Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168198.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_434, 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: 26978
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
File 1 of 2
Found at i:71 original size:23 final size:25
Alignment explanation
Indices: 42--91 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
32 TTCAGATAAT
*
42 TAATAATAAATT-A-TAAGTATTTA
1 TAATAATAAATTAATTAAATATTTA
*
65 TAATAATAATTTAATTAAATATTTA
1 TAATAATAAATTAATTAAATATTTA
90 TA
1 TA
92 TTTTATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TAATAATAAATTAATTAAATATTTA
Found at i:582 original size:33 final size:29
Alignment explanation
Indices: 508--584 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 29
498 TTAATAGAAA
508 TATTAATAATGAA-ATTTTATTTAATAAT
1 TATTAATAATGAATATTTTATTTAATAAT
*
536 GATTAATAA--AATATTCATTATTTAATTAAT
1 TATTAATAATGAATATT--TTATTTAA-TAAT
566 TATTAATTAATGAATATTT
1 TATTAA-TAATGAATATTT
585 AATAACTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
26 2 0.05
27 3 0.08
28 8 0.20
29 8 0.20
30 9 0.22
31 4 0.10
33 6 0.15
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (29 bp):
TATTAATAATGAATATTTTATTTAATAAT
Found at i:658 original size:23 final size:24
Alignment explanation
Indices: 632--700 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 24
622 ATATGCCAAA
632 AATTCATTAATTATATAAT-TA-AT
1 AATT-ATTAATTATATAATATATAT
655 AATTGATT-A-TATATAATATATAT
1 AATT-ATTAATTATATAATATATAT
**
678 AATTA-TAATTATATGTTATATAT
1 AATTATTAATTATATAATATATAT
701 TTATCATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 9 0.23
22 5 0.13
23 25 0.64
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (24 bp):
AATTATTAATTATATAATATATAT
Found at i:682 original size:19 final size:19
Alignment explanation
Indices: 637--684 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
627 CCAAAAATTC
637 ATTAATTATATAATTAATA
1 ATTAATTATATAATTAATA
*
656 ATTGATTATAT-A-TAATA
1 ATTAATTATATAATTAATA
673 TATATAATTATA
1 -AT-TAATTATA
685 ATTATATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.20
18 3 0.12
19 17 0.68
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATTAATTATATAATTAATA
Found at i:907 original size:33 final size:32
Alignment explanation
Indices: 865--976 Score: 109
Period size: 33 Copynumber: 3.3 Consensus size: 32
855 AATTATACTA
865 TATAAAATAATTATATTTTATAATTAATATAT
1 TATAAAATAATTATATTTTATAATTAATATAT
* * *
897 TATAATAATAATTATAATAT-TAATTATTTATAT
1 TATAA-AATAATTATATTTTATAATTA-ATATAT
*
930 TATAAATATAATATAATCATTTTATATTTAATATAT
1 TATAAA-ATAAT-T-AT-ATTTTATAATTAATATAT
966 TAATAATAATA
1 T-ATAA-AATA
977 GTGAATTTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
32 12 0.19
33 27 0.42
34 1 0.02
35 2 0.03
36 9 0.14
37 12 0.19
38 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (32 bp):
TATAAAATAATTATATTTTATAATTAATATAT
Found at i:913 original size:6 final size:6
Alignment explanation
Indices: 871--946 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
861 ACTATATAAA
* *
871 ATAATT ATATTTT ATAATT AATATATT ATAATA ATAATT ATAA-T ATTAATT
1 ATAATT ATA-ATT ATAATT -ATA-ATT ATAATT ATAATT ATAATT A-TAATT
*
922 AT--TT AT-ATT ATAAAT ATAA-T ATAAT
1 ATAATT ATAATT ATAATT ATAATT ATAAT
947 CATTTTATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
4 4 0.07
5 11 0.19
6 26 0.46
7 13 0.23
8 3 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:916 original size:20 final size:20
Alignment explanation
Indices: 789--918 Score: 73
Period size: 21 Copynumber: 6.7 Consensus size: 20
779 CAATTGATAT
*
789 TAATTATATTATTATAATAA
1 TAATTATAATATTATAATAA
* *
809 TTGATTATACTATATTATAACAA
1 -TAATTATA--ATATTATAATAA
* *
832 CTAAATATAATTATTATAA-ACT
1 -TAATTATAA-TATTATAATA-A
*
854 TAATTATACTA-TATAA-AA
1 TAATTATAATATTATAATAA
872 TAATTAT-AT-TT-T-ATAA
1 TAATTATAATATTATAATAA
*
888 T--TAAT-ATATTATAATAA
1 TAATTATAATATTATAATAA
905 TAATTATAATATTA
1 TAATTATAATATTA
919 ATTATTTATA
Statistics
Matches: 84, Mismatches: 13, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
14 5 0.06
15 3 0.04
16 5 0.06
17 7 0.08
18 7 0.08
19 9 0.11
20 8 0.10
21 16 0.19
22 8 0.10
23 16 0.19
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (20 bp):
TAATTATAATATTATAATAA
Found at i:1419 original size:14 final size:14
Alignment explanation
Indices: 1402--1448 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
1392 AATTATAAAT
1402 ATAATTATATATAA
1 ATAATTATATATAA
1416 ATAATTAT-TATAA
1 ATAATTATATATAA
*
1429 ATTATATTAAAT-TAA
1 A-TA-ATTATATATAA
1444 ATAAT
1 ATAAT
1449 CAAATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 8 0.28
14 12 0.41
15 8 0.28
16 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATTATATATAA
Found at i:1437 original size:29 final size:28
Alignment explanation
Indices: 1393--1448 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
1383 AATATTACCA
*
1393 ATTATAAATATAATTATATATAAATAATT
1 ATTATAAATATAATTAAAT-TAAATAATT
1422 ATTATAAAT-TATATTAAATTAAATAAT
1 ATTATAAATATA-ATTAAATTAAATAAT
1449 CAAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTATAAATATAATTAAATTAAATAATT
Found at i:1557 original size:21 final size:21
Alignment explanation
Indices: 1533--1576 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1523 TTAAATATTT
1533 TAATAATAATATCATA-TATAA
1 TAATAATAAT-TCATATTATAA
* *
1554 TAATTATAATTGATATTATAA
1 TAATAATAATTCATATTATAA
1575 TA
1 TA
1577 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATAATAATTCATATTATAA
Found at i:1700 original size:26 final size:26
Alignment explanation
Indices: 1640--1692 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
1630 AAAATATATT
*
1640 TATAT-TAA-AAATTAAACTATTTTA
1 TATATATAATAAATAAAACTATTTTA
1664 TATATATAATAAATAAAACTA-TTTA
1 TATATATAATAAATAAAACTATTTTA
1689 TATA
1 TATA
1693 CTCTAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 11 0.42
26 10 0.38
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (26 bp):
TATATATAATAAATAAAACTATTTTA
Found at i:1714 original size:10 final size:10
Alignment explanation
Indices: 1696--1751 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
1686 TTATATACTC
1696 TAATA-TTAT
1 TAATATTTAT
1705 TAATATTTAT
1 TAATATTTAT
1715 T-A-ATTTAT
1 TAATATTTAT
*
1723 TATAAATTTAT
1 TA-ATATTTAT
*
1734 ATAATATTTGT
1 -TAATATTTAT
1745 TAATATT
1 TAATATT
1752 AGAAGATGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 7 0.17
9 6 0.15
10 13 0.32
11 12 0.30
12 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TAATATTTAT
Found at i:1936 original size:22 final size:21
Alignment explanation
Indices: 1910--1958 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
1900 ACTAGTAATT
1910 TTAATAATTATTTATAAATTAA
1 TTAATAATTA-TTATAAATTAA
* *
1932 TTAATTAATTATTATTATTTAA
1 TTAA-TAATTATTATAAATTAA
1954 TTAAT
1 TTAAT
1959 TTAATAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 17 0.71
23 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATAATTATTATAAATTAA
Found at i:1939 original size:26 final size:23
Alignment explanation
Indices: 1909--1967 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 23
1899 AACTAGTAAT
1909 TTTAATAATTATTTATAAATTAATTAA
1 TTTAATAATTA-TTAT---TTAATTAA
*
1936 -TTAATTATTATTATTTAATTAA
1 TTTAATAATTATTATTTAATTAA
1958 TTTAATAATT
1 TTTAATAATT
1968 GTATAGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 8 0.28
23 8 0.28
25 4 0.14
26 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTAATAATTATTATTTAATTAA
Found at i:2092 original size:11 final size:11
Alignment explanation
Indices: 2076--2105 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2066 CTATTCACAC
2076 AATTATATCAT
1 AATTATATCAT
*
2087 AATTATATCGT
1 AATTATATCAT
2098 AATTATAT
1 AATTATAT
2106 TAGATACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (11 bp):
AATTATATCAT
Found at i:2240 original size:15 final size:16
Alignment explanation
Indices: 2215--2247 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2205 GATAATATAT
*
2215 AATATTTAAATTTTAA
1 AATATTTAAATATTAA
2231 AATA-TTAAATATTAA
1 AATATTTAAATATTAA
2246 AA
1 AA
2248 CTAATATTAT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATTTAAATATTAA
Found at i:2509 original size:14 final size:13
Alignment explanation
Indices: 2486--2530 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
2476 TTATAAAAAT
*
2486 ATATTTATTATTA
1 ATATTTATTATAA
2499 ATATTTGATTATAA
1 ATATTT-ATTATAA
*
2513 ATATTTATAATAA
1 ATATTTATTATAA
*
2526 TTATT
1 ATATT
2531 AAAAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
ATATTTATTATAA
Found at i:2908 original size:18 final size:18
Alignment explanation
Indices: 2859--2909 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
2849 GAATTGTAGA
2859 ATTTCTATATAATTAAAAT
1 ATTT-TATATAATTAAAAT
*
2878 ATTTTATACAATTAAAAT
1 ATTTTATATAATTAAAAT
*
2896 ATTTTATTTAATTA
1 ATTTTATATAATTA
2910 GTATTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTATATAATTAAAAT
Found at i:3832 original size:29 final size:31
Alignment explanation
Indices: 3800--3860 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
3790 ATTTTTTCAT
*
3800 ATTATTAATTT-TAATTA-ATATAAAAAATA
1 ATTAGTAATTTATAATTATATATAAAAAATA
* *
3829 ATTAGTATTTTATAATTATATATAAATAATA
1 ATTAGTAATTTATAATTATATATAAAAAATA
3860 A
1 A
3861 AAATTTAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 9 0.33
30 6 0.22
31 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (31 bp):
ATTAGTAATTTATAATTATATATAAAAAATA
Found at i:4261 original size:14 final size:14
Alignment explanation
Indices: 4207--4270 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
4197 ATATATAAAT
4207 TAATTATTATAATAA
1 TAATTATTA-AATAA
4222 TAA--A-TAATATAA
1 TAATTATTAA-ATAA
*
4234 TAATTATTATATAA
1 TAATTATTAAATAA
*
4248 TTATTATTAAATAA
1 TAATTATTAAATAA
*
4262 TAATAATTA
1 TAATTATTA
4271 TATTAACTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
11 1 0.03
12 9 0.22
13 1 0.03
14 24 0.60
15 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTATTAAATAA
Found at i:4293 original size:19 final size:19
Alignment explanation
Indices: 4209--4294 Score: 59
Period size: 19 Copynumber: 4.4 Consensus size: 19
4199 ATATAAATTA
4209 ATTATTATAATAATAAATAAT
1 ATTATTA-AATAAT-AATAAT
* * *
4230 A-TAATAATTATTATATAATT
1 ATTATTAAATAATA-ATAA-T
4250 ATTATTAAATAATAATAAT
1 ATTATTAAATAATAATAAT
* * *
4269 -TATATTAACTAATATTACT
1 AT-TATTAAATAATAATAAT
4288 ATTATTA
1 ATTATTA
4295 TAGAAATTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.04
19 28 0.55
20 11 0.22
21 10 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTATTAAATAATAATAAT
Found at i:4748 original size:10 final size:10
Alignment explanation
Indices: 4722--4846 Score: 70
Period size: 10 Copynumber: 12.6 Consensus size: 10
4712 AATAAATTAA
*
4722 ATATTAATTT
1 ATATTAATAT
4732 A-ATTAATAT
1 ATATTAATAT
4741 ATATTAATAAT
1 ATATTAAT-AT
4752 ATTATGTAATAT
1 A-TAT-TAATAT
*
4764 ATAATTGGATAT
1 AT-ATT-AATAT
4776 -TATT-A-AT
1 ATATTAATAT
4783 -TATT-ATAT
1 ATATTAATAT
*
4791 ATAATAATAT
1 ATATTAATAT
*
4801 ATATAAATAT
1 ATATTAATAT
4811 ATA-TAAT-T
1 ATATTAATAT
4819 ATA-TAATACTT
1 ATATTAATA--T
*
4830 CATATTATTAT
1 -ATATTAATAT
4841 ATATTA
1 ATATTA
4847 TTAAAAATAA
Statistics
Matches: 94, Mismatches: 7, Indels: 28
0.73 0.05 0.22
Matches are distributed among these distances:
7 7 0.07
8 11 0.12
9 14 0.15
10 31 0.33
11 8 0.09
12 15 0.16
13 8 0.09
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (10 bp):
ATATTAATAT
Found at i:4753 original size:47 final size:47
Alignment explanation
Indices: 4702--4819 Score: 116
Period size: 47 Copynumber: 2.5 Consensus size: 47
4692 AACTAAATCC
4702 AATATTATCT-A-ATA-AATTAAATATTAATTTAATTAATATATATTAAT
1 AATATTATCTAATATATAATTAAATATT-A-TTAATTAATATATA-TAAT
* ** *
4749 AATATTATGTAATATATAATTGGATATTATTAATTATTATATATAAT
1 AATATTATCTAATATATAATTAAATATTATTAATTAATATATATAAT
**
4796 AATATATATAAATATATATAATTA
1 AATAT-TATCTA-ATATATAATTA
4820 TATAATACTT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
47 18 0.31
48 18 0.31
49 14 0.24
50 9 0.15
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.47
Consensus pattern (47 bp):
AATATTATCTAATATATAATTAAATATTATTAATTAATATATATAAT
Found at i:4765 original size:25 final size:24
Alignment explanation
Indices: 4737--4826 Score: 71
Period size: 26 Copynumber: 3.7 Consensus size: 24
4727 AATTTAATTA
4737 ATATATATTAATAATATTATGTAAT
1 ATATATATTAATAATATTAT-TAAT
**
4762 ATATA-ATT--GGATATTATTAAT
1 ATATATATTAATAATATTATTAAT
*
4783 -TATTATATATAATAATATATATAAAT
1 ATA-TATAT-TAATAATAT-TATTAAT
4809 ATATATAATTATATAATA
1 ATATAT-ATTA-ATAATA
4827 CTTCATATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
20 2 0.04
21 6 0.12
22 9 0.18
23 1 0.02
24 3 0.06
25 9 0.18
26 11 0.22
27 10 0.20
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (24 bp):
ATATATATTAATAATATTATTAAT
Found at i:4803 original size:12 final size:12
Alignment explanation
Indices: 4735--4823 Score: 55
Period size: 12 Copynumber: 7.6 Consensus size: 12
4725 TTAATTTAAT
4735 TAATATATATTAA
1 TAATATATA-TAA
*
4748 TAATAT-TAT-G
1 TAATATATATAA
*
4758 TAATATATA-AT
1 TAATATATATAA
*
4769 TGGATAT-TATTAA
1 T-AATATATA-TAA
*
4782 TTATTATATATAA
1 -TAATATATATAA
4795 TAATATATAT-A
1 TAATATATATAA
4806 -AATATATATAA
1 TAATATATATAA
*
4817 TTATATA
1 TAATATA
4824 ATACTTCATA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
10 15 0.25
11 8 0.14
12 20 0.34
13 13 0.22
14 3 0.05
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
TAATATATATAA
Found at i:4972 original size:22 final size:20
Alignment explanation
Indices: 4932--4978 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
4922 ATTGTTCAAG
* *
4932 TAATTATCATTTTATTTAAT
1 TAATTAACATTTTATTTAAA
4952 TAATTAACATTTAATATTTAAA
1 TAATTAACATTT--TATTTAAA
4974 TAATT
1 TAATT
4979 TTGACTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
22 12 0.52
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTAACATTTTATTTAAA
Found at i:5187 original size:36 final size:38
Alignment explanation
Indices: 5111--5204 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 38
5101 AAATTTAATA
* **
5111 AATAATTTATAAT-ATAATTAATTATAATTATTATTTT
1 AATAATTTATAATAATAATTAATTATAATAATTATCCT
* *
5148 AATAATTTATAATAAT-ATT-GTTATTATAATTATCCT
1 AATAATTTATAATAATAATTAATTATAATAATTATCCT
*
5184 AATAA-TTACTAATAATGATTA
1 AATAATTTA-TAATAATAATTA
5205 TCTTTAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
35 3 0.06
36 24 0.50
37 19 0.40
38 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (38 bp):
AATAATTTATAATAATAATTAATTATAATAATTATCCT
Found at i:5929 original size:14 final size:16
Alignment explanation
Indices: 5912--5944 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
5902 TTTATAGCAT
5912 TATAATTA-TA-AATA
1 TATAATTACTATAATA
5926 TATAATTACTATAATA
1 TATAATTACTATAATA
5942 TAT
1 TAT
5945 TTATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATTACTATAATA
Found at i:6156 original size:9 final size:9
Alignment explanation
Indices: 6144--6191 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
6134 AATAATTAAA
6144 ATTATTACT
1 ATTATTACT
6153 ATTAGTTA-T
1 ATTA-TTACT
6162 ATT-TTGACT
1 ATTATT-ACT
6171 ATTATT--T
1 ATTATTACT
6178 ATTATTACT
1 ATTATTACT
6187 ATTAT
1 ATTAT
6192 AATAATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 9 0.27
8 1 0.03
9 18 0.55
10 5 0.15
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (9 bp):
ATTATTACT
Found at i:6173 original size:18 final size:16
Alignment explanation
Indices: 6144--6191 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
6134 AATAATTAAA
6144 ATTATTACTATTAGTTAT
1 ATTATTACTATTA-TT-T
6162 ATT-TTGACTATTATTT
1 ATTATT-ACTATTATTT
6178 ATTATTACTATTAT
1 ATTATTACTATTAT
6192 AATAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 12 0.43
17 6 0.21
18 10 0.36
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (16 bp):
ATTATTACTATTATTT
Found at i:7660 original size:13 final size:13
Alignment explanation
Indices: 7642--7767 Score: 68
Period size: 13 Copynumber: 9.5 Consensus size: 13
7632 ATTTATCCAG
*
7642 TAATATTTGATAA
1 TAATATTTAATAA
7655 TAATATTTAATAA
1 TAATATTTAATAA
7668 TAA-ATTTAAATAA
1 TAATATTT-AATAA
*
7681 -AATAATTTATTAA
1 TAAT-ATTTAATAA
*
7694 T-ATAAATTAA-AA
1 TAAT-ATTTAATAA
7706 TAAT-TTTAATTTTAA
1 TAATATTTAA---TAA
7721 TATTATAATTTAATTAA
1 TA--AT-ATTTAA-TAA
*
7738 TAA-AATTAATAA
1 TAATATTTAATAA
*
7750 TAATA-TTAACAA
1 TAATATTTAATAA
7762 TAATAT
1 TAATAT
7768 GATTTATTAT
Statistics
Matches: 91, Mismatches: 7, Indels: 30
0.71 0.05 0.23
Matches are distributed among these distances:
11 4 0.04
12 26 0.29
13 39 0.43
14 4 0.04
15 5 0.05
17 8 0.09
19 5 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (13 bp):
TAATATTTAATAA
Found at i:7684 original size:28 final size:28
Alignment explanation
Indices: 7653--7708 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
7643 AATATTTGAT
*
7653 AATAATAT-TTAATAATAAATTTAAATAA
1 AATAATATATTAAT-ATAAATTAAAATAA
*
7681 AATAATTTATTAATATAAATTAAAATAA
1 AATAATATATTAATATAAATTAAAATAA
7709 TTTTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
AATAATATATTAATATAAATTAAAATAA
Found at i:7725 original size:23 final size:23
Alignment explanation
Indices: 7674--7753 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 23
7664 ATAATAAATT
7674 TAAA-TAAAATAATTTATTAATA
1 TAAATTAAAATAATTTATTAATA
*
7696 TAAATTAAAATAA-TT-TTAATT
1 TAAATTAAAATAATTTATTAATA
* **
7717 TTAA-TATTATAATTTAATTAATA
1 TAAATTAAAATAATTT-ATTAATA
7740 -AAATTAATAATAAT
1 TAAATTAA-AATAAT
7754 ATTAACAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
20 6 0.14
21 10 0.23
22 8 0.18
23 15 0.34
24 5 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAATTAAAATAATTTATTAATA
Found at i:7830 original size:18 final size:18
Alignment explanation
Indices: 7783--7852 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
7773 ATTATAATTG
7783 AATTAATATTAA-TATTAT
1 AATT-ATATTAATTATTAT
*
7801 AATTATAATAATTATTAT
1 AATTATATTAATTATTAT
*
7819 -TTTCATATTAATTAAAATTAT
1 AATT-ATATTAATT---ATTAT
*
7840 AATAATATTAATT
1 AATTATATTAATT
7853 GAATAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.20
18 18 0.44
21 14 0.34
22 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTATATTAATTATTAT
Found at i:7852 original size:15 final size:15
Alignment explanation
Indices: 7691--7862 Score: 63
Period size: 15 Copynumber: 11.3 Consensus size: 15
7681 AATAATTTAT
* *
7691 TAATATAAATTAAAA
1 TAATATTAATTATAA
* *
7706 TAATTTTAATTTTAA
1 TAATATTAATTATAA
*
7721 TATTA-TAATT-TAA
1 TAATATTAATTATAA
*
7734 TTAATA-AAATTAATAA
1 -TAATATTAATT-ATAA
**
7750 TAATATTAACAATAA
1 TAATATTAATTATAA
*
7765 T-ATGATTTATTATAA
1 TAAT-ATTAATTATAA
*
7780 TTGA-ATTAA-TATTAA
1 -TAATATTAATTA-TAA
*
7795 TATTA-TAATTATAA
1 TAATATTAATTATAA
* *
7809 TAATTATTATTTTCATAT
1 TAA-TATTA-ATT-ATAA
*
7827 TAAT-TAAAATTATAA
1 TAATAT-TAATTATAA
7842 TAATATTAATTGAATAA
1 TAATATTAATT--ATAA
7859 TAAT
1 TAAT
7863 TCAAATATTA
Statistics
Matches: 115, Mismatches: 24, Indels: 34
0.66 0.14 0.20
Matches are distributed among these distances:
13 3 0.03
14 26 0.23
15 55 0.48
16 12 0.10
17 13 0.11
18 6 0.05
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.47
Consensus pattern (15 bp):
TAATATTAATTATAA
Found at i:8029 original size:17 final size:17
Alignment explanation
Indices: 7993--8048 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
7983 AATACTATGA
7993 ATTATTAATATAAGTCTTAT
1 ATTA-TAATATAAG--TTAT
8013 ATTATAATATAAGTTAT
1 ATTATAATATAAGTTAT
*
8030 ATTAATAA-ATTAGTTAT
1 ATT-ATAATATAAGTTAT
8047 AT
1 AT
8049 CATATTAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 17 0.50
18 4 0.12
19 9 0.26
20 4 0.12
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (17 bp):
ATTATAATATAAGTTAT
Found at i:8588 original size:21 final size:22
Alignment explanation
Indices: 8564--8609 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
8554 TTCTTAGTTA
*
8564 TAAATCTAATTGTATTT-ATTT
1 TAAATATAATTGTATTTAATTT
* *
8585 TAAATATTATTTTATTTAATTT
1 TAAATATAATTGTATTTAATTT
8607 TAA
1 TAA
8610 TAATCAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TAAATATAATTGTATTTAATTT
Found at i:8639 original size:23 final size:23
Alignment explanation
Indices: 8613--8658 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8603 ATTTTAATAA
* *
8613 TCAATTTAAAATAAATATTATAT
1 TCAATATAAAATAAATAATATAT
* *
8636 TCAATATATATTAAATAATATAT
1 TCAATATAAAATAAATAATATAT
8659 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TCAATATAAAATAAATAATATAT
Found at i:8688 original size:21 final size:20
Alignment explanation
Indices: 8632--8689 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
8622 AATAAATATT
*
8632 ATATTCAATATATATTAAATA
1 ATATTCAAAATAT-TTAAATA
* *
8653 ATATAT-AAAAAATTTAATTA
1 ATAT-TCAAAATATTTAAATA
8673 ATTATTCAAAATATTTA
1 A-TATTCAAAATATTTA
8690 TTTTTATATC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 8 0.27
21 21 0.70
22 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATTCAAAATATTTAAATA
Found at i:8949 original size:22 final size:22
Alignment explanation
Indices: 8909--8951 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8899 TTAAATTTGT
*
8909 ATTATAATAAATATTATATTAC
1 ATTATAATAAATATAATATTAC
8931 ATTATAAT-AATAGTAATATTA
1 ATTATAATAAATA-TAATATTA
8952 GTTAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTATAATAAATATAATATTAC
Found at i:9260 original size:18 final size:16
Alignment explanation
Indices: 9237--9277 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
9227 TATTATTAAA
9237 TTAATTATAATAATATAT
1 TTAATTATAAT-ATAT-T
*
9255 TTAATTGTAATATATT
1 TTAATTATAATATATT
9271 TTAATTA
1 TTAATTA
9278 AACAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 4 0.19
18 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAATTATAATATATT
Found at i:9467 original size:22 final size:22
Alignment explanation
Indices: 9442--9483 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9432 ATTAATCAGT
*
9442 TTTAATTTATTTAA-TAATATTA
1 TTTAAATTA-TTAATTAATATTA
9464 TTTAAATTATTAATTAATAT
1 TTTAAATTATTAATTAATAT
9484 ATTGATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAAATTATTAATTAATATTA
Found at i:9497 original size:25 final size:25
Alignment explanation
Indices: 9452--9499 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
9442 TTTAATTTAT
9452 TTAATAATATTATTTAAATTATTAA
1 TTAATAATATTATTTAAATTATTAA
9477 TTAAT-ATATTGA-TTAATATTATT
1 TTAATAATATT-ATTTAA-ATTATT
9500 TGTAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TTAATAATATTATTTAAATTATTAA
Found at i:9510 original size:16 final size:16
Alignment explanation
Indices: 9491--9546 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
9481 TATATTGATT
9491 AATATTATTTGTAATA
1 AATATTATTTGTAATA
*
9507 AATATTAATAT-TAATAA
1 AATATT-ATTTGTAAT-A
*
9524 TAATAACTATTTGTAATA
1 -AAT-ATTATTTGTAATA
9542 AATAT
1 AATAT
9547 GATATAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
16 11 0.35
17 7 0.23
18 7 0.23
19 6 0.19
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (16 bp):
AATATTATTTGTAATA
Found at i:9527 original size:22 final size:22
Alignment explanation
Indices: 9488--9534 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9478 TAATATATTG
* **
9488 ATTAATATTATTTGTAATAAAT
1 ATTAATATTAATAATAATAAAT
*
9510 ATTAATATTAATAATAATAACT
1 ATTAATATTAATAATAATAAAT
9532 ATT
1 ATT
9535 TGTAATAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTAATATTAATAATAATAAAT
Found at i:10303 original size:18 final size:17
Alignment explanation
Indices: 10280--10334 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 17
10270 ATATCAGTAT
10280 ATTTATAATTTGTATTAA
1 ATTTATAATTT-TATTAA
10298 ATTTATAATTTTAATATAA
1 ATTTATAATTTT-AT-TAA
10317 ATTGTA-AATTTATATTAA
1 ATT-TATAATTT-TATTAA
10335 TAGTTATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.03
18 16 0.48
19 13 0.39
20 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
ATTTATAATTTTATTAA
Found at i:10655 original size:38 final size:39
Alignment explanation
Indices: 10611--10693 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 39
10601 TTTATTATCT
10611 TTAAAACTATTTAATTATAACT-AATAATTAAATTATTA
1 TTAAAACTATTTAATTATAACTAAATAATTAAATTATTA
*
10649 TTAAAACTATTTAATTATAACTAAATAATTAAATTGTTA
1 TTAAAACTATTTAATTATAACTAAATAATTAAATTATTA
10688 TTAAAA
1 TTAAAA
10694 ATTATAACAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 22 0.51
39 21 0.49
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (39 bp):
TTAAAACTATTTAATTATAACTAAATAATTAAATTATTA
Found at i:10670 original size:14 final size:13
Alignment explanation
Indices: 10615--10671 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
10605 TTATCTTTAA
10615 AACTATTTAATTAT
1 AACTA-TTAATTAT
*
10629 AACTAATAATTA-
1 AACTATTAATTAT
* *
10641 AATTATT-ATTAA
1 AACTATTAATTAT
10653 AACTATTTAATTAT
1 AACTA-TTAATTAT
10667 AACTA
1 AACTA
10672 AATAATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 4 0.11
12 9 0.26
13 8 0.23
14 14 0.40
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
AACTATTAATTAT
Found at i:10673 original size:20 final size:20
Alignment explanation
Indices: 10612--10673 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
10602 TTATTATCTT
10612 TAAAACTATTTAATTATAAC
1 TAAAACTATTTAATTATAAC
* * * *
10632 TAATA--ATTAAATTATTAT
1 TAAAACTATTTAATTATAAC
10650 TAAAACTATTTAATTATAAC
1 TAAAACTATTTAATTATAAC
10670 TAAA
1 TAAA
10674 TAATTAAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
18 14 0.44
20 18 0.56
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAACTATTTAATTATAAC
Found at i:10723 original size:24 final size:24
Alignment explanation
Indices: 10692--10759 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 24
10682 TTGTTATTAA
*
10692 AAAT-TATAACAAGTAATTAATAT
1 AAATATATAATAAGTAATTAATAT
10715 AAATATATAATAAG-AATT--TA-
1 AAATATATAATAAGTAATTAATAT
*
10735 AATTA-ATAATAAGTAATTAATAT
1 AAATATATAATAAGTAATTAATAT
10758 AA
1 AA
10760 TTTTTAATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 8 0.21
20 8 0.21
21 2 0.05
22 2 0.05
23 10 0.26
24 8 0.21
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATAATAAGTAATTAATAT
Found at i:10760 original size:19 final size:19
Alignment explanation
Indices: 10716--10760 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
10706 AATTAATATA
10716 AATAT-ATAATAAGAATTT
1 AATATAATAATAAGAATTT
10734 AA-ATTAATAATAAGTAA-TT
1 AATA-TAATAATAAG-AATTT
10753 AATATAAT
1 AATATAAT
10761 TTTTAATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.04
18 3 0.13
19 16 0.70
20 3 0.13
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
AATATAATAATAAGAATTT
Found at i:10767 original size:23 final size:23
Alignment explanation
Indices: 10695--10767 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
10685 TTATTAAAAA
*
10695 TTATAACAAGTAATTAATATAAAT
1 TTATAATAAGTAATTAATAT-AAT
*
10719 ATATAATAAG-AATT--TA-AAT
1 TTATAATAAGTAATTAATATAAT
*
10738 TAATAATAAGTAATTAATATAAT
1 TTATAATAAGTAATTAATATAAT
*
10761 TTTTAAT
1 TTATAAT
10768 CTAATTAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
19 11 0.28
20 4 0.10
21 2 0.05
22 2 0.05
23 12 0.31
24 8 0.21
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (23 bp):
TTATAATAAGTAATTAATATAAT
Found at i:10889 original size:17 final size:17
Alignment explanation
Indices: 10848--10897 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
10838 ATTTAGTTAT
* *
10848 TATATAATTATTATTTAA
1 TATA-AATTATTAATAAA
10866 T-TAAATTATTAATAAA
1 TATAAATTATTAATAAA
*
10882 TATAAATTATTTATAA
1 TATAAATTATTAATAA
10898 TAAATATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 12 0.43
17 15 0.54
18 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAAATTATTAATAAA
Found at i:11333 original size:21 final size:21
Alignment explanation
Indices: 11295--11334 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11285 TATAGTAATA
*
11295 AATTATTAAATAATTTATTGC
1 AATTATTAAATAACTTATTGC
11316 AATTATT-AATATACTTATT
1 AATTATTAAATA-ACTTATT
11335 TATTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (21 bp):
AATTATTAAATAACTTATTGC
Found at i:11436 original size:16 final size:17
Alignment explanation
Indices: 11415--11472 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 17
11405 AACTAGTGTA
11415 ATATAATATTAT-AATT
1 ATATAATATTATAAATT
* *
11431 ATATAATATT-TGAATA
1 ATATAATATTATAAATT
11447 ATATAA-ATTATACAATT
1 ATATAATATTATA-AATT
11464 A-ATAATATT
1 ATATAATATT
11473 TTTATAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 4 0.11
16 24 0.69
17 7 0.20
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
ATATAATATTATAAATT
Found at i:11469 original size:32 final size:32
Alignment explanation
Indices: 11413--11482 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
11403 ATAACTAGTG
11413 TAATATAATATTATAATTATATAATATTTGAA
1 TAATATAATATTATAATTATATAATATTTGAA
**
11445 TAATATAA-ATTATACAATTA-ATAATATTTTTA
1 TAATATAATATTAT--AATTATATAATATTTGAA
11477 TAATAT
1 TAATAT
11483 TATTAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 5 0.15
32 24 0.71
33 5 0.15
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
TAATATAATATTATAATTATATAATATTTGAA
Found at i:11520 original size:22 final size:22
Alignment explanation
Indices: 11495--11582 Score: 67
Period size: 22 Copynumber: 3.9 Consensus size: 22
11485 TTAAAAATAA
*
11495 TATTAAATTAAATATATTTAAT
1 TATTAAATTAAATAAATTTAAT
11517 TATTAAAATT-AATAAATTTAA-
1 TATT-AAATTAAATAAATTTAAT
*
11538 CATT-AA-TAAATTATAATTATAAACT
1 TATTAAATTAAA-TA-AATT-T-AA-T
*
11563 TATTAAATTGAATAAATTTA
1 TATTAAATTAAATAAATTTA
11583 TACTTATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 19
0.69 0.05 0.25
Matches are distributed among these distances:
18 1 0.02
19 4 0.08
20 2 0.04
21 7 0.13
22 15 0.29
23 8 0.15
24 1 0.02
25 7 0.13
26 4 0.08
27 3 0.06
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (22 bp):
TATTAAATTAAATAAATTTAAT
Found at i:11542 original size:15 final size:15
Alignment explanation
Indices: 11519--11582 Score: 60
Period size: 15 Copynumber: 4.2 Consensus size: 15
11509 TATTTAATTA
11519 TTAAAATTAATAAAT
1 TTAAAATTAATAAAT
*
11534 TTAACATTAATAAA-
1 TTAAAATTAATAAAT
*
11548 TTATAATT-ATAAACT
1 TTAAAATTAATAAA-T
*
11563 TATTAAATTGAATAAAT
1 T-TAAAATT-AATAAAT
11580 TTA
1 TTA
11583 TACTTATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
13 5 0.13
14 6 0.16
15 14 0.37
16 6 0.16
17 2 0.05
18 5 0.13
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (15 bp):
TTAAAATTAATAAAT
Found at i:11666 original size:30 final size:30
Alignment explanation
Indices: 11632--11694 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
11622 TAACTAAAAA
* *
11632 TATAATGTATTTAATTAA-AATTATAGTTAG
1 TATAAT-TATTTAACTAATAACTATAGTTAG
*
11662 TATAATTATTTAACTAATAACTATAGTTTG
1 TATAATTATTTAACTAATAACTATAGTTAG
11692 TAT
1 TAT
11695 TACAATAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (30 bp):
TATAATTATTTAACTAATAACTATAGTTAG
Found at i:12001 original size:27 final size:26
Alignment explanation
Indices: 11951--12013 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
11941 ATTGTATATT
* * *
11951 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
11978 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
12004 TATAATAATT
1 T-TAATAATT
12014 AAATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:12009 original size:16 final size:15
Alignment explanation
Indices: 11988--12022 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
11978 TTAATAATTT
11988 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
12004 TATAATAATTAAATG
1 TATAATAATCAAATG
12019 TATA
1 TATA
12023 TATGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:12080 original size:23 final size:26
Alignment explanation
Indices: 12047--12101 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
12037 TGAATCAATA
12047 ATTAA-AA-TATTT-AT-GATTATTT
1 ATTAATAATTATTTCATAGATTATTT
*
12069 -TTAATAATTATTTCATAGCTTATTT
1 ATTAATAATTATTTCATAGATTATTT
12094 ATTAATAA
1 ATTAATAA
12102 ATATCGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 4 0.15
22 2 0.07
23 5 0.19
24 2 0.07
25 7 0.26
26 7 0.26
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (26 bp):
ATTAATAATTATTTCATAGATTATTT
Found at i:12165 original size:29 final size:28
Alignment explanation
Indices: 12112--12169 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
12102 ATATCGATAA
12112 TTAAATAATAAAAATTAAATATTTTAAT
1 TTAAATAATAAAAATTAAATATTTTAAT
* *
12140 TTAAATATTTAAAACTTAAA-ATTTTTAAT
1 TTAAATA-ATAAAAATTAAATA-TTTTAAT
12169 T
1 T
12170 ATTAACATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAAATAATAAAAATTAAATATTTTAAT
Found at i:12433 original size:24 final size:23
Alignment explanation
Indices: 12377--12433 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
12367 TAATTACATA
* * *
12377 TATATATAATATTAATTTATATT
1 TATAAATAATAATAATTTATAAT
*
12400 TTTAATATAATAATAATTATATAAT
1 TATAA-ATAATAATAATT-TATAAT
12425 TATAAATAA
1 TATAAATAA
12434 AATTCATACT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 3 0.11
24 15 0.56
25 9 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TATAAATAATAATAATTTATAAT
Found at i:12508 original size:14 final size:15
Alignment explanation
Indices: 12483--12511 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12473 AACTATTTTA
12483 TAATATTTATATAAT
1 TAATATTTATATAAT
12498 TAATA-TTATATAAT
1 TAATATTTATATAAT
12512 ATTATAATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATATTTATATAAT
Found at i:12521 original size:18 final size:17
Alignment explanation
Indices: 12480--12524 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
12470 AACAACTATT
12480 TTATAATATT-TATATA
1 TTATAATATTATATATA
*
12496 AT-TAATATTATATAATA
1 TTATAATATTATAT-ATA
12513 TTATAATATTAT
1 TTATAATATTAT
12525 TGTTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 7 0.29
16 4 0.17
17 4 0.17
18 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAATATTATATATA
Found at i:12785 original size:16 final size:16
Alignment explanation
Indices: 12764--12794 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12754 ATTTAATGTT
*
12764 ATATTAATATTAATTA
1 ATATTAAGATTAATTA
12780 ATATTAAGATTAATT
1 ATATTAAGATTAATT
12795 TAGTATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATTAAGATTAATTA
Found at i:13696 original size:18 final size:18
Alignment explanation
Indices: 13675--13721 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
13665 TATTATAAGG
13675 ATTTTAATT-TTAATATTA
1 ATTTTAATTATTAAT-TTA
13693 A-TTTAATTATTAATTTA
1 ATTTTAATTATTAATTTA
*
13710 TTTTTAA-TATTA
1 ATTTTAATTATTA
13722 TTAAATAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTAATTATTAATTTA
Found at i:13735 original size:28 final size:29
Alignment explanation
Indices: 13677--13740 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
13667 TTATAAGGAT
* * * **
13677 TTTAATTTTAATATTAATTTAATTATTAA
1 TTTATTTTTAATATTAATTAAATAACAAA
13706 TTTATTTTTAATATT-ATTAAATAACAAA
1 TTTATTTTTAATATTAATTAAATAACAAA
*
13734 TTAATTT
1 TTTATTT
13741 ATTATTTCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTATTTTTAATATTAATTAAATAACAAA
Found at i:14380 original size:27 final size:28
Alignment explanation
Indices: 14315--14382 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
14305 TTAGATATCT
14315 ATTAATTAATAAAAATCAATAATTAAAATA
1 ATTAA-TAAT-AAAATCAATAATTAAAATA
* * *
14345 TTTAA-AATAAAATCAAT-ATTCAGATA
1 ATTAATAATAAAATCAATAATTAAAATA
14371 ATTAATAATAAA
1 ATTAATAATAAA
14383 TTATAAGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
26 11 0.33
27 15 0.45
28 3 0.09
30 4 0.12
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (28 bp):
ATTAATAATAAAATCAATAATTAAAATA
Found at i:14383 original size:26 final size:27
Alignment explanation
Indices: 14317--14383 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
14307 AGATATCTAT
14317 TAATTAATAA-AAATCAATAATTAAAA
1 TAATTAATAATAAATCAATAATTAAAA
* * *
14343 TATTTAA-AATAAAATCAAT-ATTCAGA
1 TAATTAATAAT-AAATCAATAATTAAAA
14369 TAATTAATAATAAAT
1 TAATTAATAATAAAT
14384 TATAAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 2 0.06
26 21 0.62
27 11 0.32
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (27 bp):
TAATTAATAATAAATCAATAATTAAAA
Found at i:14402 original size:23 final size:25
Alignment explanation
Indices: 14373--14422 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
14363 TTCAGATAAT
*
14373 TAATAATAAATT-A-TAAGTATTTA
1 TAATAATAAATTAATTAAATATTTA
*
14396 TAATAATAATTTAATTAAATATTTA
1 TAATAATAAATTAATTAAATATTTA
14421 TA
1 TA
14423 TTTTATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TAATAATAAATTAATTAAATATTTA
Found at i:14990 original size:23 final size:24
Alignment explanation
Indices: 14964--15032 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 24
14954 ATATGCCAAA
14964 AATTCATTAATTATATAAT-TA-AT
1 AATT-ATTAATTATATAATATATAT
14987 AATTGATT-A-TATATAATATATAT
1 AATT-ATTAATTATATAATATATAT
**
15010 AATTA-TAATTATATGTTATATAT
1 AATTATTAATTATATAATATATAT
15033 TTATCATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 9 0.23
22 5 0.13
23 25 0.64
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (24 bp):
AATTATTAATTATATAATATATAT
Found at i:15014 original size:19 final size:19
Alignment explanation
Indices: 14969--15016 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
14959 CCAAAAATTC
14969 ATTAATTATATAATTAATA
1 ATTAATTATATAATTAATA
*
14988 ATTGATTATAT-A-TAATA
1 ATTAATTATATAATTAATA
15005 TATATAATTATA
1 -AT-TAATTATA
15017 ATTATATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.20
18 3 0.12
19 17 0.68
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATTAATTATATAATTAATA
Found at i:15244 original size:12 final size:12
Alignment explanation
Indices: 15214--15255 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
15204 TAATTATATT
15214 TTATAATTAATATA
1 TTATAA-TAATA-A
15228 TTATAATAATAA
1 TTATAATAATAA
*
15240 TTATAATATTAA
1 TTATAATAATAA
15252 TTAT
1 TTAT
15256 TTATATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 16 0.59
13 5 0.19
14 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTATAATAATAA
Found at i:15248 original size:20 final size:20
Alignment explanation
Indices: 15121--15250 Score: 73
Period size: 21 Copynumber: 6.7 Consensus size: 20
15111 CAATTGATAT
*
15121 TAATTATATTATTATAATAA
1 TAATTATAATATTATAATAA
* *
15141 TTGATTATACTATATTATAACAA
1 -TAATTATA--ATATTATAATAA
* *
15164 CTAAATATAATTATTATAA-ACT
1 -TAATTATAA-TATTATAATA-A
*
15186 TAATTATACTA-TATAA-AA
1 TAATTATAATATTATAATAA
15204 TAATTAT-AT-TT-T-ATAA
1 TAATTATAATATTATAATAA
*
15220 T--TAAT-ATATTATAATAA
1 TAATTATAATATTATAATAA
15237 TAATTATAATATTA
1 TAATTATAATATTA
15251 ATTATTTATA
Statistics
Matches: 84, Mismatches: 13, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
14 5 0.06
15 3 0.04
16 5 0.06
17 7 0.08
18 7 0.08
19 9 0.11
20 8 0.10
21 16 0.19
22 8 0.10
23 16 0.19
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (20 bp):
TAATTATAATATTATAATAA
Found at i:15252 original size:63 final size:71
Alignment explanation
Indices: 15170--15310 Score: 167
Period size: 63 Copynumber: 2.1 Consensus size: 71
15160 ACAACTAAAT
*
15170 ATAATTATTATAAACTTAATTA-TACTA-TAT-AAA-ATAAT-T-AT-ATTTTATAATTAATA-T
1 ATAATAATTATAAACTTAATTATTA-TATTATAAAATATAATATAATCATTTTATAATTAATATT
15227 ATT-ATA
65 ATTAATA
*
15233 ATAATAATTATAATA-TTAATTATTTATATTATAAAATATAATATAATCATTTTATATTTAATAT
1 ATAATAATTATAA-ACTTAATTA-TTATATTATAAAATATAATATAATCATTTTATAATTAATAT
15297 TATTAATA
64 TATTAATA
15305 ATAATA
1 ATAATA
15311 GTGAATTTAA
Statistics
Matches: 65, Mismatches: 2, Indels: 13
0.81 0.03 0.16
Matches are distributed among these distances:
63 19 0.29
64 3 0.05
65 5 0.08
66 3 0.05
67 5 0.08
68 1 0.02
69 2 0.03
70 14 0.22
71 4 0.06
72 9 0.14
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (71 bp):
ATAATAATTATAAACTTAATTATTATATTATAAAATATAATATAATCATTTTATAATTAATATTA
TTAATA
Found at i:15259 original size:28 final size:27
Alignment explanation
Indices: 15219--15289 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 27
15209 ATATTTTATA
15219 ATTAA-TATATTATA-ATAATAATTATAAT
1 ATTAATTAT-TTATATATAA-AA-TATAAT
15247 ATTAATTATTTATATTATAAAATATAAT
1 ATTAATTATTTATA-TATAAAATATAAT
*
15275 A-TAATCATTT-TATAT
1 ATTAATTATTTATATAT
15290 TTAATATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
25 3 0.08
26 2 0.05
27 8 0.21
28 17 0.44
29 5 0.13
30 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTAATTATTTATATATAAAATATAAT
Found at i:15753 original size:14 final size:14
Alignment explanation
Indices: 15736--15782 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
15726 AATTATAAAT
15736 ATAATTATATATAA
1 ATAATTATATATAA
15750 ATAATTAT-TATAA
1 ATAATTATATATAA
*
15763 ATTATATTAAAT-TAA
1 A-TA-ATTATATATAA
15778 ATAAT
1 ATAAT
15783 CAAATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 8 0.28
14 12 0.41
15 8 0.28
16 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATTATATATAA
Found at i:15771 original size:29 final size:28
Alignment explanation
Indices: 15727--15782 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
15717 AATATTACCA
*
15727 ATTATAAATATAATTATATATAAATAATT
1 ATTATAAATATAATTAAAT-TAAATAATT
15756 ATTATAAAT-TATATTAAATTAAATAAT
1 ATTATAAATATA-ATTAAATTAAATAAT
15783 CAAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTATAAATATAATTAAATTAAATAATT
Found at i:15891 original size:21 final size:21
Alignment explanation
Indices: 15867--15910 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15857 TTAAATATTT
15867 TAATAATAATATCATA-TATAA
1 TAATAATAAT-TCATATTATAA
* *
15888 TAATTATAATTGATATTATAA
1 TAATAATAATTCATATTATAA
15909 TA
1 TA
15911 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATAATAATTCATATTATAA
Found at i:16034 original size:26 final size:26
Alignment explanation
Indices: 15974--16026 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
15964 AAAATATATT
*
15974 TATAT-TAA-AAATTAAACTATTTTA
1 TATATATAATAAATAAAACTATTTTA
15998 TATATATAATAAATAAAACTA-TTTA
1 TATATATAATAAATAAAACTATTTTA
16023 TATA
1 TATA
16027 CTCTAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 11 0.42
26 10 0.38
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (26 bp):
TATATATAATAAATAAAACTATTTTA
Found at i:16048 original size:10 final size:10
Alignment explanation
Indices: 16030--16085 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
16020 TTATATACTC
16030 TAATA-TTAT
1 TAATATTTAT
16039 TAATATTTAT
1 TAATATTTAT
16049 T-A-ATTTAT
1 TAATATTTAT
*
16057 TATAAATTTAT
1 TA-ATATTTAT
*
16068 ATAATATTTGT
1 -TAATATTTAT
16079 TAATATT
1 TAATATT
16086 AGAAGATGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 7 0.17
9 6 0.15
10 13 0.32
11 12 0.30
12 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TAATATTTAT
Found at i:16270 original size:22 final size:21
Alignment explanation
Indices: 16244--16292 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
16234 ACTAGTAATT
16244 TTAATAATTATTTATAAATTAA
1 TTAATAATTA-TTATAAATTAA
* *
16266 TTAATTAATTATTATTATTTAA
1 TTAA-TAATTATTATAAATTAA
16288 TTAAT
1 TTAAT
16293 TTAATAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 17 0.71
23 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATAATTATTATAAATTAA
Found at i:16273 original size:26 final size:23
Alignment explanation
Indices: 16243--16301 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 23
16233 AACTAGTAAT
16243 TTTAATAATTATTTATAAATTAATTAA
1 TTTAATAATTA-TTAT---TTAATTAA
*
16270 -TTAATTATTATTATTTAATTAA
1 TTTAATAATTATTATTTAATTAA
16292 TTTAATAATT
1 TTTAATAATT
16302 GTATAGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 8 0.28
23 8 0.28
25 4 0.14
26 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTAATAATTATTATTTAATTAA
Found at i:16426 original size:11 final size:11
Alignment explanation
Indices: 16410--16439 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
16400 CTATTCACAC
16410 AATTATATCAT
1 AATTATATCAT
*
16421 AATTATATCGT
1 AATTATATCAT
16432 AATTATAT
1 AATTATAT
16440 TAGATACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (11 bp):
AATTATATCAT
Found at i:16841 original size:14 final size:13
Alignment explanation
Indices: 16818--16862 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
16808 TTATAAAAAT
*
16818 ATATTTATTATTA
1 ATATTTATTATAA
16831 ATATTTGATTATAA
1 ATATTT-ATTATAA
*
16845 ATATTTATAATAA
1 ATATTTATTATAA
*
16858 TTATT
1 ATATT
16863 AAAAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
ATATTTATTATAA
Found at i:17241 original size:18 final size:18
Alignment explanation
Indices: 17192--17242 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
17182 GAATTGTAGA
17192 ATTTCTATATAATTAAAAT
1 ATTT-TATATAATTAAAAT
*
17211 ATTTTATACAATTAAAAT
1 ATTTTATATAATTAAAAT
*
17229 ATTTTATTTAATTA
1 ATTTTATATAATTA
17243 GTATTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTATATAATTAAAAT
Found at i:18201 original size:28 final size:31
Alignment explanation
Indices: 18170--18229 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 31
18160 ATTTTTTCAT
*
18170 ATTATTAATTT-TAATTA-ATATAAA-AATA
1 ATTAGTAATTTATAATTATATATAAATAATA
*
18198 ATTAGTATTTTATAATTATATATAAATAATA
1 ATTAGTAATTTATAATTATATATAAATAATA
18229 A
1 A
18230 AAATTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 9 0.33
29 6 0.22
30 7 0.26
31 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (31 bp):
ATTAGTAATTTATAATTATATATAAATAATA
Found at i:18235 original size:28 final size:29
Alignment explanation
Indices: 18181--18235 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
18171 TTATTAATTT
* **
18181 TAATTAATATAAAAATAATTAGTATTTTA
1 TAATTAATATAAAAATAATAAAAATTTTA
*
18210 TAATT-ATATATAAATAATAAAAATTT
1 TAATTAATATAAAAATAATAAAAATTT
18236 AAACAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 17 0.77
29 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
TAATTAATATAAAAATAATAAAAATTTTA
Found at i:18608 original size:28 final size:30
Alignment explanation
Indices: 18576--18652 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
18566 ATATATAAAT
18576 TAATTATTATTAATAATAAAT-AAT-ATAA
1 TAATTATTATTAATAATAAATAAATAATAA
* * *
18604 TAATTATTATATAATTATTATTAAATAATAA
1 TAATTATTAT-TAATAATAAATAAATAATAA
18635 TAATTA-TATTAACTAATA
1 TAATTATTATTAA-TAATA
18653 TTACTATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 10 0.25
29 11 0.28
30 9 0.22
31 10 0.25
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (30 bp):
TAATTATTATTAATAATAAATAAATAATAA
Found at i:18663 original size:19 final size:19
Alignment explanation
Indices: 18580--18664 Score: 59
Period size: 19 Copynumber: 4.4 Consensus size: 19
18570 ATAAATTAAT
18580 TATTATT-AATAATAAATAA
1 TATTATTAAATAAT-AATAA
* * *
18599 TA-TAATAATTATTATATAA
1 TATTATTAAATAATA-ATAA
18618 TTATTATTAAATAATAATAA
1 -TATTATTAAATAATAATAA
* * *
18638 T-TATATTAACTAATATTAC
1 TAT-TATTAAATAATAATAA
18657 TATTATTA
1 TATTATTA
18665 TAGAAATTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
18 5 0.10
19 30 0.59
20 7 0.14
21 9 0.18
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTATTAAATAATAATAA
Found at i:19118 original size:10 final size:10
Alignment explanation
Indices: 19092--19217 Score: 63
Period size: 10 Copynumber: 12.6 Consensus size: 10
19082 AATAAATTAA
*
19092 ATATTAATTT
1 ATATTAATAT
19102 A-ATTAATAT
1 ATATTAATAT
19111 ATATTAATAAT
1 ATATTAAT-AT
19122 ATTATGTAATAT
1 A-TAT-TAATAT
*
19134 ATAATTGGATAT
1 AT-ATT-AATAT
19146 -TATT-A-AT
1 ATATTAATAT
19153 -TATT-ATAT
1 ATATTAATAT
*
19161 ATAATAATAT
1 ATATTAATAT
*
19171 ATATAAATAT
1 ATATTAATAT
19181 -TATATAAT-T
1 ATAT-TAATAT
19190 ATA-TAATACTT
1 ATATTAATA--T
*
19201 CATATTATTAT
1 -ATATTAATAT
19212 ATATTA
1 ATATTA
19218 TTAAAAATAA
Statistics
Matches: 93, Mismatches: 7, Indels: 32
0.70 0.05 0.24
Matches are distributed among these distances:
7 7 0.08
8 7 0.08
9 15 0.16
10 33 0.35
11 8 0.09
12 15 0.16
13 8 0.09
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (10 bp):
ATATTAATAT
Found at i:19123 original size:47 final size:47
Alignment explanation
Indices: 19072--19170 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
19062 AACTAAATCC
19072 AATATTATCT-A-ATA-AATTAAATATTAATTTAATTAATATATATTAAT
1 AATATTATCTAATATATAATTAAATATT-A-TTAATTAATATATA-TAAT
* ** *
19119 AATATTATGTAATATATAATTGGATATTATTAATTATTATATATAAT
1 AATATTATCTAATATATAATTAAATATTATTAATTAATATATATAAT
19166 AATAT
1 AATAT
19171 ATATAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
47 18 0.40
48 14 0.31
49 4 0.09
50 9 0.20
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (47 bp):
AATATTATCTAATATATAATTAAATATTATTAATTAATATATATAAT
Found at i:19149 original size:25 final size:23
Alignment explanation
Indices: 19105--19170 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 23
19095 TTAATTTAAT
19105 TAATATATATTAATAATATTATG
1 TAATATATATTAATAATATTATG
* *
19128 TAATATATAATTGGATATTATTAAT-
1 TAATATAT-ATT-AATAATATT-ATG
*
19153 TATTATATA-TAATAATAT
1 TAATATATATTAATAATAT
19171 ATATAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 6 0.17
23 9 0.26
24 4 0.11
25 14 0.40
26 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
TAATATATATTAATAATATTATG
Found at i:19206 original size:60 final size:61
Alignment explanation
Indices: 19087--19218 Score: 141
Period size: 60 Copynumber: 2.2 Consensus size: 61
19077 TATCTAATAA
* * * *
19087 ATTAAATATTA-ATTTAATTAATATATATTAATAATATTATGTAATATATAATTGGATATT
1 ATTAATTATTATATATAATTAATATATATTAATAATATTATATAATATATAATTGCATATT
*
19147 ATTAATTATTATATATAA-TAATATATA-T-A-AATATTATATAATTATATAATACTTCATATT
1 ATTAATTATTATATATAATTAATATATATTAATAATATTATATAA-TATATAAT--TGCATATT
19207 ATT-ATATATTAT
1 ATTAAT-TATTAT
19219 TAAAAATAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
57 11 0.18
58 9 0.15
59 3 0.05
60 34 0.55
61 5 0.08
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (61 bp):
ATTAATTATTATATATAATTAATATATATTAATAATATTATATAATATATAATTGCATATT
Found at i:19343 original size:22 final size:20
Alignment explanation
Indices: 19303--19349 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
19293 ATTGTTCAAG
* *
19303 TAATTATCATTTTATTTAAT
1 TAATTAACATTTTATTTAAA
19323 TAATTAACATTTAATATTTAAA
1 TAATTAACATTT--TATTTAAA
19345 TAATT
1 TAATT
19350 TTGACTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
22 12 0.52
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTAACATTTTATTTAAA
Found at i:19558 original size:36 final size:38
Alignment explanation
Indices: 19482--19575 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 38
19472 AAATTTAATA
* **
19482 AATAATTTATAAT-ATAATTAATTATAATTATTATTTT
1 AATAATTTATAATAATAATTAATTATAATAATTATCCT
* *
19519 AATAATTTATAATAAT-ATT-GTTATTATAATTATCCT
1 AATAATTTATAATAATAATTAATTATAATAATTATCCT
*
19555 AATAA-TTACTAATAATGATTA
1 AATAATTTA-TAATAATAATTA
19576 TCTTTAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
35 3 0.06
36 24 0.50
37 19 0.40
38 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (38 bp):
AATAATTTATAATAATAATTAATTATAATAATTATCCT
Found at i:20300 original size:14 final size:16
Alignment explanation
Indices: 20283--20315 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
20273 TTTATAGCAT
20283 TATAATTA-TA-AATA
1 TATAATTACTATAATA
20297 TATAATTACTATAATA
1 TATAATTACTATAATA
20313 TAT
1 TAT
20316 TTATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATTACTATAATA
Found at i:20527 original size:9 final size:9
Alignment explanation
Indices: 20515--20562 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
20505 AATAATTAAA
20515 ATTATTACT
1 ATTATTACT
20524 ATTAGTTA-T
1 ATTA-TTACT
20533 ATT-TTGACT
1 ATTATT-ACT
20542 ATTATT--T
1 ATTATTACT
20549 ATTATTACT
1 ATTATTACT
20558 ATTAT
1 ATTAT
20563 AATAATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 9 0.27
8 1 0.03
9 18 0.55
10 5 0.15
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (9 bp):
ATTATTACT
Found at i:20544 original size:18 final size:16
Alignment explanation
Indices: 20515--20562 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
20505 AATAATTAAA
20515 ATTATTACTATTAGTTAT
1 ATTATTACTATTA-TT-T
20533 ATT-TTGACTATTATTT
1 ATTATT-ACTATTATTT
20549 ATTATTACTATTAT
1 ATTATTACTATTAT
20563 AATAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 12 0.43
17 6 0.21
18 10 0.36
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (16 bp):
ATTATTACTATTATTT
Found at i:22106 original size:12 final size:12
Alignment explanation
Indices: 22066--22107 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
22056 TTTTAATATT
22066 ATAAT-TTAACTA
1 ATAATATTAAC-A
*
22078 ATAA-ATTAATA
1 ATAATATTAACA
22089 ATAATATTAACA
1 ATAATATTAACA
22101 ATAATAT
1 ATAATAT
22108 GATTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
12 21 0.81
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAATATTAACA
Found at i:22170 original size:18 final size:18
Alignment explanation
Indices: 22123--22192 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
22113 ATTATAATTG
22123 AATTAATATTAA-TATTAT
1 AATT-ATATTAATTATTAT
*
22141 AATTATAATAATTATTAT
1 AATTATATTAATTATTAT
*
22159 -TTTCATATTAATTAAAATTAT
1 AATT-ATATTAATT---ATTAT
*
22180 AATAATATTAATT
1 AATTATATTAATT
22193 GAATAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.20
18 18 0.44
21 14 0.34
22 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTATATTAATTATTAT
Found at i:22369 original size:17 final size:17
Alignment explanation
Indices: 22333--22388 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
22323 AATACTATGA
22333 ATTATTAATATAAGTCTTAT
1 ATTA-TAATATAAG--TTAT
22353 ATTATAATATAAGTTAT
1 ATTATAATATAAGTTAT
*
22370 ATTAATAA-ATTAGTTAT
1 ATT-ATAATATAAGTTAT
22387 AT
1 AT
22389 CATATTAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 17 0.50
18 4 0.12
19 9 0.26
20 4 0.12
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (17 bp):
ATTATAATATAAGTTAT
Found at i:22929 original size:21 final size:22
Alignment explanation
Indices: 22905--22950 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
22895 TTCTTAGTTA
*
22905 TAAATCTAATTGTATTT-ATTT
1 TAAATATAATTGTATTTAATTT
* *
22926 TAAATATTATTTTATTTAATTT
1 TAAATATAATTGTATTTAATTT
22948 TAA
1 TAA
22951 TAATCAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TAAATATAATTGTATTTAATTT
Found at i:22980 original size:23 final size:23
Alignment explanation
Indices: 22954--22999 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22944 ATTTTAATAA
* *
22954 TCAATTTAAAATAAATATTATAT
1 TCAATATAAAATAAATAATATAT
* *
22977 TCAATATATATTAAATAATATAT
1 TCAATATAAAATAAATAATATAT
23000 AAAAATTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TCAATATAAAATAAATAATATAT
Found at i:23290 original size:22 final size:22
Alignment explanation
Indices: 23250--23292 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23240 TTAAATTTGT
*
23250 ATTATAATAAATATTATATTAC
1 ATTATAATAAATATAATATTAC
23272 ATTATAAT-AATAGTAATATTA
1 ATTATAATAAATA-TAATATTA
23293 GTTAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTATAATAAATATAATATTAC
Found at i:23309 original size:33 final size:34
Alignment explanation
Indices: 23272--23351 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
23262 ATTATATTAC
* * * *
23272 ATTATAATAATAGTAATATTAGTTAAT-ATAATT
1 ATTATTATAATAGTAATATAAATTAATAATAAAT
*
23305 ATTATTATATTA-TAATATAAATTAATAATAAAT
1 ATTATTATAATAGTAATATAAATTAATAATAAAT
23338 ATTATTA-AATAGTA
1 ATTATTATAATAGTA
23352 CTAAGAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 15 0.38
33 24 0.62
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (34 bp):
ATTATTATAATAGTAATATAAATTAATAATAAAT
Found at i:23816 original size:22 final size:22
Alignment explanation
Indices: 23791--23832 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
23781 ATTAATCAGT
*
23791 TTTAATTTATTTAA-TAATATTA
1 TTTAAATTA-TTAATTAATATTA
23813 TTTAAATTATTAATTAATAT
1 TTTAAATTATTAATTAATAT
23833 ATTGATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAAATTATTAATTAATATTA
Found at i:23846 original size:25 final size:25
Alignment explanation
Indices: 23801--23848 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
23791 TTTAATTTAT
23801 TTAATAATATTATTTAAATTATTAA
1 TTAATAATATTATTTAAATTATTAA
23826 TTAAT-ATATTGA-TTAATATTATT
1 TTAATAATATT-ATTTAA-ATTATT
23849 TGTAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TTAATAATATTATTTAAATTATTAA
Found at i:23873 original size:19 final size:20
Alignment explanation
Indices: 23851--23898 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
23841 ATATTATTTG
23851 TAATAAATATTAA-TATTAA
1 TAATAAATATTAACTATTAA
* **
23870 TAAT-AATAATAACTATTTG
1 TAATAAATATTAACTATTAA
23889 TAATAAATAT
1 TAATAAATAT
23899 GATATAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 7 0.30
19 12 0.52
20 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TAATAAATATTAACTATTAA
Found at i:23876 original size:22 final size:22
Alignment explanation
Indices: 23837--23878 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23827 TAATATATTG
* **
23837 ATTAATATTATTTGTAATAAAT
1 ATTAATATTAATAATAATAAAT
23859 ATTAATATTAATAATAATAA
1 ATTAATATTAATAATAATAA
23879 TAACTATTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTAATATTAATAATAATAAAT
Found at i:24982 original size:19 final size:19
Alignment explanation
Indices: 24958--25017 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
24948 AAAACTATTT
24958 AATTATAACTAAATAATTA
1 AATTATAACTAAATAATTA
* * *
24977 AATTATTATTAAA-ACATTT
1 AATTATAACTAAATA-ATTA
24996 AATTATAACT-AATAATTA
1 AATTATAACTAAATAATTA
25014 AATT
1 AATT
25018 GTTATTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 10 0.30
19 23 0.70
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTATAACTAAATAATTA
Found at i:25023 original size:37 final size:39
Alignment explanation
Indices: 24946--25027 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 39
24936 TTTATTATCT
24946 TTAAAACTATTTAATTATAACTAAATAATTAAATTATTA
1 TTAAAACTATTTAATTATAACTAAATAATTAAATTATTA
*
24985 TTAAAAC-ATTTAATTATAACT-AATAATTAAATTGTTA
1 TTAAAACTATTTAATTATAACTAAATAATTAAATTATTA
25022 TTAAAA
1 TTAAAA
25028 ATTATAACAG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
37 21 0.50
38 14 0.33
39 7 0.17
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (39 bp):
TTAAAACTATTTAATTATAACTAAATAATTAAATTATTA
Found at i:25093 original size:19 final size:19
Alignment explanation
Indices: 25049--25093 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
25039 AATTAATATA
25049 AATAT-ATAATAAGAATTT
1 AATATAATAATAAGAATTT
25067 AA-ATTAATAATAAGTAA-TT
1 AATA-TAATAATAAG-AATTT
25086 AATATAAT
1 AATATAAT
25094 TTTAATCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.04
18 3 0.13
19 16 0.70
20 3 0.13
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
AATATAATAATAAGAATTT
Found at i:25201 original size:20 final size:19
Alignment explanation
Indices: 25164--25211 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
25154 GATATATTTT
*
25164 TAATTAATTTAGTTATTATA
1 TAATTAA-TTAGTTATTAAA
*
25184 TAATTAATTATTTAATTAAA
1 TAATTAATTAGTT-ATTAAA
*
25204 TTATTAAT
1 TAATTAAT
25212 AAATATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATTAATTAGTTATTAAA
Found at i:25221 original size:16 final size:18
Alignment explanation
Indices: 25203--25240 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 18
25193 ATTTAATTAA
25203 ATTATTAATAAATATAATT
1 ATTA-TAATAAATATAATT
25222 ATTTATAATAAATATAATT
1 A-TTATAATAAATATAATT
25241 TCTCATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATAATAAATATAATT
Found at i:25674 original size:21 final size:21
Alignment explanation
Indices: 25636--25675 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25626 TATAGTAATA
*
25636 AATTATTAAATAATTTATTGC
1 AATTATTAAATAACTTATTGC
25657 AATTATT-AATATACTTATT
1 AATTATTAAATA-ACTTATT
25676 TATTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (21 bp):
AATTATTAAATAACTTATTGC
Found at i:25810 original size:32 final size:32
Alignment explanation
Indices: 25754--25823 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
25744 ATAACTAGTG
25754 TAATATAATATTATAATTATATAATATTTGAA
1 TAATATAATATTATAATTATATAATATTTGAA
**
25786 TAATATAA-ATTATACAATTA-ATAATATTTTTA
1 TAATATAATATTAT--AATTATATAATATTTGAA
25818 TAATAT
1 TAATAT
25824 TATTAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 5 0.15
32 24 0.71
33 5 0.15
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
TAATATAATATTATAATTATATAATATTTGAA
Found at i:25863 original size:22 final size:22
Alignment explanation
Indices: 25835--25922 Score: 67
Period size: 22 Copynumber: 3.9 Consensus size: 22
25825 ATTAAAATAA
*
25835 TATTAAATTAAATATATTTAAT
1 TATTAAATTAAATAAATTTAAT
25857 TATTAAAATT-AATAAATTTAA-
1 TATT-AAATTAAATAAATTTAAT
*
25878 CATT-AA-TAAATTATAATTATAAACT
1 TATTAAATTAAA-TA-AATT-T-AA-T
*
25903 TATTAAATTGAATAAATTTA
1 TATTAAATTAAATAAATTTA
25923 TACTTATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 19
0.69 0.05 0.25
Matches are distributed among these distances:
18 1 0.02
19 4 0.08
20 2 0.04
21 7 0.13
22 15 0.29
23 8 0.15
24 1 0.02
25 7 0.13
26 4 0.08
27 3 0.06
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (22 bp):
TATTAAATTAAATAAATTTAAT
Done.