Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167991.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_248, 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: 43447
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.45
Found at i:971 original size:22 final size:24
Alignment explanation
Indices: 946--990 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
936 TATTAATGTT
946 TAATAAAATTAA-T-ATTATTATA
1 TAATAAAATTAATTAATTATTATA
*
968 TAATTAAATTAATTAATTATTAT
1 TAATAAAATTAATTAATTATTAT
991 TATTTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 1 0.05
24 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TAATAAAATTAATTAATTATTATA
Found at i:2291 original size:181 final size:181
Alignment explanation
Indices: 1972--2309 Score: 437
Period size: 181 Copynumber: 1.9 Consensus size: 181
1962 ATTTTGAATA
* * * *** * * *
1972 GTTATGACCTTTTATTTTGTCATAAAACAATTATTTTTGTTCATATTAGCTTTTTCGGATTAAAA
1 GTTATGACCTTTTATTTCGCCATAAAACAATTATATCAATTCATATTAGCTTATTCGAAATAAAA
* * * * *
2037 TAATATTAATTTATTAATATTTCAACAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTAC
66 AAATACTAACTTATTAATATTCCAACAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTAC
*
2102 CGAACAAGTTCAAATAGTAATAACTATCTGAATAATTATCTATTTCAAATC
131 CAAACAAGTTCAAATAGTAATAACTATCTGAATAATTATCTATTTCAAATC
*
2153 GTTATGACCTTTTATTTCGCCATAAAATAATTATATCAATTCATA-TAGGCTTATTCGAAATAAA
1 GTTATGACCTTTTATTTCGCCATAAAACAATTATATCAATTCATATTA-GCTTATTCGAAATAAA
* * * * *
2217 AAAATACTAACTTATTACTATTCCAA-AACTTAATGAGTAAGAGATTTAAAAAATGAATCTATTT
65 AAAATACTAACTTATTAATATTCCAACAA-TTAATAAGTAAAAGATTTAAAAAATAAATATATTT
* *
2281 ACCAAACAAGTTCAAATAGTTATGACTAT
129 ACCAAACAAGTTCAAATAGTAATAACTAT
2310 TTATATTATA
Statistics
Matches: 132, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
180 4 0.03
181 128 0.97
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (181 bp):
GTTATGACCTTTTATTTCGCCATAAAACAATTATATCAATTCATATTAGCTTATTCGAAATAAAA
AAATACTAACTTATTAATATTCCAACAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTAC
CAAACAAGTTCAAATAGTAATAACTATCTGAATAATTATCTATTTCAAATC
Found at i:4404 original size:19 final size:20
Alignment explanation
Indices: 4375--4413 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4365 CATTTAATTA
4375 TTTACTGATTAATTT-TTATT
1 TTTACTGATT-ATTTATTATT
4395 TTTA-TGATTATTTATTATT
1 TTTACTGATTATTTATTATT
4414 AACAGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTACTGATTATTTATTATT
Found at i:4540 original size:27 final size:25
Alignment explanation
Indices: 4497--4547 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
4487 AATTTAATTT
4497 ATTAATATTTATAATATTACTAATA
1 ATTAATATTTATAATATTACTAATA
*
4522 ATTAATATTTTTATAATATTAGTAAT
1 ATTAATA--TTTATAATATTACTAAT
4548 TTTGTTATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.30
27 16 0.70
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
ATTAATATTTATAATATTACTAATA
Found at i:4853 original size:20 final size:20
Alignment explanation
Indices: 4823--4868 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
4813 CTCTTACTTA
4823 TTAATATTAATAATTAATATT
1 TTAATATTAATAATTAAT-TT
*
4844 TTAA-ATTAATAATTTATTT
1 TTAATATTAATAATTAATTT
4863 TTAATA
1 TTAATA
4869 AAATAACGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 13 0.57
21 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATATTAATAATTAATTT
Found at i:5908 original size:20 final size:20
Alignment explanation
Indices: 5883--5920 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5873 GGTTATGTAT
*
5883 ATATACTTAAAACTTTATTA
1 ATATACTTAAAAATTTATTA
5903 ATATACTTAAAAATTTAT
1 ATATACTTAAAAATTTAT
5921 ATATCTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATACTTAAAAATTTATTA
Found at i:5999 original size:13 final size:12
Alignment explanation
Indices: 5963--6048 Score: 53
Period size: 10 Copynumber: 7.5 Consensus size: 12
5953 TTAATTAATT
5963 TAATA-ATTAT-
1 TAATATATTATA
5973 TAATATATTCATA
1 TAATATATT-ATA
5986 TAATTATATTATA
1 TAA-TATATTATA
*
5999 TAA-AT-TTAAA
1 TAATATATTATA
*
6009 TAGTATA-T-TA
1 TAATATATTATA
6019 TAAT-TATTATA
1 TAATATATTATA
*
6030 TTAAATAAATTAT-
1 -T-AATATATTATA
6043 TAATAT
1 TAATAT
6049 TATTTCAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
9 2 0.03
10 16 0.27
11 14 0.24
12 4 0.07
13 12 0.20
14 11 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (12 bp):
TAATATATTATA
Found at i:6060 original size:36 final size:35
Alignment explanation
Indices: 5967--6060 Score: 95
Period size: 36 Copynumber: 2.7 Consensus size: 35
5957 TTAATTTAAT
* * *
5967 AATTATTAATATA-TTCATATAATTATATTATATA
1 AATTATTAATATATTTCAAATTATTATATTAAATA
*
6001 AATT-TAAATAGTATATT-ATAATTATTATATTAAATA
1 AATTATTAATA-TAT-TTCA-AATTATTATATTAAATA
6037 AATTATTAATATTATTTCAAATTA
1 AATTATTAATA-TATTTCAAATTA
6061 AACATTTATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
33 5 0.10
34 6 0.12
35 1 0.02
36 27 0.56
37 9 0.19
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (35 bp):
AATTATTAATATATTTCAAATTATTATATTAAATA
Found at i:6113 original size:15 final size:15
Alignment explanation
Indices: 6093--6135 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
6083 ATTTTTACTA
6093 TAATTAATAATATAT
1 TAATTAATAATATAT
6108 TAATT-ATAAATATAT
1 TAATTAAT-AATATAT
*
6123 T-ATAAATAATATA
1 TAATTAATAATATA
6136 ATTATCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTAATAATATAT
Found at i:6256 original size:19 final size:18
Alignment explanation
Indices: 6223--6261 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
6213 TAATTAAGTG
*
6223 TAATAATAAATACTATAT
1 TAATAAGAAATACTATAT
6241 TAATAAGAAGATACTATAT
1 TAATAAGAA-ATACTATAT
6260 TA
1 TA
6262 TAGTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (18 bp):
TAATAAGAAATACTATAT
Found at i:6756 original size:15 final size:16
Alignment explanation
Indices: 6717--6759 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
6707 AATATTAATA
6717 TTATT-TAAT-ATAAG
1 TTATTATAATAATAAG
*
6731 TTATTAAAATAATAAG
1 TTATTATAATAATAAG
6747 TT-TTATAATAATA
1 TTATTATAATAATA
6760 TTATATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 13 0.52
16 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
TTATTATAATAATAAG
Found at i:6815 original size:17 final size:16
Alignment explanation
Indices: 6793--6824 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6783 GTAATAGTTA
6793 TAATATTATATTTAAAT
1 TAATATTAT-TTTAAAT
6810 TAATATTATTTTAAA
1 TAATATTATTTTAAA
6825 AGAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATATTATTTTAAAT
Found at i:7837 original size:46 final size:47
Alignment explanation
Indices: 7783--7916 Score: 170
Period size: 46 Copynumber: 3.0 Consensus size: 47
7773 TTAAATATAA
*
7783 TTAAGAAATCTTCAAATGAAAATCTTTGAGTCAT-AAATGAGAATCT
1 TTAAGAAATCTTCAAATGAGAATCTTTGAGTCATCAAATGAGAATCT
* * * *
7829 TTAAGAAATCCTCAAATGAGAATTTTTGAGTCCTCAAATGAAAATCT
1 TTAAGAAATCTTCAAATGAGAATCTTTGAGTCATCAAATGAGAATCT
* *
7876 TT--G-AATCTTCAAATGAGAATCTTTAAGT-TTCAAATGAGAAT
1 TTAAGAAATCTTCAAATGAGAATCTTTGAGTCATCAAATGAGAAT
7917 TTTTGAGATG
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
43 11 0.14
44 22 0.29
45 1 0.01
46 30 0.39
47 13 0.17
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (47 bp):
TTAAGAAATCTTCAAATGAGAATCTTTGAGTCATCAAATGAGAATCT
Found at i:7865 original size:22 final size:22
Alignment explanation
Indices: 7794--7923 Score: 129
Period size: 22 Copynumber: 5.9 Consensus size: 22
7784 TAAGAAATCT
* *
7794 TCAAATGAAAATCTTTGAGTCA
1 TCAAATGAGAATCTTTGAGTCC
*
7816 T-AAATGAGAATCTTTAAGAAATCC
1 TCAAATGAGAATCTTT--G-AGTCC
*
7840 TCAAATGAGAATTTTTGAGTCC
1 TCAAATGAGAATCTTTGAGTCC
* * *
7862 TCAAATGAAAATCTTTGAATCT
1 TCAAATGAGAATCTTTGAGTCC
* *
7884 TCAAATGAGAATCTTTAAGT-T
1 TCAAATGAGAATCTTTGAGTCC
*
7905 TCAAATGAGAATTTTTGAG
1 TCAAATGAGAATCTTTGAG
7924 ATGTGAAATC
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
21 31 0.34
22 40 0.44
23 2 0.02
24 4 0.04
25 13 0.14
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.35
Consensus pattern (22 bp):
TCAAATGAGAATCTTTGAGTCC
Found at i:9186 original size:7 final size:7
Alignment explanation
Indices: 9174--9212 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
9164 TTTTGGTATT
9174 TTTTATA
1 TTTTATA
9181 TTTTATA
1 TTTTATA
9188 TTTTATA
1 TTTTATA
9195 TTTTAT-
1 TTTTATA
9201 TATTTATA
1 T-TTTATA
9209 TTTT
1 TTTT
9213 TTCTTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 1 0.03
7 28 0.93
8 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTATA
Found at i:9193 original size:14 final size:13
Alignment explanation
Indices: 9173--9226 Score: 65
Period size: 14 Copynumber: 4.0 Consensus size: 13
9163 TTTTTGGTAT
9173 TTTTTATATTTTA
1 TTTTTATATTTTA
9186 TATTTTATATTTTA
1 T-TTTTATATTTTA
9200 TTATTTATATTTT-
1 TT-TTTATATTTTA
*
9213 TTCTTATTATTTTA
1 TTTTTA-TATTTTA
9227 CGTGATTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
12 3 0.08
13 10 0.28
14 23 0.64
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTATATTTTA
Found at i:9201 original size:19 final size:20
Alignment explanation
Indices: 9179--9226 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
9169 GTATTTTTTA
9179 TATTTTATATTTTATATT-T
1 TATTTTATATTTTATATTAT
* *
9198 TATTATTTATATTTTTTCTTAT
1 TA-T-TTTATATTTTATATTAT
9220 TATTTTA
1 TATTTTA
9227 CGTGATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 5 0.21
21 14 0.58
22 3 0.12
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTTATATTTTATATTAT
Found at i:10335 original size:20 final size:20
Alignment explanation
Indices: 10276--10348 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
10266 TTTTTAAACA
*
10276 ATTAATAATTAAA-AATATT
1 ATTAATAATTAAATATTATT
*
10295 TTTAATTAAATTAGTAATATTAATT
1 ATTAA-T-AATTA--AATATT-ATT
10320 A-TAATAATTAAATATTATT
1 ATTAATAATTAAATATTATT
10339 ATTAATAATT
1 ATTAATAATT
10349 TTAAATAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
19 8 0.18
20 15 0.34
21 5 0.11
22 5 0.11
23 3 0.07
24 5 0.11
25 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
ATTAATAATTAAATATTATT
Found at i:10342 original size:22 final size:22
Alignment explanation
Indices: 10278--10361 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 22
10268 TTTAAACAAT
*
10278 TAATAATTAAA-AATATTTTTAA
1 TAAT-ATTAAATAATATTATTAA
*
10300 TTAA-ATT-AGTAATATTAATT-A
1 -TAATATTAAATAATATT-ATTAA
*
10321 TAATAATTAAATATTATTATTAA
1 TAAT-ATTAAATAATATTATTAA
*
10344 TAATTTTAAATAATATTA
1 TAATATTAAATAATATTA
10362 AAATTATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
20 4 0.08
21 10 0.20
22 20 0.41
23 15 0.31
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (22 bp):
TAATATTAAATAATATTATTAA
Found at i:10475 original size:36 final size:34
Alignment explanation
Indices: 10409--10475 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 34
10399 AATAATAAAT
* *
10409 TATAAATTATTACTAATATGATTATTAATATAGA
1 TATAAATTATTAATAATATGATTATAAATATAGA
10443 TATAAATTATATATATAATATTG-TTATAAATAT
1 TATAAATTAT-TA-ATAATA-TGATTATAAATAT
10476 TATAAGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 10 0.36
35 2 0.07
36 14 0.50
37 2 0.07
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (34 bp):
TATAAATTATTAATAATATGATTATAAATATAGA
Found at i:10700 original size:67 final size:67
Alignment explanation
Indices: 10594--10722 Score: 147
Period size: 67 Copynumber: 1.9 Consensus size: 67
10584 TATTTTACTT
* * * *
10594 ATAATAATAATTATATTATATACTAAATATATACTATTTATTA-ATAATTAGTATTTAATAAAAA
1 ATAATAATAAATATATTATATAATAAATATATAC-ATTTAATATATAATAAG-ATTTAATAAAAA
10658 ATTA
64 ATTA
* *
10662 ATAAT-ATAAATATATTATAATTAATGAATATATA-ATTTAATATATTATAAGATTTAATAAA
1 ATAATAATAAATATATTAT-A-TAATAAATATATACATTTAATATATAATAAGATTTAATAAA
10723 TGTAGCTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
67 29 0.56
68 12 0.23
69 11 0.21
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (67 bp):
ATAATAATAAATATATTATATAATAAATATATACATTTAATATATAATAAGATTTAATAAAAAAT
TA
Found at i:10710 original size:15 final size:14
Alignment explanation
Indices: 10670--10711 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
10660 TAATAATATA
10670 AATATATTATAATT
1 AATATATTATAATT
10684 AATGA-ATATATAATTT
1 AAT-ATAT-TATAA-TT
10700 AATATATTATAA
1 AATATATTATAA
10712 GATTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.21
15 12 0.50
16 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
AATATATTATAATT
Found at i:10879 original size:33 final size:33
Alignment explanation
Indices: 10832--10896 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
10822 TTAATTTTAG
*
10832 TATTCAATACCTTTAATTTAATTAA-ATTAATTC
1 TATTCAATACCTTTAA-TTAATAAATATTAATTC
* *
10865 TATTCATTATCTTTAATTAATAAATATTAATT
1 TATTCAATACCTTTAATTAATAAATATTAATT
10897 AAATTAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (33 bp):
TATTCAATACCTTTAATTAATAAATATTAATTC
Found at i:12673 original size:9 final size:9
Alignment explanation
Indices: 12643--12700 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
12633 TTTAATAACT
12643 ATTACTATTA
1 ATTA-TATTA
12653 A-TATATT-
1 ATTATATTA
12660 A-TATATTA
1 ATTATATTA
*
12668 ATTATATAA
1 ATTATATTA
12677 ATTA-ATTA
1 ATTATATTA
* *
12685 ATAATATTT
1 ATTATATTA
12694 ATTATAT
1 ATTATAT
12701 ACTATCTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
7 7 0.17
8 11 0.28
9 21 0.52
10 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (9 bp):
ATTATATTA
Found at i:12680 original size:13 final size:13
Alignment explanation
Indices: 12649--12701 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
12639 AACTATTACT
*
12649 ATTAATATATTATAT
1 ATTAAT-TA-TATAA
12664 ATTAATTATATAA
1 ATTAATTATATAA
12677 ATTAATTA-ATAA
1 ATTAATTATATAA
*
12689 TATTTATTATATA
1 -ATTAATTATATA
12702 CTATCTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 4 0.12
13 19 0.56
14 5 0.15
15 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTAATTATATAA
Found at i:12979 original size:15 final size:16
Alignment explanation
Indices: 12955--12999 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
12945 AAATGTAATG
12955 ATTA-TATTAATTATA
1 ATTATTATTAATTATA
*
12970 A-TATTATTAAATATA
1 ATTATTATTAATTATA
*
12985 ATTATTTTTAATTAT
1 ATTATTATTAATTAT
13000 TTTTAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 12 0.48
16 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATTATTAATTATA
Found at i:13134 original size:21 final size:22
Alignment explanation
Indices: 13083--13137 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
13073 TTATTCATAT
13083 TATAA-TATT-AATTATATAAA
1 TATAATTATTAAATTATATAAA
13103 TATAATTATTAAATT-TATAAA
1 TATAATTATTAAATTATATAAA
*
13124 -ATTATTAATTAAAT
1 TATAATT-ATTAAAT
13138 CATCAATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 10 0.32
21 17 0.55
22 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATAATTATTAAATTATATAAA
Found at i:13977 original size:21 final size:20
Alignment explanation
Indices: 13945--13990 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
13935 ATTTTATTTG
13945 ATTATTATTTAAAAATAATA
1 ATTATTATTTAAAAATAATA
* *
13965 ATTATTAATTTAATAATACTA
1 ATTATT-ATTTAAAAATAATA
13986 ATTAT
1 ATTAT
13991 GATAGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTATTATTTAAAAATAATA
Found at i:15210 original size:179 final size:181
Alignment explanation
Indices: 14860--15731 Score: 686
Period size: 180 Copynumber: 4.9 Consensus size: 181
14850 ATAATTATAA
** * ** *
14860 TCAAATCATAATGAT-CTTTAT-TTT-GTCATACAACAATTGTTTCCTTTCATACAAGCTTATTC
1 TCAAATCATTCTGATCCTTT-TGTTTAGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTT
* * * * * *
14922 AGATTAAAATGATATTAATTTAATAGTATTTC-AAAAATT--AATAAGAGATTTAAAAAATAAAT
65 AGAATAAAATAATACTAATTTATTAATATTTCGAAAAATTAAAACAAGAGATTTAAAAAATAAAT
* * * * *
14984 ATG-GTAGCCGAACTAA-TTCAAATAGTTAAGACTATCATAATAATTATCTATT
130 CTGTTTA-CTGAAC-AAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATT
* *
15036 TCAAATCATTCT-ATCCTTTTGTTTAGTCATAAAACAATTATTTCAGTTCATACAAGCTTATTTG
1 TCAAATCATTCTGATCCTTTTGTTTAGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTA
*
15100 GAATAAAATAATACTAATTTATTAACA-TTCGAAAAATTAAAACAAGAGATTTAAAAAATAAATC
66 GAATAAAATAATACTAATTTATTAATATTTCGAAAAATTAAAACAAGAGATTTAAAAAATAAATC
* *
15164 TGTTTACTGAACAATTTCAAATAGAT-AGAACTATTTA-AATAATTATCTATT
131 TGTTTACTGAACAAGTTCAAATAGTTAAG-ACTA-TTAGAATAATTATCTATT
* * * *** * * * * *
15215 TAAAATTATTTTGAGATTTTTGTTTTGTCATAAAACAATTGTTTTAGTTAATA-AAACTTATCTA
1 TCAAATCATTCTGATCCTTTTGTTTAGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTA
* * * *
15279 AAATAAAATAATACTACTTTATTAATATTTC-AAAAATTATTAAGCAAGAGATTTAAAAACTAAA
66 GAATAAAATAATACTAATTTATTAATATTTCGAAAAATTA--AAACAAGAGATTTAAAAAATAAA
* * * * * * * * *
15343 GCTATTT-TTCAA-AGCAGTTCTAATAGTTATA-AGTATTTA-AACAAATAT-TAATC
129 TCTGTTTACTGAACA--AGTTCAAATAGTTA-AGACTA-TTAGAATAATTATCT-ATT
* * * * ** * * *
15396 TCAAATCGTTATGAT-C-TTTGTTTTGTCATAAAATAATTGTTT-TTTATCATATAAGCTGATTC
1 TCAAATCATTCTGATCCTTTTGTTTAGTCATAAAACAATTGTTTCAGT-TCATACAAGCTTATTT
* * *
15458 AG-ATAAAAATAATACTAATTTAATAATATTTTG-AAAATTAATAAGTAAGAGATTTAAAAAATA
65 AGAAT-AAAATAATACTAATTTATTAATATTTCGAAAAATTAA-AA-CAAGAGATTTAAAAAATA
* * * * *
15521 AATGTGTTTGCTGATC-AGTTCAAATAGTTAAGATTATTAGAATAATTATCTATG
127 AATCTGTTTACTGAACAAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATT
* * * *
15575 TCAAATCGTTCTGA-CCTTTTGTTTAATCATAAAATAATTGTTTCAGTTCATACAAGCTTATTCA
1 TCAAATCATTCTGATCCTTTTGTTTAGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTA
* * * *
15639 -ATAGAAAATAATACTAATTTATTAACT-TTT-GAAAAATTAATAAGCAGGATATTTGAAAAACT
66 GA-ATAAAATAATACTAATTTATTAA-TATTTCGAAAAATTAA-AA-CAAGAGATTT-AAAAAAT
* **
15701 AAATTTGTTTACCAAACAAGTTCAAATAGTT
126 AAATCTGTTTACTGAACAAGTTCAAATAGTT
15732 GTTTCCTTTC
Statistics
Matches: 558, Mismatches: 99, Indels: 72
0.77 0.14 0.10
Matches are distributed among these distances:
175 3 0.01
176 20 0.04
177 61 0.11
178 10 0.02
179 179 0.32
180 186 0.33
181 85 0.15
182 13 0.02
183 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (181 bp):
TCAAATCATTCTGATCCTTTTGTTTAGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTA
GAATAAAATAATACTAATTTATTAATATTTCGAAAAATTAAAACAAGAGATTTAAAAAATAAATC
TGTTTACTGAACAAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATT
Found at i:15497 original size:180 final size:178
Alignment explanation
Indices: 14880--15731 Score: 496
Period size: 179 Copynumber: 4.7 Consensus size: 178
14870 ATGATCTTTA
* * * * * *
14880 TTTTGTCATACAACAATTGTTTCCTT-TCATACAAGCTTATTCAGATTAAAATGATATTAATTTA
1 TTTTGTCATAAAATAATTGTTT-TTTATCATA-AAGCTTATTCA-ATAAAAATAATACTAATTTA
* * ** * * * * * *
14944 ATAGTATTTCAAAAATTAAT----AAGAGATTTAAAAAATAAATATGGTAGCCGAA-CTAATTCA
63 TTAATATTTTGAAAATTAATAAGCAAGAGATTTAAAAACTAAATGTGTTTG-CAAAGC-AGTTCA
* * * * * * * *
15004 AATAGTTAAGACTATCATAATAATTATCTATTTCAAATCATTCT-ATCCTTTTG
126 AATAGTTAAGAGTATTAGAACAAATATCTATCTCAAATCGTTATGA-CCTTTTG
* * * ** *
15057 TTTAGTCATAAAACAATTATTTCAGT-TCATACAAGCTTATTTGGAAT-AAAATAATACTAATTT
1 TTTTGTCATAAAATAATTGTTT-TTTATCATA-AAGCTTA-TT-CAATAAAAATAATACTAATTT
* * * * * * *
15120 ATTAACA-TTCGAAAAATTAA-AA-CAAGAGATTTAAAAAATAAATCTGTTTACTGAA-CAATTT
62 ATTAATATTTTG-AAAATTAATAAGCAAGAGATTTAAAAACTAAATGTGTTTGC-AAAGC-AGTT
* * * * * * ** * **
15181 CAAATAGAT-AGAACTATTTA-AATAATTATCTATTTAAAATTATTTTGAGATTTTTG
124 CAAATAGTTAAG-AGTA-TTAGAACAAATATCTATCTCAAATCGTTATGA-CCTTTTG
* * * *
15237 TTTTGTCATAAAACAATTGTTTTAGTTA--ATAAAACTTA-TCTAAAATAAAATAATACTACTTT
1 TTTTGTCATAAAATAATTGTTTT--TTATCATAAAGCTTATTC-AATA-AAAATAATACTAATTT
** * * *
15299 ATTAATATTTCAAAAATTATTAAGCAAGAGATTTAAAAACTAAA-GCTATTTTTCAAAGCAGTTC
62 ATTAATATTTTGAAAATTAATAAGCAAGAGATTTAAAAACTAAATG-T-GTTTGCAAAGCAGTTC
* *
15363 TAATAGTTATA-AGTATTTA-AACAAATAT-TAATCTCAAATCGTTATGATC-TTTG
125 AAATAGTTA-AGAGTA-TTAGAACAAATATCT-ATCTCAAATCGTTATGACCTTTTG
* *
15416 TTTTGTCATAAAATAATTGTTTTTTATCATATAAGCTGATTCAGATAAAAATAATACTAATTTAA
1 TTTTGTCATAAAATAATTGTTTTTTATCATA-AAGCTTATTCA-ATAAAAATAATACTAATTTAT
* * ** *
15481 TAATATTTTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGCTGATCAGTTCAAAT
64 TAATATTTTGAAAATTAATAAGCAAGAGATTTAAAAACTAAATGTGTTTGCAAAGCAGTTCAAAT
* * * * *
15546 AGTTAAGATTATTAGAATAATTATCTATGTCAAATCGTTCTGACCTTTTG
129 AGTTAAGAGTATTAGAACAAATATCTATCTCAAATCGTTATGACCTTTTG
** **
15596 TTTAATCATAAAATAATTGTTTCAGT-TCATACAAGCTTATTCAATAGAAAATAATACTAATTTA
1 TTTTGTCATAAAATAATTGTTT-TTTATCATA-AAGCTTATTCAATA-AAAATAATACTAATTTA
* * * * *
15660 TTAA-CTTTTGAAAAATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACCAAA-CAAGTT
63 TTAATATTTTG-AAAATTAATAAGCAAGAGATTT-AAAAACTAAATGTGTTT-GCAAAGC-AGTT
15723 CAAATAGTT
124 CAAATAGTT
15732 GTTTCCTTTC
Statistics
Matches: 540, Mismatches: 94, Indels: 77
0.76 0.13 0.11
Matches are distributed among these distances:
176 3 0.01
177 66 0.12
178 11 0.02
179 182 0.34
180 176 0.33
181 81 0.15
182 20 0.04
183 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (178 bp):
TTTTGTCATAAAATAATTGTTTTTTATCATAAAGCTTATTCAATAAAAATAATACTAATTTATTA
ATATTTTGAAAATTAATAAGCAAGAGATTTAAAAACTAAATGTGTTTGCAAAGCAGTTCAAATAG
TTAAGAGTATTAGAACAAATATCTATCTCAAATCGTTATGACCTTTTG
Found at i:16086 original size:179 final size:178
Alignment explanation
Indices: 15724--16712 Score: 692
Period size: 179 Copynumber: 5.5 Consensus size: 178
15714 AAACAAGTTC
* ** * * * * * * *
15724 AAATAGTTGTTTCCTTTCATACAAGCTTATTCAGATTAAAATGATATTAATTTAATAGTATTTTA
1 AAATAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTATTAATATTTGA
* * * * *
15789 AAAATT--AATAAGAGATTTAAAAAATAAATATG-GTAGCCGAACTAGTTCAAATAGTTAAGACT
66 AAAATTAAAACAAGAGATTTAAAAAATAAATCTGTTTA-CCGAACAAGTTCAAATAGTTATGACT
* * * *
15851 A-TCATAATAATTATCTATTTCAAATCATTCTAT-CCTTTTGTTTAGTCATA
130 ATTTA-AATAATTATCTATTTCAAATCATT-T-TGACATTTGTTTTGTCATA
* * * * *
15901 AAACAATTATTTCAGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAACATTCGA
1 AAATAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTATTAATATTTGA
* * *
15966 AAAATTAAAACAAGAGATTTAAAAAAATAAATCTGTTTACTGAACAATTTCAAATAGATATGACT
66 AAAATTAAAACAAGAGATTT-AAAAAATAAATCTGTTTACCGAACAAGTTCAAATAGTTATGACT
* * *
16031 ATTTAAATAATTATCTATTTAAAATTATTTTGAGATTTGTTTTGTCATA
130 ATTTAAATAATTATCTATTTCAAATCATTTTGACATTTGTTTTGTCATA
* ** * * * * * * *
16080 AAACAATTGTTTTGGTTAATAAAAACTTATCTAAAATAAAATAATACTACTTTATTAATATTTCA
1 AAATAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTATTAATATTTGA
* * * * * ** * *
16145 AAAATTATTAAGC-AGAGATTTAAAAACTAAAGCTATTTTTCAAAAGCAA-TTCTAATAGTTATA
66 AAAATTA--AAACAAGAGATTTAAAAAATAAATCT-GTTTACCGAA-CAAGTTCAAATAGTTATG
* * * * * * *
16208 AGTATTTAAACAAATAT-TAATCTCAAGTCGTTATGATC-TTTGTTTTGTCATA
127 ACTATTTAAATAATTATCT-ATTTCAAATCATTTTGA-CATTTGTTTTGTCATA
* ** * * * *
16260 AAATAATTATTT-TTTATCATATAAGCTGATTCAG-ATAAAAATAATACTAATTTAATAATATTT
1 AAATAATTGTTTCAGT-TCATACAAGCTTATTTAGAAT-AAAATAATACTAATTTATTAATA-TT
* * * * * *
16323 TG-AAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGCTGATC-AGTTCAAATAGTTAA
63 TGAAAAATTAA-AA-CAAGAGATTTAAAAAATAAATCTGTTTACCGAACAAGTTCAAATAGTTAT
* * * * **
16386 GATTA-TTAGAATAATTATTTATTTCAAATCATTCTGACCTTTGTTTAATCATA
126 GACTATTTA-AATAATTATCTATTTCAAATCATTTTGACATTTGTTTTGTCATA
* *
16439 AAATAATTGTTTCAGTTCATACAAGCTTATTCA-ATAGAAAATAATACTAATTTATTAACT-TTT
1 AAATAATTGTTTCAGTTCATACAAGCTTATTTAGA-ATAAAATAATACTAATTTATTAA-TATTT
* * * * * *
16502 GAAAGATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACCAAACAAGTTCAAATAGTTAT
64 GAAAAATTAA-AA-CAAGAGATTT-AAAAAATAAATCTGTTTACCGAACAAGTTCAAATAGTTAT
* * * * ** * *
16567 GACTATTTGAACAATTATCTATCTAAAATTGTTGTGA-ATTTTTGTTTTGTTATA
126 GACTATTTAAATAATTATCTATTTCAAATCATTTTGACA--TTTGTTTTGTCATA
* * * * ** * * *
16621 AAATAATTGTTTTAGTTCACAAAAGTTTATCCAAAATAAAATAATACTACTTTCTTAATATTTTG
1 AAATAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTATTAATA-TTTG
16686 -AAAATT-----AAGAGATTTAAAAAATAAATC
65 AAAAATTAAAACAAGAGATTTAAAAAATAAATC
16713 AATTTAGTAA
Statistics
Matches: 634, Mismatches: 143, Indels: 73
0.75 0.17 0.09
Matches are distributed among these distances:
174 10 0.02
175 7 0.01
177 56 0.09
178 11 0.02
179 211 0.33
180 197 0.31
181 71 0.11
182 66 0.10
183 5 0.01
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (178 bp):
AAATAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTATTAATATTTGA
AAAATTAAAACAAGAGATTTAAAAAATAAATCTGTTTACCGAACAAGTTCAAATAGTTATGACTA
TTTAAATAATTATCTATTTCAAATCATTTTGACATTTGTTTTGTCATA
Found at i:17987 original size:42 final size:40
Alignment explanation
Indices: 17941--18042 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 40
17931 ATTTGAAATT
17941 ATTAATATTCATAAGAATT-ATTAATAAATCTTATT-ATATATA
1 ATTAATATT-ATAAGAATTAATTAA-AAA--TTATTAATATATA
* *
17983 ATTAATATTAAAACAATTAATTAAAAATTATTAATATATA
1 ATTAATATTATAAGAATTAATTAAAAATTATTAATATATA
18023 A-TAATTATTAATAAGTAATT
1 ATTAA-TATT-ATAAG-AATT
18043 TAAATTATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
39 8 0.16
40 12 0.24
41 13 0.25
42 18 0.35
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (40 bp):
ATTAATATTATAAGAATTAATTAAAAATTATTAATATATA
Found at i:19517 original size:36 final size:34
Alignment explanation
Indices: 19451--19517 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 34
19441 AATAATAAAT
* *
19451 TATAAATTATTACTAATATGATTATTAATATAGA
1 TATAAATTATTAATAATATGATTATAAATATAGA
19485 TATAAATTATATATATAATATTG-TTATAAATAT
1 TATAAATTAT-TA-ATAATA-TGATTATAAATAT
19518 TATAAGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 10 0.36
35 2 0.07
36 14 0.50
37 2 0.07
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (34 bp):
TATAAATTATTAATAATATGATTATAAATATAGA
Found at i:19753 original size:15 final size:14
Alignment explanation
Indices: 19713--19754 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
19703 TAATAATATA
19713 AATATATTATAATT
1 AATATATTATAATT
19727 AATGA-ATATATAATTT
1 AAT-ATAT-TATAA-TT
19743 AATATATTATAA
1 AATATATTATAA
19755 GATTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.21
15 12 0.50
16 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
AATATATTATAATT
Found at i:19863 original size:15 final size:16
Alignment explanation
Indices: 19845--19878 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
19835 ATTATAATAC
19845 AATTAAATTAA-TATT
1 AATTAAATTAATTATT
*
19860 AATTATATTAATTATT
1 AATTAAATTAATTATT
19876 AAT
1 AAT
19879 ATTTAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTAAATTAATTATT
Found at i:19916 original size:15 final size:15
Alignment explanation
Indices: 19896--19967 Score: 62
Period size: 15 Copynumber: 5.0 Consensus size: 15
19886 ATTCAATACA
*
19896 TTTAATTTAATTAAT
1 TTTAATTAAATTAAT
19911 TTTAATTAAATTAAT
1 TTTAATTAAATTAAT
* *
19926 TCT-ATT-CATT-AT
1 TTTAATTAAATTAAT
*
19938 CTTTAATT-AATAAAT
1 -TTTAATTAAATTAAT
*
19953 ATTAATTAAATTAAT
1 TTTAATTAAATTAAT
19968 GTAACTATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
12 2 0.04
13 5 0.11
14 14 0.31
15 24 0.53
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAATTAAATTAAT
Found at i:19924 original size:19 final size:19
Alignment explanation
Indices: 19897--19967 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
19887 TTCAATACAT
*
19897 TTAATTTAATTAATTTTAA
1 TTAAATTAATTAATTTTAA
* *
19916 TTAAATTAATTCTATTCATTATC
1 TTAAATTAATT-AATT--TTA-A
* * *
19939 TTTAATTAATAAATATTAA
1 TTAAATTAATTAATTTTAA
19958 TTAAATTAAT
1 TTAAATTAAT
19968 GTAACTATAA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
19 19 0.49
20 6 0.15
22 5 0.13
23 9 0.23
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAATTAATTAATTTTAA
Found at i:20871 original size:16 final size:18
Alignment explanation
Indices: 20840--20880 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
20830 CACAAATATT
20840 AATTATTAATTAAAAATA
1 AATTATTAATTAAAAATA
20858 AATTA-TAA-TAAAAATA
1 AATTATTAATTAAAAATA
*
20874 AACTATT
1 AATTATT
20881 TGTTATGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 12 0.57
17 4 0.19
18 5 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTATTAATTAAAAATA
Found at i:20955 original size:19 final size:19
Alignment explanation
Indices: 20888--20957 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 19
20878 ATTTGTTATG
20888 TAATATAATTATATTACATAAT
1 TAATA-AATT-TATT-CATAAT
****
20910 TATATAAATTTATAGGCAAT
1 TA-ATAAATTTATTCATAAT
20930 CTAATAAATTTATTCATAAT
1 -TAATAAATTTATTCATAAT
20950 TAATAAAT
1 TAATAAAT
20958 AATTATAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
19 8 0.21
20 16 0.42
21 5 0.13
22 6 0.16
23 3 0.08
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (19 bp):
TAATAAATTTATTCATAAT
Found at i:21216 original size:16 final size:15
Alignment explanation
Indices: 21176--21218 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
21166 ATCTATACAG
21176 TTATAATTAA-TTAA
1 TTATAATTAATTTAA
*
21190 TTA-AATAAATTTAA
1 TTATAATTAATTTAA
21204 TTATCAATTAATTTA
1 TTAT-AATTAATTTA
21219 TAATTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 5 0.21
14 10 0.42
16 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTATAATTAATTTAA
Found at i:22013 original size:192 final size:188
Alignment explanation
Indices: 21628--21996 Score: 408
Period size: 192 Copynumber: 2.0 Consensus size: 188
21618 ACAAAAGGTC
* * * *
21628 ATAACGATTTAAAATAGATAATTGTTCATATAGTCTTAACTATTTAAACTGGTTCAACAAACAAA
1 ATAACGATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTAAACGGGTTCAACAAACAAA
* * * *
21693 TTTATTTTTAAAATCTCTTTGTTATTAATTTTCATAGTATTATTAGATTAGTATTATTTTATTTC
66 TTTATTTTTAAAATCTCTTTGTTATTAATTTTCAAAGTATTAATAAATTAGTATTATGTTATTTC
* * ** *
21758 GAATAAGCTTGTATGACATGAATAATTATTTTATGACAAAACAAAAAAGGGTTTTTTTTAA
131 G-A-AAGCTTGTATGA-ATAAACAACAATTTTATGACAAAACAAAAAAAGGTTTTTTTTAA
* * * * * *
21819 ATAACTGATTTAAACTATATATTTGTTCAAATAATCATAACTATTTAAACGGGTTCGATAAATAA
1 ATAAC-GATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTAAACGGGTTCAACAAACAA
* * *
21884 ATTTATTTTTTAAATTTCTTAT-TTATTAACTTTTGAAAG-ATTAATAAATTAGTATTATGTTAT
65 ATTTATTTTTAAAATCTCTT-TGTTATTAA-TTTTCAAAGTATTAATAAATTAGTATTATGTTAT
* *
21947 TTTG-AAGCTTGTATG-ATAAACAACAATTGTTAT-AC-AACCAAACAAAAGGT
128 TTCGAAAGCTTGTATGAATAAACAACAATT-TTATGACAAAACAAA-AAAAGGT
21997 AATATTATGT
Statistics
Matches: 149, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
186 6 0.04
187 17 0.11
188 4 0.03
189 11 0.07
191 5 0.03
192 98 0.66
193 8 0.05
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (188 bp):
ATAACGATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTAAACGGGTTCAACAAACAAA
TTTATTTTTAAAATCTCTTTGTTATTAATTTTCAAAGTATTAATAAATTAGTATTATGTTATTTC
GAAAGCTTGTATGAATAAACAACAATTTTATGACAAAACAAAAAAAGGTTTTTTTTAA
Found at i:22916 original size:9 final size:9
Alignment explanation
Indices: 22873--22959 Score: 58
Period size: 9 Copynumber: 9.7 Consensus size: 9
22863 ATCATTTTGA
22873 TATTATATAT
1 TATTA-ATAT
*
22883 TATTAATTT
1 TATTAATAT
22892 TAATT-A-AT
1 T-ATTAATAT
22900 TA-TAATAT
1 TATTAATAT
22908 TATTAATAT
1 TATTAATAT
22917 TA-TACATATT
1 TATTA-ATA-T
*
22927 TATTTAA-AA
1 TA-TTAATAT
22936 TATTAATAT
1 TATTAATAT
* *
22945 AATTAATAA
1 TATTAATAT
22954 TATTAA
1 TATTAA
22960 AAAATATATT
Statistics
Matches: 61, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
6 1 0.02
7 2 0.03
8 12 0.20
9 31 0.51
10 12 0.20
11 1 0.02
12 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (9 bp):
TATTAATAT
Found at i:24727 original size:14 final size:14
Alignment explanation
Indices: 24701--24733 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24691 ATAATTGTTT
*
24701 ATTA-TATTTAATA
1 ATTATTATTAAATA
24714 ATTATTATTAAATA
1 ATTATTATTAAATA
24728 ATTATT
1 ATTATT
24734 TTATTTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTATTATTAAATA
Found at i:24786 original size:19 final size:19
Alignment explanation
Indices: 24754--24791 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24744 TAAACTTTAA
*
24754 ATATTAATTATTAATCTAT
1 ATATTAATTATTAAACTAT
24773 ATATTAA-TATTTAAACTAT
1 ATATTAATTA-TTAAACTAT
24792 TGCAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTAATTATTAAACTAT
Found at i:25070 original size:22 final size:23
Alignment explanation
Indices: 25042--25095 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
25032 TAAATATTAA
* *
25042 TATTATATTTTAATTAT-TTATT
1 TATTATAATTAAATTATATTATT
25064 TATTATAATTAAATTATATTA-T
1 TATTATAATTAAATTATATTATT
25086 TATT-TAATTA
1 TATTATAATTA
25096 TAACAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 6 0.21
22 20 0.69
23 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATAATTAAATTATATTATT
Found at i:25134 original size:21 final size:21
Alignment explanation
Indices: 25109--25150 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25099 CAATTATTTT
*
25109 AATTTTAAATTA-ATAAGTAAA
1 AATTTT-AATTATATAAATAAA
25130 AATTTTAATTATATAAATAAA
1 AATTTTAATTATATAAATAAA
25151 TGAGACTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AATTTTAATTATATAAATAAA
Found at i:25517 original size:21 final size:21
Alignment explanation
Indices: 25492--25544 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
25482 CTAATATTAA
*
25492 TATTTATAATAATTTATAAAT
1 TATTTAAAATAATTTATAAAT
*
25513 TATTTAAAACT-ATTTATAAGT
1 TATTTAAAA-TAATTTATAAAT
25534 TATTTAAAATA
1 TATTTAAAATA
25545 TTATAATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTTAAAATAATTTATAAAT
Found at i:25537 original size:11 final size:11
Alignment explanation
Indices: 25492--25543 Score: 56
Period size: 10 Copynumber: 5.0 Consensus size: 11
25482 CTAATATTAA
25492 TATTTAT-AAT
1 TATTTATAAAT
*
25502 AATTTATAAAT
1 TATTTATAAAT
*
25513 TATTTA-AAAC
1 TATTTATAAAT
*
25523 TATTTATAAGT
1 TATTTATAAAT
25534 TATTTA-AAAT
1 TATTTATAAAT
25544 ATTATAATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 18 0.53
11 16 0.47
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (11 bp):
TATTTATAAAT
Found at i:25557 original size:20 final size:21
Alignment explanation
Indices: 25503--25550 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
25493 ATTTATAATA
*
25503 ATTTATAAATTATTTAAAACT
1 ATTTATAAGTTATTTAAAACT
25524 ATTTATAAGTTATTTAAAA-T
1 ATTTATAAGTTATTTAAAACT
25544 A-TTATAA
1 ATTTATAA
25551 TAGTATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 6 0.23
20 2 0.08
21 18 0.69
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTATAAGTTATTTAAAACT
Found at i:25895 original size:23 final size:25
Alignment explanation
Indices: 25836--25902 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 25
25826 TCTTAATTAT
* *
25836 TTATC-AACAAATTTAATTTTTGAA
1 TTATCAAATAAATATAATTTTTGAA
*
25860 TTATCAAATAAATATTATTTTT-AA
1 TTATCAAATAAATATAATTTTTGAA
*
25884 TT-TGAAATAAATATAATTT
1 TTATCAAATAAATATAATTT
25903 AATATTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 15 0.41
24 9 0.24
25 13 0.35
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (25 bp):
TTATCAAATAAATATAATTTTTGAA
Found at i:25909 original size:23 final size:22
Alignment explanation
Indices: 25865--25917 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
25855 TTGAATTATC
* *
25865 AAATAAATATTATTTTTAATTT
1 AAATAAATATAATTTATAATTT
25887 GAAATAAATATAATTTA-ATATTT
1 -AAATAAATATAATTTATA-ATTT
*
25910 AAAGAAAT
1 AAATAAAT
25918 TATTATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
AAATAAATATAATTTATAATTT
Found at i:26281 original size:23 final size:22
Alignment explanation
Indices: 26233--26279 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
26223 TTTATTGCTT
26233 ATAAATAATAATAAATTTAATTA
1 ATAAATAATAAT-AATTTAATTA
*
26256 ATAAATTATAAT-ATTTAA-TA
1 ATAAATAATAATAATTTAATTA
26276 ATAA
1 ATAA
26280 TATCATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 6 0.26
23 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAATAATAATAATTTAATTA
Found at i:27745 original size:22 final size:22
Alignment explanation
Indices: 27715--27769 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
27705 TAATTTGAAT
* *
27715 TAATAAATTATTATTAATACTA-
1 TAATTAATTAATATTAATA-TAC
*
27737 TAATTAATTAATATTTATATAC
1 TAATTAATTAATATTAATATAC
27759 TAATTAATTAA
1 TAATTAATTAA
27770 CTAGTTTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATTAATTAATATTAATATAC
Found at i:27754 original size:26 final size:22
Alignment explanation
Indices: 27712--27769 Score: 55
Period size: 26 Copynumber: 2.5 Consensus size: 22
27702 AAGTAATTTG
*
27712 AATTAATAAATTATTATTAATACTAT
1 AATTAATTAATTATTA-T-ATAC--T
27738 AATTAATTAA-TATTTATATACT
1 AATTAATTAATTA-TTATATACT
27760 AATTAATTAA
1 AATTAATTAA
27770 CTAGTTTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 11 0.37
24 4 0.13
25 3 0.10
26 12 0.40
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTAATTAATTATTATATACT
Found at i:27904 original size:25 final size:26
Alignment explanation
Indices: 27862--27916 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
27852 TTATTAAATA
27862 ATAA-TTATTAAAATTTAT-ATATTT
1 ATAATTTATTAAAATTTATAATATTT
27886 ATAATTTATTATAAA-TTATAATATTT
1 ATAATTTATTA-AAATTTATAATATTT
27912 A-AATT
1 ATAATT
27917 ATAGAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
ATAATTTATTAAAATTTATAATATTT
Found at i:28002 original size:13 final size:13
Alignment explanation
Indices: 27879--28002 Score: 57
Period size: 13 Copynumber: 9.8 Consensus size: 13
27869 TTAAAATTTA
27879 TATATT-TATAAT
1 TATATTATATAAT
27891 T-TATTATA-AAT
1 TATATTATATAAT
* *
27902 TATAATATTTAAAT
1 TATATTATAT-AAT
**
27916 TATAGAATATAAT
1 TATATTATATAAT
27929 T-TATTACTATAAT
1 TATATTA-TATAAT
*
27942 TA-AATATTATAAT
1 TATATTA-TATAAT
* * *
27955 TACATTAGATAAC
1 TATATTATATAAT
*
27968 AAT-TGTCATATAA-
1 TATAT-T-ATATAAT
*
27981 T-TGTTATATAAT
1 TATATTATATAAT
27993 TATATTATAT
1 TATATTATAT
28003 TTATTTGTAA
Statistics
Matches: 83, Mismatches: 17, Indels: 23
0.67 0.14 0.19
Matches are distributed among these distances:
11 14 0.17
12 15 0.18
13 36 0.43
14 18 0.22
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (13 bp):
TATATTATATAAT
Found at i:28244 original size:20 final size:20
Alignment explanation
Indices: 28198--28245 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
28188 AGTAATAATT
* *
28198 TATATTATTTTAATTATAAT
1 TATAATATTTTAATTATAAA
*
28218 TAAAATATTTTATATT-TAAA
1 TATAATATTTTA-ATTATAAA
28238 TATAATAT
1 TATAATAT
28246 AATATACATG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATAATATTTTAATTATAAA
Found at i:28511 original size:17 final size:17
Alignment explanation
Indices: 28489--28528 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
28479 AATATAATAA
*
28489 TTATATAATATTTATAT
1 TTATATAATAGTTATAT
**
28506 TTATATTGTAGTTATAT
1 TTATATAATAGTTATAT
28523 TTATAT
1 TTATAT
28529 TTAAAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
TTATATAATAGTTATAT
Found at i:29209 original size:34 final size:37
Alignment explanation
Indices: 29133--29224 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 37
29123 AATCAAATAT
*
29133 TAAT-TATATTATTAAT-ATTATTAATTTATATATAA
1 TAATATATATTATTAATAATTATTAATATATATATAA
* *
29168 TACTATATATTATTAATAATTGTT-ATATATA-ATAA
1 TAATATATATTATTAATAATTATTAATATATATATAA
*
29203 -AATATATGA-CATTAATAATTAT
1 TAATATAT-ATTATTAATAATTAT
29225 ATCAGATTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
34 17 0.35
35 8 0.17
36 18 0.38
37 5 0.10
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (37 bp):
TAATATATATTATTAATAATTATTAATATATATATAA
Found at i:29684 original size:22 final size:21
Alignment explanation
Indices: 29654--29695 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
29644 TTTGTAATTT
29654 TATTATAATATATAAT-TTAAC
1 TATTATAATAT-TAATATTAAC
29675 TATTAATAATATTAATATTAA
1 TATT-ATAATATTAATATTAA
29696 TAACTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTATAATATTAATATTAAC
Found at i:29693 original size:15 final size:16
Alignment explanation
Indices: 29665--29703 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
29655 ATTATAATAT
29665 ATAAT-TTAACTATTA
1 ATAATATTAACTATTA
29680 ATAATATTAA-TATTA
1 ATAATATTAACTATTA
29695 ATAACTATT
1 ATAA-TATT
29704 TCAAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATATTAACTATTA
Found at i:29778 original size:24 final size:24
Alignment explanation
Indices: 29737--29783 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
29727 TTAATTAATT
29737 ATTATTGATAATAATAATAATATA
1 ATTATTGATAATAATAATAATATA
* *
29761 ATTATT-ATATTAACTAATTATAT
1 ATTATTGATAATAA-TAATAATAT
29784 TTGATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTATTGATAATAATAATAATATA
Found at i:30686 original size:6 final size:6
Alignment explanation
Indices: 30670--30763 Score: 52
Period size: 6 Copynumber: 15.2 Consensus size: 6
30660 AAATTAGTTA
*
30670 AATTAAT AATTAT AATTA- ATTTA- AATTAAT AATTA- AATTTATT AATTAT
1 AATT-AT AATTAT AATTAT AATTAT AATT-AT AATTAT AA-TTA-T AATTAT
* * **
30719 ACAGT-T AATTAT AATTAT ATAATATT AATTAT AACGAT AATTAT A
1 A-ATTAT AATTAT AATTAT A-ATTA-T AATTAT AATTAT AATTAT A
30764 CTAAATATTA
Statistics
Matches: 68, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
5 11 0.16
6 34 0.50
7 19 0.28
8 4 0.06
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (6 bp):
AATTAT
Found at i:30688 original size:13 final size:13
Alignment explanation
Indices: 30670--30741 Score: 57
Period size: 13 Copynumber: 5.8 Consensus size: 13
30660 AAATTAGTTA
30670 AATTAATAATTAT
1 AATTAATAATTAT
30683 AATTAAT--TTA-
1 AATTAATAATTAT
30693 AATTAATAATTA-
1 AATTAATAATTAT
*
30705 AATTTATTAATTAT
1 AA-TTAATAATTAT
*
30719 ACAGT--TAATTAT
1 A-ATTAATAATTAT
30731 AATTATATAAT
1 AATTA-ATAAT
30742 ATTAATTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
10 7 0.15
11 5 0.10
12 13 0.27
13 16 0.33
14 6 0.12
15 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (13 bp):
AATTAATAATTAT
Found at i:30701 original size:17 final size:17
Alignment explanation
Indices: 30654--30710 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
30644 GAATATAAAC
* *
30654 AATTTAAAAT-TAGTTA
1 AATTTAAATTATAATTA
*
30670 AATTAATAATTATAATT-
1 AATTTA-AATTATAATTA
30687 AATTTAAATTAATAATTA
1 AATTTAAATT-ATAATTA
30705 AATTTA
1 AATTTA
30711 TTAATTATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 9 0.27
17 14 0.42
18 10 0.30
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
AATTTAAATTATAATTA
Found at i:31217 original size:22 final size:23
Alignment explanation
Indices: 31156--31262 Score: 71
Period size: 22 Copynumber: 4.6 Consensus size: 23
31146 ATAACTAAGA
*
31156 TATAATAATATTATATTATTATTAAT
1 TATAATAAT-TAAT-TTA-TATTAAT
31182 TATAATAATTAATTTATATTAAT
1 TATAATAATTAATTTATATTAAT
* *
31205 T-TCATTATTAATTTAT-TATAA-
1 TATAATAATTAATTTATAT-TAAT
*
31226 TATAATTA-TAAGTTTAT-TATAAT
1 TATAATAATTAA-TTTATAT-TAAT
* *
31249 AATAAAAATTAATT
1 TATAATAATTAATT
31263 ATTAAATATA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
21 5 0.07
22 31 0.45
23 15 0.22
24 6 0.09
25 3 0.04
26 9 0.13
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
TATAATAATTAATTTATATTAAT
Found at i:31373 original size:13 final size:12
Alignment explanation
Indices: 31355--31387 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
31345 AATTATGTTA
31355 TTATATAATAAAT
1 TTATATAAT-AAT
31368 TTATATAATAAT
1 TTATATAATAAT
31380 TTA-ATAAT
1 TTATATAAT
31388 TATAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 6 0.30
13 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTATATAATAAT
Found at i:31715 original size:180 final size:181
Alignment explanation
Indices: 31406--31852 Score: 451
Period size: 180 Copynumber: 2.5 Consensus size: 181
31396 TTGTTTGCTA
* * * * * *
31406 AATCAGTTCAAATAATTAAGACTA-TTAGAACAATTATCCATTTCAAATCGTTTTGACCTTTTGT
1 AATCAATTCAAATAGTTATGACTATTTA-AACAATTATCTATTTCAAATCATTATGACCTTTTGT
* * * *
31470 TTAATCATAAAATAATTGCTTCAACTCATACATGCTTATTCAAAATAAAATAACACTAATTTATT
65 TTTATCATAAAATAATTGTTTCAACTCATAAAAGCTTATTCAAAATAAAATAACACTAATTTATT
**
31535 AACATTCA-AAAAATTGTTAAGTAAGA-AATTAGAAA-AAAAATCTA-TTTA-CTG
130 AACATT-ATAAAAATTAATAAGTAAGAGAATTA-AAACAAAAATC-AGTTTATC-G
* * * * * *
31586 AA-CAAGTTCAAATATTTTTTACTATTTAAACAATTATCTATTTAAAATCATTATGACCTTATAT
1 AATCAA-TTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACCTTTTGT
** * * * * *
31650 TTTATCATAAAATAATTGTTTCAGTTCATAAAAGTTTA-TCTGAAATAAAATAATATTACTTTAT
65 TTTATCATAAAATAATTGTTTCAACTCATAAAAGCTTATTC-AAAATAAAATAACACTAATTTAT
* * * *
31714 TAATATTATAAAAATTAATAAGTTAGAGATTTAAAACATAAATCAGTTTATCG
129 TAACATTATAAAAATTAATAAGTAAGAGAATTAAAACAAAAATCAGTTTATCG
* * **
31767 AATCAATTCAAATAGTTATGGCCATTTAAAACAATTATCTATTTCAAATCATTATGAATTTTTGT
1 AATCAATTCAAATAGTTATGACTATTT-AAACAATTATCTATTTCAAATCATTATGACCTTTTGT
* *
31832 TTTGTCATAAAAAAATTGTTT
65 TTTATCATAAAATAATTGTTT
31853 AAATTATTTT
Statistics
Matches: 217, Mismatches: 40, Indels: 18
0.79 0.15 0.07
Matches are distributed among these distances:
179 5 0.02
180 121 0.56
181 36 0.17
182 55 0.25
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (181 bp):
AATCAATTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACCTTTTGTT
TTATCATAAAATAATTGTTTCAACTCATAAAAGCTTATTCAAAATAAAATAACACTAATTTATTA
ACATTATAAAAATTAATAAGTAAGAGAATTAAAACAAAAATCAGTTTATCG
Found at i:31891 original size:17 final size:17
Alignment explanation
Indices: 31865--31901 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
31855 ATTATTTTAT
* *
31865 TTAAATAATATTATTAA
1 TTAAACAATATAATTAA
31882 TTAAACAATATAATTAA
1 TTAAACAATATAATTAA
31899 TTA
1 TTA
31902 TAATATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAACAATATAATTAA
Found at i:32101 original size:27 final size:30
Alignment explanation
Indices: 32077--32157 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
32067 TAAAAATTAT
32077 TGTTA-AT-ATTAA-TAATATATTAATTTAA
1 TGTTATATAATTAATTAAT-TATTAATTTAA
*
32105 TGTTATATAATTAATTAATTATTAA-GTAA
1 TGTTATATAATTAATTAATTATTAATTTAA
*
32134 T-TATATATAATTATATGAATTATT
1 TGT-TATATAATTA-ATTAATTATT
32158 TAAATAGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
28 6 0.13
29 16 0.35
30 20 0.43
31 4 0.09
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (30 bp):
TGTTATATAATTAATTAATTATTAATTTAA
Found at i:32114 original size:23 final size:22
Alignment explanation
Indices: 32079--32124 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
32069 AAAATTATTG
32079 TTAATATTAATAA-TATATTAAT
1 TTAATATTAATAATTA-ATTAAT
*
32101 TTAATGTTATATAATTAATTAAT
1 TTAATATTA-ATAATTAATTAAT
32124 T
1 T
32125 ATTAAGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 11 0.52
24 2 0.10
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTAATATTAATAATTAATTAAT
Found at i:32154 original size:19 final size:18
Alignment explanation
Indices: 32107--32160 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 18
32097 TAATTTAATG
32107 TTATAT-AATTA-ATTAA
1 TTATATGAATTATATTAA
*
32123 TTATTAAGTAATTATATATAA
1 TTA-TATG-AATTATAT-TAA
32144 TTATATGAATTAT-TTAA
1 TTATATGAATTATATTAA
32161 ATAGAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 3 0.10
17 5 0.16
18 1 0.03
19 11 0.35
20 5 0.16
21 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (18 bp):
TTATATGAATTATATTAA
Found at i:33174 original size:16 final size:17
Alignment explanation
Indices: 33153--33186 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33143 AATAGTCATG
33153 TCCATTT-GAACTATTA
1 TCCATTTCGAACTATTA
*
33169 TCCATTTCGAATTATTA
1 TCCATTTCGAACTATTA
33186 T
1 T
33187 GACATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (17 bp):
TCCATTTCGAACTATTA
Found at i:33949 original size:15 final size:16
Alignment explanation
Indices: 33929--33961 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
33919 TTATAATTAA
33929 ATAATAATCTAAT-TT
1 ATAATAATCTAATATT
*
33944 ATAATAATGTAATATT
1 ATAATAATCTAATATT
33960 AT
1 AT
33962 TATAGTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (16 bp):
ATAATAATCTAATATT
Found at i:33998 original size:19 final size:18
Alignment explanation
Indices: 33957--34017 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
33947 ATAATGTAAT
* *
33957 ATTATTATAGTATTTATAT
1 ATTA-TATAATATTTATAA
33976 ATTATATAATATTTATTAA
1 ATTATATAATATTTA-TAA
33995 ATTATAT-ATA-TTATAA
1 ATTATATAATATTTATAA
*
34011 ACTATAT
1 ATTATAT
34018 TTAGTAATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
16 9 0.24
17 3 0.08
18 13 0.34
19 13 0.34
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTATATAATATTTATAA
Found at i:34011 original size:16 final size:16
Alignment explanation
Indices: 33960--34017 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
33950 ATGTAATATT
*
33960 ATTATAGTAT-TTATAT
1 ATTATA-TATATTATAA
33976 ATTATATAATATTTATTAA
1 ATTATAT-ATA-TTA-TAA
33995 ATTATATATATTATAA
1 ATTATATATATTATAA
*
34011 ACTATAT
1 ATTATAT
34018 TTAGTAATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 1 0.03
16 17 0.47
17 3 0.08
18 6 0.17
19 9 0.25
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTATATATATTATAA
Found at i:35266 original size:17 final size:17
Alignment explanation
Indices: 35244--35282 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
35234 AACCATATTA
35244 AAAATAA-ATTAATAATT
1 AAAATAATATTAA-AATT
35261 AAAATAATATTAAAATT
1 AAAATAATATTAAAATT
35278 AAAAT
1 AAAAT
35283 CCTTATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATAATATTAAAATT
Found at i:35753 original size:13 final size:14
Alignment explanation
Indices: 35728--35765 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
35718 ATAATAATGT
35728 TAATAAATTAAA-TA
1 TAAT-AATTAAATTA
*
35742 TAATAGTTAAATTA
1 TAATAATTAAATTA
35756 TAATAATTAA
1 TAATAATTAA
35766 TAAGTAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
TAATAATTAAATTA
Found at i:35834 original size:19 final size:19
Alignment explanation
Indices: 35810--35869 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
35800 TATTTAATTA
35810 TATAATATTAAATATTTAT
1 TATAATATTAAATATTTAT
35829 TATAATATAATAAATATTATAT
1 TATAATAT--TAAATATT-TAT
*
35851 AATAATATT-AAT-TTTAT
1 TATAATATTAAATATTTAT
35868 TA
1 TA
35870 AACAATTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
17 4 0.11
18 2 0.06
19 11 0.31
20 1 0.03
21 8 0.22
22 10 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAATATTAAATATTTAT
Found at i:35850 original size:26 final size:25
Alignment explanation
Indices: 35797--35847 Score: 59
Period size: 26 Copynumber: 1.9 Consensus size: 25
35787 AACATATTTA
35797 ATTTATTTAATTATATAATATTAAAT
1 ATTTATTTAATTATATAATATT-AAT
35823 ATTTATTATAA-TATAATAAATATTA
1 ATTTATT-TAATTAT-AT-AATATTA
35848 TATAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
26 10 0.45
27 6 0.27
28 6 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTATTTAATTATATAATATTAAT
Found at i:35855 original size:17 final size:17
Alignment explanation
Indices: 35806--35857 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 17
35796 AATTTATTTA
*
35806 ATTATATAATATTAAAT
1 ATTATATAATAATAAAT
35823 ATTTATTATAATATAATAAAT
1 A-TTA-TAT-A-ATAATAAAT
35844 ATTATATAATAATA
1 ATTATATAATAATA
35858 TTAATTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 7 0.23
18 4 0.13
19 6 0.20
20 4 0.13
21 9 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTATATAATAATAAAT
Found at i:36672 original size:19 final size:19
Alignment explanation
Indices: 36644--36696 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
36634 CATATGTATT
*
36644 AATTATTAATTATTAAATA
1 AATTAATAATTATTAAATA
*
36663 AATTAATAATTAATAAATA
1 AATTAATAATTATTAAATA
* *
36682 GATAAATAATT-TTAA
1 AATTAATAATTATTAA
36697 TAATTGAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 3 0.10
19 26 0.90
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
AATTAATAATTATTAAATA
Found at i:37016 original size:17 final size:18
Alignment explanation
Indices: 36982--37024 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
36972 TACTAGTTAT
36982 AATATAATTTATAAAGATA
1 AATA-AATTTATAAAGATA
*
37001 AATAAATTTA-ATAGATA
1 AATAAATTTATAAAGATA
*
37018 ATTAAAT
1 AATAAAT
37025 AAATTTACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 12 0.55
18 6 0.27
19 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
AATAAATTTATAAAGATA
Found at i:37589 original size:17 final size:17
Alignment explanation
Indices: 37568--37608 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
37558 TGACTATTAT
37568 TAATATTTATACTAATAA
1 TAATATTTATACTAA-AA
*
37586 -AATAATTATACTAAAA
1 TAATATTTATACTAAAA
37602 TAATATT
1 TAATATT
37609 CAATTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATATTTATACTAAAA
Found at i:37760 original size:16 final size:15
Alignment explanation
Indices: 37728--37790 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 15
37718 AATAATTACC
*
37728 TAATTTATTAGTATAA
1 TAATATATTA-TATAA
37744 TAATATATTATAGTAA
1 TAATATATTATA-TAA
*
37760 TATTATAATTATATAA
1 TAATAT-ATTATATAA
*
37776 TTAA-ATATTAGATAA
1 -TAATATATTATATAA
37791 ACTTATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 10 0.25
16 22 0.55
17 8 0.20
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (15 bp):
TAATATATTATATAA
Found at i:38984 original size:25 final size:24
Alignment explanation
Indices: 38916--39002 Score: 58
Period size: 24 Copynumber: 3.8 Consensus size: 24
38906 CTAATAAATA
* * *
38916 AATAATTATATTTATTA-ATTTTC
1 AATAATTATATTAAATATATTTTT
*
38939 AA-AA-TAT-TTAACAAATA-TTTT
1 AATAATTATATTAA-ATATATTTTT
38960 AATAATTATTATTAAATATATTTTT
1 AATAATTA-TATTAAATATATTTTT
* * *
38985 ACTAGTTATATTTAATAT
1 AATAATTATATTAAATAT
39003 TATAATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
20 3 0.06
21 9 0.18
22 5 0.10
23 4 0.08
24 14 0.29
25 14 0.29
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (24 bp):
AATAATTATATTAAATATATTTTT
Found at i:39108 original size:15 final size:16
Alignment explanation
Indices: 39088--39120 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
39078 TTATAATTAA
*
39088 ATAATAATCTAAT-TT
1 ATAATAATATAATATT
39103 ATAATAATATAATATT
1 ATAATAATATAATATT
39119 AT
1 AT
39121 TATAGTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATAATATAATATT
Found at i:39147 original size:18 final size:19
Alignment explanation
Indices: 39101--39163 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
39091 ATAATCTAAT
*
39101 TTATAATA-ATATAATATTA
1 TTATAATATTTAT-ATATTA
*
39120 TTATAGTATTTATATATTA
1 TTATAATATTTATATATTA
*
39139 -TATAATATTTAT-TA-AA
1 TTATAATATTTATATATTA
39155 TTATAATAT
1 TTATAATAT
39164 GCTTTCATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
17 10 0.26
18 11 0.29
19 13 0.34
20 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATAATATTTATATATTA
Found at i:39838 original size:19 final size:19
Alignment explanation
Indices: 39798--39835 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
39788 TATTTTTGCC
*
39798 TCTTCATTTTTTATTTTTT
1 TCTTCATTTTTCATTTTTT
39817 TCTTC-TTTTTCATTTTTT
1 TCTTCATTTTTCATTTTTT
39835 T
1 T
39836 TCTCAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (19 bp):
TCTTCATTTTTCATTTTTT
Found at i:39882 original size:22 final size:21
Alignment explanation
Indices: 39842--39882 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
39832 TTTTTCTCAA
39842 ATTTTATTTTATATATTTTGT
1 ATTTTATTTTATATATTTTGT
* *
39863 ATTTTCATTTTTTATTTTTT
1 ATTTT-ATTTTATATATTTT
39883 TCTTGCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTATTTTATATATTTTGT
Found at i:40269 original size:8 final size:8
Alignment explanation
Indices: 40258--40304 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
40248 AAATTTTTTA
40258 TTTTTATT
1 TTTTTATT
*
40266 TTTTGAATCT
1 TTTT-TAT-T
40276 TTTTTATT
1 TTTTTATT
40284 TTTTTATT
1 TTTTTATT
*
40292 TTCTTATT
1 TTTTTATT
40300 TTTTT
1 TTTTT
40305 TGCTATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 24 0.73
9 4 0.12
10 5 0.15
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTTTATT
Found at i:40937 original size:16 final size:16
Alignment explanation
Indices: 40918--40951 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
40908 TAATTTTTCA
*
40918 TTAACTTTTTCTCCTT
1 TTAAATTTTTCTCCTT
40934 TTAAATTTTTCTCCTT
1 TTAAATTTTTCTCCTT
40950 TT
1 TT
40952 TTTTTTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAAATTTTTCTCCTT
Found at i:41088 original size:19 final size:19
Alignment explanation
Indices: 41048--41085 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
41038 TATTTTTGCC
*
41048 TCTTCATTTTTTATTTTTT
1 TCTTCATTTTTCATTTTTT
41067 TCTTC-TTTTTCATTTTTT
1 TCTTCATTTTTCATTTTTT
41085 T
1 T
41086 TCTCAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (19 bp):
TCTTCATTTTTCATTTTTT
Found at i:41408 original size:21 final size:21
Alignment explanation
Indices: 41378--41423 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
41368 ACTTTGTTAC
*
41378 TTTTTGCTTTTGTT-TATTTTA
1 TTTTTCCTTTT-TTGTATTTTA
41399 TTTTTCCTTTTTTGGTATTTTA
1 TTTTTCCTTTTTT-GTATTTTA
41421 TTT
1 TTT
41424 AATTTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 2 0.09
21 10 0.45
22 10 0.45
ACGTcount: A:0.09, C:0.07, G:0.09, T:0.76
Consensus pattern (21 bp):
TTTTTCCTTTTTTGTATTTTA
Found at i:41448 original size:16 final size:16
Alignment explanation
Indices: 41416--41467 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
41406 TTTTTTGGTA
41416 TTTT-ATTTAATTT-T
1 TTTTCATTTAATTTAT
*
41430 TTCTC--TTAATTTAT
1 TTTTCATTTAATTTAT
*
41444 TTTTCATTTATTTTAT
1 TTTTCATTTAATTTAT
41460 TTTT-ATTT
1 TTTTCATTT
41468 TAAAATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 7 0.23
14 8 0.26
15 4 0.13
16 12 0.39
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTCATTTAATTTAT
Found at i:41501 original size:7 final size:7
Alignment explanation
Indices: 41491--41542 Score: 52
Period size: 7 Copynumber: 7.0 Consensus size: 7
41481 AAAGTTTAAA
41491 ATTTTTT
1 ATTTTTT
41498 A-TTTTT
1 ATTTTTT
41504 ATTTTTT
1 ATTTTTT
41511 GAATCTTTTTT
1 --A--TTTTTT
41522 ATTTTTT
1 ATTTTTT
*
41529 ATTTCTT
1 ATTTTTT
41536 ATTTTTT
1 ATTTTTT
41543 TGCTATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
6 6 0.16
7 24 0.63
9 2 0.05
11 6 0.16
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (7 bp):
ATTTTTT
Found at i:41959 original size:17 final size:17
Alignment explanation
Indices: 41900--41977 Score: 72
Period size: 17 Copynumber: 4.6 Consensus size: 17
41890 AATTTTTGTC
*
41900 CTTT-TTTATTTTCTTA
1 CTTTATTTATTTTCTTT
* *
41916 CTTT-TTTCTTTTTTTGT
1 CTTTATTTATTTTCTT-T
41933 GCTTTATTTATCTTT-TTT
1 -CTTTATTTAT-TTTCTTT
*
41951 CTTTTTTTATTTTCTTT
1 CTTTATTTATTTTCTTT
41968 CTTTATTTAT
1 CTTTATTTAT
41978 AGTTTCATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
16 16 0.31
17 21 0.41
18 5 0.10
19 6 0.12
20 3 0.06
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.77
Consensus pattern (17 bp):
CTTTATTTATTTTCTTT
Found at i:42330 original size:19 final size:19
Alignment explanation
Indices: 42306--42357 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
42296 TCACACTTTT
42306 TTTTATTTCTTCTTTA-TAA-
1 TTTTATTT-TT-TTTATTAAC
*
42325 TTTTATATTTTTTATTAAC
1 TTTTATTTTTTTTATTAAC
42344 TTTTATTTTATTTT
1 TTTTATTTT-TTTT
42358 TCATCTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.14
18 5 0.18
19 15 0.54
20 4 0.14
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTATTTTTTTTATTAAC
Found at i:42376 original size:45 final size:43
Alignment explanation
Indices: 42286--42383 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 43
42276 TTTTTCTTAA
* *
42286 ATCTTTTTGTTCACACTTTTTTTTATTTCTTCTTTATAATTTTAT
1 ATCTTTTTATT-A-ACTTTTTTTTATTTCATCTTTATAATTTTAT
42331 AT-TTTTTATTAACTTTTATTTTATTTTTCATCTTTCAT-ATTTTAT
1 ATCTTTTTATTAACTTTT-TTTTA--TTTCATCTTT-ATAATTTTAT
42376 ATCTTTTT
1 ATCTTTTT
42384 CCTCTATTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
42 6 0.13
43 6 0.13
44 7 0.15
45 20 0.43
46 7 0.15
ACGTcount: A:0.19, C:0.11, G:0.01, T:0.68
Consensus pattern (43 bp):
ATCTTTTTATTAACTTTTTTTTATTTCATCTTTATAATTTTAT
Found at i:43097 original size:17 final size:17
Alignment explanation
Indices: 43044--43103 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
43034 ATTTTTGTCC
* *
43044 TTTTTTAATTTCTTACT
1 TTTTTTATTTTCTTTCT
43061 TTTTTCT-TTTT-TTGTGCT
1 TTTTT-TATTTTCTT-T-CT
43079 TTTTTTATTTTCTTTCT
1 TTTTTTATTTTCTTTCT
*
43096 TTATTTAT
1 TTTTTTAT
43104 AGTTTCATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
16 2 0.06
17 18 0.51
18 13 0.37
19 2 0.06
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTTTATTTTCTTTCT
Done.