Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 57 of 126
Found at i:11392695 original size:2 final size:2
Alignment explanation
Indices: 11392688--11392718 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11392678 ATAGATACCC
11392688 AT AT AT AT AT AT 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 A
11392719 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11394597 original size:6 final size:6
Alignment explanation
Indices: 11394585--11394619 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
11394575 TTTCTCTGTG
*
11394585 TTTGGC TTCGGC TTTGGC TTTGGC TTTGGC TTTGG
1 TTTGGC TTTGGC TTTGGC TTTGGC TTTGGC TTTGG
11394620 AGCCTAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.17, G:0.34, T:0.49
Consensus pattern (6 bp):
TTTGGC
Found at i:11394884 original size:13 final size:13
Alignment explanation
Indices: 11394868--11394894 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11394858 TACTTGATAT
11394868 AATTAAAGCATTC
1 AATTAAAGCATTC
11394881 AATTAAAGCATTC
1 AATTAAAGCATTC
11394894 A
1 A
11394895 TTACTTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (13 bp):
AATTAAAGCATTC
Found at i:11397682 original size:26 final size:26
Alignment explanation
Indices: 11397646--11397699 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11397636 TTTGGAACTT
11397646 ATATAAAAAATCAAGATGATATAGAA
1 ATATAAAAAATCAAGATGATATAGAA
11397672 ATATAAAAAATCAAGATGATATAGAA
1 ATATAAAAAATCAAGATGATATAGAA
11397698 AT
1 AT
11397700 TCAGGCAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.61, C:0.04, G:0.11, T:0.24
Consensus pattern (26 bp):
ATATAAAAAATCAAGATGATATAGAA
Found at i:11406914 original size:15 final size:13
Alignment explanation
Indices: 11406879--11406918 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
11406869 AATATTTTAT
*
11406879 AAAAAAATGAAAG
1 AAAAAAATAAAAG
11406892 AAAAAAATAATAAG
1 AAAAAAATAA-AAG
11406906 AGAAAAAATAAAA
1 A-AAAAAATAAAA
11406919 ATATACCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 9 0.38
14 6 0.25
15 9 0.38
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (13 bp):
AAAAAAATAAAAG
Found at i:11406997 original size:3 final size:3
Alignment explanation
Indices: 11406989--11407030 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
11406979 AGTTTATTTT
11406989 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11407031 AAGTAAAGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11410377 original size:10 final size:10
Alignment explanation
Indices: 11410350--11410405 Score: 64
Period size: 10 Copynumber: 5.9 Consensus size: 10
11410340 ATACGATACA
*
11410350 AATAAATATG
1 AATATATATG
11410360 AATA-ATATG
1 AATATATATG
11410369 AATATATATG
1 AATATATATG
11410379 AATATATA--
1 AATATATATG
*
11410387 AATATATATA
1 AATATATATG
*
11410397 AATAGATAT
1 AATATATAT
11410406 AATTAACTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
8 8 0.19
9 9 0.21
10 25 0.60
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (10 bp):
AATATATATG
Found at i:11410406 original size:10 final size:9
Alignment explanation
Indices: 11410349--11410458 Score: 55
Period size: 10 Copynumber: 11.4 Consensus size: 9
11410339 GATACGATAC
11410349 AAATAAATAT
1 AAAT-AATAT
*
11410359 GAATAATAT
1 AAATAATAT
*
11410368 GAATATATAT
1 AAATA-ATAT
*
11410378 GAAT-ATAT
1 AAATAATAT
11410386 AAATATATAT
1 AAATA-ATAT
11410396 AAATAGATAT
1 AAATA-ATAT
*
11410406 AATTAACT-T
1 AAATAA-TAT
11410415 AAAT-ATAT
1 AAATAATAT
*
11410423 ACAAAAATAT
1 A-AATAATAT
*
11410433 AATTAAAATAAT
1 AA--ATAAT-AT
11410445 AAATAATTAT
1 AAATAA-TAT
11410455 AAAT
1 AAAT
11410459 TATTTATAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
7 1 0.01
8 10 0.12
9 18 0.22
10 43 0.52
11 6 0.07
12 4 0.05
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (9 bp):
AAATAATAT
Found at i:11410432 original size:27 final size:29
Alignment explanation
Indices: 11410385--11410438 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
11410375 TATGAATATA
*
11410385 TAAATATATATAAATAGATATAATTAACT
1 TAAATATATACAAATAGATATAATTAACT
11410414 TAAATATATACAAA-A-ATATAATTAA
1 TAAATATATACAAATAGATATAATTAA
11410439 AATAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.42
28 1 0.04
29 13 0.54
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (29 bp):
TAAATATATACAAATAGATATAATTAACT
Found at i:11411141 original size:3 final size:3
Alignment explanation
Indices: 11411133--11411165 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11411123 ACGACAGAGG
11411133 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11411166 TATTTGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11411345 original size:23 final size:22
Alignment explanation
Indices: 11411272--11411345 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 22
11411262 CGAATCCATA
*
11411272 TAATAAAAATTTAAATTTAAGTT
1 TAATTAAAATTT-AATTTAAGTT
* * *
11411295 TGAATCAAAATTTGATTTCAGTT
1 T-AATTAAAATTTAATTTAAGTT
*
11411318 TAATTAAATATTTAATTTAAATT
1 TAATTAAA-ATTTAATTTAAGTT
11411341 TAATT
1 TAATT
11411346 TGAAATTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 6 0.14
23 26 0.62
24 10 0.24
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (22 bp):
TAATTAAAATTTAATTTAAGTT
Found at i:11436610 original size:56 final size:56
Alignment explanation
Indices: 11436524--11436631 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 56
11436514 CTATTTTCTT
11436524 TTATGTAAACTTCAACTTGCTTTCAACAGAGAAGTTTAT-GCTTGAGCTAATGGCTA
1 TTATGTAAACTTCAACTTGCTTTCAACAGAGAAGTTTATAG-TTGAGCTAATGGCTA
* * *
11436580 TTATGTAAATTTCAACTTGCTTTGAACAGAGAAGTTTCTAGTTGAGCTAATG
1 TTATGTAAACTTCAACTTGCTTTCAACAGAGAAGTTTATAGTTGAGCTAATG
11436632 ACATCAGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
56 47 0.98
57 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (56 bp):
TTATGTAAACTTCAACTTGCTTTCAACAGAGAAGTTTATAGTTGAGCTAATGGCTA
Found at i:11439018 original size:7 final size:7
Alignment explanation
Indices: 11439002--11439053 Score: 70
Period size: 7 Copynumber: 7.4 Consensus size: 7
11438992 ATGATTAAAT
*
11439002 AAAATCA
1 AAAATTA
11439009 AAAATTA
1 AAAATTA
11439016 AAAATTA
1 AAAATTA
11439023 AAAATTA
1 AAAATTA
11439030 AAAATT-
1 AAAATTA
11439036 AAAATTGA
1 AAAATT-A
*
11439044 TAAATTA
1 AAAATTA
11439051 AAA
1 AAA
11439054 TGTATTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.15
7 29 0.73
8 5 0.12
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:11439245 original size:12 final size:13
Alignment explanation
Indices: 11439224--11439255 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11439214 TTTTAAAAAT
11439224 AATT-AAATC-AA
1 AATTAAAATCAAA
11439235 AATTAAAATCAAA
1 AATTAAAATCAAA
11439248 AATTAAAA
1 AATTAAAA
11439256 ATTGAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 4 0.21
12 5 0.26
13 10 0.53
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (13 bp):
AATTAAAATCAAA
Found at i:11443886 original size:27 final size:27
Alignment explanation
Indices: 11443856--11443911 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
11443846 GTAACCATGC
*
11443856 AGAGAATTGGATAATTGGGTTTTCTAA
1 AGAGAATTGGAAAATTGGGTTTTCTAA
11443883 AGAGAATTGGAAAATTGGGTTTTCTAA
1 AGAGAATTGGAAAATTGGGTTTTCTAA
11443910 AG
1 AG
11443912 TGAGTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.34
Consensus pattern (27 bp):
AGAGAATTGGAAAATTGGGTTTTCTAA
Found at i:11448475 original size:3 final size:3
Alignment explanation
Indices: 11448469--11448496 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11448459 CACCACCACC
11448469 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
11448497 AAAATTGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:11453372 original size:29 final size:30
Alignment explanation
Indices: 11453335--11453393 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
11453325 ATATAAAAAT
**
11453335 AAAATAATAAATTTTTAATTAAA-TTATAA
1 AAAATAATAAAAATTTAATTAAATTTATAA
11453364 AAAATAATAAAAATTTAATTAAATTTATAA
1 AAAATAATAAAAATTTAATTAAATTTATAA
11453394 TTTACTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAATAATAAAAATTTAATTAAATTTATAA
Found at i:11466331 original size:15 final size:15
Alignment explanation
Indices: 11466311--11466341 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11466301 GAGTTCCTTC
11466311 TGGTTGTTGTAAGTA
1 TGGTTGTTGTAAGTA
11466326 TGGTTGTTGTAAGTA
1 TGGTTGTTGTAAGTA
11466341 T
1 T
11466342 TTTAGTCAGT
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:0.19, C:0.00, G:0.32, T:0.48
Consensus pattern (15 bp):
TGGTTGTTGTAAGTA
Found at i:11476927 original size:10 final size:10
Alignment explanation
Indices: 11476912--11476941 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11476902 AAAACCAAAC
*
11476912 TTCAACTACT
1 TTCAACAACT
11476922 TTCAACAACT
1 TTCAACAACT
11476932 TTCAACAACT
1 TTCAACAACT
11476942 ATACTGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (10 bp):
TTCAACAACT
Found at i:11503631 original size:4 final size:4
Alignment explanation
Indices: 11503622--11503646 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11503612 ACTCAACGAA
11503622 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
11503647 CTTAACTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:11508948 original size:26 final size:28
Alignment explanation
Indices: 11508789--11508987 Score: 80
Period size: 27 Copynumber: 7.0 Consensus size: 28
11508779 ATAGGTATAG
*
11508789 ATATTAATAAATAATATATATTAATATAAT
1 ATATTAACAAAT-A-ATATATTAATATAAT
* * *
11508819 ATATTAATAAAT-ATAT-TAAGAAATAAT
1 ATATTAACAAATAATATATTA-ATATAAT
* * * *
11508846 AT-TATAATATATAA-ATAAATAATATTATT
1 ATAT-TAACAAATAATAT-ATTAATA-TAAT
* *
11508875 ATATTAATAAATAATATTGCTTTAATTATTAA-
1 ATATTAACAAATAATA-T--ATTAA-TA-TAAT
*
11508907 ATATT-A-TAATAATATATTAATAT-AT
1 ATATTAACAAATAATATATTAATATAAT
11508932 -TATTAACAAATAATATACTATTAATATAAT
1 ATATTAACAAAT-A-ATA-TATTAATATAAT
*
11508962 ATATTAATAAAT-AT-TATTAATA-AAT
1 ATATTAACAAATAATATATTAATATAAT
11508987 A
1 A
11508988 ATAGAAAGAA
Statistics
Matches: 134, Mismatches: 16, Indels: 43
0.69 0.08 0.22
Matches are distributed among these distances:
24 5 0.04
25 6 0.04
26 16 0.12
27 26 0.19
28 8 0.06
29 25 0.19
30 23 0.17
31 12 0.09
32 8 0.06
33 5 0.04
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (28 bp):
ATATTAACAAATAATATATTAATATAAT
Found at i:11508963 original size:53 final size:53
Alignment explanation
Indices: 11508846--11508983 Score: 142
Period size: 55 Copynumber: 2.5 Consensus size: 53
11508836 AAGAAATAAT
* *
11508846 ATTATAATATATAAATAAATAATATT-AT-TATATTAATAAATAATATTGCTTTA
1 ATTATAATATAT-AATAAAT-ATATTAATATATATTAACAAATAATATTACTTTA
11508899 ATTATTAAATATTATAAT-AATATATTAATATATTATTAACAAATAATA-TACTATTA
1 ATTA-T-AATA-TATAATAAATATATTAATATA-TATTAACAAATAATATTACT-TTA
11508955 A-TATAATATATTAATAAATATTATTAATA
1 ATTATAATATA-TAATAAATA-TATTAATA
11508984 AATAATAGAA
Statistics
Matches: 73, Mismatches: 2, Indels: 18
0.78 0.02 0.19
Matches are distributed among these distances:
52 2 0.03
53 17 0.23
54 11 0.15
55 22 0.30
56 21 0.29
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (53 bp):
ATTATAATATATAATAAATATATTAATATATATTAACAAATAATATTACTTTA
Found at i:11508985 original size:13 final size:13
Alignment explanation
Indices: 11508801--11508987 Score: 81
Period size: 13 Copynumber: 14.3 Consensus size: 13
11508791 ATTAATAAAT
11508801 AATATATATTAATA
1 AATAT-TATTAATA
11508815 TAATA-TATTAATA
1 -AATATTATTAATA
*
11508828 AATA-TATTAAGA
1 AATATTATTAATA
*
11508840 AATAATATT-AT-
1 AATATTATTAATA
*
11508851 AATA-TATAAATA
1 AATATTATTAATA
*
11508863 AATAATATT-AT-
1 AATATTATTAATA
* *
11508874 TATATTAATAAATA
1 AATATT-ATTAATA
* *
11508888 ATATTGCTTTAATTATTA
1 A-A-T--ATT-ATTAATA
11508906 AATATTA-TAAT-
1 AATATTATTAATA
11508917 AATA-TATTAATA
1 AATATTATTAATA
* **
11508929 TATTATTAACAAATA
1 -AATATT-ATTAATA
*
11508944 ATATACTATTAATA
1 A-ATATTATTAATA
11508958 TAATA-TATTAATA
1 -AATATTATTAATA
11508971 AATATTATTAATA
1 AATATTATTAATA
11508984 AATA
1 AATA
11508988 ATAGAAAGAA
Statistics
Matches: 133, Mismatches: 20, Indels: 40
0.69 0.10 0.21
Matches are distributed among these distances:
10 5 0.04
11 18 0.14
12 31 0.23
13 41 0.31
14 12 0.09
15 14 0.11
16 2 0.02
17 1 0.01
18 9 0.07
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (13 bp):
AATATTATTAATA
Found at i:11510315 original size:21 final size:21
Alignment explanation
Indices: 11510265--11510329 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
11510255 TTAATCTTAT
*
11510265 TTTATAATTT-TTTATATTCA
1 TTTAAAATTTATTTATATTCA
* *
11510285 TTT-GAATTTATTTATATTCG
1 TTTAAAATTTATTTATATTCA
* *
11510305 TTTAAAATTTATTTATTTTAA
1 TTTAAAATTTATTTATATTCA
11510326 TTTA
1 TTTA
11510330 TTTACTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 5 0.14
20 15 0.41
21 17 0.46
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (21 bp):
TTTAAAATTTATTTATATTCA
Found at i:11510344 original size:15 final size:14
Alignment explanation
Indices: 11510306--11510351 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
11510296 TTATATTCGT
11510306 TTAAAATTTATTTA
1 TTAAAATTTATTTA
**
11510320 TTTTAATTTATTTA
1 TTAAAATTTATTTA
11510334 CTTAAAATTTATTTA
1 -TTAAAATTTATTTA
11510349 TTA
1 TTA
11510352 TTTATGCACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
TTAAAATTTATTTA
Found at i:11511967 original size:12 final size:13
Alignment explanation
Indices: 11511950--11512000 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 13
11511940 TAAAAAATTT
11511950 TAATT-AATTAAA
1 TAATTAAATTAAA
11511962 TAATTAAATCAATAAA
1 TAATTAAAT---TAAA
11511978 -AATTAAATTAAA
1 TAATTAAATTAAA
11511990 TAA-TAAATTAA
1 TAATTAAATTAA
11512001 TTGCATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 17 0.50
13 5 0.15
15 8 0.24
16 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
TAATTAAATTAAA
Found at i:11512002 original size:16 final size:15
Alignment explanation
Indices: 11511949--11512034 Score: 57
Period size: 16 Copynumber: 5.3 Consensus size: 15
11511939 TTAAAAAATT
*
11511949 TTAATTAATTAAATAA
1 TTAATTAAATAAA-AA
* *
11511965 TTAAATCAATAAAAA
1 TTAATTAAATAAAAA
11511980 TTAAATTAAATAATAAA
1 TT-AATTAAATAA-AAA
11511997 TTAATTGCATAATAAATAA
1 TTAATT--A-AATAAA-AA
* *
11512016 -TAATTTAATAAAAT
1 TTAATTAAATAAAAA
11512030 TTAAT
1 TTAAT
11512035 CCAATTAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
14 1 0.02
15 14 0.25
16 22 0.39
17 5 0.09
18 7 0.12
19 7 0.12
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (15 bp):
TTAATTAAATAAAAA
Found at i:11514687 original size:59 final size:59
Alignment explanation
Indices: 11514603--11514786 Score: 215
Period size: 59 Copynumber: 3.1 Consensus size: 59
11514593 ATTTAAAAAT
* * * * *
11514603 TTTAAGATTAAATTCAATCATTTATTTTAATTTATTGGTTATCATATATTTTATTTTAA
1 TTTAAAATTGAATTCAACCATTTATTTTAATTTATCGATTATCATATATTTTATTTTAA
* * *
11514662 TTTAAAATTGAATTCAACCACTTATTTTAATTTATCGATTATTACATATTTTATTTTAA
1 TTTAAAATTGAATTCAACCATTTATTTTAATTTATCGATTATCATATATTTTATTTTAA
** * * * * * *
11514721 TTTAAGTTTGAGTCCAGCCATTTATTTTAAATTACCGATTATCATATATCTTATTTTAA
1 TTTAAAATTGAATTCAACCATTTATTTTAATTTATCGATTATCATATATTTTATTTTAA
*
11514780 TATAAAA
1 TTTAAAA
11514787 ATTAAATAAT
Statistics
Matches: 103, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
59 103 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (59 bp):
TTTAAAATTGAATTCAACCATTTATTTTAATTTATCGATTATCATATATTTTATTTTAA
Found at i:11517473 original size:24 final size:24
Alignment explanation
Indices: 11517446--11517495 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
11517436 TGGCCAACAA
*
11517446 ATCAAAAATCTCTGTCAATTGTTG
1 ATCAAAAAGCTCTGTCAATTGTTG
11517470 ATCAAAAAGCTCTGTCAATTGTTG
1 ATCAAAAAGCTCTGTCAATTGTTG
11517494 AT
1 AT
11517496 TATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (24 bp):
ATCAAAAAGCTCTGTCAATTGTTG
Found at i:11517503 original size:2 final size:2
Alignment explanation
Indices: 11517496--11517524 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11517486 AATTGTTGAT
11517496 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
11517525 TGAGTTGGAT
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:11527621 original size:22 final size:24
Alignment explanation
Indices: 11527588--11527632 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
11527578 ATGTGCGATA
11527588 TTATATATTTTAATTTA-AAAATT
1 TTATATATTTTAATTTATAAAATT
*
11527611 TTATA-ATTTTATTTTATAAAAT
1 TTATATATTTTAATTTATAAAAT
11527633 AGGTTTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTATATATTTTAATTTATAAAATT
Found at i:11528830 original size:2 final size:2
Alignment explanation
Indices: 11528825--11528858 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11528815 GCTAAATGGC
11528825 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11528859 TAATAATGGA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11529962 original size:26 final size:25
Alignment explanation
Indices: 11529926--11529976 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
11529916 TAATCAATTC
11529926 TTTTTACACAGTAGTAATGGGTTTTT
1 TTTTTACACAGTAGTAAT-GGTTTTT
*
11529952 TTTTTACACAGTTGTAATGGTTTTT
1 TTTTTACACAGTAGTAATGGTTTTT
11529977 ATATCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.22, C:0.08, G:0.18, T:0.53
Consensus pattern (25 bp):
TTTTTACACAGTAGTAATGGTTTTT
Found at i:11532536 original size:22 final size:23
Alignment explanation
Indices: 11532504--11532564 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
11532494 ATATTCAAAT
*
11532504 TTAATTCAAATCAAA-TAAAAAA
1 TTAATTTAAATCAAACTAAAAAA
* *
11532526 TTAATTTAAATCAAACTAAATAT
1 TTAATTTAAATCAAACTAAAAAA
11532549 TATAATTTTAAATCAA
1 T-TAA-TTTAAATCAA
11532565 TTTTTGATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.42
23 6 0.18
24 3 0.09
25 10 0.30
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (23 bp):
TTAATTTAAATCAAACTAAAAAA
Found at i:11541796 original size:3 final size:3
Alignment explanation
Indices: 11541784--11541818 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
11541774 TTTAATATGT
11541784 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11541819 CAAAATGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:11542254 original size:30 final size:31
Alignment explanation
Indices: 11542188--11542255 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
11542178 CAATAGAGAA
* * *
11542188 TTAATT-AAGTAAAAATAGATATTTAAGAGT
1 TTAATTGAAGTAAAAATAAATATTTAAAAAT
*
11542218 TCAATTGAA-TAAAAATAAATATTTAAAAAT
1 TTAATTGAAGTAAAAATAAATATTTAAAAAT
11542248 TTAATTGA
1 TTAATTGA
11542256 TTCGAAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.37
Consensus pattern (31 bp):
TTAATTGAAGTAAAAATAAATATTTAAAAAT
Found at i:11542264 original size:30 final size:28
Alignment explanation
Indices: 11542230--11542316 Score: 77
Period size: 30 Copynumber: 3.0 Consensus size: 28
11542220 AATTGAATAA
11542230 AAATAAATATTTAAAAATTTAATTGATTCG
1 AAATAAA-ATTTAAAAATTTAATTGATT-G
* *
11542260 AAATAAAAAATTT-ATAATTTAATTTATTG
1 AAAT--AAAATTTAAAAATTTAATTGATTG
* * *
11542289 TAATAAAATGTTAGAAATTTAAATGATT
1 AAATAAAAT-TTAAAAATTTAATTGATT
11542317 ATCTATTCGA
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
27 5 0.11
28 2 0.04
29 15 0.33
30 17 0.37
31 4 0.09
32 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (28 bp):
AAATAAAATTTAAAAATTTAATTGATTG
Found at i:11542754 original size:31 final size:31
Alignment explanation
Indices: 11542716--11542777 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
11542706 AATAGAATAC
11542716 AAATTGCATAAGATAACATAAACATTTAGAT
1 AAATTGCATAAGATAACATAAACATTTAGAT
11542747 AAATTGCATAAGATAACATAAACATTTAGAT
1 AAATTGCATAAGATAACATAAACATTTAGAT
11542778 GCTAACTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (31 bp):
AAATTGCATAAGATAACATAAACATTTAGAT
Found at i:11547318 original size:18 final size:18
Alignment explanation
Indices: 11547295--11547394 Score: 73
Period size: 17 Copynumber: 5.6 Consensus size: 18
11547285 ATATTTTGAG
11547295 AATTTTGAATTTAAATTT
1 AATTTTGAATTTAAATTT
*
11547313 AATTTTTAATTTATAATTT
1 AATTTTGAATTTA-AATTT
* *
11547332 AAAGTTTG-ATTCAAATTT
1 -AATTTTGAATTTAAATTT
*
11547350 AA--TTAAATTTTAAATTT
1 AATTTTGAA-TTTAAATTT
* * *
11547367 AATTTT-TATTTAAAATA
1 AATTTTGAATTTAAATTT
*
11547384 AATATTGAATT
1 AATTTTGAATT
11547395 AATCAAATTC
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
15 2 0.03
16 1 0.02
17 24 0.38
18 21 0.33
19 11 0.17
20 5 0.08
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (18 bp):
AATTTTGAATTTAAATTT
Found at i:11547325 original size:5 final size:6
Alignment explanation
Indices: 11547302--11547368 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
11547292 GAGAATTTTG
* * * *
11547302 AATTTA AATTTA ATTTTT AATTTA TAATTTA AAGTTT- GATTCA AATTT-
1 AATTTA AATTTA AATTTA AATTTA -AATTTA AA-TTTA AATTTA AATTTA
11547350 AA-TTA AATTTTA AATTTA A
1 AATTTA AA-TTTA AATTTA A
11547369 TTTTTATTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
4 2 0.04
5 6 0.13
6 25 0.53
7 14 0.30
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:11548685 original size:161 final size:161
Alignment explanation
Indices: 11548420--11548742 Score: 619
Period size: 161 Copynumber: 2.0 Consensus size: 161
11548410 TGTTCTTGAC
*
11548420 CAGCGTTAGATAGCTCTTGATCTCCGCGCTCTTGATCGTAGTCGCTATCGTTTGCATACACGGTG
1 CAGCGTTAGATAGCTCTTGATCTCCGCGCGCTTGATCGTAGTCGCTATCGTTTGCATACACGGTG
11548485 CATTTAGGGTTCCAGAGGACTTATTCTTAGACGATCAGGAGCCTGCAAACTCGGGATTCTTCTCC
66 CATTTAGGGTTCCAGAGGACTTATTCTTAGACGATCAGGAGCCTGCAAACTCGGGATTCTTCTCC
*
11548550 TTCCTCGGAGGCGCCGCCTCCTCCGCTGCTG
131 TTCCTCGAAGGCGCCGCCTCCTCCGCTGCTG
*
11548581 CAGCGTTGGATAGCTCTTGATCTCCGCGCGCTTGATCGTAGTCGCTATCGTTTGCATACACGGTG
1 CAGCGTTAGATAGCTCTTGATCTCCGCGCGCTTGATCGTAGTCGCTATCGTTTGCATACACGGTG
11548646 CATTTAGGGTTCCAGAGGACTTATTCTTAGACGATCAGGAGCCTGCAAACTCGGGATTCTTCTCC
66 CATTTAGGGTTCCAGAGGACTTATTCTTAGACGATCAGGAGCCTGCAAACTCGGGATTCTTCTCC
11548711 TTCCTCGAAGGCGCCGCCTCCTCCGCTGCTG
131 TTCCTCGAAGGCGCCGCCTCCTCCGCTGCTG
11548742 C
1 C
11548743 TGCGGCGGCC
Statistics
Matches: 159, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 159 1.00
ACGTcount: A:0.17, C:0.29, G:0.25, T:0.29
Consensus pattern (161 bp):
CAGCGTTAGATAGCTCTTGATCTCCGCGCGCTTGATCGTAGTCGCTATCGTTTGCATACACGGTG
CATTTAGGGTTCCAGAGGACTTATTCTTAGACGATCAGGAGCCTGCAAACTCGGGATTCTTCTCC
TTCCTCGAAGGCGCCGCCTCCTCCGCTGCTG
Found at i:11564122 original size:17 final size:18
Alignment explanation
Indices: 11564086--11564128 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
11564076 ACAAACCAAA
11564086 TTATATATTTTTTATTAAT
1 TTATATATTTTTTA-TAAT
11564105 TTATATATTTTTTA-AAT
1 TTATATATTTTTTATAAT
*
11564122 TTTTATA
1 TTATATA
11564129 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.39
19 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATATATTTTTTATAAT
Found at i:11568496 original size:62 final size:61
Alignment explanation
Indices: 11568383--11568515 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
11568373 AAACGCTTTC
* * *
11568383 AATAATCCC-TTTCAATTTTTTTTAGAATTATTCAAAGCGTTTTTGATAAAAAAATACCTTG
1 AATAATCCCTTTTCAATTTTTTTTAGAATTATTCAAAGCGTTTTTGA-CAAAAAACACCTTA
* * * *
11568444 AATAATCCCTTTTTATTTTTTTTTAG-ATTATTCAATA-CGTTTTTTACCAAAAAACACTTTA
1 AATAATCCCTTTTCAATTTTTTTTAGAATTATTCAA-AGCGTTTTTGA-CAAAAAACACCTTA
11568505 AATAATCCCTT
1 AATAATCCCTT
11568516 ACAAAAAATT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
61 47 0.76
62 15 0.24
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (61 bp):
AATAATCCCTTTTCAATTTTTTTTAGAATTATTCAAAGCGTTTTTGACAAAAAACACCTTA
Found at i:11568573 original size:62 final size:62
Alignment explanation
Indices: 11568492--11568610 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 62
11568482 GTTTTTTACC
* *
11568492 AAAAAACACTTTAAATAATCCCTTACAAAAAATTGAATAAGGTTATTCAAGGCATTTATAGT
1 AAAAAACACCTTAAATAATCCCTTACAAAAAATTGAATAAGGCTATTCAAGGCATTTATAGT
* * * * *
11568554 AAAAAACACCTTGAATAATCCCTTATAAAAAATTGAATGAGGCTCTTTAAGGCATTT
1 AAAAAACACCTTAAATAATCCCTTACAAAAAATTGAATAAGGCTATTCAAGGCATTT
11568611 TTAACCAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (62 bp):
AAAAAACACCTTAAATAATCCCTTACAAAAAATTGAATAAGGCTATTCAAGGCATTTATAGT
Found at i:11568621 original size:62 final size:62
Alignment explanation
Indices: 11568483--11568624 Score: 167
Period size: 62 Copynumber: 2.3 Consensus size: 62
11568473 ATTCAATACG
* * *
11568483 TTTTTTACCAAAAAACACTTTAAATAATCCCTTACAAAAAATTGAATAAGGTTATTCAAGGCA
1 TTTTTAACC-AAAAACACCTTAAATAATCCCTTACAAAAAATTGAATAAGGCTATTCAAGGCA
* *** * * * * *
11568546 TTTATAGTAAAAAACACCTTGAATAATCCCTTATAAAAAATTGAATGAGGCTCTTTAAGGCA
1 TTTTTAACCAAAAACACCTTAAATAATCCCTTACAAAAAATTGAATAAGGCTATTCAAGGCA
11568608 TTTTTAACCAAAAACAC
1 TTTTTAACCAAAAACAC
11568625 ATTTAATTTT
Statistics
Matches: 63, Mismatches: 16, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
62 59 0.94
63 4 0.06
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (62 bp):
TTTTTAACCAAAAACACCTTAAATAATCCCTTACAAAAAATTGAATAAGGCTATTCAAGGCA
Found at i:11571568 original size:2 final size:2
Alignment explanation
Indices: 11571561--11571592 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11571551 CCCTTTTTGA
11571561 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11571593 TGTTTTTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11574061 original size:48 final size:48
Alignment explanation
Indices: 11573990--11574086 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
11573980 GAAAAGAAAA
*
11573990 ACCAGGTTTGGAGAAGTCTCATTCAGTTAAAAATTGCCTGTAGTTTGT
1 ACCAGGTTTGGAGAAGTCTCATTCAGCTAAAAATTGCCTGTAGTTTGT
11574038 ACCAGGTTTGGAGAAGTCTCATTCAGCTAAAAATTGCCTGTAGTTTGT
1 ACCAGGTTTGGAGAAGTCTCATTCAGCTAAAAATTGCCTGTAGTTTGT
11574086 A
1 A
11574087 GTCCTCGATG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (48 bp):
ACCAGGTTTGGAGAAGTCTCATTCAGCTAAAAATTGCCTGTAGTTTGT
Found at i:11578200 original size:2 final size:2
Alignment explanation
Indices: 11578195--11578229 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
11578185 TATGGGTGTG
*
11578195 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11578230 TTGATTGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11578434 original size:13 final size:13
Alignment explanation
Indices: 11578416--11578445 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
11578406 TATGTTATGC
11578416 TTAAAAATATTTT
1 TTAAAAATATTTT
11578429 TTAAAAATATTTT
1 TTAAAAATATTTT
11578442 TTAA
1 TTAA
11578446 TTATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAAAAATATTTT
Found at i:11580682 original size:21 final size:21
Alignment explanation
Indices: 11580629--11580679 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
11580619 ATAAAATTTT
11580629 AAATAAAATTATTTGATAAAC
1 AAATAAAATTATTTGATAAAC
*
11580650 AATTAAAATTATTT-ATTAAA-
1 AAATAAAATTATTTGA-TAAAC
11580670 AAATAAAATT
1 AAATAAAATT
11580680 TATATTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATAAAATTATTTGATAAAC
Found at i:11584268 original size:24 final size:24
Alignment explanation
Indices: 11584241--11584297 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
11584231 ATGTGACCAC
11584241 TCCAAGGAAATCAAGTGTG-AA-TAA
1 TCCAAGGAAATC-AG-GTGCAACTAA
*
11584265 TCCAAGGAGATCAGGTGCAACTAA
1 TCCAAGGAAATCAGGTGCAACTAA
11584289 TCCAAGGAA
1 TCCAAGGAA
11584298 GCATCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 3 0.10
23 4 0.14
24 22 0.76
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.18
Consensus pattern (24 bp):
TCCAAGGAAATCAGGTGCAACTAA
Found at i:11588293 original size:5 final size:6
Alignment explanation
Indices: 11588278--11588302 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11588268 GCATCATTCT
11588278 TTTTTG TTTTTG TTTTTG TTTTTG T
1 TTTTTG TTTTTG TTTTTG TTTTTG T
11588303 GATTTGGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:11588744 original size:12 final size:12
Alignment explanation
Indices: 11588727--11588754 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11588717 CACGTTAACC
11588727 ATGACCTCAACA
1 ATGACCTCAACA
11588739 ATGACCTCAACA
1 ATGACCTCAACA
11588751 ATGA
1 ATGA
11588755 AAAATTACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.29, G:0.11, T:0.18
Consensus pattern (12 bp):
ATGACCTCAACA
Found at i:11594144 original size:2 final size:2
Alignment explanation
Indices: 11594137--11594177 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
11594127 TTAATCAATG
*
11594137 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11594178 TTTTTGAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:11595276 original size:124 final size:123
Alignment explanation
Indices: 11594959--11595288 Score: 296
Period size: 124 Copynumber: 2.6 Consensus size: 123
11594949 TTTATGAGCA
* * * * * *
11594959 GATTATTCAAGGTA-TTTTTTACCTGAAACGCCTTCAAGAATCT-CTCATAAAAAATTGGAAGGG
1 GATTATTGAAGG-AGTTTTTTGCCTAAAACGCCTTCAATAATCTCCTTAT-AAAAATT-TAAGGG
* * * * * *
11595022 ATTATTAAATGTATTTTTTGTAAAAAATACCTTCAATAATCTTTTCTTCAAAATTTAAAGG
63 ATTATTAAAGGTTTTTTTTGTAAAAAATACCTTCAATAATCTTATCGTAAAAAATTAAAGG
* * * * *
11595083 GATTATTGAAGGTGTTTTTTGCCTAATATGCCTTCAATAATC-CCTTATAAAAAAGTATT-TGAG
1 GATTATTGAAGGAGTTTTTTGCCTAAAACGCCTTCAATAATCTCCTTAT-AAAAA-T-TTAAGGG
* * *
11595146 ACTATTAAAGGTTTTTTTTGTAGAAAATACCTTTAATAAT-TCTAT-GTAAAAAATTAAAGG
63 ATTATTAAAGGTTTTTTTTGTAAAAAATACCTTCAATAATCT-TATCGTAAAAAATTAAAGG
** *
11595206 AGATTATTGAAGGAG-TTTTTGGTTAAAAACGCCTTCAATAATCTCCTTATCAAAATTTAAGGGG
1 -GATTATTGAAGGAGTTTTTTGCCT-AAAACGCCTTCAATAATCTCCTTATAAAAATTTAA-GGG
11595270 ATTATTAAAAGCGTTTTTT
63 ATTATT-AAAG-GTTTTTT
11595289 GCCTGAAACG
Statistics
Matches: 165, Mismatches: 29, Indels: 22
0.76 0.13 0.10
Matches are distributed among these distances:
122 2 0.01
123 21 0.13
124 123 0.75
125 11 0.07
126 8 0.05
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (123 bp):
GATTATTGAAGGAGTTTTTTGCCTAAAACGCCTTCAATAATCTCCTTATAAAAATTTAAGGGATT
ATTAAAGGTTTTTTTTGTAAAAAATACCTTCAATAATCTTATCGTAAAAAATTAAAGG
Found at i:11598603 original size:13 final size:13
Alignment explanation
Indices: 11598585--11598609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11598575 TTAAATTATT
11598585 TTATTTTCGTATC
1 TTATTTTCGTATC
11598598 TTATTTTCGTAT
1 TTATTTTCGTAT
11598610 TGCATTCGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.64
Consensus pattern (13 bp):
TTATTTTCGTATC
Found at i:11600920 original size:13 final size:12
Alignment explanation
Indices: 11600872--11600925 Score: 56
Period size: 13 Copynumber: 4.3 Consensus size: 12
11600862 TTTATATTTG
*
11600872 ATAATTTAAAAT
1 ATAATATAAAAT
11600884 ATAATATAATAAT
1 ATAATATAA-AAT
*
11600897 ATTATAT-AAAT
1 ATAATATAAAAT
11600908 ATAATATCAAAAT
1 ATAATAT-AAAAT
11600921 GATAA
1 -ATAA
11600926 GATTTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
11 9 0.26
12 9 0.26
13 13 0.37
14 4 0.11
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:11602591 original size:19 final size:19
Alignment explanation
Indices: 11602569--11602608 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11602559 AAAACTTAAA
*
11602569 AATAAATATTAAACTATTT
1 AATAAATATTAAAATATTT
**
11602588 AATAGTTATTAAAATATTT
1 AATAAATATTAAAATATTT
11602607 AA
1 AA
11602609 ACTTATAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
AATAAATATTAAAATATTT
Found at i:11603365 original size:21 final size:20
Alignment explanation
Indices: 11603341--11603380 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11603331 AATATTTATA
*
11603341 AATAAATAATTAATATATTCG
1 AATAAAAAATTAAT-TATTCG
*
11603362 AATAAAAAATTTATTATTC
1 AATAAAAAATTAATTATTC
11603381 ATGACGGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (20 bp):
AATAAAAAATTAATTATTCG
Found at i:11606735 original size:11 final size:11
Alignment explanation
Indices: 11606719--11606762 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
11606709 AAATTTTAAA
11606719 TTATATTATTT
1 TTATATTATTT
11606730 TTATATTTTATTT
1 TTATA--TTATTT
* *
11606743 TTATATCATAT
1 TTATATTATTT
11606754 TTATATTAT
1 TTATATTAT
11606763 ATTATTGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 17 0.61
13 11 0.39
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATATTATTT
Found at i:11606740 original size:13 final size:13
Alignment explanation
Indices: 11606724--11606748 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11606714 TTAAATTATA
11606724 TTATTTTTATATT
1 TTATTTTTATATT
11606737 TTATTTTTATAT
1 TTATTTTTATAT
11606749 CATATTTATA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTTATATT
Found at i:11606748 original size:24 final size:24
Alignment explanation
Indices: 11606718--11606774 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
11606708 AAAATTTTAA
* *
11606718 ATTATATTATTTTTATATTTTATT
1 ATTATATTATATTTATATTATATT
* *
11606742 TTTATATCATATTTATATTATATT
1 ATTATATTATATTTATATTATATT
*
11606766 ATTGTATTA
1 ATTATATTA
11606775 CGTTTTAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (24 bp):
ATTATATTATATTTATATTATATT
Found at i:11607379 original size:4 final size:4
Alignment explanation
Indices: 11607372--11607396 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11607362 CATGCGACTG
11607372 AGTT AGTT AGTT AGTT AGTT AGTT A
1 AGTT AGTT AGTT AGTT AGTT AGTT A
11607397 CTAACTCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
AGTT
Found at i:11608137 original size:15 final size:14
Alignment explanation
Indices: 11608113--11608146 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
11608103 ATTTAAAAAA
11608113 TTAA-TTGATCAAAT
1 TTAATTTGATC-AAT
11608127 TTAATTTGATCAAT
1 TTAATTTGATCAAT
11608141 TTAATT
1 TTAATT
11608147 AATTTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (14 bp):
TTAATTTGATCAAT
Found at i:11608724 original size:25 final size:25
Alignment explanation
Indices: 11608687--11608735 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11608677 CCAATCAAAA
11608687 TATTTAAAATAAGATTT-ATTTATT
1 TATTTAAAATAAGATTTAATTTATT
*
11608711 TATTATAAAGTAAGATTTAATTTAT
1 TATT-TAAAATAAGATTTAATTTAT
11608736 GATAATAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 12 0.55
26 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (25 bp):
TATTTAAAATAAGATTTAATTTATT
Found at i:11608743 original size:25 final size:25
Alignment explanation
Indices: 11608691--11608743 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
11608681 TCAAAATATT
* *
11608691 TAAAATAAGATTTATTTATTTATTA
1 TAAAATAAGATTTATTTATTGATAA
*
11608716 TAAAGTAAGATTTAATTTA-TGATAA
1 TAAAATAAGATTT-ATTTATTGATAA
11608741 TAA
1 TAA
11608744 CAAAGACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (25 bp):
TAAAATAAGATTTATTTATTGATAA
Found at i:11609140 original size:3 final size:3
Alignment explanation
Indices: 11609074--11609121 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
11609064 AATTCAATAC
11609074 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11609122 GTACCTAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11615618 original size:6 final size:6
Alignment explanation
Indices: 11615607--11615682 Score: 52
Period size: 6 Copynumber: 12.8 Consensus size: 6
11615597 ATATAATAAA
* *
11615607 AAATTT AAATTT -AATTT AAAATTT ATTATTT AAAATTT -TATTT AAATTT
1 AAATTT AAATTT AAATTT -AAATTT A-AATTT -AAATTT AAATTT AAATTT
* * *
11615656 -AA-TT AAATTT AAAATA AAATTT TAATT
1 AAATTT AAATTT AAATTT AAATTT AAATT
11615683 ATTTAAATTC
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
4 2 0.04
5 13 0.24
6 25 0.46
7 13 0.24
8 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:11615630 original size:12 final size:11
Alignment explanation
Indices: 11615608--11615667 Score: 68
Period size: 11 Copynumber: 5.2 Consensus size: 11
11615598 TATAATAAAA
11615608 AATTTAAATTT
1 AATTTAAATTT
11615619 AATTTAAAATTT
1 AATTT-AAATTT
11615631 ATTATTTAAAATTT
1 A--ATTT-AAATTT
*
11615645 TATTTAAATTT
1 AATTTAAATTT
11615656 AA-TTAAATTT
1 AATTTAAATTT
11615666 AA
1 AA
11615668 AATAAAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
10 10 0.23
11 12 0.27
12 11 0.25
14 11 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:11615649 original size:26 final size:27
Alignment explanation
Indices: 11615608--11615670 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
11615598 TATAATAAAA
11615608 AATTT-AAATTTAATTTAAAATTT-ATT
1 AATTTAAAATTTAATTT-AAATTTAATT
*
11615634 -ATTTAAAATTTTATTTAAATTTAATT
1 AATTTAAAATTTAATTTAAATTTAATT
11615660 AAATTTAAAAT
1 -AATTTAAAAT
11615671 AAAATTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 10 0.31
26 13 0.41
28 9 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
AATTTAAAATTTAATTTAAATTTAATT
Found at i:11615794 original size:17 final size:17
Alignment explanation
Indices: 11615774--11615815 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11615764 AATTTAAATT
11615774 TAAATTAAT-ATATATAA
1 TAAATTAATAATA-ATAA
*
11615791 TAAAATAATAATAATAA
1 TAAATTAATAATAATAA
11615808 TAAATTAA
1 TAAATTAA
11615816 AATTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATTAATAATAATAA
Found at i:11615838 original size:18 final size:19
Alignment explanation
Indices: 11615810--11615845 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11615800 AATAATAATA
11615810 AATTAAAATTTAAAAATTC
1 AATTAAAATTTAAAAATTC
*
11615829 AATT-AAATTTATAAATT
1 AATTAAAATTTAAAAATT
11615846 ATTTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTAAAATTTAAAAATTC
Found at i:11621956 original size:21 final size:21
Alignment explanation
Indices: 11621915--11621956 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11621905 CTAATACTTT
* *
11621915 AGTATAAAAATGGTTATTTCA
1 AGTAGAAAAATGGTTAGTTCA
*
11621936 AGTAGAAAAATGGTTGGTTCA
1 AGTAGAAAAATGGTTAGTTCA
11621957 GCAGACTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (21 bp):
AGTAGAAAAATGGTTAGTTCA
Found at i:11628802 original size:2 final size:2
Alignment explanation
Indices: 11628795--11628828 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11628785 AGTGGCTGAA
*
11628795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11628829 TCTAATAGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:11631653 original size:2 final size:2
Alignment explanation
Indices: 11631646--11631675 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11631636 ACATACATAC
*
11631646 AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11631676 TGCAGTCTAT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11631809 original size:3 final size:3
Alignment explanation
Indices: 11631801--11631834 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
11631791 TAGGCTTGGG
11631801 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11631835 GACCATAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11633463 original size:25 final size:25
Alignment explanation
Indices: 11633435--11633488 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
11633425 TAATAATAAT
11633435 AATTATTATAACTACAATTAAAAAA
1 AATTATTATAACTACAATTAAAAAA
* ** *
11633460 AATTATTATTACTGTAATTGAAAAA
1 AATTATTATAACTACAATTAAAAAA
11633485 AATT
1 AATT
11633489 TTAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (25 bp):
AATTATTATAACTACAATTAAAAAA
Found at i:11637782 original size:25 final size:24
Alignment explanation
Indices: 11637754--11637806 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
11637744 ATTTAATGAT
11637754 TTATATATT-TATATCATATAAAATA
1 TTATA-ATTATATATCATATAAAA-A
* *
11637779 TTATAATTATATTTTATATAAAAA
1 TTATAATTATATATCATATAAAAA
11637803 TTAT
1 TTAT
11637807 GTATCATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TTATAATTATATATCATATAAAAA
Found at i:11637819 original size:25 final size:25
Alignment explanation
Indices: 11637769--11637822 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
11637759 TATTTATATC
* *
11637769 ATATAAAATATTATAATTATATTTT
1 ATATAAAATATTATAATCATAATTT
*
11637794 ATATAAAA-ATTATGTATCATAATTT
1 ATATAAAATATTAT-AATCATAATTT
11637819 ATAT
1 ATAT
11637823 TAATATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATAAAATATTATAATCATAATTT
Found at i:11637919 original size:11 final size:11
Alignment explanation
Indices: 11637903--11637939 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
11637893 AATTTTTATT
11637903 TTTATATAATA
1 TTTATATAATA
11637914 TTTATATAATA
1 TTTATATAATA
11637925 -TTAT-T-ATA
1 TTTATATAATA
11637933 TTTATAT
1 TTTATAT
11637940 TTTAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 3 0.12
9 5 0.21
10 5 0.21
11 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTATATAATA
Found at i:11637931 original size:13 final size:12
Alignment explanation
Indices: 11637902--11637943 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
11637892 AAATTTTTAT
11637902 TTTTATATAATA
1 TTTTATATAATA
11637914 -TTTATATAATA
1 TTTTATATAATA
*
11637925 TTATTATATTTATA
1 TT-TTATA-TAATA
11637939 TTTTA
1 TTTTA
11637944 AATTAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 11 0.42
12 1 0.04
13 8 0.31
14 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTATATAATA
Found at i:11640991 original size:14 final size:15
Alignment explanation
Indices: 11640966--11640994 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11640956 CGTGCTTTCG
11640966 ATGTTAGTATGTTGT
1 ATGTTAGTATGTTGT
11640981 ATGTT-GTATGTTGT
1 ATGTTAGTATGTTGT
11640995 TGAAACTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (15 bp):
ATGTTAGTATGTTGT
Found at i:11642442 original size:21 final size:21
Alignment explanation
Indices: 11642390--11642442 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
11642380 TTTAATTTAT
*
11642390 ATATATATATGTAAAAATGAAAA
1 ATATATA-AT-TAAAAATAAAAA
* *
11642413 TTATA-AATTATAAATAAAAA
1 ATATATAATTAAAAATAAAAA
11642433 ATATATAATT
1 ATATATAATT
11642443 TTTATTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 14 0.56
21 6 0.24
22 1 0.04
23 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
ATATATAATTAAAAATAAAAA
Found at i:11642477 original size:11 final size:11
Alignment explanation
Indices: 11642433--11642484 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
11642423 TAAATAAAAA
11642433 ATATATAATTT
1 ATATATAATTT
*
11642444 TTAT-TATATTT
1 ATATATA-ATTT
11642455 ATGA-ATTAATTT
1 AT-ATA-TAATTT
11642467 ATATATAATTT
1 ATATATAATTT
11642478 ATATATA
1 ATATATA
11642485 TAAATAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
10 2 0.06
11 22 0.65
12 8 0.24
13 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (11 bp):
ATATATAATTT
Found at i:11643325 original size:22 final size:22
Alignment explanation
Indices: 11643277--11643326 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
11643267 AATAGTATAT
*
11643277 AAAAATAAAAAAATTTAAATTT
1 AAAAATAAAAAAATTTAAATTG
* *
11643299 AAAAATCAATAAATTT-AATTG
1 AAAAATAAAAAAATTTAAATTG
11643320 ATAAAAT
1 A-AAAAT
11643327 TTAATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAAATAAAAAAATTTAAATTG
Found at i:11657884 original size:2 final size:2
Alignment explanation
Indices: 11657877--11657909 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11657867 CCTTAAATTG
11657877 AT AT AT AT AT AT AT 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 A
11657910 AAGGTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11663848 original size:3 final size:3
Alignment explanation
Indices: 11663842--11663876 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11663832 ATAATAATAA
11663842 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11663877 ATAAAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11663927 original size:29 final size:26
Alignment explanation
Indices: 11663871--11663921 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
11663861 ATTATTATTA
*
11663871 TTATTAATAAAAAGAAAGTTCAATAT
1 TTATTAATAAAAAGAAAGTTCAAAAT
11663897 TTATTAATAAAAAGAAAGTTCAAAA
1 TTATTAATAAAAAGAAAGTTCAAAA
11663922 AAATTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (26 bp):
TTATTAATAAAAAGAAAGTTCAAAAT
Found at i:11664629 original size:2 final size:2
Alignment explanation
Indices: 11664622--11664653 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11664612 CATGAGCTTA
11664622 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11664654 GTGGCATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11668556 original size:22 final size:22
Alignment explanation
Indices: 11668492--11668600 Score: 85
Period size: 22 Copynumber: 4.9 Consensus size: 22
11668482 TCAATTGATA
* *
11668492 ATTAAAGTCATTACTGATTTATT
1 ATTAAA-TTATTAATGATTTATT
* * * *
11668515 ACTACATTATTAGTGGTTTATT
1 ATTAAATTATTAATGATTTATT
*
11668537 ATTAAATTATTAATGATTTA-C
1 ATTAAATTATTAATGATTTATT
* * *
11668558 ATTTAAGTTATAAATGATTTACT
1 A-TTAAATTATTAATGATTTATT
* *
11668581 ATTAAGTTATTGATGATTTA
1 ATTAAATTATTAATGATTTA
11668601 GTACTAAGTT
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
21 1 0.01
22 63 0.91
23 5 0.07
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.49
Consensus pattern (22 bp):
ATTAAATTATTAATGATTTATT
Found at i:11668608 original size:22 final size:22
Alignment explanation
Indices: 11668543--11668670 Score: 102
Period size: 22 Copynumber: 5.8 Consensus size: 22
11668533 TATTATTAAA
* *
11668543 TTATTAATGATTTAC-ATTTAAG
1 TTATTGATGATTTACTA-CTAAG
** *
11668565 TTATAAATGATTTACTATTAAG
1 TTATTGATGATTTACTACTAAG
*
11668587 TTATTGATGATTTAGTACTAAG
1 TTATTGATGATTTACTACTAAG
*
11668609 TTATTGATAATTTACTA-TAAAG
1 TTATTGATGATTTACTACT-AAG
* *
11668631 TTA-TAACTAATTTACTA-TGAAG
1 TTATTGA-TGATTTACTACT-AAG
*
11668653 TTATCGATGATTTACTAC
1 TTATTGATGATTTACTAC
11668671 AAAATTACAA
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
21 3 0.03
22 84 0.94
23 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (22 bp):
TTATTGATGATTTACTACTAAG
Found at i:11668613 original size:66 final size:66
Alignment explanation
Indices: 11668543--11668666 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 66
11668533 TATTATTAAA
* * * * *
11668543 TTATTAATGATTTAC-ATTTAAGTTATAAATGATTTACTATTAAGTTATTGATGATTTAGTACTA
1 TTATTAATAATTTACTA-TAAAGTTATAAATAATTTACTATGAAGTTATCGATGATTTAGTACTA
11668607 AG
65 AG
* *
11668609 TTATTGATAATTTACTATAAAGTTATAACTAATTTACTATGAAGTTATCGATGATTTA
1 TTATTAATAATTTACTATAAAGTTATAAATAATTTACTATGAAGTTATCGATGATTTA
11668667 CTACAAAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 49 0.98
67 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (66 bp):
TTATTAATAATTTACTATAAAGTTATAAATAATTTACTATGAAGTTATCGATGATTTAGTACTAA
G
Found at i:11668698 original size:66 final size:65
Alignment explanation
Indices: 11668540--11668702 Score: 159
Period size: 66 Copynumber: 2.5 Consensus size: 65
11668530 GTTTATTATT
* * * * * * *
11668540 AAATTATTAATGATTTACATTTAAGTTATAAATGATTTACTATTAAGTTATTGATGATTTAGTAC
1 AAATTATTGATAATATACA-TTAAGTTATAAATAATTTACTATGAAGTTATCGATGATTTACTAC
*
11668605 T
65 A
* * * *
11668606 AAGTTATTGATAATTTACTATAAAGTTATAACTAATTTACTATGAAGTTATCGATGATTTACTAC
1 AAATTATTGATAATATAC-ATTAAGTTATAAATAATTTACTATGAAGTTATCGATGATTTACTAC
11668671 A
65 A
11668672 AAATTACAATTGAT-ATATA-ATTAAGTTATAA
1 AAATT---ATTGATAATATACATTAAGTTATAA
11668703 GTGACTTATT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
66 69 0.86
67 1 0.01
68 4 0.05
69 6 0.08
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (65 bp):
AAATTATTGATAATATACATTAAGTTATAAATAATTTACTATGAAGTTATCGATGATTTACTACA
Found at i:11668847 original size:22 final size:21
Alignment explanation
Indices: 11668792--11668848 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
11668782 CAATAGTTAG
* *
11668792 CTATTAAGTTAGTAATTATTTA
1 CTATTAAGTTA-TTATTAATTA
* *
11668814 CTACTAAATTATTATTGAATTA
1 CTATTAAGTTATTATT-AATTA
11668836 CTATTAAGTTATT
1 CTATTAAGTTATT
11668849 TATGGTATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (21 bp):
CTATTAAGTTATTATTAATTA
Found at i:11669114 original size:22 final size:21
Alignment explanation
Indices: 11669089--11669134 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
11669079 TACTACTCAC
**
11669089 TTACTACTATCTTATCACTAAT
1 TTACTACTAAATTATCA-TAAT
11669111 TTACTACTAAATTATCATAAT
1 TTACTACTAAATTATCATAAT
11669132 TTA
1 TTA
11669135 TTATTAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (21 bp):
TTACTACTAAATTATCATAAT
Found at i:11669279 original size:22 final size:22
Alignment explanation
Indices: 11669109--11669432 Score: 157
Period size: 22 Copynumber: 14.4 Consensus size: 22
11669099 CTTATCACTA
* *
11669109 ATTTACTACTAAA-TTA-TCATA
1 ATTTACTA-TAAAGTTATTAATG
* *
11669130 ATTTATTATTAAGTTA-TAGATG
1 ATTTACTATAAAGTTATTA-ATG
*
11669152 ATTTACAACT-AAGTTA-TAGATG
1 ATTTACTA-TAAAGTTATTA-ATG
* * * *
11669174 ATTTATTACT-TAGTTATTGATA
1 ATTTACTA-TAAAGTTATTAATG
* *
11669196 ATTTACTATTAAGTTATTAATA
1 ATTTACTATAAAGTTATTAATG
* * **
11669218 ATTTATTATAATGTTATTACCG
1 ATTTACTATAAAGTTATTAATG
11669240 ATTTACTATAAAGTTATTAATG
1 ATTTACTATAAAGTTATTAATG
*
11669262 ATTTACTATAAAGTTATTAATA
1 ATTTACTATAAAGTTATTAATG
* * *
11669284 ATTAACTAATTTACAACTAAATTATCATTG
1 ATTTACT-A--TA-AAGT-TATTA--A-TG
* *
11669314 ATTTA-TAATTAAA-TTATCACTG
1 ATTTACT-A-TAAAGTTATTAATG
* *
11669336 ATTTACAATTAAGTTATTAAT-
1 ATTTACTATAAAGTTATTAATG
* * *
11669357 ATTTTACTATTACGTTATTAGTG
1 A-TTTACTATAAAGTTATTAATG
* *
11669380 ATTTACTACT-AAGTTATAAATA
1 ATTTACTA-TAAAGTTATTAATG
11669402 ATTTACTACTAAA-TTATTAATG
1 ATTTACTA-TAAAGTTATTAATG
11669424 ATTTACTAT
1 ATTTACTAT
11669433 TATACTATTA
Statistics
Matches: 238, Mismatches: 46, Indels: 38
0.74 0.14 0.12
Matches are distributed among these distances:
20 3 0.01
21 17 0.07
22 184 0.77
23 7 0.03
25 5 0.02
26 4 0.02
27 6 0.03
28 3 0.01
29 4 0.02
30 5 0.02
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (22 bp):
ATTTACTATAAAGTTATTAATG
Found at i:11669743 original size:22 final size:22
Alignment explanation
Indices: 11669305--11669879 Score: 121
Period size: 22 Copynumber: 26.2 Consensus size: 22
11669295 TACAACTAAA
* *
11669305 TTATCATTGATTTA-TAATTAAA
1 TTATAATTGATTTACT-ATTAAG
* * *
11669327 TTATCACTGATTTACAATTAAG
1 TTATAATTGATTTACTATTAAG
*
11669349 TTATTAA-T-ATTTTACTATTACG
1 TTA-TAATTGA-TTTACTATTAAG
* * *
11669371 TTATTAGTGATTTACTACTAAG
1 TTATAATTGATTTACTATTAAG
* * * *
11669393 TTATAAATAATTTACTACTAAA
1 TTATAATTGATTTACTATTAAG
11669415 TTATTAA-TGATTTACTATTATA-
1 TTA-TAATTGATTTACTATTA-AG
* * ** * *
11669437 CTATTATACATTTGCTACTT-TG
1 TTATAATTGATTTACTA-TTAAG
* *
11669459 TTATCATTGATTTACTATTGAG
1 TTATAATTGATTTACTATTAAG
* * * *
11669481 TT-TTAGTGATTAACTATTAAA
1 TTATAATTGATTTACTATTAAG
* **
11669502 TTATCATTGATTTA-TCGCTAAG
1 TTATAATTGATTTACT-ATTAAG
* * *
11669524 TTAT-TTATGATTTACTACTAAAT
1 TTATAAT-TGATTTACTA-TTAAG
* * * *
11669547 TTATAATTTAATTACTTTTAAA
1 TTATAATTGATTTACTATTAAG
* ** * * *
11669569 CTA-AACTAAATTTATTGTTATG
1 TTATAA-TTGATTTACTATTAAG
* * * * *
11669591 CTATCACTAATTTACTACTAAG
1 TTATAATTGATTTACTATTAAG
* * * * *
11669613 TTTTCATTGATTTACCACTAAA
1 TTATAATTGATTTACTATTAAG
*
11669635 TTATAA-TGATTAACTATTAAG
1 TTATAATTGATTTACTATTAAG
* * *
11669656 TTATCATT--TTT-TTATGAAG
1 TTATAATTGATTTACTATTAAG
* * * * *
11669675 TTATCATTAATTTACAACTATG
1 TTATAATTGATTTACTATTAAG
* * * *
11669697 TTATTA-TGCATTTACAACTATG
1 TTATAATTG-ATTTACTATTAAG
*
11669719 TTATAATTGATTTATTATTAAG
1 TTATAATTGATTTACTATTAAG
* *
11669741 TTATTA-TGCTTTGACTATTATA-
1 TTATAATTGATTT-ACTATTA-AG
* * * * *
11669763 TTATTACTAATTTACTACTAAA
1 TTATAATTGATTTACTATTAAG
*
11669785 TTATAATTGATATACTATTAAG
1 TTATAATTGATTTACTATTAAG
* * *
11669807 TTATATCTCTAATTTACTATATTAAA
1 TTATA-AT-TGATTTAC--TATTAAG
* *
11669833 TTATTA-TGATTAACTATTAA-
1 TTATAATTGATTTACTATTAAG
*
11669853 TT-T-ACTGATAATTACTATTAAG
1 TTATAATTGAT--TTACTATTAAG
11669875 TTATA
1 TTATA
11669880 CTAATTTACT
Statistics
Matches: 401, Mismatches: 113, Indels: 76
0.68 0.19 0.13
Matches are distributed among these distances:
18 1 0.00
19 19 0.05
20 4 0.01
21 68 0.17
22 253 0.63
23 39 0.10
24 7 0.02
26 10 0.02
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (22 bp):
TTATAATTGATTTACTATTAAG
Found at i:11669851 original size:21 final size:20
Alignment explanation
Indices: 11669826--11669878 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
11669816 TAATTTACTA
* *
11669826 TATTAAATTATTATGATTAAC
1 TATTAAATTATGATAATT-AC
*
11669847 TATTAATTTACTGATAATTAC
1 TATTAAATTA-TGATAATTAC
*
11669868 TATTAAGTTAT
1 TATTAAATTAT
11669879 ACTAATTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 6 0.22
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (20 bp):
TATTAAATTATGATAATTAC
Found at i:11669988 original size:20 final size:19
Alignment explanation
Indices: 11669954--11669991 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
11669944 TTACTAAGCT
*
11669954 ATTTATAATTTATTACTAA
1 ATTTATAATTAATTACTAA
11669973 ATTTATCAATTAATTACTA
1 ATTTAT-AATTAATTACTA
11669992 CTCCTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTATAATTAATTACTAA
Found at i:11670290 original size:22 final size:22
Alignment explanation
Indices: 11670265--11670558 Score: 103
Period size: 22 Copynumber: 13.8 Consensus size: 22
11670255 ACTGAATATT
*
11670265 ATTTACTATTAAGTTATCATTG
1 ATTTACTATTAAGTTATCATTA
* * *
11670287 ATTTATTACTAAGTTATCAATA
1 ATTTACTATTAAGTTATCATTA
* *
11670309 ATTAACT-TCTAAGTTATCATTT
1 ATTTACTAT-TAAGTTATCATTA
** *
11670331 ATTTTTTATTAAGTTATCTTTA
1 ATTTACTATTAAGTTATCATTA
* *
11670353 ATTTACTAATATGTGT-T-A-TA
1 ATTTACTATTAAGT-TATCATTA
* * * * * *
11670373 CATTTACAATCATG-TATAAATG
1 -ATTTACTATTAAGTTATCATTA
* * *
11670395 ATTTACTGTTAAGTTAT-TTGTT
1 ATTTACTATTAAGTTATCAT-TA
* * * *
11670417 ATTTCCTACTATGTTATTATT-
1 ATTTACTATTAAGTTATCATTA
* *
11670438 ATTTATTATTATGTTATCA-T-
1 ATTTACTATTAAGTTATCATTA
* * * *
11670458 A--CACTATT--TTTTTGAATT-
1 ATTTACTATTAAGTTAT-CATTA
* * *
11670476 ATTTACTACTAAGTGATTATTA
1 ATTTACTATTAAGTTATCATTA
* *
11670498 TTTTACTATTAAGTTATTATTA
1 ATTTACTATTAAGTTATCATTA
*
11670520 TTTTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTA
* *
11670542 ATTTAGTATAAAGTTAT
1 ATTTACTATTAAGTTAT
11670559 TACTGATTTT
Statistics
Matches: 198, Mismatches: 57, Indels: 34
0.69 0.20 0.12
Matches are distributed among these distances:
16 3 0.02
17 1 0.01
18 7 0.04
19 1 0.01
20 10 0.05
21 38 0.19
22 135 0.68
23 3 0.02
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.52
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTA
Found at i:11670445 original size:10 final size:11
Alignment explanation
Indices: 11670426--11670454 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
11670416 TATTTCCTAC
11670426 TATGTTATTAT
1 TATGTTATTAT
11670437 TAT-TTATTAT
1 TATGTTATTAT
11670447 TATGTTAT
1 TATGTTAT
11670455 CATACACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (11 bp):
TATGTTATTAT
Found at i:11670518 original size:11 final size:11
Alignment explanation
Indices: 11670485--11670560 Score: 53
Period size: 11 Copynumber: 6.9 Consensus size: 11
11670475 TATTTACTAC
*
11670485 TAAGTGATTAT
1 TAAGTTATTAT
** *
11670496 TATTTTACTAT
1 TAAGTTATTAT
11670507 TAAGTTATTAT
1 TAAGTTATTAT
** *
11670518 TATTTTACTAT
1 TAAGTTATTAT
*
11670529 TAAGTTATCAT
1 TAAGTTATTAT
* *
11670540 TAATTTAGTAT
1 TAAGTTATTAT
*
11670551 AAAGTTATTA
1 TAAGTTATTA
11670561 CTGATTTTGT
Statistics
Matches: 45, Mismatches: 20, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
11 45 1.00
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.53
Consensus pattern (11 bp):
TAAGTTATTAT
Found at i:11670567 original size:22 final size:21
Alignment explanation
Indices: 11670533--11670589 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
11670523 TACTATTAAG
*
11670533 TTATCATTAATTTAGTATAAA
1 TTATCACTAATTTAGTATAAA
* * * *
11670554 GTTATTACTGATTTTGTCTAAA
1 -TTATCACTAATTTAGTATAAA
11670576 TTATCACTAATTTA
1 TTATCACTAATTTA
11670590 TAACAAAACT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (21 bp):
TTATCACTAATTTAGTATAAA
Found at i:11672115 original size:23 final size:23
Alignment explanation
Indices: 11672089--11672133 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11672079 TCTTATTCAA
* *
11672089 GATTAATA-TTTCTTAACAATATT
1 GATT-ATAGTTTCATAAAAATATT
11672112 GATTATAGTTTCATAAAAATAT
1 GATTATAGTTTCATAAAAATAT
11672134 CTTAAGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (23 bp):
GATTATAGTTTCATAAAAATATT
Found at i:11673801 original size:14 final size:13
Alignment explanation
Indices: 11673771--11673819 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
11673761 ATGAAGTTTG
* *
11673771 TAAAAATTTATAT
1 TAAAAATTTTTAA
11673784 TAAAAATTATTTAA
1 TAAAAATT-TTTAA
11673798 TAAAAA-TTTTAA
1 TAAAAATTTTTAA
11673810 TATAAAATTT
1 TA-AAAATTT
11673820 AAATTGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 7 0.23
13 13 0.42
14 11 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAAAATTTTTAA
Found at i:11673946 original size:14 final size:15
Alignment explanation
Indices: 11673917--11673950 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11673907 AAAAATTATC
*
11673917 AATATTTTTATTAAA
1 AATATTTATATTAAA
11673932 AATATTTAT-TTAAA
1 AATATTTATATTAAA
11673946 AATAT
1 AATAT
11673951 ATAACAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTTATATTAAA
Found at i:11674514 original size:3 final size:3
Alignment explanation
Indices: 11674506--11674533 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11674496 CTTTGATCAT
11674506 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
11674534 TGATGATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11674538 original size:3 final size:3
Alignment explanation
Indices: 11674532--11674559 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11674522 AGAAGAAGAA
11674532 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
11674560 CTCATGAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:11683420 original size:21 final size:21
Alignment explanation
Indices: 11683396--11683453 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
11683386 GATTGGAATT
*
11683396 TTTATTAATTTAATTTTTAAC
1 TTTATTAATTTAATTTTAAAC
* * *
11683417 TTTATTTGATTTAA-ATTAAAT
1 TTTA-TTAATTTAATTTTAAAC
*
11683438 TTTATTAGTTTAATTT
1 TTTATTAATTTAATTT
11683454 AATTTATTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
20 7 0.25
21 13 0.46
22 8 0.29
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTATTAATTTAATTTTAAAC
Found at i:11683500 original size:19 final size:18
Alignment explanation
Indices: 11683454--11683504 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 18
11683444 AGTTTAATTT
11683454 AATTTATTTTATTGGTTTTTA
1 AATTTATTTTA-T--TTTTTA
11683475 AATTTATTTTATTTTTTA
1 AATTTATTTTATTTTTTA
*
11683493 TATATTATTTTA
1 AAT-TTATTTTA
11683505 ATAAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 8 0.29
19 8 0.29
20 1 0.04
21 11 0.39
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (18 bp):
AATTTATTTTATTTTTTA
Found at i:11683533 original size:12 final size:12
Alignment explanation
Indices: 11683487--11683534 Score: 55
Period size: 11 Copynumber: 4.1 Consensus size: 12
11683477 TTTATTTTAT
*
11683487 TTTTTATATATTA
1 TTTTAATATA-TA
*
11683500 TTTTAATA-AAA
1 TTTTAATATATA
11683511 TTTTAA-ATATA
1 TTTTAATATATA
11683522 TTTTAATATATA
1 TTTTAATATATA
11683534 T
1 T
11683535 AATTTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 1 0.03
11 15 0.50
12 7 0.23
13 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTTAATATATA
Found at i:11683576 original size:10 final size:10
Alignment explanation
Indices: 11683563--11683595 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11683553 ACAAAAATTT
11683563 TAAAAATATA
1 TAAAAATATA
11683573 TAAAAAT-TAA
1 TAAAAATAT-A
11683583 TAAAAATATA
1 TAAAAATATA
11683593 TAA
1 TAA
11683596 TTTGATTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 1 0.05
10 19 0.90
11 1 0.05
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
TAAAAATATA
Found at i:11683690 original size:22 final size:23
Alignment explanation
Indices: 11683647--11683691 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
11683637 AAATTTTAAA
*
11683647 ATTTTATTTGAATTCAACCTGAT
1 ATTTTATTTGAAATCAACCTGAT
* *
11683670 ATTTT-TTTGAAATGAATCTGAT
1 ATTTTATTTGAAATCAACCTGAT
11683692 TTAAATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (23 bp):
ATTTTATTTGAAATCAACCTGAT
Found at i:11683737 original size:13 final size:13
Alignment explanation
Indices: 11683700--11683750 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
11683690 ATTTAAATTA
11683700 AATTTTATTTTTT
1 AATTTTATTTTTT
* *
11683713 GATTTGATTTTTT
1 AATTTTATTTTTT
*
11683726 AATTTTAATTTTT
1 AATTTTATTTTTT
*
11683739 ATATATTATTTT
1 A-ATTTTATTTT
11683751 AATAAAATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 22 0.73
14 8 0.27
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (13 bp):
AATTTTATTTTTT
Found at i:11683750 original size:25 final size:25
Alignment explanation
Indices: 11683700--11683777 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 25
11683690 ATTTAAATTA
* *
11683700 AATTTTATTTTTTGATTTGATT-TTTT
1 AATTTTAATTTTT-ATAT-ATTATTTT
11683726 AATTTTAATTTTTATATATTATTTT
1 AATTTTAATTTTTATATATTATTTT
** *
11683751 AA-TAAAATTTTTA-ATA-TATTTA
1 AATTTTAATTTTTATATATTATTTT
11683773 AATTT
1 AATTT
11683778 ATATATTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
22 7 0.16
23 4 0.09
24 12 0.27
25 9 0.20
26 12 0.27
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (25 bp):
AATTTTAATTTTTATATATTATTTT
Found at i:11683947 original size:247 final size:246
Alignment explanation
Indices: 11683480--11683947 Score: 508
Period size: 251 Copynumber: 1.9 Consensus size: 246
11683470 TTTTAAATTT
* * **
11683480 ATTTTATTTTTTATATATTATTTTAATAAAATTTTAAATATATTTTAATATATATAATTTTTATT
1 ATTTTAATTTTTATATATTATTTTAATAAAATTTTAAATATATTTAAATATATATAATAATTATT
* ** *
11683545 TTTATTTTACAAAAATTTTAAAAATATATAAAAATTAATAAAAATATATAATTTGATTAGATTTG
66 TTTATTTTACAAAAATTTAAAAAATATATAAAAATTAATAAAAATATATAATTCAATTAGATTTC
* * * * **
11683610 ATTTTTTTAAATAATATATAATATTATAAATTTTAAAATTTTATTTGAATTCAACCTGATATTTT
131 ATTTTTTTAAATAATATATAATATTATAAAATTTAAAATTATATTTGAATT-AACCTAAAATTAA
* * **
11683675 TTTGAAATGAATCTGATTTAAATTAAATTTTATTTTTTGATTTGATTTTTTA
195 TTTGAAATCAATATGATAAAAATTAAATTTTATTTTTTGATTTGATTTTTTA
*
11683727 ATTTTAATTTTTATATATTATTTTAATAAAATTTTTAATATATTTAAATTTATATATTAAATAAT
1 ATTTTAATTTTTATATATTATTTTAATAAAATTTTAAATATATTTAAA--TATATA-T-AATAAT
* *
11683792 TATTTTTATTTTACAAAAA-TTAAAAATATATATAAAAATTGATAAAAATATATTATTCAATTCA
62 TATTTTTATTTTACAAAAATTTAAAAA-ATATATAAAAATTAATAAAAATATATAATTCAATT-A
* ** *
11683856 -A-TTCATTTTTTTATATTTTGATCATAA-ATTCAACTAAAATTTAATATATATATTT-AA-T-A
125 GATTTCATTTTTTTAAATAAT-AT-ATAATATT--A-TAAAATTTAAAAT-TATATTTGAATTAA
*
11683915 TCTAAAATTAATTT-AAATCAA-AT-A-AAAAATTAA
184 CCTAAAATTAATTTGAAATCAATATGATAAAAATTAA
11683948 TTTAAATTTA
Statistics
Matches: 183, Mismatches: 26, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
247 52 0.28
248 1 0.01
249 7 0.04
250 27 0.15
251 70 0.38
252 5 0.03
253 2 0.01
254 13 0.07
255 6 0.03
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (246 bp):
ATTTTAATTTTTATATATTATTTTAATAAAATTTTAAATATATTTAAATATATATAATAATTATT
TTTATTTTACAAAAATTTAAAAAATATATAAAAATTAATAAAAATATATAATTCAATTAGATTTC
ATTTTTTTAAATAATATATAATATTATAAAATTTAAAATTATATTTGAATTAACCTAAAATTAAT
TTGAAATCAATATGATAAAAATTAAATTTTATTTTTTGATTTGATTTTTTA
Found at i:11695485 original size:63 final size:64
Alignment explanation
Indices: 11695386--11695548 Score: 201
Period size: 63 Copynumber: 2.6 Consensus size: 64
11695376 AAGTGGGATA
* * * *
11695386 AATTTTCAATATCCTGTATTTTTATATAT-AGGTTGGACT-CCTCCAAAAGTGAGAA-AAATTTT
1 AATTTTCAATATCTTGTATTCTTATAT-TCAAGTTGGACTCCCTCCAAAAGT-AAAATAAATTTT
11695448 T
64 T
* * *
11695449 AATTTTTAATATATTGTATTCTTATATTCAAGTTGGA-TCCCTCTAAAAGTAAAATAAATTTTT
1 AATTTTCAATATCTTGTATTCTTATATTCAAGTTGGACTCCCTCCAAAAGTAAAATAAATTTTT
*
11695512 AATTTTCAATA-CTTGTAATCTTATATTCAAGTTGGAC
1 AATTTTCAATATCTTGTATTCTTATATTCAAGTTGGAC
11695549 CATTTCACTT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
62 28 0.33
63 58 0.67
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (64 bp):
AATTTTCAATATCTTGTATTCTTATATTCAAGTTGGACTCCCTCCAAAAGTAAAATAAATTTTT
Found at i:11697679 original size:9 final size:9
Alignment explanation
Indices: 11697667--11697692 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11697657 TAATTATATA
11697667 AATTAATTG
1 AATTAATTG
11697676 AATTAATTG
1 AATTAATTG
11697685 AATTAATT
1 AATTAATT
11697693 TTTAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (9 bp):
AATTAATTG
Found at i:11697910 original size:12 final size:12
Alignment explanation
Indices: 11697873--11697922 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
11697863 CAATTTATCG
11697873 ATTTTTAA-AAT
1 ATTTTTAATAAT
11697884 -TTTTT-ATACATT
1 ATTTTTAATA-A-T
11697896 ATTTTTAATAAT
1 ATTTTTAATAAT
11697908 ATTTTTAAT-AT
1 ATTTTTAATAAT
11697919 ATTT
1 ATTT
11697923 ATAAAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
9 1 0.03
10 6 0.18
11 7 0.21
12 11 0.32
13 6 0.18
14 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTTTTAATAAT
Found at i:11702430 original size:79 final size:79
Alignment explanation
Indices: 11702299--11702459 Score: 209
Period size: 79 Copynumber: 2.0 Consensus size: 79
11702289 ATAAATGATA
* *
11702299 AAGGTAATGCTAACGGCGGTAACTGCTGGCAACAAAGCAACGTCCACATAGACACATACGATGGG
1 AAGGTAATGCTAACGGCAGTAACTGCTGGCAACAAAGCAACGTCCACATAGACACATACGATAGG
11702364 TTTCAATATGGTTT
66 TTTCAATATGGTTT
* * ** **
11702378 AAGGTAATGCTAATGGCAGTAACTAG-TGGCAACAAGGCAACGTTCC-TGTAGACACATTTGATA
1 AAGGTAATGCTAACGGCAGTAACT-GCTGGCAACAAAGCAACG-TCCACATAGACACATACGATA
*
11702441 GGTTTCAATTTGGTTT
64 GGTTTCAATATGGTTT
11702457 AAG
1 AAG
11702460 ATAAAAAGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
79 67 0.94
80 4 0.06
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (79 bp):
AAGGTAATGCTAACGGCAGTAACTGCTGGCAACAAAGCAACGTCCACATAGACACATACGATAGG
TTTCAATATGGTTT
Done.