Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 34 of 318
Found at i:9405332 original size:14 final size:14
Alignment explanation
Indices: 9405313--9405339 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9405303 TCTCTTGAAT
9405313 TTCATTGATAGACA
1 TTCATTGATAGACA
9405327 TTCATTGATAGAC
1 TTCATTGATAGAC
9405340 CTCAAGGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (14 bp):
TTCATTGATAGACA
Found at i:9407390 original size:46 final size:46
Alignment explanation
Indices: 9407211--9407426 Score: 188
Period size: 46 Copynumber: 4.7 Consensus size: 46
9407201 TTTGTGTGCT
* * **
9407211 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
** * *
9407257 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CAAGATGAGAGCC
* * ** * *
9407305 AGTGTAAGATATGTTTGGGACATGCATCGAATTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATG-AGAGCC
* * * *
9407351 AGTGTAAGACATGTTTGGGACATGTATCGGCTACAAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
9407395 AGTGTAAGACCATGTCTGGGACATGACATCGG
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGG
9407427 TATTATACCC
Statistics
Matches: 139, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 61 0.44
47 28 0.20
48 25 0.18
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
Found at i:9409028 original size:19 final size:19
Alignment explanation
Indices: 9408993--9409030 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9408983 TTGCAATTTA
*
9408993 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
9409012 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
9409031 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:9421376 original size:20 final size:20
Alignment explanation
Indices: 9421351--9421406 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
9421341 TTCATTTCGG
9421351 GAAGAAAAGAAGGAGAAGAA
1 GAAGAAAAGAAGGAGAAGAA
*
9421371 GAAGAAAAGAAATG-GAAGAA
1 GAAGAAAAG-AAGGAGAAGAA
9421391 GAAGAAAGAGAAGGAG
1 GAAGAAA-AGAAGGAG
9421407 GCGGCACTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 25 0.81
21 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (20 bp):
GAAGAAAAGAAGGAGAAGAA
Found at i:9422468 original size:150 final size:149
Alignment explanation
Indices: 9422003--9422480 Score: 759
Period size: 146 Copynumber: 3.2 Consensus size: 149
9421993 AATAATATAA
* * * *
9422003 AAAATACTAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTAAAAAACACAAACAAAGGGC
1 AAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-AAAAATTAAAAAATACAAACAAAGTGC
* * *
9422068 CAAAACCAGTGTTATTTACTAAATTATTAAAAAAA-ACTAAAATGATACATTTGAAAAATTATGT
65 CAAAATCAGGGTTATTTACTAAATTATTAAAAAAACACTAAAATAATACATTTGAAAAATTATGT
9422132 ACTAAAATAATAT-AAAAAT
130 ACTAAAATAATATAAAAAAT
* *
9422151 AAAATGCGAAAATAGTATA-TTTAAAAAATAAAATCCAAAAATTTAAAAATACAAACAAA-TGAC
1 AAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTAAAAAATACAAACAAAGTG-C
*
9422214 CAAAATCAGGGTTATTTACTAAATTATT-AAAAAACACTAAAATAATACATTTGAAACATTATGT
65 CAAAATCAGGGTTATTTACTAAATTATTAAAAAAACACTAAAATAATACATTTGAAAAATTATGT
9422278 ACTAAAATAATATAAAAAAT
130 ACTAAAATAATATAAAAAAT
* * *
9422298 AAAATACGAAAATAGCATATTTTAAAAAATAAAATCCAAAAATAAAAAAATACCAACAAAGTGCC
1 AAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTAAAAAATACAAACAAAGTGCC
*
9422363 AAAATCAGGGTTATTTACTAAATTATTAAAAAAAACACTAAAATAATACATTTGAAATATTATGT
66 AAAATCAGGGTTATTTACTAAATTATT-AAAAAAACACTAAAATAATACATTTGAAAAATTATGT
9422428 ACTAAAATAATATAAAAAAT
130 ACTAAAATAATATAAAAAAT
*
9422448 AAAATATGAAAATAGTATATTTTAAAAAATAAA
1 AAAATACGAAAATAGTATATTTTAAAAAATAAA
9422481 TACGAAAATA
Statistics
Matches: 305, Mismatches: 18, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
145 7 0.02
146 87 0.29
147 40 0.13
148 83 0.27
149 2 0.01
150 86 0.28
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (149 bp):
AAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTAAAAAATACAAACAAAGTGCC
AAAATCAGGGTTATTTACTAAATTATTAAAAAAACACTAAAATAATACATTTGAAAAATTATGTA
CTAAAATAATATAAAAAAT
Found at i:9422476 original size:30 final size:30
Alignment explanation
Indices: 9422440--9422520 Score: 130
Period size: 29 Copynumber: 2.7 Consensus size: 30
9422430 TAAAATAATA
9422440 TAAAAAATAAAATATGAAAATAGTATATTT
1 TAAAAAATAAAATATGAAAATAGTATATTT
*
9422470 TAAAAAAT-AAATACGAAAATAGTATATTT
1 TAAAAAATAAAATATGAAAATAGTATATTT
9422499 TAAAAAATAAAAT-TCGAAAATA
1 TAAAAAATAAAATAT-GAAAATA
9422521 AAAAATACTA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
29 28 0.60
30 19 0.40
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (30 bp):
TAAAAAATAAAATATGAAAATAGTATATTT
Found at i:9422587 original size:178 final size:177
Alignment explanation
Indices: 9422290--9422667 Score: 607
Period size: 178 Copynumber: 2.1 Consensus size: 177
9422280 TAAAATAATA
9422290 TAAAAAATAAAATACGAAAATAGCATATTTTAAAAAATAAAATCCAAAAATAAAAAAATACCAAC
1 TAAAAAATAAAATACGAAAATAGCATATTTTAAAAAATAAAATCCAAAAATAAAAAAATACCAAC
*
9422355 AAAGTGCCAAAATCAGGGTTATTTACTAAATTATTAAAAAAAACACTAAAATAATACATTTGAAA
66 AAAGTGCCAAAATCAGGGTTATTTACTAAATTAATAAAAAAAACACTAAAATAATACATTTGAAA
* *
9422420 TATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTT
131 CATTATGTACTAAAAAAATATAAAAAATAAAATAT-AAAATA--ATATTT
* * * *
9422470 TAAAAAAT-AAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAAAAT-AAAAAATACTAAC
1 TAAAAAATAAAATACGAAAATAGCATATTTTAAAAAATAAAATCCAAAAATAAAAAAATACCAAC
* * *
9422533 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAA
66 AAAGTGCCAAAATCAGGGTTATTTACTAAATTAATAAAAAAAACACTAAAATAATACATTTGAAA
9422598 CATTATGTACTAAAAAAATATAAAAAATAAAATATAAAATAATATTT
131 CATTATGTACTAAAAAAATATAAAAAATAAAATATAAAATAATATTT
*
9422645 TCAAAAAATAAAATTCGAAAATA
1 T-AAAAAATAAAATACGAAAATA
9422668 AAAAAAAACC
Statistics
Matches: 185, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
175 7 0.04
176 7 0.04
177 18 0.10
178 106 0.57
179 39 0.21
180 8 0.04
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.28
Consensus pattern (177 bp):
TAAAAAATAAAATACGAAAATAGCATATTTTAAAAAATAAAATCCAAAAATAAAAAAATACCAAC
AAAGTGCCAAAATCAGGGTTATTTACTAAATTAATAAAAAAAACACTAAAATAATACATTTGAAA
CATTATGTACTAAAAAAATATAAAAAATAAAATATAAAATAATATTT
Found at i:9422631 original size:14 final size:15
Alignment explanation
Indices: 9422612--9422641 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9422602 ATGTACTAAA
9422612 AAAATATAAAA-AAT
1 AAAATATAAAATAAT
9422626 AAAATATAAAATAAT
1 AAAATATAAAATAAT
9422641 A
1 A
9422642 TTTTCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATAAAATAAT
Found at i:9422652 original size:148 final size:144
Alignment explanation
Indices: 9422470--9423127 Score: 830
Period size: 148 Copynumber: 4.5 Consensus size: 144
9422460 TAGTATATTT
*
9422470 TAAAAAAT-AAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAAAATAAAAAATACTAACA
1 TAAAAAATAAAATA-AAAAATA--ATATTTTAAAAAATAAAATTCGAAAATAAAAAATACTAACA
9422534 AAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAAC
63 AAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACA-TT-AAAC
*
9422599 ATTATGTACTAAAAAAATA
126 ATTATGTACTAAAATAATA
* * * *
9422618 TAAAAAATAAAATATAAAATAATATTTTCAAAAAATAAAATTCGAAAATAAAAAAAAACCAACAT
1 TAAAAAATAAAATAAAAAATAATATTTT-AAAAAATAAAATTCGAAAAT-AAAAAATACTAACAA
* *
9422683 AGTGCCAAAATCAGGGTTATTTACTAAATT-AT-TAAAAAA-A-TAAAATAATACATTTGAAACA
64 AGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACA-TT-AAACA
*
9422744 TTATCTACTAAAATAATA
127 TTATGTACTAAAATAATA
* *
9422762 T-AAAAATAAAATTCAAAAATAGTATATTTTAAAAAATAAAA-T-----A-AAAAAATACCAACA
1 TAAAAAATAAAA-TAAAAAATA--ATATTTTAAAAAATAAAATTCGAAAATAAAAAATACTAACA
*
9422819 AAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACA--AAATAT
63 AAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTAAACAT
9422882 TATGTACTAAAATAATA
128 TATGTACTAAAATAATA
*
9422899 TAAAAAATAAAATAAAAAAATAATATATTTTAAAAAAT-AAATTTGAAAATAAAAAAAATA-TCA
1 TAAAAAATAAAAT-AAAAAAT-A-ATATTTTAAAAAATAAAATTCGAAAAT--AAAAAATACT-A
* *
9422962 ACAAAGTGCCAAAATCAGGGGCTATTTGTTAAATTAATATAATAAAACACTTAAATAATACATTA
60 ACAAAGTGCCAAAATCA-GGGTTATTTATTAAATTAATATAA-AAAACACTTAAATAATACATTA
9423027 CAACATTATGTACTAAAATAATA
123 -AACATTATGTACTAAAATAATA
9423050 T-AAAAATAAAATACAAAAATAATATATTTTAAAAAATAAAATTCGAAAATAAAAAATACTAACA
1 TAAAAAATAAAATA-AAAAAT-A-ATATTTTAAAAAATAAAATTCGAAAATAAAAAATACTAACA
*
9423114 AAGGGCCAAAATCA
63 AAGTGCCAAAATCA
9423128 CCGAACAAAA
Statistics
Matches: 456, Mismatches: 23, Indels: 61
0.84 0.04 0.11
Matches are distributed among these distances:
137 68 0.15
138 34 0.07
139 9 0.02
140 1 0.00
141 11 0.02
143 11 0.02
144 45 0.10
145 12 0.03
146 47 0.10
147 44 0.10
148 74 0.16
149 31 0.07
150 36 0.08
151 33 0.07
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.28
Consensus pattern (144 bp):
TAAAAAATAAAATAAAAAATAATATTTTAAAAAATAAAATTCGAAAATAAAAAATACTAACAAAG
TGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTAAACATTAT
GTACTAAAATAATA
Found at i:9422806 original size:326 final size:324
Alignment explanation
Indices: 9422145--9422801 Score: 1026
Period size: 326 Copynumber: 2.0 Consensus size: 324
9422135 AAAATAATAT
* *
9422145 AAAAATAAAATGCGAAAATAGTATATTTAAAAAATAAAATCCAAAAATTTAAAAATACAAACAAA
1 AAAAAT-AAATACGAAAATAGTATATTTAAAAAATAAAATCCAAAAATTAAAAAATACAAACAAA
9422210 TGACCAAAATCAGGGTTATTTACTAAATTATTAAAAAACACTAAAATAATACATTTGAAACATTA
65 TGACCAAAATCAGGGTTATTTACTAAATTATTAAAAAACACTAAAATAATACATTTGAAACATTA
*
9422275 TGTACTAAAATAATATAAAAAATAAAATACGAAAATAGCATATTTTAAAAAATAAAATCCAAAAA
130 TGTACTAAAAAAATATAAAAAATAAAATACGAAAATA-CATATTTTAAAAAATAAAATCCAAAAA
*
9422340 TAAAAAAATACCAACAAAGTGCCAAAATCAGGGTTATTTACTAAATTATTAAAAAAAACACTAAA
194 TAAAAAAAAACCAACAAAGTGCCAAAATCAGGGTTATTTACTAAATTATT-AAAAAAACACTAAA
* * *
9422405 ATAATACATTTGAAATATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTT
258 ATAATACATTTGAAACATTATCTACTAAAATAATATAAAAAATAAAATATAAAAATAGTATATTT
9422470 TA
323 TA
* * *
9422472 AAAAATAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAAAA-TAAAAAATACTAACAAA
1 AAAAATAAATACGAAAATAGTATA-TTTAAAAAATAAAATCCAAAAATTAAAAAATACAAACAAA
* *
9422536 GTG-CCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAACA
65 -TGACCAAAATCAGGGTTATTTACTAAATT-AT-TAAAAAACACTAAAATAATACATTTGAAACA
* * *
9422600 TTATGTACTAAAAAAATATAAAAAATAAAATA-TAAAATA-ATATTTTCAAAAAATAAAATTCGA
127 TTATGTACTAAAAAAATATAAAAAATAAAATACGAAAATACATATTTT-AAAAAATAAAATCCAA
*
9422663 AAATAAAAAAAAACCAACATAGTGCCAAAATCAGGGTTATTTACTAAATTATT-AAAAAA-A-TA
191 AAATAAAAAAAAACCAACAAAGTGCCAAAATCAGGGTTATTTACTAAATTATTAAAAAAACACTA
9422725 AAATAATACATTTGAAACATTATCTACTAAAATAATAT-AAAAATAAAAT-TCAAAAATAGTATA
256 AAATAATACATTTGAAACATTATCTACTAAAATAATATAAAAAATAAAATAT-AAAAATAGTATA
9422788 TTTTA
320 TTTTA
9422793 AAAAATAAA
1 AAAAATAAA
9422802 ATAAAAAAAT
Statistics
Matches: 308, Mismatches: 16, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
320 1 0.00
321 36 0.12
322 38 0.12
323 1 0.00
324 6 0.02
325 7 0.02
326 122 0.40
327 36 0.12
328 61 0.20
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (324 bp):
AAAAATAAATACGAAAATAGTATATTTAAAAAATAAAATCCAAAAATTAAAAAATACAAACAAAT
GACCAAAATCAGGGTTATTTACTAAATTATTAAAAAACACTAAAATAATACATTTGAAACATTAT
GTACTAAAAAAATATAAAAAATAAAATACGAAAATACATATTTTAAAAAATAAAATCCAAAAATA
AAAAAAAACCAACAAAGTGCCAAAATCAGGGTTATTTACTAAATTATTAAAAAAACACTAAAATA
ATACATTTGAAACATTATCTACTAAAATAATATAAAAAATAAAATATAAAAATAGTATATTTTA
Found at i:9422907 original size:12 final size:12
Alignment explanation
Indices: 9422890--9422925 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
9422880 ATTATGTACT
9422890 AAAATAATATAA
1 AAAATAATATAA
*
9422902 AAAATAAAATAAA
1 AAAATAATAT-AA
9422915 AAAATAATATA
1 AAAATAATATA
9422926 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:9429608 original size:16 final size:16
Alignment explanation
Indices: 9429587--9429661 Score: 73
Period size: 16 Copynumber: 4.5 Consensus size: 16
9429577 TAGTTTTTTT
9429587 ACTAACAATAATAATA
1 ACTAACAATAATAATA
9429603 ACTAACAATAATAACTA
1 ACTAACAATAATAA-TA
*
9429620 AC-AACAAGAATCAATAAA
1 ACTAACAATAAT-AAT--A
*
9429638 AATCAACAATAATAATA
1 ACT-AACAATAATAATA
9429655 AC-AACAA
1 ACTAACAA
9429662 AAACAAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
15 5 0.10
16 23 0.47
17 8 0.16
18 2 0.04
19 3 0.06
20 8 0.16
ACGTcount: A:0.64, C:0.16, G:0.01, T:0.19
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:9429614 original size:13 final size:13
Alignment explanation
Indices: 9429596--9429623 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9429586 TACTAACAAT
9429596 AATAATAACTAAC
1 AATAATAACTAAC
9429609 AATAATAACTAAC
1 AATAATAACTAAC
9429622 AA
1 AA
9429624 CAAGAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAATAACTAAC
Found at i:9429615 original size:40 final size:41
Alignment explanation
Indices: 9429511--9429616 Score: 132
Period size: 40 Copynumber: 2.7 Consensus size: 41
9429501 AATATAAATC
9429511 AACAATAATAATAACTAACAATAAT--TAGGGTTTTTTACT
1 AACAATAATAATAACTAACAATAATAATAGGGTTTTTTACT
* * *
9429550 AACAATAATAACCAAC-AATC-CTAATAATA-GTTTTTTTACT
1 AACAATAATAA-TAACTAA-CAATAATAATAGGGTTTTTTACT
9429590 AACAATAATAATAACTAACAATAATAA
1 AACAATAATAATAACTAACAATAATAA
9429617 CTAACAACAA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
39 21 0.38
40 33 0.59
41 2 0.04
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (41 bp):
AACAATAATAATAACTAACAATAATAATAGGGTTTTTTACT
Found at i:9430063 original size:29 final size:28
Alignment explanation
Indices: 9430008--9430079 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
9429998 CCACCCTGAA
*
9430008 TGTACTATTTTGGTACATAATTTTTTTCT
1 TGTACTATTTTGGTACATAATTATTTT-T
* ** *
9430037 TGTATTATTTTGGTATTTTATTATTTTT
1 TGTACTATTTTGGTACATAATTATTTTT
*
9430065 TGTCCTATTTTGGTA
1 TGTACTATTTTGGTA
9430080 AAAAAACCCC
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 14 0.39
29 22 0.61
ACGTcount: A:0.18, C:0.07, G:0.12, T:0.62
Consensus pattern (28 bp):
TGTACTATTTTGGTACATAATTATTTTT
Found at i:9431557 original size:56 final size:55
Alignment explanation
Indices: 9431491--9431647 Score: 226
Period size: 56 Copynumber: 2.8 Consensus size: 55
9431481 AGTAGTTACA
** * *
9431491 TAGGAATCAAATTATTAAAACATAATATCTCATAATAATATCTTATAATAT-CTCAT
1 TAGGAATCAAATTGCTAAAAGATAATATC-CATAATAATATCCTATAATATCCT-AT
*
9431547 TAGGAATCAAATTGCTAATAGATAATATCCCATAATAATATCCTATAATATCCTAT
1 TAGGAATCAAATTGCTAAAAGATAATAT-CCATAATAATATCCTATAATATCCTAT
9431603 TAGGAATCAAATTGCTAAAAGATAATATCCTATAATAATATCCTA
1 TAGGAATCAAATTGCTAAAAGATAATATCC-ATAATAATATCCTA
9431648 ACAGTTTATA
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
55 2 0.02
56 87 0.95
57 3 0.03
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.34
Consensus pattern (55 bp):
TAGGAATCAAATTGCTAAAAGATAATATCCATAATAATATCCTATAATATCCTAT
Found at i:9432871 original size:2 final size:2
Alignment explanation
Indices: 9432859--9432893 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
9432849 AAATTGTAAA
9432859 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9432894 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 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:9432898 original size:2 final size:2
Alignment explanation
Indices: 9432893--9432923 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9432883 TATATATATA
9432893 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
9432924 TAAAACGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9434994 original size:25 final size:25
Alignment explanation
Indices: 9434966--9435030 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
9434956 AGTTATAAAA
9434966 TGGTCACCTAACTATAATTATTTTT
1 TGGTCACCTAACTATAATTATTTTT
*
9434991 TGGTCACCTAACTATAATTCTTTTT
1 TGGTCACCTAACTATAATTATTTTT
*
9435016 TGGTCACTTAACTAT
1 TGGTCACCTAACTAT
9435031 TTAATTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.46
Consensus pattern (25 bp):
TGGTCACCTAACTATAATTATTTTT
Found at i:9435762 original size:25 final size:27
Alignment explanation
Indices: 9435724--9435785 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 27
9435714 AAAATTCATA
* * *
9435724 ATATATAATATATACATTAATAAAAA-
1 ATATAAAATTTATAAATTAATAAAAAT
*
9435750 AT-TAAAATTTATAAATTTATAAAAAT
1 ATATAAAATTTATAAATTAATAAAAAT
9435776 ATATAAAATT
1 ATATAAAATT
9435786 GTAAAACAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 19 0.63
26 4 0.13
27 7 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
ATATAAAATTTATAAATTAATAAAAAT
Found at i:9435790 original size:18 final size:18
Alignment explanation
Indices: 9435753--9435791 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9435743 ATAAAAAATT
* *
9435753 AAAATTTATAAATTTATA
1 AAAATATATAAAATTATA
*
9435771 AAAATATATAAAATTGTA
1 AAAATATATAAAATTATA
9435789 AAA
1 AAA
9435792 CAATTAAAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
AAAATATATAAAATTATA
Found at i:9437383 original size:3 final size:3
Alignment explanation
Indices: 9437352--9437639 Score: 280
Period size: 3 Copynumber: 96.3 Consensus size: 3
9437342 TTTTGTTGTT
* * ** *
9437352 TTA TTA GTA TAA TTAA TTAA TTAA TTA TTA TTA TTA TTA ACA -CA TTA
1 TTA TTA TTA TTA TT-A TT-A TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * * **
9437399 TTG TTA TTC TTA TTA ATA -TA TTA TCA TTAA TTA TTA CCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
* * * * *
9437444 TTA CTA TTA TTT TTA TTT TTG TTA TTA TTA TTA TTA TT- TTC TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
9437490 CTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
9437537 TTA TTA TTA TTA TTA TCA TTG TTC TTA TTA TTA GTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
9437585 TGC TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9437633 TTA TTA T
1 TTA TTA T
9437640 CTCTTATTTT
Statistics
Matches: 237, Mismatches: 41, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
2 10 0.04
3 213 0.90
4 14 0.06
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:9437674 original size:6 final size:6
Alignment explanation
Indices: 9437601--9437691 Score: 56
Period size: 6 Copynumber: 14.2 Consensus size: 6
9437591 TTATTATTAC
* * * * * * *
9437601 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATCTCT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TAT-TTT TATTTT
*
9437650 GTTTTATT TAATGTTT TATTTT TATTTT TATTTTT TATTTT T
1 -TATT-TT T-AT-TTT TATTTT TATTTT TA-TTTT TATTTT T
9437692 TTATATATTT
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
6 51 0.68
7 17 0.23
8 6 0.08
9 1 0.01
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (6 bp):
TATTTT
Found at i:9437686 original size:13 final size:12
Alignment explanation
Indices: 9437450--9437691 Score: 74
Period size: 12 Copynumber: 19.7 Consensus size: 12
9437440 ATTATTACTA
9437450 TTATTTTTATTT
1 TTATTTTTATTT
* * *
9437462 TTGTTATTATTA
1 TTATTTTTATTT
9437474 TTATTATTT-TCTT
1 TTATT-TTTAT-TT
* *
9437487 TTACTATTA-TT
1 TTATTTTTATTT
* *
9437498 TTATTATTATTA
1 TTATTTTTATTT
* *
9437510 TTATTATTATTA
1 TTATTTTTATTT
* *
9437522 TTATTATTATTA
1 TTATTTTTATTT
* *
9437534 TTATTATTATTA
1 TTATTTTTATTT
* * *
9437546 TTATTATCATTG
1 TTATTTTTATTT
* * *
9437558 TTCTTATTATTA
1 TTATTTTTATTT
* * *
9437570 GTATTATTATTA
1 TTATTTTTATTT
* ** *
9437582 TCATGCTTATTA
1 TTATTTTTATTT
** *
9437594 TTATTACTATTA
1 TTATTTTTATTT
* *
9437606 TTATTATTATTA
1 TTATTTTTATTT
* *
9437618 TTATTATTATTA
1 TTATTTTTATTT
* *
9437630 TTATTATTATCTC
1 TTATTTTTAT-TT
*
9437643 TTATTTTGTTTTAT
1 TTATTTT-TATT-T
9437657 TTAATGTTTTATTT
1 TT-AT-TTTTATTT
9437671 TTATTTTTATTTT
1 TTATTTTTA-TTT
9437684 TTATTTTT
1 TTATTTTT
9437692 TTATATATTT
Statistics
Matches: 189, Mismatches: 31, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
11 10 0.05
12 136 0.72
13 28 0.15
14 7 0.04
15 5 0.03
16 3 0.02
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (12 bp):
TTATTTTTATTT
Found at i:9437700 original size:19 final size:19
Alignment explanation
Indices: 9437651--9437706 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
9437641 TCTTATTTTG
*
9437651 TTTTATTTA-ATGTTTTAT
1 TTTTATTTATATTTTTTAT
*
9437669 TTTTATTTTTATTTTTTA-
1 TTTTATTTATATTTTTTAT
*
9437687 TTTT-TTTATATATTTTAT
1 TTTTATTTATATTTTTTAT
9437705 TT
1 TT
9437707 GATTTTACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 11 0.34
18 14 0.44
19 7 0.22
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTATTTATATTTTTTAT
Found at i:9437712 original size:19 final size:18
Alignment explanation
Indices: 9437670--9437713 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
9437660 ATGTTTTATT
*
9437670 TTTATTTT-TATTTTTTA
1 TTTATTTTATATATTTTA
9437687 TTT-TTTTATATATTTTA
1 TTTATTTTATATATTTTA
9437704 TTTGATTTTA
1 TTT-ATTTTA
9437714 CAATTAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 14 0.61
19 5 0.22
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTATTTTATATATTTTA
Found at i:9444008 original size:44 final size:44
Alignment explanation
Indices: 9443941--9444723 Score: 360
Period size: 44 Copynumber: 17.6 Consensus size: 44
9443931 TTATGACGAA
* * ** *
9443941 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAG
* * * * *
9443985 TCTTATCTCCCTAAAGTTACAGTGAAGTAGACTGAAGTTACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAG
* * * * **
9444029 TCTTATCTCCCTAAGGTTACAATGGAGCAGACTGAAGATAGTAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAG
* * * *
9444073 ATCTTATCTCCCTAAAGTTGCAGCGGAGTAGATCGAAGATAGCAAA
1 -TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA-CAAG
* * * * *
9444119 CCTTCTCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGACACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAG
* * * * *
9444163 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAGGATAGCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA-CAAG
* * * * *
9444208 TCTTATTTCCCTGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG--AT--A-CA-AG
* * * * *
9444258 ATCTTATCTCTCTAAAGTTGAAGTAGAGCAGA-TCAA-A-ACAAA
1 -TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAG
* * * * * * *
9444300 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTTACTAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAG
** * * ** *
9444344 TCTTATCTCTTTGAAGTTGCTGTGGAATAGATTGAAGCTATAATTACAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG--AT-A-CA-AG
* ** * * * * * *
9444393 ATCTTATTTATCTAAAGTTGTAGTAGAGCGGA-TCATG--GCAA-
1 -TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAG
* * * * *
9444434 ACTTCTC-CCCTAAAGTTGCAATGGGGCATG-TTGAAGTTACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCA-GATTGAAGATACAAG
* ** * * **
9444477 TCTTATCTCCCTAAAGTTGTAGCAGAGCAGACTAAAGATGGTGAA-
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGAT--ACAAG
* * **
9444522 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT-ATAGCCACTAA-
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGA-AGATAC-AAG
* * * * *
9444566 CCTTATCT--CTGAAGTTGTAGTAGAGCA-AGTTGAA-ATTGCAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TTGAAGA-TACAAG
* * * *
9444608 TCTTATCTCCCTGAAGTTGTAGTGGAGCGGACTGAAGATACCAA-
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA-CAAG
* *** *
9444652 TCTTATCTCCCTGAAGTTGCAACAGAGCAGATTGAAGCTACTAA-
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAC-AAG
* *
9444696 TCCTATCTCCCTGAAGTTGCAGTGGAGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGC
9444724 GGACTAAAAC
Statistics
Matches: 554, Mismatches: 146, Indels: 78
0.71 0.19 0.10
Matches are distributed among these distances:
39 14 0.03
40 8 0.01
41 30 0.05
42 37 0.07
43 10 0.02
44 254 0.46
45 135 0.24
46 4 0.01
47 4 0.01
49 7 0.01
50 25 0.05
51 26 0.05
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAG
Found at i:9444203 original size:89 final size:88
Alignment explanation
Indices: 9443942--9444369 Score: 346
Period size: 89 Copynumber: 4.8 Consensus size: 88
9443932 TATGACGAAT
* * * *
9443942 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAGTCTTATCTCCCTAAAGTTACAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAGTCTTATCTCCTTAAAGTTGCAG
* * * **
9444007 TGAAGTAGACTGAAGTTA-CAAGT
66 TGGAGCAGA-TGAAGATAGCAAAC
* * * * * *
9444030 CTTATCTCCCT-AAGGTTACAATGGAGCAGACTGAAGATAGTAGATCTTATCTCCCTAAAGTTGC
1 CTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGACACTAG-TCTTATCTCCTTAAAGTTGC
* *
9444094 AGCGGAGTAGATCGAAGATAGCAAAC
64 AGTGGAGCAGAT-GAAGATAGCAAAC
* * * *
9444120 CTTCTCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGACACAAGTCTTATCTCCTTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAGTCTTATCTCCTTAAAGTTGCAG
* *
9444185 TGGAGCAGACTGAGGATAGCAAAT
66 TGGAGCAGA-TGAAGATAGCAAAC
* * * * *
9444209 CTTATTTCCCTGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCT-CTCTAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG----ACACT--AG-TCTTATCTCCT-TAA
* * *
9444273 AGTTGAAGTAGAGCAGATCAA-A-A-CAAAC
58 AGTTGCAGTGGAGCAGATGAAGATAGCAAAC
* * * ** * * *
9444301 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTTACTAGTCTTATCTCTTTGAAGTTGCTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAGTCTTATCTCCTTAAAGTTGCAG
9444366 TGGA
66 TGGA
9444370 ATAGATTGAA
Statistics
Matches: 272, Mismatches: 53, Indels: 33
0.76 0.15 0.09
Matches are distributed among these distances:
85 19 0.07
86 3 0.01
87 2 0.01
88 36 0.13
89 103 0.38
90 36 0.13
91 2 0.01
92 36 0.13
93 3 0.01
94 1 0.00
95 6 0.02
96 25 0.09
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (88 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAGTCTTATCTCCTTAAAGTTGCAG
TGGAGCAGATGAAGATAGCAAAC
Found at i:9444418 original size:135 final size:134
Alignment explanation
Indices: 9444219--9444485 Score: 347
Period size: 135 Copynumber: 2.0 Consensus size: 134
9444209 CTTATTTCCC
*
9444219 TGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTAAAGTTGAAGTAG
1 TGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTATCTAAAGTTGAAGTAG
* * * *
9444284 AGCAGATCAAAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTTACTAGTCTTA
66 AGCAGATCAAAACAAA-CTTATC-CCCTAAAGTTGCAATAGAGCAGGTTGAAGTTACAAGTCTTA
9444349 TCTCTT
129 TCTCTT
* * * * *
9444355 TGAAGTTGCTGTGGAATAGATTGAAGCTAT-AATTACAGATCTTATTTATCTAAAGTTGTAGTAG
1 TGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTATCTAAAGTTGAAGTAG
* *** * * * *
9444419 AGCGGATCATGGCAAACTTCTCCCCTAAAGTTGCAATGGGGCATGTTGAAGTTACAAGTCTTATC
66 AGCAGATCAAAACAAACTTATCCCCTAAAGTTGCAATAGAGCAGGTTGAAGTTACAAGTCTTATC
9444484 TC
131 TC
9444486 CCTAAAGTTG
Statistics
Matches: 113, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
133 38 0.34
134 5 0.04
135 43 0.38
136 27 0.24
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (134 bp):
TGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTATCTAAAGTTGAAGTAG
AGCAGATCAAAACAAACTTATCCCCTAAAGTTGCAATAGAGCAGGTTGAAGTTACAAGTCTTATC
TCTT
Found at i:9444742 original size:44 final size:43
Alignment explanation
Indices: 9444611--9444762 Score: 121
Period size: 44 Copynumber: 3.5 Consensus size: 43
9444601 TTGCAAGTCT
* * *
9444611 TATCTCCCTGAAGTTGTAGTGGAGCGGACTGAA-GATACCAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGACTAAACGATA--AATCC
*** * * * *
9444655 TATCTCCCTGAAGTTGCAACAGAGCAGATTGAA-GCTACTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGACTAAACGATA--AATCC
9444699 TATCTCCCTGAAGTTGCAGTGGAGCGGACTAAAACGATAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGACT-AAACGATAAATCC
**
9444743 TATAC-CTATGAAGTTGCAGT
1 TAT-CTCCCTGAAGTTGCAGT
9444763 AGGTCAGATT
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
44 81 0.93
45 3 0.03
46 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGACTAAACGATAAATCC
Found at i:9446142 original size:3 final size:3
Alignment explanation
Indices: 9446115--9446418 Score: 312
Period size: 3 Copynumber: 101.7 Consensus size: 3
9446105 TTTTGTTGTT
* *
9446115 TTA TTA GTA TAA TTAA TTAA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * * *
9446162 TTA TTA ACA -CA TTA TTG TTA TTA ATA -TA TTA TCA TTA CTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
** * * * * *
9446206 TTA TTA CCA TTA TTA TTA CTA TTA TTT TTA TTT TTG TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9446254 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
9446302 TTA TTA TT- TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * *
9446349 TTA GTA TTA TCA TGC TTA TTA TTA CTA TTA TTA TTA TTA -TG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
9446396 TTCT TTA TT- TTA TTA TTC TTA TT
1 TT-A TTA TTA TTA TTA TTA TTA TT
9446419 TCTTATTTTG
Statistics
Matches: 249, Mismatches: 44, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
2 9 0.04
3 229 0.92
4 11 0.04
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:9446436 original size:17 final size:17
Alignment explanation
Indices: 9446408--9446455 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
9446398 CTTTATTTTA
9446408 TTATTCTTATTTCTTA-TT
1 TTATT-TTATTT-TTACTT
*
9446426 TTGTTTTATTTTTACTT
1 TTATTTTATTTTTACTT
9446443 TTATTTTATTTTT
1 TTATTTTATTTTT
9446456 TTATATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 3 0.11
17 20 0.74
18 4 0.15
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (17 bp):
TTATTTTATTTTTACTT
Found at i:9446444 original size:6 final size:5
Alignment explanation
Indices: 9446399--9446477 Score: 54
Period size: 5 Copynumber: 14.8 Consensus size: 5
9446389 GTTATTATTC
*
9446399 TTTAT TTTA- -TTAT TCTTATT TCTTAT TTTGT TTTATT TTTACT TTTAT
1 TTTAT TTTAT TTTAT T-TTA-T T-TTAT TTTAT TTTA-T TTTA-T TTTAT
* *
9446447 TTTAT TTTTT TATATAT TTTAT TTGAT TTTA
1 TTTAT TTTAT T-T-TAT TTTAT TTTAT TTTA
9446478 CAATTAGCTT
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
3 3 0.05
5 31 0.52
6 17 0.28
7 9 0.15
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:9446454 original size:27 final size:27
Alignment explanation
Indices: 9446421--9446477 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
9446411 TTCTTATTTC
*
9446421 TTATTTTGTTT-TAT-TTTTACTTTTATT
1 TTATTTT-TTTATATATTTTA-TTTGATT
9446448 TTATTTTTTTATATATTTTATTTGATT
1 TTATTTTTTTATATATTTTATTTGATT
9446475 TTA
1 TTA
9446478 CAATTAGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 3 0.11
27 19 0.70
28 5 0.19
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (27 bp):
TTATTTTTTTATATATTTTATTTGATT
Found at i:9446468 original size:9 final size:8
Alignment explanation
Indices: 9446135--9446469 Score: 149
Period size: 9 Copynumber: 38.6 Consensus size: 8
9446125 AATTAATTAA
9446135 TTATTATT
1 TTATTATT
9446143 ATTATTATT
1 -TTATTATT
9446152 ATTATTATT
1 -TTATTATT
**
9446161 ATTATTAAC
1 -TTATTATT
**
9446170 ACATTATT
1 TTATTATT
*
9446178 GTTATTAAT
1 -TTATTATT
* *
9446187 ATATTATCA
1 TTATTAT-T
*
9446196 TTACTA-T
1 TTATTATT
9446203 TTATTATT
1 TTATTATT
**
9446211 ACCATTATT
1 -TTATTATT
*
9446220 ATTACTATT
1 -TTATTATT
*
9446229 ATTTTTATTT
1 -TTATTA-TT
* *
9446239 TTGTTACTA
1 TTATTA-TT
9446248 TTATTATT
1 TTATTATT
9446256 ATTATTATT
1 -TTATTATT
9446265 ATTATTATT
1 -TTATTATT
9446274 ATTATTATT
1 -TTATTATT
9446283 ATTATTATT
1 -TTATTATT
9446292 ATTATTATT
1 -TTATTATT
9446301 ATTATTATT
1 -TTATTATT
*
9446310 TTACTATT
1 TTATTATT
9446318 ATTATTATT
1 -TTATTATT
9446327 ATTATTATT
1 -TTATTATT
9446336 ATTATTATT
1 -TTATTATT
*
9446345 ATTATTAGTA
1 -TTATTA-TT
* *
9446355 TTATCATGC
1 TTATTAT-T
9446364 TTATTATT
1 TTATTATT
*
9446372 ACTATTATT
1 -TTATTATT
*
9446381 ATTATTATG
1 -TTATTATT
9446390 TTATTATT
1 TTATTATT
*
9446398 CT-TTATT
1 TTATTATT
9446405 TTATTATT
1 TTATTATT
*
9446413 CTTATT-TC
1 -TTATTATT
9446421 TTATT-TT
1 TTATTATT
9446428 GTT-TTATTT
1 -TTATTA-TT
9446437 TTACTTTTATT
1 TTA---TTATT
*
9446448 TTATTTTT
1 TTATTATT
9446456 TTATATATT
1 TTAT-TATT
9446465 TTATT
1 TTATT
9446470 TGATTTTACA
Statistics
Matches: 261, Mismatches: 45, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
7 19 0.07
8 46 0.18
9 185 0.71
10 3 0.01
11 5 0.02
12 3 0.01
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (8 bp):
TTATTATT
Found at i:9461897 original size:19 final size:19
Alignment explanation
Indices: 9461860--9461898 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9461850 AAAGCTGAAT
**
9461860 TCTTTCTTCTTCTTTTCTC
1 TCTTTCTTCTTCTCATCTC
*
9461879 TCTTTCTTTTTCTCATCTC
1 TCTTTCTTCTTCTCATCTC
9461898 T
1 T
9461899 TTCTTCATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTTCTTCTTCTCATCTC
Found at i:9463275 original size:20 final size:20
Alignment explanation
Indices: 9463241--9463286 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
9463231 ACTGTTTTGT
*
9463241 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAAATGTATT-AA
9463261 -ATGGGCCCAAATGTATTAA
1 TATGGGCCCAAATGTATTAA
9463280 TATGGGC
1 TATGGGC
9463287 AAGGCCTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (20 bp):
TATGGGCCCAAATGTATTAA
Found at i:9466832 original size:21 final size:22
Alignment explanation
Indices: 9466806--9466856 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
9466796 CCTATAGCAG
*
9466806 GGGCGTGTCCCAAGG-TCACAC
1 GGGCGTGTCCCAAGGACCACAC
**
9466827 GGGCGTGTCCCTTGGACCACAC
1 GGGCGTGTCCCAAGGACCACAC
9466849 GGGCGTGT
1 GGGCGTGT
9466857 GAGCCCTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.14, C:0.31, G:0.37, T:0.18
Consensus pattern (22 bp):
GGGCGTGTCCCAAGGACCACAC
Found at i:9468021 original size:13 final size:13
Alignment explanation
Indices: 9468003--9468073 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
9467993 GAACAATTTA
9468003 AAATGAATATATG
1 AAATGAATATATG
*
9468016 AAATGATTATATG
1 AAATGAATATATG
**
9468029 AAATGGCTATAT-
1 AAATGAATATATG
**
9468041 AAATAGGTTATATGG
1 AAAT-GAATATAT-G
9468056 AAAT-AATTATATG
1 AAATGAA-TATATG
9468069 AAATG
1 AAATG
9468074 TTTACATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
12 4 0.09
13 34 0.72
14 5 0.11
15 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.17, T:0.34
Consensus pattern (13 bp):
AAATGAATATATG
Found at i:9471501 original size:13 final size:13
Alignment explanation
Indices: 9471483--9471512 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
9471473 TAGGGCCTCG
9471483 ACATTGTTCAAGC
1 ACATTGTTCAAGC
9471496 ACATTGTTCAAGC
1 ACATTGTTCAAGC
9471509 ACAT
1 ACAT
9471513 ATCAATGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (13 bp):
ACATTGTTCAAGC
Found at i:9473351 original size:50 final size:49
Alignment explanation
Indices: 9473284--9473418 Score: 148
Period size: 50 Copynumber: 2.7 Consensus size: 49
9473274 GATTATTTGT
* * * *
9473284 GAGCCAGTGTAAAACCATGTCTAGGACATGGCATCGGCAC-GGATATGTGA
1 GAGCTAGTGTAAGACCATGTCTAGGACATGACATCGGC-CTCGAT-TGTGA
* * *
9473334 GAGCTAGTGTAAGACCATGTCTGGGACATGACGTCGGCCTCGATTTTGA
1 GAGCTAGTGTAAGACCATGTCTAGGACATGACATCGGCCTCGATTGTGA
* *
9473383 TAG-TCAGTGTAAGACCATGTCTAGGACATCACATCG
1 GAGCT-AGTGTAAGACCATGTCTAGGACATGACATCG
9473419 ACTTGATGGA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.49
50 36 0.50
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
GAGCTAGTGTAAGACCATGTCTAGGACATGACATCGGCCTCGATTGTGA
Found at i:9473410 original size:49 final size:49
Alignment explanation
Indices: 9473288--9473418 Score: 149
Period size: 49 Copynumber: 2.7 Consensus size: 49
9473278 ATTTGTGAGC
* * *
9473288 CAGTGTAAAACCATGTCTAGGACATGGCATCGGCACGGATATGTGAGAG
1 CAGTGTAAGACCATGTCTAGGACATGACATCGGCACCGATATGTGAGAG
* * * *
9473337 CTAGTGTAAGACCATGTCTGGGACATGACGTCGGC-CTCGAT-TTTGATAG
1 C-AGTGTAAGACCATGTCTAGGACATGACATCGGCAC-CGATATGTGAGAG
*
9473386 TCAGTGTAAGACCATGTCTAGGACATCACATCG
1 -CAGTGTAAGACCATGTCTAGGACATGACATCG
9473419 ACTTGATGGA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
49 36 0.52
50 33 0.48
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTAGGACATGACATCGGCACCGATATGTGAGAG
Found at i:9478047 original size:18 final size:18
Alignment explanation
Indices: 9478016--9478064 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
9478006 TTAATAAAAT
**
9478016 AAAATAAAATTATATTTTA
1 AAAATAAAA-TATATCATA
9478035 AAAATAAAATATATCATA
1 AAAATAAAATATATCATA
*
9478053 AAATTAAAATAT
1 AAAATAAAATAT
9478065 TATTATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATAAAATATATCATA
Found at i:9478510 original size:31 final size:31
Alignment explanation
Indices: 9478475--9478548 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
9478465 GTAGTTTGGG
* * *
9478475 ACACGCTCGTGTGGGCAGGCCGTGTGGTCAC
1 ACACGCCCGTGTGGGCAGGCCATATGGTCAC
* *
9478506 ACACGCCCATATGGGCAGGCCATATGGTCAC
1 ACACGCCCGTGTGGGCAGGCCATATGGTCAC
9478537 ACACGCCCGTGT
1 ACACGCCCGTGT
9478549 CCCTAACTCG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.19, C:0.32, G:0.31, T:0.18
Consensus pattern (31 bp):
ACACGCCCGTGTGGGCAGGCCATATGGTCAC
Found at i:9480129 original size:24 final size:26
Alignment explanation
Indices: 9480097--9480145 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
9480087 AGTTCATGCA
9480097 ATATTAAAGC-ATTTAA-ATATAATT
1 ATATTAAAGCTATTTAACATATAATT
9480121 ATATTAAAGCTTATTTAACATATAA
1 ATATTAAAGC-TATTTAACATATAA
9480146 ACTTACCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (26 bp):
ATATTAAAGCTATTTAACATATAATT
Found at i:9482161 original size:23 final size:23
Alignment explanation
Indices: 9482133--9482177 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9482123 CGAACTCGAA
*
9482133 ACTCGAATTACTT-ATTCGAATTG
1 ACTCGAATAACTTAATTC-AATTG
9482156 ACTCGAATAACTTAATTCAATT
1 ACTCGAATAACTTAATTCAATT
9482178 AACTAGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (23 bp):
ACTCGAATAACTTAATTCAATTG
Found at i:9486465 original size:12 final size:12
Alignment explanation
Indices: 9486448--9486473 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9486438 TGAATGCCGC
9486448 CAGGGCATTAGT
1 CAGGGCATTAGT
9486460 CAGGGCATTAGT
1 CAGGGCATTAGT
9486472 CA
1 CA
9486474 ACCCAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (12 bp):
CAGGGCATTAGT
Found at i:9489958 original size:66 final size:68
Alignment explanation
Indices: 9489882--9490068 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
9489872 TAGTACCACT
*
9489882 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
9489944 CACG
65 CACG
9489948 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
9490013 ATCACG
63 ATCACG
9490019 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
9490069 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:9489993 original size:71 final size:71
Alignment explanation
Indices: 9489905--9490068 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
9489895 CGATTTGTCT
9489905 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
9489970 CTTTCA
66 CTTTCA
9489976 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
9490041 CTTTCA
66 CTTTCA
9490047 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
9490069 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:9490106 original size:71 final size:70
Alignment explanation
Indices: 9489905--9490102 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
9489895 CGATTTGTCT
* * *
9489905 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
9489970 CTTTCA
65 CTTTCA
* * *
9489976 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
9490041 CTTTCA
65 CTTTCA
* *
9490047 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
9490103 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:9497502 original size:66 final size:68
Alignment explanation
Indices: 9497426--9497612 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
9497416 TAGTACCACT
*
9497426 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
9497488 CACG
65 CACG
9497492 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
9497557 ATCACG
63 ATCACG
9497563 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
9497613 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:9497537 original size:71 final size:71
Alignment explanation
Indices: 9497449--9497612 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
9497439 CGATTTGTCT
9497449 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
9497514 CTTTCA
66 CTTTCA
9497520 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
9497585 CTTTCA
66 CTTTCA
9497591 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
9497613 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:9497650 original size:71 final size:70
Alignment explanation
Indices: 9497449--9497646 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
9497439 CGATTTGTCT
* * *
9497449 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
9497514 CTTTCA
65 CTTTCA
* * *
9497520 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
9497585 CTTTCA
65 CTTTCA
* *
9497591 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
9497647 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:9499824 original size:43 final size:43
Alignment explanation
Indices: 9499776--9499884 Score: 148
Period size: 43 Copynumber: 2.5 Consensus size: 43
9499766 GATTAACAAG
* * *
9499776 ATGTGATTATTTGTAAGACCATGTCTAGGACATTGGCATCTTT
1 ATGTGATTATGTGTAAGACCATATCTAGGACATTGGCATCATT
* *
9499819 ATGTGATTATGTGTAAGACCCTATCTGGGACATTGGCATCATT
1 ATGTGATTATGTGTAAGACCATATCTAGGACATTGGCATCATT
*
9499862 ATTTGA-TATCGTGTAAGACCATA
1 ATGTGATTAT-GTGTAAGACCATA
9499885 GTTGGACTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 3 0.05
43 55 0.95
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATATCTAGGACATTGGCATCATT
Found at i:9502979 original size:39 final size:39
Alignment explanation
Indices: 9502925--9503077 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
9502915 GAATGTTCGA
* * *
9502925 GTGATATCTGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
9502964 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
9503003 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* **
9503042 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
9503078 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 89 0.85
40 16 0.15
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:9503093 original size:40 final size:39
Alignment explanation
Indices: 9502926--9503096 Score: 225
Period size: 39 Copynumber: 4.4 Consensus size: 39
9502916 AATGTTCGAG
* * * *
9502926 TGATATCTGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
9502965 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
9503004 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
9503043 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** *
9503083 CCATAACCGGGCTA
1 TGATATCCGGGCTA
9503097 TGTTCCGAAG
Statistics
Matches: 117, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 88 0.75
40 29 0.25
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:9505532 original size:39 final size:39
Alignment explanation
Indices: 9505468--9505619 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
9505458 GAATGTAATT
9505468 CCAGCACAAA-GCCTTCAGGACTTAGCCCGGATATAACA
1 CCAGCACAAATGCCTTCAGGACTTAGCCCGGATATAACA
** *
9505506 CCAGCACAAATGCCTTTGGGACTTAGCCCGGGTATAACA
1 CCAGCACAAATGCCTTCAGGACTTAGCCCGGATATAACA
** *
9505545 CCAGCATGAATGCCTTCAGGACTTAGCCCGGGTATAACA
1 CCAGCACAAATGCCTTCAGGACTTAGCCCGGATATAACA
* * *
9505584 CCAGCACGAATGCCTTCGGGAATTAGCCCGGATATA
1 CCAGCACAAATGCCTTCAGGACTTAGCCCGGATATA
9505620 TATCTCACAC
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 10 0.10
39 92 0.90
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
CCAGCACAAATGCCTTCAGGACTTAGCCCGGATATAACA
Found at i:9508621 original size:30 final size:30
Alignment explanation
Indices: 9508563--9508621 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
9508553 ATTTTCGGGC
* * * **
9508563 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATAGTAATTTTACCAAAGT
9508593 CTAGGGGCAAAATAGTAATTTTACCAAAG
1 CTAGGGGCAAAATAGTAATTTTACCAAAG
9508622 ATATGAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATAGTAATTTTACCAAAGT
Found at i:9509077 original size:46 final size:45
Alignment explanation
Indices: 9509007--9509127 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 45
9508997 ATGAGAGTAG
*
9509007 GTGTAAGA-ATGTCTAGGACATGCATCGGCCT-CGAGACGTAAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGACGT--GCCA
* * *
9509052 GTGTAAGACATGTTTGGGACATGCATCGG-CTACGAGATGTGTCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGACGTGCCA
9509096 GTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGC
9509128 ACAAATCTAC
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
44 11 0.17
45 23 0.35
46 32 0.48
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGACGTGCCA
Found at i:9512304 original size:39 final size:39
Alignment explanation
Indices: 9512261--9512408 Score: 203
Period size: 39 Copynumber: 3.8 Consensus size: 39
9512251 GGCAAATTTC
9512261 CGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCT
1 CGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCT
*
9512300 CGAAGGCATTCGTGCTGGTGTTATA-CCTGGGCTAAGTCC
1 CGAAGGCATTCGTGCTGGTGTTATATCC-GGGCTAAGTCT
* *
9512339 CGAAGGCATTAGTGCTGGTGTTATATCCGGGCTAAGCCT
1 CGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCT
* * * *
9512378 -GAAGGC-TTTGTGCCGGTATTACATCCGGGCT
1 CGAAGGCATTCGTGCTGGTGTTATATCCGGGCT
9512409 TAAAGTCCCG
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
37 21 0.21
38 8 0.08
39 68 0.69
40 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (39 bp):
CGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCT
Found at i:9518670 original size:39 final size:38
Alignment explanation
Indices: 9518623--9518793 Score: 199
Period size: 39 Copynumber: 4.5 Consensus size: 38
9518613 GTGTGAGATA
* *
9518623 TATATCCGGGCTAATTCCCGAAGGTATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATT-GTGCTGGTGT
*
9518662 TATATCCGGGCTAAGTCCCGAAGGCA-T-T-C--ATGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTGTGCTGGTGT
*
9518695 TATACCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATT-GTGCTGGTGT
* * *
9518734 TATATCCGGGCTAAGTCCTGAAGGCTTTGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTGTGCTGGTGT
*
9518772 TACATCCGGGCTTAAAGTCCCG
1 TATATCCGGGC-T-AAGTCCCG
9518794 CATGCTTTGT
Statistics
Matches: 113, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
33 28 0.25
34 1 0.01
35 1 0.01
36 2 0.02
37 1 0.01
38 20 0.18
39 53 0.47
40 7 0.06
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.29
Consensus pattern (38 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTGTGCTGGTGT
Found at i:9518704 original size:33 final size:33
Alignment explanation
Indices: 9518659--9518723 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
9518649 TTCGTGCTGG
*
9518659 TGTTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 TGTTATACCCGGGCTAAGTCCCGAAGGCATTCA
9518692 TGTTATACCCGGGCTAAGTCCCGAAGGCATTC
1 TGTTATACCCGGGCTAAGTCCCGAAGGCATTC
9518724 GTGCTGGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (33 bp):
TGTTATACCCGGGCTAAGTCCCGAAGGCATTCA
Found at i:9518715 original size:72 final size:72
Alignment explanation
Indices: 9518623--9518758 Score: 236
Period size: 72 Copynumber: 1.9 Consensus size: 72
9518613 GTGTGAGATA
* * *
9518623 TATATCCGGGCTAATTCCCGAAGGTATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCA
1 TATACCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCA
9518688 TTCATGT
66 TTCATGT
*
9518695 TATACCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCTGAAGGC
1 TATACCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
9518759 TTTGTGCTGG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (72 bp):
TATACCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCA
TTCATGT
Found at i:9518801 original size:40 final size:38
Alignment explanation
Indices: 9518590--9518809 Score: 161
Period size: 39 Copynumber: 5.8 Consensus size: 38
9518580 AGGATTTTAA
* * * *
9518590 CCGGGCTAAGACCCGCAGGCCTTGTG-TGAG-ATATATAT
1 CCGGGCTAAGTCCCGAAGGCTTTGTGCTG-GTAT-TACAT
* * *
9518628 CCGGGCTAATTCCCGAAGG-TATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGGCT-TT-GTGCTGGTATTACAT
* *
9518667 CCGGGCTAAGTCCCGAAGGC-AT-T-CATGTTA-TAC--
1 CCGGGCTAAGTCCCGAAGGCTTTGTGC-TGGTATTACAT
* * *
9518700 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTGGTATTACAT
*
9518739 CCGGGCTAAGTCCTGAAGGCTTTGTGCTGGTATTACAT
1 CCGGGCTAAGTCCCGAAGGCTTTGTGCTGGTATTACAT
* * *
9518777 CCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGT
1 CCGGGC-T-AAGTCCCGAAGGCTTTGTGCTGGT
9518810 GATTGGATTT
Statistics
Matches: 144, Mismatches: 23, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
33 20 0.14
35 3 0.02
36 8 0.06
37 3 0.02
38 40 0.28
39 47 0.33
40 23 0.16
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CCGGGCTAAGTCCCGAAGGCTTTGTGCTGGTATTACAT
Found at i:9520533 original size:21 final size:21
Alignment explanation
Indices: 9520509--9520548 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9520499 AACACGACCA
*
9520509 TGTTTCCTTTCTACACGGGCG
1 TGTTTCCCTTCTACACGGGCG
9520530 TGTTTCCCTTCTACACGGG
1 TGTTTCCCTTCTACACGGG
9520549 TGTATGCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.30, G:0.23, T:0.38
Consensus pattern (21 bp):
TGTTTCCCTTCTACACGGGCG
Found at i:9523144 original size:30 final size:32
Alignment explanation
Indices: 9523103--9523176 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 32
9523093 TATATATAGA
*
9523103 CTAAATAAAATAATAAAAT-AATAA-AAATAT
1 CTAATTAAAATAATAAAATAAATAATAAATAT
* * *
9523133 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAATAAATAATAAATAT
9523164 CTAATT-AAATAAT
1 CTAATTAAAATAAT
9523177 TATAAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 6 0.17
30 18 0.50
31 12 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (32 bp):
CTAATTAAAATAATAAAATAAATAATAAATAT
Found at i:9523185 original size:30 final size:31
Alignment explanation
Indices: 9523103--9523185 Score: 75
Period size: 30 Copynumber: 2.7 Consensus size: 31
9523093 TATATATAGA
*
9523103 CTAAATAAAATA--ATAAAATAATAAAAATAT
1 CTAATTAAAATATTATAAAATAAT-AAAATAT
* * *
9523133 CTTATTAAAATATTAAATAAATAAT-AATTAT
1 CTAATTAAAATATTATA-AAATAATAAAATAT
9523164 CTAATT-AAATAATTATAAAATA
1 CTAATTAAAAT-ATTATAAAATA
9523186 TCACCAACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
30 19 0.44
31 15 0.35
32 2 0.05
33 7 0.16
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATATTATAAAATAATAAAATAT
Found at i:9523440 original size:30 final size:31
Alignment explanation
Indices: 9523385--9523443 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
9523375 AACCCTTAAA
* * *
9523385 ATATTTTCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTTC
9523416 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
9523444 GAGATTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTC
Found at i:9527934 original size:91 final size:91
Alignment explanation
Indices: 9527779--9527960 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
9527769 TTAAGGTAAA
9527779 TTAAGTAAATTTAATATGGACTTACTAAGCATTCAAAATCTTACCCATTATCTCCTTTTTCGTTG
1 TTAAGTAAATTTAATATGGACTTACTAAGCATTCAAAATCTTACCCATTATCTCCTTTTTCGTTG
9527844 TAGATCGTCAGTTTACGGAACATGTC
66 TAGATCGTCAGTTTACGGAACATGTC
9527870 TTAAGTAAATTTAATATGGACTTACTAAGCATTCAAAATCTTACCCATTATCTCCTTTTTCGTTG
1 TTAAGTAAATTTAATATGGACTTACTAAGCATTCAAAATCTTACCCATTATCTCCTTTTTCGTTG
9527935 TAGATCGTCAGTTTACGGAACATGTC
66 TAGATCGTCAGTTTACGGAACATGTC
9527961 GATTGGACCA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (91 bp):
TTAAGTAAATTTAATATGGACTTACTAAGCATTCAAAATCTTACCCATTATCTCCTTTTTCGTTG
TAGATCGTCAGTTTACGGAACATGTC
Found at i:9532784 original size:19 final size:19
Alignment explanation
Indices: 9532751--9532807 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
9532741 TTTAAAAATT
9532751 TAAAT-TTTTGAAATTTTTA
1 TAAATATTTTG-AATTTTTA
9532770 TAAATATTTTGAA-TTTTA
1 TAAATATTTTGAATTTTTA
*
9532788 AAAATTATTTTTGAATTTTT
1 TAAA-TA-TTTTGAATTTTT
9532808 CTTTTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 8 0.24
19 9 0.27
20 12 0.36
21 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TAAATATTTTGAATTTTTA
Found at i:9534373 original size:147 final size:143
Alignment explanation
Indices: 9534182--9534480 Score: 377
Period size: 152 Copynumber: 2.0 Consensus size: 143
9534172 TGAGAGGTTA
* *
9534182 AGTTATCATATGATATACTTTTGTAGGAATTGACTGGGTTAAAGTGACTTTTGAGGGCATTTTAC
1 AGTTATCATATGATATACTTTTGTAGGAATTGACTAGGTTAAA--G----TTAAGGGCATTTTAC
9534247 ACTAACTGGGTAG-ATCTCT-AGGGGGAATTGATATCTGATTTAGTTCAAAGTCGTGTGCTATTT
60 ACTAACTGGGTAGAATCTCTAAGGGGGAATTGATATCTGATTTAGTTCAAAGTCGTGTGCTATTT
*
9534310 TGGTTTTAATGATCTTTGG
125 TGGTTTTAATAATCTTTGG
* * *
9534329 AGTTATCATGTGATATACTTTTGTTGGAATTGACTAGGTTAAAGTTAAGGGCTTTTTACACTAAC
1 AGTTATCATATGATATACTTTTGTAGGAATTGACTAGGTTAAAGTTAAGGGCATTTTACACTAAC
* *
9534394 TGGGTAGCAATCTCAATATCTCTAAGGGGGGATTGATATCTGATTTTGTTCAAAGTCGTGTGCTA
66 TGGGTAG--------A-ATCTCTAAGGGGGAATTGATATCTGATTTAGTTCAAAGTCGTGTGCTA
9534459 TTTTGGTTTTAATAATCTTTGG
122 TTTTGGTTTTAATAATCTTTGG
9534481 TGTTGTAATG
Statistics
Matches: 133, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
141 26 0.20
145 1 0.01
147 40 0.30
151 6 0.05
152 60 0.45
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.40
Consensus pattern (143 bp):
AGTTATCATATGATATACTTTTGTAGGAATTGACTAGGTTAAAGTTAAGGGCATTTTACACTAAC
TGGGTAGAATCTCTAAGGGGGAATTGATATCTGATTTAGTTCAAAGTCGTGTGCTATTTTGGTTT
TAATAATCTTTGG
Found at i:9535722 original size:12 final size:13
Alignment explanation
Indices: 9535701--9535732 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9535691 ATGCTTTTGT
9535701 ATAT-ATACATAC
1 ATATCATACATAC
9535713 ATA-CATACATAC
1 ATATCATACATAC
9535725 ATATCATA
1 ATATCATA
9535733 TATGTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATCATACATAC
Found at i:9535767 original size:63 final size:59
Alignment explanation
Indices: 9535642--9535766 Score: 232
Period size: 59 Copynumber: 2.1 Consensus size: 59
9535632 GCATACATAC
* *
9535642 ATATGTACATGCATACATACATACATATCATATATGTTTTTTGGAAATAATGCTTTTGT
1 ATATATACATACATACATACATACATATCATATATGTTTTTTGGAAATAATGCTTTTGT
9535701 ATATATACATACATACATACATACATATCATATATGTTTTTTGGAAATAATGCTTTTGT
1 ATATATACATACATACATACATACATATCATATATGTTTTTTGGAAATAATGCTTTTGT
9535760 ATATATA
1 ATATATA
9535767 TTTTATAATC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (59 bp):
ATATATACATACATACATACATACATATCATATATGTTTTTTGGAAATAATGCTTTTGT
Found at i:9541650 original size:16 final size:16
Alignment explanation
Indices: 9541629--9541661 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9541619 TGGAGAAGTC
9541629 TAATGATTTTATTTGA
1 TAATGATTTTATTTGA
9541645 TAATGATTTTATTTGA
1 TAATGATTTTATTTGA
9541661 T
1 T
9541662 TGACAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (16 bp):
TAATGATTTTATTTGA
Found at i:9548715 original size:11 final size:11
Alignment explanation
Indices: 9548677--9548717 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
9548667 CAAGAATTTC
9548677 CATTAAGTTTT
1 CATTAAGTTTT
*
9548688 -AGTTATGTTTT
1 CA-TTAAGTTTT
9548699 CA-TAAGTTTT
1 CATTAAGTTTT
9548709 CATTAAGTT
1 CATTAAGTT
9548718 AATAAAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 10 0.40
11 14 0.56
12 1 0.04
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.54
Consensus pattern (11 bp):
CATTAAGTTTT
Found at i:9565748 original size:16 final size:16
Alignment explanation
Indices: 9565724--9565755 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9565714 ATTTTAGAAC
*
9565724 TTAATTTAATTTTTAA
1 TTAAATTAATTTTTAA
9565740 TTAAATTAATTTTTAA
1 TTAAATTAATTTTTAA
9565756 AAGTAACTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAAATTAATTTTTAA
Found at i:9566300 original size:18 final size:20
Alignment explanation
Indices: 9566277--9566314 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
9566267 AAATGATTCT
9566277 AATATAA-TATAA-TATAAA
1 AATATAATTATAATTATAAA
9566295 AATATAATTATAATTATAAA
1 AATATAATTATAATTATAAA
9566315 TAAACTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATATAATTATAATTATAAA
Found at i:9569946 original size:214 final size:213
Alignment explanation
Indices: 9569576--9570011 Score: 748
Period size: 214 Copynumber: 2.0 Consensus size: 213
9569566 ACTTAATTGC
*
9569576 ATAAAATTAGTTAATTATGTTGTTGGAAGTTGATAATTAAATAGAATTAAAATTTTAGATCAAGA
1 ATAAAATTAGTTAATTATGTTGTTGGAAGCTGATAATTAAATAGAATTAAAATTTTAGATCAAGA
*
9569641 AATAAATCGATCAGGTTTGAATCGCGGAAAGGCTAAAGTAAAGGATTGATCGTTTTCTCAATTTC
66 AATAAATCGATCAGGTTTGAATCGCGGAAAGGCTAAAGTAAAGGATTGATCATTTTCTCAATTTC
*
9569706 GACTTCGTTTTTTTATCAGGTAAGTTCATTTAATATGAACTAAATTATATTTCTAATTTTTTATG
131 GACTTCATTTTTTTATCAGGTAAGTTCATTTAATATGAACTAAATTATATTTCTAA--TTTTATG
9569771 AATGTTAAAGCTTAAATGAT
194 AATGTTAAAGCTTAAATGAT
* * **
9569791 -TAAAATTATTTAATTATGTTGTTGGAAGCTGATAATTAAATATAATTATTATTTTAGATCAAGA
1 ATAAAATTAGTTAATTATGTTGTTGGAAGCTGATAATTAAATAGAATTAAAATTTTAGATCAAGA
* *
9569855 AATAAATCGATTAGGTTTGAATTGCGGAAAGGCTAAAGTAAAGGATTGATCATTTTCTCAATTTC
66 AATAAATCGATCAGGTTTGAATCGCGGAAAGGCTAAAGTAAAGGATTGATCATTTTCTCAATTTC
9569920 GACTTCATTTTTTTATCAGGTAAGTTCATTTAATATGAACTAAATTATATTTCTAATTTTATGAA
131 GACTTCATTTTTTTATCAGGTAAGTTCATTTAATATGAACTAAATTATATTTCTAATTTTATGAA
*
9569985 TGTTAGAGCTTAAATGAT
196 TGTTAAAGCTTAAATGAT
*
9570003 ATGAAATTA
1 ATAAAATTA
9570012 CTAATATTAA
Statistics
Matches: 209, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
212 26 0.12
213 7 0.03
214 176 0.84
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (213 bp):
ATAAAATTAGTTAATTATGTTGTTGGAAGCTGATAATTAAATAGAATTAAAATTTTAGATCAAGA
AATAAATCGATCAGGTTTGAATCGCGGAAAGGCTAAAGTAAAGGATTGATCATTTTCTCAATTTC
GACTTCATTTTTTTATCAGGTAAGTTCATTTAATATGAACTAAATTATATTTCTAATTTTATGAA
TGTTAAAGCTTAAATGAT
Found at i:9571444 original size:46 final size:49
Alignment explanation
Indices: 9571288--9571650 Score: 255
Period size: 46 Copynumber: 7.7 Consensus size: 49
9571278 TTATTTGCGT
* * * *
9571288 GCTAGTGTAAGA-CATGTTTCGGACAT-GCATCGGCCAC-ATTAT-TAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAGA
* * * * * *
9571334 TCCAGTGTATGACCATGTCTGGGACATAGCATCGGCATTGAGATG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGA
* *
9571382 GCTAGTGTAAG--TATGTCTGGGACAT-GCATCGGCCTCGTGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGA
*
9571427 GCTAATGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGATGT--A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAGA
* * * * * *
9571472 TC-AGTGTAAGACCACGTCTGGGATATGGTATCGACAC-GGAGATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-AGA
* ** *
9571521 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTCG-ATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GTAGA
* * *
9571570 G-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACT--TGATGGATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA-GA
* * *
9571617 GCCAGTGTAAGACGATGTCTGGGATATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
9571651 ACATTATACC
Statistics
Matches: 251, Mismatches: 44, Indels: 42
0.74 0.13 0.12
Matches are distributed among these distances:
44 8 0.03
45 42 0.17
46 64 0.25
47 42 0.17
48 25 0.10
49 37 0.15
50 32 0.13
51 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGA
Found at i:9571635 original size:96 final size:94
Alignment explanation
Indices: 9571432--9571650 Score: 259
Period size: 96 Copynumber: 2.3 Consensus size: 94
9571422 TGTAAGCTAA
*
9571432 TGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGTATCAGTGTAAGACCACGTCTGGGAT
1 TGTAAGACATGTCTGGGACATGGCATCGGCTACGAGATGTATCAGTGTAAGACCACGTCTGGGAC
*
9571496 ATGGTATCGACACGGAGATGTGAGAGCCAG
66 ATGGCATCGA-ACGGAGATGTGAGAGCCAG
** *
9571526 TGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATTTCGATAGTCAGTGTAAGACCATGTCT
1 TGTAAGA-CATGTCTGGGACATGGCATCGG-CTACGAGAT-G-TA-TCAGTGTAAGACCACGTCT
**
9571590 GGGACATGGCATCG-AC-TTGATG-GATGAGCCAG
61 GGGACATGGCATCGAACGGAGATGTGA-GAGCCAG
*
9571622 TGTAAGACGATGTCTGGGATATGGCATCG
1 TGTAAGAC-ATGTCTGGGACATGGCATCG
9571651 ACATTATACC
Statistics
Matches: 109, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
94 7 0.06
95 17 0.16
96 48 0.44
97 5 0.05
98 2 0.02
99 30 0.28
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.24
Consensus pattern (94 bp):
TGTAAGACATGTCTGGGACATGGCATCGGCTACGAGATGTATCAGTGTAAGACCACGTCTGGGAC
ATGGCATCGAACGGAGATGTGAGAGCCAG
Found at i:9572803 original size:192 final size:192
Alignment explanation
Indices: 9572476--9572837 Score: 643
Period size: 192 Copynumber: 1.9 Consensus size: 192
9572466 AACTTGTAAG
* * *
9572476 TCAAAATGCATGGTAGTAAACACACATGTAGAGACACGGCCGTGTGTCTCAATCGTGTGGAAGAC
1 TCAAAATGCATGGTAATAAACACACAGGTAGAGACACGGCCGTGTGTCTCAATCGTATGGAAGAC
9572541 ACGACCTCTGGCCACGGGCATGTGCCTTGGCCGTGCACCCCTTATTGGATGCTGACGTTAGAAAT
66 ACGACCTCTGGCCACGGGCATGTGCCTTGGCCGTGCACCCCTTATTGGATGCTGACGTTAGAAAT
9572606 AGAATGTCAAGGCTTTTAGACACGGGTTAGGACACGGGCGTGTCATGGCCGTGTGAGGGACA
131 AGAATGTCAAGGCTTTTAGACACGGGTTAGGACACGGGCGTGTCATGGCCGTGTGAGGGACA
* *
9572668 TCAAAATGCATGGTAATGAACACACAGGTAGAGACACGGCCGTGTGTCTCAATCGTATGGAGGAC
1 TCAAAATGCATGGTAATAAACACACAGGTAGAGACACGGCCGTGTGTCTCAATCGTATGGAAGAC
* * * *
9572733 ACGACCTCTGGCCATGGGCGTGTGCCTTGGTCGTGCGCCCCTTATTGGATGCTGACGTTAGAAAT
66 ACGACCTCTGGCCACGGGCATGTGCCTTGGCCGTGCACCCCTTATTGGATGCTGACGTTAGAAAT
9572798 AGAATGTCAAGGCTTTTAGACACGGGTTAGGACACGGGCG
131 AGAATGTCAAGGCTTTTAGACACGGGTTAGGACACGGGCG
9572838 CGTTCTAGGT
Statistics
Matches: 161, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
192 161 1.00
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (192 bp):
TCAAAATGCATGGTAATAAACACACAGGTAGAGACACGGCCGTGTGTCTCAATCGTATGGAAGAC
ACGACCTCTGGCCACGGGCATGTGCCTTGGCCGTGCACCCCTTATTGGATGCTGACGTTAGAAAT
AGAATGTCAAGGCTTTTAGACACGGGTTAGGACACGGGCGTGTCATGGCCGTGTGAGGGACA
Found at i:9573390 original size:33 final size:32
Alignment explanation
Indices: 9573319--9573395 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
9573309 GTGTATATAT
* * *
9573319 GTAAGACCATAGCTGGGCTATGACATCCTGAT
1 GTAAGACCATAACTGGGCTATGACATCATGAC
* *
9573351 GATAAGACCATAACTGGGTTATGACATTATGAAC
1 G-TAAGACCATAACTGGGCTATGACATCATG-AC
9573385 GTAAGACCATA
1 GTAAGACCATA
9573396 GCAGGGTCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 1 0.03
33 35 0.92
34 2 0.05
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGGGCTATGACATCATGAC
Found at i:9579538 original size:11 final size:11
Alignment explanation
Indices: 9579522--9579546 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9579512 ATATGATATT
9579522 TTATTATTTTA
1 TTATTATTTTA
9579533 TTATTATTTTA
1 TTATTATTTTA
9579544 TTA
1 TTA
9579547 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:9588301 original size:7 final size:6
Alignment explanation
Indices: 9588273--9588297 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9588263 CCTTAAAATA
9588273 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
9588298 ATTTCAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:9590258 original size:21 final size:20
Alignment explanation
Indices: 9590216--9590258 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
9590206 TAAAAGTTTG
* **
9590216 ATTGAATTTAAATTGTGTAA
1 ATTGAATTGAAATTGTAAAA
9590236 ATTGAAATTGAAATTGTAAAA
1 ATTG-AATTGAAATTGTAAAA
9590257 AT
1 AT
9590259 AAACAAAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (20 bp):
ATTGAATTGAAATTGTAAAA
Found at i:9592301 original size:23 final size:24
Alignment explanation
Indices: 9592271--9592380 Score: 106
Period size: 23 Copynumber: 4.8 Consensus size: 24
9592261 GGACTCACCA
9592271 CAGCTCGTAT-GAGCTTACCGATT
1 CAGCTCGTATAGAGCTTACCGATT
* *
9592294 CAGCTCGTA-AGAGCTTACTGTTT
1 CAGCTCGTATAGAGCTTACCGATT
* * *
9592317 TAGCTCAT-TGGAGCTTACCGATT
1 CAGCTCGTATAGAGCTTACCGATT
**
9592340 CAGCTCG-ATAGAGCTTATTG-TT
1 CAGCTCGTATAGAGCTTACCGATT
*
9592362 CAGCTC-AATAGAGCTTACC
1 CAGCTCGTATAGAGCTTACC
9592381 ATTTGTAGCT
Statistics
Matches: 69, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
22 18 0.26
23 51 0.74
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (24 bp):
CAGCTCGTATAGAGCTTACCGATT
Found at i:9592339 original size:46 final size:46
Alignment explanation
Indices: 9592281--9592432 Score: 159
Period size: 46 Copynumber: 3.2 Consensus size: 46
9592271 CAGCTCGTAT
*
9592281 GAGCTTACCGATTCAGCTCG-TAAGAGCTTACTGTTTTAGCTCATTG
1 GAGCTTACCGATTCAGCTCGAT-AGAGCTTACTGTTTTAGCTCAATG
* * *
9592327 GAGCTTACCGATTCAGCTCGATAGAGCTTATTG-TTCAGCTCAATA
1 GAGCTTACCGATTCAGCTCGATAGAGCTTACTGTTTTAGCTCAATG
* *
9592372 GAGCTTACC-ATTTGTAGCTCAATAGAGCTTACTGTTTATCAGCTCAGGA-G
1 GAGCTTACCGA-TT-CAGCTCGATAGAGCTTACTGTTT-T-AGCTCA--ATG
9592422 GAGCTTACCGA
1 GAGCTTACCGA
9592433 CCATGACTCG
Statistics
Matches: 88, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
44 1 0.01
45 20 0.23
46 47 0.53
47 3 0.03
49 6 0.07
50 9 0.10
51 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (46 bp):
GAGCTTACCGATTCAGCTCGATAGAGCTTACTGTTTTAGCTCAATG
Found at i:9596249 original size:35 final size:36
Alignment explanation
Indices: 9596191--9596263 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 36
9596181 TTTTCCATGA
9596191 ATCAACTAAAATTTTTTCATACATAGCACCAAAATG
1 ATCAACTAAAATTTTTTCATACATAGCACCAAAATG
9596227 ATCAACTAAAA-TTTTTCATACATAGCACCAAAATG
1 ATCAACTAAAATTTTTTCATACATAGCACCAAAATG
9596262 AT
1 AT
9596264 TGTGATTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 26 0.70
36 11 0.30
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.30
Consensus pattern (36 bp):
ATCAACTAAAATTTTTTCATACATAGCACCAAAATG
Found at i:9596962 original size:40 final size:40
Alignment explanation
Indices: 9596885--9597146 Score: 438
Period size: 40 Copynumber: 6.6 Consensus size: 40
9596875 AAACCAAGTA
* * *
9596885 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
9596924 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
9596964 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
9597004 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
9597044 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
9597084 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
9597124 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
9597147 CATCCGAATA
Statistics
Matches: 213, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 14 0.07
40 199 0.93
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:9605157 original size:40 final size:40
Alignment explanation
Indices: 9605080--9605181 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
9605070 AAACCAAGTA
* *
9605080 CCTTCGGGAATTAG-CCGGATATAGCTACTCGCTCAAATG
1 CCTTCGGGAATTAGCCCGGTTATAGCTACTCGCACAAATG
* *
9605119 CCTTCGGGATTTAGCCCGGTTATAG-TAACTTGCACAAATG
1 CCTTCGGGAATTAGCCCGGTTATAGCT-ACTCGCACAAATG
*
9605159 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGAATTAGCCCGGTTAT
9605182 CATCCGAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
39 14 0.25
40 42 0.75
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (40 bp):
CCTTCGGGAATTAGCCCGGTTATAGCTACTCGCACAAATG
Found at i:9612935 original size:22 final size:22
Alignment explanation
Indices: 9612910--9612955 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
9612900 ATATAAAGAG
9612910 AAAGCATACTAATTAAATCAAT
1 AAAGCATACTAATTAAATCAAT
* *
9612932 AAAGCATGCTAATTAAATCGAT
1 AAAGCATACTAATTAAATCAAT
9612954 AA
1 AA
9612956 TATAGAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (22 bp):
AAAGCATACTAATTAAATCAAT
Found at i:9614753 original size:2 final size:2
Alignment explanation
Indices: 9614746--9614776 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9614736 ATAAAGCCTA
9614746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9614777 ACAACAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9615030 original size:2 final size:2
Alignment explanation
Indices: 9615023--9615056 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9615013 ATAAATGCTT
9615023 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
9615057 ATTGAGTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9615202 original size:8 final size:8
Alignment explanation
Indices: 9615189--9615217 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9615179 GTCTGAATTT
9615189 TAATTTAA
1 TAATTTAA
9615197 TAATTTAA
1 TAATTTAA
9615205 TAATTTAA
1 TAATTTAA
9615213 TAATT
1 TAATT
9615218 ATTAAATTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TAATTTAA
Found at i:9619291 original size:44 final size:43
Alignment explanation
Indices: 9619229--9619327 Score: 189
Period size: 44 Copynumber: 2.3 Consensus size: 43
9619219 CACCACACCC
9619229 ATGGTTTAAAGGAATGCATATTTGAATGTGTATAATGCGTATA
1 ATGGTTTAAAGGAATGCATATTTGAATGTGTATAATGCGTATA
9619272 ATGGTTTTAAAGGAATGCATATTTGAATGTGTATAATGCGTATA
1 ATGG-TTTAAAGGAATGCATATTTGAATGTGTATAATGCGTATA
9619316 ATGGTTTAAAGG
1 ATGGTTTAAAGG
9619328 GATACAAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 12 0.22
44 43 0.78
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.37
Consensus pattern (43 bp):
ATGGTTTAAAGGAATGCATATTTGAATGTGTATAATGCGTATA
Found at i:9619389 original size:42 final size:42
Alignment explanation
Indices: 9619330--9619415 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
9619320 TTTAAAGGGA
9619330 TACAAAATATAGATACAACATTTCCATTTATATTCTTTCTTT
1 TACAAAATATAGATACAACATTTCCATTTATATTCTTTCTTT
9619372 TACAAAATATAGATACAACATTTCCATTTATATTCTTTCTTT
1 TACAAAATATAGATACAACATTTCCATTTATATTCTTTCTTT
9619414 TA
1 TA
9619416 AATATGTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.45
Consensus pattern (42 bp):
TACAAAATATAGATACAACATTTCCATTTATATTCTTTCTTT
Found at i:9627082 original size:11 final size:11
Alignment explanation
Indices: 9627066--9627095 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9627056 TGTATAAAAT
9627066 TTATTTTATTA
1 TTATTTTATTA
*
9627077 TTATTTTTTTA
1 TTATTTTATTA
9627088 TTATTTTA
1 TTATTTTA
9627096 AACACATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:9627086 original size:14 final size:15
Alignment explanation
Indices: 9627064--9627092 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9627054 ATTGTATAAA
9627064 ATTTATTTTATTATT
1 ATTTATTTTATTATT
9627079 ATTT-TTTTATTATT
1 ATTTATTTTATTATT
9627093 TTAAACACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTATTTTATTATT
Found at i:9635767 original size:23 final size:24
Alignment explanation
Indices: 9635724--9635772 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
9635714 TTTACAGGCG
* *
9635724 TGCATGGTTTTGTACATCTTT-CA
1 TGCATGGTGTTGTACAGCTTTGCA
9635747 TGCATGGTGTTGTATC-GCTTTGCA
1 TGCATGGTGTTGTA-CAGCTTTGCA
9635771 TG
1 TG
9635773 GTACAACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.14, C:0.16, G:0.24, T:0.45
Consensus pattern (24 bp):
TGCATGGTGTTGTACAGCTTTGCA
Found at i:9647278 original size:2 final size:2
Alignment explanation
Indices: 9647273--9647303 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9647263 TCTCTCTTTT
9647273 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9647304 TAATTAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9647322 original size:18 final size:18
Alignment explanation
Indices: 9647296--9647352 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
9647286 ATATATATAT
9647296 ATATATATTAATTAATAAA
1 ATAT-TATTAATTAATAAA
* *
9647315 ATATTATTAGTTATTAAA
1 ATATTATTAATTAATAAA
9647333 ATATTA-TAACTTAATTAAA
1 ATATTATTAA-TTAA-TAAA
9647352 A
1 A
9647353 AAATCATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 21 0.66
19 9 0.28
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
ATATTATTAATTAATAAA
Found at i:9660739 original size:40 final size:39
Alignment explanation
Indices: 9660702--9660884 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
9660692 GCTACTCGTT
* *
9660702 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GCTATAGTAACTCGCA
*
9660742 CAAATGCCTTCGGGACTTAACCCGGACT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-G-CTATAGTAACTCGCA
* **
9660782 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGCTA-TAGTAACTCGCA
* * * *
9660821 CAAATGCCTTC-GGATCTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGCTATAGTAAC-TCGCA
9660862 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
9660885 GACATCATTC
Statistics
Matches: 120, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.27
40 69 0.57
41 16 0.13
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGCTATAGTAACTCGCA
Found at i:9660870 original size:79 final size:80
Alignment explanation
Indices: 9660702--9660886 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 80
9660692 GCTACTCGTT
* * * *
9660702 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
*
9660766 GACTTAGTAACTCGCAC
64 GACTTAGTAACTAGCAC
* **
9660783 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCAG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
*
9660846 A-TATAGTCACTTAGCA-
65 ACT-TAGTAAC-TAGCAC
9660862 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
9660887 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
78 4 0.04
79 57 0.64
80 25 0.28
81 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
CTTAGTAACTAGCAC
Found at i:9664178 original size:42 final size:42
Alignment explanation
Indices: 9664125--9664244 Score: 179
Period size: 43 Copynumber: 2.8 Consensus size: 42
9664115 AGGGTTACTA
*
9664125 AGATTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGATTCCGTGTAAGACCATATCTGGGATATGGCATCGATATG
* *
9664167 AGACTT-CGTGTAAGACCATAGCTGGGCTATTGGCATCGATATG
1 AGA-TTCCGTGTAAGACCATATCTGGGATA-TGGCATCGATATG
*
9664210 AGATTCCATGTAAGACCATATCTGGGATATGGCAT
1 AGATTCCGTGTAAGACCATATCTGGGATATGGCAT
9664245 TGGTATGGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
42 32 0.46
43 38 0.54
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
AGATTCCGTGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:9667114 original size:20 final size:21
Alignment explanation
Indices: 9667067--9667130 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
9667057 AATATGCCAT
**
9667067 AAAGGCTAACATAATATCACA
1 AAAGGCTAACATAATGCCACA
9667088 AAAGGCTAACATAATGCCAC-
1 AAAGGCTAACATAATGCCACA
* * *
9667108 CAAGGCTAACAGAATGCTACA
1 AAAGGCTAACATAATGCCACA
9667129 AA
1 AA
9667131 TGCCCAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
20 17 0.47
21 19 0.53
ACGTcount: A:0.48, C:0.22, G:0.14, T:0.16
Consensus pattern (21 bp):
AAAGGCTAACATAATGCCACA
Found at i:9667808 original size:36 final size:36
Alignment explanation
Indices: 9667761--9667831 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
9667751 TTATATGAAC
9667761 TTGTATGAGTTGATATTAGAGACTCACTTGAGACTT
1 TTGTATGAGTTGATATTAGAGACTCACTTGAGACTT
9667797 TTGTATGAGTTGATATTAGAGACTCACTTGAGACT
1 TTGTATGAGTTGATATTAGAGACTCACTTGAGACT
9667832 GACTTTGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (36 bp):
TTGTATGAGTTGATATTAGAGACTCACTTGAGACTT
Found at i:9671347 original size:88 final size:83
Alignment explanation
Indices: 9671255--9671450 Score: 207
Period size: 88 Copynumber: 2.3 Consensus size: 83
9671245 TTGGTTATTT
* ** **
9671255 GAACTTTCAAAATACATCAAAAAGGTCTTCAAACTTTTTCAAAAA-AACAATTCGACCCTTGTTT
1 GAACTTTCAAAATACATCAAAAAGGTCCTCAAAC--TTT-AAAAATAA-AATTAAACCCTTAATT
*
9671319 TTTTTTGCAGGCAATTAGGTACTC
62 TTTTTT--ACGCAATTAGGTACTC
* * * *
9671343 GAACTTTCAAAATGCATTAAAAAAGCCCTCAAACTTTAAAAATAAAATTAAACCCTTAATTTTTT
1 GAACTTTCAAAATACATCAAAAAGGTCCTCAAACTTTAAAAATAAAATTAAACCCTTAATTTTTT
* *
9671408 TTACTCAATTAGGTACTT
66 TTACGCAATTAGGTACTC
*
9671426 GAACTGT-AAAATACATCAAAAAGGT
1 GAACTTTCAAAATACATCAAAAAGGT
9671451 TATTTAACCA
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
82 14 0.16
83 19 0.21
85 23 0.26
86 5 0.06
88 29 0.32
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (83 bp):
GAACTTTCAAAATACATCAAAAAGGTCCTCAAACTTTAAAAATAAAATTAAACCCTTAATTTTTT
TTACGCAATTAGGTACTC
Found at i:9671620 original size:19 final size:20
Alignment explanation
Indices: 9671565--9671625 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
9671555 AATTTTAAAA
* *
9671565 AATAAAAATCAATAAAA-GTT
1 AATAAAAAT-TATAAAATATT
* *
9671585 AATAAAAATTATTAAATTTT
1 AATAAAAATTATAAAATATT
9671605 AATAAAAATT-TAAAATATT
1 AATAAAAATTATAAAATATT
9671624 AA
1 AA
9671626 AAATTTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 14 0.40
20 21 0.60
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
AATAAAAATTATAAAATATT
Found at i:9672175 original size:88 final size:87
Alignment explanation
Indices: 9672063--9672313 Score: 274
Period size: 89 Copynumber: 2.8 Consensus size: 87
9672053 TAGGAGTGGT
* *
9672063 TCAAATACCCAATTGAATGCAAAAAAAAGCAAGGGCTTAATTGCTTTTTTGAAAAAGTTTAAGGG
1 TCAAATACCCAATTGAGTGAAAAAAAAAGCAAGGGCTTAATTGCTTTTTTGAAAAAGTTTAAGGG
* *
9672128 -CATTTTTAATGCATTTTGAAAA-T
66 TC-TTTTT-ATGCATTGT-AAAAGG
* * * * *
9672151 TTAAATACCCAATTGAGTGAAAAAAAAAAGC-AGGAACTTACTTGCTTTTTTAAAAAAGTTTGAG
1 TCAAATACCCAATTGAGTG-AAAAAAAAAGCAAGG-GCTTAATTGCTTTTTTGAAAAAGTTTAAG
9672215 GGTCTTTTTATGCATTGTAAAAGG
64 GGTCTTTTTATGCATTGTAAAAGG
* * ** * * *
9672239 TCAAATACCCAAGTGAGTAAAAAAAAGAAATAGGGGTTTAATTGCTTTTTTTGAAAAAGTTTAAA
1 TCAAATACCCAATTGAGTGAAAAAAA-AAGCAAGGGCTTAATTGC-TTTTTTGAAAAAGTTTAAG
9672304 GGTCTTTTTA
64 GGTCTTTTTA
9672314 CACTCTTAAA
Statistics
Matches: 135, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
87 11 0.08
88 53 0.39
89 70 0.52
90 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.33
Consensus pattern (87 bp):
TCAAATACCCAATTGAGTGAAAAAAAAAGCAAGGGCTTAATTGCTTTTTTGAAAAAGTTTAAGGG
TCTTTTTATGCATTGTAAAAGG
Found at i:9675491 original size:2 final size:2
Alignment explanation
Indices: 9675475--9675511 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
9675465 AACACCAAAC
9675475 AT AT AT A- AT AGT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A
9675512 AGTAAGATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9677290 original size:51 final size:52
Alignment explanation
Indices: 9677235--9677343 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
9677225 TGATACAAAT
9677235 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
* * *
9677286 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
9677338 TGATAA
1 TGATAA
9677344 GAATTCATGT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 31 0.57
52 23 0.43
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
Found at i:9677304 original size:26 final size:26
Alignment explanation
Indices: 9677235--9677343 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
9677225 TGATACAAAT
*
9677235 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9677261 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9677286 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9677312 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9677338 TGATAA
1 TGATAA
9677344 GAATTCATGT
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
25 25 0.31
26 56 0.69
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9678861 original size:25 final size:26
Alignment explanation
Indices: 9678820--9678871 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
9678810 TTTACAGTTT
9678820 TACCCCTAGGTGAAAATT-ACCGAAA
1 TACCCCTAGGTGAAAATTGACCGAAA
* *
9678845 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGTG-AAAATTGACCGAAA
9678871 T
1 T
9678872 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGTGAAAATTGACCGAAA
Found at i:9683022 original size:26 final size:26
Alignment explanation
Indices: 9682985--9683119 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
9682975 TGATACAAAT
*
9682985 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9683011 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9683036 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9683062 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9683088 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9683114 TGATAA
1 TGATAA
9683120 GAATTCATGT
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9683040 original size:51 final size:52
Alignment explanation
Indices: 9682985--9683119 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
9682975 TGATACAAAT
9682985 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
9683036 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
* *
9683088 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
9683120 GAATTCATGT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
51 47 0.58
52 34 0.42
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:9684627 original size:26 final size:26
Alignment explanation
Indices: 9684598--9684650 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9684588 TTTACAGTTT
9684598 TACCCCTAGGTGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
9684624 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
9684650 T
1 T
9684651 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:9688895 original size:132 final size:132
Alignment explanation
Indices: 9688645--9689034 Score: 475
Period size: 132 Copynumber: 3.0 Consensus size: 132
9688635 ATTATTCGTT
*
9688645 TAAAAAT-TCTTTAAAACGAAGGCGACATT-TGATATTTGGCAATTCGCGGAATCGTGCCCTAAC
1 TAAAAATCTCTTTAAAACGAAGGCGATATTCT-ATATTTGGCAATTCGCGGAATCGTGCCCTAAC
* * * * * *
9688708 GTGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCTAATATCCCTTCAAAATTTCACTCATGT
65 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGAT-CCTTTAGAATTTCACTCATGT
9688773 CTTC
129 CTTC
*
9688777 TAAAAATCT-TTTAAAACGAAGGCGATGTTCTATATTTGGCAATTCGCGGAATCGTGCCCTAACG
1 TAAAAATCTCTTTAAAACGAAGGCGATATTCTATATTTGGCAATTCGCGGAATCGTGCCCTAACG
* * * * *
9688841 TGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCTTTTTGAATTTCACTTATGTT
66 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGATCC-TTTAGAATTTCACTCATGTC
9688906 TTC
130 TTC
* * ** * * * *
9688909 TAAAAA-CTCTTCAAAACAAAGGTAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACCG
1 TAAAAATCTCTTTAAAACGAAGGCGATATTCTATATTTGGCAATTCGCGGAATCGTGCCCTAACG
* * * *
9688973 TGCTGGATTGCGATTTC-CTGTTTGTCCAAAATGATCGAAGATTCCTTTAGAATTTCACTCAT
66 TGCTGGGTTGCAATTTCTC-GTTTGTTCAAAATAATCGAAGA-TCCTTTAGAATTTCACTCAT
9689035 ACTTTCTAAA
Statistics
Matches: 222, Mismatches: 30, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
131 5 0.02
132 212 0.95
133 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (132 bp):
TAAAAATCTCTTTAAAACGAAGGCGATATTCTATATTTGGCAATTCGCGGAATCGTGCCCTAACG
TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGATCCTTTAGAATTTCACTCATGTCT
TC
Found at i:9691897 original size:21 final size:20
Alignment explanation
Indices: 9691871--9691909 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9691861 TGTATTTTTG
9691871 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
9691892 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
9691910 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:9693195 original size:16 final size:16
Alignment explanation
Indices: 9693174--9693204 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9693164 GATATTTTAA
9693174 TATATTATATTAATAT
1 TATATTATATTAATAT
*
9693190 TATATTATGTTAATA
1 TATATTATATTAATA
9693205 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:9693301 original size:12 final size:12
Alignment explanation
Indices: 9693284--9693314 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9693274 GAAGCAGGGG
9693284 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
9693296 AGAAAAAGGGAA
1 AGAAAAAGAGAA
9693308 AGAAAAA
1 AGAAAAA
9693315 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Done.