Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 47 of 172
Found at i:12529189 original size:21 final size:21
Alignment explanation
Indices: 12529160--12529213 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
12529150 TTGAAGTTTG
*
12529160 GTGTTGTGACACCACTTCCCA
1 GTGTCGTGACACCACTTCCCA
12529181 GTGTCGTGACACCACTTCCCA
1 GTGTCGTGACACCACTTCCCA
12529202 GTGTCGTGACAC
1 GTGTCGTGACAC
12529214 TGCAATCGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (21 bp):
GTGTCGTGACACCACTTCCCA
Found at i:12532754 original size:19 final size:19
Alignment explanation
Indices: 12532721--12532760 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
12532711 TCTAAAAATC
*
12532721 AATAAATAATATTTTGGAA
1 AATAAATAATATTTTAGAA
12532740 AATAAA-AATATTTTTAGAA
1 AATAAATAATA-TTTTAGAA
12532759 AA
1 AA
12532761 ATTAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
AATAAATAATATTTTAGAA
Found at i:12539199 original size:25 final size:26
Alignment explanation
Indices: 12539157--12539220 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
12539147 AAAATTGAAC
**
12539157 TAAATAAAAAAAAGTTATATTAGTAT
1 TAAATAAAAAAAAGTTATATTAAAAT
*
12539183 TAAATAAAAATAA-TTATATTAAAAT
1 TAAATAAAAAAAAGTTATATTAAAAT
12539208 TAAATAAAAAAAA
1 TAAATAAAAAAAA
12539221 CCTCCTACGC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 22 0.65
26 12 0.35
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAAAAGTTATATTAAAAT
Found at i:12539617 original size:22 final size:21
Alignment explanation
Indices: 12539592--12539632 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12539582 TATAAATATA
12539592 AATATAAATATTTTTATTTATT
1 AATA-AAATATTTTTATTTATT
* *
12539614 AATAGAATTTTTTTATTTA
1 AATAAAATATTTTTATTTA
12539633 ATTAGATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
AATAAAATATTTTTATTTATT
Found at i:12539641 original size:18 final size:18
Alignment explanation
Indices: 12539603--12539643 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
12539593 ATATAAATAT
12539603 TTTTATTTATTAATAGAA
1 TTTTATTTATTAATAGAA
12539621 TTTT-TTTATTTAATTAG-A
1 TTTTATTTA-TTAA-TAGAA
12539639 TTTTA
1 TTTTA
12539644 ATGGTGTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 4 0.20
18 13 0.65
19 3 0.15
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTATTTATTAATAGAA
Found at i:12540692 original size:16 final size:16
Alignment explanation
Indices: 12540671--12540704 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
12540661 GCAAATGGCT
12540671 TTGTATTTTAACAAAA
1 TTGTATTTTAACAAAA
12540687 TTGTATTTTAACAAAA
1 TTGTATTTTAACAAAA
12540703 TT
1 TT
12540705 CTTTTAGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
TTGTATTTTAACAAAA
Found at i:12544282 original size:109 final size:105
Alignment explanation
Indices: 12544081--12544294 Score: 277
Period size: 109 Copynumber: 2.0 Consensus size: 105
12544071 TTTTAAAACA
* * ***
12544081 AGGTCCAATTCCAAAACTTATCCCTCTTTTATGAAAATTGTTTAGTTGATCCCTCTATTGTCTTT
1 AGGTCCAATTACAAAACTTATCCCTCTTTCATGAAAATTGAGAAGTTGATCCCTCTATTGTCTTT
*
12544146 TTTACTAAATGCTCTAATTACAAAATTTATCCCTTTACTT
66 TTTACTAAATGCTCTAATTACAAAATTTATCCCTCTACTT
* * *
12544186 AGGTCCAATTATAAATA-TTATCCCTCTACTTCATGAAAATTGAGAAGTTGATCCCTTTATTGTT
1 AGGTCCAATTACAAA-ACTTATCCCTCT--TTCATGAAAATTGAGAAGTTGATCCCTCTATTGTC
* *
12544250 TTGGTTTTACTAAATGTTCTAATTCCAAAATTTATCCCTCTACTT
63 TT--TTTTACTAAATGCTCTAATTACAAAATTTATCCCTCTACTT
12544295 TATGAAAATT
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
105 23 0.25
106 1 0.01
107 31 0.33
109 38 0.41
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (105 bp):
AGGTCCAATTACAAAACTTATCCCTCTTTCATGAAAATTGAGAAGTTGATCCCTCTATTGTCTTT
TTTACTAAATGCTCTAATTACAAAATTTATCCCTCTACTT
Found at i:12544318 original size:109 final size:107
Alignment explanation
Indices: 12544124--12544319 Score: 243
Period size: 109 Copynumber: 1.8 Consensus size: 107
12544114 AAAATTGTTT
*
12544124 AGTTGATCCCTCTATTGTCTTTTTTACTAAATGCTCTAATTACAAAATTTATCCCTTTACTTAGG
1 AGTTGATCCCTCTATTGTCTTTTTTACTAAATGCTCTAATTACAAAATTTATCCCTCTACTTAGG
** * *
12544189 TCCAATTATAAATATTATCCCTCTACTTCATGAAAATTGAGA
66 TAAAATTAGAAATATAATCCCTCTACTTCATGAAAATTGAGA
* * * *
12544231 AGTTGATCCCTTTATTGTTTTGGTTTTACTAAATGTTCTAATTCCAAAATTTATCCCTCTACTTT
1 AGTTGATCCCTCTATTGTCTT--TTTTACTAAATGCTCTAATTACAAAATTTATCCCTCTAC-TT
* *
12544296 ATG-AAAATTGAGAAGT-TAATCCCT
63 AGGTAAAATT-AGAAATATAATCCCT
12544320 TTATTGTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
107 19 0.26
109 47 0.64
110 8 0.11
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (107 bp):
AGTTGATCCCTCTATTGTCTTTTTTACTAAATGCTCTAATTACAAAATTTATCCCTCTACTTAGG
TAAAATTAGAAATATAATCCCTCTACTTCATGAAAATTGAGA
Found at i:12544335 original size:78 final size:77
Alignment explanation
Indices: 12544198--12544421 Score: 351
Period size: 78 Copynumber: 2.9 Consensus size: 77
12544188 GTCCAATTAT
* *
12544198 AAATATTATCCCTCTACTTCATGAAAATTGAGAAGTTGATCCCTTTATTGTTTTGGTTTTACTAA
1 AAAT-TTATCCCTCTACTTTATGAAAATTGAGAAGTT-ATCCCTTTATTGTTTTTGTTTTACTAA
12544263 ATGTTCTAATTCCA
64 ATGTTCTAATTCCA
*
12544277 AAATTTATCCCTCTACTTTATGAAAATTGAGAAGTTAATCCCTTTATTGTTTTTGTTTTACTGAA
1 AAATTTATCCCTCTACTTTATGAAAATTGAGAAGTT-ATCCCTTTATTGTTTTTGTTTTACTAAA
12544342 TGTTCTAATTCCA
65 TGTTCTAATTCCA
* *
12544355 AAATTTATCCCTCTACTTTATGAAAATTGAGAAGTTAGCCTCTTTATTGTTTTT-TTTAAACTAA
1 AAATTTATCCCTCTACTTTATGAAAATTGAGAAGTTATCC-CTTTATTGTTTTTGTTT-TACTAA
12544419 ATG
64 ATG
12544422 CTCAAGTTGT
Statistics
Matches: 136, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
77 6 0.04
78 126 0.93
79 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (77 bp):
AAATTTATCCCTCTACTTTATGAAAATTGAGAAGTTATCCCTTTATTGTTTTTGTTTTACTAAAT
GTTCTAATTCCA
Found at i:12544589 original size:111 final size:112
Alignment explanation
Indices: 12544353--12544750 Score: 541
Period size: 111 Copynumber: 3.5 Consensus size: 112
12544343 GTTCTAATTC
* * ** *
12544353 CAAAATTTATCCCTCTACTTTATGAAAATTGAGAAGTT-AGCCTCTTTATTGTTTTTTTTAAACT
1 CAAAATTGATCCCTCTACTTTATGAAAATTGAAAAGTTAATAC-CTATATTG-TTTTTTT--ACT
* *
12544417 AAATGCTCAAGTTGTTATTTCTCCTTTTTCTTCCAAAACAATGTCTAACTA
62 AAATGCTCAAGTTGTTATTTCTCCTTTTTTTTTCAAAACAATGTCTAACTA
*
12544468 CAAAATTGGTCCCTCTACTTTATGAAAATTGAAAAGTTAATACCTATATTGTTTTTTTACTAAA-
1 CAAAATTGATCCCTCTACTTTATGAAAATTGAAAAGTTAATACCTATATTGTTTTTTTACTAAAT
*
12544532 GCTCAAGTTGTTGTTTCTCCTTTTTTTTTCAAAACAATGTCTAACTA
66 GCTCAAGTTGTTATTTCTCCTTTTTTTTTCAAAACAATGTCTAACTA
* *
12544579 CAAAATTGGTCCCTCTACTTTATGAAAATTGAAAAGTTAGTACCTATATTGTTTTTTTACTAAAT
1 CAAAATTGATCCCTCTACTTTATGAAAATTGAAAAGTTAATACCTATATTGTTTTTTTACTAAAT
* **
12544644 GTTCAAGTTGTTATTTCT-CTTCTTCTTTTTCAAAACAATGTCTAAGAA
66 GCTCAAGTTGTTATTTCTCCTT-TT-TTTTTCAAAACAATGTCTAACTA
* * * * *
12544692 CATAATCGATCCCTCTACTTTATGAAAATTGAGAAGTTAATACTTCTATTGTGTTTTTT
1 CAAAATTGATCCCTCTACTTTATGAAAATTGAAAAGTTAATACCTATATTGT-TTTTTT
12544751 TTTACTAAAT
Statistics
Matches: 257, Mismatches: 21, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
111 110 0.43
112 24 0.09
113 66 0.26
114 13 0.05
115 42 0.16
116 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.43
Consensus pattern (112 bp):
CAAAATTGATCCCTCTACTTTATGAAAATTGAAAAGTTAATACCTATATTGTTTTTTTACTAAAT
GCTCAAGTTGTTATTTCTCCTTTTTTTTTCAAAACAATGTCTAACTA
Found at i:12548356 original size:3 final size:3
Alignment explanation
Indices: 12548350--12548381 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12548340 TTTAAAAAAA
12548350 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
12548382 GCGTAAGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:12558158 original size:85 final size:85
Alignment explanation
Indices: 12558057--12558466 Score: 296
Period size: 85 Copynumber: 4.8 Consensus size: 85
12558047 AAAATAATAG
**
12558057 ATCTTATCTCTTTGAAGTTGCAG-AGAGCAGATCACAACTAGTCTTATCCCCTTGAAGTTGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCACAACTAGTCTTATCCCC-TGAAGTTGCAGT
12558121 GGGGCAGACTGAAGATGGCGA
65 GGGGCAGACTGAAGATGGCGA
* * * * * *
12558142 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTA-AAGCCAATCCTATCTCCCTGAAGTTGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCACAA-CTAGTCTTATC-CCCTGAAGTTGCAG
** * * * * *
12558206 CAGAGCGGA-TTAAAATGAC-A
64 TGGGGCAGACTGAAGATGGCGA
** * * * *
12558226 GATCTTATCTTTCTGAAGTTGCAG-AGAACAGATCGCAACTAGTCTTATCCCCCTAAAGTTACAG
1 -ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCACAACTAGTCTTAT-CCCCTGAAGTTGCAG
* *
12558290 TGAGGTAGACTGAAGATGGCGA
64 TGGGGCAGACTGAAGATGGCGA
* * * *
12558312 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGCCAATAATCCTATCTCCCTGAAGTTG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCACAA--C--TAGTCTTATC-CCCTGAAGTTG
* * ** * * *
12558376 CAGCGGAGTGGA-TTAAAATGAC-A
61 CAGTGGGGCAGACTGAAGATGGCGA
* * * * * *
12558399 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGTAG
1 -ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCACAACTAGTCTTATC-CCCTGAAGTTGCAG
12558464 TGG
64 TGG
12558467 AACAGACAGA
Statistics
Matches: 245, Mismatches: 64, Indels: 32
0.72 0.19 0.09
Matches are distributed among these distances:
84 30 0.12
85 104 0.42
86 41 0.17
87 6 0.02
88 39 0.16
89 25 0.10
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (85 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCACAACTAGTCTTATCCCCTGAAGTTGCAGTG
GGGCAGACTGAAGATGGCGA
Found at i:12558231 original size:170 final size:169
Alignment explanation
Indices: 12557970--12558521 Score: 714
Period size: 170 Copynumber: 3.2 Consensus size: 169
12557960 AGATAACAGG
* * * *
12557970 TCTTATCCCCCTGAAGTTGCAATGGGGCAGACTGATTAAAGCCAA-CCTATCTCCCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGC-A-GTGG-AG-CAGATTAAAGCCAATCCTATCTCCCTGAAGTTGC
* * *
12558034 AGCGGAGCGGATTAAAATAATAGATCTTATCTCTTTGAAGTTGCAGAGAGCAGATCACAACTAGT
62 AGCGGAGCGGATTAAAATGACAGATCTTATCTCTTTGAAGTTGCAGAGAGCAGATCGCAACTAGT
*
12558099 CTTATCCCCTTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAA
127 CTTATCCCC-TAAAGTTGCAGTGGGGCAGACTGAAGATGGCGAA
* *
12558143 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATCCTATCTCCCTGAAGTTGCAGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATCCTATCTCCCTGAAGTTGCAGCG
*
12558208 GAGCGGATTAAAATGACAGATCTTATCT-TTCTGAAGTTGCAGAGAACAGATCGCAACTAGTCTT
66 GAGCGGATTAAAATGACAGATCTTATCTCTT-TGAAGTTGCAGAGAGCAGATCGCAACTAGTCTT
* * *
12558272 ATCCCCCTAAAGTTACAGTGAGGTAGACTGAAGATGGCGAA
130 AT-CCCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCGAA
12558313 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC---AATCCTATCTCCCTGAAGTTGCA
* * * *
12558378 GCGGAGTGGATTAAAATGACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGT
63 GCGGAGCGGATTAAAATGACAGATCTTATCTCTTTGAAGTTGCAG-AGAGCAGATCGCAACTAGT
* ** * ** *
12558443 CTTATCTCCCTAAAGTTGTAGTGGAACAGACAGAAGA-AACCAA
127 CTTATC-CCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCGAA
* * * *
12558486 TCCTATCTCCTTAAAGTTGCAGTGGAGCGGATTAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
12558522 ATTGCAGATC
Statistics
Matches: 335, Mismatches: 35, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
169 15 0.04
170 150 0.45
171 7 0.02
172 1 0.00
173 117 0.35
174 45 0.13
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (169 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATCCTATCTCCCTGAAGTTGCAGCG
GAGCGGATTAAAATGACAGATCTTATCTCTTTGAAGTTGCAGAGAGCAGATCGCAACTAGTCTTA
TCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCGAA
Found at i:12558369 original size:44 final size:44
Alignment explanation
Indices: 12558311--12558560 Score: 140
Period size: 44 Copynumber: 5.8 Consensus size: 44
12558301 GAAGATGGCG
*
12558311 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAA-GCCAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGAC-A
* * **
12558354 TAATCCTATCTCCCTGAAGTTGCAGCGGAGTGGATTAAAATGACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGACA
* * * *** *
12558399 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCAT--CC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGACA
* * * * * * *
12558440 AGTCTTATCTCCCTAAAGTTGTAGTGGAACAGA-CAGAAGA-AACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AA-ATGACA
* * * *
12558484 AATCCTATCTCCTTAAAGTTGCAGTGGAGCGGATTAAAATTG-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-TGACA
* ** * *
12558528 GATCTTATCTCTATGAA-TTGCAATAGAGCAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
12558561 CGCATCAAAC
Statistics
Matches: 153, Mismatches: 44, Indels: 19
0.71 0.20 0.09
Matches are distributed among these distances:
41 27 0.18
43 18 0.12
44 101 0.66
45 5 0.03
46 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGACA
Found at i:12558446 original size:129 final size:128
Alignment explanation
Indices: 12558313--12558566 Score: 343
Period size: 129 Copynumber: 2.0 Consensus size: 128
12558303 AGATGGCGAA
* * * * * *
12558313 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGCCAA-TAATCCTATCTCCCTGAAGTTG
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGA-CAGAAG-AAACCAATCCTATCTCCCTAAAGTTG
* * *
12558376 CAGCGGAGTGGATTAAAA-TGACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC
64 CAGCGGAGCGGATTAAAATTG-CAGATCTTATCTCTATGAA-TTGCAATAGAGCAGATCGCATCC
12558440 AG
127 AG
* *
12558442 TCTTATCTCCCTAAAGTTGTAGTGGAACAGACAGAAGAAACCAATCCTATCTCCTTAAAGTTGCA
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCA
*
12558507 GTGGAGCGGATTAAAATTGCAGATCTTATCTCTATGAATTGCAATAGAGCAGATCGCATC
66 GCGGAGCGGATTAAAATTGCAGATCTTATCTCTATGAATTGCAATAGAGCAGATCGCATC
12558567 AAACCTCAGT
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
128 24 0.22
129 84 0.76
130 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (128 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAACAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCA
GCGGAGCGGATTAAAATTGCAGATCTTATCTCTATGAATTGCAATAGAGCAGATCGCATCCAG
Found at i:12561281 original size:104 final size:104
Alignment explanation
Indices: 12561159--12561382 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
12561149 AATGGATATC
12561159 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
12561224 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
12561263 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
12561328 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
12561367 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
12561383 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:12568370 original size:26 final size:26
Alignment explanation
Indices: 12568340--12568390 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
12568330 ACCAATGAAC
*
12568340 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
12568366 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
12568391 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:12568430 original size:103 final size:104
Alignment explanation
Indices: 12568246--12568468 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
12568236 AATGGATATC
12568246 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
12568311 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
12568350 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
12568414 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
12568453 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
12568469 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 94 0.84
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:12575674 original size:28 final size:28
Alignment explanation
Indices: 12575617--12575678 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
12575607 TGGACAAACA
*
12575617 AAGACATGAATTTAATATGTAATATACT
1 AAGACATGAATTTAATATGTAACATACT
* *
12575645 AAGACATG-ATTTAAATATGTAGCATGCT
1 AAGACATGAATTT-AATATGTAACATACT
12575673 AAGACA
1 AAGACA
12575679 AAATAATGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.31
Consensus pattern (28 bp):
AAGACATGAATTTAATATGTAACATACT
Found at i:12577794 original size:13 final size:13
Alignment explanation
Indices: 12577776--12577807 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12577766 AAGTCAGATA
12577776 AAATAATTAAAAT
1 AAATAATTAAAAT
*
12577789 AAATAATTAAGAT
1 AAATAATTAAAAT
12577802 AAATAA
1 AAATAA
12577808 AATAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (13 bp):
AAATAATTAAAAT
Found at i:12591643 original size:4 final size:4
Alignment explanation
Indices: 12591634--12591658 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12591624 TTTTCGAACT
12591634 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
12591659 ACTTTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:12603198 original size:20 final size:21
Alignment explanation
Indices: 12603173--12603228 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
12603163 AGAACCCCGT
12603173 GGTATTAATATTTTT-AAAAA
1 GGTATTAATATTTTTAAAAAA
*
12603193 GGTATTGATATTTTTAAAAAA
1 GGTATTAATATTTTTAAAAAA
* *
12603214 AGTATCAATATTTTT
1 GGTATTAATATTTTT
12603229 TAGTTGGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (21 bp):
GGTATTAATATTTTTAAAAAA
Found at i:12609475 original size:29 final size:29
Alignment explanation
Indices: 12609442--12609509 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
12609432 ATCGATTAAT
12609442 GAAAAGGGATAGCTTCAACTATCGAATAG
1 GAAAAGGGATAGCTTCAACTATCGAATAG
* * ** * *
12609471 GAAAAAGGATAGTTTTGACTATCGATTAT
1 GAAAAGGGATAGCTTCAACTATCGAATAG
12609500 GAAAAGGGAT
1 GAAAAGGGAT
12609510 GGTGATGACA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (29 bp):
GAAAAGGGATAGCTTCAACTATCGAATAG
Found at i:12609518 original size:29 final size:29
Alignment explanation
Indices: 12609497--12609657 Score: 159
Period size: 29 Copynumber: 5.6 Consensus size: 29
12609487 GACTATCGAT
*
12609497 TATGAAAAGGGATGGTGATGACAATCAAA
1 TATGAAAAGGGATGGTGATGACCATCAAA
*
12609526 TATAAAAAGGGATGGTGATGACCAT-AGAA
1 TATGAAAAGGGATGGTGATGACCATCA-AA
* * *** *
12609555 TA-GAAAAGGTATAGCT--TCGGTTATCAAT
1 TATGAAAAGGGAT-GGTGAT-GACCATCAAA
*
12609583 TATGAAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGATGACCATCAAA
* *
12609612 TATGAAAAGGGATGGTGACGACCATCAAT
1 TATGAAAAGGGATGGTGATGACCATCAAA
12609641 TAATGAAAAGGGATGGT
1 T-ATGAAAAGGGATGGT
12609658 TTCGACCATT
Statistics
Matches: 107, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
27 1 0.01
28 17 0.16
29 73 0.68
30 16 0.15
ACGTcount: A:0.40, C:0.09, G:0.27, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGATGACCATCAAA
Found at i:12609561 original size:57 final size:58
Alignment explanation
Indices: 12609497--12609657 Score: 168
Period size: 57 Copynumber: 2.8 Consensus size: 58
12609487 GACTATCGAT
* *
12609497 TATGAAAAGGGATGGTGATGACAATCAAATATAAAAAGGGATGGTGATGACCAT-AGAA
1 TATGAAAAGGGATGGTGATGACAATCAATTATGAAAAGGGATGGTGATGACCATCA-AA
* * *** *
12609555 TA-GAAAAGGTATAGCT--TCGGTTATCAATTATGAAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGAT-GGTGAT-GACAATCAATTATGAAAAGGGATGGTGATGACCATCAAA
* *
12609612 TATGAAAAGGGATGGTGACGACCATCAATTAATGAAAAGGGATGGT
1 TATGAAAAGGGATGGTGATGACAATCAATT-ATGAAAAGGGATGGT
12609658 TTCGACCATT
Statistics
Matches: 82, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
56 1 0.01
57 44 0.54
58 22 0.27
59 15 0.18
ACGTcount: A:0.40, C:0.09, G:0.27, T:0.23
Consensus pattern (58 bp):
TATGAAAAGGGATGGTGATGACAATCAATTATGAAAAGGGATGGTGATGACCATCAAA
Found at i:12611658 original size:16 final size:16
Alignment explanation
Indices: 12611620--12611659 Score: 66
Period size: 14 Copynumber: 2.6 Consensus size: 16
12611610 AATTTAATCT
12611620 CACAAAGTAATTCCTA
1 CACAAAGTAATTCCTA
12611636 CAC--AGTAATTCCTA
1 CACAAAGTAATTCCTA
12611650 CACAAAGTAA
1 CACAAAGTAA
12611660 GACTCCGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 14 0.64
16 8 0.36
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.23
Consensus pattern (16 bp):
CACAAAGTAATTCCTA
Found at i:12613955 original size:51 final size:50
Alignment explanation
Indices: 12613778--12614210 Score: 428
Period size: 51 Copynumber: 8.5 Consensus size: 50
12613768 TTCGATACAT
* * * *
12613778 GTAGTAGCCTTCACATAGTACTATACACGTGATCAAG-TTTTACAGTTCAT
1 GTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTT-CGGTTCAC
*
12613828 GTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TTTTACGGTTCAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTT-CGGTTCAC
*
12613878 GTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTTTTCGGTTCAC
* * * * *
12613929 ATAGTAGCCTTCA-ATTAGTACTACACATGTAACC-ATCATTTATCGATTCAC
1 GTAGTAGCCTTCACA-TAGTACTACACACGTGACCAAGC-TTT-TCGGTTCAC
* * * * *
12613980 GTAGTAGCCTTCACACAGTACTATACACGTGACCAAATCTTCTCGGTACAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTTTTCGGTTCAC
* * * * * *
12614031 ATTGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCGATTCAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TTT-TCGGTTCAC
* * *
12614082 GTAGTAGCCTTCACATAGTACTACACACGTGACAAAAGCTTCTCGGTACAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAGCTTTTCGGTTCAC
* * * * * *
12614133 ATTGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCGATTCAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TTT-TCGGTTCAC
*
12614184 GTAGTAGCCTTCACATAGTACAACACA
1 GTAGTAGCCTTCACATAGTACTACACA
12614211 AGTGTTCATC
Statistics
Matches: 319, Mismatches: 50, Indels: 27
0.81 0.13 0.07
Matches are distributed among these distances:
49 7 0.02
50 88 0.28
51 210 0.66
52 9 0.03
53 5 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (50 bp):
GTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTTCGGTTCAC
Found at i:12614000 original size:102 final size:102
Alignment explanation
Indices: 12613769--12614210 Score: 604
Period size: 102 Copynumber: 4.4 Consensus size: 102
12613759 CTTTTATCAT
* * * * * * * **
12613769 TCGATACATGTAGTAGCCTTCACATAGTACTATACACGTGATC-AAG-TTTTACAGTTCATGTAG
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATAG
* * ***
12613832 TAGCCTTCACA-TAGTACTACACACGTGATCAAGTTTTA
65 TAGCCTTCA-ATTAGTACTACACATGTGACCATCATTTA
* *
12613870 -CGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGT
*
12613934 AGCCTTCAATTAGTACTACACATGTAACCATCATTTA
66 AGCCTTCAATTAGTACTACACATGTGACCATCATTTA
* * * *
12613971 TCGATTCACGTAGTAGCCTTCACACAGTACTATACACGTGACCAAATCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGT
*
12614036 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCAATTAGTACTACACATGTGACCATCATTTA
* *
12614073 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACAAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGT
*
12614138 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCAATTAGTACTACACATGTGACCATCATTTA
*
12614175 TCGATTCACGTAGTAGCCTTCACATAGTACAACACA
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACA
12614211 AGTGTTCATC
Statistics
Matches: 309, Mismatches: 28, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
100 38 0.12
101 41 0.13
102 230 0.74
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGT
AGCCTTCAATTAGTACTACACATGTGACCATCATTTA
Found at i:12617194 original size:42 final size:42
Alignment explanation
Indices: 12617111--12617197 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
12617101 CTTCATTTTC
* **
12617111 TCAATGCCATAGTCCAACTATGGTCTTACACATATTTACATA
1 TCAATGCCATAGCCCAACTATGGTCTTACACATATGCACATA
*
12617153 TCAATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATA
1 TCAATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATA
12617195 TCA
1 TCA
12617198 CACTGATGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (42 bp):
TCAATGCCATAGCCCAACTATGGTCTTACACATATGCACATA
Found at i:12623381 original size:51 final size:50
Alignment explanation
Indices: 12623201--12623432 Score: 304
Period size: 50 Copynumber: 4.6 Consensus size: 50
12623191 TCATTCGATA
* * *
12623201 CACGCAGTAGCCTTCACATAGTACTACACACGTTATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
*
12623251 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
*
12623301 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGGTT
* * * *** **
12623352 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTA-CGGTT
*
12623403 CACGTAGTAGCCTTCACACAGTACTACACA
1 CACGTAGTAGCCTTCACATAGTACTACACA
12623433 AGTGTTCATC
Statistics
Matches: 162, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
49 3 0.02
50 85 0.52
51 70 0.43
52 4 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
Found at i:12625648 original size:22 final size:22
Alignment explanation
Indices: 12625620--12625664 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
12625610 ATGGTCAATA
12625620 AATATGCGACATTAGTAAACTT
1 AATATGCGACATTAGTAAACTT
12625642 AATATGCGACATTAGTAAACTT
1 AATATGCGACATTAGTAAACTT
12625664 A
1 A
12625665 CTCATTTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (22 bp):
AATATGCGACATTAGTAAACTT
Found at i:12639891 original size:6 final size:6
Alignment explanation
Indices: 12639873--12639908 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
12639863 GCAAATGAAT
*
12639873 CATTTC TCATTTC CATTTC TATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTTC CATTT
12639909 TGAGCAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (6 bp):
CATTTC
Found at i:12641001 original size:30 final size:30
Alignment explanation
Indices: 12640956--12641028 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
12640946 TAGACAACCA
12640956 ATGAATAACATTTGCTTCCATTAATGTAATTC
1 ATGAAT-A-ATTTGCTTCCATTAATGTAATTC
12640988 ATGAATAATTTGCTTCCATTAATGTAATTC
1 ATGAATAATTTGCTTCCATTAATGTAATTC
*
12641018 TTGAATAATTT
1 ATGAATAATTT
12641029 TATTAACTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 33 0.82
31 1 0.03
32 6 0.15
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (30 bp):
ATGAATAATTTGCTTCCATTAATGTAATTC
Found at i:12644642 original size:24 final size:25
Alignment explanation
Indices: 12644599--12644646 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
12644589 ATAGAATTTT
12644599 AATTTTAGGATATATATTATTTTAA
1 AATTTTAGGATATATATTATTTTAA
* *
12644624 AATTTTAGTA-ATATGTTATTTTA
1 AATTTTAGGATATATATTATTTTA
12644647 GTAATCTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (25 bp):
AATTTTAGGATATATATTATTTTAA
Found at i:12645194 original size:19 final size:18
Alignment explanation
Indices: 12645166--12645231 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 18
12645156 ACATGATTTT
*
12645166 TTATATAATTATAAAAAA
1 TTATAAAATTATAAAAAA
*
12645184 TGTATAAAATTACTCAAAAA
1 T-TATAAAATTA-TAAAAAA
*
12645204 TTATTAAAAATTATAAGAAA
1 TTA-T-AAAATTATAAAAAA
12645224 TTAATAAA
1 TT-ATAAA
12645232 TTAATTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.03
19 14 0.36
20 16 0.41
21 8 0.21
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (18 bp):
TTATAAAATTATAAAAAA
Found at i:12645495 original size:21 final size:20
Alignment explanation
Indices: 12645459--12645503 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
12645449 TGTCTACTGC
*
12645459 AATATGTACCAATTTGAGA-A
1 AATATGTACAAATTTG-GACA
12645479 AATATGTTACAAATTTGGACA
1 AATATG-TACAAATTTGGACA
12645500 AATA
1 AATA
12645504 AATAAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (20 bp):
AATATGTACAAATTTGGACA
Found at i:12645863 original size:3 final size:3
Alignment explanation
Indices: 12645855--12645903 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
12645845 CTTGATTCTT
12645855 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
12645903 T
1 T
12645904 CTATCCAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12648976 original size:40 final size:40
Alignment explanation
Indices: 12648919--12649108 Score: 240
Period size: 40 Copynumber: 4.8 Consensus size: 40
12648909 ATTTGAATAC
* * * *
12648919 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGA-TAT
*
12648959 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
*
12648999 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
* * * *
12649039 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
* *
12649079 A-CTCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATC-CGGGCTAAGACCCGAAGGCATTTGTGC
12649109 TTGTGGTTAT
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 132 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
Found at i:12649052 original size:80 final size:80
Alignment explanation
Indices: 12648919--12649128 Score: 273
Period size: 80 Copynumber: 2.6 Consensus size: 80
12648909 ATTTGAATAC
* * * *
12648919 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATT
*
12648984 TGTGCAAGTTGATAT
66 CGTGCAAGTTGATAT
12648999 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGA-TATATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCAT
* *
12649063 TCGTGCGAGTTGCTAT
65 TCGTGCAAGTTGATAT
* * ** *
12649079 A-CTCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATC-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
12649129 ATTCCGAAGA
Statistics
Matches: 115, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
79 9 0.08
80 103 0.90
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTGATAT
Found at i:12651179 original size:267 final size:269
Alignment explanation
Indices: 12650702--12651233 Score: 926
Period size: 267 Copynumber: 2.0 Consensus size: 269
12650692 TAGTGGCATA
*
12650702 CCAACATCAGTTTTTAAAGTACAACCATTTAAGGAAGACGTTTGACTGTGTCAAAGCATGCGACT
1 CCAACATCAGTCTTTAAAGTACAACCATTTAAGGAAGACGTTTGACTGTGTCAAAGCATGCGACT
* *
12650767 CACGATGTTGGAACAATGATGATCTCAAGTTTAAGCATCATACGTACAATTATCACTATGAGAAA
66 CACGATGTTGGAACAATGATGATATCAAGTTTAAGCATCATACATACAATTATCACTATGAGAAA
* *
12650832 TGTTATGACTATTACATAATAATCCAATAAGCATTCTCAAGGTGGATTAGTCCAGTCTATTGTTC
131 TGTTATGACTATTACATAATAATCCAATAAGCATTCTCAAGGTGGATCAGTCCAATCTATTGTTC
*
12650897 TTTAACATATACTTGTGTTGACTTGATATCACATAT-CTGTAACAACTCTTGTCACCAATCTAGC
196 TTTAACATATACTTGTGTTGACTTGATATCACATATAC-GTAACAACTCTTGTCACCAATCAAGC
12650961 ACATATGCAC
260 ACATATGCAC
* *
12650971 CCAACATCAGTCTTTAAAGTACAACCATTTAAGGAAGACGTTTGATTGTGTCAAAGCATGTGACT
1 CCAACATCAGTCTTTAAAGTACAACCATTTAAGGAAGACGTTTGACTGTGTCAAAGCATGCGACT
12651036 CACGATGTTGG-A-AATGATGATATCAAGTTTAAGCATCATACATACAATTATCACTATGAGAAA
66 CACGATGTTGGAACAATGATGATATCAAGTTTAAGCATCATACATACAATTATCACTATGAGAAA
* * * *
12651099 TGTTGTGACTATTACATAATAATCCAATAAGCATTCTCATGGTGGATCAGTCCAATTTATTTTTC
131 TGTTATGACTATTACATAATAATCCAATAAGCATTCTCAAGGTGGATCAGTCCAATCTATTGTTC
12651164 TTTAACATATACTTGTGTTGACTTGATATCACATATACGTAACAACTCTTGTCACCAATCAAGCA
196 TTTAACATATACTTGTGTTGACTTGATATCACATATACGTAACAACTCTTGTCACCAATCAAGCA
12651229 CATAT
261 CATAT
12651234 TAGCCTCAAT
Statistics
Matches: 250, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
267 175 0.70
268 2 0.01
269 73 0.29
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (269 bp):
CCAACATCAGTCTTTAAAGTACAACCATTTAAGGAAGACGTTTGACTGTGTCAAAGCATGCGACT
CACGATGTTGGAACAATGATGATATCAAGTTTAAGCATCATACATACAATTATCACTATGAGAAA
TGTTATGACTATTACATAATAATCCAATAAGCATTCTCAAGGTGGATCAGTCCAATCTATTGTTC
TTTAACATATACTTGTGTTGACTTGATATCACATATACGTAACAACTCTTGTCACCAATCAAGCA
CATATGCAC
Found at i:12654227 original size:20 final size:19
Alignment explanation
Indices: 12654198--12654235 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
12654188 CTAAAAATAT
*
12654198 AGAAATTTAAATTAGAAACC
1 AGAAAATTAAATTA-AAACC
12654218 AGAAAATTAAATTAAAAC
1 AGAAAATTAAATTAAAAC
12654236 TGCATAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.24
Consensus pattern (19 bp):
AGAAAATTAAATTAAAACC
Found at i:12659825 original size:42 final size:43
Alignment explanation
Indices: 12659791--12660020 Score: 255
Period size: 43 Copynumber: 5.4 Consensus size: 43
12659781 GCGCCTTTAA
* * *
12659791 AAAAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTATCGC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * * *
12659834 ACAAACGCCGCTAAAGACCAGGACTTTTAGCAGCGCTTTT-CC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* *** *
12659876 AGAAACGCCGCTAAAGACTTGGACCTTTAGCGGCACTTTTCCC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * * *
12659919 AAAAACGCCGCTAAAGAACAAGACATTTAGCGACACTTTTCCC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
** * * *
12659962 AAAAATACCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCT
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
*
12660005 ACAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
12660021 GTCTACTAAA
Statistics
Matches: 158, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
42 35 0.22
43 123 0.78
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
Found at i:12659901 original size:85 final size:84
Alignment explanation
Indices: 12659791--12660020 Score: 257
Period size: 85 Copynumber: 2.7 Consensus size: 84
12659781 GCGCCTTTAA
* * * *
12659791 AAAAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTATCGCACAAACGCCGCTAAAGACCAGG
1 AAAAACGCCGCTAAAGA-CAAGACCTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAAGAACAAG
* *
12659856 ACTTTTAGC-AGCGCTTTT-CC
64 ACATTTAGCGA-CACTTTTCCC
* ** * *
12659876 AGAAACGCCGCTAAAGACTTGGACCTTTAGCGGCACTTTTCCCAAAAACGCCGCTAAAGAACAAG
1 AAAAACGCCGCTAAAGAC-AAGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGAACAAG
12659941 ACATTTAGCGACACTTTTCCC
64 ACATTTAGCGACACTTTTCCC
** *
12659962 AAAAATACCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCTACAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG-ACAAGACCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAG
12660021 GTCTACTAAA
Statistics
Matches: 120, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
84 1 0.01
85 68 0.57
86 49 0.41
87 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGACAAGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGAACAAGAC
ATTTAGCGACACTTTTCCC
Found at i:12665239 original size:24 final size:23
Alignment explanation
Indices: 12665212--12665258 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
12665202 AAACGATTTG
12665212 TTTTGCTCTACTAAAAATTTTTTA
1 TTTTG-TCTACTAAAAATTTTTTA
** *
12665236 TTTTGTCTGTTAAAATTTTTTTA
1 TTTTGTCTACTAAAAATTTTTTA
12665259 GTCAACTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (23 bp):
TTTTGTCTACTAAAAATTTTTTA
Found at i:12666068 original size:63 final size:61
Alignment explanation
Indices: 12665987--12666117 Score: 190
Period size: 63 Copynumber: 2.1 Consensus size: 61
12665977 CTTCTAACCC
* * * *
12665987 CTAACCCCTAACTACTAACCCCTAAACCTTATTTAATATGTAAATTAAAAAACACTTATTAAT
1 CTAAACCCTAACCACTAACCCATAAACCTTATTTAATA--TAAATTAAAAAACACTAATTAAT
* *
12666050 CTAAACCCTAACCCCTAACCCATAAACCTTATTTAATATAAATTAAAATACACTAATTAAT
1 CTAAACCCTAACCACTAACCCATAAACCTTATTTAATATAAATTAAAAAACACTAATTAAT
12666111 CTAAACC
1 CTAAACC
12666118 ATAAACCTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
61 28 0.45
63 34 0.55
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.30
Consensus pattern (61 bp):
CTAAACCCTAACCACTAACCCATAAACCTTATTTAATATAAATTAAAAAACACTAATTAAT
Found at i:12666130 original size:61 final size:62
Alignment explanation
Indices: 12666001--12666130 Score: 190
Period size: 61 Copynumber: 2.1 Consensus size: 62
12665991 CCCCTAACTA
* * * *
12666001 CTAACCCCTAAACCTTATTTAATATGTAAATTAAAAAACACTTATTAATCTAAACCCTAACCC
1 CTAACCCATAAACCTTATTTAATA-GTAAATTAAAAAACACTAATTAATCTAAACCATAAACC
*
12666064 CTAACCCATAAACCTTATTTAATA-TAAATTAAAATACACTAATTAATCTAAACCATAAACC
1 CTAACCCATAAACCTTATTTAATAGTAAATTAAAAAACACTAATTAATCTAAACCATAAACC
*
12666125 TTAACC
1 CTAACC
12666131 TAACACCGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 38 0.62
63 23 0.38
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (62 bp):
CTAACCCATAAACCTTATTTAATAGTAAATTAAAAAACACTAATTAATCTAAACCATAAACC
Found at i:12666313 original size:14 final size:14
Alignment explanation
Indices: 12666294--12666327 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
12666284 CTAAATTAAT
12666294 CATATACCCCAAAC
1 CATATACCCCAAAC
*
12666308 CATATACCCTAAAC
1 CATATACCCCAAAC
12666322 CATATA
1 CATATA
12666328 TATTAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (14 bp):
CATATACCCCAAAC
Found at i:12666516 original size:21 final size:21
Alignment explanation
Indices: 12666490--12666555 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
12666480 TATTTTAATT
12666490 TTTTTCCATTTTTAACAAATA
1 TTTTTCCATTTTTAACAAATA
* *
12666511 TTTTTCTATTTTTTATTTC-AA-A
1 TTTTTCCA-TTTTTA--ACAAATA
*
12666533 TTTATCCATTTTTAACAAATA
1 TTTTTCCATTTTTAACAAATA
12666554 TT
1 TT
12666556 CAATTAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 16 0.46
22 13 0.37
23 2 0.06
24 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTTCCATTTTTAACAAATA
Found at i:12666624 original size:20 final size:19
Alignment explanation
Indices: 12666583--12666626 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
12666573 AATTTTAATT
* *
12666583 AATATAAATAAACATATTA
1 AATATAAATAAACAGATAA
*
12666602 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAGATAA
12666622 AATAT
1 AATAT
12666627 TTTTGCGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (19 bp):
AATATAAATAAACAGATAA
Found at i:12666676 original size:41 final size:41
Alignment explanation
Indices: 12666631--12666908 Score: 423
Period size: 41 Copynumber: 6.8 Consensus size: 41
12666621 AAATATTTTT
**
12666631 GCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
12666672 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
** * *
12666713 GCGGCGCTTCCCCAAAAACGCTGCTAAAGCCTTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
12666754 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
12666795 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
12666836 GCGGCGC-TTCCACAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTTC-CAAAAACGCCGCTAAAGCCCTGAGCATTA
* ** *
12666877 GCAGCGCTTTTTTAAAAACGCCACTAAAGCCC
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCC
12666909 CGAAAGTTAT
Statistics
Matches: 215, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 3 0.01
41 210 0.98
42 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:12666999 original size:41 final size:40
Alignment explanation
Indices: 12666953--12667041 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
12666943 TTTTTTGCGA
*
12666953 CGTTTTTTGTAAAAACGCCGCTAATGCTCGATCTTTAGCGG
1 CGTTTTTTCT-AAAACGCCGCTAATGCTCGATCTTTAGCGG
* * * *
12666994 CGTTTTGTCTAAAGCGCCGCTAATGCTTGATTTTTAGCGG
1 CGTTTTTTCTAAAACGCCGCTAATGCTCGATCTTTAGCGG
12667034 CGTTTTTT
1 CGTTTTTT
12667042 TGTCCAAACG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 34 0.81
41 8 0.19
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.39
Consensus pattern (40 bp):
CGTTTTTTCTAAAACGCCGCTAATGCTCGATCTTTAGCGG
Found at i:12669657 original size:26 final size:26
Alignment explanation
Indices: 12669617--12669666 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
12669607 TCTCAAATCT
*
12669617 ATTTTACCCCCAGTAAATTTTTGATG
1 ATTTTACCCCCAGTAAAATTTTGATG
*
12669643 ATTTTACCCCTAGTAAAATTTTGA
1 ATTTTACCCCCAGTAAAATTTTGA
12669667 GAAAATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCCAGTAAAATTTTGATG
Found at i:12670779 original size:27 final size:27
Alignment explanation
Indices: 12670711--12670772 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
12670701 CGGACTAGCT
*
12670711 TGTATTTAATGTCCCGACAAACTACCC
1 TGTATTTAATGTCTCGACAAACTACCC
* * *
12670738 CGTGTTTAATGTCTCGACAGACTACCC
1 TGTATTTAATGTCTCGACAAACTACCC
12670765 TGTATTTA
1 TGTATTTA
12670773 CTATCTCAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.34
Consensus pattern (27 bp):
TGTATTTAATGTCTCGACAAACTACCC
Found at i:12686286 original size:19 final size:20
Alignment explanation
Indices: 12686262--12686306 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
12686252 TAGGGGAAAG
*
12686262 TGGGAGAAAGTAAA-AATTT
1 TGGGAGAAAGTAAAGAAGTT
12686281 TGGGAGAAAGTAAAGAAGTT
1 TGGGAGAAAGTAAAGAAGTT
12686301 TGGGAG
1 TGGGAG
12686307 TTTGGGGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.22
Consensus pattern (20 bp):
TGGGAGAAAGTAAAGAAGTT
Found at i:12686632 original size:14 final size:14
Alignment explanation
Indices: 12686613--12686639 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12686603 TGTAGATAAT
12686613 ATATTCAAATTTAA
1 ATATTCAAATTTAA
12686627 ATATTCAAATTTA
1 ATATTCAAATTTA
12686640 TTATATACTT
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:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATTCAAATTTAA
Found at i:12691956 original size:40 final size:40
Alignment explanation
Indices: 12691873--12692058 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
12691863 TTGAATGATG
* * * *
12691873 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
12691913 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
12691953 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
12691993 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
12692034 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
12692059 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:12692065 original size:80 final size:79
Alignment explanation
Indices: 12691926--12692081 Score: 226
Period size: 80 Copynumber: 2.0 Consensus size: 79
12691916 GGACTAAGAT
* **
12691926 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
12691990 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
*
12692006 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
*
12692070 ATATCCGGTTAA
65 AAATCCGGTTAA
12692082 ATTCGAAGGT
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
79 8 0.12
80 59 0.86
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:12693605 original size:27 final size:27
Alignment explanation
Indices: 12693560--12693626 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
12693550 GTGTAAACCA
* *
12693560 ATGTTTACTTTCCCAATGGACTACCCC
1 ATGTTTACTATCTCAATGGACTACCCC
* * *
12693587 ATGTTTACTATCTCGATGGGCTATCCC
1 ATGTTTACTATCTCAATGGACTACCCC
* *
12693614 GTGGTTACTATCT
1 ATGTTTACTATCT
12693627 TAGCGAGCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.37
Consensus pattern (27 bp):
ATGTTTACTATCTCAATGGACTACCCC
Found at i:12693975 original size:14 final size:13
Alignment explanation
Indices: 12693958--12693995 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
12693948 CTTAATGGAA
12693958 TTCCACATTCCTTT
1 TTCC-CATTCCTTT
12693972 TTCCCTATTCC-TT
1 TTCCC-ATTCCTTT
12693985 TTCCCATTCCT
1 TTCCCATTCCT
12693996 CCATTCACCG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.23
13 8 0.36
14 9 0.41
ACGTcount: A:0.11, C:0.39, G:0.00, T:0.50
Consensus pattern (13 bp):
TTCCCATTCCTTT
Found at i:12697268 original size:50 final size:50
Alignment explanation
Indices: 12697193--12697326 Score: 205
Period size: 50 Copynumber: 2.7 Consensus size: 50
12697183 TATTGAAATT
*
12697193 ATGAGAGGTCCCATCTAAGACCATGTCTGGGACAGGGTGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACAGGGTGTTGGCACCGAG
*
12697243 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACAGGGTGTTGGCACCGAG
* ** * *
12697293 ATGAGAAGTCCCCCGTAAGATCATGTCTGAGACA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACA
12697327 TGGCATGGGA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACAGGGTGTTGGCACCGAG
Found at i:12697327 original size:50 final size:50
Alignment explanation
Indices: 12697193--12697365 Score: 197
Period size: 50 Copynumber: 3.5 Consensus size: 50
12697183 TATTGAAATT
* *
12697193 ATGAGAGGTCCCATC-TAAGACCATGTCTGGGACAGGGTGTTGGCACCGAG
1 ATGAGAAGTCCCA-CGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG
* *
12697243 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG
1 ATGAGAAGTCCCACGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG
* * * ** * * *
12697293 ATGAGAAGTCCCCCGTAAGATCATGTCTGAGACATGG-CATGGGACTGAT
1 ATGAGAAGTCCCACGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG
* *
12697342 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAAGTCCCACGTAAGACCAT
12697366 ATTTGAGATG
Statistics
Matches: 106, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
49 27 0.25
50 79 0.75
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.21
Consensus pattern (50 bp):
ATGAGAAGTCCCACGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG
Found at i:12698396 original size:27 final size:27
Alignment explanation
Indices: 12698332--12698396 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 27
12698322 ATTAAGGGAG
* *
12698332 TTTAGTGTGCTCTCTGATTATTAGCACA
1 TTTA-TGTACTCTCTAATTATTAGCACA
*
12698360 -TCA-GTACTCTCTAATTATTAGCACA
1 TTTATGTACTCTCTAATTATTAGCACA
*
12698385 TTTATGTTCTCT
1 TTTATGTACTCT
12698397 GTATAATACT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
25 20 0.67
26 2 0.07
27 8 0.27
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (27 bp):
TTTATGTACTCTCTAATTATTAGCACA
Found at i:12702894 original size:170 final size:170
Alignment explanation
Indices: 12702670--12703011 Score: 666
Period size: 170 Copynumber: 2.0 Consensus size: 170
12702660 ATGGAGCCAC
*
12702670 TTAGTAATTTCAGCGATATAAGTCTCTCATTTGAGGACCGAAAAACCACATCAAAATCAAGAAAC
1 TTAGTAATTTCAGCGATATAAGTCTCTCATTCGAGGACCGAAAAACCACATCAAAATCAAGAAAC
*
12702735 CACCTTTAATCATTTATTGGTTAATTTCTTAGTTTTGTATGCTTTATAATTTGGTCTTTCGATTA
66 CACCTTTAATCATTTATTGGTTAATTTCTTAGTTTTGTATGCTTTACAATTTGGTCTTTCGATTA
12702800 TCATATTTAATTTTCTTGCAAATATTTTTTGTTATGATAT
131 TCATATTTAATTTTCTTGCAAATATTTTTTGTTATGATAT
12702840 TTAGTAATTTCAGCGATATAAGTCTCTCATTCGAGGACCGAAAAACCACATCAAAATCAAGAAAC
1 TTAGTAATTTCAGCGATATAAGTCTCTCATTCGAGGACCGAAAAACCACATCAAAATCAAGAAAC
12702905 CACCTTTAATCATTTATTGGTTAATTTCTTAGTTTTGTATGCTTTACAATTTGGTCTTTCGATTA
66 CACCTTTAATCATTTATTGGTTAATTTCTTAGTTTTGTATGCTTTACAATTTGGTCTTTCGATTA
12702970 TCATATTTAATTTTCTTGCAAATATTTTTTGTTATGATAT
131 TCATATTTAATTTTCTTGCAAATATTTTTTGTTATGATAT
12703010 TT
1 TT
12703012 GGTACTATAA
Statistics
Matches: 170, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (170 bp):
TTAGTAATTTCAGCGATATAAGTCTCTCATTCGAGGACCGAAAAACCACATCAAAATCAAGAAAC
CACCTTTAATCATTTATTGGTTAATTTCTTAGTTTTGTATGCTTTACAATTTGGTCTTTCGATTA
TCATATTTAATTTTCTTGCAAATATTTTTTGTTATGATAT
Found at i:12728382 original size:30 final size:30
Alignment explanation
Indices: 12728348--12728430 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
12728338 GTATATGCTT
*
12728348 TATACATTGTCGAATTGATTTGCATGTAGA
1 TATACATTGTCGAATTGATTTGCATATAGA
* * * *
12728378 TATACATT-ACTGAATTTGATTCGTATATGGA
1 TATACATTGTC-GAA-TTGATTTGCATATAGA
*
12728409 TATATATTGTCGAATTGATTTG
1 TATACATTGTCGAATTGATTTG
12728431 AGCATTGGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
29 1 0.02
30 18 0.43
31 22 0.52
32 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.43
Consensus pattern (30 bp):
TATACATTGTCGAATTGATTTGCATATAGA
Found at i:12728621 original size:43 final size:43
Alignment explanation
Indices: 12728545--12728682 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
12728535 ACTTCCGAGG
** * * * *
12728545 TGAGATTTCATGTAAGACCACAGTTGGGTTATTGGCATCGATT
1 TGAGATTTCGCGTAAGATCATAGCTGGGCTATTGGCATCGATT
* * *
12728588 TGAGATTTTGCGTAAGA-CAATAGCTGGGCTATTGGCATCAACT
1 TGAGATTTCGCGTAAGATC-ATAGCTGGGCTATTGGCATCGATT
* * * *
12728631 TGAGATTTCGTGTAAGATCATAGTTGAGCTATTGGCATCGATA
1 TGAGATTTCGCGTAAGATCATAGCTGGGCTATTGGCATCGATT
*
12728674 CGAGATTTC
1 TGAGATTTC
12728683 CATGTAATAC
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 75 0.97
44 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
TGAGATTTCGCGTAAGATCATAGCTGGGCTATTGGCATCGATT
Found at i:12739514 original size:19 final size:18
Alignment explanation
Indices: 12739488--12739526 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
12739478 CCCTCATCCC
12739488 ATCATCTCTC-ACTCATTT
1 ATCATCTCTCAACTC-TTT
12739506 ATCATTCTCTCAACTCTTT
1 ATCA-TCTCTCAACTCTTT
12739525 AT
1 AT
12739527 GCTATTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 11 0.58
20 4 0.21
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (18 bp):
ATCATCTCTCAACTCTTT
Found at i:12742532 original size:76 final size:76
Alignment explanation
Indices: 12742405--12742635 Score: 392
Period size: 76 Copynumber: 3.0 Consensus size: 76
12742395 AATGGAGTCA
12742405 AAATTCAATATGTCTATAGTTAGAGTCTGCACCTAAATAAATAGTACTCCAAGATGTACAAAGTA
1 AAATTCAATATGTCTATAGTTAGAGTCTGCACCTAAATAAATAGTACTCCAAGATGTACAAAGTA
12742470 GACTAAGAGAG
66 GACTAAGAGAG
* * *
12742481 AAATTCAATATGTCTATAGTTAGAGTCTGCACCTAAATAAATAGT-CATCCAAGAAGTATAGAGT
1 AAATTCAATATGTCTATAGTTAGAGTCTGCACCTAAATAAATAGTAC-TCCAAGATGTACAAAGT
12742545 AGACTAAGAGAG
65 AGACTAAGAGAG
* * *
12742557 AAATTCAATATGTCTATAGTTAGAGTCTACACCTAAATAAATAGTACTCCAAGATTTACACAGTA
1 AAATTCAATATGTCTATAGTTAGAGTCTGCACCTAAATAAATAGTACTCCAAGATGTACAAAGTA
12742622 GACTAAGAGAG
66 GACTAAGAGAG
12742633 AAA
1 AAA
12742636 GTAGGAAAGT
Statistics
Matches: 145, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
75 1 0.01
76 143 0.99
77 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (76 bp):
AAATTCAATATGTCTATAGTTAGAGTCTGCACCTAAATAAATAGTACTCCAAGATGTACAAAGTA
GACTAAGAGAG
Found at i:12744004 original size:19 final size:20
Alignment explanation
Indices: 12743969--12744009 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
12743959 ACATACGTAT
12743969 AATAAATAACAAGT-AAATG
1 AATAAATAACAAGTAAAATG
*
12743988 AATAAATAA-TAGATAAAATG
1 AATAAATAACAAG-TAAAATG
12744008 AA
1 AA
12744010 ATAATAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 2 0.11
19 10 0.53
20 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (20 bp):
AATAAATAACAAGTAAAATG
Found at i:12746840 original size:556 final size:556
Alignment explanation
Indices: 12745785--12746883 Score: 1420
Period size: 556 Copynumber: 2.0 Consensus size: 556
12745775 TAAATTGACT
* * *
12745785 AGATAGAGTAAATAAAAGAGCTTGATTGTATTGATATAAAGCGCAAATCCACAGAGTTGAATGAG
1 AGATAGAGTAAATAAAAGAGCCTAATTGTATTGATATAAAGCACAAATCCACAGAGTTGAATGAG
* * * * * *
12745850 TCCATAATCAAAATCTCTTGAAAGAAAACAATGAACAAATAAACTTAACTTTTAAATCCTATGAA
66 TCCACAATCAAAATCACTTGAAAGAAAACAATGAAAAAATAAACTAAACTTCTAAATCCTAAGAA
* * * * * *
12745915 AGAAAGAAAATAAAACTAAGTTTAATGGAAGAAACTAGGTTAATGTAAAAGTGTTTTTAACATGT
131 AGAAAGAAAACAAAACTAAATTTAACGGAAGAAACTAGCTTAATGGAAAAGTGTCTTTAACATGT
* * * **
12745980 GCCAAAGGAGCCTATTTATAGCCTTTAGGTGGTCGTCGTCCTTAACCCTAGGTCAGCTGATGTTA
196 GCCAAAGAAGCCTATTTATAGCCTTCAGGTGGTCGTCATCCTTAACCCTAGGTCAGCTGACATTA
* * *
12746045 CCTAGCTTTCAGTTTGATTGTGTAGACCAAAACGCCCCTGCTTCATGTCTAATTTCTATCCTAGA
261 CCTAGCTTTAAGTTTGATTGTGTAGACCAAAACACCCATGCTTCATGTCTAATTTCTATCCTAGA
*
12746110 GTCAATGTCGCGACACACCAGGACCTCTATCACAACATAGCAACCAGTATGCTCCTCTGTAGCCA
326 GTCAATGTCGCGACACACCAGGACCTCTATCACAACATAGCAACCAGTATGCTCCTCTATAGCCA
** * * *
12746175 TCTTCAGGGGTATATTGTGAAACCCTCAGTCTGTGTCGCAACATCAAAGGCAGACTTGAGTTTTC
391 TCTTCAGGGACATATCGTGAAACACTCAGTCTGTGTCACAACATCAAAGGCAGACTTGAGTTTTC
* * * * * * *
12746240 ATCATTTTATTCCCTATGCTTCGACATTAGTCCTCCCGTGTTGTGACATAGCATCCAGTATCATT
456 ATCATTATATTCCCCATGCTTCAACATCAGTCCTCCCATGTTGTGAAATAGCATACAGTATCATT
12746305 CTAAAATGCCTTCTAATGGTCTCCTACACACTTACA
521 CTAAAATGCCTTCTAATGGTCTCCTACACACTTACA
* * * * *
12746341 AGATAGAGTAAATGACAGAGCCTAATTGTGTTGATATTAAGCACAAATCCACAGAGTTGAATTAG
1 AGATAGAGTAAATAAAAGAGCCTAATTGTATTGATATAAAGCACAAATCCACAGAGTTGAATGAG
* * *
12746406 TCCACAATCAAAATCACTTGAAATAAAATAATGAAAAAATAAACTAAAC-TCTAAATTCTTAAGA
66 TCCACAATCAAAATCACTTGAAAGAAAACAATGAAAAAATAAACTAAACTTCTAAA-TCCTAAGA
* * *
12746470 AATAAATAAAACAAAACTAAATTTAACGGAAGAAACTAGCTTGATGGGAAAA-TGTCTTTAACAT
130 AAGAAAGAAAACAAAACTAAATTTAACGGAAGAAACTAGCTTAAT-GGAAAAGTGTCTTTAACAT
* * * *
12746534 GTGCTAAATAAGCTTATTTATAGCCTTCAGGTGGTTGTCATCCTTAACCCTAGGT-ATGCTGACA
194 GTGCCAAAGAAGCCTATTTATAGCCTTCAGGTGGTCGTCATCCTTAACCCTAGGTCA-GCTGACA
* * * * *
12746598 TT-CTTGAGCTTTAATTTTGATTGTGTGGACCAAAATACCCATGC-TCTGTGTCTAATTTCTATC
258 TTACCT-AGCTTTAAGTTTGATTGTGTAGACCAAAACACCCATGCTTC-ATGTCTAATTTCTATC
** * * * * *
12746661 CTAGAGTTGATGTTGTGACACACCAGGACCTGTGTCACAACATAGCAACCAGTATGCTTCTCTAT
321 CTAGAGTCAATGTCGCGACACACCAGGACCTCTATCACAACATAGCAACCAGTATGCTCCTCTAT
* * * * * *
12746726 AGCCATTTTTAGGGACATGTCGTGACACACTCAGTCTGTGTCACGACATCGAAGGCAGACTTGAG
386 AGCCATCTTCAGGGACATATCGTGAAACACTCAGTCTGTGTCACAACATCAAAGGCAGACTTGAG
* **
12746791 ATTTTC-TCATTATGTTCCCCATG-TTGCAACATCAGTCCTCCCATGTTGTGAAATAGCATATTG
451 -TTTTCATCATTATATTCCCCATGCTT-CAACATCAGTCCTCCCATGTTGTGAAATAGCATACAG
* *
12746854 TGTCGTTCTAAAATGCCTTCTAATGGTCTC
514 TATCATTCTAAAATGCCTTCTAATGGTCTC
12746884 TTGCACGTTT
Statistics
Matches: 462, Mismatches: 74, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
555 12 0.03
556 440 0.95
557 10 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (556 bp):
AGATAGAGTAAATAAAAGAGCCTAATTGTATTGATATAAAGCACAAATCCACAGAGTTGAATGAG
TCCACAATCAAAATCACTTGAAAGAAAACAATGAAAAAATAAACTAAACTTCTAAATCCTAAGAA
AGAAAGAAAACAAAACTAAATTTAACGGAAGAAACTAGCTTAATGGAAAAGTGTCTTTAACATGT
GCCAAAGAAGCCTATTTATAGCCTTCAGGTGGTCGTCATCCTTAACCCTAGGTCAGCTGACATTA
CCTAGCTTTAAGTTTGATTGTGTAGACCAAAACACCCATGCTTCATGTCTAATTTCTATCCTAGA
GTCAATGTCGCGACACACCAGGACCTCTATCACAACATAGCAACCAGTATGCTCCTCTATAGCCA
TCTTCAGGGACATATCGTGAAACACTCAGTCTGTGTCACAACATCAAAGGCAGACTTGAGTTTTC
ATCATTATATTCCCCATGCTTCAACATCAGTCCTCCCATGTTGTGAAATAGCATACAGTATCATT
CTAAAATGCCTTCTAATGGTCTCCTACACACTTACA
Found at i:12751689 original size:43 final size:44
Alignment explanation
Indices: 12751614--12751698 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 44
12751604 TTGCGTTCAC
12751614 AAAACGCAAGATTGATTCCTTTAATATCATCAATTGTCCCTCTT
1 AAAACGCAAGATTGATTCCTTTAATATCATCAATTGTCCCTCTT
* *
12751658 AAAACGTAGGATTGATT-CTTTAATATCATCAATTGTCCCTC
1 AAAACGCAAGATTGATTCCTTTAATATCATCAATTGTCCCTC
12751699 CTATCGCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 24 0.62
44 15 0.38
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (44 bp):
AAAACGCAAGATTGATTCCTTTAATATCATCAATTGTCCCTCTT
Found at i:12754996 original size:27 final size:27
Alignment explanation
Indices: 12754966--12755243 Score: 200
Period size: 27 Copynumber: 10.3 Consensus size: 27
12754956 CCCTATAAGA
* *
12754966 TAAAATGATCGTAATGCCCTTGTAGGG
1 TAAAATGACCGTAATACCCTTGTAGGG
* * * * *
12754993 TAAAATGACCGAAAAACCCCTATAGGT
1 TAAAATGACCGTAATACCCTTGTAGGG
* *
12755020 TAAAATGACCGTAAT-GCCTCTGTAAGG
1 TAAAATGACCGTAATACCCT-TGTAGGG
* * *
12755047 TAAAATGACCATAATACCCCTATAGGG
1 TAAAATGACCGTAATACCCTTGTAGGG
* * * **
12755074 TAAAATGACTGGAAAACCCTCATAGGG
1 TAAAATGACCGTAATACCCTTGTAGGG
* *
12755101 TAAAATGACCGTAATGCCCTTGTAAGG
1 TAAAATGACCGTAATACCCTTGTAGGG
**
12755128 TAAAATGACCGTAATACCCCAGTAGGG
1 TAAAATGACCGTAATACCCTTGTAGGG
* * * * *
12755155 TAAAATGATCGAAAAACTCTTATAGGG
1 TAAAATGACCGTAATACCCTTGTAGGG
* ** * * *
12755182 TTAAATGACCAAAATACCCCTATAAGG
1 TAAAATGACCGTAATACCCTTGTAGGG
* * * * *
12755209 TAAAATTACCATAATGCCCATGGAGGG
1 TAAAATGACCGTAATACCCTTGTAGGG
12755236 T-AAATGAC
1 TAAAATGAC
12755244 TATTTTTCCC
Statistics
Matches: 190, Mismatches: 59, Indels: 5
0.75 0.23 0.02
Matches are distributed among these distances:
26 8 0.04
27 180 0.95
28 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCTTGTAGGG
Found at i:12755001 original size:54 final size:54
Alignment explanation
Indices: 12754937--12755214 Score: 238
Period size: 54 Copynumber: 5.1 Consensus size: 54
12754927 CCATAAAATA
* * * *
12754937 GGTAAAATGACTGAAAAACCCCTATAAGATAAAATGATCGTAATGCCCTTGTAG
1 GGTAAAATGACCGAAAAACCCCTATAAGGTAAAATGACCGTAATACCCTTGTAG
* *
12754991 GGTAAAATGACCGAAAAACCCCTAT-AGGTTAAAATGACCGTAAT-GCCTCTGTAA
1 GGTAAAATGACCGAAAAACCCCTATAAGG-TAAAATGACCGTAATACCCT-TGTAG
* * * * * **
12755045 GGTAAAATGACC-ATAATACCCCTATAGGGTAAAATGACTGGAAAACCCTCATAG
1 GGTAAAATGACCGA-AAAACCCCTATAAGGTAAAATGACCGTAATACCCTTGTAG
* ** * * **
12755099 GGTAAAATGACCGTAATGCCCTTGTAAGGTAAAATGACCGTAATACCCCAGTAG
1 GGTAAAATGACCGAAAAACCCCTATAAGGTAAAATGACCGTAATACCCTTGTAG
* * * * * ** * * *
12755153 GGTAAAATGATCGAAAAACTCTTATAGGGTTAAATGACCAAAATACCCCTATAA
1 GGTAAAATGACCGAAAAACCCCTATAAGGTAAAATGACCGTAATACCCTTGTAG
12755207 GGTAAAAT
1 GGTAAAAT
12755215 TACCATAATG
Statistics
Matches: 180, Mismatches: 38, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
53 6 0.03
54 169 0.94
55 5 0.03
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (54 bp):
GGTAAAATGACCGAAAAACCCCTATAAGGTAAAATGACCGTAATACCCTTGTAG
Found at i:12755074 original size:81 final size:80
Alignment explanation
Indices: 12754956--12755223 Score: 290
Period size: 81 Copynumber: 3.3 Consensus size: 80
12754946 ACTGAAAAAC
* * * * * * *
12754956 CCCTATAAGATAAAATGATCGTAATGCCCTTGTAGGGTAAAATGACCGAAAAACCCCTATAGGTT
1 CCCTGTAAGGTAAAATGACCATAATACCCCTATAGGGTAAAATGACCGAAAAACCCCTATAGGTT
12755021 AAAATGACCGTAATG
66 AAAATGACCGTAATG
* *
12755036 CCTCTGTAAGGTAAAATGACCATAATACCCCTATAGGGTAAAATGACTGGAAAA-CCCTCATAGG
1 CC-CTGTAAGGTAAAATGACCATAATACCCCTATAGGGTAAAATGACCGAAAAACCCCT-ATAGG
*
12755100 GTAAAATGACCGTAATG
64 TTAAAATGACCGTAATG
* * * *
12755117 CCCTTGTAAGGTAAAATGACCGTAATACCCC-AGTAGGGTAAAATGATCGAAAAACTCTTATAGG
1 CCC-TGTAAGGTAAAATGACCATAATACCCCTA-TAGGGTAAAATGACCGAAAAACCCCTATA-G
** *
12755181 GTT-AAATGACCAAAATAC
63 GTTAAAATGACCGTAAT-G
* *
12755199 CCCTATAAGGTAAAATTACCATAAT
1 CCCTGTAAGGTAAAATGACCATAAT
12755224 GCCCATGGAG
Statistics
Matches: 158, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
80 8 0.05
81 142 0.90
82 8 0.05
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (80 bp):
CCCTGTAAGGTAAAATGACCATAATACCCCTATAGGGTAAAATGACCGAAAAACCCCTATAGGTT
AAAATGACCGTAATG
Found at i:12755236 original size:81 final size:80
Alignment explanation
Indices: 12754941--12755243 Score: 281
Period size: 81 Copynumber: 3.8 Consensus size: 80
12754931 AAAATAGGTA
* * * * *
12754941 AAATGACTGAAAA-ACCCCTATAAGATAAAATGATCGTAATGCCCTTGTAGGGTAAAATGACCGA
1 AAATGAC-CAAAATACCCCTATAAGGTAAAATGACCATAATGCCCATGTAGGGTAAAATGA-CGA
*
12755005 AAAACCCCTATA-GGTT
64 AAAACCCTTATAGGGTT
** * * * * * * *
12755021 AAAATGACCGTAATGCCTCTGTAAGGTAAAATGACCATAATACCCCTATAGGGTAAAATGACTGG
1 -AAATGACCAAAATACCCCTATAAGGTAAAATGACCATAATGCCCATGTAGGGTAAAATGAC-GA
* *
12755086 AAAACCCTCATAGGGTA
64 AAAACCCTTATAGGGTT
** * * * * *
12755103 AAATGACCGTAATGCCCTTGTAAGGTAAAATGACCGTAATACCCCA-GTAGGGTAAAATGATCGA
1 AAATGACCAAAATACCCCTATAAGGTAAAATGACCATAAT-GCCCATGTAGGGTAAAATGA-CGA
*
12755167 AAAACTCTTATAGGGTT
64 AAAACCCTTATAGGGTT
* *
12755184 AAATGACCAAAATACCCCTATAAGGTAAAATTACCATAATGCCCATGGAGGGT-AAATGAC
1 AAATGACCAAAATACCCCTATAAGGTAAAATGACCATAATGCCCATGTAGGGTAAAATGAC
12755244 TATTTTTCCC
Statistics
Matches: 181, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
79 1 0.01
80 13 0.07
81 160 0.88
82 7 0.04
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (80 bp):
AAATGACCAAAATACCCCTATAAGGTAAAATGACCATAATGCCCATGTAGGGTAAAATGACGAAA
AACCCTTATAGGGTT
Found at i:12755308 original size:24 final size:24
Alignment explanation
Indices: 12755260--12755370 Score: 100
Period size: 24 Copynumber: 4.6 Consensus size: 24
12755250 TCCCCTCGAG
* **
12755260 TGTAAATGATTGATTTGTCCATGA
1 TGTAAATGACTGATTTGTCTGTGA
*
12755284 TGTAAATGACTGATTTGTTTGTGA
1 TGTAAATGACTGATTTGTCTGTGA
* *
12755308 TTTAAATGACTAATTTGTCTGTGA
1 TGTAAATGACTGATTTGTCTGTGA
*
12755332 TTGGT--ATGACTGGTTTGTCTGTGA
1 -T-GTAAATGACTGATTTGTCTGTGA
* **
12755356 TTTGCATGACTGATT
1 TGTAAATGACTGATT
12755371 CTGAGCAAGG
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 67 0.94
25 1 0.01
26 1 0.01
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.45
Consensus pattern (24 bp):
TGTAAATGACTGATTTGTCTGTGA
Found at i:12755495 original size:27 final size:27
Alignment explanation
Indices: 12755439--12755495 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
12755429 GAAAGTACTG
* * * *
12755439 TACTGGTGGCTTTGCCATAATTAGTGT
1 TACTGGTGGCTTGGCCACAATTACTAT
12755466 TACTGGTGGCTTGGCCACATATT-CTAT
1 TACTGGTGGCTTGGCCACA-ATTACTAT
12755493 TAC
1 TAC
12755496 GGGCAGCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (27 bp):
TACTGGTGGCTTGGCCACAATTACTAT
Found at i:12755583 original size:32 final size:32
Alignment explanation
Indices: 12755542--12755698 Score: 170
Period size: 32 Copynumber: 4.9 Consensus size: 32
12755532 GTTGCGATGC
12755542 TACTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * *
12755574 TACTGATGGCTTTGTGTCGATCGTAATACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
12755606 TACTGATGGCTTTGTGTCGATCATAATACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * * * *
12755638 TGCTGATGGCTGTGTGCTGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
** *
12755670 TACTGATGGCTTTCAGCCAATCATATTAC
1 TACTGATGGCTTTGTGCCGATCATATTAC
12755699 TATACTTATG
Statistics
Matches: 102, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 102 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:12755694 original size:64 final size:64
Alignment explanation
Indices: 12755539--12755682 Score: 193
Period size: 64 Copynumber: 2.2 Consensus size: 64
12755529 TTTGTTGCGA
* * * *
12755539 TGCTACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGTCGATCGTAATAC
1 TGCTACTGATGGCTTTGTGCCGATCATAATACCATTACTGATGGCTGTGTGTCGATCATAATAC
* * *
12755603 TGTTACTGATGGCTTTGTGTCGATCATAATACCATTGCTGATGGCTGTGTG-CTGATCAT-ATCA
1 TGCTACTGATGGCTTTGTGCCGATCATAATACCATTACTGATGGCTGTGTGTC-GATCATAAT-A
12755666 C
64 C
12755667 TGCTACTGATGGCTTT
1 TGCTACTGATGGCTTT
12755683 CAGCCAATCA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
63 3 0.04
64 67 0.96
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCGATCATAATACCATTACTGATGGCTGTGTGTCGATCATAATAC
Found at i:12755761 original size:22 final size:22
Alignment explanation
Indices: 12755704--12755755 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
12755694 ATTACTATAC
* *
12755704 TTATGGCTTGTAGCGATTCTGT
1 TTATGGCTTATAGCGATCCTGT
* *
12755726 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTTATAGCGATCCTGT
12755748 TTATGGCT
1 TTATGGCT
12755756 CTTAGCCATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.46
Consensus pattern (22 bp):
TTATGGCTTATAGCGATCCTGT
Found at i:12757376 original size:27 final size:27
Alignment explanation
Indices: 12757346--12757408 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
12757336 GATCCCTACT
*
12757346 TCGCCAAGCCCACTAGCGAATACCAAC
1 TCGCCAAGCCCACTAGCGAACACCAAC
* * * * *
12757373 TCGCTAGGCCTACTTGTGAACACCAAC
1 TCGCCAAGCCCACTAGCGAACACCAAC
12757400 TCGCCAAGC
1 TCGCCAAGC
12757409 TTTCTGGCGA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.38, G:0.17, T:0.16
Consensus pattern (27 bp):
TCGCCAAGCCCACTAGCGAACACCAAC
Found at i:12765023 original size:19 final size:20
Alignment explanation
Indices: 12764999--12765036 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
12764989 TAAAGTTAAC
12764999 ATTTATTATTTAA-AAAATA
1 ATTTATTATTTAATAAAATA
*
12765018 ATTTATTGTTTAATAAAAT
1 ATTTATTATTTAATAAAAT
12765037 TATTATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATTTATTATTTAATAAAATA
Found at i:12774254 original size:17 final size:16
Alignment explanation
Indices: 12774232--12774263 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12774222 ATTGGTCGAA
12774232 AAATTTTATTTCTTATG
1 AAATTTTATTT-TTATG
12774249 AAATTTTATTTTTAT
1 AAATTTTATTTTTAT
12774264 TTTTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
AAATTTTATTTTTATG
Found at i:12774263 original size:6 final size:6
Alignment explanation
Indices: 12774252--12774277 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12774242 TCTTATGAAA
12774252 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
12774278 CTGTTCAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:12779025 original size:8 final size:8
Alignment explanation
Indices: 12779012--12779066 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
12779002 GTTAGAAAAT
12779012 ATTATTAA
1 ATTATTAA
12779020 ATTATTAA
1 ATTATTAA
12779028 ATTA-TAA
1 ATTATTAA
* *
12779035 TTTGTTAA
1 ATTATTAA
*
12779043 A-TATTAT
1 ATTATTAA
*
12779050 ATTGTTAA
1 ATTATTAA
12779058 CATTATTAA
1 -ATTATTAA
12779067 TTTTATGATT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
7 10 0.28
8 19 0.53
9 7 0.19
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (8 bp):
ATTATTAA
Found at i:12780954 original size:27 final size:27
Alignment explanation
Indices: 12780856--12780956 Score: 80
Period size: 27 Copynumber: 3.7 Consensus size: 27
12780846 ATGAAACCGT
* * * *
12780856 TTCTCTCAGTGTTTGCCATACGTATTA
1 TTCTCTCAATGTTTACCATATGTACTA
* * *
12780883 ATCTTTCAGA-GTTTTCCATATGTACTA
1 TTCTCTCA-ATGTTTACCATATGTACTA
* * *
12780910 TTC-CTTCAGTATTCACCATATGTACTA
1 TTCTC-TCAATGTTTACCATATGTACTA
12780937 TTCTCTCAATGTTTACCATA
1 TTCTCTCAATGTTTACCATA
12780957 CCTTCTAGTC
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (27 bp):
TTCTCTCAATGTTTACCATATGTACTA
Found at i:12781098 original size:26 final size:26
Alignment explanation
Indices: 12781019--12781100 Score: 83
Period size: 26 Copynumber: 3.1 Consensus size: 26
12781009 CTTACAATTA
12781019 TTCAAAGTTAGCCATGCATATCATTC
1 TTCAAAGTTAGCCATGCATATCATTC
* * * * * * *
12781045 TCCCAAGGTTTGTCATACTTACCATTC
1 T-TCAAAGTTAGCCATGCATATCATTC
*
12781072 TTTAAAGTTAGCCATGCATATCATTC
1 TTCAAAGTTAGCCATGCATATCATTC
12781098 TTC
1 TTC
12781101 TAGGGCTTGT
Statistics
Matches: 39, Mismatches: 16, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
26 20 0.51
27 19 0.49
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (26 bp):
TTCAAAGTTAGCCATGCATATCATTC
Found at i:12781124 original size:53 final size:52
Alignment explanation
Indices: 12780967--12781127 Score: 184
Period size: 53 Copynumber: 3.1 Consensus size: 52
12780957 CCTTCTAGTC
* * *
12780967 CTTCAAAGCTAGCCA--CACATCATT-TCTCTAGGGCTTGCCATACTTACAATT
1 CTTCAAAGTTAGCCATGCATATCATTCT-TCTAGGGCTTGTCATACTTAC-ATT
* * * * *
12781018 ATTCAAAGTTAGCCATGCATATCATTCTCCCAAGGTTTGTCATACTTACCATT
1 CTTCAAAGTTAGCCATGCATATCATTCTTCTAGGGCTTGTCATACTTA-CATT
*
12781071 CTTTAAAGTTAGCCATGCATATCATTCTTCTAGGGCTTGTCATACTTATCATT
1 CTTCAAAGTTAGCCATGCATATCATTCTTCTAGGGCTTGTCATACTTA-CATT
12781124 CTTC
1 CTTC
12781128 TCTTTCAGGG
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
51 13 0.14
53 75 0.83
54 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (52 bp):
CTTCAAAGTTAGCCATGCATATCATTCTTCTAGGGCTTGTCATACTTACATT
Found at i:12781211 original size:3 final size:3
Alignment explanation
Indices: 12781203--12781229 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12781193 CTCTTAATTT
12781203 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
12781230 AAGTGAAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:12782853 original size:17 final size:16
Alignment explanation
Indices: 12782815--12782856 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
12782805 AGCTAATTAA
12782815 AGAAAAAGGACTAGAT
1 AGAAAAAGGACTAGAT
12782831 AGAAAAAGGACTAGAT
1 AGAAAAAGGACTAGAT
*
12782847 TGAAAAAGGA
1 AGAAAAAGGA
12782857 GAAAAACTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.57, C:0.05, G:0.26, T:0.12
Consensus pattern (16 bp):
AGAAAAAGGACTAGAT
Found at i:12783841 original size:40 final size:39
Alignment explanation
Indices: 12783792--12783940 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 39
12783782 AATTATTGAA
* *
12783792 TGAATGCACATACGTGTCCCTGTTTTTACTTTGGTACCCT
1 TGAATGCACATACGTG-CCCTGTTTGTACTTCGGTACCCT
* * * * *
12783832 TGAACGCACATATGTGCCTCTATTGGTACTTCGGTACCCC
1 TGAATGCACATACGTGCC-CTGTTTGTACTTCGGTACCCT
* * *
12783872 GGAATGCACATACGTGCCTTGTTTGTACTTCGATACCCT
1 TGAATGCACATACGTGCCCTGTTTGTACTTCGGTACCCT
*
12783911 TGAATGCACATACGTGTCCCTGTTTATACT
1 TGAATGCACATACGTG-CCCTGTTTGTACT
12783941 CTGATAACTT
Statistics
Matches: 89, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 33 0.37
40 56 0.63
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (39 bp):
TGAATGCACATACGTGCCCTGTTTGTACTTCGGTACCCT
Found at i:12786243 original size:53 final size:54
Alignment explanation
Indices: 12786177--12786310 Score: 168
Period size: 53 Copynumber: 2.5 Consensus size: 54
12786167 TTCCAATCTT
* * *
12786177 TCAAAGCTGGCCATACATATCATTTCTT-T-GGGTTTTATCAGACTTACCATTCC
1 TCAAAGTTAGCCATGCATATCATTTCTTCTGGGGTTTT-TCAGACTTACCATTCC
* * *
12786230 TCAAAGTTAGCCATGTATATCA-TTCTTCTGGGGTTTTTCATACTTACCATTCT
1 TCAAAGTTAGCCATGCATATCATTTCTTCTGGGGTTTTTCAGACTTACCATTCC
*
12786283 TCAAAGTTAGTCATGCATATCA-TTCTTC
1 TCAAAGTTAGCCATGCATATCATTTCTTC
12786311 CAAGGTTTGT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
52 5 0.07
53 59 0.83
54 7 0.10
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (54 bp):
TCAAAGTTAGCCATGCATATCATTTCTTCTGGGGTTTTTCAGACTTACCATTCC
Found at i:12786318 original size:53 final size:53
Alignment explanation
Indices: 12786207--12786338 Score: 165
Period size: 53 Copynumber: 2.5 Consensus size: 53
12786197 CATTTCTTTG
* * * ***
12786207 GGTTTTATCAGACTTACCATTCCTCAAAGTTAGCCATGTATATCATTCTTCTGG
1 GGTTTT-TCATACTTACCATTCTTCAAAGTTAGCCATGCATATCATTCTTCCAA
*
12786261 GGTTTTTCATACTTACCATTCTTCAAAGTTAGTCATGCATATCATTCTTCCAA
1 GGTTTTTCATACTTACCATTCTTCAAAGTTAGCCATGCATATCATTCTTCCAA
* * *
12786314 GGTTTGTCATACTTACAATTTTTCA
1 GGTTTTTCATACTTACCATTCTTCA
12786339 CTTTCAAGGT
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 62 0.91
54 6 0.09
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (53 bp):
GGTTTTTCATACTTACCATTCTTCAAAGTTAGCCATGCATATCATTCTTCCAA
Found at i:12786581 original size:27 final size:27
Alignment explanation
Indices: 12786442--12786587 Score: 157
Period size: 27 Copynumber: 5.4 Consensus size: 27
12786432 CGTCACATAT
* * * *
12786442 GCTTTCATTTCATATATTGCCACAAAG
1 GCTTCCATTTTATAGATTACCACAAAG
* *
12786469 GCTTCGATTTTATAGATTACCACTAAG
1 GCTTCCATTTTATAGATTACCACAAAG
* * * *
12786496 GCTTTCACTTTAAAGATTGCCACAAAG
1 GCTTCCATTTTATAGATTACCACAAAG
* *
12786523 GCTTCCATTTTATAGATTACAAAAAAG
1 GCTTCCATTTTATAGATTACCACAAAG
**
12786550 GCTTCCATTTTATAGATTATTACAAAG
1 GCTTCCATTTTATAGATTACCACAAAG
*
12786577 GCTTCTATTTT
1 GCTTCCATTTT
12786588 TCTAGCGTGT
Statistics
Matches: 97, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (27 bp):
GCTTCCATTTTATAGATTACCACAAAG
Found at i:12802168 original size:23 final size:23
Alignment explanation
Indices: 12802141--12802239 Score: 135
Period size: 23 Copynumber: 4.3 Consensus size: 23
12802131 ATAAGTGCCA
* **
12802141 CACTGGTATGTAGCCGAAGCCGC
1 CACTGATATGTAGCCGAAGCTAC
* *
12802164 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
12802187 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
12802210 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
12802233 CACTGAT
1 CACTGAT
12802240 CAATAACACT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 66 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:12802213 original size:46 final size:46
Alignment explanation
Indices: 12802148--12802238 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
12802138 CCACACTGGT
*
12802148 ATGTAGCCGAAGCCGCCACTGATACGTAGCCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCCACCACTGATACGTAGCCGTAGCTACCACTGAA
* *
12802194 ATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGA
1 ATGTAGCCGAAGCCACCACTGATACGTAGCCGTAGCTACCACTGA
12802239 TCAATAACAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGTAGCCGAAGCCACCACTGATACGTAGCCGTAGCTACCACTGAA
Found at i:12802339 original size:8 final size:8
Alignment explanation
Indices: 12802326--12802362 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
12802316 ACCAAGGACT
12802326 CACTGTAA
1 CACTGTAA
12802334 CACTGTAA
1 CACTGTAA
12802342 CACTGTAA
1 CACTGTAA
*
12802350 CACTGCAA
1 CACTGTAA
12802358 CACTG
1 CACTG
12802363 GTCTCTAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (8 bp):
CACTGTAA
Found at i:12802507 original size:18 final size:17
Alignment explanation
Indices: 12802481--12802519 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
12802471 ATTTTCCTTA
12802481 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
12802498 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
12802516 CACA
1 CACA
12802520 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:12807562 original size:23 final size:23
Alignment explanation
Indices: 12807536--12807611 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
12807526 ATAAGTGCCA
12807536 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
12807559 CACTGATACGTAGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
*
12807582 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
12807605 CACTGAT
1 CACTGAT
12807612 CAATAACACT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.02
23 45 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:12817988 original size:24 final size:26
Alignment explanation
Indices: 12817936--12817989 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
12817926 TTTCTCCTAA
*
12817936 ATTTCAATTTTATTTGATTATTTAGT
1 ATTTCAATTTTATTTGATTATTTAAT
12817962 ATTTCAA-TTTA-TTGAATTA-TTAAT
1 ATTTCAATTTTATTTG-ATTATTTAAT
12817986 ATTT
1 ATTT
12817990 TATACAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 11 0.42
25 8 0.31
26 7 0.27
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (26 bp):
ATTTCAATTTTATTTGATTATTTAAT
Found at i:12821488 original size:62 final size:62
Alignment explanation
Indices: 12821386--12821511 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 62
12821376 ACCTATAAAT
* *
12821386 ACCCCATTCACCTATTCATATCAACACACCTCTCATTCCTCATATCTCTCTCTCTTTCACTC
1 ACCCAATTCACCTATTCATATCAACACACCTCTCATTCCTCACATCTCTCTCTCTTTCACTC
* * *
12821448 ACCCAATTCACCTATTCATTTCAACACACCTTTCATTCCTCACATCTCTCTCTCTTTCATTC
1 ACCCAATTCACCTATTCATATCAACACACCTCTCATTCCTCACATCTCTCTCTCTTTCACTC
12821510 AC
1 AC
12821512 TTTCTCTTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.23, C:0.40, G:0.00, T:0.37
Consensus pattern (62 bp):
ACCCAATTCACCTATTCATATCAACACACCTCTCATTCCTCACATCTCTCTCTCTTTCACTC
Found at i:12822559 original size:35 final size:35
Alignment explanation
Indices: 12822513--12822584 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
12822503 TTAACCTAAA
12822513 ATATCACCAACATCATCATTGCCTTATAGATTTCT
1 ATATCACCAACATCATCATTGCCTTATAGATTTCT
*
12822548 ATATCACCAACATCATTATTGCCTTATAGATTTCT
1 ATATCACCAACATCATCATTGCCTTATAGATTTCT
12822583 AT
1 AT
12822585 CTCTTCTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.39
Consensus pattern (35 bp):
ATATCACCAACATCATCATTGCCTTATAGATTTCT
Found at i:12825386 original size:15 final size:14
Alignment explanation
Indices: 12825348--12825390 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
12825338 ATAGATGATA
12825348 TTTATT-TTTAATT
1 TTTATTCTTTAATT
12825361 TTTATTCTTTAATT
1 TTTATTCTTTAATT
*
12825375 TTTATTTGTTTAATT
1 TTTA-TTCTTTAATT
12825390 T
1 T
12825391 CTTTTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 6 0.22
14 11 0.41
15 10 0.37
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTATTCTTTAATT
Found at i:12828365 original size:41 final size:41
Alignment explanation
Indices: 12828303--12828453 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
12828293 TAGCAACCCA
* * * *
12828303 TCGGGGAATCTGCACTCAGCAAACCCTGTTTGATCAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATTAGAGTT
*
12828344 TCGGGGAATCTACACTTAGCAACCCCTTTTTGATTAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATTAGAGTT
** * *
12828385 TCCAGGAATCTGCACTTAGCAACCCCTTTTTGATTAGTGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATTAGAGTT
12828426 TCGGGGAATCTGCACTTAGCAACCCCTT
1 TCGGGGAATCTGCACTTAGCAACCCCTT
12828454 ACATTCAATG
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (41 bp):
TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATTAGAGTT
Found at i:12834929 original size:26 final size:26
Alignment explanation
Indices: 12834894--12834945 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
12834884 AATGTGAAAG
*
12834894 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
12834920 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
12834946 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:12835093 original size:104 final size:104
Alignment explanation
Indices: 12834816--12835184 Score: 584
Period size: 103 Copynumber: 3.6 Consensus size: 104
12834806 TGTATATAAA
** * * *
12834816 AGGGGTTGCTGTGTGCTGATTCCCCGAGTCATTGGTGGTGCT-ATGTGCG-TGATCTACCATATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTCA-GTGCGAT-ATCCACCGTATC
**
12834879 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
64 TTTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
12834919 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTCAGTGCGATATCCACCGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTCAGTGCGATATCCACCGTATCTT
12834984 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
12835022 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTCAGTGCGATATCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTCAGTGCGATATCCACCGTATCT
12835087 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * **
12835127 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTCAGTGCGATATCCACC
12835185 AATAACGGTT
Statistics
Matches: 251, Mismatches: 10, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
102 24 0.10
103 95 0.38
104 74 0.29
105 58 0.23
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTCAGTGCGATATCCACCGTATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:12839489 original size:1 final size:1
Alignment explanation
Indices: 12839483--12839527 Score: 90
Period size: 1 Copynumber: 45.0 Consensus size: 1
12839473 TGATCTTAAG
12839483 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12839528 TGAGTTCTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12842672 original size:103 final size:104
Alignment explanation
Indices: 12842402--12842772 Score: 575
Period size: 104 Copynumber: 3.6 Consensus size: 104
12842392 TGTATATAAA
** * * *
12842402 AGGGGTTGCTGTGTTCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCGTATCT
** *
12842466 TTGAAATGTGAAAGGGGGTTGCTATGTGTTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
12842506 AGGGGTTGCTAAGTGTTGATTCCCTGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
12842571 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
12842610 AGGGGTTTCTAAGTGCTGATTCCCCGATTCATTGGTGATGCTAAGTGCGATATCCACCGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
12842675 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
12842714 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCG
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCG
12842773 ATAACGGTTA
Statistics
Matches: 246, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
103 44 0.18
104 160 0.65
105 41 0.17
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.32
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:12845123 original size:50 final size:50
Alignment explanation
Indices: 12845057--12845160 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
12845047 ATATATTTAA
12845057 ATCATACTTAACATTTTAACTATCATCATTAGCATTGTATAAAATAATTT
1 ATCATACTTAACATTTTAACTATCATCATTAGCATTGTATAAAATAATTT
12845107 ATCATACTTAACATTTTAACTATCATCATTAGCATTGTATAAAATAATTT
1 ATCATACTTAACATTTTAACTATCATCATTAGCATTGTATAAAATAATTT
12845157 ATCA
1 ATCA
12845161 AATAACATAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.41
Consensus pattern (50 bp):
ATCATACTTAACATTTTAACTATCATCATTAGCATTGTATAAAATAATTT
Found at i:12846364 original size:41 final size:41
Alignment explanation
Indices: 12846316--12846504 Score: 180
Period size: 41 Copynumber: 4.6 Consensus size: 41
12846306 CAATAATTCA
* * * *
12846316 GGGAATCTGCAGTTAGCAACTCCTTGTTGCTTAGAGTTTCG
1 GGGAATCTGCACTTAGCAACACCTTGTTGATCAGAGTTTCG
* * *
12846357 GGGAATCTGCACTTAGCAACACCTTTTTTATCAGAGTTTTG
1 GGGAATCTGCACTTAGCAACACCTTGTTGATCAGAGTTTCG
* * * * * *
12846398 GGGAATCTGCACTTAGCAACCCCTTTTTTATCAGCGATTCA
1 GGGAATCTGCACTTAGCAACACCTTGTTGATCAGAGTTTCG
* * * * * * *
12846439 AGGAATCTGCACTTAGCAACCCCTTTTTGATAAGTGATTCT
1 GGGAATCTGCACTTAGCAACACCTTGTTGATCAGAGTTTCG
* *
12846480 GGGAGTCTGCACTTAGCAACCCCTT
1 GGGAATCTGCACTTAGCAACACCTT
12846505 ACATTCAATG
Statistics
Matches: 129, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 129 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (41 bp):
GGGAATCTGCACTTAGCAACACCTTGTTGATCAGAGTTTCG
Found at i:12852359 original size:6 final size:6
Alignment explanation
Indices: 12852348--12852372 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12852338 TCGTGTCCCA
12852348 GCCCGT GCCCGT GCCCGT GCCCGT G
1 GCCCGT GCCCGT GCCCGT GCCCGT G
12852373 TAACTCTTTA
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:0.00, C:0.48, G:0.36, T:0.16
Consensus pattern (6 bp):
GCCCGT
Found at i:12868745 original size:50 final size:49
Alignment explanation
Indices: 12868594--12868885 Score: 208
Period size: 50 Copynumber: 5.8 Consensus size: 49
12868584 GATAATAACA
* * * ** * * * *
12868594 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTTTCCTAT-GC
1 TGCCAACGCCATGTCCCAGACATGGTCTTA-GTGGGACCTCTCATCTCGG
* * * * * ** * *
12868643 TGCCAATGCCATATCCCAGATATGGTCTTACATGGAAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTA-GTGGGACCTCTCATCTCGG
* ** * * *
12868693 TGCCCATTCCATGTCCTATACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTA-GTGGGACCTCTCATCTCGG
* * * * *
12868743 TGCCAACTCCATGTCCCAGACATGGTCTTACATGAGACCTTTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTA-GTGGGACCTCTCATCTCGG
* * *
12868793 TACCAACGCCATGTCCTAGACATGGTCTTAGATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAG-TGGGACCTCTCATCTCGG
* *
12868843 TGCCAAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCC-AACGCCATGTCCCAGACATGGTCTTA-GTGGGACCTCT
12868886 TTACCCAAAT
Statistics
Matches: 195, Mismatches: 44, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
49 38 0.19
50 123 0.63
51 34 0.17
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (49 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTAGTGGGACCTCTCATCTCGG
Found at i:12868774 original size:100 final size:99
Alignment explanation
Indices: 12868643--12868878 Score: 287
Period size: 100 Copynumber: 2.4 Consensus size: 99
12868633 TTTCCTATGC
* * * * * * **
12868643 TGCCAATGCCATATCCCAGATATGGTCTTACATGGAAGTTCTCATATTGGTGCCCATTCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGAACTT-TCATATCGGTACCAACGCCATGTC
*
12868708 CTATACATGGTCTTATG-GGGGACCTCTCATCTCGG
65 CTAGACATGGTCTTA-GAGGGGACCTCTCATCTCGG
* * *
12868743 TGCCAACT-CCATGTCCCAGACATGGTCTTACATGAGACCTTTTATCTCGGTACCAACGCCATGT
1 TGCCAA-TGCCATGTCCCAGACATGGTCTTACATG-GAACTTTCATATCGGTACCAACGCCATGT
* *
12868807 CCTAGACATGGTCTTAGATGGGACCTCTTATCTCGG
64 CCTAGACATGGTCTTAGAGGGGACCTCTCATCTCGG
12868843 TGCCAAATGCCATGTCCCAGACATGGTCTTACATGG
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACATGG
12868879 GACCTCTTTA
Statistics
Matches: 117, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
99 1 0.01
100 83 0.71
101 33 0.28
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (99 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGAACTTTCATATCGGTACCAACGCCATGTCC
TAGACATGGTCTTAGAGGGGACCTCTCATCTCGG
Found at i:12900688 original size:41 final size:41
Alignment explanation
Indices: 12900628--12900731 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 41
12900618 TAATTATTCA
** *
12900628 CTGAATTGCACATGTGTGCCCGAATTTGTACTTAGGTACCC
1 CTGAATTGCACATACGTGCCCCAATTTGTACTTAGGTACCC
* *
12900669 CTGAATTGCACATACGTGCCCCTATTTGTACTTTGGTACCC
1 CTGAATTGCACATACGTGCCCCAATTTGTACTTAGGTACCC
* *
12900710 TTGAATTGCACATACTTGCCCC
1 CTGAATTGCACATACGTGCCCC
12900732 TGTTTACACT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (41 bp):
CTGAATTGCACATACGTGCCCCAATTTGTACTTAGGTACCC
Found at i:12900691 original size:21 final size:21
Alignment explanation
Indices: 12900666--12900733 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
12900656 TACTTAGGTA
12900666 CCCCTGAATTGCACATACGTG
1 CCCCTGAATTGCACATACGTG
* * * ** *
12900687 CCCCT-ATTTGTACTTTGGTA
1 CCCCTGAATTGCACATACGTG
* *
12900707 CCCTTGAATTGCACATACTTG
1 CCCCTGAATTGCACATACGTG
12900728 CCCCTG
1 CCCCTG
12900734 TTTACACTTT
Statistics
Matches: 31, Mismatches: 15, Indels: 2
0.65 0.31 0.04
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.32
Consensus pattern (21 bp):
CCCCTGAATTGCACATACGTG
Found at i:12900743 original size:41 final size:41
Alignment explanation
Indices: 12900628--12900744 Score: 126
Period size: 41 Copynumber: 2.9 Consensus size: 41
12900618 TAATTATTCA
** ** ** *
12900628 CTGAATTGCACATGTGTGCCCGAATTTGTACTTAGGTACCC
1 CTGAATTGCACATACGTGCCCCTATTTACACTTTGGTACCC
**
12900669 CTGAATTGCACATACGTGCCCCTATTTGTACTTTGGTACCC
1 CTGAATTGCACATACGTGCCCCTATTTACACTTTGGTACCC
* * *
12900710 TTGAATTGCACATACTTGCCCCTGTTTACACTTTG
1 CTGAATTGCACATACGTGCCCCTATTTACACTTTG
12900745 ATAACTTTGA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (41 bp):
CTGAATTGCACATACGTGCCCCTATTTACACTTTGGTACCC
Found at i:12900755 original size:41 final size:41
Alignment explanation
Indices: 12900670--12900756 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
12900660 TAGGTACCCC
** * *
12900670 TGAATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCT
1 TGAATTGCACATACGTGCCCCTATTTACACTTTGATAACCT
* * *
12900711 TGAATTGCACATACTTGCCCCTGTTTACACTTTGATAACTT
1 TGAATTGCACATACGTGCCCCTATTTACACTTTGATAACCT
12900752 TGAAT
1 TGAAT
12900757 CGAGTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTATTTACACTTTGATAACCT
Found at i:12904606 original size:14 final size:14
Alignment explanation
Indices: 12904587--12904620 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12904577 AAATTAATCT
12904587 AAATGAAAAGTATG
1 AAATGAAAAGTATG
*
12904601 AAATGAAATGTATG
1 AAATGAAAAGTATG
*
12904615 ATATGA
1 AAATGA
12904621 GTTTAGCAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (14 bp):
AAATGAAAAGTATG
Found at i:12906123 original size:15 final size:15
Alignment explanation
Indices: 12906103--12906131 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12906093 CAAACATAAT
12906103 TTAACACATATCAAA
1 TTAACACATATCAAA
12906118 TTAACACATATCAA
1 TTAACACATATCAA
12906132 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTAACACATATCAAA
Found at i:12906607 original size:20 final size:20
Alignment explanation
Indices: 12906580--12906626 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
12906570 CCTTTCAAAT
12906580 TTTC-TTATTTTC-ATTTGCA
1 TTTCATTATTTTCTA-TTGCA
12906599 TTTCATTATTTTCTATTGCA
1 TTTCATTATTTTCTATTGCA
12906619 TTTACATT
1 TTT-CATT
12906627 CTTTAGCGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.16
20 16 0.64
21 5 0.20
ACGTcount: A:0.19, C:0.15, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTCATTATTTTCTATTGCA
Found at i:12912387 original size:15 final size:16
Alignment explanation
Indices: 12912358--12912387 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12912348 CAAACATACT
12912358 TTAACACATTATCAAA
1 TTAACACATTATCAAA
12912374 TTAACACA-TATCAA
1 TTAACACATTATCAA
12912388 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Done.