG-TTTGATCACG
* * *
36469174 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATA-TTAATGGTCATG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAAGTT--TGATCACG
* * *
36469225 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGTTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAAGTTTGATCACG
** *
36469275 TGTGTAGTTGTATGTGAAGGCTACTACGTGTATCG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
36469310 AATGATAATA
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
49 2 0.02
50 62 0.55
51 47 0.42
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAAGTTTGATCACG
Found at i:36469241 original size:101 final size:101
Alignment explanation
Indices: 36469124--36469309 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 101
36469114 AAAGGTTGCA
* * *
36469124 TGTGTAGTACTATGTGCAAGCTACTATGCG-ACCGGATAGCTTCGATCACGTGTGTAGTACTATG
1 TGTGTAGTACTATGTGCAAGCTACTACGCGAACCAGAAAG-TTCGATCACGTGTGTAGTACTATG
*
36469188 TGCAGGCTACTACGTGTATCGGATATTAATGGTCATG
65 TGAAGGCTACTACGTGTATCGGATATTAATGGTCATG
* * * **
36469225 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGTTTGATCACGTGTGTAGTTGTATGT
1 TGTGTAGTACTATGTGCAAGCTACTACGCGAACCAGAAAGTTCGATCACGTGTGTAGTACTATGT
36469290 GAAGGCTACTACGTGTATCG
66 GAAGGCTACTACGTGTATCG
36469310 AATGATAATA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
101 68 0.91
102 7 0.09
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (101 bp):
TGTGTAGTACTATGTGCAAGCTACTACGCGAACCAGAAAGTTCGATCACGTGTGTAGTACTATGT
GAAGGCTACTACGTGTATCGGATATTAATGGTCATG
Found at i:36469336 original size:101 final size:101
Alignment explanation
Indices: 36469127--36469344 Score: 260
Period size: 101 Copynumber: 2.2 Consensus size: 101
36469117 GGTTGCATGT
* * * *
36469127 GTAGTACTATGTGCAAGCTACTATGCGACCGGATAGCTTCGATCACGTGTGTAGTACTATGTGCA
1 GTAGTACTATGTGCAAGCTACTACGCGACCAGAAAGCTTCGATCACGTGTGTAGTACTATGTGAA
* * ** *
36469192 GGCTACTACGTGTATCGGATATTAATGGTCATGTGT
66 GGCTACTACGTGTATCGAATATTAATAGTCAAATGA
* * * **
36469228 GTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAG-TTTGATCACGTGTGTAGTTGTATGTGA
1 GTAGTACTATGTGCAAGCTACTACGCG-ACCAGAAAGCTTCGATCACGTGTGTAGTACTATGTGA
*
36469292 AGGCTACTACGTGTATCGAATGA-TAATAGTTAAATGA
65 AGGCTACTACGTGTATCGAAT-ATTAATAGTCAAATGA
*
36469329 GTGGTACTATGTGCAA
1 GTAGTACTATGTGCAA
36469345 ACCACTGAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
101 90 0.92
102 8 0.08
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (101 bp):
GTAGTACTATGTGCAAGCTACTACGCGACCAGAAAGCTTCGATCACGTGTGTAGTACTATGTGAA
GGCTACTACGTGTATCGAATATTAATAGTCAAATGA
Found at i:36478936 original size:5 final size:5
Alignment explanation
Indices: 36478892--36478919 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
36478882 GTTGATAGAG
36478892 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
36478920 CTATAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:36483203 original size:13 final size:13
Alignment explanation
Indices: 36483185--36483218 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
36483175 GAAAAGTTTA
36483185 TTATGATTAATTT
1 TTATGATTAATTT
36483198 TTATGATTAATTT
1 TTATGATTAATTT
36483211 TTATGATT
1 TTATGATT
36483219 TACCAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (13 bp):
TTATGATTAATTT
Found at i:36484206 original size:21 final size:21
Alignment explanation
Indices: 36484180--36484246 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
36484170 ATTTTTCAGC
36484180 AATTATGTACTTATTTCATAA
1 AATTATGTACTTATTTCATAA
* * *
36484201 AATTAT-T--TAATGTTGACT-C
1 AATTATGTACTTAT-TTCA-TAA
36484220 AATTATGTACTTATTTCATAA
1 AATTATGTACTTATTTCATAA
36484241 AATTAT
1 AATTAT
36484247 TTGATCATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 3 0.09
19 9 0.26
20 4 0.12
21 15 0.44
22 3 0.09
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (21 bp):
AATTATGTACTTATTTCATAA
Found at i:36484457 original size:50 final size:50
Alignment explanation
Indices: 36484361--36484466 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
36484351 TATTGAGGTT
* * *
36484361 ATGAGAGGTCCCTCGTAATACCATGCCTGAGACATGGTCTTAGCACCGAA
1 ATGAGAGGTCCCCCGTAAGACCATGCCTGAGACATGGTCTGAGCACCGAA
** * * *
36484411 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGG-CATGGGCACCGAT
1 ATGAGAGGTCCCCCGTAAGACCATGCCTGAGACATGGTC-TGAGCACCGAA
36484461 ATGAGA
1 ATGAGA
36484467 ACTCCCATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.02
50 46 0.98
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCCCGTAAGACCATGCCTGAGACATGGTCTGAGCACCGAA
Found at i:36484538 original size:49 final size:49
Alignment explanation
Indices: 36484425--36484544 Score: 129
Period size: 49 Copynumber: 2.4 Consensus size: 49
36484415 GAGGTCCCCC
* * *
36484425 GTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCA-CGACAGGAGAACTCCCAT
* * * *
36484475 GTAAGA-TATATCTGGGATATGGCATTGGCA-GTACAGGA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACG-ACAGGAGAAC-TCCCAT
36484523 GTAAGACCATGTCTGGGACATG
1 GTAAGACCATGTCTGGGACATG
36484545 ACTTTGGCAT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
47 4 0.07
48 16 0.28
49 31 0.54
50 6 0.11
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACGACAGGAGAACTCCCAT
Found at i:36484781 original size:20 final size:20
Alignment explanation
Indices: 36484756--36484794 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
36484746 TGAGTTATTT
36484756 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
36484776 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
36484795 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:36492271 original size:5 final size:5
Alignment explanation
Indices: 36492263--36492301 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
36492253 ATTGATAAAG
* *
36492263 AAAAT AAAAT AAACT AAAAT ATAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
36492302 ACATATTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:36498625 original size:19 final size:19
Alignment explanation
Indices: 36498603--36498639 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36498593 TCAAAATTTT
*
36498603 AAAATCAAATTTAAACTAA
1 AAAATCAAATTCAAACTAA
36498622 AAAATCAAATTCAAACTA
1 AAAATCAAATTCAAACTA
36498640 CTTATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATCAAATTCAAACTAA
Found at i:36500946 original size:27 final size:27
Alignment explanation
Indices: 36500915--36501220 Score: 364
Period size: 27 Copynumber: 11.4 Consensus size: 27
36500905 CCCTAAAATT
* *
36500915 GGTAAAATGACCAAAATACCCCTATAA
1 GGTAAAATGACCGAAATACCCCCATAA
36500942 GGTAAAATGACCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAA
* * *
36500969 GGTAAAATAACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAA
* * *
36500996 GGTAAAATAACCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAA
* *
36501023 GGTAAAATAATCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAA
* *
36501050 GGTAAAATGACCAAAATACCTCCATAA
1 GGTAAAATGACCGAAATACCCCCATAA
* *
36501077 GGTTAAATGACCAAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAA
* * *
36501104 GGTAAAATGACCGAAATACCCCTAGAG
1 GGTAAAATGACCGAAATACCCCCATAA
* *
36501131 GGTAAAATGACCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAA
* * *
36501158 GGTAAAGTAATCGAAATACCCCC-T-A
1 GGTAAAATGACCGAAATACCCCCATAA
* * *
36501183 GCGTAGAATGATCGAAATACCCCCATAG
1 G-GTAAAATGACCGAAATACCCCCATAA
36501211 GGTAAAATGA
1 GGTAAAATGA
36501221 GTGTTATACC
Statistics
Matches: 242, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
25 1 0.00
26 20 0.08
27 220 0.91
28 1 0.00
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.17
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAA
Done.