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 19 of 127
Found at i:4460198 original size:2 final size:2
Alignment explanation
Indices: 4460191--4460221 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4460181 TAAGTGCATG
4460191 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4460222 CTTAGATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4461400 original size:15 final size:15
Alignment explanation
Indices: 4461380--4461410 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4461370 GTTAAAATTG
4461380 AGTATTATAGTTAGT
1 AGTATTATAGTTAGT
4461395 AGTATTATAGTTAGT
1 AGTATTATAGTTAGT
4461410 A
1 A
4461411 AGTTAGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (15 bp):
AGTATTATAGTTAGT
Found at i:4463365 original size:17 final size:19
Alignment explanation
Indices: 4463343--4463379 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4463333 TTATTTATAT
4463343 TTATTA-AAATATA-AATA
1 TTATTATAAATATATAATA
4463360 TTATTATTAAATATATAATA
1 TTATTA-TAAATATATAATA
4463380 ATTAATCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTATTATAAATATATAATA
Found at i:4463597 original size:27 final size:26
Alignment explanation
Indices: 4463567--4463631 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 26
4463557 TTAATTAATC
*
4463567 ATTTTTATTAATATTTTATTTTTATTA
1 ATTTTTATTAATATATTATTTTTA-TA
4463594 A-TTTTATGT-AT-TATTATTTTTATA
1 ATTTTTAT-TAATATATTATTTTTATA
4463618 ATTATTT-TTAATAT
1 ATT-TTTATTAATAT
4463632 CGTACCAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
24 4 0.12
25 14 0.44
26 12 0.38
27 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (26 bp):
ATTTTTATTAATATATTATTTTTATA
Found at i:4463607 original size:16 final size:15
Alignment explanation
Indices: 4463579--4463623 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
4463569 TTTTATTAAT
*
4463579 ATTTTATTTTTATTA
1 ATTTTATTATTATTA
4463594 ATTTTATGTATTATTA
1 ATTTTAT-TATTATTA
* *
4463610 TTTTTATAATTATT
1 ATTTTATTATTATT
4463624 TTTAATATCG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
ATTTTATTATTATTA
Found at i:4466434 original size:17 final size:17
Alignment explanation
Indices: 4466388--4466435 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
4466378 TGCATATTTT
4466388 TTTTTATCTTTACATAC
1 TTTTTATCTTTACATAC
4466405 --TTT-T-TTT--ATAC
1 TTTTTATCTTTACATAC
4466416 TTTTTATCTTTACATAC
1 TTTTTATCTTTACATAC
4466433 TTT
1 TTT
4466436 GTAGTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
11 4 0.16
13 6 0.24
14 2 0.08
15 6 0.24
17 7 0.28
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTATCTTTACATAC
Found at i:4470027 original size:10 final size:10
Alignment explanation
Indices: 4469998--4470030 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
4469988 CATATTGAAG
*
4469998 TTTTTTCAAG
1 TTTTTTCAAA
4470008 TTTTTTCAAA
1 TTTTTTCAAA
4470018 TTTTTTCAAA
1 TTTTTTCAAA
4470028 TTT
1 TTT
4470031 CGCACATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTTTCAAA
Found at i:4470086 original size:6 final size:6
Alignment explanation
Indices: 4470068--4470104 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
4470058 TTTCAATCTA
*
4470068 TTGATT TTAATT TTGATT TTGATT TTGATT TTGATT T
1 TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT T
4470105 AATGGATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.68
Consensus pattern (6 bp):
TTGATT
Found at i:4471562 original size:416 final size:414
Alignment explanation
Indices: 4470790--4471592 Score: 1394
Period size: 416 Copynumber: 1.9 Consensus size: 414
4470780 TCTATTAAAT
*
4470790 TTATTGATGTGTTTTTGGGATGTCCTAGATGTAAAGAAGATGATAAGATGGAAGGGGAAGACAGC
1 TTATTGATGTGTTTTTGGGATGTCCTAGATGTAAAGAAGATGATAAGATGGAAGGGGAAGACAAC
4470855 GGTGACTTGCAGTCAGAAAACACAGACATAGGGCACCAGAGTTATTACTTCAGGTATGCTTCGAC
66 GGTGACTTGCAGTCAGAAAACACAGACATAGGGCACCAGAGTTATTACTTCAGGTATGCTTCGAC
* * *
4470920 GCTCAGTTAGTATAACCTGAGATTGGGTTAGGAAGTAAGATGGTAAAGTACGTGTGGGAAGTTTC
131 GCTCAGTTAATATAACCTGAGATTGGGTTAGGAAGTAAGATGGTAAAATACATGTGGGAAGTTTC
4470985 AACGAAAAGAAAAAGTTCAGAGAGTTGGGTCTCTTCTCATAGTACCTTGTTTATATAGTTTTTTA
196 AACGAAAAGAAAAAGTTCAGAGAGTTGGGTCTCTTCTCATAGTACCTTGTTTATATAGTTTTTTA
* *
4471050 CCTAACTCTTGCCTAAAATCAAAGATAATAACCTGATCGAGACAATTTATAATTGATATAATATA
261 CCTAACTCTTGCCTAAAATCAAAGATAATAACCTGATCGAAACAATTTATAATTGATAAAATATA
* * * *
4471115 TACGTAAAATTCAAGAATGGTATATAAGAATAAATGAAAATAACATTTAATGA-CTTTAAATATG
326 TACGTAAAATTCAAGAAAGATATACAAGAATAAATAAAAATAACATTTAATGATC-TTAAATATG
4471179 CAATTTATATTGTTTTCTTGACAAG
390 CAATTTATATTGTTTTCTTGACAAG
*
4471204 TTATTGATGTGTTTTTGGGATGTCCTAGATGTACAGAAGATGATAAGATGGAAGGGGAAGACAAC
1 TTATTGATGTGTTTTTGGGATGTCCTAGATGTAAAGAAGATGATAAGATGGAAGGGGAAGACAAC
4471269 GGTGACTTGCAGTCAGAAAACACAGACATAGGGCACCAGAGTTATTACTTCAGGTATGCTTCGAC
66 GGTGACTTGCAGTCAGAAAACACAGACATAGGGCACCAGAGTTATTACTTCAGGTATGCTTCGAC
*
4471334 GCTCAAGTTAATATAACCTGAGATTGGGTTAGGAAGTAAGATGGTAAAATGCATGTGGGAAGTTT
131 GCTC-AGTTAATATAACCTGAGATTGGGTTAGGAAGTAAGATGGTAAAATACATGTGGGAAGTTT
*
4471399 CAACGAAAAAGAAAAAGTTTAGAGAGTTGGGTCTCTTCTCATAGTACCTTGTTTATATAGTTTTT
195 CAACG-AAAAGAAAAAGTTCAGAGAGTTGGGTCTCTTCTCATAGTACCTTGTTTATATAGTTTTT
* * * *
4471464 TACCTAACTCTTGCCTAAAATTAAGGGTAATAACCTGATCGAAATAATTTATAATTGATAAAATA
259 TACCTAACTCTTGCCTAAAATCAAAGATAATAACCTGATCGAAACAATTTATAATTGATAAAATA
*
4471529 TATACGTAAAATTCAAGAAAGAT-TCACAAGAATAGATAAAAATAACATTTAATGATCTTAAATA
324 TATACGTAAAATTCAAGAAAGATAT-ACAAGAATAAATAAAAATAACATTTAATGATCTTAAATA
4471593 AACATATATT
Statistics
Matches: 367, Mismatches: 18, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
414 132 0.36
415 62 0.17
416 172 0.47
417 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (414 bp):
TTATTGATGTGTTTTTGGGATGTCCTAGATGTAAAGAAGATGATAAGATGGAAGGGGAAGACAAC
GGTGACTTGCAGTCAGAAAACACAGACATAGGGCACCAGAGTTATTACTTCAGGTATGCTTCGAC
GCTCAGTTAATATAACCTGAGATTGGGTTAGGAAGTAAGATGGTAAAATACATGTGGGAAGTTTC
AACGAAAAGAAAAAGTTCAGAGAGTTGGGTCTCTTCTCATAGTACCTTGTTTATATAGTTTTTTA
CCTAACTCTTGCCTAAAATCAAAGATAATAACCTGATCGAAACAATTTATAATTGATAAAATATA
TACGTAAAATTCAAGAAAGATATACAAGAATAAATAAAAATAACATTTAATGATCTTAAATATGC
AATTTATATTGTTTTCTTGACAAG
Found at i:4475657 original size:10 final size:10
Alignment explanation
Indices: 4475628--4475660 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
4475618 TATATTGAAG
*
4475628 TTTTTTCAAG
1 TTTTTTCAAA
4475638 TTTTTTCAAA
1 TTTTTTCAAA
4475648 TTTTTTCAAA
1 TTTTTTCAAA
4475658 TTT
1 TTT
4475661 CGCACATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTTTCAAA
Found at i:4475716 original size:6 final size:6
Alignment explanation
Indices: 4475698--4475734 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
4475688 TTTCAATCTA
* *
4475698 TTGATT TTAATT TTGATT TTGATT TTGATT TTTATT T
1 TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT T
4475735 AATGGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (6 bp):
TTGATT
Found at i:4483773 original size:13 final size:14
Alignment explanation
Indices: 4483755--4483811 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 14
4483745 AAAATAAAAT
4483755 ATTTTATTT-ATAA
1 ATTTTATTTAATAA
*
4483768 ATTTTAAATT--TAA
1 ATTTT-ATTTAATAA
4483781 ATTTTATTATCAATAA
1 ATTTTATT-T-AATAA
4483797 ATTTT-TTTAATAA
1 ATTTTATTTAATAA
4483810 AT
1 AT
4483812 AAATTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 2 0.05
13 21 0.57
14 4 0.11
15 2 0.05
16 8 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTTATTTAATAA
Found at i:4483812 original size:17 final size:17
Alignment explanation
Indices: 4483778--4483827 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 17
4483768 ATTTTAAATT
* *
4483778 TAAATTTTATT-ATCAA
1 TAAATTTTTTTAATAAA
4483794 TAAATTTTTTTAATAAA
1 TAAATTTTTTTAATAAA
4483811 TAAA-TTTTTTAATAAA
1 TAAATTTTTTTAATAAA
4483827 T
1 T
4483828 GATTTGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 23 0.74
17 8 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TAAATTTTTTTAATAAA
Found at i:4483923 original size:13 final size:13
Alignment explanation
Indices: 4483905--4483933 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4483895 TACTCATCCT
4483905 AAATTTAAAAACA
1 AAATTTAAAAACA
4483918 AAATTTAAAAACA
1 AAATTTAAAAACA
4483931 AAA
1 AAA
4483934 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATTTAAAAACA
Found at i:4483934 original size:14 final size:14
Alignment explanation
Indices: 4483905--4483949 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
4483895 TACTCATCCT
4483905 AAATTTAAAAAC-A
1 AAATTTAAAAACAA
4483918 AAATTTAAAAACAA
1 AAATTTAAAAACAA
** *
4483932 AAAAATAAAAATAA
1 AAATTTAAAAACAA
4483946 AAAT
1 AAAT
4483950 CAATCAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATTTAAAAACAA
Found at i:4484749 original size:24 final size:23
Alignment explanation
Indices: 4484722--4484767 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4484712 AAATTTTAAA
*
4484722 AAATAATTAAATTTTAAATTTATC
1 AAAT-ATTAAATTTTAAAATTATC
**
4484746 AAATATTATTTTTTAAAATTAT
1 AAATATTAAATTTTAAAATTAT
4484768 TATATGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATATTAAATTTTAAAATTATC
Found at i:4489876 original size:33 final size:33
Alignment explanation
Indices: 4489839--4489933 Score: 95
Period size: 36 Copynumber: 2.8 Consensus size: 33
4489829 ATATTATATT
*
4489839 ATAAATATTATATTAATATATTAATATTAATAA
1 ATAAATATTATAATAATATATTAATATTAATAA
* * *
4489872 ATAAATCATATTATACTAATAAATCATATATTAATAA
1 AT-AA--ATATTATAATAATATATTA-ATATTAATAA
4489909 AT-AATATTATAAT-ATATTATTAATA
1 ATAAATATTATAATAATA-TATTAATA
4489934 AATATTATAC
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
32 6 0.12
33 14 0.27
34 2 0.04
35 1 0.02
36 16 0.31
37 12 0.24
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (33 bp):
ATAAATATTATAATAATATATTAATATTAATAA
Found at i:4489906 original size:15 final size:15
Alignment explanation
Indices: 4489829--4489957 Score: 72
Period size: 18 Copynumber: 8.1 Consensus size: 15
4489819 CTTATGAATA
*
4489829 ATATTATATTATAAAT
1 ATATTAT-TAATAAAT
*
4489845 AT-TATATTAATATATT
1 ATAT-TATTAATA-AAT
*
4489861 AATATTAATAAATAAAT
1 -ATATT-ATTAATAAAT
4489878 CATATTATACTAATAAAT
1 -ATATTAT--TAATAAAT
4489896 CATA-TATTAATAAAT
1 -ATATTATTAATAAAT
4489911 A-A-TATT-AT-AAT
1 ATATTATTAATAAAT
4489922 ATATTATTAATAAAT
1 ATATTATTAATAAAT
4489937 ATTATACTATTAATATAAT
1 A-TAT--TATTAATA-AAT
4489956 AT
1 AT
4489958 TAAGAAGTAA
Statistics
Matches: 92, Mismatches: 6, Indels: 28
0.73 0.05 0.22
Matches are distributed among these distances:
11 4 0.04
12 3 0.03
13 9 0.10
14 3 0.03
15 17 0.18
16 12 0.13
17 13 0.14
18 27 0.29
19 4 0.04
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATTATTAATAAAT
Found at i:4489993 original size:55 final size:56
Alignment explanation
Indices: 4489871--4489993 Score: 162
Period size: 55 Copynumber: 2.2 Consensus size: 56
4489861 AATATTAATA
* *
4489871 AATAAATCATATTATACTAATAAATCATATATTAATAAATAATATTATAATATATT
1 AATAAATAATATTATACTAATAAATCATATATTAAGAAATAATATTATAATATATT
* * *
4489927 -ATTAATAAATATTATACT-ATTAAT-ATAATATTAAGAAGTAATATTATAATATATT
1 AATAAAT-AATATTATACTAATAAATCAT-ATATTAAGAAATAATATTATAATATATT
4489982 AATAAATAATAT
1 AATAAATAATAT
4489994 AAAAATAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
54 2 0.03
55 41 0.71
56 15 0.26
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (56 bp):
AATAAATAATATTATACTAATAAATCATATATTAAGAAATAATATTATAATATATT
Found at i:4490000 original size:23 final size:23
Alignment explanation
Indices: 4489954--4490004 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
4489944 TATTAATATA
* * *
4489954 ATATTAAGAAGTAATATTATAAT
1 ATATTAAGAAATAATATAAAAAT
*
4489977 ATATTAATAAATAATATAAAAAT
1 ATATTAAGAAATAATATAAAAAT
4490000 A-ATTA
1 ATATTA
4490005 GTTTATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
ATATTAAGAAATAATATAAAAAT
Found at i:4490002 original size:26 final size:25
Alignment explanation
Indices: 4489892--4490000 Score: 78
Period size: 29 Copynumber: 4.2 Consensus size: 25
4489882 TTATACTAAT
*
4489892 AAATCATATATTAATAAATAATATTA
1 AAAT-ATATATTAATAAATAATATAA
* *
4489918 TAATATATTATTAATAAATATTATACTAT
1 AAATATA-TATTAATAAATA--ATA-TAA
* * * *
4489947 TAATATAATATTAAGAAGTAATAT-T
1 AAATAT-ATATTAATAAATAATATAA
*
4489972 ATA-ATATATTAATAAATAATATAA
1 AAATATATATTAATAAATAATATAA
4489996 AAATA
1 AAATA
4490001 ATTAGTTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 15
0.71 0.12 0.16
Matches are distributed among these distances:
23 15 0.23
24 4 0.06
25 6 0.09
26 16 0.25
27 3 0.05
28 3 0.05
29 17 0.26
30 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
AAATATATATTAATAAATAATATAA
Found at i:4490039 original size:18 final size:17
Alignment explanation
Indices: 4490016--4490153 Score: 89
Period size: 15 Copynumber: 8.5 Consensus size: 17
4490006 TTTATTTTTA
4490016 AATATTTTATATTAACAT
1 AATATTTTATATTAA-AT
4490034 AATATTTTATATTAAAT
1 AATATTTTATATTAAAT
* * *
4490051 ATTATTATTAAAATAAAAT
1 AATATT-TT-ATATTAAAT
4490070 AAT-TTTTATATT-AAT
1 AATATTTTATATTAAAT
* *
4490085 AAT-TTTAATAATAAAT
1 AATATTTTATATTAAAT
*
4490101 AAT-TTTTAATATT--TT
1 AATATTTT-ATATTAAAT
*
4490116 AATA-ATTATATT-AAT
1 AATATTTTATATTAAAT
* *
4490131 ATTATTTT-TA-AAAAT
1 AATATTTTATATTAAAT
4490146 AATATTTT
1 AATATTTT
4490154 TCAAAAAATA
Statistics
Matches: 95, Mismatches: 17, Indels: 19
0.73 0.13 0.15
Matches are distributed among these distances:
14 5 0.05
15 35 0.37
16 14 0.15
17 13 0.14
18 19 0.20
19 9 0.09
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATTTTATATTAAAT
Found at i:4490050 original size:32 final size:31
Alignment explanation
Indices: 4490013--4490138 Score: 82
Period size: 32 Copynumber: 3.9 Consensus size: 31
4490003 TAGTTTATTT
4490013 TTAAATATTTTATATTAACATAATATTTTATA
1 TTAAATATTTTATATTAA-ATAATATTTTATA
*
4490045 TTAAATATTATTAT-TAAAATAAAATAATTTTTATA
1 TTAAATATT-TTATATTAAAT--AAT-A-TTTTATA
*
4490080 TT-AATAATTTTAATAATAAATAAT-TTTTAATA
1 TTAAAT-ATTTT-ATATTAAATAATATTTT-ATA
* * *
4490112 TTTTAATA-ATTATATT-AATATTATTTT
1 -TTAAATATTTTATATTAAATAATATTTT
4490139 TAAAAATAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 25
0.71 0.06 0.23
Matches are distributed among these distances:
30 5 0.07
31 14 0.18
32 17 0.22
33 10 0.13
34 12 0.16
35 14 0.18
36 4 0.05
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (31 bp):
TTAAATATTTTATATTAAATAATATTTTATA
Found at i:4490104 original size:31 final size:31
Alignment explanation
Indices: 4490019--4490131 Score: 95
Period size: 34 Copynumber: 3.4 Consensus size: 31
4490009 ATTTTTAAAT
*
4490019 ATTTT-ATATTAACATAATATTTTATATTAAATA
1 ATTTTAATAATAA-ATAAT-TTTTATATT-AATA
4490052 TTATTATTAA-AATAAAATAATTTTTATATTAATA
1 --ATT-TTAATAAT-AAATAATTTTTATATTAATA
4490086 ATTTTAATAATAAATAATTTTTAATATTTTAATA
1 ATTTTAATAATAAATAATTTTT-ATA--TTAATA
* *
4490120 ATTATATTAATA
1 ATTTTAATAATA
4490132 TTATTTTTAA
Statistics
Matches: 68, Mismatches: 3, Indels: 15
0.79 0.03 0.17
Matches are distributed among these distances:
31 15 0.22
32 9 0.13
34 20 0.29
35 12 0.18
36 9 0.13
37 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
ATTTTAATAATAAATAATTTTTATATTAATA
Found at i:4490151 original size:15 final size:16
Alignment explanation
Indices: 4490128--4490160 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4490118 TAATTATATT
*
4490128 AATATTATTTTT-AAA
1 AATAATATTTTTCAAA
4490143 AATAATATTTTTCAAA
1 AATAATATTTTTCAAA
4490159 AA
1 AA
4490161 ATAAACAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATAATATTTTTCAAA
Found at i:4494692 original size:13 final size:14
Alignment explanation
Indices: 4494674--4494704 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
4494664 GTCCCCATCG
4494674 AAAAAAAAAAG-GA
1 AAAAAAAAAAGAGA
4494687 AAAAAAAAAAGAGA
1 AAAAAAAAAAGAGA
4494701 AAAA
1 AAAA
4494705 CCTATACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAGA
Found at i:4495970 original size:13 final size:12
Alignment explanation
Indices: 4495952--4496000 Score: 62
Period size: 13 Copynumber: 3.9 Consensus size: 12
4495942 ATATTAAAAT
4495952 TTATATATTTATA
1 TTATA-ATTTATA
*
4495965 TTATATTTTATA
1 TTATAATTTATA
*
4495977 TAATAATTATATA
1 TTATAATT-TATA
4495990 TTATAATTTAT
1 TTATAATTTAT
4496001 GTTGATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
12 15 0.48
13 16 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATAATTTATA
Found at i:4496009 original size:31 final size:31
Alignment explanation
Indices: 4495952--4496010 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
4495942 ATATTAAAAT
*
4495952 TTATATATTTATATTATATTTTATATAATAA
1 TTATATATTTATATTATATTTGATATAATAA
4495983 TTATATA-TTATAATT-TATGTTGATATAA
1 TTATATATTTAT-ATTATAT-TTGATATAA
4496011 AAATATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (31 bp):
TTATATATTTATATTATATTTGATATAATAA
Found at i:4496042 original size:11 final size:11
Alignment explanation
Indices: 4496022--4496071 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
4496012 AATATAAAAT
*
4496022 ATTTTTTTAAA
1 ATTTTATTAAA
4496033 ATTTTATTAAA
1 ATTTTATTAAA
*
4496044 ATTATA-TATAA
1 ATTTTATTA-AA
*
4496055 TTTTTATTAAA
1 ATTTTATTAAA
4496066 ATTTTA
1 ATTTTA
4496072 AATTGATCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 2 0.06
11 28 0.88
12 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTTATTAAA
Found at i:4496044 original size:32 final size:32
Alignment explanation
Indices: 4496008--4496071 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
4495998 TATGTTGATA
*
4496008 TAAAA-ATATAAAATATTTTTTTAAAATTTTAT
1 TAAAATATATAAAAT-TTTTATTAAAATTTTAT
*
4496040 TAAAATTATATATAATTTTTATTAAAATTTTA
1 TAAAA-TATATAAAATTTTTATTAAAATTTTA
4496072 AATTGATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 5 0.18
33 15 0.54
34 8 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TAAAATATATAAAATTTTTATTAAAATTTTAT
Found at i:4496642 original size:19 final size:18
Alignment explanation
Indices: 4496605--4496653 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
4496595 TATATTATTT
*
4496605 TTAAAAAAT-ATTTTATA
1 TTAAAAATTAATTTTATA
*
4496622 TTAAAATATTAATTTTTTA
1 TTAAAA-ATTAATTTTATA
*
4496641 TTACAAATTAATT
1 TTAAAAATTAATT
4496654 ATGAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 6 0.22
18 9 0.33
19 12 0.44
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAAAATTAATTTTATA
Found at i:4498762 original size:9 final size:9
Alignment explanation
Indices: 4498748--4498786 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
4498738 TATAAAATTC
*
4498748 ATCTTCTGA
1 ATCTTCTGT
4498757 ATCTTCTGT
1 ATCTTCTGT
*
4498766 GTCTTCTGT
1 ATCTTCTGT
4498775 ATCTTCTGT
1 ATCTTCTGT
4498784 ATC
1 ATC
4498787 ACCATTCTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.51
Consensus pattern (9 bp):
ATCTTCTGT
Found at i:4505034 original size:13 final size:12
Alignment explanation
Indices: 4504983--4505034 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
4504973 TTTTTTTTAT
*
4504983 TTTAATATAAAA
1 TTTAATATTAAA
*
4504995 TCTAAT-TTAAA
1 TTTAATATTAAA
*
4505006 TTTAATATGTATA
1 TTTAATAT-TAAA
4505019 TTTAATATTCAAA
1 TTTAATATT-AAA
4505032 TTT
1 TTT
4505035 TTATCTAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
11 9 0.28
12 7 0.22
13 16 0.50
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:4505838 original size:21 final size:21
Alignment explanation
Indices: 4505796--4505838 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4505786 TCAGTAATTT
** *
4505796 GGTTATTTTTTTCTTTTTATC
1 GGTTATTTTTTTAATTTCATC
*
4505817 GGTTTTTTTTTTAATTTCATC
1 GGTTATTTTTTTAATTTCATC
4505838 G
1 G
4505839 AAAATTGAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.67
Consensus pattern (21 bp):
GGTTATTTTTTTAATTTCATC
Found at i:4507227 original size:90 final size:90
Alignment explanation
Indices: 4507074--4507253 Score: 256
Period size: 90 Copynumber: 2.0 Consensus size: 90
4507064 AAAAGATAAC
* *
4507074 AACCATTGCTACTAAAAGATATCTGTCTTTGAGGTAAGATTTGCTAAAGACGTACATAAATCCTT
1 AACCATTGCTACTAAAAGATATATGCCTTTGAGGTAAGATTTGCTAAAGACGTACATAAATCCTT
4507139 GTATGT-ATTTGAC-TGAGTATTTGGA
66 GTAT-TCATTTGACTTG-GTATTTGGA
* * * ***
4507164 AACCATTGCTACTAAAAGATATATGCCTTTTAGGTAAGATTTGCTGAAGACTTTTGTAAATCCTT
1 AACCATTGCTACTAAAAGATATATGCCTTTGAGGTAAGATTTGCTAAAGACGTACATAAATCCTT
4507229 GTATTCATTTGACTTGGTATTTGGA
66 GTATTCATTTGACTTGGTATTTGGA
4507254 TTTATATATT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
89 1 0.01
90 77 0.96
91 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (90 bp):
AACCATTGCTACTAAAAGATATATGCCTTTGAGGTAAGATTTGCTAAAGACGTACATAAATCCTT
GTATTCATTTGACTTGGTATTTGGA
Found at i:4510395 original size:21 final size:20
Alignment explanation
Indices: 4510353--4510396 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
4510343 ATAGGTTTAA
* **
4510353 TAAGTTTATTTAATTTCGTT
1 TAAGTTTAATTAATTTAATT
4510373 TAAGTTTCAATTAATTTAATT
1 TAAGTTT-AATTAATTTAATT
4510394 TAA
1 TAA
4510397 TTTGTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (20 bp):
TAAGTTTAATTAATTTAATT
Found at i:4510404 original size:14 final size:14
Alignment explanation
Indices: 4510356--4510407 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
4510346 GGTTTAATAA
4510356 GTTT-ATTTAATTT
1 GTTTAATTTAATTT
*
4510369 CGTTTAAGTTTCAATTA
1 -GTTTAA-TTT-AATTT
*
4510386 ATTTAATTTAATTT
1 GTTTAATTTAATTT
4510400 GTTTAATT
1 GTTTAATT
4510408 CATTTTTGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 15 0.48
15 4 0.13
16 8 0.26
17 4 0.13
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.60
Consensus pattern (14 bp):
GTTTAATTTAATTT
Found at i:4524457 original size:32 final size:34
Alignment explanation
Indices: 4524412--4524474 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
4524402 ATGTAGTATA
*
4524412 AAAATATTAAAATTTGAA-TTAA-TTAATAAATT
1 AAAATATTAAAATTTAAATTTAATTTAATAAATT
4524444 AAAATACTT-AAATTTAAATTTAATTTAATAA
1 AAAATA-TTAAAATTTAAATTTAATTTAATAA
4524475 TAATCTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 14 0.52
33 6 0.22
34 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (34 bp):
AAAATATTAAAATTTAAATTTAATTTAATAAATT
Found at i:4525378 original size:14 final size:14
Alignment explanation
Indices: 4525359--4525400 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
4525349 CGTGAAGATT
4525359 TTTAATAAAAATAA
1 TTTAATAAAAATAA
*
4525373 TTTAATTAAAAT--
1 TTTAATAAAAATAA
4525385 TTTAATAAAAA-AA
1 TTTAATAAAAATAA
4525398 TTT
1 TTT
4525401 TAAATTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 10 0.42
13 3 0.12
14 11 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTAATAAAAATAA
Found at i:4525402 original size:26 final size:29
Alignment explanation
Indices: 4525358--4525427 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
4525348 TCGTGAAGAT
4525358 TTTTAATAAAAATAA-TTT-AATT-A-AAA
1 TTTTAATAAAAA-AATTTTAAATTGATAAA
4525384 TTTTAATAAAAAAATTTTAAATTGATAAA
1 TTTTAATAAAAAAATTTTAAATTGATAAA
* *
4525413 ATTTAATGAAAAAAT
1 TTTTAATAAAAAAAT
4525428 AATGATAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
25 2 0.05
26 15 0.39
27 4 0.11
28 1 0.03
29 16 0.42
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (29 bp):
TTTTAATAAAAAAATTTTAAATTGATAAA
Found at i:4525512 original size:12 final size:13
Alignment explanation
Indices: 4525495--4525523 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4525485 ATTTAATAAT
4525495 AAAAATTTTA-TA
1 AAAAATTTTACTA
4525507 AAAAATTTTACTA
1 AAAAATTTTACTA
4525520 AAAA
1 AAAA
4525524 TGATTGTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAAATTTTACTA
Found at i:4535835 original size:40 final size:40
Alignment explanation
Indices: 4535790--4535872 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
4535780 AGTTGATAAT
* *
4535790 AATTAAAGCTTTCATGATCACACTTAAAAATCAATGCAGC
1 AATTAAAGCTTTCATCATCACACTGAAAAATCAATGCAGC
*
4535830 AATTAAAGCTTTCATCATCACACTGAAAAATCAATGCATC
1 AATTAAAGCTTTCATCATCACACTGAAAAATCAATGCAGC
4535870 AAT
1 AAT
4535873 CATTATTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.28
Consensus pattern (40 bp):
AATTAAAGCTTTCATCATCACACTGAAAAATCAATGCAGC
Found at i:4541125 original size:2 final size:2
Alignment explanation
Indices: 4541118--4541147 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4541108 ATGCATATGA
4541118 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4541148 ATTTTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4545806 original size:28 final size:29
Alignment explanation
Indices: 4545754--4545831 Score: 97
Period size: 28 Copynumber: 2.7 Consensus size: 29
4545744 AATGTTATAA
4545754 ATAAT-TTGTAAATTATAATAAAATATTTAAT
1 ATAATATT-TAAATTAT-A-AAAATATTTAAT
* *
4545785 GTAATA-TTAAATTTTAAAAATATTTAAT
1 ATAATATTTAAATTATAAAAATATTTAAT
4545813 ATAATATTTAAATTATAAA
1 ATAATATTTAAATTATAAA
4545832 TTTATTAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 17 0.41
29 12 0.29
30 7 0.17
31 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (29 bp):
ATAATATTTAAATTATAAAAATATTTAAT
Found at i:4545968 original size:32 final size:29
Alignment explanation
Indices: 4545883--4545978 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 29
4545873 TAATAATTAG
4545883 TTAAATATTATATT--AATTAATTATAA-T
1 TTAAATATTATATTAAAATT-ATTATAATT
*
4545910 TTAAATATTAAATTAAAATT-TT-TAATT
1 TTAAATATTATATTAAAATTATTATAATT
4545937 TTAAATATTATATTAAATATTTTATTATAATT
1 TTAAATATTATATTAAA-A--TTATTATAATT
*
4545969 CTAAA-ATTAT
1 TTAAATATTAT
4545979 TCATAATATG
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
26 3 0.05
27 32 0.55
28 1 0.02
29 4 0.07
30 2 0.03
31 7 0.12
32 9 0.16
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (29 bp):
TTAAATATTATATTAAAATTATTATAATT
Found at i:4546938 original size:24 final size:23
Alignment explanation
Indices: 4546911--4546956 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
4546901 AATATGAACA
4546911 TTAAAAATATTAATAATAATTTTT
1 TTAAAAATATTAATAA-AATTTTT
* * *
4546935 TTAAATATTTTTATAAAATTTT
1 TTAAAAATATTAATAAAATTTT
4546957 AAATTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAAAAATATTAATAAAATTTTT
Found at i:4547786 original size:17 final size:17
Alignment explanation
Indices: 4547764--4547796 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4547754 TAAATGACTT
4547764 TATTTTTGTTAT-TAAAC
1 TATTTTT-TTATATAAAC
4547781 TATTTTTTTATATAAA
1 TATTTTTTTATATAAA
4547797 TACAATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTTTTTTATATAAAC
Found at i:4551106 original size:42 final size:43
Alignment explanation
Indices: 4551027--4551118 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
4551017 TGGATAATTA
* *
4551027 ATAACTTAATAATTAATCATTGAAAACTTATATTTAATAAGT-
1 ATAACTTAATAATTAATCATCGAAAACTTATAATTAATAAGTG
* * *
4551069 ATAACTTAATAA-TAATCATCGATAATTTACTAATTAATAATTG
1 ATAACTTAATAATTAATCATCGAAAACTTA-TAATTAATAAGTG
4551112 ATAACTT
1 ATAACTT
4551119 TTATAAATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 14 0.33
42 22 0.51
43 7 0.16
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (43 bp):
ATAACTTAATAATTAATCATCGAAAACTTATAATTAATAAGTG
Found at i:4551148 original size:22 final size:22
Alignment explanation
Indices: 4551121--4551325 Score: 86
Period size: 22 Copynumber: 9.5 Consensus size: 22
4551111 GATAACTTTT
4551121 ATAAATCAATAATAATATAATA
1 ATAAATCAATAATAATATAATA
** * *
4551143 ATAAATGTATAATACTTTAATA
1 ATAAATCAATAATAATATAATA
* * *
4551165 GT-AATCAATTATAATATAATT
1 ATAAATCAATAATAATATAATA
* * *
4551186 GTAAATGC-ATAACAATATAGTA
1 ATAAAT-CAATAATAATATAATA
*
4551208 CTAAAT-AA-AA-AA-ATAACTTA
1 ATAAATCAATAATAATATAA--TA
* * *
4551228 AAAAAT-AAGTGATAATTTAATA
1 ATAAATCAA-TAATAATATAATA
* * * * *
4551250 GTTAATTATTAATAACT-TAGTA
1 ATAAATCAATAATAA-TATAATA
*
4551272 ATAAGTCAATAATAACT-TAATA
1 ATAAATCAATAATAA-TATAATA
*
4551294 ATAAATTAATAATAATATAATA
1 ATAAATCAATAATAATATAATA
**
4551316 GCAAATCAAT
1 ATAAATCAAT
4551326 TTTGGTTTAA
Statistics
Matches: 133, Mismatches: 38, Indels: 24
0.68 0.19 0.12
Matches are distributed among these distances:
18 3 0.02
19 2 0.02
20 10 0.08
21 17 0.13
22 93 0.70
23 5 0.04
24 3 0.02
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (22 bp):
ATAAATCAATAATAATATAATA
Found at i:4551275 original size:11 final size:11
Alignment explanation
Indices: 4551259--4551308 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
4551249 AGTTAATTAT
*
4551259 TAATAACTTAG
1 TAATAACTTAA
* *
4551270 TAATAAGTCAA
1 TAATAACTTAA
4551281 TAATAACTTAA
1 TAATAACTTAA
*
4551292 TAATAAATTAA
1 TAATAACTTAA
4551303 TAATAA
1 TAATAA
4551309 TATAATAGCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (11 bp):
TAATAACTTAA
Found at i:4551396 original size:11 final size:11
Alignment explanation
Indices: 4551380--4551421 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
4551370 CTTAGAAGTA
4551380 AATTAATTAAT
1 AATTAATTAAT
4551391 AATTAA-TAATT
1 AATTAATTAA-T
* *
4551402 AATTATTTAGT
1 AATTAATTAAT
4551413 AATTAATTA
1 AATTAATTA
4551422 TTTAAAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 3 0.12
11 21 0.81
12 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (11 bp):
AATTAATTAAT
Found at i:4551417 original size:15 final size:15
Alignment explanation
Indices: 4551383--4551426 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
4551373 AGAAGTAAAT
*
4551383 TAATTAA-TAATTAA
1 TAATTAATTATTTAA
*
4551397 TAATTAATTATTTAG
1 TAATTAATTATTTAA
4551412 TAATTAATTATTTAA
1 TAATTAATTATTTAA
4551427 AACTTAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TAATTAATTATTTAA
Found at i:4551507 original size:22 final size:22
Alignment explanation
Indices: 4551427--4551522 Score: 70
Period size: 22 Copynumber: 4.4 Consensus size: 22
4551417 AATTATTTAA
* * *
4551427 AACTTAAAAGTAAATCAAT-AT
1 AACTTAATAGTAAATTACTGAT
* *
4551448 AACTTAATAGTAAATCACTTAT
1 AACTTAATAGTAAATTACTGAT
* * * **
4551470 AACATAAGAGTTAATTGGTGAT
1 AACTTAATAGTAAATTACTGAT
4551492 AACTTAATAGTAAATTA-TGCAT
1 AACTTAATAGTAAATTACTG-AT
*
4551514 AATTTAATA
1 AACTTAATA
4551523 TAATCAATAA
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
21 19 0.32
22 40 0.68
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.34
Consensus pattern (22 bp):
AACTTAATAGTAAATTACTGAT
Found at i:4552071 original size:22 final size:22
Alignment explanation
Indices: 4552046--4552223 Score: 103
Period size: 22 Copynumber: 8.0 Consensus size: 22
4552036 GGTTAATAGT
4552046 TGATAACTTAATAGTAAATTAA
1 TGATAACTTAATAGTAAATTAA
* * *
4552068 TGATAGCTTAATAATAAATTAG
1 TGATAACTTAATAGTAAATTAA
* *
4552090 TGATAATTTAAAAGTAAATTAAA
1 TGATAACTTAATAGTAAATT-AA
* **
4552113 T-TTAGTTTAATAGT-AATTAA
1 TGATAACTTAATAGTAAATTAA
* * *
4552133 TTGATAAATTTAGTAGTAAATAAA
1 -TGAT-AACTTAATAGTAAATTAA
** * *
4552157 AAATAACTTGATGGTAAATTAA
1 TGATAACTTAATAGTAAATTAA
* * * *
4552179 TGATAATTTAGTAGTTAATCGTTA
1 TGATAACTTAATAGTAAAT--TAA
*
4552203 T-A-AACTTAAAAGTAAATTAA
1 TGATAACTTAATAGTAAATTAA
4552223 T
1 T
4552224 AGCAATAGTT
Statistics
Matches: 114, Mismatches: 35, Indels: 16
0.69 0.21 0.10
Matches are distributed among these distances:
20 5 0.04
21 5 0.04
22 82 0.72
23 14 0.12
24 8 0.07
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATTAA
Found at i:4552138 original size:44 final size:44
Alignment explanation
Indices: 4552045--4552153 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 44
4552035 TGGTTAATAG
*
4552045 TTGATAACTTAATAGTAAATTAATGATAGCTTAATAATAAATTA
1 TTGATAATTTAATAGTAAATTAATGATAGCTTAATAATAAATTA
* * * * *
4552089 GTGATAATTTAAAAGTAAATTAAAT-TTAGTTTAATAGT-AATTAA
1 TTGATAATTTAATAGTAAATT-AATGATAGCTTAATAATAAATT-A
*
4552133 TTGATAAATTTAGTAGTAAAT
1 TTGAT-AATTTAATAGTAAAT
4552154 AAAAAATAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
43 4 0.08
44 33 0.62
45 16 0.30
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (44 bp):
TTGATAATTTAATAGTAAATTAATGATAGCTTAATAATAAATTA
Found at i:4552255 original size:22 final size:22
Alignment explanation
Indices: 4552227--4552296 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
4552217 AATTAATAGC
4552227 AATAGTTAATCATAAATAATTT
1 AATAGTTAATCATAAATAATTT
* *
4552249 AATAGTTAATCA-ATGATGATTT
1 AATAGTTAATCATA-AATAATTT
* *
4552271 AATA-ATATATCATGAATAATTT
1 AATAGTTA-ATCATAAATAATTT
4552293 AATA
1 AATA
4552297 TAAATCACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.08
22 36 0.92
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (22 bp):
AATAGTTAATCATAAATAATTT
Found at i:4552309 original size:21 final size:20
Alignment explanation
Indices: 4552234--4552484 Score: 65
Period size: 22 Copynumber: 11.6 Consensus size: 20
4552224 AGCAATAGTT
*
4552234 AATCATAAATAATTTAATAGTT
1 AATCAT-AATAATTTAATA-TA
* *
4552256 AATCAATGATGATTTAATAATA
1 AATC-ATAATAATTTAAT-ATA
*
4552278 TATCATGAATAATTTAATATA
1 AATCAT-AATAATTTAATATA
** * *
4552299 AATCACTAATAACATGATAATG
1 AATCA-TAATAATTTAAT-ATA
* **
4552321 AATTATGGTTAATTTAATAATA
1 AATCAT-AATAATTTAAT-ATA
* **
4552343 AATC-TACGATGATTTTGTAGTA
1 AATCATA--ATAATTTAATA-TA
* * *
4552365 AATAATTAAAAATTTAGTAGTA
1 AATCA-TAATAATTTAATA-TA
**
4552387 AATCA-ATATAACGTAATAGTA
1 AATCATA-ATAATTTAATA-TA
**
4552408 AATGCATAATAACATAATAGTA
1 AAT-CATAATAATTTAATA-TA
*
4552430 AATCATTGATAATTTAGATATA
1 AATCA-TAATAATTTA-ATATA
* * *
4552452 AATTATTGATAATTTAGTATA
1 AATCA-TAATAATTTAATATA
4552473 AATCACTAATAA
1 AATCA-TAATAA
4552485 CTTAGTTATA
Statistics
Matches: 171, Mismatches: 42, Indels: 33
0.70 0.17 0.13
Matches are distributed among these distances:
20 1 0.01
21 48 0.28
22 113 0.66
23 7 0.04
24 2 0.01
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (20 bp):
AATCATAATAATTTAATATA
Found at i:4552425 original size:22 final size:21
Alignment explanation
Indices: 4552382--4552434 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
4552372 AAAAATTTAG
*
4552382 TAGTAAATCAATATAACGTAA
1 TAGTAAATCAATATAACATAA
4552403 TAGTAAATGC-ATAATAACATAA
1 TAGTAAAT-CAAT-ATAACATAA
4552425 TAGTAAATCA
1 TAGTAAATCA
4552435 TTGATAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (21 bp):
TAGTAAATCAATATAACATAA
Found at i:4552441 original size:22 final size:22
Alignment explanation
Indices: 4552382--4552463 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 22
4552372 AAAAATTTAG
* *
4552382 TAGTAAATCAAT-ATAACGTAA
1 TAGTAAATCATTGATAACATAA
*
4552403 TAGTAAATGCA-TAATAACATAA
1 TAGTAAAT-CATTGATAACATAA
**
4552425 TAGTAAATCATTGATAATTTAGA
1 TAGTAAATCATTGATAACATA-A
*
4552448 TA-TAAATTATTGATAA
1 TAGTAAATCATTGATAA
4552464 TTTAGTATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
21 11 0.21
22 38 0.73
23 3 0.06
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (22 bp):
TAGTAAATCATTGATAACATAA
Found at i:4552464 original size:22 final size:21
Alignment explanation
Indices: 4552428--4552520 Score: 87
Period size: 22 Copynumber: 4.2 Consensus size: 21
4552418 AACATAATAG
4552428 TAAATCATTGATAATTTAGATA
1 TAAATCATTGATAATTTAG-TA
*
4552450 TAAATTATTGATAATTTAGTA
1 TAAATCATTGATAATTTAGTA
* * *
4552471 TAAATCACTAATAACTTAGTTA
1 TAAATCATTGATAATTTAG-TA
* * *
4552493 TATATCAGTGATAAATTTAATA
1 TAAATCATTGAT-AATTTAGTA
4552515 CTAAAT
1 -TAAAT
4552521 TTGTTAATCA
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
21 17 0.30
22 31 0.54
23 9 0.16
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (21 bp):
TAAATCATTGATAATTTAGTA
Found at i:4552554 original size:22 final size:22
Alignment explanation
Indices: 4552526--4552594 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
4552516 TAAATTTGTT
*
4552526 AATCATTGACAACTTTATAATA
1 AATCATTGATAACTTTATAATA
* * *
4552548 AATCATTGATAAATTAATAGTA
1 AATCATTGATAACTTTATAATA
*
4552570 AACCAATT-ATAACTTTATAATA
1 AATC-ATTGATAACTTTATAATA
4552592 AAT
1 AAT
4552595 AATCAGTAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 34 0.92
23 3 0.08
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.36
Consensus pattern (22 bp):
AATCATTGATAACTTTATAATA
Found at i:4552659 original size:22 final size:22
Alignment explanation
Indices: 4552634--4552794 Score: 103
Period size: 22 Copynumber: 7.3 Consensus size: 22
4552624 AATTTAGTTA
* *
4552634 TAAATTAGTCATAACTTAATAG
1 TAAATTAATGATAACTTAATAG
* * *
4552656 TAAATTATTCATAAATTAATAG
1 TAAATTAATGATAACTTAATAG
* * *
4552678 TAAATAAAT-ATTAATTTAGTAG
1 TAAATTAATGA-TAACTTAATAG
* * * *
4552700 TAAA-TCATTAGTAATTTAGTAG
1 TAAATTAATGA-TAACTTAATAG
*
4552722 TATA-TAATTGATAACTTAATAG
1 TAAATTAA-TGATAACTTAATAG
* * *
4552744 TAAATTACTGATAACATAATAA
1 TAAATTAATGATAACTTAATAG
* *
4552766 TAAACTAATGATAACTTAATTG
1 TAAATTAATGATAACTTAATAG
*
4552788 TCAATTA
1 TAAATTA
4552795 TTAATAAATT
Statistics
Matches: 110, Mismatches: 25, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
21 3 0.03
22 103 0.94
23 4 0.04
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (22 bp):
TAAATTAATGATAACTTAATAG
Found at i:4552681 original size:11 final size:11
Alignment explanation
Indices: 4552649--4552750 Score: 64
Period size: 11 Copynumber: 9.3 Consensus size: 11
4552639 TAGTCATAAC
4552649 TTAATAGTAAA
1 TTAATAGTAAA
*
4552660 TTATTCA-TAAA
1 TTAAT-AGTAAA
4552671 TTAATAGTAAA
1 TTAATAGTAAA
* * *
4552682 TAAATATTAAT
1 TTAATAGTAAA
*
4552693 TTAGTAGTAAA
1 TTAATAGTAAA
* * *
4552704 TCATTAGTAAT
1 TTAATAGTAAA
* *
4552715 TTAGTAGTATA
1 TTAATAGTAAA
* *
4552726 -TAATTGATAAC
1 TTAATAG-TAAA
4552737 TTAATAGTAAA
1 TTAATAGTAAA
4552748 TTA
1 TTA
4552751 CTGATAACAT
Statistics
Matches: 65, Mismatches: 22, Indels: 8
0.68 0.23 0.08
Matches are distributed among these distances:
10 5 0.08
11 54 0.83
12 6 0.09
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (11 bp):
TTAATAGTAAA
Found at i:4552682 original size:44 final size:43
Alignment explanation
Indices: 4552644--4552804 Score: 139
Period size: 44 Copynumber: 3.7 Consensus size: 43
4552634 TAAATTAGTC
4552644 ATAACTTAATAGTAAATTATTCATAAATTAATAGTAAATAAAT-
1 ATAACTTAATAGTAAATTATT-ATAAATTAATAGTAAATAAATG
* * * * * * *
4552687 ATTAATTTAGTAGTAAATCATTAGTAATTTAGTAGTATATAATTG
1 A-TAACTTAATAGTAAATTATTA-TAAATTAATAGTAAATAAATG
* *
4552732 ATAACTTAATAGTAAATTACTGATAACA-TAATAATAAACT-AATG
1 ATAACTTAATAGTAAATTA-TTATAA-ATTAATAGTAAA-TAAATG
* *
4552776 ATAACTTAATTGTCAATTATTAATAAATT
1 ATAACTTAATAGTAAATTATT-ATAAATT
4552805 TTTTATAATT
Statistics
Matches: 91, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
43 4 0.04
44 83 0.91
45 4 0.04
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (43 bp):
ATAACTTAATAGTAAATTATTATAAATTAATAGTAAATAAATG
Found at i:4552966 original size:21 final size:19
Alignment explanation
Indices: 4552937--4552988 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
4552927 AAATTTTAAA
*
4552937 TTTAAATAAAATAATAATAT
1 TTTATATAAAATAA-AATAT
*
4552957 TATTATATAAAA-AAATTAT
1 T-TTATATAAAATAAAATAT
4552976 TTTATACTAAAAT
1 TTTATA-TAAAAT
4552989 TGAATTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 5 0.19
19 10 0.37
20 3 0.11
21 9 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTATATAAAATAAAATAT
Found at i:4556017 original size:7 final size:7
Alignment explanation
Indices: 4556001--4556038 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
4555991 TTTTGTTTCA
4556001 TTTACCC
1 TTTACCC
*
4556008 TTTGCCC
1 TTTACCC
*
4556015 TTTGCCC
1 TTTACCC
4556022 TTTACCC
1 TTTACCC
4556029 TTTACCC
1 TTTACCC
4556036 TTT
1 TTT
4556039 CTTTTTCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.08, C:0.39, G:0.05, T:0.47
Consensus pattern (7 bp):
TTTACCC
Found at i:4563621 original size:22 final size:21
Alignment explanation
Indices: 4563584--4563635 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
4563574 ATATATTTTT
4563584 AATAA-ATAAATTTTTTATTA
1 AATAATATAAATTTTTTATTA
*
4563604 AATAATATAAATTATTTTTTTA
1 AATAATATAAATT-TTTTATTA
4563626 AATAAT-TAAA
1 AATAATATAAA
4563636 ATTAATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 5 0.17
21 11 0.38
22 13 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATAATATAAATTTTTTATTA
Found at i:4563637 original size:22 final size:21
Alignment explanation
Indices: 4563579--4563639 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
4563569 TATTTATATA
4563579 TTTTT-AATAA-ATAAATT-TT
1 TTTTTAAATAATA-AAATTATT
*
4563598 TTATTAAATAATATAAATTATT
1 TTTTTAAATAATA-AAATTATT
4563620 TTTTTAAATAATTAAAATTA
1 TTTTTAAATAA-TAAAATTA
4563640 ATATATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 7 0.19
22 18 0.50
23 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTTAAATAATAAAATTATT
Found at i:4563688 original size:25 final size:24
Alignment explanation
Indices: 4563636--4563681 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
4563626 AATAATTAAA
*
4563636 ATTAATATAT-TTTTTGAAAAAAT
1 ATTAATATATATTTATGAAAAAAT
4563659 ATTAATATATATTTAT-AAAAAAT
1 ATTAATATATATTTATGAAAAAAT
4563682 TATTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
ATTAATATATATTTATGAAAAAAT
Found at i:4564644 original size:25 final size:23
Alignment explanation
Indices: 4564591--4564645 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
4564581 TTTAAAATTT
* *
4564591 TTTAAAAT-AAAAAAATTTATAA
1 TTTAATATAAAAAAAATCTATAA
*
4564613 TTTAATATAAAAAAAATACTATGA
1 TTTAATATAAAAAAAAT-CTATAA
4564637 TTTGAATAT
1 TTT-AATAT
4564646 CAAATTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.26
23 8 0.30
24 7 0.26
25 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (23 bp):
TTTAATATAAAAAAAATCTATAA
Found at i:4566376 original size:14 final size:14
Alignment explanation
Indices: 4566348--4566390 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
4566338 ATTATGATTA
4566348 AAAAAATTTA-A-T
1 AAAAAATTTATATT
4566360 AAAAAATTTATATT
1 AAAAAATTTATATT
*
4566374 AAATAATTTATATT
1 AAAAAATTTATATT
4566388 AAA
1 AAA
4566391 TTTAATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 17 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAAAATTTATATT
Found at i:4568492 original size:17 final size:17
Alignment explanation
Indices: 4568466--4568500 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4568456 TTAATATTAT
4568466 AAATTCAATTGAATTTA
1 AAATTCAATTGAATTTA
* *
4568483 AAATTTAATTTAATTTA
1 AAATTCAATTGAATTTA
4568500 A
1 A
4568501 TCATATAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
AAATTCAATTGAATTTA
Found at i:4571924 original size:35 final size:35
Alignment explanation
Indices: 4571878--4571946 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
4571868 ACTCAAATCT
*
4571878 CATAACAGATTTGTTTAAGATTGGTTGGATATTCC
1 CATAACAGATTTGTTTAAGATTGGTTAGATATTCC
*
4571913 CATAAGAGATTTGTTTAAGATTGGTTAGATATTC
1 CATAACAGATTTGTTTAAGATTGGTTAGATATTC
4571947 TTTGATGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (35 bp):
CATAACAGATTTGTTTAAGATTGGTTAGATATTCC
Found at i:4573173 original size:29 final size:28
Alignment explanation
Indices: 4573121--4573184 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 28
4573111 TTAAAACATT
4573121 AATATAAAATATATTTTAATATTA-TAAC
1 AATA-AAAATATATTTTAATATTATTAAC
*
4573149 TATAAAAATATTATTTTGAATATTATTAAC
1 AATAAAAATA-TATTTT-AATATTATTAAC
4573179 AATAAA
1 AATAAA
4573185 TATTTTAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
28 9 0.29
29 7 0.23
30 9 0.29
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (28 bp):
AATAAAAATATATTTTAATATTATTAAC
Found at i:4573188 original size:28 final size:28
Alignment explanation
Indices: 4573126--4573184 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 28
4573116 ACATTAATAT
4573126 AAAATA-TATTTTAATATTATAACTATA
1 AAAATATTATTTTAATATTATAACTATA
*
4573153 AAAATATTATTTTGAATATTATTAACAATA
1 AAAATATTATTTT-AATATTA-TAACTATA
4573183 AA
1 AA
4573185 TATTTTAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 6 0.21
29 7 0.25
30 9 0.32
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (28 bp):
AAAATATTATTTTAATATTATAACTATA
Found at i:4577776 original size:38 final size:38
Alignment explanation
Indices: 4577725--4577800 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
4577715 ATTGTTCCAT
*
4577725 TTATTGCTGGCACTTATATATTTTTTATTTTGCGTAAA
1 TTATTGCTGGCACTTATATATGTTTTATTTTGCGTAAA
*
4577763 TTATTGCTGGCACTTATATATGTTTTATTTTGTGTAAA
1 TTATTGCTGGCACTTATATATGTTTTATTTTGCGTAAA
4577801 GTTAATGCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.53
Consensus pattern (38 bp):
TTATTGCTGGCACTTATATATGTTTTATTTTGCGTAAA
Found at i:4581556 original size:12 final size:12
Alignment explanation
Indices: 4581525--4581557 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4581515 ATTTCAGCTG
*
4581525 AAAAAAAA-TTA
1 AAAAAAAAGGTA
4581536 AAAAAAAAGGTA
1 AAAAAAAAGGTA
4581548 AAAAAAAAGG
1 AAAAAAAAGG
4581558 GGATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (12 bp):
AAAAAAAAGGTA
Found at i:4586861 original size:12 final size:12
Alignment explanation
Indices: 4586820--4586861 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
4586810 AAATTTAGAC
*
4586820 TAAAAA-ATATT
1 TAAAAATATAAT
4586831 TAAAAATATAAT
1 TAAAAATATAAT
*
4586843 AAAAAATATAAT
1 TAAAAATATAAT
4586855 TAAAAAT
1 TAAAAAT
4586862 CTTAAATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 6 0.22
12 21 0.78
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAAATATAAT
Found at i:4590031 original size:24 final size:24
Alignment explanation
Indices: 4589995--4590044 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
4589985 AATATATATT
*
4589995 CAGTTTT-GCTTTTAATTTTTTACA
1 CAGTTTTATCTTTTAATTTTTT-CA
* *
4590019 CAGTTTTATTTTTTAGTTTTTTCA
1 CAGTTTTATCTTTTAATTTTTTCA
4590043 CA
1 CA
4590045 TGGTCTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (24 bp):
CAGTTTTATCTTTTAATTTTTTCA
Found at i:4591634 original size:56 final size:56
Alignment explanation
Indices: 4591567--4591673 Score: 178
Period size: 56 Copynumber: 1.9 Consensus size: 56
4591557 AACCTTACAC
* * *
4591567 TTAGAATATTTGGTTGTATATCATTTGTTCTTGTTCACAGTCACAGTAGGGGGAAG
1 TTAGAATATTTGGTTGCACATCATTTGTTCTTGTTCACAATCACAGTAGGGGGAAG
*
4591623 TTAGAATATTTGGTTGCACATCATTTGTTCTTGTTCATAATCACAGTAGGG
1 TTAGAATATTTGGTTGCACATCATTTGTTCTTGTTCACAATCACAGTAGGG
4591674 AAAAGTTGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.40
Consensus pattern (56 bp):
TTAGAATATTTGGTTGCACATCATTTGTTCTTGTTCACAATCACAGTAGGGGGAAG
Found at i:4593945 original size:22 final size:22
Alignment explanation
Indices: 4593919--4593962 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4593909 TATATATTTA
*
4593919 TATTTGTATCCTTGGAATTAAG
1 TATTTGTATCCTTAGAATTAAG
4593941 TATTTGTATCCTTAGAATTAAG
1 TATTTGTATCCTTAGAATTAAG
4593963 GACAAAAAAT
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:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCTTAGAATTAAG
Found at i:4597963 original size:18 final size:18
Alignment explanation
Indices: 4597940--4597977 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4597930 AAAAAATTTA
4597940 ATTGGTCCAATGATTTTT
1 ATTGGTCCAATGATTTTT
4597958 ATTGGTCCAATGATTTTT
1 ATTGGTCCAATGATTTTT
4597976 AT
1 AT
4597978 GGCAACGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.50
Consensus pattern (18 bp):
ATTGGTCCAATGATTTTT
Found at i:4597974 original size:17 final size:17
Alignment explanation
Indices: 4597935--4597974 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
4597925 ACAAGAAAAA
*
4597935 ATTTAATTGGTCCAATG
1 ATTTTATTGGTCCAATG
4597952 ATTTTTATTGGTCCAATG
1 A-TTTTATTGGTCCAATG
4597970 ATTTT
1 ATTTT
4597975 TATGGCAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (17 bp):
ATTTTATTGGTCCAATG
Found at i:4599433 original size:21 final size:22
Alignment explanation
Indices: 4599382--4599819 Score: 121
Period size: 22 Copynumber: 19.9 Consensus size: 22
4599372 TTAATAATTA
* * * *
4599382 ATAATGTAATAATAAATCATTG
1 ATAATTTAATAGTAAATTAATG
*
4599404 ATAACTTAATAGTAAATTAAT-
1 ATAATTTAATAGTAAATTAATG
* *
4599425 ATAATTTAATAGCAAATCAAT-
1 ATAATTTAATAGTAAATTAATG
* * **
4599446 TTCATCTTGGTAGT-AATTAATTG
1 ATAAT-TTAATAGTAAATTAA-TG
*
4599469 ATAAATTTAATAGTAAACTAATG
1 AT-AATTTAATAGTAAATTAATG
* * * *
4599492 ATAATTTAGTAGTTAATCATTG
1 ATAATTTAATAGTAAATTAATG
* * * * *
4599514 AAAACTTAAAATTAAATTATTG
1 ATAATTTAATAGTAAATTAATG
*
4599536 -TAA-TTAAGTAGT-AGTTAATG
1 ATAATTTAA-TAGTAAATTAATG
*
4599556 AACATAAACTTAATAGTAAATT-ATGG
1 ---AT-AATTTAATAGTAAATTAAT-G
*
4599582 ATAATTTAATA-TAAATTAGTG
1 ATAATTTAATAGTAAATTAATG
* * * * *
4599603 ATAACTTGATAATGAA-TCATGG
1 ATAATTTAATAGTAAATTAAT-G
* * * *
4599625 TTAATTTAGTAATAAATCTGTAGTG
1 ATAATTTAATAGTAAA--T-TAATG
*
4599650 AT--TTT-ATAGTAAA-TAATC
1 ATAATTTAATAGTAAATTAATG
* *
4599668 AAAAATTAAGTAGTAAATTAATG
1 ATAATTTAA-TAGTAAATTAATG
** * ** *
4599691 ATAACATAATAATAAATGCATA
1 ATAATTTAATAGTAAATTAATG
** * * *
4599713 ATAACATAATAGTGAATCATTG
1 ATAATTTAATAGTAAATTAATG
*
4599735 ATAATTTAGAT-GTAAATTATTG
1 ATAATTTA-ATAGTAAATTAATG
* * * * *
4599757 ATAACTTAGTAGTAAATCACTA
1 ATAATTTAATAGTAAATTAATG
* * *
4599779 ATAATTTAGTTGTAAATTAGTG
1 ATAATTTAATAGTAAATTAATG
* *
4599801 ATAAGTTAATAATAAATTA
1 ATAATTTAATAGTAAATTA
4599820 GTTAATATTA
Statistics
Matches: 298, Mismatches: 90, Indels: 56
0.67 0.20 0.13
Matches are distributed among these distances:
18 4 0.01
20 12 0.04
21 50 0.17
22 176 0.59
23 28 0.09
24 8 0.03
25 10 0.03
26 10 0.03
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (22 bp):
ATAATTTAATAGTAAATTAATG
Found at i:4599796 original size:44 final size:44
Alignment explanation
Indices: 4599713--4600042 Score: 190
Period size: 44 Copynumber: 7.4 Consensus size: 44
4599703 TAAATGCATA
* * * *
4599713 ATAACATAATAGTGAATCATTGATAATTTAG-ATGTAAATTATTG
1 ATAACTTAGTAGTAAATCATTAATAATTTAGTA-GTAAATTATTG
* * *
4599757 ATAACTTAGTAGTAAATCACTAATAATTTAGTTGTAAATTAGTG
1 ATAACTTAGTAGTAAATCATTAATAATTTAGTAGTAAATTATTG
* * * * * *
4599801 ATAAGTTAATAATAAATTAGTTAATATTAGAAAATTTTGTAGTAAATTATCG
1 ATAACTTAGTAGTAAATCA-TT-A-A-T----AATTTAGTAGTAAATTATTG
* *
4599853 ATAAATTAATAGTAAATCAGTT-ATAACTTTA-TAG-AAATTATT-
1 ATAACTTAGTAGTAAATCA-TTAATAA-TTTAGTAGTAAATTATTG
* ** *
4599895 AGTAACTTAGTAGTAAATCATTAATAATTTAATAACAAATTATTC
1 A-TAACTTAGTAGTAAATCATTAATAATTTAGTAGTAAATTATTG
* * * * * * *
4599940 ATAAC-T--TAGTAAATTATTCACAAATTAGTAGTAAGTCAATG
1 ATAACTTAGTAGTAAATCATTAATAATTTAGTAGTAAATTATTG
* * * * * * *
4599981 CTAATTTAGTAGTAAGTCATTAATAATTTATTAATATATCATTG
1 ATAACTTAGTAGTAAATCATTAATAATTTAGTAGTAAATTATTG
*
4600025 ATAATTTAGTAGTAAATC
1 ATAACTTAGTAGTAAATC
4600043 GCTGATAACA
Statistics
Matches: 219, Mismatches: 49, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
41 27 0.12
42 8 0.04
43 30 0.14
44 109 0.50
45 5 0.02
46 1 0.00
47 1 0.00
48 2 0.01
49 1 0.00
52 35 0.16
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (44 bp):
ATAACTTAGTAGTAAATCATTAATAATTTAGTAGTAAATTATTG
Found at i:4599953 original size:19 final size:19
Alignment explanation
Indices: 4599931--4599969 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4599921 ATTTAATAAC
* *
4599931 AAATTATTCATAACTTAGT
1 AAATTATTCACAAATTAGT
4599950 AAATTATTCACAAATTAGT
1 AAATTATTCACAAATTAGT
4599969 A
1 A
4599970 GTAAGTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (19 bp):
AAATTATTCACAAATTAGT
Found at i:4600050 original size:22 final size:22
Alignment explanation
Indices: 4599833--4600042 Score: 110
Period size: 22 Copynumber: 9.7 Consensus size: 22
4599823 AATATTAGAA
* * *
4599833 AATTTTGTAGTAAATTATCGAT
1 AATTTAGTAGTAAATCATTGAT
* *
4599855 AAATTAATAGTAAATCAGTT-AT
1 AATTTAGTAGTAAATCA-TTGAT
*
4599877 AACTTTA-TAG-AAATTATT-AGT
1 AA-TTTAGTAGTAAATCATTGA-T
* *
4599898 AACTTAGTAGTAAATCATTAAT
1 AATTTAGTAGTAAATCATTGAT
* ** * *
4599920 AATTTAATAACAAATTATTCAT
1 AATTTAGTAGTAAATCATTGAT
* * * *
4599942 AA-CT--TAGTAAATTATTCAC
1 AATTTAGTAGTAAATCATTGAT
* * * *
4599961 AAATTAGTAGTAAGTCAATGCT
1 AATTTAGTAGTAAATCATTGAT
* *
4599983 AATTTAGTAGTAAGTCATTAAT
1 AATTTAGTAGTAAATCATTGAT
* * *
4600005 AATTTATTAATATATCATTGAT
1 AATTTAGTAGTAAATCATTGAT
4600027 AATTTAGTAGTAAATC
1 AATTTAGTAGTAAATC
4600043 GCTGATAACA
Statistics
Matches: 141, Mismatches: 38, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
19 14 0.10
20 7 0.05
21 12 0.09
22 103 0.73
23 5 0.04
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (22 bp):
AATTTAGTAGTAAATCATTGAT
Found at i:4600094 original size:22 final size:22
Alignment explanation
Indices: 4600045--4600094 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
4600035 AGTAAATCGC
4600045 TGATAACATAATAATAAATCAA
1 TGATAACATAATAATAAATCAA
* * * * *
4600067 TAATAACTTAATTATTAATCAT
1 TGATAACATAATAATAAATCAA
4600089 TGATAA
1 TGATAA
4600095 ATTTTATTAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (22 bp):
TGATAACATAATAATAAATCAA
Found at i:4600252 original size:21 final size:20
Alignment explanation
Indices: 4600214--4600256 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
4600204 TTAAATTTGA
*
4600214 ATAAAACAATAATATTATTAT
1 ATAAAAAAATAATATTA-TAT
* *
4600235 ATAAAAAAATTATCTTATAT
1 ATAAAAAAATAATATTATAT
4600255 AT
1 AT
4600257 TAGAATTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAAAAAATAATATTATAT
Found at i:4600392 original size:22 final size:22
Alignment explanation
Indices: 4600367--4600455 Score: 80
Period size: 21 Copynumber: 4.1 Consensus size: 22
4600357 ATTAATTACT
4600367 AAAATTATATTACTAAGTTA-CA
1 AAAATTATATTA-TAAGTTATCA
* *
4600389 AAAATTTTATTA-ATGGTTATC-
1 AAAATTATATTATA-AGTTATCA
4600410 AAAATTATATTATAAGTTATCA
1 AAAATTATATTATAAGTTATCA
* *
4600432 AATAA--ATATCAAAAGTTATCA
1 AA-AATTATATTATAAGTTATCA
4600453 AAA
1 AAA
4600456 TTTTATCGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
20 2 0.04
21 37 0.66
22 15 0.27
23 2 0.04
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.37
Consensus pattern (22 bp):
AAAATTATATTATAAGTTATCA
Found at i:4600462 original size:21 final size:21
Alignment explanation
Indices: 4600381--4600506 Score: 85
Period size: 21 Copynumber: 5.7 Consensus size: 21
4600371 TTATATTACT
*
4600381 AAGTTA-CAAAAATTTTATTAA
1 AAGTTATC-AAAATTTTATCAA
** * * *
4600402 TGGTTATCAAAATTATATTAT
1 AAGTTATCAAAATTTTATCAA
**
4600423 AAGTTATC-AAATAAATATCAA
1 AAGTTATCAAAAT-TTTATCAA
*
4600444 AAGTTATCAAAATTTTATCGA
1 AAGTTATCAAAATTTTATCAA
4600465 AAGTTATTAAAATCAAAATTTTATCAA
1 AAG---TT---ATCAAAATTTTATCAA
4600492 AAGTTATCAAAATTT
1 AAGTTATCAAAATTT
4600507 ACTTATATTA
Statistics
Matches: 83, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
20 4 0.05
21 52 0.63
22 5 0.06
24 4 0.05
27 18 0.22
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.38
Consensus pattern (21 bp):
AAGTTATCAAAATTTTATCAA
Found at i:4600487 original size:27 final size:27
Alignment explanation
Indices: 4600449--4600504 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
4600439 ATCAAAAGTT
* *
4600449 ATCAAAATTTTATCGAAAGTTATTAAA
1 ATCAAAATTTTATCAAAAGTTATCAAA
4600476 ATCAAAATTTTATCAAAAGTTATCAAA
1 ATCAAAATTTTATCAAAAGTTATCAAA
4600503 AT
1 AT
4600505 TTACTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (27 bp):
ATCAAAATTTTATCAAAAGTTATCAAA
Found at i:4600636 original size:2 final size:2
Alignment explanation
Indices: 4600629--4600660 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4600619 GCCCATAACA
4600629 AT AT AT AT AT AT AT AT AT -T AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4600661 TTGCTTACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4603858 original size:29 final size:29
Alignment explanation
Indices: 4603816--4603872 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
4603806 ATAATTGAGA
4603816 TAGATTGCCTGTTTACCTCATGTGCTAGG
1 TAGATTGCCTGTTTACCTCATGTGCTAGG
4603845 TAGATTGCCTGTTTACCTCATGTGCTAG
1 TAGATTGCCTGTTTACCTCATGTGCTAG
4603873 TTTCCTTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.39
Consensus pattern (29 bp):
TAGATTGCCTGTTTACCTCATGTGCTAGG
Found at i:4613533 original size:62 final size:60
Alignment explanation
Indices: 4613312--4613774 Score: 481
Period size: 62 Copynumber: 7.8 Consensus size: 60
4613302 TTTTGTGTAG
* * * *
4613312 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTCTTTTGAAACTTTAATTTC-GA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAAATTT-ATTTCTAA
* ***
4613370 GAAAAAATGATACTTTCAACTTTTCCTC-AAAA-A--TCCCTTTGAAAATTTATCTT-TAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAAATTTAT-TTCTAA
* * *
4613426 GGAAAATTGATACTTTCAACTTTTTCC-CAAAGATA---TTTTTTGAAAACTTTAATTTCGAA
1 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTTGAAAA-TTT-ATTTCTAA
*
4613485 G-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTTGAAAATTTATTTCTAA
* * *
4613545 GAAAAATTGATACTTTCAACTTTTCTTCAAAAAAAACTTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTTTTTTTGAAAATTTATTTCTAA
* *
4613607 GAAAAATTGATACTTTCAACTTTTTCCT-AAAAATATATTTTTTTTGAAATTCTTAATTT-TGA
1 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATAT-TTTTTTTTGAAAAT-TT-ATTTCTAA
* * * *
4613669 GGAAAATTGATACTTTCAACTTTTTCTCAAAAAAAATCTTTTTTTGAAAATTTA-TTCTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTTGAAAATTTATTTC-TAA
* *
4613730 GAAAAATTGATACCTTCAATTTTTCCTCAAAAATATTTTTTTTTG
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTG
4613775 TTTTATTTAA
Statistics
Matches: 347, Mismatches: 35, Indels: 44
0.81 0.08 0.10
Matches are distributed among these distances:
55 2 0.01
56 35 0.10
57 27 0.08
58 57 0.16
59 7 0.02
60 24 0.07
61 81 0.23
62 97 0.28
63 17 0.05
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (60 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAAATTTATTTCTAA
Found at i:4613648 original size:123 final size:120
Alignment explanation
Indices: 4613312--4613774 Score: 498
Period size: 123 Copynumber: 3.9 Consensus size: 120
4613302 TTTTGTGTAG
* ** * * * * **
4613312 GAAAAATTGATACTTTCAAC-TTTTCCCCAAAAATATTCTTTTGAAACTTTAATTTCGAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTTTCAAAAAAATTTTTTTTTGAAAATTTATTTTTAAGAAAAA
* *** *
4613376 ATGATACTTTCAACTTTTCCTC--AAA-A-A-TCCCTTTGAAAATTTATCTTTAA
66 TTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTTGAAAATTTATTTTTAA
* ** * * **
4613426 GGAAAATTGATACTTTCAAC-TTTTTCCCAAAGA-TATTTTTTGAAAACTTTAATTTCGAAG-AA
1 GAAAAATTGATACTTTCAACTTTTTTCAAAAAAATTTTTTTTTGAAAA-TTT-ATTTTTAAGAAA
*
4613488 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAAATTTATTTTTAA
64 AATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTTGAAAATTTATTTTTAA
4613545 GAAAAATTGATACTTTCAACTTTTCTTCAAAAAAAACTTTTTTTTTGAAAATTTATTTTTAAGAA
1 GAAAAATTGATACTTTCAACTTTT-TTC-AAAAAAA-TTTTTTTTTGAAAATTTATTTTTAAGAA
* * *
4613610 AAATTGATACTTTCAACTTTTTCCT-AAAAATATATTTTTTTTGAAATTCTTAATTTTGA
63 AAATTGATACTTTCAAC-TTTTCCTCAAAAATATATTTTTTTTGAAAAT-TTATTTTTAA
* * *
4613669 GGAAAATTGATACTTTCAACTTTTTCTCAAAAAAAATCTTTTTTTGAAAATTTATTCTTAAGAAA
1 GAAAAATTGATACTTTCAACTTTTT-TC-AAAAAAATTTTTTTTTGAAAATTTATTTTTAAGAAA
* *
4613734 AATTGATACCTTCAATTTTTCCTCAAAAATAT-TTTTTTTTG
64 AATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTTG
4613775 TTTTATTTAA
Statistics
Matches: 299, Mismatches: 33, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
113 9 0.03
114 58 0.19
115 5 0.02
116 3 0.01
117 1 0.00
119 38 0.13
120 3 0.01
121 3 0.01
122 27 0.09
123 92 0.31
124 60 0.20
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (120 bp):
GAAAAATTGATACTTTCAACTTTTTTCAAAAAAATTTTTTTTTGAAAATTTATTTTTAAGAAAAA
TTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTTGAAAATTTATTTTTAA
Found at i:4613800 original size:4 final size:4
Alignment explanation
Indices: 4613788--4613873 Score: 52
Period size: 4 Copynumber: 20.8 Consensus size: 4
4613778 TATTTAAAGA
* *
4613788 AAAT GAAAT AAAT AAAAT GAAAAT AAAT AAAA AAAT AAA- AAA- AATT
1 AAAT -AAAT AAAT -AAAT --AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
4613834 AAAC AATTT TAAT ATAAT -AAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAA
4613874 AATAATAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
3 8 0.12
4 40 0.62
5 12 0.18
6 5 0.08
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:4613813 original size:15 final size:14
Alignment explanation
Indices: 4613782--4613832 Score: 61
Period size: 15 Copynumber: 3.7 Consensus size: 14
4613772 TTGTTTTATT
*
4613782 TAAAGAAAATGAAA
1 TAAATAAAATGAAA
4613796 TAAATAAAATGAAAA
1 TAAATAAAATG-AAA
4613811 TAAATAAAA--AAA
1 TAAATAAAATGAAA
*
4613823 TAAAAAAAAT
1 TAAATAAAAT
4613833 TAAACAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
12 11 0.33
14 10 0.30
15 12 0.36
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (14 bp):
TAAATAAAATGAAA
Found at i:4613829 original size:7 final size:8
Alignment explanation
Indices: 4613793--4613886 Score: 53
Period size: 9 Copynumber: 10.4 Consensus size: 8
4613783 AAAGAAAATG
4613793 AAATAAATA
1 AAATAAA-A
4613802 AAATGAAAA
1 AAAT-AAAA
4613811 TAAATAAAA
1 -AAATAAAA
4613820 AAATAAAAA
1 AAAT-AAAA
4613829 AAATTAAACA
1 AAA-TAAA-A
*
4613839 ATTTTAATATAA
1 A----AATAAAA
* *
4613851 TAATAAAT
1 AAATAAAA
*
4613859 AAATAAAT
1 AAATAAAA
4613867 AAATAAAA
1 AAATAAAA
4613875 ATAATAAAA
1 A-AATAAAA
4613884 AAA
1 AAA
4613887 AGCCTGGAGC
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
8 26 0.38
9 27 0.39
10 10 0.14
12 1 0.01
13 3 0.04
14 2 0.03
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (8 bp):
AAATAAAA
Found at i:4613836 original size:18 final size:19
Alignment explanation
Indices: 4613793--4613832 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
4613783 AAAGAAAATG
*
4613793 AAATAAATAAAATGAAAAT
1 AAATAAATAAAATGAAAAA
4613812 AAATAAA-AAAAT-AAAAA
1 AAATAAATAAAATGAAAAA
4613829 AAAT
1 AAAT
4613833 TAAACAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 5 0.25
19 7 0.35
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (19 bp):
AAATAAATAAAATGAAAAA
Found at i:4614888 original size:15 final size:16
Alignment explanation
Indices: 4614868--4614908 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
4614858 TAAATAGTAG
4614868 TAATAAATAAATAA-A
1 TAATAAATAAATAAGA
*
4614883 TAATAAATACATAAGA
1 TAATAAATAAATAAGA
4614899 TAA-AAATAAA
1 TAATAAATAAA
4614909 AGAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (16 bp):
TAATAAATAAATAAGA
Found at i:4614965 original size:7 final size:6
Alignment explanation
Indices: 4614876--4614976 Score: 50
Period size: 6 Copynumber: 16.5 Consensus size: 6
4614866 AGTAATAAAT
* * *
4614876 AAATAA ATAATAA ATACAT-A AGATAA AAAT-A AAAGAA AAA-AA ATATAA
1 AAATAA A-AATAA A-A-ATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* * *
4614924 AAA-ACA CTAATAA TAATAA AAATAA AAATGTA AAATACA AAATAA AAA-AA
1 AAATA-A -AAATAA AAATAA AAATAA AAAT-AA AAATA-A AAATAA AAATAA
4614974 AAA
1 AAA
4614977 GACTTACCTA
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
5 16 0.21
6 33 0.43
7 24 0.32
8 3 0.04
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:4615216 original size:1 final size:1
Alignment explanation
Indices: 4615212--4615299 Score: 68
Period size: 1 Copynumber: 88.0 Consensus size: 1
4615202 ATTTTTTTGC
* * * * * * * * *
4615212 TTTTTTTTGTTTTTTTTGTTTTTTTTGTTTTTTGTTTTGTTGTTTTTTTTGTTTTCTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
4615277 TTTGTTTTCTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
4615300 AATTTGATCA
Statistics
Matches: 63, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.01, C:0.02, G:0.10, T:0.86
Consensus pattern (1 bp):
T
Found at i:4615217 original size:9 final size:8
Alignment explanation
Indices: 4615203--4615296 Score: 91
Period size: 9 Copynumber: 10.9 Consensus size: 8
4615193 ACAGAGGCAA
4615203 TTTTTTTG
1 TTTTTTTG
4615211 CTTTTTTTTG
1 --TTTTTTTG
4615221 TTTTTTTTG
1 -TTTTTTTG
4615230 TTTTTTT-
1 TTTTTTTG
4615237 TGTTTTTTG
1 T-TTTTTTG
*
4615246 TTTTGTTG
1 TTTTTTTG
4615254 TTTTTTTTG
1 -TTTTTTTG
*
4615263 TTTTCTTTAT
1 TTTT-TTT-G
4615273 TTTTTTTG
1 TTTTTTTG
4615281 TTTTCTTTG
1 TTTT-TTTG
4615290 TTTTTTT
1 TTTTTTT
4615297 TTTAATTTGA
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
7 1 0.01
8 30 0.41
9 31 0.42
10 12 0.16
ACGTcount: A:0.01, C:0.03, G:0.11, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:4615226 original size:18 final size:17
Alignment explanation
Indices: 4615203--4615297 Score: 120
Period size: 18 Copynumber: 5.4 Consensus size: 17
4615193 ACAGAGGCAA
4615203 TTTTTTTGCTTTTTTTTGT
1 TTTTTTTG--TTTTTTTGT
4615222 TTTTTTTGTTTTTTT-T
1 TTTTTTTGTTTTTTTGT
* *
4615238 GTTTTTTGTTTTGTTGT
1 TTTTTTTGTTTTTTTGT
*
4615255 TTTTTTTGTTTTCTTTAT
1 TTTTTTTGTTTT-TTTGT
4615273 TTTTTTTGTTTTCTTTGT
1 TTTTTTTGTTTT-TTTGT
4615291 TTTTTTT
1 TTTTTTT
4615298 TTAATTTGAT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
16 14 0.21
17 19 0.28
18 27 0.40
19 8 0.12
ACGTcount: A:0.01, C:0.03, G:0.11, T:0.85
Consensus pattern (17 bp):
TTTTTTTGTTTTTTTGT
Found at i:4615279 original size:51 final size:51
Alignment explanation
Indices: 4615203--4615299 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
4615193 ACAGAGGCAA
* * *
4615203 TTTTTTTGCTTTTTTTTGTTTTTTTTGTTTTTTTTGTTTTTTGTTTTGTTGT
1 TTTTTTTGCTTTTCTTTATTTTTTTTGTTTTCTTTGTTTTTT-TTTTGTTGT
4615255 TTTTTTTG-TTTTCTTTATTTTTTTTGTTTTCTTTGTTTTTTTTTT
1 TTTTTTTGCTTTTCTTTATTTTTTTTGTTTTCTTTGTTTTTTTTTT
4615300 AATTTGATCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 4 0.10
51 30 0.71
52 8 0.19
ACGTcount: A:0.01, C:0.03, G:0.10, T:0.86
Consensus pattern (51 bp):
TTTTTTTGCTTTTCTTTATTTTTTTTGTTTTCTTTGTTTTTTTTTTGTTGT
Found at i:4615402 original size:42 final size:41
Alignment explanation
Indices: 4615314--4615563 Score: 317
Period size: 41 Copynumber: 6.0 Consensus size: 41
4615304 TGATCAATGT
* *
4615314 TCCTCTAAGC-AGAGGCTCAACAACTTTGGAAAATAAATGGC
1 TCCTCTAA-CTAGAGGCTCAACGACTTTGAAAAATAAATGGC
4615355 TCCTCTAACTAGAGGCTCAACGACTTTGGAAAAATAAATGGC
1 TCCTCTAACTAGAGGCTCAACGACTTT-GAAAAATAAATGGC
* *
4615397 CCCTCTAACCAGAGGCTCAACGACTTTGAAAAAATAAATGGC
1 TCCTCTAACTAGAGGCTCAACGACTTTG-AAAAATAAATGGC
*
4615439 TCCTCTAA-TCAGAGGCTCAACGACTTTGAAAAATAAATTGC
1 TCCTCTAACT-AGAGGCTCAACGACTTTGAAAAATAAATGGC
* **
4615480 TCCTCTAA-TCAGAGGCTCAACAACTTTGAAAAATAAATTAC
1 TCCTCTAACT-AGAGGCTCAACGACTTTGAAAAATAAATGGC
* * * * *
4615521 TCCTCTAAATAGAGGCACCACGACTTTGAAAAGTAAATTGC
1 TCCTCTAACTAGAGGCTCAACGACTTTGAAAAATAAATGGC
4615562 TC
1 TC
4615564 ATTGACAATC
Statistics
Matches: 190, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
40 1 0.01
41 112 0.59
42 77 0.41
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (41 bp):
TCCTCTAACTAGAGGCTCAACGACTTTGAAAAATAAATGGC
Found at i:4615470 original size:83 final size:82
Alignment explanation
Indices: 4615315--4615558 Score: 339
Period size: 83 Copynumber: 3.0 Consensus size: 82
4615305 GATCAATGTT
* *
4615315 CCTCTAAGCAGAGGCTCAACAACTTTGGAAAATAAATGGCTCCTCTAA-CTAGAGGCTCAACGAC
1 CCTCTAACCAGAGGCTCAACAACTTTGAAAAATAAATGGCTCCTCTAATC-AGAGGCTCAACGAC
4615379 TTTGGAAAAATAAATGGCC
65 TTT-GAAAAATAAATGGCC
*
4615398 CCTCTAACCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGAC
1 CCTCTAACCAGAGGCTCAACAACTTTG-AAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGAC
* *
4615463 TTTGAAAAATAAATTGCT
65 TTTGAAAAATAAATGGCC
* ** * *
4615481 CCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATTACTCCTCTAAAT-AGAGGCACCACGAC
1 CCTCTAACCAGAGGCTCAACAACTTTGAAAAATAAATGGCTCCTCT-AATCAGAGGCTCAACGAC
*
4615545 TTTGAAAAGTAAAT
65 TTTGAAAAATAAAT
4615559 TGCTCATTGA
Statistics
Matches: 146, Mismatches: 12, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
82 42 0.29
83 66 0.45
84 37 0.25
85 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (82 bp):
CCTCTAACCAGAGGCTCAACAACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACT
TTGAAAAATAAATGGCC
Found at i:4627001 original size:27 final size:28
Alignment explanation
Indices: 4626971--4627061 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 28
4626961 TTTTGTGCAG
4626971 AAAAAATTGATACTTTCAACTTTTCT-A
1 AAAAAATTGATACTTTCAACTTTTCTCA
* *
4626998 AAAAAA-T-ATTCTTTTCAAACTTTAATTTCA
1 AAAAAATTGATAC-TTTC-AACTTT--TCTCA
4627028 AGAAAAATTGATACTTTCAACTTTTCCTCA
1 A-AAAAATTGATACTTTCAACTTTT-CTCA
4627058 AAAA
1 AAAA
4627062 TCCCTTTGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
25 3 0.06
26 5 0.10
27 12 0.24
29 6 0.12
30 6 0.12
31 11 0.22
32 5 0.10
33 3 0.06
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.38
Consensus pattern (28 bp):
AAAAAATTGATACTTTCAACTTTTCTCA
Found at i:4627037 original size:58 final size:57
Alignment explanation
Indices: 4626973--4627363 Score: 353
Period size: 58 Copynumber: 6.7 Consensus size: 57
4626963 TTGTGCAGAA
* * *
4626973 AAAATTGATACTTTCAACTTTTCTAAAAAAATATTCTTTTCAAACTTTAATTTCAAGA
1 AAAATTGATACTTTCAACTTTTCTCAAAAAATATT-TTTTAAAACTTTAATTTCAAGG
*** * *
4627031 AAAATTGATACTTTCAACTTTTCCTC-AAAAATCCCTTTGAAAA-TTT-ATCTTTAAGG
1 AAAATTGATACTTTCAACTTTT-CTCAAAAAATATTTTTTAAAACTTTAAT-TTCAAGG
* ** * ** * *
4627087 AAAATTGATACTTTTAACTTTTCCTCAAAATCTTTTTTTTCTAAAAAATTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTT-CTCAAAA-AATATTTTT-TAAAACTTTAATTTCAAGG
* * *
4627147 AAAATTGATACTTTCAACTTTTTTCCAAAAATAATTTTTGAAAACTTTAATTTCATA-G
1 AAAATTGATACTTTCAACTTTTCTCAAAAAAT-ATTTTTTAAAACTTTAATTTCA-AGG
* * *
4627205 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAACTTTAATTTCGATG
1 AAAATTGATACTTTCAACTTTTCTCAAAAAATATTTTTT-AAAACTTTAATTTCAAGG
* * *
4627263 AAAATTGATACTTTCAACTTTTC-CATAAAAATATATTTTTTTTGAAATTCTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCTC--AAAAA-ATA--TTTTTTAAAACT-TTAATTTCAAGG
* *
4627325 AAAATTAATACTTTCAACTTTTCCTC-AAAAATGTTTTTT
1 AAAATTGATACTTTCAACTTTT-CTCAAAAAATATTTTTT
4627364 TTTTGTTTTA
Statistics
Matches: 276, Mismatches: 38, Indels: 38
0.78 0.11 0.11
Matches are distributed among these distances:
55 2 0.01
56 33 0.12
57 17 0.06
58 118 0.43
59 22 0.08
60 35 0.13
61 9 0.03
62 38 0.14
63 1 0.00
64 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCTCAAAAAATATTTTTTAAAACTTTAATTTCAAGG
Found at i:4627394 original size:4 final size:4
Alignment explanation
Indices: 4627382--4627423 Score: 57
Period size: 4 Copynumber: 9.8 Consensus size: 4
4627372 TATTTAAAGA
4627382 AAAT GAAAT AAAT AAAT AAAT AAAT GAAAAT AAAT AAAT AAA
1 AAAT -AAAT AAAT AAAT AAAT AAAT --AAAT AAAT AAAT AAA
4627424 ATAGAAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 27 0.77
5 4 0.11
6 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:4627412 original size:22 final size:21
Alignment explanation
Indices: 4627382--4627423 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
4627372 TATTTAAAGA
4627382 AAATGAAATAAATAAATAAAT
1 AAATGAAATAAATAAATAAAT
4627403 AAATGAAAATAAATAAATAAA
1 AAATG-AAATAAATAAATAAA
4627424 ATAGAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (21 bp):
AAATGAAATAAATAAATAAAT
Found at i:4627416 original size:26 final size:26
Alignment explanation
Indices: 4627376--4627493 Score: 84
Period size: 26 Copynumber: 4.4 Consensus size: 26
4627366 TTGTTTTATT
4627376 TAAA-GAAAATGAAATAAATAAATAAA
1 TAAATGAAAAT-AAATAAATAAATAAA
4627402 TAAATGAAAATAAATAAATAAAATAGAA
1 TAAATGAAAATAAATAAAT-AAATA-AA
* *
4627430 -AAA-GAAAA-AAATATATTAAACAAGCA
1 TAAATGAAAATAAATA-AATAAATAA--A
* *
4627456 TAATAT-AATAGTATATAAAATAAATAAA
1 TAA-ATGAA-AATAAAT-AAATAAATAAA
4627484 TAAATGAAAA
1 TAAATGAAAA
4627494 AACTTGTAGC
Statistics
Matches: 72, Mismatches: 7, Indels: 25
0.69 0.07 0.24
Matches are distributed among these distances:
24 1 0.01
25 9 0.12
26 20 0.28
27 19 0.26
28 11 0.15
29 1 0.01
30 10 0.14
31 1 0.01
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (26 bp):
TAAATGAAAATAAATAAATAAATAAA
Found at i:4628028 original size:12 final size:13
Alignment explanation
Indices: 4627998--4628027 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4627988 GAAATTTTCC
*
4627998 AAAAATTTTCAGA
1 AAAAATTTGCAGA
4628011 AAAAATTTGCAGA
1 AAAAATTTGCAGA
4628024 AAAA
1 AAAA
4628028 TCTTCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.23
Consensus pattern (13 bp):
AAAAATTTGCAGA
Found at i:4628485 original size:15 final size:16
Alignment explanation
Indices: 4628465--4628505 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
4628455 TAAATAGTAG
4628465 TAATAAATAAATAA-A
1 TAATAAATAAATAAGA
*
4628480 TAATAAATACATAAGA
1 TAATAAATAAATAAGA
4628496 TAA-AAATAAA
1 TAATAAATAAA
4628506 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (16 bp):
TAATAAATAAATAAGA
Found at i:4630852 original size:27 final size:27
Alignment explanation
Indices: 4630822--4630883 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
4630812 TTTTGTCTTT
*
4630822 TTTTATTTTTATTTTTTTATTT-AAAA
1 TTTTATTTTCATTTTTTTATTTGAAAA
*
4630848 GTTTT-TTTTCATTTTTTTATTTGTAAA
1 -TTTTATTTTCATTTTTTTATTTGAAAA
4630875 TTTTATTTT
1 TTTTATTTT
4630884 AAATAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (27 bp):
TTTTATTTTCATTTTTTTATTTGAAAA
Found at i:4632435 original size:20 final size:21
Alignment explanation
Indices: 4632382--4632449 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
4632372 ATATAATTTT
*
4632382 AATTTTGATAACCTTTAATAA
1 AATTTTGATAACTTTTAATAA
** *
4632403 AATTTTGGCAACTTTTGAT-A
1 AATTTTGATAACTTTTAATAA
* * *
4632423 GATTTTGATAACTTATAATAT
1 AATTTTGATAACTTTTAATAA
4632444 AATTTT
1 AATTTT
4632450 AGTAACAATC
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 15 0.43
21 20 0.57
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (21 bp):
AATTTTGATAACTTTTAATAA
Found at i:4632455 original size:21 final size:21
Alignment explanation
Indices: 4632431--4632518 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 21
4632421 TAGATTTTGA
4632431 TAACTTATAATATAATTTTAG
1 TAACTTATAATATAATTTTAG
* **
4632452 TAAC-AATCAATACCATTTTAG
1 TAACTTAT-AATATAATTTTAG
* * * *
4632473 TAATTTATGATAAAATTGTAG
1 TAACTTATAATATAATTTTAG
*
4632494 TAACCTCT-TGATATAATTTTAG
1 TAA-CT-TATAATATAATTTTAG
4632516 TAA
1 TAA
4632519 TCTTTTGATA
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
20 2 0.04
21 30 0.59
22 18 0.35
23 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (21 bp):
TAACTTATAATATAATTTTAG
Found at i:4632511 original size:22 final size:22
Alignment explanation
Indices: 4632480--4632528 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4632470 TAGTAATTTA
4632480 TGATAAAATTGTAGTAACCTCT
1 TGATAAAATTGTAGTAACCTCT
* * * *
4632502 TGATATAATTTTAGTAATCTTT
1 TGATAAAATTGTAGTAACCTCT
4632524 TGATA
1 TGATA
4632529 GCTTCTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (22 bp):
TGATAAAATTGTAGTAACCTCT
Found at i:4634931 original size:17 final size:17
Alignment explanation
Indices: 4634886--4634931 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
4634876 AATTTTAACT
* *
4634886 TTATTTAAAAAATTTTA
1 TTATATAAAAATTTTTA
* *
4634903 TTATACATAAATTTTTA
1 TTATATAAAAATTTTTA
4634920 TTATATAAAAAT
1 TTATATAAAAAT
4634932 ATTAAAATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATATAAAAATTTTTA
Done.