Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 116 of 127
Found at i:21960244 original size:25 final size:26
Alignment explanation
Indices: 21960204--21960275 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 26
21960194 TTAATAAAAT
*
21960204 ATTTTAA-A-AAATATAAAATATTAC
1 ATTTTAATATAAATATAAAATATAAC
21960228 -TTTTAATATAAATATAAAATATAAC
1 ATTTTAATATAAATATAAAATATAAC
*
21960253 ATTAAATAATATAAATATAAAAT
1 ATT--TTAATATAAATATAAAAT
21960276 TAAATATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.15
24 1 0.02
25 15 0.37
26 2 0.05
28 17 0.41
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (26 bp):
ATTTTAATATAAATATAAAATATAAC
Found at i:21960297 original size:27 final size:26
Alignment explanation
Indices: 21960235--21960311 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 26
21960225 TACTTTTAAT
*
21960235 ATAAATATAAAATATAACATTAAATAAT
1 ATAAATATAAAAT-TAA-ATTAAATAAA
*
21960263 ATAAATATAAAATTAAATATATATAAA
1 ATAAATATAAAATTAAAT-TAAATAAA
* *
21960290 ATATATATAAAAATAAAATTAA
1 ATAAATAT-AAAATTAAATTAA
21960312 TTAATTAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
26 2 0.05
27 18 0.43
28 22 0.52
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (26 bp):
ATAAATATAAAATTAAATTAAATAAA
Found at i:21960298 original size:33 final size:34
Alignment explanation
Indices: 21960213--21960311 Score: 103
Period size: 33 Copynumber: 2.9 Consensus size: 34
21960203 TATTTTAAAA
* * *
21960213 AATATAAAATATTACTTTTAATATAAATATAAAATAT
1 AATATAAAATA-TA-TATAAATATAAA-ATTAAATAT
* *
21960250 AACATTAAATA-ATATAAATATAAAATTAAATAT
1 AATATAAAATATATATAAATATAAAATTAAATAT
*
21960283 -ATATAAAATATATATAAAAATAAAATTAA
1 AATATAAAATATATATAAATATAAAATTAA
21960312 TTAATTAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
32 8 0.15
33 25 0.47
34 10 0.19
35 1 0.02
37 9 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (34 bp):
AATATAAAATATATATAAATATAAAATTAAATAT
Found at i:21960300 original size:21 final size:22
Alignment explanation
Indices: 21960238--21960294 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
21960228 TTTTAATATA
*
21960238 AATATAAAATATAACATTAAAT
1 AATATAAAATATAAAATTAAAT
21960260 AATAT-AAATATAAAATTAAAT
1 AATATAAAATATAAAATTAAAT
21960281 ATATATAAAATATA
1 A-ATATAAAATATA
21960295 TATAAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 16 0.50
22 9 0.28
23 7 0.22
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AATATAAAATATAAAATTAAAT
Found at i:21960758 original size:32 final size:32
Alignment explanation
Indices: 21960712--21960794 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
21960702 TTTTATAAAT
** *
21960712 AAATATAATGATTTATATATTTATATTGTATA
1 AAATATAAAAATTTATATATTTATATTATATA
*
21960744 AAATATAAAAATTTATATATTTATATTATATT
1 AAATATAAAAATTTATATATTTATATTATATA
**
21960776 TTATATAAAAA-TTATATAT
1 AAATATAAAAATTTATATAT
21960795 CATTGACATA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
31 8 0.18
32 37 0.82
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (32 bp):
AAATATAAAAATTTATATATTTATATTATATA
Found at i:21961615 original size:19 final size:18
Alignment explanation
Indices: 21961586--21961634 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
21961576 TGATCTAAAA
21961586 TAAAT-AAAATATTATTTT
1 TAAATAAAAATATTA-TTT
21961604 TAAATAAAAATATTATTT
1 TAAATAAAAATATTATTT
*
21961622 TAAATATAAATAT
1 TAAATAAAAATAT
21961635 AAAATTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 20 0.69
19 9 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATAAAAATATTATTT
Found at i:21961663 original size:8 final size:8
Alignment explanation
Indices: 21961625--21961666 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
21961615 ATTATTTTAA
21961625 ATATAAAT
1 ATATAAAT
21961633 ATA-AAAT
1 ATATAAAT
*
21961640 -TAAAAAT
1 ATATAAAT
21961647 ATAATAAAT
1 AT-ATAAAT
21961656 ATATAAAT
1 ATATAAAT
21961664 ATA
1 ATA
21961667 ATATTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
6 2 0.07
7 8 0.27
8 13 0.43
9 7 0.23
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
ATATAAAT
Found at i:21961684 original size:31 final size:31
Alignment explanation
Indices: 21961625--21961685 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
21961615 ATTATTTTAA
*
21961625 ATATAAATATAAAATTAAAAATATAATAAAT
1 ATATAAATATAAAATTAAAAATAAAATAAAT
*
21961656 ATATAAATATAATATTAAATAA-AAAATAAA
1 ATATAAATATAAAATTAAA-AATAAAATAAA
21961686 AAATATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (31 bp):
ATATAAATATAAAATTAAAAATAAAATAAAT
Found at i:21963403 original size:29 final size:31
Alignment explanation
Indices: 21963338--21963397 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
21963328 AGATACGATT
21963338 AATTAATTAATTTAAATAAAAATTTAATTTA
1 AATTAATTAATTTAAATAAAAATTTAATTTA
*
21963369 ATTTAA-T-ATTTAAATAAAAA-TT-ATTTA
1 AATTAATTAATTTAAATAAAAATTTAATTTA
21963396 AA
1 AA
21963398 AATTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 6 0.22
28 2 0.07
29 13 0.48
30 1 0.04
31 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
AATTAATTAATTTAAATAAAAATTTAATTTA
Found at i:21963909 original size:14 final size:14
Alignment explanation
Indices: 21963890--21963918 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21963880 TTTCTTTTTG
21963890 TTTGTAGTGTCAGA
1 TTTGTAGTGTCAGA
21963904 TTTGTAGTGTCAGA
1 TTTGTAGTGTCAGA
21963918 T
1 T
21963919 AAAGTGTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.28, T:0.45
Consensus pattern (14 bp):
TTTGTAGTGTCAGA
Found at i:21970150 original size:18 final size:19
Alignment explanation
Indices: 21970127--21970162 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21970117 TCCATAACCT
*
21970127 AATAAAAGTA-GATACATC
1 AATAAAACTATGATACATC
21970145 AATAAAACTATGATACAT
1 AATAAAACTATGATACAT
21970163 AGTGCTACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.25
Consensus pattern (19 bp):
AATAAAACTATGATACATC
Found at i:21989852 original size:2 final size:2
Alignment explanation
Indices: 21989845--21989871 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21989835 TCTGAGTTAG
21989845 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 T
21989872 TTAATAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21999032 original size:17 final size:18
Alignment explanation
Indices: 21999008--21999049 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
21998998 CAAAAACACT
21999008 AAAG-AAAAAAAATAAGG
1 AAAGAAAAAAAAATAAGG
21999025 AAA-AAAAAAAAATAAGG
1 AAAGAAAAAAAAATAAGG
21999042 AAAGAAAA
1 AAAGAAAA
21999050 TAACGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (18 bp):
AAAGAAAAAAAAATAAGG
Found at i:22000220 original size:19 final size:18
Alignment explanation
Indices: 22000160--22000220 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 18
22000150 TATATATATA
* *
22000160 TATTATATTCAAAATCAAA
1 TATTATATTCTAAAT-AAT
22000179 TATTATATTCATATAATTAAT
1 TATTATATTC-TA-AA-TAAT
22000200 TATTATATTACTAAATAAT
1 TATTATATT-CTAAATAAT
22000219 TA
1 TA
22000221 ATTAATAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
19 16 0.44
20 3 0.08
21 15 0.42
22 2 0.06
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTATATTCTAAATAAT
Found at i:22000221 original size:23 final size:21
Alignment explanation
Indices: 22000160--22000224 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
22000150 TATATATATA
* *
22000160 TATTATATTC-AA-AATCAAA
1 TATTATATTCAAATAATTAAT
*
22000179 TATTATATTCATATAATTAAT
1 TATTATATTCAAATAATTAAT
22000200 TATTATATTACTAAATAATTAAT
1 TATTATATT-C-AAATAATTAAT
22000223 TA
1 TA
22000225 ATAAACTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.26
20 1 0.03
21 14 0.37
22 1 0.03
23 12 0.32
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (21 bp):
TATTATATTCAAATAATTAAT
Found at i:22000624 original size:2 final size:2
Alignment explanation
Indices: 22000619--22000652 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
22000609 TATGTGTGTG
* *
22000619 TA TA TA TA TA TA TA TA TA TA TT TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22000653 AAACTTCTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:22004152 original size:2 final size:2
Alignment explanation
Indices: 22004145--22004174 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22004135 CAGCTGTTGA
22004145 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
22004175 TCGCTCATAC
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):
AT
Found at i:22005136 original size:2 final size:2
Alignment explanation
Indices: 22005129--22005156 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22005119 TTTTACATCC
22005129 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
22005157 CTTATCATTA
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:22010062 original size:6 final size:7
Alignment explanation
Indices: 22010043--22010069 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
22010033 CGATTGACTT
22010043 ATAAAAA
1 ATAAAAA
22010050 ATAAAAA
1 ATAAAAA
22010057 ATAAAAA
1 ATAAAAA
22010064 ATAAAA
1 ATAAAA
22010070 GATAGCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:22016243 original size:258 final size:258
Alignment explanation
Indices: 22015786--22016303 Score: 919
Period size: 258 Copynumber: 2.0 Consensus size: 258
22015776 ATTGACATTT
* *
22015786 CTAGGTCATTTTTTCACTTAATAAATAAATTGAAAATTTCCAAGAAAAAGCTTATAAAATTATTT
1 CTAGGTCATTTTTTCACTCAATAAATAAATTGAAAATTTCCAAGAAAAAGCTCATAAAATTATTT
* * *
22015851 GTTGAGAATCACATTCATTTGCTTGGAAGCGCTTGCAATTGAAATATTGGTGTGGAAAGTATCAT
66 GTTGAGAATCACATTCATTTGCTTGGAAGCGCCTGCAATTGAAAAATTGGTATGGAAAGTATCAT
*
22015916 TTTTGTTATCAGTTTTCATTCATTTGCATGTGATGTTGATGGTAATTACTTGTTTGGAAAAGATT
131 TTTTGTTATCAGTTTTCATTCATTTGCATGTAATGTTGATGGTAATTACTTGTTTGGAAAAGATT
* *
22015981 GATATGAAGGCAAAAATTGCCAGCTTCAAGATTCCTGATATAGGTGTTGCGTCACAACTGCAA
196 GATATGAAGGCAAAAATTGCCAGCGTCAAGATTCCTGATATAGGTGTTGCATCACAACTGCAA
* * *
22016044 CTAGGTCCTTTTTTCACTCAATAAATAAATTGAAAATTTCCCAGAAAAAGCTCATGAAATTATTT
1 CTAGGTCATTTTTTCACTCAATAAATAAATTGAAAATTTCCAAGAAAAAGCTCATAAAATTATTT
22016109 GTTGAGAATCACATTCATTTGCTTGGAAGCGCCTGCAATTGAAAAATTGGTATGGAAAGTATCAT
66 GTTGAGAATCACATTCATTTGCTTGGAAGCGCCTGCAATTGAAAAATTGGTATGGAAAGTATCAT
*
22016174 TTTTGTTATCGGTTTTCATTCATTTGCATGTAATGTTGATGGTAATTACTTGTTTGGAAAAGATT
131 TTTTGTTATCAGTTTTCATTCATTTGCATGTAATGTTGATGGTAATTACTTGTTTGGAAAAGATT
*
22016239 GATATGGAGGCAAAAATTGCCAGCGTCAAGATTCCTGATATAGGTGTTGCATCACAACTGCAA
196 GATATGAAGGCAAAAATTGCCAGCGTCAAGATTCCTGATATAGGTGTTGCATCACAACTGCAA
22016302 CT
1 CT
22016304 TGGTGGCATG
Statistics
Matches: 247, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
258 247 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.36
Consensus pattern (258 bp):
CTAGGTCATTTTTTCACTCAATAAATAAATTGAAAATTTCCAAGAAAAAGCTCATAAAATTATTT
GTTGAGAATCACATTCATTTGCTTGGAAGCGCCTGCAATTGAAAAATTGGTATGGAAAGTATCAT
TTTTGTTATCAGTTTTCATTCATTTGCATGTAATGTTGATGGTAATTACTTGTTTGGAAAAGATT
GATATGAAGGCAAAAATTGCCAGCGTCAAGATTCCTGATATAGGTGTTGCATCACAACTGCAA
Found at i:22024496 original size:2 final size:2
Alignment explanation
Indices: 22024489--22024522 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22024479 CAATACTCAA
22024489 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22024523 AATCTTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:22034906 original size:16 final size:16
Alignment explanation
Indices: 22034885--22034931 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
22034875 TATTAACTTT
22034885 TATAAAATTATTTTAA
1 TATAAAATTATTTTAA
*
22034901 TATAAAATT-TTTT-T
1 TATAAAATTATTTTAA
22034915 TATAAAAGTTAATTTTA
1 TATAAAA-TT-ATTTTA
22034932 TAATGTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.27
15 6 0.23
16 9 0.35
17 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TATAAAATTATTTTAA
Found at i:22034918 original size:14 final size:15
Alignment explanation
Indices: 22034882--22034934 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
22034872 TTATATTAAC
22034882 TTTTATAAAATTATT
1 TTTTATAAAATTATT
*
22034897 TTAATATAAAATT-TT
1 TT-TTATAAAATTATT
*
22034912 TTTTATAAAAGTTA-A
1 TTTTATAAAA-TTATT
22034927 TTTTATAA
1 TTTTATAA
22034935 TGTTAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 7 0.22
15 16 0.50
16 9 0.28
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TTTTATAAAATTATT
Found at i:22034930 original size:15 final size:14
Alignment explanation
Indices: 22034876--22034934 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
22034866 TTTAGGTTAT
22034876 ATTAACTTTTATAAA
1 ATTAA-TTTTATAAA
*
22034891 ATTATTTTAATATAAA
1 ATTAATTT--TATAAA
**
22034907 ATTTTTTTTATAAA
1 ATTAATTTTATAAA
22034921 AGTTAATTTTATAA
1 A-TTAATTTTATAA
22034935 TGTTAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
14 10 0.27
15 14 0.38
16 13 0.35
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (14 bp):
ATTAATTTTATAAA
Found at i:22034960 original size:2 final size:2
Alignment explanation
Indices: 22034955--22034988 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
22034945 TAAAAAATAA
*
22034955 AT AT AT A- AT AT AT AA AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22034989 AAAAGACAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:22034972 original size:8 final size:8
Alignment explanation
Indices: 22034938--22034984 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
22034928 TTTATAATGT
22034938 TAAATAT-
1 TAAATATA
*
22034945 TAAA-AAA
1 TAAATATA
22034952 TAAATATA
1 TAAATATA
22034960 T-AATATA
1 TAAATATA
22034967 TAAATATA
1 TAAATATA
*
22034975 TATATATA
1 TAAATATA
22034983 TA
1 TA
22034985 TATAAAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
6 1 0.03
7 15 0.44
8 18 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAATATA
Found at i:22038154 original size:2 final size:2
Alignment explanation
Indices: 22038147--22038172 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22038137 CTATCAACAG
22038147 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
22038173 AGATCTTCCT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:22055780 original size:16 final size:16
Alignment explanation
Indices: 22055759--22055790 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22055749 GGAAGTAGTT
*
22055759 TGATAAATTCCAATTA
1 TGATAAATGCCAATTA
22055775 TGATAAATGCCAATTA
1 TGATAAATGCCAATTA
22055791 GAAAAGTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (16 bp):
TGATAAATGCCAATTA
Found at i:22059970 original size:17 final size:17
Alignment explanation
Indices: 22059930--22059970 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
22059920 CAAGATTATG
22059930 ATAAGA-TA-GAATAAA
1 ATAAGATTATGAATAAA
*
22059945 ATAATATTATGAATAAA
1 ATAAGATTATGAATAAA
*
22059962 ATTAGATTA
1 ATAAGATTA
22059971 AATAGTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 5 0.24
16 2 0.10
17 14 0.67
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (17 bp):
ATAAGATTATGAATAAA
Found at i:22060616 original size:4 final size:4
Alignment explanation
Indices: 22060607--22060632 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
22060597 AGAGATCTAC
22060607 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
22060633 TCCATTTGTG
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:22061941 original size:19 final size:19
Alignment explanation
Indices: 22061909--22061946 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
22061899 TCTTTATCGT
22061909 TAAAACAATATTCCATTGA
1 TAAAACAATATTCCATTGA
* *
22061928 TAAAAGAATCTTCCATTGA
1 TAAAACAATATTCCATTGA
22061947 AGGCCCACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (19 bp):
TAAAACAATATTCCATTGA
Found at i:22064494 original size:12 final size:12
Alignment explanation
Indices: 22064477--22064501 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22064467 TATATATAAA
22064477 TAATTTTTTAAT
1 TAATTTTTTAAT
22064489 TAATTTTTTAAT
1 TAATTTTTTAAT
22064501 T
1 T
22064502 TTTTATTTAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TAATTTTTTAAT
Found at i:22064545 original size:16 final size:16
Alignment explanation
Indices: 22064505--22064547 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
22064495 TTTAATTTTT
* *
22064505 TATTTATATATTTATA
1 TATTTATATTTTTAAA
* *
22064521 TAATGATATTTTTAAA
1 TATTTATATTTTTAAA
22064537 TATTTATATTT
1 TATTTATATTT
22064548 AAAAAATAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTTATATTTTTAAA
Found at i:22064560 original size:20 final size:21
Alignment explanation
Indices: 22064535--22064576 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
22064525 GATATTTTTA
22064535 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
22064555 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
22064576 A
1 A
22064577 TTTTATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:22064578 original size:18 final size:19
Alignment explanation
Indices: 22064534--22064582 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
22064524 TGATATTTTT
22064534 AAATA-TTTATATTTAAAAA
1 AAATATTTTATATTT-AAAA
22064553 ATAATATTTTATATTT-AAA
1 A-AATATTTTATATTTAAAA
22064572 AAATATTTTAT
1 AAATATTTTAT
22064583 TAATTTTGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.36
19 5 0.18
20 4 0.14
21 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATATTTTATATTTAAAA
Found at i:22075815 original size:15 final size:14
Alignment explanation
Indices: 22075797--22075841 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
22075787 GGTTTGTTTA
22075797 TGTTTGTTTAGAATT
1 TGTTTGTTTA-AATT
*
22075812 TGTTCGTTTAAATT
1 TGTTTGTTTAAATT
*
22075826 TGTTTGATTATAATT
1 TGTTTGTTTA-AATT
22075841 T
1 T
22075842 ATTTATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (14 bp):
TGTTTGTTTAAATT
Found at i:22077297 original size:31 final size:29
Alignment explanation
Indices: 22077259--22077325 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
22077249 TATAAAACTC
* *
22077259 GAAATTTGATC-CTTATATTCACATGATATTT
1 GAAATTTGATCTC-TATACTCACA-AAT-TTT
22077290 GAAATTTGATCTCTATACTCACAAATTTT
1 GAAATTTGATCTCTATACTCACAAATTTT
22077319 GAAATTT
1 GAAATTT
22077326 AGTTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 10 0.30
30 2 0.06
31 20 0.61
32 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.43
Consensus pattern (29 bp):
GAAATTTGATCTCTATACTCACAAATTTT
Found at i:22078171 original size:31 final size:31
Alignment explanation
Indices: 22078105--22078175 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
22078095 TATTAGAAAT
* * * *
22078105 ACTATATTTCAAATCTCTTACAAGTAAATGG
1 ACTAAATTTCAAATCTCATACAAGCAAATGA
*
22078136 ACTAAATTTCAAATTTCATACAAGCATAA-GA
1 ACTAAATTTCAAATCTCATACAAGCA-AATGA
22078167 ACTAAATTT
1 ACTAAATTT
22078176 AATATGAGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (31 bp):
ACTAAATTTCAAATCTCATACAAGCAAATGA
Found at i:22078619 original size:30 final size:30
Alignment explanation
Indices: 22078534--22078627 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
22078524 TATTGCACCC
* * ** *
22078534 AAATAAATTTTTAATTTTTAATTTGCATTC
1 AAATAAAATATTAATTTTTAATTTATATTT
* *
22078564 AAATAAAATTTTAAGTTTTAATTTATATTT
1 AAATAAAATATTAATTTTTAATTTATATTT
*
22078594 AAA-AAAATCATTAATTTTTAATTTATATCT
1 AAATAAAAT-ATTAATTTTTAATTTATATTT
22078624 AAAT
1 AAAT
22078628 TTTTTTTAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 5 0.09
30 49 0.91
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (30 bp):
AAATAAAATATTAATTTTTAATTTATATTT
Found at i:22080051 original size:19 final size:18
Alignment explanation
Indices: 22080017--22080052 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22080007 ATATCTAAAA
*
22080017 TTTTTATTTTTTATATTT
1 TTTTTATTTTTAATATTT
22080035 TTTTTATTTCTTAATATT
1 TTTTTATTT-TTAATATT
22080053 AAAAATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTAATATTT
Found at i:22085334 original size:6 final size:6
Alignment explanation
Indices: 22085327--22085367 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
22085317 TGCAGTTTTT
* *
22085327 GCTTTT GCTTTT GCTTTC GCTTTC GCTTTC GCTTTC GCTTT
1 GCTTTC GCTTTC GCTTTC GCTTTC GCTTTC GCTTTC GCTTT
22085368 TGTTGGTTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.27, G:0.17, T:0.56
Consensus pattern (6 bp):
GCTTTC
Found at i:22086729 original size:8 final size:8
Alignment explanation
Indices: 22086716--22086796 Score: 67
Period size: 8 Copynumber: 10.0 Consensus size: 8
22086706 TTTTTATAAA
22086716 AATAATTT
1 AATAATTT
22086724 AATAATTTTT
1 AATAA--TTT
22086734 AATAATTT
1 AATAATTT
*
22086742 ATTAATTT
1 AATAATTT
* *
22086750 TATAATTA
1 AATAATTT
22086758 AATAATTT
1 AATAATTT
22086766 -A-AATTT
1 AATAATTT
**
22086772 TTTAATTT
1 AATAATTT
*
22086780 AATATCTTT
1 AATA-ATTT
22086789 AATAATTT
1 AATAATTT
22086797 TTTTCACTAT
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
6 5 0.09
7 1 0.02
8 36 0.63
9 7 0.12
10 8 0.14
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (8 bp):
AATAATTT
Found at i:22086739 original size:18 final size:18
Alignment explanation
Indices: 22086716--22086765 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
22086706 TTTTTATAAA
22086716 AATAATTTAATAATTTTT
1 AATAATTTAATAATTTTT
*
22086734 AATAATTTATTAA-TTTT
1 AATAATTTAATAATTTTT
*
22086751 -ATAATTAAATAATTT
1 AATAATTTAATAATTT
22086766 AAATTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 10 0.36
17 6 0.21
18 12 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATAATTTAATAATTTTT
Found at i:22086761 original size:24 final size:23
Alignment explanation
Indices: 22086734--22086797 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
22086724 AATAATTTTT
22086734 AATAATTTATTAATTTTATAATTA
1 AATAATTTA-TAATTTTATAATTA
* *
22086758 AATAATTTA-AATTTTTTAATTT
1 AATAATTTATAATTTTATAATTA
*
22086780 AATATCTTTAATAATTTT
1 AATA-ATTT-ATAATTTT
22086798 TTTCACTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 15 0.44
23 3 0.09
24 10 0.29
25 6 0.18
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
AATAATTTATAATTTTATAATTA
Found at i:22086881 original size:21 final size:20
Alignment explanation
Indices: 22086857--22086923 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 20
22086847 ATATTTTTTC
22086857 ATTACTAATTTTAATTTTATT
1 ATTA-TAATTTTAATTTTATT
* *
22086878 ATTATAATAATAAATTTTATTTTT
1 ATTATAAT-TTTAATTTTA---TT
*
22086902 ATTATATTTTTAATTTTCATT
1 ATTATAATTTTAATTTT-ATT
22086923 A
1 A
22086924 AAATTAATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
20 4 0.11
21 15 0.42
23 7 0.19
24 10 0.28
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTATAATTTTAATTTTATT
Found at i:22088514 original size:14 final size:15
Alignment explanation
Indices: 22088483--22088520 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
22088473 TTTTTATAAT
22088483 TTATCAAATAATTTAA
1 TTATCAAA-AATTTAA
22088499 TTATCAAAAA-TTAA
1 TTATCAAAAATTTAA
22088513 TTAT-AAAA
1 TTATCAAAA
22088521 TTGCTCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 8 0.36
15 2 0.09
16 8 0.36
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (15 bp):
TTATCAAAAATTTAA
Found at i:22088982 original size:104 final size:102
Alignment explanation
Indices: 22088741--22089007 Score: 269
Period size: 104 Copynumber: 2.6 Consensus size: 102
22088731 ATGAAATTTA
* *
22088741 TTTTTAAAAAAA-TCATTAAAACTTCTAATAGTTTGATAAGATCTAATTCAATATTTAAATATTA
1 TTTTTAAAAAAATTCATTAAATCTTCTAATATTTTGATAAGATCTAATTCAATATTTAAATATTA
* * *
22088805 TAATAGTTTGTTATGATTGAAAATTTTATTGTTTTTT
66 TAATAGTTTGGTATGATTGAAAATTTTATTGATTATT
* * * *
22088842 TTTTTAACAAAAAATTCATTAAGTCCTCTAATATTTTGATAATA-CTTAATTCAATATTTAAATG
1 TTTTT-A-AAAAAATTCATTAAATCTTCTAATATTTTGATAAGATC-TAATTCAATATTTAAATA
* *
22088906 TTCA-AATAATTTTGGTA-GAATT-AGAGATTTTATT-ATTATT
63 TT-ATAAT-AGTTTGGTATG-ATTGA-AAATTTTATTGATTATT
* * * *
22088946 TTTTTAAAAAAATTTCATTAAATCTTCTAATAATTTTG-TAAGATTTAACTAAAAATTTAAAT
1 TTTTTAAAAAAA-TTCATTAAATCTTCTAAT-ATTTTGATAAGATCTAATTCAATATTTAAAT
22089008 CATCCAATAG
Statistics
Matches: 137, Mismatches: 18, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
101 5 0.04
102 7 0.05
103 42 0.31
104 63 0.46
105 20 0.15
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (102 bp):
TTTTTAAAAAAATTCATTAAATCTTCTAATATTTTGATAAGATCTAATTCAATATTTAAATATTA
TAATAGTTTGGTATGATTGAAAATTTTATTGATTATT
Found at i:22089289 original size:26 final size:26
Alignment explanation
Indices: 22089253--22089321 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
22089243 CTATAAACAC
* *
22089253 CAATTCCAACCAAATAGCTTTGCCAT
1 CAATTCCAACCAAAGAGCTCTGCCAT
*
22089279 CAATTCCAACCAAAGAGCTCTGCC-C
1 CAATTCCAACCAAAGAGCTCTGCCAT
*
22089304 CTAATTTCAACCAAAGAG
1 C-AATTCCAACCAAAGAG
22089322 TTTGAGTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 1 0.03
26 37 0.97
ACGTcount: A:0.36, C:0.32, G:0.10, T:0.22
Consensus pattern (26 bp):
CAATTCCAACCAAAGAGCTCTGCCAT
Found at i:22090818 original size:20 final size:22
Alignment explanation
Indices: 22090777--22090845 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
22090767 TTGCATGATA
*
22090777 ATTAAT-ATCATATTATTTTATT
1 ATTAATAAT-ATATTATATTATT
*
22090799 ATTTTATAATATATTATATTATT
1 A-TTAATAATATATTATATTATT
* *
22090822 ATTACATGATACATTATATTATT
1 ATTA-ATAATATATTATATTATT
22090845 A
1 A
22090846 CTACATGCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 3 0.08
23 34 0.87
24 2 0.05
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (22 bp):
ATTAATAATATATTATATTATT
Found at i:22090837 original size:23 final size:23
Alignment explanation
Indices: 22090788--22090852 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
22090778 TTAATATCAT
* ** * *
22090788 ATTATTTTATTATTTTATAATAT
1 ATTATATTATTATTACATGATAC
22090811 ATTATATTATTATTACATGATAC
1 ATTATATTATTATTACATGATAC
*
22090834 ATTATATTATTACTACATG
1 ATTATATTATTATTACATG
22090853 CTATTATTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (23 bp):
ATTATATTATTATTACATGATAC
Found at i:22091262 original size:13 final size:15
Alignment explanation
Indices: 22091242--22091278 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
22091232 TATTTAAGTA
22091242 ATTTTAATATCAAA-
1 ATTTTAATATCAAAT
*
22091256 A-TTTAATATTAAAT
1 ATTTTAATATCAAAT
22091270 ATTTTAATA
1 ATTTTAATA
22091279 AATCATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 11 0.55
14 2 0.10
15 7 0.35
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTTTAATATCAAAT
Found at i:22092910 original size:14 final size:14
Alignment explanation
Indices: 22092872--22092909 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
22092862 TTCAAACAAT
22092872 AAAAGAAAAAACGA
1 AAAAGAAAAAACGA
22092886 AAAAGAAAAAAC-A
1 AAAAGAAAAAACGA
*
22092899 AAAGGAAAAAA
1 AAAAGAAAAAA
22092910 AGAGCTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAACGA
Found at i:22106383 original size:17 final size:17
Alignment explanation
Indices: 22106349--22106383 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22106339 AAAATTATCG
*
22106349 AATTAATTAATTTAAAA
1 AATTAATTAAATTAAAA
22106366 AATTAATTATAATTAAAA
1 AATTAATTA-AATTAAAA
22106384 TCGAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTAATTAAATTAAAA
Found at i:22106432 original size:19 final size:19
Alignment explanation
Indices: 22106410--22106452 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
22106400 AATTTAATCA
*
22106410 AATTTATTCTATTATAAGC
1 AATTTATTCGATTATAAGC
*
22106429 AATTTGTTCGATTATAAGC
1 AATTTATTCGATTATAAGC
22106448 AATTT
1 AATTT
22106453 TTGCTCACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (19 bp):
AATTTATTCGATTATAAGC
Found at i:22106935 original size:18 final size:19
Alignment explanation
Indices: 22106898--22106940 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
22106888 TCAATTTAAT
*
22106898 TAAATAATTATTTTTTATTA
1 TAAATAATTA-TTTTAATTA
22106918 TAAATAATTA-TTTAATTA
1 TAAATAATTATTTTAATTA
22106936 TAAAT
1 TAAAT
22106941 TTAATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.55
20 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATAATTATTTTAATTA
Found at i:22110524 original size:3 final size:3
Alignment explanation
Indices: 22110516--22110551 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
22110506 GGCCCACAGG
*
22110516 AAT AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22110552 TATTATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:22118352 original size:97 final size:97
Alignment explanation
Indices: 22118181--22118375 Score: 286
Period size: 97 Copynumber: 2.0 Consensus size: 97
22118171 ATTGTGTAGA
* *
22118181 TAATCCTTTTAGATGCACTAAATGACATGAATTCACCTCATAGGGTATTCATGGGATATAGGTAT
1 TAATACTTTTAGATGCACTAAATGACATGAATTCACCTCATAGGGTACTCATGGGATATAGGTAT
* *
22118246 ATTTGACATAGAATCCTAGCAGCCAGAGAGTT
66 ACTTGACATAGAATCCTAGCAGCCAAAGAGTT
* * *
22118278 TAATACTTTTAGATGCGCTAAATGATATTAATTCACCTCATAGGGTACTCA-GGGA-ATGCAGGT
1 TAATACTTTTAGATGCACTAAATGACATGAATTCACCTCATAGGGTACTCATGGGATAT--AGGT
*
22118341 ATACTTGACATAGAATCCTTGCAGCCAAAGAGTT
64 ATACTTGACATAGAATCCTAGCAGCCAAAGAGTT
22118375 T
1 T
22118376 TGAAGAAAAG
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
95 2 0.02
96 4 0.05
97 82 0.93
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (97 bp):
TAATACTTTTAGATGCACTAAATGACATGAATTCACCTCATAGGGTACTCATGGGATATAGGTAT
ACTTGACATAGAATCCTAGCAGCCAAAGAGTT
Found at i:22123126 original size:13 final size:13
Alignment explanation
Indices: 22123110--22123146 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
22123100 AATTAATATT
22123110 TTTATTAAAAATA
1 TTTATTAAAAATA
22123123 TTTATTTAAAAATA
1 TTTA-TTAAAAATA
*
22123137 TATATTAAAA
1 TTTATTAAAA
22123147 TTTATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATTAAAAATA
Found at i:22123131 original size:14 final size:14
Alignment explanation
Indices: 22123104--22123146 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
22123094 ATTTTTAATT
*
22123104 AATATTTTTATTAAA
1 AATATTTAT-TTAAA
22123119 AATATTTATTTAAA
1 AATATTTATTTAAA
*
22123133 AATATATA-TTAAA
1 AATATTTATTTAAA
22123146 A
1 A
22123147 TTTATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 6 0.23
14 12 0.46
15 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATATTTATTTAAA
Found at i:22129570 original size:28 final size:28
Alignment explanation
Indices: 22129534--22129588 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
22129524 ATTATTTATA
*
22129534 ATAATAATTTTTGATATAATAAATGAAG
1 ATAATAATTTTTAATATAATAAATGAAG
*
22129562 ATAATAATTTTTAATATATTAAATGAA
1 ATAATAATTTTTAATATAATAAATGAA
22129589 AAAACTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (28 bp):
ATAATAATTTTTAATATAATAAATGAAG
Found at i:22138750 original size:57 final size:52
Alignment explanation
Indices: 22138639--22138764 Score: 130
Period size: 52 Copynumber: 2.3 Consensus size: 52
22138629 ATTTTAAATT
* * * *
22138639 AAATTAAAATATATATTTTTATTAAATTTTATATATATTTTAAATTTATATA
1 AAATAAAAATATATATTTTTATTAAATTTTATAAATATTTAAAAATTATATA
*
22138691 AAATAAAAATA-ATTATTTTATATATAAATTTATTTAAATATATTAAAAATTATATTA
1 AAATAAAAATATA-TATTTT-TAT-TAAATTT-TATAAATAT-TTAAAAATTATA-TA
*
22138748 AAATAAAAA-ATAAATTT
1 AAATAAAAATATATATTT
22138765 AAATTTAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
51 1 0.02
52 16 0.26
53 3 0.05
54 7 0.11
55 7 0.11
56 15 0.25
57 12 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (52 bp):
AAATAAAAATATATATTTTTATTAAATTTTATAAATATTTAAAAATTATATA
Found at i:22139515 original size:40 final size:40
Alignment explanation
Indices: 22139470--22139556 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
22139460 AAAAATTTAT
* * * *
22139470 ATTTCTTTTAAATTCATCTTATCTAACAAAATCACATTTC
1 ATTTCTTCTAAATACACCTTATCAAACAAAATCACATTTC
*
22139510 ATTTCTTCTAAATACACCTTATCAAATAAAATCACATTTC
1 ATTTCTTCTAAATACACCTTATCAAACAAAATCACATTTC
22139550 ATTTCTT
1 ATTTCTT
22139557 ATCCTTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (40 bp):
ATTTCTTCTAAATACACCTTATCAAACAAAATCACATTTC
Found at i:22140251 original size:20 final size:20
Alignment explanation
Indices: 22140226--22140281 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 20
22140216 TTTTGTTCAT
22140226 TTAATATAATAAAAAATAAA
1 TTAATATAATAAAAAATAAA
* *
22140246 TTAATATTTAGTCAAAAAATACA
1 TTAATA--TAAT-AAAAAATAAA
22140269 TTAAT-TAATAAAA
1 TTAATATAATAAAA
22140282 TGTTATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.13
20 9 0.30
22 3 0.10
23 14 0.47
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (20 bp):
TTAATATAATAAAAAATAAA
Found at i:22146428 original size:23 final size:23
Alignment explanation
Indices: 22146385--22146458 Score: 60
Period size: 31 Copynumber: 2.9 Consensus size: 23
22146375 TTTTTTTTTC
*
22146385 AAATAATATTAATATAATTATTA
1 AAATAATATTAAAATAATTATTA
22146408 AAAT-ATATTAAAATTATTTATTATTAA
1 AAATAATATTAAAA-TA---ATTATT-A
22146435 AATTATTAATATTAAAATAATTAT
1 AA--A-TAATATTAAAATAATTAT
22146459 ATTTTATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
22 8 0.20
23 6 0.15
26 6 0.15
27 8 0.20
29 1 0.02
30 3 0.07
31 9 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATAATATTAAAATAATTATTA
Found at i:22146449 original size:15 final size:15
Alignment explanation
Indices: 22146412--22146461 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
22146402 TTATTAAAAT
22146412 ATATTAAAATTATTTA
1 ATATTAAAATTA-TTA
*
22146428 TTATTAAAATTATTA
1 ATATTAAAATTATTA
*
22146443 ATATTAAAATAATT-
1 ATATTAAAATTATTA
22146457 ATATT
1 ATATT
22146462 TTATTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 5 0.16
15 15 0.48
16 11 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTAAAATTATTA
Found at i:22146457 original size:9 final size:9
Alignment explanation
Indices: 22146400--22146448 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
22146390 ATATTAATAT
22146400 AATTATTAA
1 AATTATTAA
22146409 AATATATTAA
1 AAT-TATTAA
22146419 AATTATT--
1 AATTATTAA
*
22146426 TATTATTAA
1 AATTATTAA
22146435 AATTATTAA
1 AATTATTAA
*
22146444 TATTA
1 AATTA
22146449 AAATAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 6 0.18
9 19 0.56
10 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
AATTATTAA
Found at i:22146489 original size:15 final size:15
Alignment explanation
Indices: 22146412--22146491 Score: 63
Period size: 15 Copynumber: 4.9 Consensus size: 15
22146402 TTATTAAAAT
22146412 ATATTAAAATTATTTA
1 ATATTAAAA-TATTTA
*
22146428 TTATTAAAAT-TATTA
1 ATATTAAAATAT-TTA
22146443 ATATTAAAATAATTATA
1 ATATTAAAAT-ATT-TA
*
22146460 TTTTATTTAATAATATTTA
1 --ATA-TTAA-AATATTTA
22146479 ATATTAAAATATT
1 ATATTAAAATATT
22146492 ATGTTAATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 17
0.71 0.05 0.23
Matches are distributed among these distances:
14 1 0.02
15 19 0.37
16 13 0.25
17 5 0.10
19 4 0.08
20 7 0.13
21 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATTAAAATATTTA
Found at i:22146555 original size:8 final size:8
Alignment explanation
Indices: 22146535--22146621 Score: 60
Period size: 8 Copynumber: 11.1 Consensus size: 8
22146525 TTATTATTTT
22146535 TATATT-A
1 TATATTAA
*
22146542 TTTATTAA
1 TATATTAA
22146550 TATATT-A
1 TATATTAA
*
22146557 TTTATTAA
1 TATATTAA
22146565 TATA--AA
1 TATATTAA
22146571 TATATT-A
1 TATATTAA
22146578 TAATATTAA
1 T-ATATTAA
22146587 T-TAATTAA
1 TAT-ATTAA
*
22146595 TATAATAA
1 TATATTAA
22146603 TATTTATTAA
1 TA--TATTAA
*
22146613 TATAATAA
1 TATATTAA
22146621 T
1 T
22146622 TATAAATAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
6 6 0.10
7 14 0.22
8 33 0.52
9 3 0.05
10 7 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TATATTAA
Found at i:22146579 original size:26 final size:25
Alignment explanation
Indices: 22146550--22146626 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 25
22146540 TATTTATTAA
*
22146550 TATATTATTTATTAATATAAATATAT
1 TATAATATTTATTAATAT-AATATAT
*
22146576 TATAATATTAATTAAT-TAATATA-
1 TATAATATTTATTAATATAATATAT
22146599 -ATAATATTTATTAATATAATA-AT
1 TATAATATTTATTAATATAATATAT
22146622 TATAA
1 TATAA
22146627 ATAAAATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
22 15 0.33
23 5 0.11
24 10 0.22
25 1 0.02
26 14 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TATAATATTTATTAATATAATATAT
Found at i:22146596 original size:30 final size:32
Alignment explanation
Indices: 22146540--22146630 Score: 97
Period size: 30 Copynumber: 3.0 Consensus size: 32
22146530 ATTTTTATAT
* *
22146540 TATTTATTAATATATTATTTATTAATAT-A-AA
1 TATTTATTAATAT-TAATTAATTAATATAATAA
22146571 TATATTA-TAATATTAATTAATTAATATAATAA
1 TAT-TTATTAATATTAATTAATTAATATAATAA
22146603 TATTTATTAATA-TAA-TAATT-ATA-AATAA
1 TATTTATTAATATTAATTAATTAATATAATAA
22146631 AATTATACTC
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
28 5 0.09
29 3 0.06
30 17 0.31
31 16 0.30
32 13 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
TATTTATTAATATTAATTAATTAATATAATAA
Found at i:22146612 original size:48 final size:42
Alignment explanation
Indices: 22146536--22146626 Score: 119
Period size: 48 Copynumber: 2.0 Consensus size: 42
22146526 TATTATTTTT
*
22146536 ATATTATTTATTAATATATTATTTATTAATATAAATATATTATA
1 ATATTATTAATTAATATATTATTTATTAATAT-AATA-ATTATA
22146580 ATATTAATTAATTAATATAATAATATTTATTAATATAATAATTATA
1 ATATT-ATTAATTAATAT-AT--TATTTATTAATATAATAATTATA
22146626 A
1 A
22146627 ATAAAATTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
44 5 0.12
45 11 0.26
46 9 0.21
47 4 0.10
48 13 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (42 bp):
ATATTATTAATTAATATATTATTTATTAATATAATAATTATA
Found at i:22146619 original size:15 final size:15
Alignment explanation
Indices: 22146535--22146629 Score: 77
Period size: 15 Copynumber: 6.1 Consensus size: 15
22146525 TTATTATTTT
*
22146535 TATATTATTTATTAA
1 TATAATATTTATTAA
*
22146550 TATATTATTTATTAA
1 TATAATATTTATTAA
22146565 TATAAATATATTA-TAA
1 TAT-AATAT-TTATTAA
* *
22146581 TATTA-ATTAATTAATA
1 TATAATATTTATT-A-A
22146597 TAATAATATTTATTAA
1 T-ATAATATTTATTAA
* *
22146613 TATAATAATTATAAA
1 TATAATATTTATTAA
22146628 TA
1 TA
22146630 AAATTATACT
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.03
14 3 0.05
15 34 0.52
16 14 0.21
17 7 0.11
18 6 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATAATATTTATTAA
Found at i:22146634 original size:12 final size:13
Alignment explanation
Indices: 22146565--22146637 Score: 53
Period size: 15 Copynumber: 5.3 Consensus size: 13
22146555 TATTTATTAA
22146565 TATAAAT-AT-AT
1 TATAAATAATAAT
22146576 TATAATATTAATTAAT
1 TATAA-A-TAA-TAAT
*
22146592 TAATATAATAATATT
1 T-ATA-AATAATAAT
22146607 TATTAATATAATAAT
1 TA-TAA-ATAATAAT
22146622 TATAAATAA-AAT
1 TATAAATAATAAT
22146634 TATA
1 TATA
22146638 CTCAAAAGTA
Statistics
Matches: 51, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
11 5 0.10
12 8 0.16
13 5 0.10
14 6 0.12
15 16 0.31
16 6 0.12
17 4 0.08
18 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATAAATAATAAT
Found at i:22151227 original size:2 final size:2
Alignment explanation
Indices: 22151220--22151249 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
22151210 TACGGAAGCG
*
22151220 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22151250 CGATTAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22167024 original size:80 final size:80
Alignment explanation
Indices: 22166898--22167060 Score: 263
Period size: 80 Copynumber: 2.0 Consensus size: 80
22166888 ATGATATCTA
** * * *
22166898 ATATCAATGTGCTTTGTTCTAGCATGGTACATGATATTCTTACTCAAATCTAAAGCATTCTGGCT
1 ATATCAATGCACTTTGTTCTAGCATGATACATGACATTCTTACTCAAATCTAAAGCACTCTGGCT
22166963 ATCACAAAATATCAT
66 ATCACAAAATATCAT
*
22166978 ATATCAATGCACTTTGTTTTAGCATGATACATGACATTCTTACTCAAATCTAAAGCACTCTGGCT
1 ATATCAATGCACTTTGTTCTAGCATGATACATGACATTCTTACTCAAATCTAAAGCACTCTGGCT
*
22167043 ATCATAAAATATCAT
66 ATCACAAAATATCAT
22167058 ATA
1 ATA
22167061 CTCTTTTTGA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (80 bp):
ATATCAATGCACTTTGTTCTAGCATGATACATGACATTCTTACTCAAATCTAAAGCACTCTGGCT
ATCACAAAATATCAT
Found at i:22169266 original size:15 final size:15
Alignment explanation
Indices: 22169214--22169266 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
22169204 CGTCGAATCA
22169214 AACC-AACCAGATCG
1 AACCGAACCAGATCG
22169228 AACCGAACCAG-TACTG
1 AACCGAACCAGAT-C-G
22169244 AACC-AACCAGATCG
1 AACCGAACCAGATCG
*
22169258 AGCCGAACC
1 AACCGAACC
22169267 GTCGGATCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
14 9 0.27
15 18 0.55
16 6 0.18
ACGTcount: A:0.40, C:0.36, G:0.17, T:0.08
Consensus pattern (15 bp):
AACCGAACCAGATCG
Found at i:22169414 original size:18 final size:18
Alignment explanation
Indices: 22169381--22169415 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22169371 TTATTTTATT
*
22169381 AATATTTATGTATGTTAA
1 AATATTTATATATGTTAA
*
22169399 AATATTTATATTTGTTA
1 AATATTTATATATGTTA
22169416 GATTAAATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
AATATTTATATATGTTAA
Found at i:22169920 original size:210 final size:207
Alignment explanation
Indices: 22169515--22169895 Score: 450
Period size: 209 Copynumber: 1.8 Consensus size: 207
22169505 AATACTAAAC
* * * * *
22169515 TAATAAAAATAAGAGAAAAGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTG
1 TAATAAAAATAAGAGAAAAGGAAATTTTAATCCAATGATGAGATTCAAAAGTATTCCGAATAGAG
* * *
22169580 ATGCCTACGAAATCTCTAAGTGAAAAAATTTTTTAAGTACTACCAGCGTATTGGAGTATTTATAA
66 ATGCCTAAGAAATCTCTAAGTGAAAAAATTTTTTAAATACTACCAGCGTATTGGAATATTTATAA
* * * **
22169645 AAATTTTTTAATACAATAAAGATTTTCTTTTTTTTTTTAAATAATAAATAAAAATTGATTAATAA
131 AAATTCTTCAATACAATAAAGATTTTCTTTTTTCTTCAAAATAATAAATAAAAA-T-ATTAATAA
22169710 ATTAAAAATATAAG
194 ATTAAAAATATAAG
* *
22169724 TAATAAAAATAGGAAGAAAA-GAAA-TTTAATCCAATGATGGGATTCTAAAAGTATTCCGAATAG
1 TAATAAAAATAAG-AGAAAAGGAAATTTTAATCCAATGATGAGATTC-AAAAGTATTCCGAATAG
* * * * *
22169787 AGATGCTTTAAGAAATCTCTAGGTGAGAAGATTTTTTAAAATATTACCAGCGTATTGGAATATTT
64 AGATGC-CTAAGAAATCTCTAAGTGAAAAAATTTTTT-AAATACTACCAGCGTATTGGAATATTT
* *
22169852 ATAGAAAA-TCTTCAATATGATTAAA-A-TTT-TTTTTTCTTCAAAAT
127 ATA-AAAATTCTTCAATA-CAATAAAGATTTTCTTTTTTCTTCAAAAT
22169896 TTCAATTAAA
Statistics
Matches: 144, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
208 18 0.12
209 48 0.33
210 34 0.24
211 35 0.24
212 9 0.06
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (207 bp):
TAATAAAAATAAGAGAAAAGGAAATTTTAATCCAATGATGAGATTCAAAAGTATTCCGAATAGAG
ATGCCTAAGAAATCTCTAAGTGAAAAAATTTTTTAAATACTACCAGCGTATTGGAATATTTATAA
AAATTCTTCAATACAATAAAGATTTTCTTTTTTCTTCAAAATAATAAATAAAAATATTAATAAAT
TAAAAATATAAG
Found at i:22170346 original size:195 final size:194
Alignment explanation
Indices: 22169985--22170362 Score: 625
Period size: 195 Copynumber: 1.9 Consensus size: 194
22169975 ACATGGCATA
* *
22169985 ATTTTTTACGAAAAGTAAATTTAGACCTCCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGA
1 ATTTTTTACGAAAAATAAATTGAGACCTCCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGA
* * *
22170050 TGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAATATACTGAAATATTTTA
66 TACTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACATACTGAAACATTTTA
*
22170115 AGAATTATTTTAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAAATTTTTTTTTAACATGAC
131 AGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAAT-AATTTTTTTTTAACATGAC
22170180 ATTTTCTTACGAAAAATAAATTCGA-ACCT-CCAAAGATGAGATTCTAAAAGTATTCCGAGTAGA
1 ATTTT-TTACGAAAAATAAATT-GAGACCTCCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGA
* * *
22170243 GATACTTTAAGAAATCTCTATGTGAGAGAGAGTTCTTTTAATGTTACCAACGTACTGAAACATTT
64 GATACTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACATACTGAAACATTT
*
22170308 TAAGAATTATTTCAATAAAAAGGTTTTGATTTATTTTTCTCGAGAATAATTTTTT
129 TAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTT
22170363 AAAAATAATA
Statistics
Matches: 171, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
194 8 0.05
195 143 0.84
196 19 0.11
197 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (194 bp):
ATTTTTTACGAAAAATAAATTGAGACCTCCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGA
TACTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACATACTGAAACATTTTA
AGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTTTAACATGAC
Found at i:22178505 original size:20 final size:20
Alignment explanation
Indices: 22178480--22178519 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
22178470 AAGAAAAAAA
*
22178480 AATTACTTTAACTATTTTTT
1 AATTACTTTAACCATTTTTT
22178500 AATTACTTTAACCATTTTTT
1 AATTACTTTAACCATTTTTT
22178520 GGCCAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTACTTTAACCATTTTTT
Found at i:22187985 original size:100 final size:100
Alignment explanation
Indices: 22187812--22188009 Score: 387
Period size: 100 Copynumber: 2.0 Consensus size: 100
22187802 GTATCTTCAG
22187812 GCTTTCATTAAGTGATGCACTTACTGACTTTCAGATTAATGAAATTCTATGGAATATAAGCATGC
1 GCTTTCATTAAGTGATGCACTTACTGACTTTCAGATTAATGAAATTCTATGGAATATAAGCATGC
22187877 TTTTCTAACATTATTCCTCCTAATGGTATACTAAA
66 TTTTCTAACATTATTCCTCCTAATGGTATACTAAA
*
22187912 GCTTTCATTAAGTGATGCACTTACTGACTTTCAGATTAATGAAATTCTATGGAATATAAGCATGT
1 GCTTTCATTAAGTGATGCACTTACTGACTTTCAGATTAATGAAATTCTATGGAATATAAGCATGC
22187977 TTTTCTAACATTATTCCTCCTAATGGTATACTA
66 TTTTCTAACATTATTCCTCCTAATGGTATACTA
22188010 GAGGTGCAAA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (100 bp):
GCTTTCATTAAGTGATGCACTTACTGACTTTCAGATTAATGAAATTCTATGGAATATAAGCATGC
TTTTCTAACATTATTCCTCCTAATGGTATACTAAA
Found at i:22196832 original size:31 final size:31
Alignment explanation
Indices: 22196779--22196840 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
22196769 ATGATACATA
* * *
22196779 ATTTAACAGTTTAGGATATAAATTGTATATT
1 ATTTAAAAATTTAGGATATAAATTATATATT
* *
22196810 ATTTAAAAATTTATGATGTAAATTATATATT
1 ATTTAAAAATTTAGGATATAAATTATATATT
22196841 TTATTATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.47
Consensus pattern (31 bp):
ATTTAAAAATTTAGGATATAAATTATATATT
Found at i:22197284 original size:3 final size:3
Alignment explanation
Indices: 22197276--22197315 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
22197266 GGTTTGTCTA
*
22197276 AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22197316 CAGTTAAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:22202667 original size:16 final size:17
Alignment explanation
Indices: 22202646--22202685 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
22202636 ATTTTTCATG
22202646 AAAAAAGGT-TAAAAAT
1 AAAAAAGGTATAAAAAT
**
22202662 AAAAAAATTATAAAAAT
1 AAAAAAGGTATAAAAAT
22202679 AAAAAAG
1 AAAAAAG
22202686 TAAAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (17 bp):
AAAAAAGGTATAAAAAT
Found at i:22202668 original size:17 final size:17
Alignment explanation
Indices: 22202646--22202692 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
22202636 ATTTTTCATG
*
22202646 AAAAAAGGT-TAAAAAT
1 AAAAAAAGTATAAAAAT
*
22202662 AAAAAAATTATAAAAAT
1 AAAAAAAGTATAAAAAT
22202679 -AAAAAAGTA-AAAAA
1 AAAAAAAGTATAAAAA
22202693 AAATTGCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 5 0.19
16 15 0.56
17 7 0.26
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAAAAAGTATAAAAAT
Found at i:22202693 original size:17 final size:17
Alignment explanation
Indices: 22202656--22202694 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22202646 AAAAAAGGTT
* *
22202656 AAAAATAAAAAAATTAT
1 AAAAATAAAAAAATAAA
*
22202673 AAAAATAAAAAAGTAAA
1 AAAAATAAAAAAATAAA
22202690 AAAAA
1 AAAAA
22202695 ATTGCAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAATAAAAAAATAAA
Found at i:22202815 original size:42 final size:41
Alignment explanation
Indices: 22202762--22202840 Score: 99
Period size: 40 Copynumber: 1.9 Consensus size: 41
22202752 ATATTATAAG
22202762 TTTTAATTTATACA-ATTATGTAAAATATTTATATAATTTAGAA
1 TTTTAATTTATA-ATA-TAT-TAAAATATTTATATAATTTAGAA
* *
22202805 TTTT-ATTTATAATATATTAAAATATTTTTTTAATTT
1 TTTTAATTTATAATATATTAAAATATTTATATAATTT
22202841 CAATAAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
40 17 0.52
41 4 0.12
42 8 0.24
43 4 0.12
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (41 bp):
TTTTAATTTATAATATATTAAAATATTTATATAATTTAGAA
Found at i:22203773 original size:2 final size:2
Alignment explanation
Indices: 22203766--22203794 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22203756 TTGTGATAAT
22203766 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
22203795 TCAAAGGGAG
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:22204166 original size:10 final size:10
Alignment explanation
Indices: 22204142--22204171 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
22204132 TATTTTATCA
22204142 ATTAAAATA-
1 ATTAAAATAT
22204151 ATTAAAATAT
1 ATTAAAATAT
22204161 ATTAAAATAT
1 ATTAAAATAT
22204171 A
1 A
22204172 AAAACTCGAT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:22204573 original size:13 final size:13
Alignment explanation
Indices: 22204552--22204586 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
22204542 TAAGGAGAGG
*
22204552 TTTCACATTTTGC
1 TTTCCCATTTTGC
22204565 TTTCCCATTTTGC
1 TTTCCCATTTTGC
22204578 TTTCCCATT
1 TTTCCCATT
22204587 CTTAGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.11, C:0.29, G:0.06, T:0.54
Consensus pattern (13 bp):
TTTCCCATTTTGC
Found at i:22205681 original size:25 final size:24
Alignment explanation
Indices: 22205664--22205711 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
22205654 TTAATTTATT
22205664 TTTATTAAAAATATATTAACATATA
1 TTTA-TAAAAATATATTAACATATA
22205689 TTTATAAAAAT-TATCTAA-ATATA
1 TTTATAAAAATATAT-TAACATATA
22205712 CAAGTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.36
24 10 0.45
25 4 0.18
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
TTTATAAAAATATATTAACATATA
Found at i:22205861 original size:6 final size:6
Alignment explanation
Indices: 22205850--22205881 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
22205840 AAATATTTAT
22205850 TAAATA TAAATA TAAATA T-AATA TAAA-A TAAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAA
22205882 AAAAAAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAATA
Found at i:22205865 original size:12 final size:12
Alignment explanation
Indices: 22205850--22205881 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
22205840 AAATATTTAT
22205850 TAAATATAAATA
1 TAAATATAAATA
22205862 TAAATAT-AATA
1 TAAATATAAATA
22205873 TAAA-ATAAA
1 TAAATATAAA
22205882 AAAAAAATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 10 0.53
12 7 0.37
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAATATAAATA
Found at i:22206186 original size:2 final size:2
Alignment explanation
Indices: 22206179--22206215 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
22206169 GATGATTTTC
*
22206179 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22206216 AATAGATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:22209445 original size:5 final size:5
Alignment explanation
Indices: 22209435--22209465 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
22209425 GGATTTCTTT
22209435 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
22209466 GATGATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:22210201 original size:28 final size:28
Alignment explanation
Indices: 22210169--22210224 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
22210159 CAATGTCGGC
22210169 CTTGATTAGATTTCAACTACGTTTTTTT
1 CTTGATTAGATTTCAACTACGTTTTTTT
* *
22210197 CTTGATTAGATTTCTACTAGGTTTTTTT
1 CTTGATTAGATTTCAACTACGTTTTTTT
22210225 GTTGTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (28 bp):
CTTGATTAGATTTCAACTACGTTTTTTT
Found at i:22210234 original size:25 final size:27
Alignment explanation
Indices: 22210169--22210236 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
22210159 CAATGTCGGC
22210169 CTTGATTAGATTTCAACTACGTTTTTTT
1 CTTGATTA-ATTTCAACTACGTTTTTTT
* *
22210197 CTTGATTAGATTTCTACTAGGTTTTTTT
1 CTTGATTA-ATTTCAACTACGTTTTTTT
*
22210225 GTTG-TT-ATTTCA
1 CTTGATTAATTTCA
22210237 GCTTGGTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 5 0.14
27 2 0.06
28 29 0.81
ACGTcount: A:0.19, C:0.12, G:0.13, T:0.56
Consensus pattern (27 bp):
CTTGATTAATTTCAACTACGTTTTTTT
Found at i:22212463 original size:22 final size:22
Alignment explanation
Indices: 22212435--22212478 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22212425 ATTTTTTGTC
*
22212435 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22212457 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22212479 TAAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22212490 original size:22 final size:22
Alignment explanation
Indices: 22212438--22212490 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
22212428 TTTTGTCCTT
* * *
22212438 AATTCTAGGGATACAAATACTT
1 AATTATAGAGATACAAATACTA
*
22212460 AATTCTAGAGATACAAATA-TA
1 AATTATAGAGATACAAATACTA
22212481 AATATATAGA
1 AAT-TATAGA
22212491 TTACAAGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.30
Consensus pattern (22 bp):
AATTATAGAGATACAAATACTA
Found at i:22217322 original size:16 final size:18
Alignment explanation
Indices: 22217285--22217320 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
22217275 TTCAGTAGAA
22217285 TTCTTTTTTTTCATCTCTC
1 TTCTTTTTTTT-ATCTCTC
*
22217304 TTCTTTTTTTTTTCTCT
1 TTCTTTTTTTTATCTCT
22217321 TCCCTCTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (18 bp):
TTCTTTTTTTTATCTCTC
Found at i:22218897 original size:46 final size:46
Alignment explanation
Indices: 22218830--22219080 Score: 322
Period size: 46 Copynumber: 5.4 Consensus size: 46
22218820 GGTTTTACAT
* *
22218830 CTCAAAGATTCTCATTTGAAAATATCTTAAAGTTTCTCATTTAAAA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAAA
*
22218876 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAAA
* * * * * * *
22218922 GTTAAAGATTCTCACTTGGAAACGTCTTAAAAATTTTCATTTAAAA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAAA
* * *
22218968 CTCAAAGATTTTCATTTGAAAATGTCTTAAAAATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAAA
* * *
22219014 CTCAAAGATTCTTATTTGAAAACGTTTTAAAGATTCTCATTTAAAAA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTT-AAAA
22219061 CATCTTAAAGATTCTCATTT
1 C-TC--AAAGATTCTCATTT
22219081 AAGACTAAAA
Statistics
Matches: 175, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
46 156 0.89
47 4 0.02
48 2 0.01
50 13 0.07
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (46 bp):
CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAAA
Found at i:22219067 original size:117 final size:117
Alignment explanation
Indices: 22218904--22219152 Score: 371
Period size: 117 Copynumber: 2.2 Consensus size: 117
22218894 AAAATGTCTT
* ** * *
22218904 AAAGATTCTCATTT-AAGA-G--TTAAAGATTCTCACTTGGAAACGTCTTAAAAATTTTCATTTA
1 AAAGATTCTCATTTGAAAACGTTTTAAAGATTCTCACTTAAAAACATCTTAAAAATTCTCATTTA
* *
22218965 AAACTCAAAGATTTTCATTTGAAAATGTCTTAAAAATTCTCATTTAAGACTC
66 AAACTAAAAAATTTTCATTTGAAAATGTCTTAAAAATTCTCATTTAAGACTC
* * *
22219017 AAAGATTCTTATTTGAAAACGTTTTAAAGATTCTCATTTAAAAACATCTTAAAGATTCTCATTTA
1 AAAGATTCTCATTTGAAAACGTTTTAAAGATTCTCACTTAAAAACATCTTAAAAATTCTCATTTA
*
22219082 AGACTAAAAAATTTTCATTTGAAAATGTCTTAAAAATTCTCATTTAAGACTC
66 AAACTAAAAAATTTTCATTTGAAAATGTCTTAAAAATTCTCATTTAAGACTC
22219134 AAAGATTCTCATTTGAAAA
1 AAAGATTCTCATTTGAAAA
22219153 TTTAGGACTT
Statistics
Matches: 120, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
113 13 0.11
114 3 0.03
115 1 0.01
117 103 0.86
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (117 bp):
AAAGATTCTCATTTGAAAACGTTTTAAAGATTCTCACTTAAAAACATCTTAAAAATTCTCATTTA
AAACTAAAAAATTTTCATTTGAAAATGTCTTAAAAATTCTCATTTAAGACTC
Found at i:22219092 original size:138 final size:138
Alignment explanation
Indices: 22218830--22219106 Score: 364
Period size: 138 Copynumber: 2.0 Consensus size: 138
22218820 GGTTTTACAT
**
22218830 CTCAAAGATTCTCATTTGAAAATATCTTAAAGTTTCTCATTTAAAACTCAAAGATTCTCATTTGA
1 CTCAAAGATTCTCATTTGAAAATATCTTAAAAATTCTCATTTAAAACTCAAAGATTCTCATTTGA
* * * * *
22218895 AAATGTCTTAAAGATTCTCATTTAAGAGTTAAAGATTCTCACTTGGAAACGTCTTAAAAATTTTC
66 AAACGTCTTAAAGATTCTCATTTAACACTTAAAGATTCTCACTT-GAAACGACTAAAAAATTTTC
22218960 ATTT-AAAA
130 ATTTGAAAA
* * * *
22218968 CTCAAAGATTTTCATTTGAAAATGTCTTAAAAATTCTCATTTAAGACTCAAAGATTCTTATTTGA
1 CTCAAAGATTCTCATTTGAAAATATCTTAAAAATTCTCATTTAAAACTCAAAGATTCTCATTTGA
* *
22219033 AAACGTTTTAAAGATTCTCATTTAAAAACATCTTAAAGATTCTCA-TT-TAA-GACTAAAAAATT
66 AAACGTCTTAAAGATTCTCATTT---AACA-CTTAAAGATTCTCACTTGAAACGACTAAAAAATT
22219095 TTCATTTGAAAA
127 TTCATTTGAAAA
22219107 TGTCTTAAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
138 97 0.80
139 6 0.05
141 5 0.04
142 13 0.11
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (138 bp):
CTCAAAGATTCTCATTTGAAAATATCTTAAAAATTCTCATTTAAAACTCAAAGATTCTCATTTGA
AAACGTCTTAAAGATTCTCATTTAACACTTAAAGATTCTCACTTGAAACGACTAAAAAATTTTCA
TTTGAAAA
Found at i:22219153 original size:46 final size:46
Alignment explanation
Indices: 22219042--22219153 Score: 161
Period size: 46 Copynumber: 2.4 Consensus size: 46
22219032 AAAACGTTTT
* * *
22219042 AAAGATTCTCATTTAAAAACATCTTAAAGATTCTCATTTAAGACTA
1 AAAGATTCTCATTTGAAAATATCTTAAAAATTCTCATTTAAGACTA
* * * *
22219088 AAAAATTTTCATTTGAAAATGTCTTAAAAATTCTCATTTAAGACTC
1 AAAGATTCTCATTTGAAAATATCTTAAAAATTCTCATTTAAGACTA
22219134 AAAGATTCTCATTTGAAAAT
1 AAAGATTCTCATTTGAAAAT
22219154 TTAGGACTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (46 bp):
AAAGATTCTCATTTGAAAATATCTTAAAAATTCTCATTTAAGACTA
Found at i:22220417 original size:18 final size:17
Alignment explanation
Indices: 22220396--22220440 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
22220386 TTGAGTATTT
22220396 TTTTTCTCTTTTCATCTC
1 TTTTTCTCTTTTCAT-TC
*
22220414 TTTTT-TCATTTTCATTT
1 TTTTTCTC-TTTTCATTC
22220431 TTTTTCTCTT
1 TTTTTCTCTT
22220441 ATTTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTCTCTTTTCATTC
Found at i:22220444 original size:14 final size:14
Alignment explanation
Indices: 22220427--22220475 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
22220417 TTTCATTTTC
22220427 ATTTTTTTTCTCTT
1 ATTTTTTTTCTCTT
22220441 ATTTTTTTAT-T-TT
1 ATTTTTTT-TCTCTT
**
22220454 ATCATTTTTCTCTT
1 ATTTTTTTTCTCTT
22220468 ATTTTTTT
1 ATTTTTTT
22220476 CATTCATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 1 0.04
13 9 0.32
14 17 0.61
15 1 0.04
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (14 bp):
ATTTTTTTTCTCTT
Found at i:22220445 original size:13 final size:13
Alignment explanation
Indices: 22220429--22220476 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
22220419 TCATTTTCAT
22220429 TTTTTTTCTCTTA
1 TTTTTTTCTCTTA
* *
22220442 TTTTTTTATTTTA
1 TTTTTTTCTCTTA
*
22220455 TCATTTTTCTCTTA
1 T-TTTTTTCTCTTA
22220469 TTTTTTTC
1 TTTTTTTC
22220477 ATTCATTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTCTCTTA
Found at i:22220445 original size:27 final size:27
Alignment explanation
Indices: 22220414--22220479 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 27
22220404 TTTTCATCTC
**
22220414 TTTTTTCATTTTCATTTTTTTTCTCTTA
1 TTTTTTCATTTT-ATCATTTTTCTCTTA
*
22220442 TTTTTTTATTTTATCATTTTTCTCTTA
1 TTTTTTCATTTTATCATTTTTCTCTTA
22220469 TTTTTTTCATT
1 -TTTTTTCATT
22220480 CATTTTCGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 13 0.39
28 20 0.61
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (27 bp):
TTTTTTCATTTTATCATTTTTCTCTTA
Found at i:22224301 original size:5 final size:5
Alignment explanation
Indices: 22224293--22224318 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22224283 GAAAAGAAAG
22224293 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
22224319 GAATAATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:22225555 original size:18 final size:19
Alignment explanation
Indices: 22225519--22225556 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
22225509 AAAAACTAAT
22225519 GATAAATCCAATAAAAAAA
1 GATAAATCCAATAAAAAAA
22225538 GATAAAT-CAACTAAAAAAA
1 GATAAATCCAA-TAAAAAAA
22225557 ATCAAAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.68, C:0.11, G:0.05, T:0.16
Consensus pattern (19 bp):
GATAAATCCAATAAAAAAA
Found at i:22225601 original size:26 final size:25
Alignment explanation
Indices: 22225552--22225607 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
22225542 AATCAACTAA
22225552 AAAAAATCAAAGATAGATAAAAAACT
1 AAAAAATCAAAGATAGATAAAAAA-T
22225578 AAAAAATCATAAGATA-A-AATAAAAT
1 AAAAAATCA-AAGATAGATAA-AAAAT
22225603 AAAAA
1 AAAAA
22225608 TAAAAAAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.29
26 14 0.50
27 6 0.21
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (25 bp):
AAAAAATCAAAGATAGATAAAAAAT
Found at i:22227208 original size:26 final size:25
Alignment explanation
Indices: 22227178--22227230 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
22227168 TGAAGGCTTT
22227178 AATAG-AGTTCAACAATAAAGGCCTAA
1 AATAGAAG-TCAACAATAAAGG-CTAA
* *
22227204 AATAGAAGTCAATAATGAAGGCTAA
1 AATAGAAGTCAACAATAAAGGCTAA
22227229 AA
1 AA
22227231 ATTTTGCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 16 0.67
27 2 0.08
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (25 bp):
AATAGAAGTCAACAATAAAGGCTAA
Found at i:22227466 original size:22 final size:22
Alignment explanation
Indices: 22227438--22227480 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22227428 TTTTTTGTCA
*
22227438 TTAATTTTAAGGATACAAATAC
1 TTAATTTTAAAGATACAAATAC
22227460 TTAATTTTAAAGATACAAATA
1 TTAATTTTAAAGATACAAATA
22227481 TAAATTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (22 bp):
TTAATTTTAAAGATACAAATAC
Found at i:22237068 original size:15 final size:16
Alignment explanation
Indices: 22237038--22237071 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
22237028 ACCCACCTAC
22237038 TCCTTCACACCTGTTT
1 TCCTTCACACCTGTTT
*
22237054 TCCTTCA-ATCTGTTT
1 TCCTTCACACCTGTTT
22237069 TCC
1 TCC
22237072 CCTACTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.12, C:0.35, G:0.06, T:0.47
Consensus pattern (16 bp):
TCCTTCACACCTGTTT
Found at i:22237986 original size:76 final size:76
Alignment explanation
Indices: 22237847--22237998 Score: 187
Period size: 76 Copynumber: 2.0 Consensus size: 76
22237837 GCGTCTCAAG
* ** *
22237847 GGAAGTAGGTAAGGTGGTCAACCTTCGTAATGAAAGCGTCATGAGATTGGATGGAAAAAAATGTT
1 GGAAGTAGGCAAGGTGACCAACCTTCGTAATGAAAGCGTCACGAGATTGGATGGAAAAAAATGTT
22237912 ACGGACTTAAA
66 ACGGACTTAAA
* * * * * * ** *
22237923 GGAAGTAGGCAAGGTGACCAGCCTTTGTGATGAAGGCGTCACGAGGTTGGGTGGAGGAGAATGTT
1 GGAAGTAGGCAAGGTGACCAACCTTCGTAATGAAAGCGTCACGAGATTGGATGGAAAAAAATGTT
22237988 ACGGACTTAAA
66 ACGGACTTAAA
22237999 TATGAGGTTG
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 63 1.00
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.22
Consensus pattern (76 bp):
GGAAGTAGGCAAGGTGACCAACCTTCGTAATGAAAGCGTCACGAGATTGGATGGAAAAAAATGTT
ACGGACTTAAA
Found at i:22248831 original size:13 final size:13
Alignment explanation
Indices: 22248813--22248837 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22248803 CGCAAATCAA
22248813 TAAAAATTAAAAT
1 TAAAAATTAAAAT
22248826 TAAAAATTAAAA
1 TAAAAATTAAAA
22248838 CAAAAATTTA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAATTAAAAT
Found at i:22248884 original size:21 final size:22
Alignment explanation
Indices: 22248839--22248895 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
22248829 AAATTAAAAC
* *
22248839 AAAAATTTAATAA-ATTTTAAT
1 AAAAATTTAATAATATGTCAAT
22248860 AAAAATTTAATAATATGTCAA-
1 AAAAATTTAATAATATGTCAAT
*
22248881 AAAAATATTTATAAT
1 AAAAAT-TTAATAAT
22248896 TTAAATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAAATTTAATAATATGTCAAT
Found at i:22248885 original size:22 final size:22
Alignment explanation
Indices: 22248839--22248895 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
22248829 AAATTAAAAC
* * *
22248839 AAAAATTTAATAA-ATTTTAAT
1 AAAAATTTAATAATATGTCAAA
22248860 AAAAATTTAATAATATGTCAAA
1 AAAAATTTAATAATATGTCAAA
22248882 AAAATATTT-ATAAT
1 AAAA-ATTTAATAAT
22248896 TTAAATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAAATTTAATAATATGTCAAA
Found at i:22250717 original size:25 final size:24
Alignment explanation
Indices: 22250676--22250723 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
22250666 AAAAAGTTGG
*
22250676 CAAAAAAGAAATAAGAAGAAAAAAC
1 CAAAAAAGAAAAAAGAA-AAAAAAC
22250701 CAAAAAA-AAAAAGAGAAAAAAAA
1 CAAAAAAGAAAAA-AGAAAAAAAA
22250724 TAAGATGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.81, C:0.06, G:0.10, T:0.02
Consensus pattern (24 bp):
CAAAAAAGAAAAAAGAAAAAAAAC
Found at i:22250722 original size:23 final size:25
Alignment explanation
Indices: 22250676--22250721 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 25
22250666 AAAAAGTTGG
22250676 CAAAAAAGAAATAAGAAGAAAAAAC
1 CAAAAAAGAAATAAGAAGAAAAAAC
22250701 CAAAAAA-AAA-AAG-AGAAAAAA
1 CAAAAAAGAAATAAGAAGAAAAAA
22250722 AATAAGATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.38
23 3 0.14
24 3 0.14
25 7 0.33
ACGTcount: A:0.80, C:0.07, G:0.11, T:0.02
Consensus pattern (25 bp):
CAAAAAAGAAATAAGAAGAAAAAAC
Done.