Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2447
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: 127182
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Found at i:9238 original size:18 final size:18
Alignment explanation
Indices: 9195--9238 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9185 ATATAATATC
*
9195 AAACATGATATGATATAA
1 AAACATAATATGATATAA
* *
9213 AAAAATAATATGATTTAA
1 AAACATAATATGATATAA
*
9231 ATACATAA
1 AAACATAA
9239 CTTATCAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.30
Consensus pattern (18 bp):
AAACATAATATGATATAA
Found at i:9685 original size:2 final size:2
Alignment explanation
Indices: 9678--9722 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
9668 CTTCCTACTT
9678 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9720 TA T
1 TA T
9723 GTATGTTGGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10230 original size:34 final size:34
Alignment explanation
Indices: 10187--10271 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
10177 GAAATTTATG
10187 TAGGTCAGCCTCTTGGTCAAGATTAATTCTTCCT
1 TAGGTCAGCCTCTTGGTCAAGATTAATTCTTCCT
10221 TAGGTCAGCCTCTTGGTCAAGATTAATTCTTCCT
1 TAGGTCAGCCTCTTGGTCAAGATTAATTCTTCCT
*
10255 TAGGTCAGTCTCTTGGT
1 TAGGTCAGCCTCTTGGT
10272 TATGCCCTCT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (34 bp):
TAGGTCAGCCTCTTGGTCAAGATTAATTCTTCCT
Found at i:10829 original size:32 final size:32
Alignment explanation
Indices: 10793--10896 Score: 87
Period size: 32 Copynumber: 3.4 Consensus size: 32
10783 ATATTCACTC
10793 AAAATCTATATAATAACAATTATTAATATATT
1 AAAATCTATATAATAACAATTATTAATATATT
* *
10825 AAAATTTATATAA-ATA-AA--A--AATCT-TT
1 AAAATCTATATAATA-ACAATTATTAATATATT
* * *
10851 TAAATACAATATAATAACAATTATTAATATATC
1 AAAAT-CTATATAATAACAATTATTAATATATT
*
10884 AAAATTTATATAA
1 AAAATCTATATAA
10897 ATACAAAATC
Statistics
Matches: 53, Mismatches: 10, Indels: 18
0.65 0.12 0.22
Matches are distributed among these distances:
26 6 0.11
27 11 0.21
28 3 0.06
29 1 0.02
30 1 0.02
31 3 0.06
32 23 0.43
33 5 0.09
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (32 bp):
AAAATCTATATAATAACAATTATTAATATATT
Found at i:10863 original size:59 final size:59
Alignment explanation
Indices: 10800--10924 Score: 223
Period size: 59 Copynumber: 2.1 Consensus size: 59
10790 CTCAAAATCT
*
10800 ATATAATAACAATTATTAATATATTAAAATTTATATAAATAAAAAATCTTTTAAATACA
1 ATATAATAACAATTATTAATATATCAAAATTTATATAAATAAAAAATCTTTTAAATACA
*
10859 ATATAATAACAATTATTAATATATCAAAATTTATATAAATACAAAATCTTTTAAATACA
1 ATATAATAACAATTATTAATATATCAAAATTTATATAAATAAAAAATCTTTTAAATACA
10918 ATTATAA
1 A-TATAA
10925 CATAATAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 58 0.92
60 5 0.08
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (59 bp):
ATATAATAACAATTATTAATATATCAAAATTTATATAAATAAAAAATCTTTTAAATACA
Found at i:10939 original size:59 final size:59
Alignment explanation
Indices: 10800--10940 Score: 178
Period size: 59 Copynumber: 2.4 Consensus size: 59
10790 CTCAAAATCT
* ** *
10800 ATATAATAACAATTATTAATATATTAAAATTTATATAAATAAAAAATCTTTTAAATACA
1 ATATAATAACAATAAAAAATATATCAAAATTTATATAAATAAAAAATCTTTTAAATACA
* ** *
10859 ATATAATAACAATTATTAATATATCAAAATTTATATAAATACAAAATCTTTTAAATACA
1 ATATAATAACAATAAAAAATATATCAAAATTTATATAAATAAAAAATCTTTTAAATACA
10918 AT-T-ATAACATAATAAAAAATATA
1 ATATAATAAC--AATAAAAAATATA
10941 AATATAATAT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
57 5 0.07
58 1 0.01
59 69 0.92
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (59 bp):
ATATAATAACAATAAAAAATATATCAAAATTTATATAAATAAAAAATCTTTTAAATACA
Found at i:11512 original size:16 final size:17
Alignment explanation
Indices: 11487--11521 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
11477 ATAATTATAA
11487 TTTTCTTTTTTTTATTT
1 TTTTCTTTTTTTTATTT
11504 TTTTC-TTTTTTTATTT
1 TTTTCTTTTTTTTATTT
11520 TT
1 TT
11522 AATTTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTCTTTTTTTTATTT
Found at i:11520 original size:22 final size:22
Alignment explanation
Indices: 11487--11534 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11477 ATAATTATAA
*
11487 TTTTCTTTTTTTTATTTTTTTC
1 TTTTCTTTTTTTTAATTTTTTC
*
11509 TTTT-TTTATTTTTAATTTTTTG
1 TTTTCTTT-TTTTTAATTTTTTC
11531 TTTT
1 TTTT
11535 AATTACTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.08, C:0.04, G:0.02, T:0.85
Consensus pattern (22 bp):
TTTTCTTTTTTTTAATTTTTTC
Found at i:11528 original size:16 final size:15
Alignment explanation
Indices: 11487--11529 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
11477 ATAATTATAA
*
11487 TTTTCTTTTTTTTAT
1 TTTTATTTTTTTTAT
*
11502 TTTTTTCTTTTTTTAT
1 TTTTAT-TTTTTTTAT
11518 TTTTAATTTTTT
1 TTTT-ATTTTTT
11530 GTTTTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 18 0.75
17 1 0.04
ACGTcount: A:0.09, C:0.05, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTATTTTTTTTAT
Found at i:12213 original size:17 final size:18
Alignment explanation
Indices: 12183--12233 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
12173 TCATTTTTTG
12183 TGATAAAAAAATAAAACTA
1 TGAT-AAAAAATAAAACTA
* *
12202 -GATAACAAATAATACTA
1 TGATAAAAAATAAAACTA
12219 TGATAAAAAATAAAA
1 TGATAAAAAATAAAA
12234 TTTCAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.22
Consensus pattern (18 bp):
TGATAAAAAATAAAACTA
Found at i:12223 original size:18 final size:17
Alignment explanation
Indices: 12188--12233 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
12178 TTTTGTGATA
12188 AAAAAATAAAACTAGAT
1 AAAAAATAAAACTAGAT
* *
12205 AACAAATAATACTATGAT
1 AAAAAATAAAACTA-GAT
12223 AAAAAATAAAA
1 AAAAAATAAAA
12234 TTTCAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.20
Consensus pattern (17 bp):
AAAAAATAAAACTAGAT
Found at i:12731 original size:23 final size:23
Alignment explanation
Indices: 12682--12725 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12672 TTGTTGAAAT
* * *
12682 AAATAAAACAATAAATTAAATAA
1 AAATAAAAAAACAAATCAAATAA
12705 AAATAAAAAAACAAATCAAAT
1 AAATAAAAAAACAAATCAAAT
12726 GCAAATCAAT
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:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (23 bp):
AAATAAAAAAACAAATCAAATAA
Found at i:16810 original size:16 final size:17
Alignment explanation
Indices: 16791--16844 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
16781 AAAAAAAGTC
*
16791 AAAA-GCAAAAGCACAA
1 AAAATGCAAAAGCAAAA
16807 AAAATG-AAAAG-AAAA
1 AAAATGCAAAAGCAAAA
16822 AAAAGTGCAAAAGCAAAA
1 AAAA-TGCAAAAGCAAAA
16840 TAAAA
1 -AAAA
16845 AGGGAACAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 7 0.22
16 11 0.34
17 6 0.19
18 4 0.12
19 4 0.12
ACGTcount: A:0.72, C:0.09, G:0.13, T:0.06
Consensus pattern (17 bp):
AAAATGCAAAAGCAAAA
Found at i:18199 original size:27 final size:27
Alignment explanation
Indices: 18162--18753 Score: 932
Period size: 27 Copynumber: 21.7 Consensus size: 27
18152 GTGGCATTTT
* *
18162 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
18190 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
18217 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
18245 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
18272 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
18299 CTTTTAAGTCCATAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
18326 CTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
18354 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
18381 CTTTTAAAATTCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
18409 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
18436 CTTTTAAGTCCAAAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
18463 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
18490 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
18518 CTTTTAAGTCCACAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
18546 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
18573 CTTTTAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
18600 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
18627 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
18654 TTTTTAAGTCCACAACTCTGTGGCAACC
1 CTTTTAAGTCCACAACTCCGTGGC-ACC
*
18682 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
18709 CTTTTAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
18736 CTTTTAAGTCCACAACTC
1 CTTTTAAGTCCACAACTC
18754 AGCGATTCGC
Statistics
Matches: 525, Mismatches: 34, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
27 370 0.70
28 155 0.30
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:18433 original size:164 final size:163
Alignment explanation
Indices: 18162--18753 Score: 952
Period size: 164 Copynumber: 3.6 Consensus size: 163
18152 GTGGCATTTT
* * *
18162 CTTTTAAAGTCCACAACTCTGTGGCAT-CTTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAG
1 CTTTT-AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAG
18226 TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
64 TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
*
18291 GTGGCACCCTTTTAAGTCCATAACTCCGTGGCACC
129 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * * *
18326 CTTTTAAGTCCATAACTCCATGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAAT
1 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
* * *
18391 TCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCCGTGGCACCCTTTTAAGTCCAAAACTCCG
65 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
18456 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
130 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
18490 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
*
18555 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAGTCCACAACTCCG
65 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
*
18620 TGGCACCCTTTTAAGTCCACAACTCCATGGCACC
130 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
18654 TTTTTAAGTCCACAACTCTGTGGCAACCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
**
18719 CACAACTCCGTGGCATTCTTTTAAGTCCACAACTC
66 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTC
18754 AGCGATTCGC
Statistics
Matches: 398, Mismatches: 28, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
163 62 0.16
164 330 0.83
165 6 0.02
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.29
Consensus pattern (163 bp):
CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
GGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:18486 original size:191 final size:190
Alignment explanation
Indices: 18138--18753 Score: 1000
Period size: 191 Copynumber: 3.2 Consensus size: 190
18128 GACCTTTTCA
* * * * *
18138 AAGTCCACGACTCAGTGGCATTTTCTTTTAAAGTCCACAACTCTGTGGCATCTTTTTAAGTCCAC
1 AAGTCCACAACTCCGTGGCA-TCTCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCAC
*
18203 AACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGG
64 AACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGG
*
18268 CACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCACCCTTTT
128 CACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * * *
18331 AAGTCCATAACTCCATGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATTCACA
1 AAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACA
* *
18396 ACTCCGTGGCACCCTTTTTAGTCCACAACTCCGTGGCACCCTTTTAAGTCCAAAACTCCGTGGCA
65 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
18461 CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTT
130 CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTT
*
18523 AAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAA
* *
18588 CTCCGTGACACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCAC
66 CTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
18653 CTTTTTAAGTCCACAACTCTGTGGCAACCCTTTTAAGACCACAACTCCGTGGCACCCTTTT
131 CCTTTTAAGTCCACAACTCCGTGGC-ACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
18714 AAGTCCACAACTCCGTGGCAT-TCTTTTAAGTCCACAACTC
1 AAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTC
18754 AGCGATTCGC
Statistics
Matches: 395, Mismatches: 25, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
190 19 0.05
191 243 0.62
192 117 0.30
193 16 0.04
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.29
Consensus pattern (190 bp):
AAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAA
CTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:21489 original size:33 final size:33
Alignment explanation
Indices: 21447--21521 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
21437 TAAGAAAGTA
21447 ATGCATCATTCCAAGATCAGACATATCAAATTC
1 ATGCATCATTCCAAGATCAGACATATCAAATTC
21480 ATGCATCATTCCAAGATCAGACATATCAAATTC
1 ATGCATCATTCCAAGATCAGACATATCAAATTC
*
21513 AAGCATCAT
1 ATGCATCAT
21522 GACTGCTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (33 bp):
ATGCATCATTCCAAGATCAGACATATCAAATTC
Found at i:28855 original size:31 final size:31
Alignment explanation
Indices: 28820--28878 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
28810 TATAAAATTT
**
28820 ATAAATATGGGATTTAGAATAGTTAAAAAAA
1 ATAAATATGAAATTTAGAATAGTTAAAAAAA
* *
28851 ATAAATTTTAAATTTAGAATAGTTAAAA
1 ATAAATATGAAATTTAGAATAGTTAAAA
28879 GTAACTTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (31 bp):
ATAAATATGAAATTTAGAATAGTTAAAAAAA
Found at i:30238 original size:66 final size:66
Alignment explanation
Indices: 30132--30369 Score: 379
Period size: 66 Copynumber: 3.6 Consensus size: 66
30122 AAAATCATCT
* * *
30132 AACATCTCAATATTAATATCATTAAAAGAATAAATTATATAATTAATTTTATTTAATTATTTTAT
1 AACATCTCAATATTAATAACATTAAAAGAATAAATTATATAATTAATTTTATTGAATTATATTAT
30197 C
66 C
*
30198 AACATCTCAATATTAATAACATTAAAAGAATAAATTATATAATTAATTTTATTGAATTATGTTAT
1 AACATCTCAATATTAATAACATTAAAAGAATAAATTATATAATTAATTTTATTGAATTATATTAT
30263 C
66 C
*
30264 AACATCTCAATATTAAAAACATTAAAAGAATAAATTATA-AAGTTAATTTTATTGAATTATATTA
1 AACATCTCAATATTAATAACATTAAAAGAATAAATTATATAA-TTAATTTTATTGAATTATATTA
30328 TC
65 TC
* * * *
30330 AACATCCCAGTAGTAATAACATTGAAAGAATAAATTATAT
1 AACATCTCAATATTAATAACATTAAAAGAATAAATTATAT
30370 TGAATTAGAT
Statistics
Matches: 160, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
65 2 0.01
66 158 0.99
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (66 bp):
AACATCTCAATATTAATAACATTAAAAGAATAAATTATATAATTAATTTTATTGAATTATATTAT
C
Found at i:30413 original size:16 final size:16
Alignment explanation
Indices: 30392--30422 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30382 ACATCCCAGT
30392 ATTAATAACATTAAAC
1 ATTAATAACATTAAAC
*
30408 ATTAATAATATTAAA
1 ATTAATAACATTAAA
30423 AGAATAAATT
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:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTAATAACATTAAAC
Found at i:30724 original size:18 final size:17
Alignment explanation
Indices: 30692--30725 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30682 AAATCAAACG
*
30692 AAACAAATTATTTAAAA
1 AAACAAATAATTTAAAA
30709 AAACAAATAAATTTAAA
1 AAACAAAT-AATTTAAA
30726 TTGACTACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AAACAAATAATTTAAAA
Found at i:33974 original size:52 final size:52
Alignment explanation
Indices: 33896--34024 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
33886 CGAAATATGA
*
33896 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
33948 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
34000 AAATTTGCCTGTATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
34025 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:34037 original size:52 final size:51
Alignment explanation
Indices: 33896--34044 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
33886 CGAAATATGA
33896 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
33948 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
34000 AAATTTGCCTGTATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
34045 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:34051 original size:13 final size:13
Alignment explanation
Indices: 34033--34057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34023 CAAAGATCAG
34033 TGTATCGATACAA
1 TGTATCGATACAA
34046 TGTATCGATACA
1 TGTATCGATACA
34058 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:34138 original size:13 final size:13
Alignment explanation
Indices: 34120--34144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34110 CAAAAAAATA
34120 TGTATCGATACAT
1 TGTATCGATACAT
34133 TGTATCGATACA
1 TGTATCGATACA
34145 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:34160 original size:33 final size:33
Alignment explanation
Indices: 34098--34164 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
34088 AGTAGCTTAA
*
34098 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGCATCGATAC
* ***
34131 ATTGTATCGATACAACACTTTATGCATCGATAC
1 ATTGTATCGATACAAAAAAATATGCATCGATAC
34164 A
1 A
34165 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGCATCGATAC
Found at i:36534 original size:16 final size:18
Alignment explanation
Indices: 36513--36545 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
36503 AAAAATACCT
36513 TTATTTT-AT-TTTTTTC
1 TTATTTTCATATTTTTTC
36529 TTATTTTCATATTTTTT
1 TTATTTTCATATTTTTT
36546 GTTTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (18 bp):
TTATTTTCATATTTTTTC
Found at i:38399 original size:3 final size:3
Alignment explanation
Indices: 38322--38384 Score: 99
Period size: 3 Copynumber: 21.0 Consensus size: 3
38312 TATGTTACGA
* *
38322 AAT AAT AAT AAT AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
38370 AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
38385 CACAAAGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:40550 original size:30 final size:29
Alignment explanation
Indices: 40516--40573 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
40506 TTATTGCTTA
* *
40516 AATTTAATATACATATTTTATCCTTTATTC
1 AATTTAATACACATATTTT-GCCTTTATTC
* *
40546 AATTTAGTACACCTATTTTGCCTTTATT
1 AATTTAATACACATATTTTGCCTTTATT
40574 TTGAGCTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.29, C:0.16, G:0.03, T:0.52
Consensus pattern (29 bp):
AATTTAATACACATATTTTGCCTTTATTC
Found at i:41228 original size:13 final size:13
Alignment explanation
Indices: 41177--41251 Score: 55
Period size: 13 Copynumber: 5.5 Consensus size: 13
41167 TTATAAAATT
41177 TTTAATTAAATAAAA
1 TTTAA-TAAAT-AAA
*
41192 TTATAATTAATAAA
1 TT-TAATAAATAAA
*
41206 TTTATTTAAA-AATA
1 TTTA-ATAAATAA-A
41220 TTTAATAAATAAA
1 TTTAATAAATAAA
*
41233 TTTAA-AATTAAAA
1 TTTAATAAAT-AAA
41246 TTTAAT
1 TTTAAT
41252 CATATAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
12 3 0.06
13 22 0.45
14 15 0.31
15 6 0.12
16 3 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAATAAATAAA
Found at i:41231 original size:27 final size:29
Alignment explanation
Indices: 41177--41237 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 29
41167 TTATAAAATT
*
41177 TTTAATTAAATAAAATTATAATTAATAAA
1 TTTAATTAAATAAAATTATAATAAATAAA
* *
41206 TTTATTTAAA-AATATT-TAATAAATAAA
1 TTTAATTAAATAAAATTATAATAAATAAA
41233 TTTAA
1 TTTAA
41238 AATTAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 14 0.50
28 5 0.18
29 9 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTAATTAAATAAAATTATAATAAATAAA
Found at i:42327 original size:11 final size:10
Alignment explanation
Indices: 42311--42368 Score: 64
Period size: 11 Copynumber: 5.7 Consensus size: 10
42301 AAACAGAAAA
42311 TTTTTTTTCT
1 TTTTTTTTCT
42321 CTTTTTTTTCT
1 -TTTTTTTTCT
*
42332 TTCATTTTTCT
1 TT-TTTTTTCT
42343 TTTTTTTTC-
1 TTTTTTTTCT
* *
42352 CTTTCTTTCT
1 TTTTTTTTCT
42362 TTTTTTT
1 TTTTTTT
42369 AGCTTTGCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
9 7 0.18
10 13 0.33
11 19 0.49
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:42341 original size:22 final size:22
Alignment explanation
Indices: 42314--42368 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 22
42304 CAGAAAATTT
42314 TTTTTCTCTTTTTTTT-CTTTCA
1 TTTTTCT-TTTTTTTTCCTTTCA
42336 TTTTTCTTTTTTTTTCCTTTC-
1 TTTTTCTTTTTTTTTCCTTTCA
42357 --TTTCTTTTTTTT
1 TTTTTCTTTTTTTT
42369 AGCTTTGCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.38
21 8 0.25
22 12 0.38
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTCTTTTTTTTTCCTTTCA
Found at i:42356 original size:15 final size:16
Alignment explanation
Indices: 42311--42366 Score: 62
Period size: 15 Copynumber: 3.5 Consensus size: 16
42301 AAACAGAAAA
42311 TTTTTTTTCTCTTT-T
1 TTTTTTTTCTCTTTCT
* *
42326 TTTTCTTTCATTTTTCT
1 TTTTTTTTC-TCTTTCT
42343 TTTTTTTTC-CTTTCT
1 TTTTTTTTCTCTTTCT
42358 TTCTTTTTT
1 TT-TTTTTT
42367 TTAGCTTTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 15 0.44
16 10 0.29
17 9 0.26
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTTCTCTTTCT
Found at i:42374 original size:19 final size:19
Alignment explanation
Indices: 42338--42374 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
42328 TTCTTTCATT
*
42338 TTTCTTTTTTTTTCCTTTC
1 TTTCTTTTTTTTACCTTTC
*
42357 TTTCTTTTTTTTAGCTTT
1 TTTCTTTTTTTTACCTTT
42375 GCCTTGCTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTCTTTTTTTTACCTTTC
Found at i:42601 original size:23 final size:24
Alignment explanation
Indices: 42553--42604 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
42543 TAAACACTAC
*
42553 ATAAATATACAAATATATTAAAGT
1 ATAAATAAACAAATATATTAAAGT
* *
42577 ATAAATAAATAAATA-ATTAAGGT
1 ATAAATAAACAAATATATTAAAGT
42600 ATAAA
1 ATAAA
42605 AATTTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (24 bp):
ATAAATAAACAAATATATTAAAGT
Found at i:42756 original size:23 final size:23
Alignment explanation
Indices: 42730--42790 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
42720 ATAAAAATAT
42730 ATATATAATAAAATAAAT-TATTA
1 ATATATAA-AAAATAAATATATTA
*
42753 ATATATAAAAAATATAATATTTTA
1 ATATATAAAAAATA-AATATATTA
42777 A-ATATAAAAAATAA
1 ATATATAAAAAATAA
42791 TAAAAATACG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
22 7 0.20
23 23 0.66
24 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
ATATATAAAAAATAAATATATTA
Found at i:42770 original size:16 final size:16
Alignment explanation
Indices: 42707--42772 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 16
42697 ATATAACACG
*
42707 AATATAAATACATATAAA
1 AATAT-AATATATA-AAA
42725 AATATATATATAATAAAATA
1 AATATA-ATAT-AT-AAA-A
42745 AATTATTAATATATAAAA
1 AA-TA-TAATATATAAAA
42763 AATATAATAT
1 AATATAATAT
42773 TTTAAATATA
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
16 6 0.15
17 3 0.07
18 11 0.27
19 7 0.17
20 6 0.15
21 6 0.15
22 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATAATATATAAAA
Found at i:42793 original size:24 final size:25
Alignment explanation
Indices: 42728--42794 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 25
42718 ATATAAAAAT
*
42728 ATATATATAATAA-AATAAATTATTA
1 ATATATA-AAAAATAATAAATTATTA
42753 ATATATAAAAAAT-ATAATATT-TTA
1 ATATATAAAAAATAATAA-ATTATTA
42777 A-ATATAAAAAATAATAAA
1 ATATATAAAAAATAATAAA
42795 AATACGAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 12 0.32
24 16 0.42
25 10 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATATAAAAAATAATAAATTATTA
Found at i:43481 original size:13 final size:13
Alignment explanation
Indices: 43463--43489 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43453 TTAATTTCAT
43463 AAAAATATAATAA
1 AAAAATATAATAA
43476 AAAAATATAATAA
1 AAAAATATAATAA
43489 A
1 A
43490 CACGTATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAATATAATAA
Found at i:43764 original size:26 final size:27
Alignment explanation
Indices: 43686--43764 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
43676 TTTTAAGTAA
*
43686 ATAAAAAATATTTAAGTATTTGTTTA-AT
1 ATAAAAAATA-TTAAGTATTT-TATATAT
* * **
43714 ATAAAAAATTTTAATTATTAAATATAT
1 ATAAAAAATATTAAGTATTTTATATAT
*
43741 ATTAAAAATATTAA-TATTTTATAT
1 ATAAAAAATATTAAGTATTTTATAT
43765 TGATATGATT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
26 10 0.24
27 22 0.54
28 9 0.22
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (27 bp):
ATAAAAAATATTAAGTATTTTATATAT
Found at i:44344 original size:28 final size:28
Alignment explanation
Indices: 44304--44358 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
44294 AGTTTCAATA
*
44304 ATTTTAAATTTTATTTTACTAAAAAAATC
1 ATTTTAAATTTTAATTTA-TAAAAAAATC
*
44333 ATTTT-AATTTTAATTTATAGAAAAAT
1 ATTTTAAATTTTAATTTATAAAAAAAT
44359 TTCTCTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.33
28 11 0.46
29 5 0.21
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTTTAAATTTTAATTTATAAAAAAATC
Found at i:46078 original size:16 final size:17
Alignment explanation
Indices: 46057--46093 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
46047 TTTTATTTAA
46057 ATAAATA-ATAAAAAAT
1 ATAAATATATAAAAAAT
*
46073 ATAAATATTTAAAAAAT
1 ATAAATATATAAAAAAT
46090 -TAAA
1 ATAAA
46094 AGATAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAATATATAAAAAAT
Found at i:49758 original size:13 final size:14
Alignment explanation
Indices: 49735--49764 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
49725 AATTCTAAAT
49735 TATCTTCCTAACAG
1 TATCTTCCTAACAG
49749 TATCTT-CTAACAG
1 TATCTTCCTAACAG
49762 TAT
1 TAT
49765 AAGTTGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (14 bp):
TATCTTCCTAACAG
Found at i:53725 original size:2 final size:2
Alignment explanation
Indices: 53718--53746 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
53708 ACTTGAATTT
53718 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 T
53747 GGTTATTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58387 original size:22 final size:22
Alignment explanation
Indices: 58362--58440 Score: 54
Period size: 24 Copynumber: 3.5 Consensus size: 22
58352 TTGTATTATT
58362 ATTTATTAATAATTTTATTTAA
1 ATTTATTAATAATTTTATTTAA
* * * **
58384 ATTTAATTATAAAAATATATAAAA
1 ATTT-ATTA-ATAATTTTATTTAA
*
58408 ATTTATATAA-AATATT-TTTAA
1 ATTTAT-TAATAATTTTATTTAA
58429 ATTTTATTAATA
1 A-TTTATTAATA
58441 TTTAAATAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
21 7 0.17
22 13 0.31
23 7 0.17
24 15 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTATTAATAATTTTATTTAA
Found at i:60220 original size:11 final size:10
Alignment explanation
Indices: 60205--60378 Score: 57
Period size: 10 Copynumber: 17.6 Consensus size: 10
60195 TGATTTTTCG
60205 TATATTTATA
1 TATATTTATA
60215 TCATATTTATA
1 T-ATATTTATA
*
60226 TATTTTTATA
1 TATATTTATA
**
60236 T-TATAAATA
1 TATATTTATA
*
60245 T-TTTTTAAATTA
1 TATATTT--A-TA
60257 TATATTTATA
1 TATATTTATA
*
60267 TAAATTT-TAA
1 TATATTTAT-A
*
60277 TATATTAATAA
1 TATATTTAT-A
*
60288 TTTATATTATA
1 TATAT-TTATA
*
60299 TAAAATTT-TA
1 T-ATATTTATA
* *
60309 -ACATTTTTA
1 TATATTTATA
*
60318 TATATTTACA
1 TATATTTATA
60328 T-TATTT-T-
1 TATATTTATA
60335 TATA-TTATA
1 TATATTTATA
60344 TAATATTT-TA
1 T-ATATTTATA
*
60354 -ATTATTTTTA
1 TA-TATTTATA
*
60364 TAT-TTTATT
1 TATATTTATA
60373 TATATT
1 TATATT
60379 ATGTACAGTA
Statistics
Matches: 122, Mismatches: 22, Indels: 40
0.66 0.12 0.22
Matches are distributed among these distances:
7 3 0.02
8 9 0.07
9 29 0.24
10 43 0.35
11 26 0.21
12 8 0.07
13 4 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATTTATA
Found at i:60235 original size:27 final size:25
Alignment explanation
Indices: 60205--60378 Score: 93
Period size: 27 Copynumber: 6.6 Consensus size: 25
60195 TGATTTTTCG
60205 TATATTTATATCATATTTATATATTTT
1 TATATTTATAT-ATATTT-TATATTTT
* * * *
60232 TATA-TTATAAATATTTTTTAAATTA
1 TATATTTATATATATTTTAT-ATTTT
* *
60257 TATATTTATATAAATTTTAATATATT
1 TATATTTATATATATTTT-ATATTTT
* * * *
60283 AATAATTTATAT-TATATAAAATTTT
1 TAT-ATTTATATATATTTTATATTTT
* * * *
60308 AACATTTTTATATATTTACATTATTTT
1 TATATTTATATATATTT-TA-TATTTT
60335 TATA-TTATATAATATTTTAATTATTTT
1 TATATTTATAT-ATATTTT-A-TATTTT
*
60362 TATATTTTATTTATATT
1 TATA-TTTATATATATT
60379 ATGTACAGTA
Statistics
Matches: 110, Mismatches: 26, Indels: 21
0.70 0.17 0.13
Matches are distributed among these distances:
24 9 0.08
25 24 0.22
26 29 0.26
27 38 0.35
28 5 0.05
29 5 0.05
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TATATTTATATATATTTTATATTTT
Found at i:60251 original size:18 final size:19
Alignment explanation
Indices: 60223--60258 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
60213 TATCATATTT
*
60223 ATATATTTTTATATTATAA
1 ATATATTTTTAAATTATAA
60242 ATAT-TTTTTAAATTATA
1 ATATATTTTTAAATTATA
60259 TATTTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATATTTTTAAATTATAA
Found at i:60308 original size:17 final size:17
Alignment explanation
Indices: 60251--60308 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
60241 AATATTTTTT
*
60251 AAATTATATATT-TATA
1 AAATTTTATATTATATA
60267 TAAATTTTA-A-TATATTA
1 -AAATTTTATATTATA-TA
60284 ATAA-TTTATATTATATA
1 A-AATTTTATATTATATA
60301 AAATTTTA
1 AAATTTTA
60309 ACATTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
15 1 0.03
16 10 0.29
17 19 0.56
18 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATTTTATATTATATA
Found at i:60331 original size:34 final size:32
Alignment explanation
Indices: 60262--60331 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
60252 AATTATATAT
* *
60262 TTATATAAATTTTAATATATTAATAATTTATA
1 TTATATAAATTTTAACATATTAATAATTTACA
* *
60294 TTATATAAAATTTTAACATTTTTATATATTTACA
1 TTATAT-AAATTTTAACATATTAATA-ATTTACA
60328 TTAT
1 TTAT
60332 TTTTATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 6 0.19
33 16 0.50
34 10 0.31
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (32 bp):
TTATATAAATTTTAACATATTAATAATTTACA
Found at i:60352 original size:17 final size:17
Alignment explanation
Indices: 60332--60377 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
60322 TTTACATTAT
60332 TTTTATATTATATAATA
1 TTTTATATTATATAATA
* *
60349 TTTTA-ATTATTTTTATA
1 TTTTATATTA-TATAATA
60366 TTTTAT-TTATAT
1 TTTTATATTATAT
60378 TATGTACAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATATTATATAATA
Found at i:60355 original size:8 final size:8
Alignment explanation
Indices: 60270--60370 Score: 60
Period size: 8 Copynumber: 11.8 Consensus size: 8
60260 ATTTATATAA
60270 ATTTTAAT
1 ATTTTAAT
*
60278 ATATTAAT
1 ATTTTAAT
*
60286 AATTT-AT
1 ATTTTAAT
*
60293 ATTATATAAA
1 ATT-T-TAAT
*
60303 ATTTTAAC
1 ATTTTAAT
*
60311 ATTTTTAT
1 ATTTTAAT
60319 ATATTTACATT
1 AT-TTTA-A-T
*
60330 ATTTTTAT
1 ATTTTAAT
60338 ATTATATAAT
1 ATT-T-TAAT
60348 ATTTTAATT
1 ATTTTAA-T
*
60357 ATTTTTAT
1 ATTTTAAT
60365 ATTTTA
1 ATTTTA
60371 TTTATATTAT
Statistics
Matches: 71, Mismatches: 13, Indels: 18
0.70 0.13 0.18
Matches are distributed among these distances:
7 4 0.06
8 35 0.49
9 15 0.21
10 14 0.20
11 3 0.04
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTTTAAT
Found at i:61836 original size:20 final size:20
Alignment explanation
Indices: 61777--61840 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
61767 AGCCAAATCA
61777 AATTT-AAATAT-AATA-TT
1 AATTTAAAATATAAATATTT
*
61794 AATATTATAAT-TAAATTTATTT
1 AAT-TTAAAATATAAA--TATTT
61816 AATTTAAAATATAAATATTT
1 AATTTAAAATATAAATATTT
61836 AATTT
1 AATTT
61841 TATTTAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
17 3 0.08
18 3 0.08
19 5 0.13
20 10 0.26
21 8 0.21
22 9 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTTAAAATATAAATATTT
Found at i:61846 original size:10 final size:10
Alignment explanation
Indices: 61831--61910 Score: 54
Period size: 10 Copynumber: 7.8 Consensus size: 10
61821 AAAATATAAA
*
61831 TATTTAATTT
1 TATTTAAATT
61841 TATTTAAATT
1 TATTTAAATT
61851 TATTTATAATT
1 TATTTA-AATT
**
61862 ATAAATAAA-T
1 -TATTTAAATT
*
61872 AATTTAAATT
1 TATTTAAATT
*
61882 TATTTATATT
1 TATTTAAATT
* *
61892 CTTTTTTAATT
1 -TATTTAAATT
*
61903 TTTTTAAA
1 TATTTAAA
61911 AAATATGTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
9 5 0.09
10 32 0.59
11 13 0.24
12 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (10 bp):
TATTTAAATT
Found at i:61848 original size:40 final size:40
Alignment explanation
Indices: 61777--61887 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 40
61767 AGCCAAATCA
*
61777 AATTT-AAATAT-AATA-TTAATATTATAATTAAATTTATTT
1 AATTTAAAATATAAATATTTAAT-TT-TATTTAAATTTATTT
61816 AATTTAAAATATAAATATTTAATTTTATTTAAATTTATTT
1 AATTTAAAATATAAATATTTAATTTTATTTAAATTTATTT
* * *
61856 ATAATTATAA-ATAAATAATTTAAATTTATTTA
1 A-ATTTAAAATATAAAT-ATTTAATTTTATTTA
61888 TATTCTTTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
39 5 0.08
40 27 0.43
41 26 0.41
42 5 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (40 bp):
AATTTAAAATATAAATATTTAATTTTATTTAAATTTATTT
Found at i:61854 original size:20 final size:21
Alignment explanation
Indices: 61776--61856 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 21
61766 AAGCCAAATC
*
61776 AAATTTAAATATAATATTAATATT
1 AAATTTAAAT-TTAT-TTAAT-TT
61800 ATAA-TTAAATTTATTTAATTT
1 A-AATTTAAATTTATTTAATTT
*
61821 AAAATATAAA--TATTTAATTT
1 -AAATTTAAATTTATTTAATTT
*
61841 -TATTTAAATTTATTTA
1 AAATTTAAATTTATTTA
61857 TAATTATAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
18 6 0.12
20 16 0.33
21 4 0.08
22 10 0.21
23 3 0.06
24 7 0.15
25 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATTTAAATTTATTTAATTT
Found at i:61902 original size:41 final size:40
Alignment explanation
Indices: 61777--61887 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 40
61767 AGCCAAATCA
*
61777 AATT-TAAATATAATA-TTAATATTATAATTAAATTTATTTA-
1 AATTATAAATA-AATATTTAA-ATT-TATTTAAATTTATTTAT
* * *
61817 ATTTAAAATATAAATATTTAATTTTATTTAAATTTATTTAT
1 AATTATAA-ATAAATATTTAAATTTATTTAAATTTATTTAT
61858 AATTATAAATAAATAATTTAAATTTATTTA
1 AATTATAAATAAAT-ATTTAAATTTATTTA
61888 TATTCTTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
40 24 0.41
41 28 0.47
42 7 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (40 bp):
AATTATAAATAAATATTTAAATTTATTTAAATTTATTTAT
Found at i:62307 original size:2 final size:2
Alignment explanation
Indices: 62290--62335 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
62280 TTTTATAGAT
*
62290 TA TA -A TA TA AA 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
62331 TA TA T
1 TA TA T
62336 GTGTGTGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:63354 original size:19 final size:19
Alignment explanation
Indices: 63332--63371 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
63322 TTAATTTTGA
*
63332 TATTTTTTA-AAAAATTAAT
1 TATTTATTATAAAAA-TAAT
63351 TATTTATTATAAAAATAAT
1 TATTTATTATAAAAATAAT
63370 TA
1 TA
63372 AAAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTATTATAAAAATAAT
Found at i:67168 original size:26 final size:26
Alignment explanation
Indices: 67139--67194 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
67129 GATGTTAGTC
*
67139 CTTCCACTCAACCCTAGTTGTTTTTG
1 CTTCCACTCAACCCTAATTGTTTTTG
67165 CTTCCACTCAACCCTAATTGTTTTTG
1 CTTCCACTCAACCCTAATTGTTTTTG
67191 CTTC
1 CTTC
67195 TTTCTGTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.16, C:0.32, G:0.09, T:0.43
Consensus pattern (26 bp):
CTTCCACTCAACCCTAATTGTTTTTG
Found at i:71386 original size:3 final size:3
Alignment explanation
Indices: 71378--71417 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
71368 ATTTCCGGCG
71378 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
71418 CATTTGTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:71833 original size:13 final size:13
Alignment explanation
Indices: 71815--71839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71805 TTTATTTTTT
71815 AATATATAATAAA
1 AATATATAATAAA
71828 AATATATAATAA
1 AATATATAATAA
71840 TTTTTTAATT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATATAATAAA
Found at i:72396 original size:21 final size:21
Alignment explanation
Indices: 72384--72433 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
72374 AAATATAATG
72384 ATAATTATTTTAAAAATAAAA
1 ATAATTATTTTAAAAATAAAA
**
72405 ATAATTATATAAATAAAATAAAA
1 ATAATTAT-TTTA-AAAATAAAA
72428 ATAATT
1 ATAATT
72434 TATTAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.32
22 2 0.08
23 15 0.60
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAATTATTTTAAAAATAAAA
Found at i:72422 original size:23 final size:22
Alignment explanation
Indices: 72396--72441 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
72386 AATTATTTTA
72396 AAAATAAAAATAATTATATAAAT
1 AAAATAAAAATAATT-TATAAAT
*
72419 AAAATAAAAATAATTTATTAAT
1 AAAATAAAAATAATTTATAAAT
72441 A
1 A
72442 TGCTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATAAAAATAATTTATAAAT
Found at i:72580 original size:8 final size:8
Alignment explanation
Indices: 72569--72608 Score: 80
Period size: 8 Copynumber: 5.0 Consensus size: 8
72559 TGAAAATTTC
72569 TTAATATT
1 TTAATATT
72577 TTAATATT
1 TTAATATT
72585 TTAATATT
1 TTAATATT
72593 TTAATATT
1 TTAATATT
72601 TTAATATT
1 TTAATATT
72609 CATGTTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTAATATT
Found at i:77376 original size:13 final size:13
Alignment explanation
Indices: 77358--77404 Score: 67
Period size: 13 Copynumber: 3.4 Consensus size: 13
77348 TCAAAATAAA
77358 TATTTTAATAATT
1 TATTTTAATAATT
77371 TATTTTAAATTAATAT
1 TATTTT-AA-TAAT-T
77387 TATTTTAATAATT
1 TATTTTAATAATT
77400 TATTT
1 TATTT
77405 AAAAATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 12 0.39
14 6 0.19
15 6 0.19
16 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTTAATAATT
Found at i:77400 original size:29 final size:29
Alignment explanation
Indices: 77350--77414 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
77340 TTTGAGAATC
*
77350 AAAATAA-A-TATTTTAATAATTTATTTT
1 AAAATAATATTATTTTAATAATTTATTTA
*
77377 AAATTAATATTATTTTAATAATTTATTTA
1 AAAATAATATTATTTTAATAATTTATTTA
77406 AAAATAATA
1 AAAATAATA
77415 ACACTTTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 6 0.18
28 1 0.03
29 26 0.79
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
AAAATAATATTATTTTAATAATTTATTTA
Found at i:77659 original size:10 final size:8
Alignment explanation
Indices: 77607--77661 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
77597 AGCTAAAGCA
*
77607 TTATAATA
1 TTATAATT
77615 TTATAA--
1 TTATAATT
*
77621 TTATTATT
1 TTATAATT
*
77629 TTATATTT
1 TTATAATT
77637 TTATAATT
1 TTATAATT
77645 TTATAGATAT
1 TTATA-AT-T
77655 TTATAAT
1 TTATAAT
77662 AATTTGAGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 5 0.13
8 24 0.62
9 4 0.10
10 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (8 bp):
TTATAATT
Found at i:78741 original size:2 final size:2
Alignment explanation
Indices: 78734--78762 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
78724 AGATTACGGA
78734 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
78763 ATTCTGAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:79586 original size:11 final size:12
Alignment explanation
Indices: 79564--79624 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
79554 ATTAATTATT
79564 TATTATATTTAA
1 TATTATATTTAA
79576 TATT-TATTTAA
1 TATTATATTTAA
* * *
79587 GATTAAATTTAT
1 TATTATATTTAA
*
79599 TTTTAAATATTTAA
1 TATT--ATATTTAA
*
79613 TATTTTATTTAA
1 TATTATATTTAA
79625 GTGAAGTAGT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
11 10 0.27
12 18 0.49
14 9 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATATTTAA
Found at i:79766 original size:12 final size:12
Alignment explanation
Indices: 79749--79773 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79739 CAGTAGAGTC
79749 TATCAAACTAAG
1 TATCAAACTAAG
79761 TATCAAACTAAG
1 TATCAAACTAAG
79773 T
1 T
79774 GAATTACTTA
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:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TATCAAACTAAG
Found at i:80084 original size:19 final size:18
Alignment explanation
Indices: 80053--80089 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
80043 TGAACTTAAA
*
80053 CATATCAATTTATGTATT
1 CATATCAATTTATATATT
80071 CATATCATATTTATATATT
1 CATATCA-ATTTATATATT
80090 TTATGTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.51
Consensus pattern (18 bp):
CATATCAATTTATATATT
Found at i:86403 original size:13 final size:13
Alignment explanation
Indices: 86365--86406 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
86355 AAAGAAAGAA
*
86365 ATTTTTTTTATGT
1 ATTTTTTTTATAT
*
86378 ATTTGTATTTATAT
1 ATTT-TTTTTATAT
86392 ATTTTTTTTATAT
1 ATTTTTTTTATAT
86405 AT
1 AT
86407 AAAATATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (13 bp):
ATTTTTTTTATAT
Found at i:88672 original size:18 final size:18
Alignment explanation
Indices: 88651--88685 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
88641 ATTGAGGGGC
88651 CCTCAGATTTCGCCACTG
1 CCTCAGATTTCGCCACTG
88669 CCTCAGATTTCGCCACT
1 CCTCAGATTTCGCCACT
88686 AAGGTCAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.40, G:0.14, T:0.29
Consensus pattern (18 bp):
CCTCAGATTTCGCCACTG
Found at i:89311 original size:30 final size:31
Alignment explanation
Indices: 89275--89336 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
89265 ACTAGAAATC
* * *
89275 ATCGAATATGAAAATG-CTGAATCCAAAGTT
1 ATCGAATATAAAAAAGTCTGAATACAAAGTT
*
89305 ATCGAATATAAAAAAGTTTGAATACAAAGTT
1 ATCGAATATAAAAAAGTCTGAATACAAAGTT
89336 A
1 A
89337 CACGAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (31 bp):
ATCGAATATAAAAAAGTCTGAATACAAAGTT
Found at i:89422 original size:15 final size:16
Alignment explanation
Indices: 89399--89431 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
89389 CTCCAAAATT
89399 AACTAAAAAT-ATTTG
1 AACTAAAAATAATTTG
*
89414 AACTTAAAATAATTTG
1 AACTAAAAATAATTTG
89430 AA
1 AA
89432 TTGAAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (16 bp):
AACTAAAAATAATTTG
Found at i:91131 original size:31 final size:31
Alignment explanation
Indices: 91093--91153 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
91083 GAGGTGATAT
* *
91093 AGTTCAAATTTCTGTTCTGTTCCTAAATCGG
1 AGTTCAAAATTCTGTTCTGTCCCTAAATCGG
91124 AGTTCAAAATTCTGTTCTGTCCCTAAATCG
1 AGTTCAAAATTCTGTTCTGTCCCTAAATCG
91154 ATTTCATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (31 bp):
AGTTCAAAATTCTGTTCTGTCCCTAAATCGG
Found at i:94526 original size:2 final size:2
Alignment explanation
Indices: 94521--94546 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94511 GTACACACAC
94521 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
94547 TCTTCCTGAT
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:95141 original size:22 final size:22
Alignment explanation
Indices: 95102--95143 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
95092 TCATGTATTC
*
95102 TTATCATATTTATATTATTTTT
1 TTATCATATATATATTATTTTT
* *
95124 TTATCGTATATATTTTATTT
1 TTATCATATATATATTATTT
95144 AATATTTTAA
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:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATCATATATATATTATTTTT
Found at i:96017 original size:16 final size:17
Alignment explanation
Indices: 95980--96019 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
95970 GAAATATCTG
95980 TTATTTGATATTTATAA
1 TTATTTGATATTTATAA
* *
95997 ATATTTGA-ATTTATTA
1 TTATTTGATATTTATAA
96013 TTATTTG
1 TTATTTG
96020 TTTATTTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (17 bp):
TTATTTGATATTTATAA
Found at i:96133 original size:16 final size:15
Alignment explanation
Indices: 96091--96149 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
96081 CCAAATTTAT
*
96091 TAAAAT-AAT-AATT
1 TAAAATAAATAAATA
96104 TAAAA-AATATAAATA
1 TAAAATAA-ATAAATA
96119 TAAAATTAAATAAATA
1 TAAAA-TAAATAAATA
* *
96135 TTAAATATATAAATA
1 TAAAATAAATAAATA
96150 GATATCATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 6 0.16
14 2 0.05
15 17 0.45
16 11 0.29
17 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAAAATAAATAAATA
Found at i:96139 original size:23 final size:22
Alignment explanation
Indices: 96088--96148 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
96078 AATCCAAATT
96088 TATTAAA-ATAATAATTTAAAAAA
1 TATTAAATATAA-AA-TTAAAAAA
96111 TA-TAAATATAAAATTAAATAAA
1 TATTAAATATAAAATTAAA-AAA
96133 TATTAAATATATAAAT
1 TATTAAATATA-AAAT
96149 AGATATCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.15
22 11 0.32
23 14 0.41
24 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TATTAAATATAAAATTAAAAAA
Found at i:96470 original size:17 final size:16
Alignment explanation
Indices: 96444--96478 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
96434 TATTAAAAAG
*
96444 TAAAATATGATATGAAA
1 TAAAAAATGATAT-AAA
96461 TAAAAAATGATATAAA
1 TAAAAAATGATATAAA
96477 TA
1 TA
96479 CATAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (16 bp):
TAAAAAATGATATAAA
Found at i:96485 original size:17 final size:18
Alignment explanation
Indices: 96450--96499 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
96440 AAAGTAAAAT
* *
96450 ATGATATGAAATA-AAAA
1 ATGATATAAAATACATAA
96467 ATGATAT-AAATACATAA
1 ATGATATAAAATACATAA
96484 AT-ATATCAAAATACAT
1 ATGATAT-AAAATACAT
96500 GTAACATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 9 0.31
17 12 0.41
18 8 0.28
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (18 bp):
ATGATATAAAATACATAA
Found at i:100628 original size:18 final size:18
Alignment explanation
Indices: 100580--100635 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
100570 ATAATATTAA
*
100580 AAAATAAATTTTATAT-T
1 AAAATAAAATTTATATAT
*
100597 AATTTAATATAATTTATATAT
1 AA---AATAAAATTTATATAT
100618 AAAATAAAATTTATATAT
1 AAAATAAAATTTATATAT
100636 TAACACGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.06
18 15 0.47
20 12 0.38
21 3 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATAAAATTTATATAT
Found at i:100858 original size:22 final size:21
Alignment explanation
Indices: 100833--100905 Score: 74
Period size: 22 Copynumber: 3.4 Consensus size: 21
100823 CCCTAATTAT
100833 AATTTTTTTAAATTTTTAATAA
1 AATTTTTTT-AATTTTTAATAA
* *
100855 AATTTATTTAATTTATAAATAA
1 AATTTTTTTAATTT-TTAATAA
* * * *
100877 AAATTTTATAATTTTTCATTA
1 AATTTTTTTAATTTTTAATAA
100898 AATTTTTT
1 AATTTTTT
100906 ATTAAATATA
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
21 15 0.38
22 25 0.62
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (21 bp):
AATTTTTTTAATTTTTAATAA
Found at i:100906 original size:22 final size:22
Alignment explanation
Indices: 100826--100907 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 22
100816 TTCTAAACCC
100826 TAATTATAATTTTTT-TAAATTTT
1 TAATTA-AATTTTTTAT-AATTTT
* * *
100849 TAATAAAATTTATT-TAATTTA
1 TAATTAAATTTTTTATAATTTT
* **
100870 TAAATAAAAATTTTATAATTTT
1 TAATTAAATTTTTTATAATTTT
*
100892 TCATTAAATTTTTTAT
1 TAATTAAATTTTTTAT
100908 TAAATATATT
Statistics
Matches: 45, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
21 14 0.31
22 26 0.58
23 5 0.11
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATTAAATTTTTTATAATTTT
Found at i:100918 original size:55 final size:55
Alignment explanation
Indices: 100829--100948 Score: 156
Period size: 55 Copynumber: 2.2 Consensus size: 55
100819 TAAACCCTAA
*
100829 TTATAATTTTTTTAAATTTTTAATAAAATTTATTTAATT-T-ATAAATAAAAATT
1 TTATAATTTTTTTAAATTTTTAATAAAATATATTTAATTATGATAAATAAAAATT
* * *
100882 TTATAATTTTTCATTAAATTTTTTATTAAATATATTTATTTGATGATAAATAAAAATT
1 TTATAATTTTT--TTAAATTTTTAATAAAATATATTTAATT-ATGATAAATAAAAATT
100940 TTAT-ATTTT
1 TTATAATTTT
100949 ATATCTTATA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
53 11 0.19
55 24 0.41
57 6 0.10
58 17 0.29
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (55 bp):
TTATAATTTTTTTAAATTTTTAATAAAATATATTTAATTATGATAAATAAAAATT
Found at i:101010 original size:26 final size:27
Alignment explanation
Indices: 100966--101016 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
100956 ATATGAAAAT
100966 AATAAATTTAAAAATTTAA-ATATTAA
1 AATAAATTTAAAAATTTAATATATTAA
*
100992 AATAAATTTTATAAA-TTAATATATT
1 AATAAA-TTTAAAAATTTAATATATT
101017 TATTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AATAAATTTAAAAATTTAATATATTAA
Found at i:101264 original size:3 final size:3
Alignment explanation
Indices: 101258--101291 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
101248 TCTTCTTCAC
101258 CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT C
1 CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT C
101292 ATCATTAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.32, T:0.32
Consensus pattern (3 bp):
CGT
Found at i:107420 original size:27 final size:27
Alignment explanation
Indices: 107382--107438 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
107372 AACTACATAG
107382 ATGCGTGTTACTTGTGCACTTGAATGA
1 ATGCGTGTTACTTGTGCACTTGAATGA
*
107409 ATGCGTGTTACTTGTGCAGTTGAATGA
1 ATGCGTGTTACTTGTGCACTTGAATGA
107436 ATG
1 ATG
107439 GTGAGATCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (27 bp):
ATGCGTGTTACTTGTGCACTTGAATGA
Found at i:107677 original size:35 final size:33
Alignment explanation
Indices: 107599--107716 Score: 105
Period size: 35 Copynumber: 3.5 Consensus size: 33
107589 TATGTATGTA
* *
107599 TATAATAAATAATTAAAAATTATTAAAATTATATT
1 TATATTAAATAA-TAATAATTA-TAAAATTATATT
** *
107634 TACGTTAAATAATAATTAATTATAAAAATCATATT
1 TATATTAAATAATAA-TAATTAT-AAAATTATATT
* *
107669 TATATTAAA-AA-AATAAATAGGTAAATTTATATT
1 TATATTAAATAATAATAATTA--TAAAATTATATT
107702 TATATTAAATAATAA
1 TATATTAAATAATAA
107717 ATAAAAATTA
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
32 5 0.07
33 20 0.30
34 9 0.13
35 33 0.49
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (33 bp):
TATATTAAATAATAATAATTATAAAATTATATT
Found at i:107743 original size:41 final size:40
Alignment explanation
Indices: 107697--107773 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
107687 AGGTAAATTT
*
107697 ATATTTATATTAAAT-AATAAATAAAAATTATTAAAAATTAA
1 ATATTTA-AATAAATAAATAAATAAAAATT-TTAAAAATTAA
* *
107738 ATATTTAAATAAATAAATAATTTAAAATTTTAAAAA
1 ATATTTAAATAAATAAATAAATAAAAATTTTAAAAA
107774 CGAAAAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 13 0.41
41 19 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (40 bp):
ATATTTAAATAAATAAATAAATAAAAATTTTAAAAATTAA
Found at i:107751 original size:17 final size:17
Alignment explanation
Indices: 107712--107763 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
107702 TATATTAAAT
107712 AATAAATAAA-AATTATTA
1 AATAAATAAATAA-T-TTA
*
107730 AA-AATTAAAT-ATTTA
1 AATAAATAAATAATTTA
107745 AATAAATAAATAATTTA
1 AATAAATAAATAATTTA
107762 AA
1 AA
107764 ATTTTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 5 0.17
16 8 0.28
17 14 0.48
18 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATAAATAAATAATTTA
Found at i:108072 original size:19 final size:19
Alignment explanation
Indices: 108050--108143 Score: 56
Period size: 19 Copynumber: 5.1 Consensus size: 19
108040 TCTATTTTAT
*
108050 TATTTAAATTATATTTAAA
1 TATTTATATTATATTTAAA
*
108069 TA-TTATATT-TATATT-CA
1 TATTTATATTATAT-TTAAA
* *
108086 TATTCATA-TATTTTTATAA
1 TATTTATATTATATTTA-AA
* *
108105 TA-TCAGAATTATATTTAAA
1 TATTTA-TATTATATTTAAA
108124 TATTATATATT-TATTTAAA
1 TATT-TATATTATATTTAAA
108143 T
1 T
108144 TTTGATACAT
Statistics
Matches: 57, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
17 9 0.16
18 17 0.30
19 19 0.33
20 11 0.19
21 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (19 bp):
TATTTATATTATATTTAAA
Found at i:108160 original size:55 final size:55
Alignment explanation
Indices: 108056--108160 Score: 124
Period size: 55 Copynumber: 1.9 Consensus size: 55
108046 TTATTATTTA
* ** *
108056 AATTATATTTAAATATTATATTTATATTCATATTCATATATTTTTATAATATCAG
1 AATTATATTTAAATATTATATTTATATTCAAATTCATATACATTAATAATATCAG
* *
108111 AATTATATTTAAATATTATATATT-TATTTAAATT-TTGATACATTAATAAT
1 AATTATATTTAAATATTATAT-TTATATTCAAATTCAT-ATACATTAATAAT
108161 CTATATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
54 1 0.02
55 39 0.93
56 2 0.05
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (55 bp):
AATTATATTTAAATATTATATTTATATTCAAATTCATATACATTAATAATATCAG
Found at i:108391 original size:34 final size:33
Alignment explanation
Indices: 108325--108515 Score: 220
Period size: 34 Copynumber: 5.7 Consensus size: 33
108315 ATATATATAT
* * *
108325 ATTGTTGATTAAATGGTGATTTGATAGTTTACC
1 ATTGTTGATTAAATGGAGATTTGGTAGCTTACC
* *
108358 ATTGTTGACTAAATGGAAGATTTGGTAACTTACC
1 ATTGTTGATTAAATGG-AGATTTGGTAGCTTACC
* *
108392 ATTGTTGATTAAATGAAAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATG-GAGATTTGGTAGCTTACC
* *
108426 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAAT-GGAGATTTGGTAGCTTACC
** * *
108460 ATTGTTGCCTAAATGTGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATG-GAGATTTGGTAGCTTACC
*
108494 ATTGTTGATTAAATGGTGATTT
1 ATTGTTGATTAAATGGAGATTT
108516 TTACCAAACC
Statistics
Matches: 132, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
33 22 0.17
34 109 0.83
35 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (33 bp):
ATTGTTGATTAAATGGAGATTTGGTAGCTTACC
Found at i:108465 original size:102 final size:101
Alignment explanation
Indices: 108325--108508 Score: 280
Period size: 102 Copynumber: 1.8 Consensus size: 101
108315 ATATATATAT
*
108325 ATTGTTGATTAAATGGTGATTTGATAGTTTACCATTGTTGACTAAATG-GAAGATTTGGTAACTT
1 ATTGTTGATTAAATGGTGATTTGATAGCTTACCATTGTTGACTAAATGTG-AGATTTGGTAACTT
108389 ACCATTGTTGATTAAATGAAAAATTTGGTAGCTTACC
65 ACCATTGTTGATTAAATGAAAAATTTGGTAGCTTACC
* * * **
108426 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGCCTAAATGTGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGATAGCTTACCATTGTTGACTAAATGTGAGATTTGGTAACTT
*
108491 GCCATTGTTGATTAAATG
65 ACCATTGTTGATTAAATG
108509 GTGATTTTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 14 0.19
102 59 0.80
103 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (101 bp):
ATTGTTGATTAAATGGTGATTTGATAGCTTACCATTGTTGACTAAATGTGAGATTTGGTAACTTA
CCATTGTTGATTAAATGAAAAATTTGGTAGCTTACC
Found at i:108850 original size:19 final size:19
Alignment explanation
Indices: 108828--108870 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
108818 ATATATATAT
108828 GTACTATTCACA-TATACGG
1 GTACTATTCA-AGTATACGG
108847 GTACTATTCAAGTATACGG
1 GTACTATTCAAGTATACGG
*
108866 TTACT
1 GTACT
108871 GTACACGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (19 bp):
GTACTATTCAAGTATACGG
Found at i:112995 original size:34 final size:34
Alignment explanation
Indices: 112935--113119 Score: 255
Period size: 34 Copynumber: 5.5 Consensus size: 34
112925 AAGTGGGAGA
* *
112935 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
112968 ATTGTTGACTAAATGGGAGATTTGGTAGCTTATC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
113002 ATTGTTGATTAAATGAGAAATTTGGTAGCTTATC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
113036 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
113070 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
113104 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
113120 TGGTTTTTAA
Statistics
Matches: 133, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
33 13 0.10
34 120 0.90
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:113110 original size:102 final size:101
Alignment explanation
Indices: 112935--113118 Score: 314
Period size: 102 Copynumber: 1.8 Consensus size: 101
112925 AAGTGGGAGA
*
112935 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGACTAAATGGGAGATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGCTTA
*
113000 TCATTGTTGATTAAATGAGAAATTTGGTAGCTTATC
66 CCATTGTTGATTAAATGAGAAATTTGGTAGCTTATC
* *
113036 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGCTT
*
113101 GCCATTGTTGATTAAATG
65 ACCATTGTTGATTAAATG
113119 GTGGTTTTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 14 0.18
102 63 0.82
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGCTTA
CCATTGTTGATTAAATGAGAAATTTGGTAGCTTATC
Found at i:114667 original size:23 final size:24
Alignment explanation
Indices: 114617--114681 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 24
114607 AAAATTAGCC
* *
114617 ACCAATTTTGACAAACAACAAGTC
1 ACCAATTTTGACAAACAACAAATA
* *
114641 ACCATTTTTTACAAACAA-AAATA
1 ACCAATTTTGACAAACAACAAATA
114664 ACCACCATATTTGACAAA
1 ACCA--AT-TTTGACAAA
114682 TACAAAGGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
23 7 0.22
24 16 0.50
25 1 0.03
26 8 0.25
ACGTcount: A:0.48, C:0.23, G:0.05, T:0.25
Consensus pattern (24 bp):
ACCAATTTTGACAAACAACAAATA
Found at i:114680 original size:26 final size:26
Alignment explanation
Indices: 114640--114709 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 26
114630 AACAACAAGT
*
114640 CACCATTTTTTACAAACAAA-AATAAC
1 CACCATATTTTACAAACAAAGAA-AAC
* *
114666 CACCATATTTGACAAATACAAAGGAAAC
1 CACCATATTTTAC-AA-ACAAAGAAAAC
114694 CACCATATTTTACAAA
1 CACCATATTTTACAAA
114710 TACAAAGGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
26 12 0.32
27 4 0.11
28 20 0.54
29 1 0.03
ACGTcount: A:0.49, C:0.23, G:0.04, T:0.24
Consensus pattern (26 bp):
CACCATATTTTACAAACAAAGAAAAC
Found at i:114686 original size:28 final size:28
Alignment explanation
Indices: 114655--114716 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
114645 TTTTTTACAA
114655 ACAAA-AATAACCACCATATTTGACAAAT
1 ACAAAGAA-AACCACCATATTTGACAAAT
* *
114683 ACAAAGGAAACCACCATATTTTACAAAT
1 ACAAAGAAAACCACCATATTTGACAAAT
114711 ACAAAG
1 ACAAAG
114717 GGTGGCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.53, C:0.21, G:0.06, T:0.19
Consensus pattern (28 bp):
ACAAAGAAAACCACCATATTTGACAAAT
Found at i:114717 original size:28 final size:28
Alignment explanation
Indices: 114663--114717 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
114653 AAACAAAAAT
114663 AACCACCATATTTGACAAATACAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
*
114691 AACCACCATATTTTACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
114718 GTGGCATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.22, G:0.09, T:0.20
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:119197 original size:21 final size:21
Alignment explanation
Indices: 119167--119206 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
119157 AAAAATTAAC
119167 CACCAATTTTGACAAACAAGT
1 CACCAATTTTGACAAACAAGT
* *
119188 CACCATTTTTTACAAACAA
1 CACCAATTTTGACAAACAA
119207 AAATAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (21 bp):
CACCAATTTTGACAAACAAGT
Found at i:120084 original size:11 final size:11
Alignment explanation
Indices: 120070--120132 Score: 78
Period size: 11 Copynumber: 6.0 Consensus size: 11
120060 CTAATTATTT
120070 TAAATATAATA
1 TAAATATAATA
*
120081 TAAAAATAATA
1 TAAATATAATA
*
120092 TAAATATGATA
1 TAAATATAATA
120103 -AAA-ATAATA
1 TAAATATAATA
*
120112 TAAATATGATA
1 TAAATATAATA
120123 TAAA-ATAATA
1 TAAATATAATA
120133 AATATTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
9 5 0.11
10 11 0.25
11 28 0.64
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
TAAATATAATA
Found at i:120105 original size:20 final size:20
Alignment explanation
Indices: 120080--120132 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
120070 TAAATATAAT
120080 ATAAAAATAATATAAATATG
1 ATAAAAATAATATAAATATG
120100 ATAAAAATAATATAAATATG
1 ATAAAAATAATATAAATATG
120120 ATATAAAATAATA
1 ATA-AAAATAATA
120133 AATATTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 23 0.72
21 9 0.28
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (20 bp):
ATAAAAATAATATAAATATG
Found at i:120111 original size:31 final size:30
Alignment explanation
Indices: 120070--120134 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
120060 CTAATTATTT
* *
120070 TAAATATAATATAAAAATAATATAAATATGA
1 TAAAAATAATATAAAAATAATATAAA-ATAA
* *
120101 TAAAAATAATATAAATATGATATAAAATAA
1 TAAAAATAATATAAAAATAATATAAAATAA
120131 TAAA
1 TAAA
120135 TATTTTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (30 bp):
TAAAAATAATATAAAAATAATATAAAATAA
Found at i:121442 original size:58 final size:58
Alignment explanation
Indices: 121378--121489 Score: 197
Period size: 58 Copynumber: 1.9 Consensus size: 58
121368 AAATTAGCCT
* * *
121378 AATCAAATTTAAAATATAGTATAATAATTAATAATGAACACATACATATTAATGTGTG
1 AATCAAATTTAAAATATAATATAACAATTAATAATGAACACATACAAATTAATGTGTG
121436 AATCAAATTTAAAATATAATATAACAATTAATAATGAACACATACAAATTAATG
1 AATCAAATTTAAAATATAATATAACAATTAATAATGAACACATACAAATTAATG
121490 CCTTAAATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (58 bp):
AATCAAATTTAAAATATAATATAACAATTAATAATGAACACATACAAATTAATGTGTG
Found at i:122425 original size:20 final size:20
Alignment explanation
Indices: 122394--122468 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
122384 TCATACCCTG
*
122394 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
122414 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
122434 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
122454 ATGTATCGATACATT
1 ATGTATCGATACATT
122469 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:122461 original size:40 final size:39
Alignment explanation
Indices: 122394--122471 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
122384 TCATACCCTG
* *
122394 ATGTATCAATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCAATACATTCTACAATATATCGATACAT-TATGA
* * *
122434 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCAATACATTCTACAATATATCGATACATTATG
122472 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (39 bp):
ATGTATCAATACATTCTACAATATATCGATACATTATGA
Found at i:123409 original size:23 final size:23
Alignment explanation
Indices: 123379--123433 Score: 96
Period size: 21 Copynumber: 2.5 Consensus size: 23
123369 AGCCTTTGAC
123379 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
123402 CATGCA--TTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
123423 CATGCATTTTT
1 CATGCATTTTT
123434 AACATGTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 21 0.70
23 9 0.30
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:123440 original size:20 final size:21
Alignment explanation
Indices: 123387--123440 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
123377 ACCATGCATT
**
123387 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
123408 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
123429 -TTTTTAACATGT
1 TTTTTTAACATGT
123441 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 10 0.32
21 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.61
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Done.