Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 122 of 129
Found at i:22127505 original size:22 final size:22
Alignment explanation
Indices: 22127480--22127522 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22127470 TTCTTATAAT
22127480 TTAT-AAATGATTTACCATTAAG
1 TTATAAAAT-ATTTACCATTAAG
*
22127502 TTATAAAATATTTATCATTAA
1 TTATAAAATATTTACCATTAA
22127523 CTTGTGACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (22 bp):
TTATAAAATATTTACCATTAAG
Found at i:22127692 original size:22 final size:22
Alignment explanation
Indices: 22127667--22128016 Score: 124
Period size: 22 Copynumber: 16.1 Consensus size: 22
22127657 TTGAGTTATA
*
22127667 ATTAAGTTATTAATAATTTACT
1 ATTAAGTTATTAATGATTTACT
* **
22127689 ATTATGTTATTAGCGATTTACT
1 ATTAAGTTATTAATGATTTACT
**
22127711 GCTAAGTTATT-A--ATTTACT
1 ATTAAGTTATTAATGATTTACT
* * * *
22127730 ATTAAATTATCAATTATTTATT
1 ATTAAGTTATTAATGATTTACT
* *
22127752 ATTGCA-TTTTTATAT-ATTTACT
1 ATT-AAGTTATTA-ATGATTTACT
* * * * *
22127774 ATTAGGGTATCATTGACTTACT
1 ATTAAGTTATTAATGATTTACT
* * *
22127796 ACTTAA-TTTTTTATTATTTACT
1 A-TTAAGTTATTAATGATTTACT
** * * *
22127818 ACAAAATTATCACTGATTTATCT
1 ATTAAGTTATTAATGATTTA-CT
* * * * *
22127841 -CTAAATTATTTATGATTCACG
1 ATTAAGTTATTAATGATTTACT
*
22127862 ATTAAGTTATTATTGATTTA-T
1 ATTAAGTTATTAATGATTTACT
* *
22127883 ATTAAATTATGT-ATGATTTATT
1 ATTAAGTTAT-TAATGATTTACT
* *
22127905 ATTAAGTTATTACTGATTAACT
1 ATTAAGTTATTAATGATTTACT
* * * *
22127927 ATTATGTTATAAATTATTTATT
1 ATTAAGTTATTAATGATTTACT
* * * * *
22127949 TTTAAGTTTTTAATAATTAATT
1 ATTAAGTTATTAATGATTTACT
* * * * *
22127971 ACTAAATTATCAGTTATTTACT
1 ATTAAGTTATTAATGATTTACT
* * *
22127993 ATTAATTTATCATTGATTTACT
1 ATTAAGTTATTAATGATTTACT
22128015 AT
1 AT
22128017 CAATTAATTA
Statistics
Matches: 232, Mismatches: 82, Indels: 28
0.68 0.24 0.08
Matches are distributed among these distances:
19 14 0.06
20 1 0.00
21 21 0.09
22 188 0.81
23 8 0.03
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (22 bp):
ATTAAGTTATTAATGATTTACT
Found at i:22127739 original size:19 final size:19
Alignment explanation
Indices: 22127675--22127744 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 19
22127665 TAATTAAGTT
* *
22127675 ATTAATAATTTACTATTAT
1 ATTATTAATTTACTATTAA
* **
22127694 GTTATTAGCGATTTACTGCTAA
1 ATTATTA---ATTTACTATTAA
*
22127716 GTTATTAATTTACTATTAA
1 ATTATTAATTTACTATTAA
*
22127735 ATTATCAATT
1 ATTATTAATT
22127745 ATTTATTATT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 23 0.59
22 16 0.41
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (19 bp):
ATTATTAATTTACTATTAA
Found at i:22127898 original size:43 final size:44
Alignment explanation
Indices: 22127824--22127922 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 44
22127814 TACTACAAAA
* * *
22127824 TTATCACTGATTTATCTCTAAATTATTTATGATTCACGATTAAG
1 TTATTACTGATTTATATCTAAATTATGTATGATTCACGATTAAG
* * **
22127868 TTATTATTGATTTATAT-TAAATTATGTATGATTTATTATTAAG
1 TTATTACTGATTTATATCTAAATTATGTATGATTCACGATTAAG
22127911 TTATTACTGATT
1 TTATTACTGATT
22127923 AACTATTATG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 33 0.70
44 14 0.30
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (44 bp):
TTATTACTGATTTATATCTAAATTATGTATGATTCACGATTAAG
Found at i:22128068 original size:22 final size:22
Alignment explanation
Indices: 22128043--22128134 Score: 76
Period size: 22 Copynumber: 4.2 Consensus size: 22
22128033 ACTAAAATTG
*
22128043 ATTTACTACTAAATTATTACTA
1 ATTTACTACTAAATTATCACTA
* * * * *
22128065 ATTTATTATTAAATTATAATTG
1 ATTTACTACTAAATTATCACTA
* * * *
22128087 ATTTATTATTAAGTTATCAATA
1 ATTTACTACTAAATTATCACTA
* *
22128109 ATTAACTACTAAATTATCACTT
1 ATTTACTACTAAATTATCACTA
22128131 ATTT
1 ATTT
22128135 TTTGTTAAGT
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTACTACTAAATTATCACTA
Found at i:22128083 original size:145 final size:145
Alignment explanation
Indices: 22127896--22128157 Score: 355
Period size: 145 Copynumber: 1.8 Consensus size: 145
22127886 AAATTATGTA
* * * * ** * * *
22127896 TGATTTATTATTAAGTTATTACTGATTAACTATTATGTTATAAATT-ATTTATTTTTAAGTTTTT
1 TGATTTACTACTAAATTATTACTAATTAACTATTAAATTAT-AATTGATTTATTATTAAGTTATC
* * *
22127960 AATAATTAATTACTAAATTATCAGTTATTTACTATTAATTTATCATTGATTTACTATCAATTAAT
65 AATAATTAACTACTAAATTATCACTTATTTACTATTAAGTTATCATTGATTTACTATCAATTAAT
22128025 TATGTTAAACTAAAAT
130 TATGTTAAACTAAAAT
* *
22128041 TGATTTACTACTAAATTATTACTAATTTATTATTAAATTATAATTGATTTATTATTAAGTTATCA
1 TGATTTACTACTAAATTATTACTAATTAACTATTAAATTATAATTGATTTATTATTAAGTTATCA
** *
22128106 ATAATTAACTACTAAATTATCACTTATTTTTTGTTAAGTTATCATTGATTTA
66 ATAATTAACTACTAAATTATCACTTATTTACTATTAAGTTATCATTGATTTA
22128158 GTATTATGTT
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
144 4 0.04
145 95 0.96
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (145 bp):
TGATTTACTACTAAATTATTACTAATTAACTATTAAATTATAATTGATTTATTATTAAGTTATCA
ATAATTAACTACTAAATTATCACTTATTTACTATTAAGTTATCATTGATTTACTATCAATTAATT
ATGTTAAACTAAAAT
Found at i:22128103 original size:11 final size:11
Alignment explanation
Indices: 22127862--22128323 Score: 68
Period size: 11 Copynumber: 42.0 Consensus size: 11
22127852 ATGATTCACG
*
22127862 ATTAAGTTATT
1 ATTAATTTATT
*
22127873 ATTGATTTA-T
1 ATTAATTTATT
*
22127883 ATTAAATTATGT
1 ATTAATTTAT-T
*
22127895 A-TGATTTATT
1 ATTAATTTATT
*
22127905 ATTAAGTTATT
1 ATTAATTTATT
* * * *
22127916 ACTGATTAACT
1 ATTAATTTATT
*
22127927 ATT-ATGTTATAA
1 ATTAAT-TTAT-T
22127939 ATT-ATTTATT
1 ATTAATTTATT
*
22127949 TTTAAGTTT-TT
1 ATTAA-TTTATT
* *
22127960 AATAATTAATT
1 ATTAATTTATT
* * *
22127971 ACTAAATTATC
1 ATTAATTTATT
*
22127982 AGTT-ATTTACT
1 A-TTAATTTATT
*
22127993 ATTAATTTATC
1 ATTAATTTATT
* *
22128004 ATTGATTTACT
1 ATTAATTTATT
* *
22128015 ATCAATTAATT
1 ATTAATTTATT
** **
22128026 ATGTTAAACTAAA
1 A--TTAATTTATT
* *
22128039 ATTGATTTACT
1 ATTAATTTATT
* *
22128050 ACTAAATTATT
1 ATTAATTTATT
*
22128061 ACTAATTTATT
1 ATTAATTTATT
* *
22128072 ATTAAATTATA
1 ATTAATTTATT
*
22128083 ATTGATTTATT
1 ATTAATTTATT
* *
22128094 ATTAAGTTATC
1 ATTAATTTATT
* * *
22128105 AATAATTAACT
1 ATTAATTTATT
* * *
22128116 ACTAAATTATC
1 ATTAATTTATT
*
22128127 ACTT-ATTTTTT
1 A-TTAATTTATT
* * *
22128138 GTTAAGTTATC
1 ATTAATTTATT
* *
22128149 ATTGATTTAGT
1 ATTAATTTATT
*
22128160 ATT-ATGTTTTT
1 ATTAAT-TTATT
**
22128171 A-TACATTTACA
1 ATTA-ATTTATT
* *
22128182 ACT-ATATTATA
1 ATTAAT-TTATT
* *
22128193 ATTGATTTATC
1 ATTAATTTATT
**
22128204 ATTAAGGTATT
1 ATTAATTTATT
* *
22128215 A-TCATATATT
1 ATTAATTTATT
22128225 ATT-ATATTATT
1 ATTAAT-TTATT
* *
22128236 ATTGATTTGTT
1 ATTAATTTATT
** * *
22128247 AAAAAGTTATCA
1 ATTAATTTAT-T
22128259 ATT-ATTTATT
1 ATTAATTTATT
* * *
22128269 ACTAAATTATC
1 ATTAATTTATT
*
22128280 ATTTATTTATT
1 ATTAATTTATT
* *
22128291 ATTAAGTTATC
1 ATTAATTTATT
22128302 ATTAATTTATT
1 ATTAATTTATT
*
22128313 ATTAAATTATT
1 ATTAATTTATT
22128324 GATGATTATT
Statistics
Matches: 299, Mismatches: 127, Indels: 50
0.63 0.27 0.11
Matches are distributed among these distances:
10 36 0.12
11 238 0.80
12 20 0.07
13 5 0.02
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (11 bp):
ATTAATTTATT
Found at i:22128265 original size:22 final size:22
Alignment explanation
Indices: 22128240--22128322 Score: 82
Period size: 22 Copynumber: 3.8 Consensus size: 22
22128230 ATTATTATTG
* *
22128240 ATTTGTTAAAAAGTTATCAATT
1 ATTTATTATAAAGTTATCAATT
*
22128262 ATTTATTACTAAA-TTATCATTT
1 ATTTATTA-TAAAGTTATCAATT
*
22128284 ATTTATTATTAAGTTATC-ATT
1 ATTTATTATAAAGTTATCAATT
22128305 AATTTATTATTAAA-TTAT
1 -ATTTATTA-TAAAGTTAT
22128323 TGATGATTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
21 5 0.10
22 40 0.78
23 6 0.12
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTTATTATAAAGTTATCAATT
Found at i:22128298 original size:44 final size:44
Alignment explanation
Indices: 22128038--22128322 Score: 155
Period size: 44 Copynumber: 6.5 Consensus size: 44
22128028 GTTAAACTAA
* * * * * *
22128038 AATTGATTTACTACTAAATTATTACTAATTTATTATTAAATTAT-
1 AATT-ATTTATTATTAAATTATCATTGATTTATTATTAAGTTATC
* * * * * * *
22128082 AATTGATTTATTATTAAGTTATCAATAATTAACTACTAAATTATC
1 AATT-ATTTATTATTAAATTATCATTGATTTATTATTAAGTTATC
* * * * * * *
22128127 ACTTATTTTTTGTTAAGTTATCATTGATTTAGTATTATGTT-TT
1 AATTATTTATTATTAAATTATCATTGATTTATTATTAAGTTATC
* * ** * * * * *
22128170 TATACATTTACAACTATATTATAATTGATTTATCATTAAGGTAT-
1 AAT-TATTTATTATTAAATTATCATTGATTTATTATTAAGTTATC
* * * * * * **
22128214 TATCATATATTATTATATTATTATTGATTTGTTAAAAAGTTATC
1 AATTATTTATTATTAAATTATCATTGATTTATTATTAAGTTATC
* *
22128258 AATTATTTATTACTAAATTATCATTTATTTATTATTAAGTTATC
1 AATTATTTATTATTAAATTATCATTGATTTATTATTAAGTTATC
22128302 -ATTAATTTATTATTAAATTAT
1 AATT-ATTTATTATTAAATTAT
22128323 TGATGATTAT
Statistics
Matches: 181, Mismatches: 55, Indels: 10
0.74 0.22 0.04
Matches are distributed among these distances:
43 35 0.19
44 142 0.78
45 4 0.02
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (44 bp):
AATTATTTATTATTAAATTATCATTGATTTATTATTAAGTTATC
Found at i:22129161 original size:148 final size:149
Alignment explanation
Indices: 22128945--22129214 Score: 375
Period size: 148 Copynumber: 1.8 Consensus size: 149
22128935 AATCTTTTTT
* *
22128945 CTAAATGAAAACATAGTATATTTTTAATTGTTGATTCATTCTAATTACCACTATTCAAAATAA-C
1 CTAAATGAAAAAATAATATATTTTTAATTGTTGATTCATTCTAATTACCACTATTCAAAATAATC
* *
22129009 TTTTTTGATATTTTGATATCAATTAACTTTTTTATTTAAAAATG-GTAAAGAATATTTCACATTC
66 TTTTTTGATATTTTGATATCAATTAACTTCTTTATTTAAAAA-GAGTAAAAAATATTTCACATTC
22129073 GCCATAAAAATTTTATTCTA
130 GCCATAAAAATTTTATTCTA
* * * **
22129093 CTAAATGAAAAAATAATATATTTTTAATTGTT-ACTTCATTCTTATTACCATTATTTAAAATGGT
1 CTAAATGAAAAAATAATATATTTTTAATTGTTGA-TTCATTCTAATTACCACTATTCAAAAT-AA
* * * *
22129157 TTTTTTTTTATATTTTGATGTCAATTAACTTCTTTATTTGAAAAGAGTAAAAAATATT
64 TCTTTTTTGATATTTTGATATCAATTAACTTCTTTATTTAAAAAGAGTAAAAAATATT
22129215 ATAAATATTA
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
147 1 0.01
148 54 0.51
149 1 0.01
150 49 0.47
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (149 bp):
CTAAATGAAAAAATAATATATTTTTAATTGTTGATTCATTCTAATTACCACTATTCAAAATAATC
TTTTTTGATATTTTGATATCAATTAACTTCTTTATTTAAAAAGAGTAAAAAATATTTCACATTCG
CCATAAAAATTTTATTCTA
Found at i:22130713 original size:17 final size:16
Alignment explanation
Indices: 22130679--22130725 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 16
22130669 TTAAATTTTC
*
22130679 TTTTATT-T-TAAAAA
1 TTTTATTATATAAAAT
22130693 TTTTATTATATATAAAT
1 TTTTATTATATA-AAAT
22130710 TTTTATTATATAAAAT
1 TTTTATTATATAAAAT
22130726 ATTAAAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 7 0.24
15 1 0.03
16 6 0.21
17 15 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTATTATATAAAAT
Found at i:22131324 original size:151 final size:152
Alignment explanation
Indices: 22131158--22131456 Score: 474
Period size: 152 Copynumber: 2.0 Consensus size: 152
22131148 AATTTTAAAA
22131158 AATTTAATTTTACATAAACTCTATTTTCAATTTTAGTTGATTTAAA-TAAATTTAAATAAATTAA
1 AATTTAATTTTACATAAACTCTATTTTCAATTTTAGTTGATTTAAATTAAATTTAAATAAATTAA
* * *
22131222 TAAAAAATATACATATTTAAGGATAAATTTGTTAACTTAAAAATTTATAAAGGTATTTAAGTCGT
66 TAAAAAATATACATATTTAAGGATAAATTTATTAACTTAAAAATTTATAAAAGTATTTAAATCGT
* * *
22131287 TTATTATTAATAGTTTTGGAAT
131 TCACTATTAATAATTTTGGAAT
*
22131309 AATTTAATTTTACATAAACTCTATTTTTAATTTTAGTTGATTTAAATTAAATTTAAATAAATTAA
1 AATTTAATTTTACATAAACTCTATTTTCAATTTTAGTTGATTTAAATTAAATTTAAATAAATTAA
** * * * *
22131374 TAAAAGTTATACATATTTAAGGATTAATTTATTAATTTAAAATTTTATAAAAGTATTTAAATTGT
66 TAAAAAATATACATATTTAAGGATAAATTTATTAACTTAAAAATTTATAAAAGTATTTAAATCGT
22131439 TCACTATTAATAATTTTG
131 TCACTATTAATAATTTTG
22131457 AAGTTAACAT
Statistics
Matches: 134, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
151 45 0.34
152 89 0.66
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (152 bp):
AATTTAATTTTACATAAACTCTATTTTCAATTTTAGTTGATTTAAATTAAATTTAAATAAATTAA
TAAAAAATATACATATTTAAGGATAAATTTATTAACTTAAAAATTTATAAAAGTATTTAAATCGT
TCACTATTAATAATTTTGGAAT
Found at i:22132135 original size:16 final size:14
Alignment explanation
Indices: 22132080--22132124 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
22132070 ATGATTAAAA
* *
22132080 AAATAATTTTTAAT
1 AAATAAATTTTATT
22132094 AAA-AAATTTATATT
1 AAATAAATTT-TATT
22132108 AAATAAATTTTATT
1 AAATAAATTTTATT
22132122 AAA
1 AAA
22132125 ATTAATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 5 0.19
14 16 0.59
15 6 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATAAATTTTATT
Found at i:22141516 original size:6 final size:7
Alignment explanation
Indices: 22141497--22141524 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
22141487 AAACTTTGGC
22141497 AGAAAAA
1 AGAAAAA
22141504 AGAAAAA
1 AGAAAAA
22141511 AGAAAAA
1 AGAAAAA
22141518 AGAAAAA
1 AGAAAAA
22141525 CAAAAGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:22143312 original size:18 final size:18
Alignment explanation
Indices: 22143289--22143324 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22143279 ACAAAAAAAA
22143289 CCAACAAAGTGGTCTCTC
1 CCAACAAAGTGGTCTCTC
22143307 CCAACAAAGTGGTCTCTC
1 CCAACAAAGTGGTCTCTC
22143325 AAATTATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (18 bp):
CCAACAAAGTGGTCTCTC
Found at i:22144494 original size:12 final size:12
Alignment explanation
Indices: 22144477--22144508 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22144467 CATCATTGAA
22144477 GATGGTGACCGT
1 GATGGTGACCGT
*
22144489 GATGGTGACGGT
1 GATGGTGACCGT
22144501 GATGGTGA
1 GATGGTGA
22144509 GGAAGAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.09, G:0.47, T:0.25
Consensus pattern (12 bp):
GATGGTGACCGT
Found at i:22145580 original size:32 final size:34
Alignment explanation
Indices: 22145538--22145600 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
22145528 ATTGATAAAA
*
22145538 TTTAAATCAAA-TCAAA-GCAATTTAAAAAATTT
1 TTTAAATCAAATTCAAATGAAATTTAAAAAATTT
* *
22145570 TTTAATTCAAATTCAAATTAAATTTAAAAAA
1 TTTAAATCAAATTCAAATGAAATTTAAAAAA
22145601 ATAATAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 10 0.38
33 5 0.19
34 11 0.42
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (34 bp):
TTTAAATCAAATTCAAATGAAATTTAAAAAATTT
Found at i:22146882 original size:22 final size:24
Alignment explanation
Indices: 22146857--22146900 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
22146847 TTGTTCATCC
22146857 TTAATTTCA-TATTT-TATAAATA
1 TTAATTTCATTATTTGTATAAATA
*
22146879 TTAATTTGATTATTTGTATAAA
1 TTAATTTCATTATTTGTATAAA
22146901 AAATTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 5 0.26
24 6 0.32
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (24 bp):
TTAATTTCATTATTTGTATAAATA
Found at i:22147670 original size:4 final size:4
Alignment explanation
Indices: 22147653--22147690 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
22147643 CTTTGAATGC
*
22147653 AATA AATC AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
22147691 AAGTAAAGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:22155714 original size:16 final size:16
Alignment explanation
Indices: 22155693--22155727 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22155683 AGTATATAGG
22155693 TATATATAAAAATAAT
1 TATATATAAAAATAAT
22155709 TATATATAAAAATAAT
1 TATATATAAAAATAAT
22155725 TAT
1 TAT
22155728 CAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATATATAAAAATAAT
Found at i:22156685 original size:9 final size:10
Alignment explanation
Indices: 22156656--22156687 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
22156646 AAATATAAAA
22156656 TTATATATTT
1 TTATATATTT
22156666 TTAT-TATTT
1 TTATATATTT
22156675 TTATAT-TTT
1 TTATATATTT
22156684 TTAT
1 TTAT
22156688 GTACAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTATATATTT
Found at i:22158147 original size:23 final size:24
Alignment explanation
Indices: 22158121--22158165 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
22158111 TTTTGTTTAA
22158121 ATTTTAAATT-GTATCATTTTTTT
1 ATTTTAAATTCGTATCATTTTTTT
* *
22158144 ATTTTTAATTCGTATTATTTTT
1 ATTTTAAATTCGTATCATTTTT
22158166 ATGCCATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (24 bp):
ATTTTAAATTCGTATCATTTTTTT
Found at i:22160455 original size:14 final size:13
Alignment explanation
Indices: 22160432--22160466 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
22160422 TGCTTAATGC
22160432 TTTTCTTTTTAAT
1 TTTTCTTTTTAAT
*
22160445 TTTTACTTTTTACT
1 TTTT-CTTTTTAAT
22160459 TTTTCTTT
1 TTTTCTTT
22160467 CTTTTGCCGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCTTTTTAAT
Found at i:22162563 original size:15 final size:16
Alignment explanation
Indices: 22162532--22162569 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22162522 TTGTTAATCT
*
22162532 AAAATATAAAATGATA
1 AAAATAAAAAATGATA
*
22162548 AGAATAAAAAAT-ATA
1 AAAATAAAAAATGATA
22162563 AAAATAA
1 AAAATAA
22162570 TATAATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AAAATAAAAAATGATA
Found at i:22162629 original size:22 final size:22
Alignment explanation
Indices: 22162583--22162622 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
22162573 AATTTAAAAT
22162583 TTTAATAAAAATTATAAATAAA
1 TTTAATAAAAATTATAAATAAA
22162605 TTTAAT-AAAATTA-AAATA
1 TTTAATAAAAATTATAAATA
22162623 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAATAAAAATTATAAATAAA
Found at i:22162679 original size:18 final size:20
Alignment explanation
Indices: 22162653--22162693 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
22162643 TAATATAAAT
22162653 TAAACATATAAT-TTTTATA
1 TAAACATATAATATTTTATA
22162672 TAAA-ATATAATATTTTATA
1 TAAACATATAATATTTTATA
22162691 TAA
1 TAA
22162694 TACAATGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAACATATAATATTTTATA
Found at i:22163438 original size:9 final size:8
Alignment explanation
Indices: 22163419--22163469 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
22163409 AAATAATTTT
*
22163419 AAAAATTA
1 AAAAATAA
*
22163427 AAAATTAA
1 AAAAATAA
22163435 AAAAGATAA
1 AAAA-ATAA
*
22163444 AAACA-AA
1 AAAAATAA
*
22163451 AAAATTAA
1 AAAAATAA
22163459 AAAAATAA
1 AAAAATAA
22163467 AAA
1 AAA
22163470 TGAAAATGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
7 5 0.15
8 23 0.68
9 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (8 bp):
AAAAATAA
Found at i:22163459 original size:15 final size:14
Alignment explanation
Indices: 22163419--22163475 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 14
22163409 AAATAATTTT
22163419 AAAAATTAAAAATTAA
1 AAAAATTAAAAA--AA
22163435 AAAAGA-TAAAAACAA
1 AAAA-ATTAAAAA-AA
22163450 AAAAATTAAAAAAA
1 AAAAATTAAAAAAA
*
22163464 TAAAAATGAAAA
1 -AAAAATTAAAA
22163476 TGAAACTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
14 3 0.08
15 22 0.61
16 10 0.28
17 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.16
Consensus pattern (14 bp):
AAAAATTAAAAAAA
Found at i:22163475 original size:23 final size:23
Alignment explanation
Indices: 22163418--22163475 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
22163408 AAAATAATTT
*
22163418 TAAAAATTAAAAATTAAAAAAGA
1 TAAAAATAAAAAATTAAAAAAGA
*
22163441 TAAAAACAAAAAAATTAAAAAA-A
1 TAAAAA-TAAAAAATTAAAAAAGA
*
22163464 TAAAAATGAAAA
1 TAAAAATAAAAA
22163476 TGAAACTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 4 0.13
23 13 0.43
24 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (23 bp):
TAAAAATAAAAAATTAAAAAAGA
Found at i:22164599 original size:2 final size:2
Alignment explanation
Indices: 22164592--22164622 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22164582 GGGACCAAGT
22164592 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22164623 TTGTTATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22165453 original size:4 final size:4
Alignment explanation
Indices: 22165444--22165469 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
22165434 TTAAAATCAT
22165444 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
22165470 AATATATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:22166212 original size:35 final size:33
Alignment explanation
Indices: 22166123--22166232 Score: 152
Period size: 31 Copynumber: 3.3 Consensus size: 33
22166113 TCCTCGACTT
22166123 CATTGTCCATTTTCATACTTGATGAGACATATAA
1 CATTGTCCA-TTTCATACTTGATGAGACATATAA
22166157 CATTGTCCA--TCATACTTGATGAGACATATAA
1 CATTGTCCATTTCATACTTGATGAGACATATAA
* *
22166188 CGTTGTCCATCTCTCATACTTGATGTGACATATAA
1 CATTGTCCAT-T-TCATACTTGATGAGACATATAA
*
22166223 CATTATCCAT
1 CATTGTCCAT
22166233 CCTTCATTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
31 30 0.44
34 9 0.13
35 29 0.43
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (33 bp):
CATTGTCCATTTCATACTTGATGAGACATATAA
Found at i:22171170 original size:15 final size:15
Alignment explanation
Indices: 22171150--22171179 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22171140 GGTTCGTTTA
22171150 TGTTTGTTTAAATTT
1 TGTTTGTTTAAATTT
22171165 TGTTTGTTTAAATTT
1 TGTTTGTTTAAATTT
22171180 GCTTAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (15 bp):
TGTTTGTTTAAATTT
Found at i:22179213 original size:23 final size:24
Alignment explanation
Indices: 22179187--22179237 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
22179177 ATAATTTTTA
22179187 TTTAAAT-TTTAAATCATATCATT
1 TTTAAATCTTTAAATCATATCATT
** * *
22179210 TTTATTTCTTTAATTCATATTATT
1 TTTAAATCTTTAAATCATATCATT
22179234 TTTA
1 TTTA
22179238 TGTAATGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTAAATCTTTAAATCATATCATT
Found at i:22187581 original size:60 final size:59
Alignment explanation
Indices: 22187516--22188062 Score: 462
Period size: 61 Copynumber: 9.1 Consensus size: 59
22187506 TTTTTAATGA
22187516 TTTTTTT-AAAATAAAATTTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTTTTTGAAAATAAAA-TTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
* * * *
22187575 TTTTTTTTAAAATAAAATTTTAAAAAATATATATTTTTGA-AGGAAAGTTGAATGTATCAAT
1 TTTTTTTGAAAATAAAATTTCAAAAAA-A-ATATTTTTGAGA-AAAAGTTGAAAGTATCAAT
* * * * * * *
22187636 TTTCTTTGAACACAAAA-AT-AAAAAATAGATTTTTG-GAAAAAATTGAAAGTATCAAT
1 TTTTTTTGAAAATAAAATTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
*** * * * * * *
22187692 TTCCCTTGAAAATAAAAAGATT-AAAAAATATATTTTTTAAAAAAAATTAAAAGTATCAAT
1 TTTTTTTGAAAAT-AAAA-TTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
* * * * *
22187752 TTTTCTTAAAAATAAAATTTCTAAAATGAAAAAAGTATTTTGGGAGAAAGTTGAAAGTATCAAT
1 TTTTTTTGAAAATAAAATTTC-AAAA--AAAATA-T-TTTTGAGAAAAAGTTGAAAGTATCAAT
* * * * *
22187816 TTTCTTTGAAATTAAAATTTCAAAAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTTTTGAAAATAAAATTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
* * *
22187875 TTTTCTTGAAATTAAAATTTCAGAAAAAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTTTTTGAAAATAAAATTTC---AAAAAAAATAT-TTTTGAGAAAAAGTTGAAAGTATCAAT
* * * * * *
22187938 TTTTTCTCGAAATTAAAATTTTAAGAAAAACACA-TTTTGAGAAAAAGTTGGAAGTACCAAT
1 TTTTT-TTGAAAATAAAATTTCAA-AAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATCAAT
* * ** *
22187999 TTTTCTTAAAAATAAAAATTATCAAAAAAAATATTTTAAAG-AAAAGTTAAAAGTATCAAT
1 TTTTTTTGAAAAT-AAAATT-TCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
22188059 TTTT
1 TTTT
22188063 CTTATACAAA
Statistics
Matches: 400, Mismatches: 63, Indels: 49
0.78 0.12 0.10
Matches are distributed among these distances:
56 25 0.06
57 13 0.03
58 2 0.00
59 84 0.21
60 72 0.18
61 93 0.23
62 22 0.05
63 37 0.09
64 52 0.13
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (59 bp):
TTTTTTTGAAAATAAAATTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
Found at i:22187758 original size:117 final size:118
Alignment explanation
Indices: 22187537--22187754 Score: 280
Period size: 117 Copynumber: 1.9 Consensus size: 118
22187527 TAAAATTTTC
* * *** * **
22187537 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTTTTTAAAATAAAATTTTAAAAAA
1 AAAAAAAAGATTTTTGAGAAAAAATTGAAAGTATCAATTTCCCTTGAAAATAAAAGATTAAAAAA
** * * *
22187602 TATATATTTTTGAAGGAAAGTTGAATGTATCAATTTTCTTTGAACACAAAAAT
66 TATATATTTTTGAAAAAAAATTAAAAGTATCAATTTTCTTTGAACACAAAAAT
*
22187655 AAAAAATAGATTTTTG-GAAAAAATTGAAAGTATCAATTTCCCTTGAAAATAAAAAGATTAAAAA
1 AAAAAAAAGATTTTTGAGAAAAAATTGAAAGTATCAATTTCCCTTGAAAAT-AAAAGATTAAAAA
22187719 ATATAT-TTTTT-AAAAAAAATTAAAAGTATCAATTTT
65 ATATATATTTTTGAAAAAAAATTAAAAGTATCAATTTT
22187755 TCTTAAAAAT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
116 20 0.24
117 34 0.40
118 31 0.36
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (118 bp):
AAAAAAAAGATTTTTGAGAAAAAATTGAAAGTATCAATTTCCCTTGAAAATAAAAGATTAAAAAA
TATATATTTTTGAAAAAAAATTAAAAGTATCAATTTTCTTTGAACACAAAAAT
Found at i:22187832 original size:64 final size:59
Alignment explanation
Indices: 22187515--22188065 Score: 383
Period size: 60 Copynumber: 9.2 Consensus size: 59
22187505 CTTTTTAATG
* * *
22187515 ATTTTT-TT-AAAATAAAATTTTCAAAAAAAATAT-TTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTTTCTTGAAATTAAAA-TTTCAAAAAAAAAATATTTTG-GGAAAAGTTGAAAGTATCA
* * * * * * *
22187573 ATTTTTTTTTAAAATAAAATTTTAAAAAATATATATTTTTGAAGG-AAAGTTGAATGTATCA
1 ATTTTTCTTGAAATTAAAATTTCAAAAAAAAAATA-TTTTG--GGAAAAGTTGAAAGTATCA
* * * * * *
22187634 A-TTTTCTTTGAACA-CAAAA-AT-AAAAAATAGAT-TTTTGGAAAAAATTGAAAGTATCA
1 ATTTTTC-TTGAA-ATTAAAATTTCAAAAAAAAAATATTTTGGGAAAAGTTGAAAGTATCA
** * * * * * *** * *
22187690 ATTTCCCTTGAAAATAAAAAGATT-AAAAAATATATTTTTTAAAAAAAATTAAAAGTATCA
1 ATTTTTCTTG-AAATTAAAA-TTTCAAAAAAAAAATATTTTGGGAAAAGTTGAAAGTATCA
* *
22187750 ATTTTTCTTAAAAATAAAATTTCTAAAATGAAAAAAGTATTTTGGGAGAAAGTTGAAAGTATCA
1 ATTTTTCTTGAAATTAAAATTTC-AAAA--AAAAAA-TATTTTGGGA-AAAGTTGAAAGTATCA
22187814 A-TTTTCTTTGAAATTAAAATTTCAAAAAAAAAA-ATTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTC-TTGAAATTAAAATTTCAAAAAAAAAATATTTTG-GGAAAAGTTGAAAGTATCA
*
22187873 ATTTTTCTTGAAATTAAAATTTCAGAAAAAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTTTCTTGAAATTAAAATTTC---AAAAAAAAAATATTTTG-GGAAAAGTTGAAAGTATCA
* * * * * * * *
22187936 ATTTTTTCTCGAAATTAAAATTTTAAGAAAAACACATTTTGAGAAAAAGTTGGAAGTACCA
1 A-TTTTTCTTGAAATTAAAATTTCAAAAAAAAAATATTTTG-GGAAAAGTTGAAAGTATCA
* * ** *
22187997 ATTTTTCTTAAAAATAAAAATTATC--AAAAAAAATATTTTAAAGAAAAGTTAAAAGTATCA
1 ATTTTTCTT-GAAATTAAAATT-TCAAAAAAAAAATATTTT-GGGAAAAGTTGAAAGTATCA
22188057 ATTTTTCTT
1 ATTTTTCTT
22188066 ATACAAAAGC
Statistics
Matches: 405, Mismatches: 57, Indels: 60
0.78 0.11 0.11
Matches are distributed among these distances:
55 1 0.00
56 19 0.05
57 14 0.03
58 8 0.02
59 82 0.20
60 95 0.23
61 78 0.19
62 18 0.04
63 41 0.10
64 49 0.12
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (59 bp):
ATTTTTCTTGAAATTAAAATTTCAAAAAAAAAATATTTTGGGAAAAGTTGAAAGTATCA
Found at i:22187908 original size:123 final size:123
Alignment explanation
Indices: 22187537--22188062 Score: 401
Period size: 123 Copynumber: 4.3 Consensus size: 123
22187527 TAAAATTTTC
** * *
22187537 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTT-TTTAAAATAAAATTTTAA-AA
1 AAAAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTTCTCGAAATTAAAATTTCAAGAA
* * * * * *
22187600 AATATATATTTTTGA-AGGAAAGTTGAATGTATCAA-TTTTCTT----TGAACA---CAAAA
65 AA-A-AAAATTTTGAGA-AAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAATTTCAAAA
* * ** * * *
22187653 ATAAAAAATAGATTTTTG-GAAAAAATTGAAAGTATCAA-TTTCCCTTGAAAATAAAAAGATT-A
1 A-AAAAAA-ATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTTCTCG-AAATTAAAA-TTTCA
* * * * * * * *
22187715 A-AAAATATATTTTTTAAAAAAAATTAAAAGTATCAATTTTTCTTAAAAATAAAATTTCTAAAA
61 AGAAAAAAAAATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAATTTC-AAAA
* * * *
22187778 TGAAAAAAGTATTTTGGGAGAAAGTTGAAAGTATCAATTTTCTT-T-GAAATTAAAATTTCAA-A
1 -AAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTT-TTCTCGAAATTAAAATTTCAAGA
* *
22187840 AAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAGAAA
64 AAAAAAAATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAATTTCA-AAA
*
22187901 AAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTTCTCGAAATTAAAATTTTAAGAAA
1 AAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTTCTCGAAATTAAAATTTCAAGAAA
* * * * * * **
22187966 AACACATTTTGAGAAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAAATT--ATC
66 AAAAAATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAATTTCAAAA
* *
22188022 AAAAAAAATATTTT-AAAGAAAAGTTAAAAGTATCAATTTTT
1 AAAAAAAATATTTTGAGA-AAAAGTTGAAAGTATCAATTTTT
22188063 CTTATACAAA
Statistics
Matches: 332, Mismatches: 53, Indels: 45
0.77 0.12 0.10
Matches are distributed among these distances:
116 27 0.08
117 35 0.11
118 21 0.06
119 2 0.01
120 2 0.01
121 42 0.13
122 40 0.12
123 80 0.24
124 69 0.21
125 14 0.04
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (123 bp):
AAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTTCTCGAAATTAAAATTTCAAGAAA
AAAAAATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAATTTCAAAA
Found at i:22191768 original size:30 final size:30
Alignment explanation
Indices: 22191727--22191812 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 30
22191717 TCGATTTATT
* *
22191727 TTAAGGCTTTATTT-AAGTGTAAATTAAAAA
1 TTAAGGATTTATTTGAA-TATAAATTAAAAA
*
22191757 TTAAGGATTTATTTGTATATAAATTAAAAA
1 TTAAGGATTTATTTGAATATAAATTAAAAA
* * * *
22191787 TTTAGAATTTATTTTAATACAAATTA
1 TTAAGGATTTATTTGAATATAAATTA
22191813 GAAGTCAACT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 46 0.98
31 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (30 bp):
TTAAGGATTTATTTGAATATAAATTAAAAA
Found at i:22196589 original size:14 final size:13
Alignment explanation
Indices: 22196561--22196595 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
22196551 TCCACGTGAA
*
22196561 TTTATTTCATTTT
1 TTTATTTTATTTT
22196574 TTTATTTTATTTTT
1 TTTATTTTA-TTTT
22196588 TTTATTTT
1 TTTATTTT
22196596 GGTTGTGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTATTTTATTTT
Found at i:22197808 original size:17 final size:17
Alignment explanation
Indices: 22197786--22197827 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
22197776 GAAAAAATTG
*
22197786 AAATAAAAATA-AATCTC
1 AAATAAAAA-ACAATATC
22197803 AAATAAAAAACAATATC
1 AAATAAAAAACAATATC
22197820 AAATAAAA
1 AAATAAAA
22197828 GAGTACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (17 bp):
AAATAAAAAACAATATC
Found at i:22199185 original size:17 final size:16
Alignment explanation
Indices: 22199163--22199195 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
22199153 TTAGATACCC
22199163 TTTTTTGCATATTTCTT
1 TTTTTTGCAT-TTTCTT
22199180 TTTTTTGCATTTTCTT
1 TTTTTTGCATTTTCTT
22199196 GATGACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.73
Consensus pattern (16 bp):
TTTTTTGCATTTTCTT
Found at i:22203146 original size:19 final size:19
Alignment explanation
Indices: 22203124--22203179 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
22203114 AAGTGGATTT
22203124 AAACTAATGGATTGGATAA
1 AAACTAATGGATTGGATAA
22203143 AAAC-AGATGGATT---T--
1 AAACTA-ATGGATTGGATAA
*
22203157 GAACTAATGGATTGGATAA
1 AAACTAATGGATTGGATAA
22203176 AAAC
1 AAAC
22203180 AAGTGGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
14 10 0.36
15 1 0.04
16 1 0.04
17 1 0.04
18 1 0.04
19 14 0.50
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (19 bp):
AAACTAATGGATTGGATAA
Found at i:22203154 original size:33 final size:33
Alignment explanation
Indices: 22203106--22203209 Score: 156
Period size: 33 Copynumber: 3.2 Consensus size: 33
22203096 TTACAATATT
*
22203106 ATAAAAATAAGTGGATTTAAACTAATGGATTGG
1 ATAAAAACAAGTGGATTTAAACTAATGGATTGG
*
22203139 ATAAAAAC-AGATGGATTTGAACTAATGGATTGG
1 ATAAAAACAAG-TGGATTTAAACTAATGGATTGG
* *
22203172 ATAAAAACAAGTGGCTTTAAACTAACGGATTGG
1 ATAAAAACAAGTGGATTTAAACTAATGGATTGG
22203205 ATAAA
1 ATAAA
22203210 TTTTTAGGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
32 2 0.03
33 60 0.94
34 2 0.03
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27
Consensus pattern (33 bp):
ATAAAAACAAGTGGATTTAAACTAATGGATTGG
Found at i:22204265 original size:23 final size:23
Alignment explanation
Indices: 22204229--22204276 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
22204219 AAAATTAAAA
* *
22204229 AATTATTATATATTTTATTTTTT
1 AATTATTATATATTATATATTTT
* *
22204252 AATTATTTTTTATTATATATTTT
1 AATTATTATATATTATATATTTT
22204275 AA
1 AA
22204277 AAATGTGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
AATTATTATATATTATATATTTT
Found at i:22204725 original size:6 final size:6
Alignment explanation
Indices: 22204697--22204742 Score: 58
Period size: 6 Copynumber: 7.3 Consensus size: 6
22204687 TAACGAAATC
22204697 TTTTAA TTTATTAA TTTTAAA TTTTAA TTTTAA TTTTAA -TTTAA TT
1 TTTTAA -TT-TTAA TTTT-AA TTTTAA TTTTAA TTTTAA TTTTAA TT
22204743 ATATTTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.14
6 17 0.47
7 10 0.28
8 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTTAA
Found at i:22204751 original size:21 final size:21
Alignment explanation
Indices: 22204698--22204751 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 21
22204688 AACGAAATCT
22204698 TTTAATT-TA-TTAATTTTAA
1 TTTAATTATATTTAATTTTAA
*
22204717 ATT--TTA-ATTTTAATTTTAA
1 TTTAATTATA-TTTAATTTTAA
22204736 TTTAATTATATTTAAT
1 TTTAATTATATTTAAT
22204752 AAAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
17 3 0.11
19 14 0.52
21 9 0.33
22 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTAATTATATTTAATTTTAA
Found at i:22205495 original size:4 final size:4
Alignment explanation
Indices: 22205486--22205520 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
22205476 TGGATATTTA
22205486 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
22205521 ATGAGACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:22206401 original size:14 final size:14
Alignment explanation
Indices: 22206357--22206390 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
22206347 GGTTAATCTA
22206357 TTTTTAAATTTAAT
1 TTTTTAAATTTAAT
22206371 TTTTTAAATTTAAT
1 TTTTTAAATTTAAT
22206385 TTTTTA
1 TTTTTA
22206391 TATATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTAAATTTAAT
Found at i:22206411 original size:11 final size:11
Alignment explanation
Indices: 22206386--22206441 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
22206376 AAATTTAATT
*
22206386 TTTTATATATTA
1 TTTTA-ATATAA
22206398 TTTTAATATAA
1 TTTTAATATAA
22206409 TTTTAATAT-A
1 TTTTAATATAA
*
22206419 TTTAAATA-AA
1 TTTTAATATAA
22206429 TTTATATATATAA
1 TTT-TA-ATATAA
22206442 CAATTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 12 0.32
11 15 0.41
12 8 0.22
13 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAATATAA
Found at i:22206422 original size:20 final size:20
Alignment explanation
Indices: 22206387--22206439 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
22206377 AATTTAATTT
*
22206387 TTTATATATTATTTTAATATAA
1 TTTATATA-TATTTAAATA-AA
22206409 TTT-TAATATATTTAAATAAA
1 TTTAT-ATATATTTAAATAAA
22206429 TTTATATATAT
1 TTTATATATAT
22206440 AACAATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 11 0.39
21 11 0.39
22 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATATATATTTAAATAAA
Found at i:22206471 original size:33 final size:32
Alignment explanation
Indices: 22206419--22206480 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
22206409 TTTTAATATA
* *
22206419 TTTAAATAAATTTATATATATAACAATTATTT
1 TTTAAATAAATTTAAATATATAAAAATTATTT
*
22206451 TTTATATAAATTTCAAATATATAAAAATTA
1 TTTAAATAAATTT-AAATATATAAAAATTA
22206481 ATAAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (32 bp):
TTTAAATAAATTTAAATATATAAAAATTATTT
Found at i:22208488 original size:21 final size:22
Alignment explanation
Indices: 22208464--22208514 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
22208454 TAAAAATATA
* *
22208464 AAATATATTTTTTA-TTTTATT
1 AAATATATTTATAATTTTTATT
*
22208485 AAATTTATTTATAATTTTTATT
1 AAATATATTTATAATTTTTATT
22208507 AAA-ATATT
1 AAATATATT
22208515 AAAATATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
AAATATATTTATAATTTTTATT
Found at i:22213456 original size:59 final size:58
Alignment explanation
Indices: 22213362--22213480 Score: 184
Period size: 59 Copynumber: 2.0 Consensus size: 58
22213352 CCTTCAAATG
* * * * *
22213362 CAACCTTGCAAGCAAAGATTTTAGGGAAAATTTTCACAGCATTTTCTGCCCCTTTTGAC
1 CAACCTTACAAACAAAGATTCTAGGGAAAAGTTTCACAACATTTTCTGCCCC-TTTGAC
22213421 CAACCTTACAAACAAAGATTCTAGGGAAAAGTTTCACAACATTTTCTGCCCCTTTGAC
1 CAACCTTACAAACAAAGATTCTAGGGAAAAGTTTCACAACATTTTCTGCCCCTTTGAC
22213479 CA
1 CA
22213481 TCATTGATTG
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 8 0.15
59 47 0.85
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (58 bp):
CAACCTTACAAACAAAGATTCTAGGGAAAAGTTTCACAACATTTTCTGCCCCTTTGAC
Found at i:22215041 original size:21 final size:21
Alignment explanation
Indices: 22215015--22215056 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22215005 TTATCTCATT
*
22215015 ACTATAATACATAATTTTATC
1 ACTATAATACATAATGTTATC
*
22215036 ACTATAATACTTAATGTTATC
1 ACTATAATACATAATGTTATC
22215057 GTTCCAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.43
Consensus pattern (21 bp):
ACTATAATACATAATGTTATC
Found at i:22216225 original size:16 final size:17
Alignment explanation
Indices: 22216204--22216241 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
22216194 AAAAATTAAA
*
22216204 TTATATATATT-AGTTT
1 TTATATATATTAAATTT
*
22216220 TTATATATTTTAAATTT
1 TTATATATATTAAATTT
22216237 TTATA
1 TTATA
22216242 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTATATATATTAAATTT
Found at i:22216283 original size:20 final size:22
Alignment explanation
Indices: 22216260--22216312 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
22216250 ATAATAATTT
22216260 TATATTAAAA-TTTAT-TTAAA
1 TATATTAAAATTTTATATTAAA
22216280 TATATTAAAATTTTATATTAAA
1 TATATTAAAATTTTATATTAAA
*
22216302 TAATAATAAAA
1 T-ATATTAAAA
22216313 AATAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 10 0.34
21 5 0.17
22 6 0.21
23 8 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATTAAAATTTTATATTAAA
Found at i:22216298 original size:13 final size:12
Alignment explanation
Indices: 22216258--22216301 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 12
22216248 AAATAATAAT
22216258 TTTATATTAAAA
1 TTTATATTAAAA
22216270 TTTAT-TT-AAA
1 TTTATATTAAAA
22216280 --TATATTAAAA
1 TTTATATTAAAA
22216290 TTTTATATTAAA
1 -TTTATATTAAA
22216302 TAATAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
8 3 0.11
9 2 0.07
10 6 0.22
11 2 0.07
12 5 0.19
13 9 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTATATTAAAA
Found at i:22216360 original size:17 final size:15
Alignment explanation
Indices: 22216305--22216363 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
22216295 TATTAAATAA
**
22216305 TAATAAAAAATAAAT
1 TAATAAAATTTAAAT
* *
22216320 AAATCAAA-TTAAAT
1 TAATAAAATTTAAAT
22216334 TAATAAAATTTAAAT
1 TAATAAAATTTAAAT
22216349 TGAATGAAAATTTAA
1 T-AAT-AAAATTTAA
22216364 TTTATATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 11 0.31
15 13 0.36
16 3 0.08
17 9 0.25
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (15 bp):
TAATAAAATTTAAAT
Found at i:22220686 original size:19 final size:19
Alignment explanation
Indices: 22220662--22220705 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
22220652 CACTTTTTAT
22220662 CTTTTCCCTTAACCGCTTC
1 CTTTTCCCTTAACCGCTTC
** *
22220681 CTTTTCTTTTAACCGCTTT
1 CTTTTCCCTTAACCGCTTC
22220700 CTTTTC
1 CTTTTC
22220706 TTTTGTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.09, C:0.34, G:0.05, T:0.52
Consensus pattern (19 bp):
CTTTTCCCTTAACCGCTTC
Found at i:22220706 original size:19 final size:19
Alignment explanation
Indices: 22220670--22220709 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
22220660 ATCTTTTCCC
22220670 TTAACCGCTTCCTTTTCTT
1 TTAACCGCTTCCTTTTCTT
*
22220689 TTAACCGCTTTCTTTTCTT
1 TTAACCGCTTCCTTTTCTT
22220708 TT
1 TT
22220710 GTAATTTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.28, G:0.05, T:0.57
Consensus pattern (19 bp):
TTAACCGCTTCCTTTTCTT
Found at i:22222203 original size:6 final size:6
Alignment explanation
Indices: 22222194--22222226 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
22222184 TTCAACACTT
*
22222194 AAATTA AAATTA AAATTA AGATTA AAATTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAA
22222227 AAAAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (6 bp):
AAATTA
Found at i:22223531 original size:31 final size:31
Alignment explanation
Indices: 22223491--22223584 Score: 79
Period size: 31 Copynumber: 3.0 Consensus size: 31
22223481 TATATTATTT
*
22223491 TTTACATAAAAAT-T-ATATATTATAATTTAAA
1 TTTATATAAAAATATAATATATTAT--TTTAAA
22223522 TTTATATAAAAATATGAAATATATTATTTTAAA
1 TTTATATAAAAATAT--AATATATTATTTTAAA
** *
22223555 TTTAT-TAATTATAT-ATATAATTATTATAAA
1 TTTATATAAAAATATAATAT-ATTATTTTAAA
22223585 AAATTTAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
29 4 0.07
30 10 0.19
31 12 0.22
32 8 0.15
33 11 0.20
35 9 0.17
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
TTTATATAAAAATATAATATATTATTTTAAA
Found at i:22224648 original size:12 final size:12
Alignment explanation
Indices: 22224613--22224687 Score: 75
Period size: 12 Copynumber: 6.3 Consensus size: 12
22224603 CATTGACTCC
*
22224613 ATTATATATATA
1 ATTATATATTTA
22224625 ATTAT-T-TCTTA
1 ATTATATAT-TTA
*
22224636 ATTATTTATTTA
1 ATTATATATTTA
*
22224648 ATTATATATTTT
1 ATTATATATTTA
22224660 A-TATATATTTA
1 ATTATATATTTA
*
22224671 ATTTTATATTTA
1 ATTATATATTTA
22224683 TATTA
1 -ATTA
22224688 AAAATAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
10 1 0.02
11 18 0.35
12 29 0.56
13 4 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTATATATTTA
Found at i:22224668 original size:23 final size:22
Alignment explanation
Indices: 22224615--22224685 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
22224605 TTGACTCCAT
* * * *
22224615 TATATATATAATTATTTCTTAA
1 TATATATTTAATTATATATTTA
*
22224637 TTATTTATTTAATTATATATTTTA
1 -TATATATTTAATTATATA-TTTA
*
22224661 TATATATTTAATTTTATATTTA
1 TATATATTTAATTATATATTTA
22224683 TAT
1 TAT
22224686 TAAAAATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
22 7 0.17
23 30 0.75
24 3 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATATTTAATTATATATTTA
Found at i:22224730 original size:22 final size:22
Alignment explanation
Indices: 22224669--22224730 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
22224659 TATATATATT
* *
22224669 TAATTTTATATTTATATTAAAAA
1 TAATTTTTTATTAAT-TTAAAAA
*
22224692 TAATATTTT-TTATATTTAAAAA
1 TAATTTTTTATTA-ATTTAAAAA
22224714 TAATTTTTTATTAATTT
1 TAATTTTTTATTAATTT
22224731 TAAATCAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
22 21 0.64
23 12 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TAATTTTTTATTAATTTAAAAA
Found at i:22224735 original size:21 final size:22
Alignment explanation
Indices: 22224679--22224722 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
22224669 TAATTTTATA
22224679 TTTATA-TTAAAAATAATATTT
1 TTTATATTTAAAAATAATATTT
22224700 TTTATATTTAAAAATAAT-TTT
1 TTTATATTTAAAAATAATATTT
22224721 TT
1 TT
22224723 ATTAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTATATTTAAAAATAATATTT
Found at i:22224776 original size:37 final size:37
Alignment explanation
Indices: 22224720--22224820 Score: 118
Period size: 37 Copynumber: 2.7 Consensus size: 37
22224710 AAAATAATTT
*
22224720 TTTAT-TAATTTTAAATCAAATTAAATTAAATATAAA
1 TTTATATAATATTAAATCAAATTAAATTAAATATAAA
*
22224756 TTTATATAATATTAAATCAAATTAAATTTGAATATAAA
1 TTTATATAATATTAAATCAAATTAAA-TTAAATATAAA
**
22224794 -AAATATTAA-ATTAAATCAAATTTAAAT
1 TTTATA-TAATATTAAATCAAA-TTAAAT
22224821 ATTATAAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
36 5 0.09
37 34 0.60
38 18 0.32
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (37 bp):
TTTATATAATATTAAATCAAATTAAATTAAATATAAA
Found at i:22224799 original size:32 final size:32
Alignment explanation
Indices: 22224737--22224847 Score: 105
Period size: 32 Copynumber: 3.5 Consensus size: 32
22224727 ATTTTAAATC
* * * * *
22224737 AAATTAAATTAAATATAAATTTATATAATATT
1 AAATCAAATTAAATTTAAATATAAAAAATATT
*
22224769 AAATCAAATTAAATTTGAATATAAAAAATATT
1 AAATCAAATTAAATTTAAATATAAAAAATATT
* * * * *
22224801 AAATTAAATCAAATTTAAATATTATAAATATA
1 AAATCAAATTAAATTTAAATATAAAAAATATT
**
22224833 AAATCGTATTAAATT
1 AAATCAAATTAAATT
22224848 CAAAACAAAA
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.39
Consensus pattern (32 bp):
AAATCAAATTAAATTTAAATATAAAAAATATT
Found at i:22224859 original size:64 final size:64
Alignment explanation
Indices: 22224737--22224860 Score: 144
Period size: 64 Copynumber: 1.9 Consensus size: 64
22224727 ATTTTAAATC
* * * * *
22224737 AAATTAAATTAAATATAAATTTATATAATATTAAATCAAATTAAATTTGAATATAAAAAATATT
1 AAATTAAATCAAATATAAATTTATATAATATAAAATCAAATTAAATTTCAAAAAAAAAAATATT
* **
22224801 AAATTAAATCAAATTTAAATATTATA-AATATAAAATCGTATTAAA-TTCAAAACAAAAAAA
1 AAATTAAATCAAATATAAAT-TTATATAATATAAAATCAAATTAAATTTCAAAA-AAAAAAA
22224861 ATTTATCCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
63 5 0.10
64 40 0.80
65 5 0.10
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (64 bp):
AAATTAAATCAAATATAAATTTATATAATATAAAATCAAATTAAATTTCAAAAAAAAAAATATT
Found at i:22225193 original size:20 final size:19
Alignment explanation
Indices: 22225161--22225208 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
22225151 GATGAGACGA
22225161 AAATAAAAAAATTAAAATC
1 AAATAAAAAAATTAAAATC
22225180 AAATAAAAAGAATT-AAA--
1 AAATAAAAA-AATTAAAATC
22225197 AAATAAAAAAAT
1 AAATAAAAAAAT
22225209 GGATAAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.11
17 9 0.32
19 12 0.43
20 4 0.14
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
AAATAAAAAAATTAAAATC
Found at i:22226215 original size:15 final size:15
Alignment explanation
Indices: 22226195--22226225 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22226185 TTAAAAAATT
*
22226195 ATTTTTATTAATTAA
1 ATTTTTATTAAATAA
22226210 ATTTTTATTAAATAA
1 ATTTTTATTAAATAA
22226225 A
1 A
22226226 AATTATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTTTATTAAATAA
Found at i:22226401 original size:172 final size:170
Alignment explanation
Indices: 22226206--22226561 Score: 640
Period size: 172 Copynumber: 2.1 Consensus size: 170
22226196 TTTTTATTAA
22226206 TTAAATTTTTATTAAATAAAAATTATTTAATCCTCAATAATTATTTTCATTCAATTAAATTAAAA
1 TTAAATTTTT-TTAAATAAAAATTATTTAATCCTCAATAATTATTTTCATTCAATTAAATTAAAA
* *
22226271 ATAGATATTTAAAAATTTAGTTGAATAAAAATAAATATTTAAAAAATTTAAAATTTGATTAATTA
65 ATAGATATTTAAAAATTTAGTTAAATAAAAATAAAAATTTAAAAAATTTAAAATTTGATTAATTA
22226336 TAATAAAATATAAAAAGTTTAATTAATTATTAAATTTTTGC
130 TAATAAAATATAAAAAGTTTAATTAATTATTAAATTTTTGC
*
22226377 TTAATATTTTTTTAAAATAAAAATTATTTAATCCTCAATAATTATTTTCATTCAATTAAATTGAA
1 TTAA-ATTTTTTT-AAATAAAAATTATTTAATCCTCAATAATTATTTTCATTCAATTAAATTAAA
*
22226442 AATAGATATTTAAAAATTTAGTTAAATAAAAATAAAAATTTTAAAAATTTAAAATTTGATTAATT
64 AATAGATATTTAAAAATTTAGTTAAATAAAAATAAAAATTTAAAAAATTTAAAATTTGATTAATT
22226507 ATAATAAAATATAAAAAGTTTAATTAATTATTAAATTTTTGC
129 ATAATAAAATATAAAAAGTTTAATTAATTATTAAATTTTTGC
22226549 TTAAGATTTTTTT
1 TTAA-ATTTTTTT
22226562 TTAACCTTTT
Statistics
Matches: 178, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
171 6 0.03
172 172 0.97
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (170 bp):
TTAAATTTTTTTAAATAAAAATTATTTAATCCTCAATAATTATTTTCATTCAATTAAATTAAAAA
TAGATATTTAAAAATTTAGTTAAATAAAAATAAAAATTTAAAAAATTTAAAATTTGATTAATTAT
AATAAAATATAAAAAGTTTAATTAATTATTAAATTTTTGC
Found at i:22234447 original size:16 final size:16
Alignment explanation
Indices: 22234426--22234456 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22234416 AATTTTAAAA
*
22234426 AATAAATTTTAAATTG
1 AATAAATTTAAAATTG
22234442 AATAAATTTAAAATT
1 AATAAATTTAAAATT
22234457 TTTAGTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AATAAATTTAAAATTG
Found at i:22234779 original size:2 final size:2
Alignment explanation
Indices: 22234772--22234801 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22234762 CTCTACCTAC
22234772 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22234802 GTACCTTGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22237767 original size:54 final size:54
Alignment explanation
Indices: 22237705--22237812 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
22237695 CCTTAGAACC
22237705 CTGTTAACTTTTAATAGATATAAGATGGAGTGGAGAAGTTGGCTGATTTTTGGT
1 CTGTTAACTTTTAATAGATATAAGATGGAGTGGAGAAGTTGGCTGATTTTTGGT
* *
22237759 CTGTTAACTTTTAATAGATATAAGATGGAGTGTAGAGGTTGGCTGATTTTTGGT
1 CTGTTAACTTTTAATAGATATAAGATGGAGTGGAGAAGTTGGCTGATTTTTGGT
22237813 TTGAGTTCTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.27, C:0.06, G:0.28, T:0.40
Consensus pattern (54 bp):
CTGTTAACTTTTAATAGATATAAGATGGAGTGGAGAAGTTGGCTGATTTTTGGT
Found at i:22241682 original size:20 final size:19
Alignment explanation
Indices: 22241637--22241709 Score: 56
Period size: 20 Copynumber: 3.7 Consensus size: 19
22241627 GCCAAGAATT
22241637 ATTTTTAAATTATATTAAA
1 ATTTTTAAATTATATTAAA
* * **
22241656 ATATTTAATTTGATATTTTA
1 ATTTTTAAATT-ATATTAAA
* * *
22241676 ATTTTTAAAATTTTAATATA
1 ATTTTT-AAATTATATTAAA
*
22241696 ATATTTAAATTATA
1 ATTTTTAAATTATA
22241710 AATTTATTAA
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 16 0.39
20 21 0.51
21 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (19 bp):
ATTTTTAAATTATATTAAA
Found at i:22241699 original size:28 final size:29
Alignment explanation
Indices: 22241640--22241706 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
22241630 AAGAATTATT
* *
22241640 TTTAAATTATATTAAAATATTTAATTTGATA
1 TTTAAATT-T-TTAAAATATTTAATATAATA
*
22241671 TTTTAATTTTTAAAAT-TTTAATATAATA
1 TTTAAATTTTTAAAATATTTAATATAATA
22241699 TTTAAATT
1 TTTAAATT
22241707 ATAAATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 17 0.53
29 7 0.22
30 1 0.03
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTAAATTTTTAAAATATTTAATATAATA
Found at i:22241849 original size:29 final size:29
Alignment explanation
Indices: 22241807--22241866 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
22241797 AATTAATAAA
* * *
22241807 TTTATAATTTAAATATCATATTAGATATT
1 TTTAAAATTAAAATATCATATTAAATATT
22241836 TTTAAAATTAAAATATCATATTAAATATT
1 TTTAAAATTAAAATATCATATTAAATATT
22241865 TT
1 TT
22241867 ATTATAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (29 bp):
TTTAAAATTAAAATATCATATTAAATATT
Found at i:22245226 original size:20 final size:21
Alignment explanation
Indices: 22245187--22245227 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
22245177 TTAACTCTAC
*
22245187 CAATTTATAAGTTTTGATTTT
1 CAATTTATAAGTTTTAATTTT
*
22245208 CAATTT-TAATTTTTAATTTT
1 CAATTTATAAGTTTTAATTTT
22245228 TATACGATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (21 bp):
CAATTTATAAGTTTTAATTTT
Found at i:22262150 original size:20 final size:21
Alignment explanation
Indices: 22262105--22262150 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
22262095 TCAATTAATT
* *
22262105 TATATAATCTATCTTAAAAAG
1 TATATAAACTATCGTAAAAAG
*
22262126 T-TATAAACTTTCGTAAAAA-
1 TATATAAACTATCGTAAAAAG
22262145 TATATA
1 TATATA
22262151 TATATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 19 0.90
21 1 0.05
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (21 bp):
TATATAAACTATCGTAAAAAG
Found at i:22266867 original size:19 final size:21
Alignment explanation
Indices: 22266843--22266889 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
22266833 AACTAACAAG
22266843 TTTAATTAAAATTTT-A-TAT
1 TTTAATTAAAATTTTAATTAT
*
22266862 TTTAA-T-ATATTTTAATTAT
1 TTTAATTAAAATTTTAATTAT
22266881 TTTAATTAA
1 TTTAATTAA
22266890 TAAAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 6 0.26
18 2 0.09
19 13 0.57
20 1 0.04
21 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTAATTAAAATTTTAATTAT
Found at i:22266872 original size:10 final size:10
Alignment explanation
Indices: 22266857--22266886 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
22266847 ATTAAAATTT
22266857 TATATTTTAA
1 TATATTTTAA
22266867 TATATTTTAA
1 TATATTTTAA
22266877 T-TATTTTAA
1 TATATTTTAA
22266886 T
1 T
22266887 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:22266883 original size:9 final size:9
Alignment explanation
Indices: 22266859--22266888 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
22266849 TAAAATTTTA
22266859 TATTTTAAT
1 TATTTTAAT
22266868 ATATTTTAAT
1 -TATTTTAAT
22266878 TATTTTAAT
1 TATTTTAAT
22266887 TA
1 TA
22266889 ATAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:22267914 original size:2 final size:2
Alignment explanation
Indices: 22267907--22267944 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
22267897 AATACAGATA
22267907 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22267945 TTATCAAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22273438 original size:26 final size:23
Alignment explanation
Indices: 22273378--22273431 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
22273368 TCATTACTGC
22273378 ACAAAAGCAAATGAGATGATGAT
1 ACAAAAGCAAATGAGATGATGAT
22273401 ACAAAAGCAAATGAGATGATGAT
1 ACAAAAGCAAATGAGATGATGAT
22273424 ACAAAAGC
1 ACAAAAGC
22273432 TACAAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.54, C:0.11, G:0.20, T:0.15
Consensus pattern (23 bp):
ACAAAAGCAAATGAGATGATGAT
Found at i:22274332 original size:26 final size:27
Alignment explanation
Indices: 22274261--22274332 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 27
22274251 TTCGCATCCG
22274261 AATA-AATTT-AATTTGAATTTTTTAAT
1 AATATAATTTAAATTTGAA-TTTTTAAT
* *
22274287 AATAT-A-TAAAATTATAAATTTTTAA-
1 AATATAATTTAAATT-TGAATTTTTAAT
*
22274312 AATTTAATTTAAATTTGAATT
1 AATATAATTTAAATTTGAATT
22274333 AAATTTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
25 5 0.14
26 22 0.61
27 9 0.25
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (27 bp):
AATATAATTTAAATTTGAATTTTTAAT
Found at i:22274437 original size:75 final size:76
Alignment explanation
Indices: 22274281--22274441 Score: 165
Period size: 76 Copynumber: 2.1 Consensus size: 76
22274271 ATTTGAATTT
22274281 TTTAATAATATATAAAATTATAAATTTTTAAAATTTAATTTAAATTTGAATTAAATTTTTATATG
1 TTTAA-AATATATAAAATTATAAATTTTTAAAATTTAATTTAAATTTGAATTAAATTTTTATATG
* *
22274346 GTTTGAATGAAA
65 ATTTAAATGAAA
* * * * *
22274358 -TTAAAATTTATAAATTTTATAATTTTTTAAAA-TTAATTTTTATTTTG-A-TATAATTTTTAAT
1 TTTAAAATATATAAA-ATTATAAATTTTTAAAATTTAA-TTTAAATTTGAATTA-AATTTTT-AT
22274419 AT-ATTTAAAT-AAA
62 ATGATTTAAATGAAA
22274432 TTT-AAATATA
1 TTTAAAATATA
22274442 AATACTTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
74 11 0.15
75 29 0.41
76 31 0.44
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (76 bp):
TTTAAAATATATAAAATTATAAATTTTTAAAATTTAATTTAAATTTGAATTAAATTTTTATATGA
TTTAAATGAAA
Found at i:22274498 original size:53 final size:56
Alignment explanation
Indices: 22274393--22274498 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 56
22274383 TTTAAAATTA
** * *
22274393 ATTTTTATTTTGATATAATTTTTAATATATTTAAATAAATTTAAATATAAATACTT
1 ATTTTTATTTTGATATAAAATTTAATATATATAAATAAATTTAAATAAAAATACTT
*
22274449 ATTTTTATTTT-ATA-AAAATTTAA-ATATATATATAAATATT-AATAAAAATA
1 ATTTTTATTTTGATATAAAATTTAATATATATAAATAAAT-TTAAATAAAAATA
22274499 TATAATTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 21 0.48
54 9 0.20
55 3 0.07
56 11 0.25
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (56 bp):
ATTTTTATTTTGATATAAAATTTAATATATATAAATAAATTTAAATAAAAATACTT
Found at i:22275791 original size:7 final size:7
Alignment explanation
Indices: 22275779--22275804 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22275769 AATATATATG
22275779 TATTTTT
1 TATTTTT
22275786 TATTTTT
1 TATTTTT
22275793 TATTTTT
1 TATTTTT
22275800 TATTT
1 TATTT
22275805 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:22276750 original size:48 final size:48
Alignment explanation
Indices: 22276673--22276769 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
22276663 CAACCACTTA
* * *
22276673 AGTCAATTCCACTACTAAATCATACAAGCTAGGTGCAAAATGGAGCCC
1 AGTCAATTCCACTACTAAATAATACAAGCTAAGAGCAAAATGGAGCCC
*
22276721 AGTCAATTCCACTACTAAATAATATAAGCTAAGAGCAAAATGGAGCCC
1 AGTCAATTCCACTACTAAATAATACAAGCTAAGAGCAAAATGGAGCCC
22276769 A
1 A
22276770 ATGCCACCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (48 bp):
AGTCAATTCCACTACTAAATAATACAAGCTAAGAGCAAAATGGAGCCC
Found at i:22278703 original size:2 final size:2
Alignment explanation
Indices: 22278696--22278721 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22278686 TAAATACGAA
22278696 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22278722 TTAAACCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22283124 original size:21 final size:21
Alignment explanation
Indices: 22283098--22283143 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
22283088 GTATAAGATC
22283098 TTAGGTTTCCGGTT-ACATTTG
1 TTAGGTTTCCGGTTCACA-TTG
**
22283119 TTAGGTTTTTGGTTCACATTG
1 TTAGGTTTCCGGTTCACATTG
22283140 TTAG
1 TTAG
22283144 TTAGGGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.15, C:0.11, G:0.24, T:0.50
Consensus pattern (21 bp):
TTAGGTTTCCGGTTCACATTG
Found at i:22286792 original size:210 final size:210
Alignment explanation
Indices: 22286430--22286849 Score: 804
Period size: 210 Copynumber: 2.0 Consensus size: 210
22286420 GACTTTTGAA
*
22286430 CTATTGGAATTTTTTTATTGCAGTATTTAAACAAAAAAATTTTTTAATTAAATACTTAAATTTTA
1 CTATTGGAATTTTTTTATTGCAGTATTTAAACAAAAAAATTTTTTAATTAAATACTTAAAATTTA
*
22286495 TTTTTATGTATTAAATTATCTTAATTTTTAACATCGTTAGAGTATTGCTCTGATGGGCATTTAAA
66 TTTTTATGTATTAAATTATCTTAATTTTTAACATCGTTAGAGTATTGCTCTGATGGACATTTAAA
22286560 TGTAAATATAAATGATATGCGATTATCATGTCACTCTTCTGAAAGTTATGTATTATTTTTAAAAA
131 TGTAAATATAAATGATATGCGATTATCATGTCACTCTTCTGAAAGTTATGTATTATTTTTAAAAA
22286625 ATAAAATAATTTTTT
196 ATAAAATAATTTTTT
**
22286640 CTATTGGAATTTTTTTATTGCAGTATTTAAACAAAAATTTTTTTTAATTAAATACTTAAAATTTA
1 CTATTGGAATTTTTTTATTGCAGTATTTAAACAAAAAAATTTTTTAATTAAATACTTAAAATTTA
22286705 TTTTTATGTATTAAATTATCTTAATTTTTAACATCGTTAGAGTATTGCTCTGATGGACATTTAAA
66 TTTTTATGTATTAAATTATCTTAATTTTTAACATCGTTAGAGTATTGCTCTGATGGACATTTAAA
22286770 TGTAAATATAAATGATATGCGATTATCATGTCACTCTTCTGAAAGTTATGTATTATTTTTAAAAA
131 TGTAAATATAAATGATATGCGATTATCATGTCACTCTTCTGAAAGTTATGTATTATTTTTAAAAA
22286835 ATAAAATAATTTTTT
196 ATAAAATAATTTTTT
22286850 AAAAAAATTA
Statistics
Matches: 206, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
210 206 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (210 bp):
CTATTGGAATTTTTTTATTGCAGTATTTAAACAAAAAAATTTTTTAATTAAATACTTAAAATTTA
TTTTTATGTATTAAATTATCTTAATTTTTAACATCGTTAGAGTATTGCTCTGATGGACATTTAAA
TGTAAATATAAATGATATGCGATTATCATGTCACTCTTCTGAAAGTTATGTATTATTTTTAAAAA
ATAAAATAATTTTTT
Found at i:22298096 original size:2 final size:2
Alignment explanation
Indices: 22298084--22298137 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
22298074 ATGTACTGTC
*
22298084 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22298126 TA TA TA TA TA TA
1 TA TA TA TA TA TA
22298138 AAGTGAAACA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:22298591 original size:12 final size:12
Alignment explanation
Indices: 22298576--22298601 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22298566 AATTTATTGG
22298576 TTAAAATTTTTA
1 TTAAAATTTTTA
22298588 TTAAAATTTTTA
1 TTAAAATTTTTA
22298600 TT
1 TT
22298602 TATTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAAAATTTTTA
Found at i:22298633 original size:27 final size:26
Alignment explanation
Indices: 22298581--22298633 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
22298571 ATTGGTTAAA
* * **
22298581 ATTTTTATTAAAATTTTTATTTATTT
1 ATTTTTATAAAAAATTTTATAAATTT
22298607 ATTTTTAATAAAAAATTTTATAAATTT
1 ATTTTT-ATAAAAAATTTTATAAATTT
22298634 CACATATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTTTATAAAAAATTTTATAAATTT
Found at i:22300613 original size:24 final size:24
Alignment explanation
Indices: 22300586--22300634 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
22300576 TATATATAAT
**
22300586 TATTTATTTAATTTTATATTTATA
1 TATTTATAGAATTTTATATTTATA
22300610 TATTTATAGAATTTTATATTTATA
1 TATTTATAGAATTTTATATTTATA
22300634 T
1 T
22300635 TTAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TATTTATAGAATTTTATATTTATA
Found at i:22301493 original size:16 final size:17
Alignment explanation
Indices: 22301463--22301525 Score: 69
Period size: 16 Copynumber: 3.8 Consensus size: 17
22301453 ATAAAATAAT
22301463 TTATT-TATAGATTAAAA
1 TTATTATATA-ATTAAAA
**
22301480 TTATTAT-TTTTTAAAA
1 TTATTATATAATTAAAA
22301496 TT-TTATATAATTAAAA
1 TTATTATATAATTAAAA
22301512 TTATTAATATAATT
1 TTATT-ATATAATT
22301526 TTTAATGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 4 0.11
16 17 0.45
17 8 0.21
18 9 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TTATTATATAATTAAAA
Found at i:22303461 original size:11 final size:11
Alignment explanation
Indices: 22303445--22303487 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
22303435 ATACGATAAT
22303445 ATAATATAAAA
1 ATAATATAAAA
22303456 ATAATATAAATA
1 ATAATATAAA-A
*
22303468 AAAATATAAAA
1 ATAATATAAAA
*
22303479 ACAATATAA
1 ATAATATAA
22303488 TTTAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:22303461 original size:16 final size:15
Alignment explanation
Indices: 22303440--22303473 Score: 59
Period size: 15 Copynumber: 2.2 Consensus size: 15
22303430 ATATAATACG
22303440 ATAATATAATATAAAA
1 ATAATATAA-ATAAAA
22303456 ATAATATAAATAAAA
1 ATAATATAAATAAAA
22303471 ATA
1 ATA
22303474 TAAAAACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATATAAATAAAA
Found at i:22303986 original size:12 final size:14
Alignment explanation
Indices: 22303969--22304001 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
22303959 TTATATTTAA
22303969 ATTATAT-AA-TAT
1 ATTATATAAATTAT
22303981 ATTATATAAATTAT
1 ATTATATAAATTAT
22303995 ATTATAT
1 ATTATAT
22304002 TTACATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 2 0.11
14 10 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTATATAAATTAT
Found at i:22304000 original size:19 final size:19
Alignment explanation
Indices: 22303966--22304016 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
22303956 ATTTTATATT
22303966 TAAATTATATAATATATTATA
1 TAAATTATAT-ATATATT-TA
22303987 TAAATTATAT-TATATTTA
1 TAAATTATATATATATTTA
*
22304005 CATAATTATATA
1 TA-AATTATATA
22304017 AGAAAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 14 0.52
21 10 0.37
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAATTATATATATATTTA
Found at i:22304221 original size:2 final size:2
Alignment explanation
Indices: 22304214--22304241 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22304204 CTCACTCTTA
22304214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22304242 GGGTAACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22304338 original size:3 final size:3
Alignment explanation
Indices: 22304330--22304354 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22304320 TTATAGATAT
22304330 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
22304355 GCCAATCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22304921 original size:18 final size:19
Alignment explanation
Indices: 22304882--22304921 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22304872 ATCAAAGACA
*
22304882 TTATAAATTAATATTAAAT
1 TTATAAATTAACATTAAAT
*
22304901 TTATAAATTGACATT-AAT
1 TTATAAATTAACATTAAAT
22304919 TTA
1 TTA
22304922 GTCCTAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
TTATAAATTAACATTAAAT
Found at i:22306713 original size:15 final size:15
Alignment explanation
Indices: 22306695--22306723 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22306685 TGAAATAATA
22306695 ATTAAAATTATAAAT
1 ATTAAAATTATAAAT
22306710 ATTAAAATTATAAA
1 ATTAAAATTATAAA
22306724 AATACTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTAAAATTATAAAT
Found at i:22307419 original size:22 final size:21
Alignment explanation
Indices: 22307394--22307447 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
22307384 TGAGTTAAGT
*
22307394 ATTT-TAATATTTTATTCAAATA
1 ATTTATAA-ATTTAATT-AAATA
22307416 ATTTATAAATTTAATTAAAT-
1 ATTTATAAATTTAATTAAATA
22307436 -TTT-TAAATTTAA
1 ATTTATAAATTTAA
22307448 ATATATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 9 0.30
19 3 0.10
21 4 0.13
22 11 0.37
23 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTATAAATTTAATTAAATA
Found at i:22307455 original size:18 final size:17
Alignment explanation
Indices: 22307411--22307456 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
22307401 TATTTTATTC
*
22307411 AAATAATTTATAAATTT
1 AAATAATTTTTAAATTT
*
22307428 AATTAAATTTTTAAATTT
1 AAAT-AATTTTTAAATTT
22307446 AAATATATTTT
1 AAATA-ATTTT
22307457 ATTATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATAATTTTTAAATTT
Found at i:22307489 original size:21 final size:22
Alignment explanation
Indices: 22307465--22307506 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
22307455 TTATTATTTT
*
22307465 ATTT-ATATATATTTAAATTCG
1 ATTTAATATATAATTAAATTCG
22307486 ATTTAAATATATAATTAAATT
1 ATTT-AATATATAATTAAATT
22307507 TAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
23 14 0.78
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTTAATATATAATTAAATTCG
Found at i:22307507 original size:18 final size:16
Alignment explanation
Indices: 22307486--22307520 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
22307476 TTTAAATTCG
22307486 ATTTAAATATATAATTAA
1 ATTTAAA-AT-TAATTAA
22307504 ATTTAAAATTAATTAA
1 ATTTAAAATTAATTAA
22307520 A
1 A
22307521 AATTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTTAAAATTAATTAA
Found at i:22307529 original size:12 final size:12
Alignment explanation
Indices: 22307498--22307530 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
22307488 TTAAATATAT
*
22307498 AATTAAATTTAA
1 AATTAAATTAAA
22307510 AATT-AATTAAA
1 AATTAAATTAAA
22307521 AATTAAATTA
1 AATTAAATTA
22307531 TTTTTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATTAAATTAAA
Found at i:22327857 original size:3 final size:3
Alignment explanation
Indices: 22327849--22327886 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
22327839 CAATCAAATA
22327849 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22327887 GTTTTATTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:22334205 original size:231 final size:232
Alignment explanation
Indices: 22333756--22334364 Score: 791
Period size: 231 Copynumber: 2.6 Consensus size: 232
22333746 TTAGCATAAG
22333756 TATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTTATAAATAAT
1 TATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATA-TTTTTTATAAATAAT
* * *
22333821 CCTTACATTATCTTCATCTTTTATATATATTTCACAAAGAAAATGTG-AAAAAA-ATATAAATAC
65 CCTTACATTATCTTCAGCTTTTAAATATATTTCACAAAAAAAATGTGAAAAAAATATATAAATAC
* * * * * * *
22333884 CAGAACAACTTCAAG-AGAGTTTCTCCTATATATAACTTTATCTCAATTTAAAATCAATTTTAAA
130 CAGAACAACTT-AAGAAAAATTTCTCCTATACATAACATCATCTCAATTTAAAACCAATTATAAA
*
22333948 GTAATATCTCATAATAAATATATCTGCAATTAATATGAT
194 GTAATATCTCATAATAAATATATCTGCAATTAATATGAA
* *
22333987 TATTTAAATTTTTCATAACTTTAAAAAATATTATTTAATATCTTTAATATTTTTTATAAATAATC
1 TATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTATAAATAATC
*
22334052 CCTACATTATCTTCAGCTTTTAAATATATTTCA-AAAAAAAATGTGAAAAGAAATATATAAATAC
66 CTTACATTATCTTCAGCTTTTAAATATATTTCACAAAAAAAATGTGAAAA-AAATATATAAATAC
* * * * * *
22334116 CAAAACAACTTTAGAAAAATTTCTCTTGTACATCACATCATTTCAATTTAAAACCAATTATAAAG
130 CAGAACAACTTAAGAAAAATTTCTCCTATACATAACATCATCTCAATTTAAAACCAATTATAAAG
* ** ** *
22334181 TAATTTACTTTTGCT-AAT-TATCTGCCATTAATATGAA
195 TAATAT-CTCATAATAAATATATCTGCAATTAATATGAA
* * * * * *
22334218 TATTTAAATTTATCACAACTTTTAAAAGTATTATTTAATATCTTTAATTTTTTTTATATACAATA
1 TATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTATAAATAATC
* * * *
22334283 CTTGCATTATCTT-AGGCTTTTAAATATACTTCACAAAAGAAATGTGAAAAAAATATATAAATAT
66 CTTACATTATCTTCA-GCTTTTAAATATATTTCACAAAAAAAATGTGAAAAAAATATATAAATAC
*
22334347 TAGAACAACTTAAGAAAA
130 CAGAACAACTTAAGAAAA
22334365 GCCCTCATTA
Statistics
Matches: 329, Mismatches: 42, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
229 11 0.03
230 50 0.15
231 182 0.55
232 82 0.25
233 4 0.01
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (232 bp):
TATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTATAAATAATC
CTTACATTATCTTCAGCTTTTAAATATATTTCACAAAAAAAATGTGAAAAAAATATATAAATACC
AGAACAACTTAAGAAAAATTTCTCCTATACATAACATCATCTCAATTTAAAACCAATTATAAAGT
AATATCTCATAATAAATATATCTGCAATTAATATGAA
Found at i:22334466 original size:16 final size:17
Alignment explanation
Indices: 22334433--22334473 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
22334423 CATATTTTTC
22334433 CTTTCTTTTAATTTAGT
1 CTTTCTTTTAATTTAGT
*
22334450 CTTTCTTTTTA-TTAGT
1 CTTTCTTTTAATTTAGT
22334466 CTATTCTT
1 CT-TTCTT
22334474 GCTATAGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.66
Consensus pattern (17 bp):
CTTTCTTTTAATTTAGT
Found at i:22337370 original size:58 final size:56
Alignment explanation
Indices: 22337250--22337642 Score: 420
Period size: 58 Copynumber: 6.8 Consensus size: 56
22337240 TTTATACAGA
*
22337250 AAAAATTGATACTTTCAACTTTTTCC-C-AAAATATTTTTTAGAAACTTTAATTTCAAG
1 AAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTT-GAAAC-TTATTTTCAAG
* * *
22337307 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAC--TTATTTTCAAG
* * * *
22337365 AAAAATTGATACTTTCAACTTTTTCTCAACAAT-TCACTTTTGAAAACTT-GTTTCTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATAT--TTTTTG-AAACTTATTTTC-AAG
* **
22337423 GAAAATTGATACTTTCAACTTTTTTTCAAAAATCCA-TTTTTGAAAACTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAT--ATTTTTTG-AAACTTATTTTCAAG
*
22337481 AAAAATTGATACTTTCAACTTTTTCCTAAAAATATATTTTTTTAGAAAGCTTATTTTCAAG
1 AAAAATTGATACTTTCAAC-TTTTCCTCAAAA-ATA-TTTTTT-GAAA-CTTATTTTCAAG
* * *
22337542 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGTTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAA-CTTATTTTCAAG
*
22337600 AAAAATTGATACTTTCAACCTTTT-CACAAAAATATTTTTTGAA
1 AAAAATTGATACTTTCAA-CTTTTCCTCAAAAATATTTTTTGAA
22337643 TTTTATTTAA
Statistics
Matches: 295, Mismatches: 23, Indels: 36
0.83 0.06 0.10
Matches are distributed among these distances:
56 6 0.02
57 32 0.11
58 176 0.60
59 26 0.09
60 24 0.08
61 31 0.11
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (56 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTATTTTCAAG
Found at i:22337571 original size:119 final size:115
Alignment explanation
Indices: 22337250--22337639 Score: 490
Period size: 119 Copynumber: 3.3 Consensus size: 115
22337240 TTTATACAGA
*
22337250 AAAAATTGATACTTTCAACTTTTTCC-CAAA-ATATTTTTTAGAAACTTTAATTTCAAGGAAAAT
1 AAAAATTGATACTTTCAACTTTTTCCAAAAATATATTTTTTAGAAAC-TTAATTTCAAGGAAAAT
* * *
22337313 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTG-AAACTTTTAATTTCGAG
65 TGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAAC--TTATTTTCAAG
* * * *
22337365 AAAAATTGATACTTTCAACTTTTTCTCAACAAT-TCACTTTTGA-AAACTT-GTTTCTAAGGAAA
1 AAAAATTGATACTTTCAACTTTTTC-CAAAAATAT-ATTTTTTAGAAACTTAATTTC-AAGGAAA
*
22337427 ATTGATACTTTCAACTTTTTTTCAAAAATCCA-TTTTTGAAAACTTATTTTCAAG
63 ATTGATACTTTCAACTTTTTCTCAAAAAT--ATTTTTTGAAAACTTATTTTCAAG
*
22337481 AAAAATTGATACTTTCAACTTTTTCCTAAAAATATATTTTTTTAGAAAGCTTATTTTCAAGGAAA
1 AAAAATTGATACTTTCAACTTTTTCC-AAAAATATA-TTTTTTAGAAA-CTTAATTTCAAGGAAA
**
22337546 ATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGTTTATTTTCAAG
63 ATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT-GAAAACTTATTTTCAAG
*
22337600 AAAAATTGATACTTTCAACCTTTTCACAAAAATAT-TTTTT
1 AAAAATTGATACTTTCAACTTTTTC-CAAAAATATATTTTT
22337640 GAATTTTATT
Statistics
Matches: 241, Mismatches: 17, Indels: 32
0.83 0.06 0.11
Matches are distributed among these distances:
115 30 0.12
116 77 0.32
117 25 0.10
118 19 0.08
119 85 0.35
120 5 0.02
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.43
Consensus pattern (115 bp):
AAAAATTGATACTTTCAACTTTTTCCAAAAATATATTTTTTAGAAACTTAATTTCAAGGAAAATT
GATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAACTTATTTTCAAG
Found at i:22337675 original size:13 final size:12
Alignment explanation
Indices: 22337655--22337704 Score: 59
Period size: 13 Copynumber: 4.1 Consensus size: 12
22337645 TTATTTAAAG
22337655 AAAATAAAATAA
1 AAAATAAAATAA
22337667 AATAATAAAAT-A
1 AA-AATAAAATAA
22337679 AAAATAAAA-ATA
1 AAAATAAAATA-A
22337691 AAAATAAAAATAA
1 AAAAT-AAAATAA
22337704 A
1 A
22337705 GAAAATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 7 0.21
12 11 0.33
13 14 0.42
14 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:22337684 original size:6 final size:6
Alignment explanation
Indices: 22337655--22337704 Score: 68
Period size: 6 Copynumber: 8.3 Consensus size: 6
22337645 TTATTTAAAG
22337655 AAAAT- AAAAT- AAAATAA TAAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAAT-A -AAAATA AAAATA AAAATA AAAATA AAAATA
22337703 AA
1 AA
22337705 GAAAATTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.24
6 26 0.62
7 1 0.02
8 5 0.12
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:22338660 original size:42 final size:40
Alignment explanation
Indices: 22338614--22338713 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 40
22338604 TTAAATAAAA
22338614 AATATTAATAGATAATTAAAAGAAAATAATCAGATAAATCAG
1 AATATTAATAGATAATTAAAA-AAAATAAT-AGATAAATCAG
* * * *
22338656 AATATTAACAGATAAATTAAAAATAATAATAGATAAATTAT
1 AATATTAATAGAT-AATTAAAAAAAATAATAGATAAATCAG
22338697 AATATATAAATAGATAA
1 AATAT-T-AATAGATAA
22338714 ATAATAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 14 0.28
42 22 0.44
43 14 0.28
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (40 bp):
AATATTAATAGATAATTAAAAAAAATAATAGATAAATCAG
Done.