Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 195 of 213
Found at i:58515459 original size:12 final size:12
Alignment explanation
Indices: 58515433--58515466 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
58515423 CCAAACACTT
58515433 AATTTTCTC-TC
1 AATTTTCTCATC
*
58515444 AATTTCCTCATC
1 AATTTTCTCATC
58515456 AATTTTCTCAT
1 AATTTTCTCAT
58515467 TCTTCTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTTTCTCATC
Found at i:58520806 original size:6 final size:6
Alignment explanation
Indices: 58520783--58520817 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
58520773 TTCCAAATAA
58520783 TTTCAT TTCTCTAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TT-TC-AT TTTCAT TTTCAT TTTCAT TTT
58520818 GGAGAAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTCAT
Found at i:58527598 original size:5 final size:5
Alignment explanation
Indices: 58527590--58527618 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
58527580 TTAAAAGAAA
58527590 AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATA
58527619 AATGATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:58532390 original size:18 final size:20
Alignment explanation
Indices: 58532346--58532391 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
58532336 CCCTAACAAA
58532346 TTCTTCTATTCTCTCATTCTT
1 TTCTTCTATTCTCT-ATTCTT
**
58532367 CCCTTCT-TTCTCT-TTCTT
1 TTCTTCTATTCTCTATTCTT
58532385 TTCTTCT
1 TTCTTCT
58532392 CTGTTGGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
18 10 0.48
20 6 0.29
21 5 0.24
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (20 bp):
TTCTTCTATTCTCTATTCTT
Found at i:58537346 original size:26 final size:26
Alignment explanation
Indices: 58537274--58537351 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
58537264 TTGTCAAAAA
* **
58537274 TATAACAA-ATATATATGTATATAAAT
1 TATAA-AATATATATAAGTATATGTAT
*
58537300 TATAAAATATATGTACA-TATATGTAT
1 TATAAAATATATATA-AGTATATGTAT
* *
58537326 TATAAAATGTATATAAGTATACGTAT
1 TATAAAATATATATAAGTATATGTAT
58537352 ATTTTAAGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
25 3 0.07
26 39 0.93
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (26 bp):
TATAAAATATATATAAGTATATGTAT
Found at i:58537440 original size:58 final size:59
Alignment explanation
Indices: 58537378--58537496 Score: 134
Period size: 58 Copynumber: 2.0 Consensus size: 59
58537368 TACAAAAAAA
* * * *
58537378 AAGAATATATGTATGTATA-TATATAGGAGTTATAAAATGTAAAACACATATATAT-TAT
1 AAGAATACATGTATATATATTATATA-AAGTTATAAAATATAAAACACATATATATGTAT
* * * * *
58537436 AAGAATGCATGTATATATATTTTTTAAAGTTATAGAATATAAAACACATATGTATGTAT
1 AAGAATACATGTATATATATTATATAAAGTTATAAAATATAAAACACATATATATGTAT
58537495 AA
1 AA
58537497 ATATATAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
58 41 0.82
59 9 0.18
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (59 bp):
AAGAATACATGTATATATATTATATAAAGTTATAAAATATAAAACACATATATATGTAT
Found at i:58539390 original size:44 final size:44
Alignment explanation
Indices: 58539289--58539407 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 44
58539279 TCATCCTTTT
* * ** *
58539289 AATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAAATTAGTAGCTAC
*
58539333 AATCTGCTCCACTGCAACTTCAGGGAGATAAAACTT-GTATCTAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAAA-TTAGTAGCTAC
* ** *
58539377 AA-CTTGCTTCACTGCGGCTTTAGGGAGATAA
1 AATC-TGCTCCACTGCAACTTCAGGGAGATAA
58539408 GGTTGGTGGC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 1 0.02
44 60 0.95
45 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAAATTAGTAGCTAC
Found at i:58539555 original size:45 final size:45
Alignment explanation
Indices: 58539504--58540260 Score: 630
Period size: 45 Copynumber: 16.9 Consensus size: 45
58539494 AGGACCAGCT
* * *
58539504 TTCGATCTACTTCACTGTCAGTACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * * *
58539549 TTCGATCTACTTCGCTACCGATACTGGAAGACAAGATCTACAATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * *** * * *
58539594 TTCGACCTA-TTCCACTACTGCTGA-AGG-AGACAATATATACTATC
1 TTCGATCTACTT-CGCTGCCAAT-ACAGGAAGACAAGATCTGCTATC
* * * * *
58539638 TTC-AGTATACTTTGCTGCCAATACAGGAAGATAAGGTTTGCTATC
1 TTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
58539683 TTCGATCCACTTTGCTGCCAATACCGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
58539728 TTC-AGTCTACTTCGTTGTCAATACAAGAAGACAAGA-CTTGCTATC
1 TTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATC
* *
58539773 TTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
58539818 TTC-AGTCTACTTCACTGTCAATACAGGAAGACAAGA-CTTGCTATC
1 TTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATC
* * * *
58539863 TTCAATCTACTTCGCTGCCAATACAAGAAGACAATATCTGCAATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * ** *** **
58539908 TTCAACCTACTCCATTGCTGCT-CAGGGGGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
** *
58539952 TTC-AGTCTACTTCGCTGATAATACAGGAAGATAAGA-CTTGCTATC
1 TTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATC
* *
58539997 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTG-TAATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT-ATC
* * * * ** *
58540042 TTTGACCTACTCCACT-CCTGCT-CAAGG-AGACAAGATCTACTATC
1 TTCGATCTACTTCGCTGCC-AATAC-AGGAAGACAAGATCTGCTATC
*
58540086 TTC-AGTCTACTTCGCTGCCAATACAGGAAGACAAG-GCTTGCTATC
1 TTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATC
* * * *
58540131 TTCAATTTACTTTGCTGCCAATACAGAAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * *
58540176 TTTGATCCACTTTGCTGCCAATACAGGAAGATAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * *
58540221 TTTGACCTACTTCGCTGCCAATACAGGAAAATAAGATCTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
58540261 TAATTTTTAG
Statistics
Matches: 572, Mismatches: 109, Indels: 62
0.77 0.15 0.08
Matches are distributed among these distances:
43 4 0.01
44 96 0.17
45 462 0.81
46 10 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (45 bp):
TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
Found at i:58540130 original size:179 final size:180
Alignment explanation
Indices: 58539652--58540260 Score: 583
Period size: 179 Copynumber: 3.4 Consensus size: 180
58539642 GTATACTTTG
* * * * *** **
58539652 CTGCCAATACAGGAAGATAAGGTTTGCTATCTTCGATCC-ACTTTGCTGCCAATACCGGAAGACA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTTGA-CCTACTCCACTGCCAATACAAGAAGACA
* * * *
58539716 AGATCTGCTATCTTCAGTCTACTTCGTTGTCAATACAAGAAGACAAGACTTGCTATCTT-TGATC
65 AGATCTGCTATCTTCAGTCTACTTCGTTGCCAATACAGGAAGACAAGGCTTGCTATCTTCAG-TC
*
58539780 TACTTCGCT-ACCAATACAGGAAGACAAGATCTGCTATC-TTCAGTCTACTTCA
129 TACTTCGCTGA-CAATACAGGAAGACAAGATCTGCTATCTTTGA-TCTACTTCA
* ** * * *
58539832 CTGTCAATACAGGAAGACAAGA-CTTGCTATCTTCAATCTACTTCGCTGCCAATACAAGAAGACA
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTTGACCTACTCCACTGCCAATACAAGAAGACA
* * ** * * *** ** *
58539896 ATATCTGCAATCTTCAACCTACTCCATTGCTGCT-CAGGGGGACAA-GATCTGCTATCTTCAGTC
65 AGATCTGCTATCTTCAGTCTACTTCGTTGCCAATACAGGAAGACAAGGCT-TGCTATCTTCAGTC
* *
58539959 TACTTCGCTGATAATACAGGAAGATAAGA-CTTGCTATCTTTGATCTACTTCA
129 TACTTCGCTGACAATACAGGAAGACAAGATC-TGCTATCTTTGATCTACTTCA
** *
58540011 CTGCCAATACAGGAAGACAAGATCTG-TAATCTTTGACCTACTCCACT-CCTGCT-CAAGGAGAC
1 CTGCCAATACAGGAAGACAAGATCTGCT-ATCTTTGACCTACTCCACTGCC-AATACAAGAAGAC
* * * *
58540073 AAGATCTACTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGACAAGGCTTGCTATCTTCAATT
64 AAGATCTGCTATCTTCAGTCTACTTCGTTGCCAATACAGGAAGACAAGGCTTGCTATCTTCAGTC
* * * * **
58540138 TACTTTGCTGCCAATACAGAAAGACAAGATCTGCTATCTTTGATCCACTTTG
129 TACTTCGCTGACAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA
* * * * * *
58540190 CTGCCAATACAGGAAGATAAGATCTGCTATCTTTGACCTACTTCGCTGCCAATACAGGAAAATAA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTTGACCTACTCCACTGCCAATACAAGAAGACAA
58540255 GATCTG
66 GATCTG
58540261 TAATTTTTAG
Statistics
Matches: 342, Mismatches: 71, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
178 37 0.11
179 205 0.60
180 100 0.29
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (180 bp):
CTGCCAATACAGGAAGACAAGATCTGCTATCTTTGACCTACTCCACTGCCAATACAAGAAGACAA
GATCTGCTATCTTCAGTCTACTTCGTTGCCAATACAGGAAGACAAGGCTTGCTATCTTCAGTCTA
CTTCGCTGACAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA
Found at i:58540178 original size:134 final size:134
Alignment explanation
Indices: 58539676--58540180 Score: 601
Period size: 134 Copynumber: 3.8 Consensus size: 134
58539666 AGATAAGGTT
* * * *
58539676 TGCTATCTTC-GATCCACTTTGCTGCCAATACCGGAAGACAAGA-TCTGCTATCTTCAGTCTACT
1 TGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGAAGACAAGACT-TGCTATCTTCAATCTACT
* * * * * **
58539739 TCGTTGTCAATACAAGAAGACAAGA-CTTGCTATCTTTGATCTACTTCGCTACC-AAT-ACAGGA
64 TCGCTGCCAATACAAGAAGACAAGATC-TGCTATCTTTGACCTACTCCACT-CCTGCTCA-AGG-
58539801 AGACAAGATC
125 AGACAAGATC
* *
58539811 TGCTATCTTCAGTCTACTTCACTGTCAATACAGGAAGACAAGACTTGCTATCTTCAATCTACTTC
1 TGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGACAAGACTTGCTATCTTCAATCTACTTC
* * ** * * * *
58539876 GCTGCCAATACAAGAAGACAATATCTGCAATCTTCAACCTACTCCATTGCTGCTCAGGGGGACAA
66 GCTGCCAATACAAGAAGACAAGATCTGCTATCTTTGACCTACTCCACTCCTGCTCAAGGAGACAA
58539941 GATC
131 GATC
** * **
58539945 TGCTATCTTCAGTCTACTTCGCTGATAATACAGGAAGATAAGACTTGCTATCTTTGATCTACTTC
1 TGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGACAAGACTTGCTATCTTCAATCTACTTC
* *
58540010 ACTGCCAATACAGGAAGACAAGATCTG-TAATCTTTGACCTACTCCACTCCTGCTCAAGGAGACA
66 GCTGCCAATACAAGAAGACAAGATCTGCT-ATCTTTGACCTACTCCACTCCTGCTCAAGGAGACA
58540074 AGATC
130 AGATC
* * * *
58540079 TACTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGACAAGGCTTGCTATCTTCAATTTACTTT
1 TGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGACAAGACTTGCTATCTTCAATCTACTTC
58540144 GCTGCCAATAC-AGAAAGACAAGATCTGCTATCTTTGA
66 GCTGCCAATACAAG-AAGACAAGATCTGCTATCTTTGA
58540181 TCCACTTTGC
Statistics
Matches: 314, Mismatches: 48, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
133 1 0.00
134 214 0.68
135 95 0.30
136 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (134 bp):
TGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGACAAGACTTGCTATCTTCAATCTACTTC
GCTGCCAATACAAGAAGACAAGATCTGCTATCTTTGACCTACTCCACTCCTGCTCAAGGAGACAA
GATC
Found at i:58540278 original size:224 final size:223
Alignment explanation
Indices: 58539509--58540278 Score: 814
Period size: 224 Copynumber: 3.4 Consensus size: 223
58539499 CAGCTTTCGA
* * * * *
58539509 TCTACTTCACTGTCAGTACAGGAAGACAAGA-TCTGCTATCTTCGATCTACTTCGCTACCGATAC
1 TCTACTTCGCTGACAATACAGGAAGACAAGACT-TGCTATCTTTGATCTACTTCGCTACCAATAC
* ** * * * *
58539573 TGGAAGACAAGATCTACAATC-TTCGACCTATTCCACTACTGCTGAAGGAGACAATATATACTAT
65 AGGAAGACAAGATCTGTAATCTTTAGACCTACTCCACT-CTGCT-AAGGAGACAAGATCTACTAT
* * * * * *
58539637 CTTCAGTATACTTTGCTGCCAATACAGGAAGATAAGGTTTGCTATCTTCGATCCACTTTGCTGCC
128 CTTCAGTCTACTTCGCTGCCAATACAGGAAGACAAGGATTGCTATCTTCAATCTACTTTGCTGCC
*
58539702 AATACCGGAAGACAAGATCTGCTATCTTCAG
193 AATACAGGAAGACAAGATCTGCTATCTTCAG
* * *
58539733 TCTACTTCGTTGTCAATACAAGAAGACAAGACTTGCTATCTTTGATCTACTTCGCTACCAATACA
1 TCTACTTCGCTGACAATACAGGAAGACAAGACTTGCTATCTTTGATCTACTTCGCTACCAATACA
* * * * *
58539798 GGAAGACAAGATCTGCT-ATCTTCAG-TCTACTTCACTGT-CAATACAGGAAGACAAGA-CTTGC
66 GGAAGACAAGATCTG-TAATCTTTAGACCTACTCCACTCTGC--TA-AGG-AGACAAGATC-TAC
* * * * *
58539859 TATCTTCAATCTACTTCGCTGCCAATACAAGAAGACAA-TATCTGCAATCTTCAACCTACTCCAT
125 TATCTTCAGTCTACTTCGCTGCCAATACAGGAAGACAAGGAT-TGCTATCTTCAATCTACT---T
**
58539923 TGCTG-C--T-CAGGGGGACAAGATCTGCTATCTTCAG
186 TGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
* * * *
58539957 TCTACTTCGCTGATAATACAGGAAGATAAGACTTGCTATCTTTGATCTACTTCACTGCCAATACA
1 TCTACTTCGCTGACAATACAGGAAGACAAGACTTGCTATCTTTGATCTACTTCGCTACCAATACA
58540022 GGAAGACAAGATCTGTAATCTTT-GACCTACTCCACTCCTGCTCAAGGAGACAAGATCTACTATC
66 GGAAGACAAGATCTGTAATCTTTAGACCTACTCCACT-CTGCT-AAGGAGACAAGATCTACTATC
* *
58540086 TTCAGTCTACTTCGCTGCCAATACAGGAAGACAAGGCTTGCTATCTTCAATTTACTTTGCTGCCA
129 TTCAGTCTACTTCGCTGCCAATACAGGAAGACAAGGATTGCTATCTTCAATCTACTTTGCTGCCA
* *
58540151 ATACAGAAAGACAAGATCTGCTATCTT-TG
194 ATACAGGAAGACAAGATCTGCTATCTTCAG
* * * * * *
58540180 ATCCACTTTGCTGCCAATACAGGAAGATAAGA-TCTGCTATCTTTGACCTACTTCGCTGCCAATA
1 -TCTACTTCGCTGACAATACAGGAAGACAAGACT-TGCTATCTTTGATCTACTTCGCTACCAATA
* * * *
58540244 CAGGAAAATAAGATCTGTAATTTTTAG-TCTACTCC
64 CAGGAAGACAAGATCTGTAATCTTTAGACCTACTCC
58540279 GCTGTAATTC
Statistics
Matches: 455, Mismatches: 65, Indels: 52
0.80 0.11 0.09
Matches are distributed among these distances:
220 6 0.01
221 1 0.00
222 1 0.00
223 68 0.15
224 308 0.68
225 63 0.14
226 1 0.00
227 1 0.00
228 6 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (223 bp):
TCTACTTCGCTGACAATACAGGAAGACAAGACTTGCTATCTTTGATCTACTTCGCTACCAATACA
GGAAGACAAGATCTGTAATCTTTAGACCTACTCCACTCTGCTAAGGAGACAAGATCTACTATCTT
CAGTCTACTTCGCTGCCAATACAGGAAGACAAGGATTGCTATCTTCAATCTACTTTGCTGCCAAT
ACAGGAAGACAAGATCTGCTATCTTCAG
Found at i:58541243 original size:14 final size:13
Alignment explanation
Indices: 58541220--58541263 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
58541210 TGGCCTCTCA
58541220 TTTTTCTTTTTAT
1 TTTTTCTTTTTAT
58541233 TTTTTCGTTTTTAT
1 TTTTTC-TTTTTAT
*
58541247 TTTATT-TTTTTCT
1 TTT-TTCTTTTTAT
58541260 TTTT
1 TTTT
58541264 GTTTCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 1 0.04
13 15 0.54
14 10 0.36
15 2 0.07
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.84
Consensus pattern (13 bp):
TTTTTCTTTTTAT
Found at i:58541273 original size:19 final size:20
Alignment explanation
Indices: 58541227--58541263 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
58541217 TCATTTTTCT
58541227 TTTTA-TTTTTTCGTTTTTA
1 TTTTATTTTTTTCGTTTTTA
58541246 TTTTATTTTTTTC-TTTTT
1 TTTTATTTTTTTCGTTTTT
58541264 GTTTCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.84
Consensus pattern (20 bp):
TTTTATTTTTTTCGTTTTTA
Found at i:58541745 original size:8 final size:8
Alignment explanation
Indices: 58541700--58541745 Score: 60
Period size: 7 Copynumber: 5.9 Consensus size: 8
58541690 CCGGTTGAGG
*
58541700 TTTTTTTC
1 TTTTTTTA
58541708 TTTTTGTTA
1 TTTTT-TTA
58541717 TTTTTTTA
1 TTTTTTTA
58541725 -TTTTTTA
1 TTTTTTTA
58541732 -TTTTTTA
1 TTTTTTTA
58541739 TTTTTTT
1 TTTTTTT
58541746 CCACTTGTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
7 14 0.40
8 14 0.40
9 7 0.20
ACGTcount: A:0.09, C:0.02, G:0.02, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:58548195 original size:26 final size:26
Alignment explanation
Indices: 58548123--58548200 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
58548113 TTGTCAAAAA
* **
58548123 TATAACAA-ATATATATGTATATAAAT
1 TATAA-AATATATATAAGTATATGTAT
*
58548149 TATAAAATATATGTACA-TATATGTAT
1 TATAAAATATATATA-AGTATATGTAT
* *
58548175 TATAAAATGTATATAAGTATACGTAT
1 TATAAAATATATATAAGTATATGTAT
58548201 ATTTTAAGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
25 3 0.07
26 39 0.93
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (26 bp):
TATAAAATATATATAAGTATATGTAT
Found at i:58548289 original size:58 final size:59
Alignment explanation
Indices: 58548227--58548345 Score: 143
Period size: 58 Copynumber: 2.0 Consensus size: 59
58548217 TACAAAAAAA
* * * *
58548227 AAGAATATATGTATGTATATA-TATAGGAGTTATAAAATGTAAAACACATATATAT-TAT
1 AAGAATACATGTATATATATATTATA-AAGTTATAAAATATAAAACACATATATATGTAT
* * * *
58548285 AAGAATGCATGTATATATATATTTTAAAGTTATAGAATATAAAACACATATGTATGTAT
1 AAGAATACATGTATATATATATTATAAAGTTATAAAATATAAAACACATATATATGTAT
58548344 AA
1 AA
58548346 ATATATAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
58 43 0.84
59 8 0.16
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (59 bp):
AAGAATACATGTATATATATATTATAAAGTTATAAAATATAAAACACATATATATGTAT
Found at i:58550802 original size:94 final size:93
Alignment explanation
Indices: 58550640--58550913 Score: 301
Period size: 94 Copynumber: 2.9 Consensus size: 93
58550630 ATTATGTCAA
* ** * *
58550640 ATAAAAATATAAAGATTAAATCTTAAATTTTAGTTTACCAGAGGGATCAAAACTGAATTTTTACC
1 ATAAAAATATAAAGATT-AATCTTAAATTTGAGTTTAATAGA-GGATCAAAACTGAAATTTTATC
* *
58550705 ATTATAATTGAAATGGCAAGCAAAAG-CATG
64 ATTATAATTGAAATGGCAA-AAAAAGACAAG
*
58550735 -TAAAAATATAAAGATTAGATCTTAAATTTGAGTTTAATAGAAGGATCAAAACTAAAATTTTATC
1 ATAAAAATATAAAGATTA-ATCTTAAATTTGAGTTTAATAG-AGGATCAAAACTGAAATTTTATC
*
58550799 ATTATAATTGAAATGGCAAAAAAAGAAGAAG
64 ATTATAATTGAAATGGCAAAAAAAG-ACAAG
* *
58550830 ATAAAAATATAAAGATTAAACATTATATTTGAGTTTAACT-----ATCAAAACTGAAATTTTATC
1 ATAAAAATATAAAGATTAATC-TTAAATTTGAGTTTAA-TAGAGGATCAAAACTGAAATTTTATC
* **
58550890 ATTGTAATTGAAATGAAAAAAAAA
64 ATTATAATTGAAATGGCAAAAAAA
58550914 AGAACTTGTG
Statistics
Matches: 157, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
91 40 0.25
93 6 0.04
94 73 0.46
95 5 0.03
96 32 0.20
97 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (93 bp):
ATAAAAATATAAAGATTAATCTTAAATTTGAGTTTAATAGAGGATCAAAACTGAAATTTTATCAT
TATAATTGAAATGGCAAAAAAAGACAAG
Found at i:58564015 original size:17 final size:17
Alignment explanation
Indices: 58563993--58564027 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
58563983 ATTTTAGTCA
*
58563993 TGGAAGTTGTAGGTTTT
1 TGGAAGTCGTAGGTTTT
58564010 TGGAAGTCGTAGGTTTT
1 TGGAAGTCGTAGGTTTT
58564027 T
1 T
58564028 ACTTTGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.34, T:0.46
Consensus pattern (17 bp):
TGGAAGTCGTAGGTTTT
Found at i:58569583 original size:181 final size:181
Alignment explanation
Indices: 58569258--58569621 Score: 631
Period size: 181 Copynumber: 2.0 Consensus size: 181
58569248 CCTCCCGCCG
* * *
58569258 CATCCAGTAGTCGGTTCAGACAGTCATATGGAGTGGCTCAACATCAGGTTCCTTTATGCTCAAAA
1 CATCCAGTAGTCGGTTCAGACAGTCATACGGAGTGGCTCAACAACAGGGTCCTTTATGCTCAAAA
*
58569323 GTGCCTATGGAAGAATCCGAGGTAGGTCATGGAACCCAAAAGAGATAGTTTGGCAGCTTTCGTGG
66 GTGCCTATGGAAGAATCCGAGGTAGGTCATGGAACCCAAAAGAGATAGTTTGGCAGCTTCCGTGG
58569388 AAATTTTCGAGGCCTCAGAGGGTTAAATTCTTCTTTTGGCTTGCCCTTCAA
131 AAATTTTCGAGGCCTCAGAGGGTTAAATTCTTCTTTTGGCTTGCCCTTCAA
*
58569439 CATCTAGTAGTCGGTTC-GAACAGTCATACGGAGTGGCTCAACAACAGGGTCCTTTATGCTCAAA
1 CATCCAGTAGTCGGTTCAG-ACAGTCATACGGAGTGGCTCAACAACAGGGTCCTTTATGCTCAAA
*
58569503 AGTGCCTATGGAAGAATCCGAGGTAGGTTATGGAACCCAAAAGAGATAGTTTGGCAGCTTCCGTG
65 AGTGCCTATGGAAGAATCCGAGGTAGGTCATGGAACCCAAAAGAGATAGTTTGGCAGCTTCCGTG
* * *
58569568 GTAATTTTTGAGGCCTTAGAGGGTTAAATTCTTCTTTTGGCTTGCCCTTCAA
130 GAAATTTTCGAGGCCTCAGAGGGTTAAATTCTTCTTTTGGCTTGCCCTTCAA
58569620 CA
1 CA
58569622 GCGTATGCGT
Statistics
Matches: 173, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
180 1 0.01
181 172 0.99
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (181 bp):
CATCCAGTAGTCGGTTCAGACAGTCATACGGAGTGGCTCAACAACAGGGTCCTTTATGCTCAAAA
GTGCCTATGGAAGAATCCGAGGTAGGTCATGGAACCCAAAAGAGATAGTTTGGCAGCTTCCGTGG
AAATTTTCGAGGCCTCAGAGGGTTAAATTCTTCTTTTGGCTTGCCCTTCAA
Found at i:58576737 original size:13 final size:13
Alignment explanation
Indices: 58576719--58576743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58576709 CCCCCCCCCC
58576719 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
58576732 AAAAAAAAAAAA
1 AAAAAAAAAAAA
58576744 CCTCAGCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:58597782 original size:16 final size:16
Alignment explanation
Indices: 58597761--58597792 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58597751 ATAATTGAGA
*
58597761 AATAAAATCTAAACTT
1 AATAAAATCCAAACTT
58597777 AATAAAATCCAAACTT
1 AATAAAATCCAAACTT
58597793 GTCACTTTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (16 bp):
AATAAAATCCAAACTT
Found at i:58598862 original size:22 final size:22
Alignment explanation
Indices: 58598802--58598859 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
58598792 AATCTTCAAG
58598802 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
58598821 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
58598843 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
58598860 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:58599087 original size:23 final size:23
Alignment explanation
Indices: 58599043--58599087 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
58599033 TCTTATTTTG
* *
58599043 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
58599066 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
58599088 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:58605347 original size:21 final size:21
Alignment explanation
Indices: 58605323--58605365 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
58605313 CTTATCAATC
* *
58605323 AATTTATTCCATACTCAAGTT
1 AATTCATTCCATACTAAAGTT
58605344 AATTCATTCCATACTAAAGTT
1 AATTCATTCCATACTAAAGTT
58605365 A
1 A
58605366 GGGTTAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (21 bp):
AATTCATTCCATACTAAAGTT
Found at i:58605587 original size:31 final size:30
Alignment explanation
Indices: 58605536--58605597 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
58605526 AAGTACACAA
*
58605536 TGAATTTGGACAAGTTTTTGTACAATTCATT
1 TGAATTTGGACAAG-TTTTGTACAATACATT
*
58605567 TGAATTTGGACACCAG-TTTGTCCAATACATT
1 TGAATTTGGACA--AGTTTTGTACAATACATT
58605598 CTAAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 25 0.93
33 2 0.07
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (30 bp):
TGAATTTGGACAAGTTTTGTACAATACATT
Found at i:58607382 original size:23 final size:23
Alignment explanation
Indices: 58607351--58607394 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
58607341 CACTCGATCC
* *
58607351 AACCTAAAAGTCCATCTGAAAAG
1 AACCCAAAAATCCATCTGAAAAG
*
58607374 AACCCAAAAATCCATTTGAAA
1 AACCCAAAAATCCATCTGAAA
58607395 GTTAGAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.23, G:0.09, T:0.18
Consensus pattern (23 bp):
AACCCAAAAATCCATCTGAAAAG
Found at i:58609947 original size:121 final size:121
Alignment explanation
Indices: 58609733--58609965 Score: 358
Period size: 121 Copynumber: 1.9 Consensus size: 121
58609723 AAGGCGACGC
* *
58609733 AGGTGAGTAAGAAGCCGGGATATCTGAAATTAATAGGTCATAACAGTAGGTATGCTATGCCAAAA
1 AGGTGAGTAAGAAGCCGGGATATCTGAAATTAATAGATCATAACAGCAGGTATGCTATGCCAAAA
* * * *
58609798 CATCGGCCTTTCCTCTTTGGCCTTTTAAACAGGCGCTGCCTTTTAGCAGGCAACAT
66 CATCGGCCTCTCCTCTTCGGCCCTTTAAACAGGCACTGCCTTTTAGCAGGCAACAT
* * * *
58609854 AGGTGAGTAATAAGTCGGGGTATCTGAAATTAATAGATCATAACAGCATGTATGCTATGCCAAAA
1 AGGTGAGTAAGAAGCCGGGATATCTGAAATTAATAGATCATAACAGCAGGTATGCTATGCCAAAA
* *
58609919 CATCGGTCTCTCCTCTTCGGCCCTTTAAACAGGCACTGTCTTTTAGC
66 CATCGGCCTCTCCTCTTCGGCCCTTTAAACAGGCACTGCCTTTTAGC
58609966 TGTTAATCTC
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
121 100 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (121 bp):
AGGTGAGTAAGAAGCCGGGATATCTGAAATTAATAGATCATAACAGCAGGTATGCTATGCCAAAA
CATCGGCCTCTCCTCTTCGGCCCTTTAAACAGGCACTGCCTTTTAGCAGGCAACAT
Found at i:58612910 original size:121 final size:121
Alignment explanation
Indices: 58612682--58612913 Score: 347
Period size: 121 Copynumber: 1.9 Consensus size: 121
58612672 CAGCTTTTTA
* *
58612682 TGCTAAAAGGCAGTGCCTGTTTAAAAGGCCAAAGAGGAGAGACCGATGTTTTGGCATATCATACA
1 TGCTAAAAGGCAGCGCCTGTTTAAAAGGCCAAAGAGGAGAGACCGATGTTTTGGCATAGCATACA
* * *
58612747 TGTTGTTATGATCTATTAATTTCAGATACCCCGGCTTATTACTCACTTGCGTCGCC
66 TGCTGTTATGATATATTAATTTCAGATACCCCAGCTTATTACTCACTTGCGTCGCC
* * * * *
58612803 TGCTAAAAGGCTGCGCTTGTTTAAAGGGCCAAAGAGGAGAGGCCGATGTTTTGGCATAGCATACC
1 TGCTAAAAGGCAGCGCCTGTTTAAAAGGCCAAAGAGGAGAGACCGATGTTTTGGCATAGCATACA
* * *
58612868 TGCTGTTATGATATATTAATTTCAGATATCCTAGCTTCTTACTCAC
66 TGCTGTTATGATATATTAATTTCAGATACCCCAGCTTATTACTCAC
58612914 CTGTGTTGCC
Statistics
Matches: 98, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
121 98 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (121 bp):
TGCTAAAAGGCAGCGCCTGTTTAAAAGGCCAAAGAGGAGAGACCGATGTTTTGGCATAGCATACA
TGCTGTTATGATATATTAATTTCAGATACCCCAGCTTATTACTCACTTGCGTCGCC
Found at i:58636188 original size:22 final size:22
Alignment explanation
Indices: 58636163--58636205 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
58636153 TGCTGCTATT
58636163 TTACTA-TCATTTTATTATTATA
1 TTACTACT-ATTTTATTATTATA
*
58636185 TTACTACTATTTTGTTATTAT
1 TTACTACTATTTTATTATTAT
58636206 TGTTTGGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (22 bp):
TTACTACTATTTTATTATTATA
Found at i:58639027 original size:5 final size:5
Alignment explanation
Indices: 58639019--58639067 Score: 91
Period size: 5 Copynumber: 10.0 Consensus size: 5
58639009 TCAAGTATAG
58639019 TAGTA TAGTA TAGTA TA-TA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA
1 TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA
58639068 ACATTATTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.09
5 39 0.91
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TAGTA
Found at i:58649823 original size:24 final size:23
Alignment explanation
Indices: 58649796--58649874 Score: 70
Period size: 25 Copynumber: 3.3 Consensus size: 23
58649786 CATAATCAAA
* *
58649796 AAGCTCATGGGAGCCAATAACGGG
1 AAGCTCA-GAGAGCCAATATCGGG
*
58649820 AAGCTTCAGATAGCCATATATCGGG
1 AAGC-TCAGAGAGCCA-ATATCGGG
* *
58649845 AAGTTCAAGCGAGCC-ATATCGGG
1 AAGCTC-AGAGAGCCAATATCGGG
58649868 AAGCTCA
1 AAGCTCA
58649875 CAAAGAGCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
22 1 0.02
23 13 0.29
24 12 0.27
25 19 0.42
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.18
Consensus pattern (23 bp):
AAGCTCAGAGAGCCAATATCGGG
Found at i:58649859 original size:25 final size:24
Alignment explanation
Indices: 58649806--58649872 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
58649796 AAGCTCATGG
*
58649806 GAGCCAATAACGGGAAGCTTCAGA
1 GAGCCAATATCGGGAAGCTTCAGA
* *
58649830 TAGCCATATATCGGGAAG-TTCAAGC
1 GAGCCA-ATATCGGGAAGCTTC-AGA
58649855 GAGCC-ATATCGGGAAGCT
1 GAGCCAATATCGGGAAGCT
58649873 CACAAAGAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 11 0.31
24 9 0.25
25 16 0.44
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.18
Consensus pattern (24 bp):
GAGCCAATATCGGGAAGCTTCAGA
Found at i:58649952 original size:38 final size:38
Alignment explanation
Indices: 58649893--58649965 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
58649883 CTTTAATCGG
*
58649893 GATTAAATGTTTTTTTAGAGATGCCAGCAGGGCAATCT
1 GATTAAATGTTTCTTTAGAGATGCCAGCAGGGCAATCT
* * *
58649931 GATTAAGTGTTTCTTTGGAGATGCCAGCCGGGCAA
1 GATTAAATGTTTCTTTAGAGATGCCAGCAGGGCAA
58649966 GAAGGCGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (38 bp):
GATTAAATGTTTCTTTAGAGATGCCAGCAGGGCAATCT
Found at i:58650489 original size:50 final size:50
Alignment explanation
Indices: 58650430--58650524 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
58650420 GATAAAAAAT
*
58650430 AGCGAATCTTACTTCCCT-A-GTGGTGTAGTGGAACAGATTAAAGCTACAAC
1 AGCGAATCTTACTTCCCTGACAT--TGTAGTGGAACAGATTAAAGCTACAAC
* *
58650480 AGCGAATCTTATTTCCCTGACATTGTAGTGGAATAGATTAAAGCT
1 AGCGAATCTTACTTCCCTGACATTGTAGTGGAACAGATTAAAGCT
58650525 GAAGTGAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
50 38 0.95
51 1 0.03
52 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (50 bp):
AGCGAATCTTACTTCCCTGACATTGTAGTGGAACAGATTAAAGCTACAAC
Found at i:58650639 original size:50 final size:50
Alignment explanation
Indices: 58650585--58650933 Score: 313
Period size: 50 Copynumber: 7.0 Consensus size: 50
58650575 GTAGTGGAAC
* *
58650585 AGATTGAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * ** * * * * ** *
58650635 AGATTGAAGCTACAACAGCGAATCTTACTTCCGTGGCAGTGTAATGGAAT
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * *
58650685 AGATTGAAGCCACAACGACAAATCTTACTTCCCCGAAATTGCAGTTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
** * * * ** * ** *
58650735 AGATTGAAGATACAACAGCGAATCTTACTTCCCTGGCCGTGCAATGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * *
58650785 AGATTGAAGCCACAATGGCGAATCTTGCTTCTCCGACATTGCAGTTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
** * * ** * *
58650835 AGATTGAAGCCACAACAACGAATCTTACTTCCCTGGCGGTGTAG-TAGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTA-AAA
* * *
58650885 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAA
58650934 TAGAGTTAAA
Statistics
Matches: 221, Mismatches: 76, Indels: 4
0.73 0.25 0.01
Matches are distributed among these distances:
49 2 0.01
50 217 0.98
51 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:58650710 original size:100 final size:100
Alignment explanation
Indices: 58650537--58650933 Score: 578
Period size: 100 Copynumber: 4.0 Consensus size: 100
58650527 AGTGAAGTAA
* ** * *
58650537 ATTGAAGCTACAACAGTGAATCTTACTTCATTGGTGGTGTAGTGGAACAGATTGAAGCCACAACG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAATGGAACAGATTGAAGCCACAACG
*
58650602 GTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
66 GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
* * *
58650637 ATTGAAGCTACAACAGCGAATCTTACTTCCGTGGCAGTGTAATGGAATAGATTGAAGCCACAACG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAATGGAACAGATTGAAGCCACAACG
* * * *
58650702 ACAAATCTTACTTCCCCGAAATTGCAGTTAAAAAG
66 GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
* * * *
58650737 ATTGAAGATACAACAGCGAATCTTACTTCCCTGGCCGTGCAATGGAACAGATTGAAGCCACAATG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAATGGAACAGATTGAAGCCACAACG
*
58650802 GCGAATCTTGCTTCTCCGACATTGCAGTTAAAAAG
66 GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
* * * * * *
58650837 ATTGAAGCCACAACAACGAATCTTACTTCCCTGGCGGTGTAGTAGAACAGATTAAAGCTACAACG
1 ATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAATGGAACAGATTGAAGCCACAACG
58650902 GCGAATCTTGCTTCCCCGACATTGCAGTTAAA
66 GCGAATCTTGCTTCCCCGACATTGCAGTTAAA
58650934 TAGAGTTAAA
Statistics
Matches: 263, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 263 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (100 bp):
ATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAATGGAACAGATTGAAGCCACAACG
GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
Found at i:58651029 original size:44 final size:44
Alignment explanation
Indices: 58650962--58651384 Score: 288
Period size: 44 Copynumber: 9.5 Consensus size: 44
58650952 AGCCAACAAG
58650962 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG-AGTAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGT-AACCAA
* * * * *
58651006 TCTTATCTCCTTGAAGTTTCAGTGGAGCAGATTGAAGTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAACCAA
* * * * * * * **
58651050 TCCTACCCCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAACCAA
* * * *
58651094 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-TAACCAA
* * * * *
58651139 TCTTATTTCCCTGAAGTTGGAGTGGAACAGATTAAAGCTATAAACTACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG---T--A--ACCAA
* * * * * *
58651190 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T-CA-TATCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAACCAA
* * * * ** *
58651231 ACTTATCACTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAACCAA
* * * *
58651275 CCTTATCCCCCTGAAGTTGCAGTGGGGCAGGCTGAAG-ATA-CAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTA-ACCAA
58651318 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGGCT-A-CAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-G-TAACCAA
*
58651362 CTCATATCTCCCTGAAGTTGCAG
1 -TCTTATCTCCCTGAAGTTGCAG
58651385 CAGAGTGGAT
Statistics
Matches: 304, Mismatches: 59, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
41 30 0.10
42 1 0.00
43 7 0.02
44 193 0.63
45 40 0.13
47 2 0.01
49 2 0.01
50 1 0.00
51 28 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAACCAA
Found at i:58651403 original size:44 final size:44
Alignment explanation
Indices: 58651241--58651449 Score: 185
Period size: 44 Copynumber: 4.8 Consensus size: 44
58651231 ACTTATCACT
* * *
58651241 CTGAAGTTGCAGTAGAGCAGG-TTGAAG-TAACAAAC-CTTATCCCC
1 CTGAAGTTGCAGCAGAGC-GGATTGAAGCT-AC-AACTCATATCTCC
** * * * * *
58651285 CTGAAGTTGCAGTGGGGCAGG-CTGAAGATACAAGTCTTATCTCC
1 CTGAAGTTGCAGCAGAGC-GGATTGAAGCTACAACTCATATCTCC
** * *
58651329 CTGAAGTTGCAGTGGAGCAGACT-AAGGCTACAACTCATATCTCC
1 CTGAAGTTGCAGCAGAGCGGATTGAA-GCTACAACTCATATCTCC
* *
58651373 CTGAAGTTGCAGCAGAGTGGATTGAAGCTACAACTCATATCTCT
1 CTGAAGTTGCAGCAGAGCGGATTGAAGCTACAACTCATATCTCC
*
58651417 CTGAAGTTGCAGCAGAGGGGATTGAAGCTACAA
1 CTGAAGTTGCAGCAGAGCGGATTGAAGCTACAA
58651450 ATCGTATCAC
Statistics
Matches: 143, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
43 5 0.03
44 135 0.94
45 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (44 bp):
CTGAAGTTGCAGCAGAGCGGATTGAAGCTACAACTCATATCTCC
Found at i:58652938 original size:22 final size:21
Alignment explanation
Indices: 58652902--58652942 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
58652892 TCATTTTAAT
58652902 ATTATTATTACTATTATATTAC
1 ATTATTATTACTATT-TATTAC
**
58652924 ATTATTATTGTTATTTATT
1 ATTATTATTACTATTTATT
58652943 CATCTATGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTATTATTACTATTTATTAC
Found at i:58653516 original size:72 final size:72
Alignment explanation
Indices: 58653399--58653539 Score: 237
Period size: 72 Copynumber: 2.0 Consensus size: 72
58653389 TTTCAAACTT
* * *
58653399 AAGTTTTAAAAGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTT
1 AAGTTTTAAAAGATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTGGGCATGACCCCTTT
58653464 TTTTCTC
66 TTTTCTC
* *
58653471 AAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTATTGGGCATGACCCCTTT
1 AAGTTTTAAAAGATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTGGGCATGACCCCTTT
58653536 TTTT
66 TTTT
58653540 AAAATATGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (72 bp):
AAGTTTTAAAAGATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTGGGCATGACCCCTTT
TTTTCTC
Found at i:58654991 original size:13 final size:13
Alignment explanation
Indices: 58654973--58654997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58654963 TATTTTATTA
58654973 TTTATCATCTTTT
1 TTTATCATCTTTT
58654986 TTTATCATCTTT
1 TTTATCATCTTT
58654998 CCAATTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATCATCTTTT
Found at i:58666356 original size:37 final size:37
Alignment explanation
Indices: 58666304--58666388 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
58666294 TAAAGGCCGA
* * *
58666304 ATACACATATTCACTTATACCCACCTATGCCGAATGC
1 ATACAAATATACACTTATACCCACCTATGCCAAATGC
* * *
58666341 ATACATATATACACTTATATCTACCTATGCCAAATGC
1 ATACAAATATACACTTATACCCACCTATGCCAAATGC
58666378 ATACAAATATA
1 ATACAAATATA
58666389 TATCCACCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (37 bp):
ATACAAATATACACTTATACCCACCTATGCCAAATGC
Found at i:58666858 original size:41 final size:41
Alignment explanation
Indices: 58666607--58666851 Score: 418
Period size: 41 Copynumber: 6.0 Consensus size: 41
58666597 TCATATTCGG
* *
58666607 ATCACCGGCACTTAACCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAT
* *
58666648 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAT
58666689 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAT
58666730 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAT
* *
58666771 ATCACCGGCAGTTAGCCTGATAGGCTTATAGCCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAT
* *
58666812 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
58666852 ATTCACCAAT
Statistics
Matches: 192, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 192 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAT
Found at i:58667115 original size:15 final size:17
Alignment explanation
Indices: 58667077--58667117 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
58667067 ATCCACATAT
58667077 ATATATATATTACACAC
1 ATATATATATTACACAC
*
58667094 ATATATATATT-CGCAC
1 ATATATATATTACACAC
58667110 AT-TATATA
1 ATATATATA
58667118 AACACCACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.26
16 6 0.26
17 11 0.48
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (17 bp):
ATATATATATTACACAC
Found at i:58667116 original size:19 final size:18
Alignment explanation
Indices: 58667070--58667117 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
58667060 TTGTTCGATC
58667070 CACATATATATATATATTA
1 CACAT-TATATATATATTA
* *
58667089 CACA-CATATATATATTCG
1 CACATTATATATATATT-A
58667107 CACATTATATA
1 CACATTATATA
58667118 AACACCACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 11 0.46
18 4 0.17
19 9 0.38
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.38
Consensus pattern (18 bp):
CACATTATATATATATTA
Found at i:58670168 original size:36 final size:35
Alignment explanation
Indices: 58670094--58670168 Score: 82
Period size: 36 Copynumber: 2.1 Consensus size: 35
58670084 ATGACTAAAC
*
58670094 AATTCAATAATATAAATAATATAAAATGTGAAATTT
1 AATTCAATAATATAAATAATATAAAA-GTGAAAATT
*
58670130 AATTTAATAATATAAATAGTATATATAAA-T-AAAATT
1 AATTCAATAATATAAATA--ATATA-AAAGTGAAAATT
58670166 AAT
1 AAT
58670169 ACTATTTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 5 0.15
39 3 0.09
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (35 bp):
AATTCAATAATATAAATAATATAAAAGTGAAAATT
Found at i:58670659 original size:9 final size:9
Alignment explanation
Indices: 58670645--58670681 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
58670635 TATAGTTTGA
58670645 TATTCGAAT
1 TATTCGAAT
58670654 TATTCGAAT
1 TATTCGAAT
*
58670663 TATTCGAGT
1 TATTCGAAT
58670672 TATTCGAAT
1 TATTCGAAT
58670681 T
1 T
58670682 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:58675417 original size:25 final size:26
Alignment explanation
Indices: 58675389--58675438 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
58675379 TTCTTGAAAT
* *
58675389 TTTATTAGGGG-AAATTCATCAAAAG
1 TTTACTAGGGGTAAAATCATCAAAAG
58675414 TTTACTAGGGGTAAAATCATCAAAA
1 TTTACTAGGGGTAAAATCATCAAAA
58675439 TTTTGTTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (26 bp):
TTTACTAGGGGTAAAATCATCAAAAG
Found at i:58677707 original size:46 final size:46
Alignment explanation
Indices: 58677606--58677931 Score: 383
Period size: 46 Copynumber: 7.6 Consensus size: 46
58677596 TACGTATGAT
*
58677606 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
58677649 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
58677695 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
58677741 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
58677777 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
58677823 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * * *
58677859 CACTTATCATTTTTTCACTTGATCAGATAATTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
58677905 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
58677932 AGTACTCAAA
Statistics
Matches: 247, Mismatches: 13, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
36 56 0.23
38 5 0.02
39 1 0.00
40 4 0.02
41 4 0.02
42 4 0.02
43 11 0.04
44 10 0.04
45 20 0.08
46 132 0.53
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:58677782 original size:36 final size:36
Alignment explanation
Indices: 58677741--58677888 Score: 161
Period size: 36 Copynumber: 3.8 Consensus size: 36
58677731 CTAAGGCTAA
58677741 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
58677777 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
58677819 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
58677859 CACTTATCATTTTTTCACTTGATCAGATAA
1 CACTTATCACTTTGTCACTTGATCAGATAA
58677889 TTGTAGCTAA
Statistics
Matches: 95, Mismatches: 7, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
36 56 0.59
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.29
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:58677832 original size:82 final size:82
Alignment explanation
Indices: 58677695--58677931 Score: 402
Period size: 82 Copynumber: 2.9 Consensus size: 82
58677685 CTAAGGCTAC
* * * *
58677695 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
58677760 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
58677777 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
58677842 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
* * *
58677859 CACTTATCATTTTTTCACTTGATCAGATAATTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
58677924 TGATCAGA
66 TGATCAGA
58677932 AGTACTCAAA
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 147 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:58677909 original size:128 final size:132
Alignment explanation
Indices: 58677606--58677931 Score: 387
Period size: 128 Copynumber: 2.5 Consensus size: 132
58677596 TACGTATGAT
* * *
58677606 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAA-TGTAGCTAAGCTACCACTTATCACTTTATCACTT
*
58677669 GATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTA
65 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAG-GTAGCTA
58677734 AGGCTAA
129 AGG---A
*
58677741 CACTTATCACTTTGTCACTTGATCAGATAA-GTA--T-AG----CACTTATCACTTTTTCACTTG
1 CACTTATCACTTTGTCACTTGATCAGATAATGTAGCTAAGCTACCACTTATCACTTTATCACTTG
* *
58677798 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAA-GT-G-T-A-
66 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAG
58677858 G-
131 GA
* * *
58677859 CACTTATCATTTTTTCACTTGATCAGATAATTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAA-TGTAGCT-AAGCTACCACTTATCACTTTATCACT
58677924 TGATCAGA
64 TGATCAGA
58677932 AGTACTCAAA
Statistics
Matches: 169, Mismatches: 10, Indels: 31
0.80 0.05 0.15
Matches are distributed among these distances:
118 28 0.17
120 3 0.02
122 2 0.01
123 1 0.01
124 3 0.02
125 1 0.01
126 2 0.01
128 97 0.57
132 1 0.01
133 1 0.01
135 13 0.08
136 5 0.03
137 12 0.07
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (132 bp):
CACTTATCACTTTGTCACTTGATCAGATAATGTAGCTAAGCTACCACTTATCACTTTATCACTTG
ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAG
GA
Found at i:58683791 original size:21 final size:21
Alignment explanation
Indices: 58683767--58683811 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
58683757 AATTATTTAT
58683767 TAACCATTTTGGCCCTTTAGA
1 TAACCATTTTGGCCCTTTAGA
58683788 TAACCATTTTGGCCCTTTAGA
1 TAACCATTTTGGCCCTTTAGA
58683809 TAA
1 TAA
58683812 TTGCAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (21 bp):
TAACCATTTTGGCCCTTTAGA
Found at i:58699567 original size:22 final size:22
Alignment explanation
Indices: 58699527--58699568 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
58699517 GGTACTTGAA
**
58699527 CTTTCAAAATATATTAAAAAGG
1 CTTTCAAAATATAAAAAAAAGG
*
58699549 CTTTCAAAATTTAAAAAAAA
1 CTTTCAAAATATAAAAAAAA
58699569 AGCAATTAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.31
Consensus pattern (22 bp):
CTTTCAAAATATAAAAAAAAGG
Found at i:58699719 original size:19 final size:19
Alignment explanation
Indices: 58699695--58699834 Score: 58
Period size: 19 Copynumber: 7.3 Consensus size: 19
58699685 AAATTAGAAC
* **
58699695 AAAAATTGTAAAATTTTAT
1 AAAAATCGTAAAAAATTAT
58699714 AAAAATCGTAAAAAATTAT
1 AAAAATCGTAAAAAATTAT
* * *
58699733 -AAAAT-ATATAGAAATATAA
1 AAAAATCGTA-AAAAAT-TAT
* * *
58699752 AAAAAT--TTATAAATTTT
1 AAAAATCGTAAAAAATTAT
*
58699769 ATAAAGTCGTAAGAAAATTAT
1 A-AAAATCGTAA-AAAATTAT
*
58699790 ACAAAAT-ATAAAGAAA-TAT
1 A-AAAATCGTAAA-AAATTAT
**
58699809 AAATTTCGTAAAAAAATTAT
1 AAAAATCGT-AAAAAATTAT
58699829 AAAAAT
1 AAAAAT
58699835 TATTGTACCA
Statistics
Matches: 88, Mismatches: 22, Indels: 21
0.67 0.17 0.16
Matches are distributed among these distances:
17 4 0.05
18 22 0.25
19 28 0.32
20 23 0.26
21 11 0.12
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (19 bp):
AAAAATCGTAAAAAATTAT
Found at i:58699730 original size:29 final size:28
Alignment explanation
Indices: 58699695--58699787 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 28
58699685 AAATTAGAAC
58699695 AAAAATTGTAAAATTTTATAAAAATCGTA
1 AAAAATT-TAAAATTTTATAAAAATCGTA
* * *
58699724 AAAAATTATAAAA-TATATAGAAAT-ATAA
1 AAAAATT-TAAAATTTTATAAAAATCGT-A
*
58699752 AAAAATTTATAAATTTTAT-AAAGTCGTA
1 AAAAATTTA-AAATTTTATAAAAATCGTA
58699780 AGAAAATT
1 A-AAAATT
58699788 ATACAAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
27 3 0.06
28 25 0.49
29 23 0.45
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (28 bp):
AAAAATTTAAAATTTTATAAAAATCGTA
Found at i:58699742 original size:28 final size:28
Alignment explanation
Indices: 58699695--58699801 Score: 85
Period size: 29 Copynumber: 3.8 Consensus size: 28
58699685 AAATTAGAAC
* *
58699695 AAAAATTGTAAAATTTTATAAAAATCGTA
1 AAAAATTATAAAA-TATATAAAAATCGTA
* *
58699724 AAAAATTATAAAATATATAGAAAT-ATAA
1 AAAAATTATAAAATATATAAAAATCGT-A
* * *
58699752 AAAAATTTATAAATTTTAT-AAAGTCGTA
1 AAAAA-TTATAAAATATATAAAAATCGTA
58699780 AGAAAATTATACAAA-ATATAAA
1 A-AAAATTATA-AAATATATAAA
58699802 GAAATATAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
27 1 0.02
28 28 0.46
29 32 0.52
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.32
Consensus pattern (28 bp):
AAAAATTATAAAATATATAAAAATCGTA
Found at i:58699756 original size:57 final size:58
Alignment explanation
Indices: 58699695--58699811 Score: 168
Period size: 57 Copynumber: 2.0 Consensus size: 58
58699685 AAATTAGAAC
*
58699695 AAAAATTGTA-AAATTTTATAAAAATCGTAA-AAAATTAT-AAAATATATAGAAATATAA
1 AAAAATT-TATAAATTTTAT-AAAATCGTAAGAAAATTATAAAAATATAAAGAAATATAA
*
58699752 AAAAATTTATAAATTTTATAAAGTCGTAAGAAAATTATACAAAATATAAAGAAATATAA
1 AAAAATTTATAAATTTTATAAAATCGTAAGAAAATTATA-AAAATATAAAGAAATATAA
58699811 A
1 A
58699812 TTTCGTAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
56 11 0.20
57 24 0.44
59 19 0.35
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (58 bp):
AAAAATTTATAAATTTTATAAAATCGTAAGAAAATTATAAAAATATAAAGAAATATAA
Found at i:58700043 original size:38 final size:38
Alignment explanation
Indices: 58699972--58700045 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
58699962 GGAGTCGTTA
* **
58699972 ATTTTTGTATGATTTTTACAAAATTTTACAATTTTTTT
1 ATTTTTGTACGATTTTTACAAAAAATTACAATTTTTTT
* * *
58700010 ATTTTTTTACGATTTTTATAAAAAATTATAATTTTT
1 ATTTTTGTACGATTTTTACAAAAAATTACAATTTTT
58700046 AATAATTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (38 bp):
ATTTTTGTACGATTTTTACAAAAAATTACAATTTTTTT
Found at i:58700098 original size:19 final size:18
Alignment explanation
Indices: 58700060--58700113 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
58700050 ATTATAATTT
*
58700060 TTTAT-ATTTTTATTATAA
1 TTTATAATTTTTA-TAAAA
58700078 TTTAATAATTTTTATAAAA
1 TTT-ATAATTTTTATAAAA
*
58700097 TTTATTATTTATTATAA
1 TTTATAATTT-TTATAA
58700114 TTTTTTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 9 0.29
19 15 0.48
20 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATAATTTTTATAAAA
Found at i:58700116 original size:10 final size:10
Alignment explanation
Indices: 58700050--58700116 Score: 52
Period size: 10 Copynumber: 7.0 Consensus size: 10
58700040 ATTTTTAATA
58700050 ATTATAATTT
1 ATTATAATTT
* *
58700060 TTTATATTTTT
1 ATTATA-ATTT
58700071 ATTATAATTT
1 ATTATAATTT
58700081 A--ATAATTT
1 ATTATAATTT
**
58700089 -TTATAAAAT
1 ATTATAATTT
*
58700098 -TTATTATTT
1 ATTATAATTT
58700107 ATTATAATTT
1 ATTATAATTT
58700117 TTTTCTAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
8 7 0.16
9 11 0.26
10 17 0.40
11 8 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
ATTATAATTT
Found at i:58700126 original size:47 final size:45
Alignment explanation
Indices: 58700037--58700127 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 45
58700027 ATAAAAAATT
* *
58700037 ATAATTTTTAATAATTATAATTTTTTATATTTTTATTATAATTTA
1 ATAATTTTTAAAAATTATAATTTATTATATTTTTATTATAATTTA
* *
58700082 ATAATTTTTATAAAATTTATTATTTATTATAATTTTT-TTCTAATTT
1 ATAATTTTTA-AAAA-TTATAATTTATTAT-ATTTTTATTATAATTT
58700128 GTAATAAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 10 0.26
46 3 0.08
47 20 0.51
48 6 0.15
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (45 bp):
ATAATTTTTAAAAATTATAATTTATTATATTTTTATTATAATTTA
Found at i:58700352 original size:87 final size:89
Alignment explanation
Indices: 58700138--58700355 Score: 284
Period size: 88 Copynumber: 2.5 Consensus size: 89
58700128 GTAATAAGAT
* * * *
58700138 TAGGGGCTTAATTGCTTTTCTTGAAAAAGTTTG-AGGGTCTTTTTGATGCATTTTGAAAGTTCAA
1 TAGGGGCTTAATTGATTTTTTTGAAAAAGTTTGAAGGCT-TTTTTGATGCATTCTGAAAGTTCAA
58700202 GTACTCAATTGAGTGAAAACAAAAG
65 GTACTCAATTGAGTGAAAACAAAAG
* * * *
58700227 TAGGGGCTTAATTGATTTTTTT-AAGAAGTTTGAGGGCTTTTTTTATGTATTCTGAAAGTTCAAG
1 TAGGGGCTTAATTGATTTTTTTGAAAAAGTTTGAAGGCTTTTTTGATGCATTCTGAAAGTTCAAG
* *
58700291 TGCTCAATTGAGTGCAAA-AAAA-
66 TACTCAATTGAGTGAAAACAAAAG
*
58700313 TAAGGGGCTTAATT-ATTTTTTTGAAAAATTTTGAAGGCTTTTT
1 T-AGGGGCTTAATTGATTTTTTTGAAAAAGTTTGAAGGCTTTTT
58700356 ACACCCTTAA
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
86 9 0.08
87 33 0.29
88 48 0.42
89 23 0.20
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (89 bp):
TAGGGGCTTAATTGATTTTTTTGAAAAAGTTTGAAGGCTTTTTTGATGCATTCTGAAAGTTCAAG
TACTCAATTGAGTGAAAACAAAAG
Found at i:58705426 original size:11 final size:11
Alignment explanation
Indices: 58705408--58705445 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
58705398 ACAATAACAA
58705408 CAAAATAGTAG
1 CAAAATAGTAG
* *
58705419 CAATATAGTAT
1 CAAAATAGTAG
58705430 CAAAATAGTAG
1 CAAAATAGTAG
58705441 CAAAA
1 CAAAA
58705446 CAACGTAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:58721768 original size:16 final size:16
Alignment explanation
Indices: 58721747--58721777 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
58721737 AATGTCAGAA
58721747 GACAGGGCAAGTGGAG
1 GACAGGGCAAGTGGAG
58721763 GACAGGGCAAGTGGA
1 GACAGGGCAAGTGGA
58721778 CGTGTGGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.48, T:0.06
Consensus pattern (16 bp):
GACAGGGCAAGTGGAG
Found at i:58722469 original size:179 final size:175
Alignment explanation
Indices: 58722242--58722570 Score: 412
Period size: 179 Copynumber: 1.9 Consensus size: 175
58722232 TTTGACCTAT
* * *
58722242 TGCAACTTCAGAGGTATAAGATTTATCATTTTAATCCGTTCTACTGCAACTTCAGGGAGATAGAA
1 TGCAACTTCAGAGGTATAAGATCTATCATTTTAATCCGTTCTACTGCAACTTCAAGAAGATAGAA
* * * * * *
58722307 TT-AGTAGCTTCAATTTGCTCCATTTCAACTTCAGGGAGATAAAGTTTGTTATCTCCAGTCTGCT
66 TTGA-TAGCTTCAATCTGCTCCACTACAACTTCAGGGAGAT-AAGATTG-GAT-GCCA-TCTGCT
* *
58722371 CTACTGCAACTTTAGGGAGATAAGACTTGTCATGGTGTGATCCGTTCTAC
126 CTACTGCAACTTCAGAGAGATAAGACTTGTCATGGTGTGATCCGTTCTAC
* *
58722421 TGCAACTTTAGAGAG-ATAAGATCTGTCATTTTAATCCGCTTC-ACTGCAACTTCAAGAAGATAG
1 TGCAACTTCAGAG-GTATAAGATCTATCATTTTAATCCG-TTCTACTGCAACTTCAAGAAGATAG
* ** * *
58722484 GATTGATTTCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTA
64 AATTGATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGATGCCATCTGCTCTA
58722549 CTGCAACTTCAGAGAGATAAGA
129 CTGCAACTTCAGAGAGATAAGA
58722571 TATGTGGTTT
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
175 29 0.22
176 2 0.02
177 2 0.02
178 6 0.05
179 85 0.66
180 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (175 bp):
TGCAACTTCAGAGGTATAAGATCTATCATTTTAATCCGTTCTACTGCAACTTCAAGAAGATAGAA
TTGATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGATGCCATCTGCTCTACT
GCAACTTCAGAGAGATAAGACTTGTCATGGTGTGATCCGTTCTAC
Found at i:58722556 original size:41 final size:41
Alignment explanation
Indices: 58722281--58722700 Score: 182
Period size: 44 Copynumber: 9.7 Consensus size: 41
58722271 TTTAATCCGT
* *
58722281 TCTACTGCAACTTCAGGGAGAT-AGAATTAGTAGCTTCAATTTGC
1 TCTACTGCAACTTCAGGGAGATAAG-ATT-G--GATTCAATCTGC
* * * * * *
58722325 TCCATTTCAACTTCAGGGAGATAAAGTTTGTTATCTCCAGTCTGC
1 TCTACTGCAACTTCAGGGAGAT-AAGATTG-GAT-T-CAATCTGC
* * ** * *
58722370 TCTACTGCAACTTTAGGGAGATAAGACTTGTCATGGTGTGATCCGT
1 TCTACTGCAACTTCAGGGAGATAAGA-TTG-GAT--T-CAATCTGC
* * * * *
58722416 TCTACTGCAACTTTAGAGAGATAAGATCTGTCATTTTAATCCGC
1 TCTACTGCAACTTCAGGGAGATAAGAT-TG-GA-TTCAATCTGC
* * *
58722460 T-TCACTGCAACTTCAAGAAGATAGGATT-GATTTCTTTAATCTGC
1 TCT-ACTGCAACTTCAGGGAGATAAGATTGGA-TTC---AATCTGC
* * * *
58722504 TCCACTACAACTTCAGGGAGATAAGATTGGATGCGATCTGC
1 TCTACTGCAACTTCAGGGAGATAAGATTGGATTCAATCTGC
* * * **
58722545 TCTACTGCAACTTCAGAGAGATAAGATATGTGGTTTTAATCCAC
1 TCTACTGCAACTTCAGGGAGATAAG--AT-TGGATTCAATCTGC
* * * * * * *
58722589 TCCACTGCAACATAAGGGAGATAGGACTAGTAACTTCAATCTAC
1 TCTACTGCAACTTCAGGGAGATAAGA-TTG-GA-TTCAATCTGC
*
58722633 T-TCACTGCAACTTCAGGGAGATAAGATTGGATACAATCTGC
1 TCT-ACTGCAACTTCAGGGAGATAAGATTGGATTCAATCTGC
* * *
58722674 TCTACGGTAACTTCAGAGAGATAAGAT
1 TCTACTGCAACTTCAGGGAGATAAGAT
58722701 CTGTCATCTT
Statistics
Matches: 284, Mismatches: 70, Indels: 47
0.71 0.17 0.12
Matches are distributed among these distances:
41 62 0.22
42 4 0.01
43 8 0.03
44 137 0.48
45 36 0.13
46 36 0.13
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (41 bp):
TCTACTGCAACTTCAGGGAGATAAGATTGGATTCAATCTGC
Found at i:58722570 original size:129 final size:129
Alignment explanation
Indices: 58722416--58722707 Score: 381
Period size: 129 Copynumber: 2.3 Consensus size: 129
58722406 TGTGATCCGT
* * * *
58722416 TCTACTGCAACTTTAGAGAGATAAGATCTGTCATTTTAATCCGCTTCACTGCAACTTCAA-GAAG
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTCATTTTAATCCACTCCACTGCAACAT-AAGGAAG
* ** * * * *
58722480 ATAGGA-TTGATTTCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGATGCGATCTG
65 ATAGGACTAG-TAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTGGATACAATCTG
58722544 C
129 C
* ** *
58722545 TCTACTGCAACTTCAGAGAGATAAGATATGTGGTTTTAATCCACTCCACTGCAACATAAGGGAGA
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTCATTTTAATCCACTCCACTGCAACATAAGGAAGA
* *
58722610 TAGGACTAGTAACTTCAATCTACTTCACTGCAACTTCAGGGAGATAAGATTGGATACAATCTGC
66 TAGGACTAGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTGGATACAATCTGC
* *
58722674 TCTACGGTAACTTCAGAGAGATAAGATCTGTCAT
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTCAT
58722708 CTTCGATCTA
Statistics
Matches: 139, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
128 2 0.01
129 135 0.97
130 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (129 bp):
TCTACTGCAACTTCAGAGAGATAAGATCTGTCATTTTAATCCACTCCACTGCAACATAAGGAAGA
TAGGACTAGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTGGATACAATCTGC
Found at i:58722914 original size:45 final size:45
Alignment explanation
Indices: 58722872--58723101 Score: 166
Period size: 45 Copynumber: 5.2 Consensus size: 45
58722862 GTGTCTTCGA
* * *
58722872 TCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTACTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* * * * * *
58722917 TCTG-TTCCGCGGTCAGTATAGGAAGACAAG-GCTGGTGTCTTC-G
1 TCTGCTT-CGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* * * * *
58722960 ATCTGCTTCGTTGCCGGTACAGGAAGGCATGATTTGCTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* * * * *
58723006 TCTGCTCCGCTGTCAGTATATGAAGGCAAG-GCTAG-TGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCT-GCTATCTTCAG
* * * * *
58723049 ATATGCTTTGCTGCCAGTACAGGAATGTAAGATCTGCTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
58723095 TCTGCTT
1 TCTGCTT
58723102 TACTGAAAAC
Statistics
Matches: 134, Mismatches: 41, Indels: 20
0.69 0.21 0.10
Matches are distributed among these distances:
43 2 0.01
44 60 0.45
45 70 0.52
46 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (45 bp):
TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
Found at i:58723015 original size:89 final size:89
Alignment explanation
Indices: 58722860--58723100 Score: 329
Period size: 89 Copynumber: 2.7 Consensus size: 89
58722850 CTGCAAACTA
* ** * *
58722860 TGGTGTCTTCGATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTACTATCTTCAGTCTGTTCC
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
58722925 GCGGTCAGTATAGGAAGACAAGGC
66 GCGGTCAGTATAGGAAGACAAGGC
* * * *
58722949 TGGTGTCTTCGATCTGCTTCGTTGCCGGTACAGGAAGGCATGATTTGCTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * *
58723014 GCTGTCAGTATATGAAGGCAAGGC
66 GCGGTCAGTATAGGAAGACAAGGC
* * * * *
58723038 TAGTGTCTTCGATATGCTTTGCTGCCAGTACAGGAATGTAAGATCTGCTATCTTCAGTCTGCT
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
58723101 TTACTGAAAA
Statistics
Matches: 131, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 131 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (89 bp):
TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
GCGGTCAGTATAGGAAGACAAGGC
Found at i:58723149 original size:76 final size:76
Alignment explanation
Indices: 58723038--58723181 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 76
58723028 AAGGCAAGGC
* ** * *
58723038 TAGTGTCTTCGATATGCTTTGCTGCCAGTACAGGAATGTAAGATCTGCTATCTTC-AGTCTGCTT
1 TAGTATCTTCGATATGCTTCACTGCCAGTACAGGAAGGTAAGATCTGCTATCTTCGA-TCTACTT
58723102 TACTGAAAACTA
65 TACTGAAAACTA
* * *
58723114 TAGTATCTTCGATCTGCTTCACTGCTAGTATAGGAAGGTAAGATCTGCTATCTTCGATCTACTTT
1 TAGTATCTTCGATATGCTTCACTGCCAGTACAGGAAGGTAAGATCTGCTATCTTCGATCTACTTT
58723179 ACT
66 ACT
58723182 ACCAATACAG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
76 58 0.98
77 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (76 bp):
TAGTATCTTCGATATGCTTCACTGCCAGTACAGGAAGGTAAGATCTGCTATCTTCGATCTACTTT
ACTGAAAACTA
Found at i:58723166 original size:45 final size:45
Alignment explanation
Indices: 58723117--58723303 Score: 257
Period size: 45 Copynumber: 4.2 Consensus size: 45
58723107 AAAACTATAG
* * * * **
58723117 TATCTTCGATCTGCTTCACTGCTAGTATAGGAAGGTAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * * *
58723162 TATCTTCGATCTACTTTACTACCAATACAGGAAGATAAGATTTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * *
58723207 TATCTTCGATCTACTTCGCTGCCAATACAAGTAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
58723252 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
58723297 TATCTTC
1 TATCTTC
58723304 AGTCTGCTTT
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 124 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (45 bp):
TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
Found at i:58723296 original size:166 final size:161
Alignment explanation
Indices: 58723162--58723463 Score: 399
Period size: 166 Copynumber: 1.8 Consensus size: 161
58723152 TAAGATCTGC
* * * *
58723162 TATCTTCGATCTACTTTACTACCAATACAGG-AAGATAAGATTTGCTATCTTCGATCTACTTCGC
1 TATCTTCGATATACTTCACTACCAATACAGGAAAG-CAAGATCTGCTATCTTCGATCTACTTCGC
*
58723226 TGCCAATACAAGTAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAG
65 TGCCAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAG
* *
58723291 ATCTGCTATCTTCAGTCTGCTTTATTGCAAACTATAA
130 ATCTG----CTTCAG-CTGCTGTATAGCAAACTATAA
* *** * *
58723328 TATCTTCGATATGCTTCACTGTTAGTATAGGAAAGCAAGATCTGCTATCTTCGATCTACTTCGCT
1 TATCTTCGATATACTTCACTACCAATACAGGAAAGCAAGATCTGCTATCTTCGATCTACTTCGCT
* * *
58723393 GCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAATACAGGAAGACGAGA
66 GCCAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGA
58723458 TCTGCT
131 TCTGCT
58723464 ATCTTCGATC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
162 2 0.02
166 116 0.96
167 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (161 bp):
TATCTTCGATATACTTCACTACCAATACAGGAAAGCAAGATCTGCTATCTTCGATCTACTTCGCT
GCCAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGA
TCTGCTTCAGCTGCTGTATAGCAAACTATAA
Found at i:58723304 original size:211 final size:211
Alignment explanation
Indices: 58723059--58723522 Score: 705
Period size: 211 Copynumber: 2.2 Consensus size: 211
58723049 ATATGCTTTG
* * *
58723059 CTGCCAGTACAGGAATG-TAAGATCTGCTATCTTCAGTCTGCTTTACTGAAAACTATAGTATCTT
1 CTGCCAATACAGGAA-GACAAGATCTGCTATCTTCAGTCTGCTTTACTGAAAACTATAATATCTT
* * * *
58723123 CGATCTGCTTCACTGCTAGTATAGGAAGGTAAGATCTGCTATCTTCGATCTACTTTACTACCAAT
65 CGATATGCTTCACTGCTAGTATAGGAAAGCAAGATCTGCTATCTTCGATCTACTTCACTACCAAT
* * * *
58723188 ACAGGAAGATAAGATTTGCTATCTTCGATCTACTTCGCTGCCAATACAAGTAGACAAGATCTGCT
130 ACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCT
58723253 ATCTTCGATCTACTTCA
195 ATCTTCGATCTACTTCA
* *
58723270 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTTTATTGCAAACTATAATATCTTC
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTTTACTGAAAACTATAATATCTTC
* * *
58723335 GATATGCTTCACTGTTAGTATAGGAAAGCAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATA
66 GATATGCTTCACTGCTAGTATAGGAAAGCAAGATCTGCTATCTTCGATCTACTTCACTACCAATA
* * *
58723400 CAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAATACAGGAAGACGAGATCTGCTA
131 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTA
*
58723465 TCTTCGATCTACTTCG
196 TCTTCGATCTACTTCA
* * *
58723481 CTGTCAATATAGGAAGACAAGGTCTGCTATCTTCAGTCTGCT
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCT
58723523 CCACTGTCAG
Statistics
Matches: 229, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
210 1 0.00
211 228 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (211 bp):
CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTTTACTGAAAACTATAATATCTTC
GATATGCTTCACTGCTAGTATAGGAAAGCAAGATCTGCTATCTTCGATCTACTTCACTACCAATA
CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTA
TCTTCGATCTACTTCA
Found at i:58723379 original size:45 final size:45
Alignment explanation
Indices: 58723328--58723599 Score: 264
Period size: 45 Copynumber: 6.1 Consensus size: 45
58723318 CAAACTATAA
* * * * *
58723328 TATCTTCGATATGCTTCACTGTTAGTATAGGAA-AGCAAGATCTGC
1 TATCTTCGATCTACTTCACTGTCAATACAGGAAGA-CAAGATCTGC
* *
58723373 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGTCAATACAGGAAGACAAGATCTGC
* * *
58723418 TATCTTTGATCTACTTCACTGCCAATACAGGAAGACGAGATCTGC
1 TATCTTCGATCTACTTCACTGTCAATACAGGAAGACAAGATCTGC
* * *
58723463 TATCTTCGATCTACTTCGCTGTCAATATAGGAAGACAAGGTCTGC
1 TATCTTCGATCTACTTCACTGTCAATACAGGAAGACAAGATCTGC
* * * * * *
58723508 TATCTTC-AGTCTGCTCCACTGTCAGTACAGGAATG-TAAG-GCTGG
1 TATCTTCGA-TCTACTTCACTGTCAATACAGGAA-GACAAGATCTGC
* * * * * *
58723552 TGTCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGC
1 TATCTTCGATCTACTTCACTGTCAATACAGGAAGACAAGATCTGC
58723597 TAT
1 TAT
58723600 TTTCACTGAT
Statistics
Matches: 190, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
43 1 0.01
44 35 0.18
45 152 0.80
46 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
TATCTTCGATCTACTTCACTGTCAATACAGGAAGACAAGATCTGC
Found at i:58724701 original size:6 final size:6
Alignment explanation
Indices: 58724692--58724741 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
58724682 TCCTTCTCTT
*
58724692 TTTTTC TTTTCTC TTCTTC TTTCTT- TTTATTC TTTTTC TTTTT- TTTTTC
1 TTTTTC TTTT-TC TTTTTC TTT-TTC TTT-TTC TTTTTC TTTTTC TTTTTC
58724741 T
1 T
58724742 CTCTTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
5 5 0.14
6 22 0.59
7 10 0.27
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:58724730 original size:19 final size:17
Alignment explanation
Indices: 58724688--58724752 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 17
58724678 CATCTCCTTC
58724688 TCTT-TTTTTCTTTTCTCT
1 TCTTCTTTTT-TTTT-TCT
58724706 TCTTCTTTCTTTTTATTCT
1 TCTTCTTT-TTTTT-TTCT
*
58724725 TTTTCTTTTTTTTTTC-
1 TCTTCTTTTTTTTTTCT
58724741 TC-TCTTTTTTTT
1 TCTTCTTTTTTTT
58724753 ATATTTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
15 10 0.24
16 1 0.02
17 3 0.07
18 9 0.21
19 16 0.38
20 3 0.07
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (17 bp):
TCTTCTTTTTTTTTTCT
Found at i:58724760 original size:32 final size:32
Alignment explanation
Indices: 58724692--58724760 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 32
58724682 TCCTTCTCTT
*
58724692 TTTTTCTTTTCTCTTCTTCTTTCTTTTTATTC
1 TTTTTCTTTTCTCTTCTTCTTTCTTTTTATTA
* *
58724724 TTTTTCTTTTTTTTTTCTCTCTTT-TTTTTA-TA
1 TTTTTC-TTTTCTCTTCT-TCTTTCTTTTTATTA
58724756 TTTTT
1 TTTTT
58724761 ATTGAATCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 12 0.38
33 15 0.47
34 5 0.16
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (32 bp):
TTTTTCTTTTCTCTTCTTCTTTCTTTTTATTA
Found at i:58727460 original size:19 final size:20
Alignment explanation
Indices: 58727431--58727482 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
58727421 CATTTTGTAA
* *
58727431 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGAATG
*
58727450 CAATGTAATGCAAATGAATG
1 AAATGTAATGCAAATGAATG
58727470 AAATG-AATGCAAA
1 AAATGTAATGCAAA
58727483 AAGAGACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGAATG
Found at i:58727475 original size:9 final size:10
Alignment explanation
Indices: 58727437--58727482 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
58727427 GTAAAAATCT
*
58727437 AATGCATATG
1 AATGCAAATG
58727447 -ATGC-AATG
1 AATGCAAATG
58727455 TAATGCAAATG
1 -AATGCAAATG
58727466 AATG-AAATG
1 AATGCAAATG
58727475 AATGCAAA
1 AATGCAAA
58727483 AAGAGACGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.24
Consensus pattern (10 bp):
AATGCAAATG
Found at i:58729923 original size:16 final size:16
Alignment explanation
Indices: 58729898--58729931 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
58729888 AAATACATAT
58729898 ATAGACATGTATAAAA
1 ATAGACATGTATAAAA
*
58729914 ATAGATATGTATAAAA
1 ATAGACATGTATAAAA
58729930 AT
1 AT
58729932 TATGAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (16 bp):
ATAGACATGTATAAAA
Found at i:58734730 original size:22 final size:21
Alignment explanation
Indices: 58734671--58734733 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
58734661 TTTACCAGAA
* * *
58734671 TAACTACTAACAACTTAACTGC
1 TAACTACTAGCAAC-TGACAGC
*
58734693 TAACTAACTAGTAACTGACAGC
1 TAACT-ACTAGCAACTGACAGC
58734715 TTAACTACTAGCAACTGAC
1 -TAACTACTAGCAACTGAC
58734734 TATCTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 22 0.65
23 12 0.35
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (21 bp):
TAACTACTAGCAACTGACAGC
Found at i:58736459 original size:22 final size:21
Alignment explanation
Indices: 58736400--58736462 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
58736390 TTTACCAGAA
* * *
58736400 TAACTACTAACAACTTAACTGC
1 TAACTACTAGCAAC-TGACAGC
*
58736422 TAACTAACTAGTAACTGACAGC
1 TAACT-ACTAGCAACTGACAGC
58736444 TTAACTACTAGCAACTGAC
1 -TAACTACTAGCAACTGAC
58736463 TATCTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 22 0.65
23 12 0.35
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (21 bp):
TAACTACTAGCAACTGACAGC
Found at i:58740274 original size:4 final size:4
Alignment explanation
Indices: 58740265--58740297 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
58740255 AATTACACTT
58740265 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
58740298 ACAACTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:58742180 original size:26 final size:27
Alignment explanation
Indices: 58742151--58742223 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 27
58742141 AAAAATAAAA
58742151 ATTTACCAAAATAT-TACAAC-TTTTTT
1 ATTTACCAAAATATATA-AACTTTTTTT
58742177 ATTTACCAAAATATATAAACTTTTTTTT
1 ATTTACCAAAATATATAAAC-TTTTTTT
58742205 ATTTACCAAAATATATAAA
1 ATTTACCAAAATATATAAA
58742224 AAAAAACTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
26 17 0.39
27 2 0.05
28 25 0.57
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTTACCAAAATATATAAACTTTTTTT
Found at i:58742309 original size:27 final size:27
Alignment explanation
Indices: 58742270--58742345 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
58742260 TACTGGTCAC
** *
58742270 GCCAATGGTATTGGCGGCACCAGTGGT
1 GCCAATGCAATTGGCGGCACCAATGGT
*
58742297 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATGCAATTGGCGGCACCAATGGT
*
58742324 GCC-ATACTAATTGGCGGCACCA
1 GCCAATGC-AATTGGCGGCACCA
58742346 CTCGTATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.22, C:0.28, G:0.30, T:0.20
Consensus pattern (27 bp):
GCCAATGCAATTGGCGGCACCAATGGT
Found at i:58742446 original size:10 final size:10
Alignment explanation
Indices: 58742427--58742463 Score: 56
Period size: 11 Copynumber: 3.5 Consensus size: 10
58742417 GTTGGCGCGG
58742427 AAAAGAAGAGA
1 AAAAG-AGAGA
58742438 AAAAGAGAGA
1 AAAAGAGAGA
58742448 AAAAGAGCAGA
1 AAAAGAG-AGA
58742459 AAAAG
1 AAAAG
58742464 GAGGTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 12 0.48
11 13 0.52
ACGTcount: A:0.70, C:0.03, G:0.27, T:0.00
Consensus pattern (10 bp):
AAAAGAGAGA
Found at i:58742528 original size:19 final size:21
Alignment explanation
Indices: 58742490--58742528 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
58742480 AATAATTGAT
*
58742490 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
58742511 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
58742529 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:58742604 original size:3 final size:3
Alignment explanation
Indices: 58742598--58742644 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
58742588 ATTATTATTA
58742598 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
58742645 AGTATGAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:58742879 original size:12 final size:12
Alignment explanation
Indices: 58742862--58742898 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
58742852 ATAATTTTAG
58742862 TGTGTATTATTT
1 TGTGTATTATTT
58742874 TGTGTATTATTT
1 TGTGTATTATTT
* *
58742886 TGAGTATAATTT
1 TGTGTATTATTT
58742898 T
1 T
58742899 TTTTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:58748593 original size:11 final size:12
Alignment explanation
Indices: 58748569--58748593 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58748559 TACATGTACA
58748569 TTTTTCGCATTT
1 TTTTTCGCATTT
58748581 TTTTTCGCATTT
1 TTTTTCGCATTT
58748593 T
1 T
58748594 ATTATTTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTTTCGCATTT
Found at i:58748976 original size:4 final size:4
Alignment explanation
Indices: 58748959--58749066 Score: 78
Period size: 4 Copynumber: 25.2 Consensus size: 4
58748949 TCTCCTTTCC
*
58748959 CTTT CTTT CCTT CTTT CTTT CTTT -TTT CTTCT CTTCT CCTTT -TCTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T CTT-T -CTTT CT-TT
* *
58749005 C-TT CTTT CTTT CCTTT TTTCT CTTCT CATTT CCTCTC CTTT CTTT CTTT
1 CTTT CTTT CTTT -CTTT CTT-T CTT-T C-TTT -CT-TT CTTT CTTT CTTT
58749054 CTTT CTTT CTTT C
1 CTTT CTTT CTTT C
58749067 CCTCCTTCTG
Statistics
Matches: 87, Mismatches: 6, Indels: 22
0.76 0.05 0.19
Matches are distributed among these distances:
3 7 0.08
4 52 0.60
5 21 0.24
6 7 0.08
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (4 bp):
CTTT
Found at i:58748994 original size:23 final size:23
Alignment explanation
Indices: 58748934--58749000 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 23
58748924 TTCCCTCTTC
58748934 TTCTTTTTT-TTCTCTTC-TCCT
1 TTCTTTTTTCTTCTCTTCTTCCT
** *
58748955 TTC-CCTTTCTT-TCCTTCTTTCT
1 TTCTTTTTTCTTCT-CTTCTTCCT
58748977 TTCTTTTTTCTTCTCTTC-TCCT
1 TTCTTTTTTCTTCTCTTCTTCCT
58748999 TT
1 TT
58749001 TCTTCTTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
20 4 0.11
21 9 0.26
22 11 0.31
23 10 0.29
24 1 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (23 bp):
TTCTTTTTTCTTCTCTTCTTCCT
Found at i:58749016 original size:49 final size:43
Alignment explanation
Indices: 58748898--58749065 Score: 151
Period size: 40 Copynumber: 4.1 Consensus size: 43
58748888 ATAAAATTAC
** *
58748898 CTTTTTTTTC-CTT-TTTTTTCCCTTTCTTCCC-TC-TTC-TT
1 CTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTCTTT
58748936 CTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTCTTT
1 CTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTCTTT
* *
58748979 CTTTTTTCTTCTCTTCTCCTTT-TC-TTC-TTCTTTCTTTCCTTT
1 CTTTTTT-TTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTT-CTTT
* * * *
58749021 -TTTCTCTTCTCATT-TCCTCT-CCTTTCTTTCTTTCTTTCTTT
1 CTTTTTTTTCTC-TTCTCCTTTCCCTTTCTTTCCTTCTTTCTTT
58749062 CTTT
1 CTTT
58749066 CCCTCCTTCT
Statistics
Matches: 110, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
38 10 0.09
39 3 0.03
40 26 0.24
41 24 0.22
42 23 0.21
43 10 0.09
44 14 0.13
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (43 bp):
CTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTCTTT
Found at i:58749025 original size:45 final size:45
Alignment explanation
Indices: 58748919--58749062 Score: 136
Period size: 45 Copynumber: 3.2 Consensus size: 45
58748909 TTTTTTTTCC
* * * *
58748919 CTTTCTTCCCTCTTCTTCTTTTTT-TTCTCTTCTCCTTTCCCT-TT
1 CTTTCTTTCCT-TTTTTCTTTTTTCTTCTCTTCTCCTTTTCTTCTT
*
58748963 CTTTCCTT-CTTTCTTTCTTTTTTCTTCTCTTCTCCTTTTCTTCTT
1 CTTTCTTTCCTTT-TTTCTTTTTTCTTCTCTTCTCCTTTTCTTCTT
* * *
58749008 CTTTCTTTCCTTTTTTCTCTTCTCATT-TCCTCTCC-TTTCTTTCTTT
1 CTTTCTTTCCTTTTTTCTTTTTTC-TTCTCTTCTCCTTTTC-TTC-TT
58749054 CTTTCTTTC
1 CTTTCTTTC
58749063 TTTCCCTCCT
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
42 2 0.02
43 11 0.13
44 26 0.31
45 28 0.33
46 17 0.20
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (45 bp):
CTTTCTTTCCTTTTTTCTTTTTTCTTCTCTTCTCCTTTTCTTCTT
Found at i:58749048 original size:38 final size:36
Alignment explanation
Indices: 58748964--58749063 Score: 118
Period size: 35 Copynumber: 2.8 Consensus size: 36
58748954 TTTCCCTTTC
* *
58748964 TTTCCT-TCTTTCTTTCTTT-TTTCTTCTCTTCTCC
1 TTTCCTCTCTTTCTTTCTTTCTTTTTTCTCTTCTCA
*
58748998 TTTTCT-TC-TTCTTTCTTTCCTTTTTTCTCTTCTCA
1 TTTCCTCTCTTTCTTTCTTT-CTTTTTTCTCTTCTCA
58749033 TTTCCTCTCCTTTCTTTCTTTCTTTCTTTCT
1 TTTCCTCT-CTTTCTTTCTTTCTTT-TTTCT
58749064 TTCCCTCCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
33 10 0.18
34 7 0.12
35 18 0.32
36 1 0.02
37 5 0.09
38 15 0.27
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (36 bp):
TTTCCTCTCTTTCTTTCTTTCTTTTTTCTCTTCTCA
Found at i:58757211 original size:15 final size:16
Alignment explanation
Indices: 58757193--58757225 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
58757183 TTAAAAATAA
58757193 TTTTGTTATAT-ATGT
1 TTTTGTTATATAATGT
*
58757208 TTTTTTTATATAATGT
1 TTTTGTTATATAATGT
58757224 TT
1 TT
58757226 ATAAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (16 bp):
TTTTGTTATATAATGT
Found at i:58757772 original size:20 final size:19
Alignment explanation
Indices: 58757726--58757774 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
58757716 ATATGATTGT
* *
58757726 AATAA-TTTTTAATTGTTT
1 AATAATTTTTTAAATGTTA
*
58757744 ATTAATTTTTTAAATGTTA
1 AATAATTTTTTAAATGTTA
58757763 AATAACTTTTTT
1 AATAA-TTTTTT
58757775 TATTATATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 4 0.16
19 15 0.60
20 6 0.24
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
AATAATTTTTTAAATGTTA
Found at i:58760722 original size:29 final size:27
Alignment explanation
Indices: 58760684--58760752 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 27
58760674 ATAAAAACTT
* *
58760684 AAATTCAATAAAAGATAT-AAATATTATTA
1 AAATTTAATAAAAAAT-TCAAATATTA--A
58760713 AAATTTAATAAAAAATTCAAATATTAA
1 AAATTTAATAAAAAATTCAAATATTAA
*
58760740 AAATTTATTAAAA
1 AAATTTAATAAAA
58760753 TTAGAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 13 0.36
28 1 0.03
29 22 0.61
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (27 bp):
AAATTTAATAAAAAATTCAAATATTAA
Found at i:58760807 original size:28 final size:28
Alignment explanation
Indices: 58760706--58760864 Score: 90
Period size: 28 Copynumber: 5.6 Consensus size: 28
58760696 AGATATAAAT
* * * *
58760706 ATTATTAAAATTTAATAAAAAATTCAAAT
1 ATTA-TAAAATTTTATAAAAAAATAAAAA
** *
58760735 ATTA-AAAA-TTTATTAAAATTAGAAAAA
1 ATTATAAAATTTTA-TAAAAAAATAAAAA
* *** *
58760762 AATATAAAAAAATGTAAAAAAATAAAAA
1 ATTATAAAATTTTATAAAAAAATAAAAA
* * **
58760790 GTTACAAAATTTTATAAAAATCGTAAAAA
1 ATTATAAAATTTTATAAAAA-AATAAAAA
* * *
58760819 ATTATAAAA-TATATAGAAATATAAAAAA
1 ATTATAAAATTTTATAAAAAAAT-AAAAA
58760847 ATTATAAAATTTTATAAA
1 ATTATAAAATTTTATAAA
58760865 GTCATAAGAA
Statistics
Matches: 93, Mismatches: 31, Indels: 12
0.68 0.23 0.09
Matches are distributed among these distances:
26 3 0.03
27 16 0.17
28 50 0.54
29 24 0.26
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (28 bp):
ATTATAAAATTTTATAAAAAAATAAAAA
Found at i:58760818 original size:57 final size:57
Alignment explanation
Indices: 58760770--58760924 Score: 127
Period size: 57 Copynumber: 2.7 Consensus size: 57
58760760 AAAATATAAA
* * * *
58760770 AAAATGTAAAAAAATAAAAAGTTACAAAATTTTATAAAAATCGTAAAAAATTAT-AA
1 AAAATGTAAAAAAATAAAAAATTATAAAATTTTATAAAAATCATAAAAAAATATAAA
* * * * * * *
58760826 AATATATAGAAATATAAAAAAATTATAAAATTTTAT-AAAGTCATAAGAAAAT-TATAC
1 AAAATGTAAAAAAAT-AAAAAATTATAAAATTTTATAAAAATCATAAAAAAATATA-AA
* * * *
58760883 AAAATGTAAAGAAATATAAATTTCATAAAAATTTATAAAAAT
1 AAAATGTAAAAAAATAAAAAATT-ATAAAATTTTATAAAAAT
58760925 TATACCAAAA
Statistics
Matches: 74, Mismatches: 20, Indels: 8
0.73 0.20 0.08
Matches are distributed among these distances:
55 1 0.01
56 29 0.39
57 40 0.54
58 4 0.05
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (57 bp):
AAAATGTAAAAAAATAAAAAATTATAAAATTTTATAAAAATCATAAAAAAATATAAA
Found at i:58760826 original size:10 final size:10
Alignment explanation
Indices: 58760749--58760855 Score: 55
Period size: 10 Copynumber: 11.2 Consensus size: 10
58760739 AAAATTTATT
*
58760749 AAAATTAGAA
1 AAAATTATAA
*
58760759 AAAAATATAA
1 AAAATTATAA
* *
58760769 AAAAATGTAA
1 AAAATTATAA
58760779 AAAA--ATAA
1 AAAATTATAA
* *
58760787 AAAGTTACAA
1 AAAATTATAA
**
58760797 AATTTTAT-A
1 AAAATTATAA
**
58760806 AAAATCGTAA
1 AAAATTATAA
58760816 AAAATTATAA
1 AAAATTATAA
*
58760826 AATA-TAT-A
1 AAAATTATAA
*
58760834 GAAA-TATAAA
1 AAAATTAT-AA
58760844 AAAATTATAA
1 AAAATTATAA
58760854 AA
1 AA
58760856 TTTTATAAAG
Statistics
Matches: 72, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
8 12 0.17
9 8 0.11
10 49 0.68
11 3 0.04
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (10 bp):
AAAATTATAA
Found at i:58760871 original size:29 final size:29
Alignment explanation
Indices: 58760785--58760881 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
58760775 GTAAAAAAAT
* * *
58760785 AAAAAGTTACAAAATTTTATAAAAATCGT-
1 AAAAAATTATAAAATTTTAT-AAAATCATA
*
58760814 AAAAAATTATAAAA-TATATAGAAAT-ATA
1 AAAAAATTATAAAATTTTATA-AAATCATA
*
58760842 AAAAAATTATAAAATTTTATAAAGTCATA
1 AAAAAATTATAAAATTTTATAAAATCATA
*
58760871 AGAAAATTATA
1 AAAAAATTATA
58760882 CAAAATGTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
27 2 0.04
28 25 0.44
29 30 0.53
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAAAATTATAAAATTTTATAAAATCATA
Found at i:58761203 original size:18 final size:17
Alignment explanation
Indices: 58761182--58761232 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
58761172 AATTTTAATT
*
58761182 TTTATATTTTTATTAAAA
1 TTTATATTTTT-CTAAAA
58761200 TTTAATCATTTTTCTAAAA
1 TTT-AT-ATTTTTCTAAAA
*
58761219 TTTAT-TATTTCTAA
1 TTTATATTTTTCTAA
58761233 TTTCTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 8 0.28
18 5 0.17
19 10 0.34
20 6 0.21
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTATATTTTTCTAAAA
Found at i:58761380 original size:94 final size:93
Alignment explanation
Indices: 58761278--58761467 Score: 251
Period size: 94 Copynumber: 2.0 Consensus size: 93
58761268 GGCTTCATTG
* * *
58761278 TTTTTTTGAAAAATTTTGAGAGTCTTTTTTAT-TCATTTTGAAAGTTCAAGTACCCAATTGAGTG
1 TTTTTTTGAAAAAGTTTGAGAGTCTTTTTGATGT-ATTTTGAAAGTTCAAGTACCCAATTAAGTG
58761342 -AAAAAAAAAGGCAGTGG-CATAATTGCTTTT
65 CAAAAAAAAA-G-AG-GGTCATAATTGCTTTT
* * * *
58761372 TTTTTTTGAAGAAGTTTGAGGGTCTTTTTGATGTATTTTGAAAGTTCAAGTGCTCAATTAAGTGC
1 TTTTTTTGAAAAAGTTTGAGAGTCTTTTTGATGTATTTTGAAAGTTCAAGTACCCAATTAAGTGC
*
58761437 AAAAAAAAAGAGGGTCTTAATTGCTTTT
66 AAAAAAAAAGAGGGTCATAATTGCTTTT
58761465 TTT
1 TTT
58761468 GAAAAAATTT
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
92 2 0.02
93 17 0.20
94 56 0.66
95 10 0.12
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (93 bp):
TTTTTTTGAAAAAGTTTGAGAGTCTTTTTGATGTATTTTGAAAGTTCAAGTACCCAATTAAGTGC
AAAAAAAAAGAGGGTCATAATTGCTTTT
Found at i:58769129 original size:55 final size:55
Alignment explanation
Indices: 58769067--58769177 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
58769057 CATGTAGATA
*
58769067 AATATCCTGTTTGAGATCGACCTTTATGTGGATCCAATAAGTATCCAGCATCAGC
1 AATATCCTATTTGAGATCGACCTTTATGTGGATCCAATAAGTATCCAGCATCAGC
58769122 AATATCCTATTTGAGATCGACCTTTATGTGGATCCAATAAGTATCCAGCATCAGC
1 AATATCCTATTTGAGATCGACCTTTATGTGGATCCAATAAGTATCCAGCATCAGC
58769177 A
1 A
58769178 TAGTCGACTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (55 bp):
AATATCCTATTTGAGATCGACCTTTATGTGGATCCAATAAGTATCCAGCATCAGC
Found at i:58773593 original size:41 final size:41
Alignment explanation
Indices: 58773548--58773686 Score: 188
Period size: 41 Copynumber: 3.4 Consensus size: 41
58773538 CAACGACACT
* * * *
58773548 TAGCCTGCTAGACTTATAGCTTAATTCAGATCACCGGCACG
1 TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCAAG
** *
58773589 TAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCATG
1 TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCAAG
** *
58773630 TAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCAAT
1 TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCAAG
58773671 TAGCCTGCTAGACTTA
1 TAGCCTGCTAGACTTA
58773687 AAGTCTGAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (41 bp):
TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCAAG
Found at i:58778435 original size:41 final size:41
Alignment explanation
Indices: 58778390--58778487 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
58778380 CAACGACACT
* * * *
58778390 TAGCCTGCTAGACTTATAGCTTAATTCAGATCACCGGCACG
1 TAGCCTGCTAGACTTATAACCTAATTCAGACCACCGGCAAG
** * *
58778431 TAGCCTGCTAGGTTTATAACCTGATTCAGACCACCGGCAAT
1 TAGCCTGCTAGACTTATAACCTAATTCAGACCACCGGCAAG
58778472 TAGCCTGCTAGACTTA
1 TAGCCTGCTAGACTTA
58778488 AAGTCTAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (41 bp):
TAGCCTGCTAGACTTATAACCTAATTCAGACCACCGGCAAG
Found at i:58814555 original size:17 final size:19
Alignment explanation
Indices: 58814533--58814572 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
58814523 AATACTTAAC
58814533 AATAATTAACAAA-AATA-
1 AATAATTAACAAATAATAG
*
58814550 AATAATTAATAAATAATAG
1 AATAATTAACAAATAATAG
58814569 AATA
1 AATA
58814573 CATGTAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 4 0.20
19 4 0.20
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (19 bp):
AATAATTAACAAATAATAG
Found at i:58817713 original size:27 final size:27
Alignment explanation
Indices: 58817658--58817710 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
58817648 AATCTCACTT
* *
58817658 TTGGACCTTGTTTGCATGGGATGAAGG
1 TTGGACCGTGGTTGCATGGGATGAAGG
58817685 TTGGACCGTGGTTGCATGGGA-GAAGG
1 TTGGACCGTGGTTGCATGGGATGAAGG
58817711 GTTAACAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.19, C:0.11, G:0.42, T:0.28
Consensus pattern (27 bp):
TTGGACCGTGGTTGCATGGGATGAAGG
Found at i:58821420 original size:21 final size:21
Alignment explanation
Indices: 58821388--58821428 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
58821378 AGGCTCGAGG
58821388 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
58821409 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
58821429 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:58830833 original size:42 final size:42
Alignment explanation
Indices: 58830787--58830883 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
58830777 AATAAAATAT
*
58830787 TATCTAGATAAATATTAAATTAAATTTAATATCTCATATTAA
1 TATCTAAATAAATATTAAATTAAATTTAATATCTCATATTAA
*
58830829 TATCTAAATAAATATTAAATTAAGTTTAATATCTCATATTAA
1 TATCTAAATAAATATTAAATTAAATTTAATATCTCATATTAA
*
58830871 TAT-TAAATTAATA
1 TATCTAAATAAATA
58830884 AAATATTATC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 9 0.17
42 43 0.83
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (42 bp):
TATCTAAATAAATATTAAATTAAATTTAATATCTCATATTAA
Found at i:58830875 original size:30 final size:29
Alignment explanation
Indices: 58830825--58830881 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
58830815 ATATCTCATA
58830825 TTAATATCTAAATAAATATTAAATTAAGT
1 TTAATATCTAAATAAATATTAAATTAAGT
* *
58830854 TTAATATCTCATATTAATATTAAATTAA
1 TTAATATCT-AAATAAATATTAAATTAA
58830882 TAAAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
TTAATATCTAAATAAATATTAAATTAAGT
Found at i:58830877 original size:103 final size:103
Alignment explanation
Indices: 58830763--58830962 Score: 330
Period size: 103 Copynumber: 1.9 Consensus size: 103
58830753 AATTAATCAC
**
58830763 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATCTCATATTA
1 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAACATAATATCTCATATTA
*
58830828 ATA-TCTAAATAAATATTAAATTAAGTTTAATATCTCAT
66 ATATTC-AAATAAATATTAAATTAAATTTAATATCTCAT
* * *
58830866 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTTAATTTAACATAATATCTCTTATTA
1 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAACATAATATCTCATATTA
58830931 ATATTCAAATAAATATTAAATTAAATTTAATA
66 ATATTCAAATAAATATTAAATTAAATTTAATA
58830963 ATAAATTCAT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 88 0.98
104 2 0.02
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (103 bp):
ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAACATAATATCTCATATTA
ATATTCAAATAAATATTAAATTAAATTTAATATCTCAT
Found at i:58830903 original size:61 final size:62
Alignment explanation
Indices: 58830829--58830945 Score: 157
Period size: 61 Copynumber: 1.9 Consensus size: 62
58830819 CTCATATTAA
** *
58830829 TATCTAAATAAATA-TTAAATTAAGTTTAATATCTCATATTAATATT-AAATTAATAAAATAT
1 TATCTAAATAAATATTTAAATTAA-CATAATATCTCATATTAATATTCAAATAAATAAAATAT
* * *
58830890 TATCTAGATAAATATTTAATTTAACATAATATCTCTTATTAATATTCAAATAAATA
1 TATCTAAATAAATATTTAAATTAACATAATATCTCATATTAATATTCAAATAAATA
58830946 TTAAATTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 32 0.67
62 16 0.33
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (62 bp):
TATCTAAATAAATATTTAAATTAACATAATATCTCATATTAATATTCAAATAAATAAAATAT
Found at i:58834587 original size:94 final size:94
Alignment explanation
Indices: 58834423--58834608 Score: 275
Period size: 94 Copynumber: 2.0 Consensus size: 94
58834413 TGTGGTGGGC
* * * * *
58834423 ATGAACGGTGTGAGTAAACCTCTTGAAAAAGTTATTTGTAAAAATTTTCTAGATCAACAATCGAA
1 ATGAACGGTGTGAGTAAACCTCTTGAAAAAATCATTTGCAAAAATTTTCTAGACCAACAATCAAA
* *
58834488 TGGATCCCACTTATTAACCAATACAACCT
66 CGGATCCCACTTATTAACCAACACAACCT
* *
58834517 ATGAACGGTGTGATTAAACCTCTTGAAAAAATCCTTTGCAAAAATCTTT-TAGACCAACAATCAA
1 ATGAACGGTGTGAGTAAACCTCTTGAAAAAATCATTTGCAAAAAT-TTTCTAGACCAACAATCAA
58834581 ACGGATCCCACTTATTAACCAACACAAC
65 ACGGATCCCACTTATTAACCAACACAAC
58834609 AAATTCCTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 79 0.96
95 3 0.04
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.27
Consensus pattern (94 bp):
ATGAACGGTGTGAGTAAACCTCTTGAAAAAATCATTTGCAAAAATTTTCTAGACCAACAATCAAA
CGGATCCCACTTATTAACCAACACAACCT
Found at i:58835570 original size:13 final size:13
Alignment explanation
Indices: 58835552--58835577 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58835542 AGGAATAATA
58835552 GCAGTTAACAGTT
1 GCAGTTAACAGTT
58835565 GCAGTTAACAGTT
1 GCAGTTAACAGTT
58835578 AAGGAAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GCAGTTAACAGTT
Found at i:58838046 original size:14 final size:14
Alignment explanation
Indices: 58838024--58838059 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
58838014 CAAAATAAAA
*
58838024 GAAAGCCATCATTT
1 GAAAACCATCATTT
58838038 GAAAACCATCATTT
1 GAAAACCATCATTT
58838052 GAAAACCA
1 GAAAACCA
58838060 ACAAACAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (14 bp):
GAAAACCATCATTT
Found at i:58838242 original size:18 final size:17
Alignment explanation
Indices: 58838219--58838261 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
58838209 CTTTCTTTTT
*
58838219 AATAAATATGTTATTGAA
1 AATAAATATATTATTG-A
*
58838237 AATAAAAAATATTATTGA
1 AAT-AAATATATTATTGA
58838255 AATAAAT
1 AATAAAT
58838262 TAATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 7 0.33
19 11 0.52
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (17 bp):
AATAAATATATTATTGA
Found at i:58840575 original size:11 final size:11
Alignment explanation
Indices: 58840559--58840583 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58840549 GTGACTACCC
58840559 TCTTGCAGTTT
1 TCTTGCAGTTT
58840570 TCTTGCAGTTT
1 TCTTGCAGTTT
58840581 TCT
1 TCT
58840584 GCCACTACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.20, G:0.16, T:0.56
Consensus pattern (11 bp):
TCTTGCAGTTT
Done.