Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168298.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_524, 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: 23940
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.45
Found at i:409 original size:17 final size:19
Alignment explanation
Indices: 387--432 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 19
377 AGAAATTTTG
387 TTATAAAATTATTAA-T-T
1 TTATAAAATTATTAAGTAT
404 TTAT--AA-TATTAAGTAT
1 TTATAAAATTATTAAGTAT
420 TTATAAAATTATT
1 TTATAAAATTATT
433 TATAATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
14 6 0.25
15 3 0.12
16 5 0.21
17 4 0.17
18 2 0.08
19 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATAAAATTATTAAGTAT
Found at i:444 original size:13 final size:13
Alignment explanation
Indices: 417--458 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
407 TAATATTAAG
417 TATTTATAA-AAT
1 TATTTATAATAAT
429 TATTTATAATAAT
1 TATTTATAATAAT
*
442 TATATT-TAATATT
1 TAT-TTATAATAAT
455 TATT
1 TATT
459 ATCACTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 10 0.37
13 15 0.56
14 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTTATAATAAT
Found at i:455 original size:34 final size:33
Alignment explanation
Indices: 387--457 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
377 AGAAATTTTG
* *
387 TTATAAAATTATTAATTTTATAATATTAAGTAT
1 TTATAAAATTATTAATATAATAATATTAAGTAT
* *
420 TTATAAAATTATTTATAATAATTATATTTAA-TAT
1 TTATAAAATTATTAAT-ATAATAATA-TTAAGTAT
454 TTAT
1 TTAT
458 TATCACTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 15 0.47
34 13 0.41
35 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (33 bp):
TTATAAAATTATTAATATAATAATATTAAGTAT
Found at i:641 original size:18 final size:17
Alignment explanation
Indices: 620--653 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
610 CATTTATTAA
*
620 TATAATCTAATTTAATAG
1 TATAATC-AAATTAATAG
638 TATAATCAAATTAATA
1 TATAATCAAATTAATA
654 ATCTGATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (17 bp):
TATAATCAAATTAATAG
Found at i:946 original size:26 final size:26
Alignment explanation
Indices: 900--954 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
890 ATTTGATTAC
* *
900 TAAATCATATAGTCTTAAATATTATA
1 TAAATCATATAGTATTAAATAATATA
*
926 TAAATCATA-ATTATTATAATAATATA
1 TAAATCATATAGTATTA-AATAATATA
952 TAA
1 TAA
955 TAAATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (26 bp):
TAAATCATATAGTATTAAATAATATA
Found at i:959 original size:29 final size:29
Alignment explanation
Indices: 917--972 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
907 TATAGTCTTA
917 AATATTATATAAATC-ATAATTATTATAAT
1 AATATTATATAAATCAAT-ATTATTATAAT
*
946 AATA-TATAATAAATTAATATTATTATA
1 AATATTAT-ATAAATCAATATTATTATA
973 CTATAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 3 0.12
29 19 0.79
30 2 0.08
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
AATATTATATAAATCAATATTATTATAAT
Found at i:1431 original size:7 final size:8
Alignment explanation
Indices: 1415--1481 Score: 58
Period size: 7 Copynumber: 9.1 Consensus size: 8
1405 ACTTATTAAC
1415 AATATA-T
1 AATATATT
1422 AATA-ATT
1 AATATATT
*
1429 AATATAGT
1 AATATATT
1437 AA-ATATT
1 AATATATT
1444 -ATATATT
1 AATATATT
1451 -ATATAATT
1 AATAT-ATT
*
1459 -ATATATA
1 AATATATT
1466 AATA-ATT
1 AATATATT
1473 AATATATT
1 AATATATT
1481 A
1 A
1482 TTAATATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
6 2 0.04
7 30 0.60
8 18 0.36
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (8 bp):
AATATATT
Found at i:1434 original size:14 final size:14
Alignment explanation
Indices: 1415--1479 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 14
1405 ACTTATTAAC
1415 AATATATAATAATT
1 AATATATAATAATT
1429 AATATAGTAA-ATATT
1 AATATA-TAATA-ATT
1444 -ATATATTATATAATT
1 AATATA-TA-ATAATT
1459 -ATATATAAATAATT
1 AATATAT-AATAATT
1473 AATATAT
1 AATATAT
1480 TATTAATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
14 21 0.48
15 22 0.50
16 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
AATATATAATAATT
Found at i:1449 original size:28 final size:28
Alignment explanation
Indices: 1416--1489 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 28
1406 CTTATTAACA
1416 ATATATAATAATTAATATAGTAAAT-ATT
1 ATATATAATAATTAATATA-TAAATAATT
1444 ATATATTATATAATT-ATATATAAATAATT
1 ATATA-TA-ATAATTAATATATAAATAATT
*
1473 A-ATAT-ATTATTAATATA
1 ATATATAATAATTAATATA
1490 ATTGTTATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 1 0.02
28 13 0.32
29 11 0.27
30 6 0.15
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (28 bp):
ATATATAATAATTAATATATAAATAATT
Found at i:1459 original size:15 final size:16
Alignment explanation
Indices: 1422--1481 Score: 74
Period size: 14 Copynumber: 4.0 Consensus size: 16
1412 AACAATATAT
*
1422 AATAATTAATATAGTA
1 AATAATTAATATATTA
1438 AAT-ATT-ATATATTA
1 AATAATTAATATATTA
*
1452 TATAATT-ATATA-TA
1 AATAATTAATATATTA
1466 AATAATTAATATATTA
1 AATAATTAATATATTA
1482 TTAATATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 17 0.45
15 16 0.42
16 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
AATAATTAATATATTA
Found at i:1637 original size:24 final size:24
Alignment explanation
Indices: 1577--1637 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
1567 ATTTGACATG
*
1577 TATATTATATTATAGTTAAATATAA
1 TATATT-TATTATAATTAAATATAA
1602 TATATTTAATTATAATTAAA-ATAA
1 TATATTT-ATTATAATTAAATATAA
1626 TATATATTATTA
1 TATAT-TTATTA
1638 CTATAATTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 14 0.42
25 19 0.58
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TATATTTATTATAATTAAATATAA
Found at i:1867 original size:13 final size:13
Alignment explanation
Indices: 1851--1974 Score: 57
Period size: 13 Copynumber: 9.8 Consensus size: 13
1841 GTTACAAATA
1851 ATATAATATAATT
1 ATATAATATAATT
*
1864 ATAT-A-ACAATT
1 ATATAATATAATT
**
1875 ATATGACA-ATTGTT
1 ATAT-A-ATATAATT
* *
1889 ATCTAATGTAATT
1 ATATAATATAATT
*
1902 ATA-ATATTTAATT
1 ATATA-ATATAATT
1915 ATAGTAATA-AATT
1 ATA-TAATATAATT
**
1928 ATATTCTATAATTT
1 ATATAATATAA-TT
* *
1942 AAATATTATAATT
1 ATATAATATAATT
1955 -TATAATA-AATT
1 ATATAATATAATT
1966 ATA-AATATA
1 ATATAATATA
1975 TAATTTTTAA
Statistics
Matches: 82, Mismatches: 18, Indels: 23
0.67 0.15 0.19
Matches are distributed among these distances:
11 17 0.21
12 14 0.17
13 31 0.38
14 19 0.23
15 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (13 bp):
ATATAATATAATT
Found at i:1951 original size:14 final size:13
Alignment explanation
Indices: 1934--1980 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
1924 AATTATATTC
1934 TATAATTTAAATA
1 TATAATTTAAATA
*
1947 TTATAATTTATA-A
1 -TATAATTTAAATA
1960 TA-AATTATAAATA
1 TATAATT-TAAATA
1973 TATAATTT
1 TATAATTT
1981 TTAATAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 4 0.14
12 5 0.18
13 5 0.18
14 14 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TATAATTTAAATA
Found at i:1976 original size:25 final size:25
Alignment explanation
Indices: 1935--1991 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
1925 ATTATATTCT
1935 ATAATT-TAAATATTATAATTTATA
1 ATAATTATAAATATTATAATTTATA
*
1959 ATAAATTATAAATA-TATAATTTTTA
1 AT-AATTATAAATATTATAATTTATA
1984 ATAATTAT
1 ATAATTAT
1992 TATTTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 8 0.27
25 16 0.53
26 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATAATTATAAATATTATAATTTATA
Found at i:1984 original size:41 final size:38
Alignment explanation
Indices: 1897--1980 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 38
1887 TTATCTAATG
* *
1897 TAATTATAATATT-TAATTATAGTAATAAATTATATTCTA
1 TAATT-TAATATTATAATT-TAGTAATAAATTATAATATA
1936 TAATTTAAATATTATAATTTA-TAATAAATTATAAATATA
1 TAATTT-AATATTATAATTTAGTAATAAATTAT-AATATA
1975 TAATTT
1 TAATTT
1981 TTAATAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
38 12 0.30
39 23 0.57
40 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (38 bp):
TAATTTAATATTATAATTTAGTAATAAATTATAATATA
Found at i:2883 original size:19 final size:19
Alignment explanation
Indices: 2861--2899 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2851 TTTAAAATAT
2861 TTAAATAACATAATATTAA
1 TTAAATAACATAATATTAA
*
2880 TTAAATAATATAATATTAA
1 TTAAATAACATAATATTAA
2899 T
1 T
2900 ATATATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAAATAACATAATATTAA
Found at i:3791 original size:10 final size:10
Alignment explanation
Indices: 3741--3806 Score: 62
Period size: 10 Copynumber: 6.2 Consensus size: 10
3731 AATTTTAAAT
3741 TAAATTTATA
1 TAAATTTATA
3751 TAAATAGAATTATA
1 TAAAT----TTATA
* *
3765 TAAATTGATT
1 TAAATTTATA
3775 TAAATTTATA
1 TAAATTTATA
3785 TAAATTTA-A
1 TAAATTTATA
3794 TAATATTTATA
1 TAA-ATTTATA
3805 TA
1 TA
3807 TTGTTTGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
9 4 0.09
10 29 0.63
11 3 0.07
14 10 0.22
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (10 bp):
TAAATTTATA
Found at i:4289 original size:11 final size:10
Alignment explanation
Indices: 4263--4322 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
4253 AATTAATACT
4263 ATTAT-AAT-
1 ATTATAAATA
*
4271 ATTTTAAATA
1 ATTATAAATA
4281 ACTTATAAATA
1 A-TTATAAATA
*
4292 GTTATAAATA
1 ATTATAAATA
*
4302 ATTTATAAATC
1 A-TTATAAATA
4313 ATTATAAATA
1 ATTATAAATA
4323 TTAATATTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 4 0.10
9 3 0.07
10 18 0.43
11 17 0.40
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (10 bp):
ATTATAAATA
Found at i:4301 original size:21 final size:21
Alignment explanation
Indices: 4275--4322 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
4265 TATAATATTT
4275 TAAATAACTTATAAAT-AGTTA
1 TAAATAACTTATAAATCA-TTA
*
4296 TAAATAATTTATAAATCATTA
1 TAAATAACTTATAAATCATTA
4317 TAAATA
1 TAAATA
4323 TTAATATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAATAACTTATAAATCATTA
Found at i:4414 original size:19 final size:20
Alignment explanation
Indices: 4379--4419 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
4369 TATTATATAC
*
4379 TATAATTGTTTACTAA-TAT
1 TATAATTGGTTACTAATTAT
4398 TATAATTGAGTTA-TAATTAT
1 TATAATTG-GTTACTAATTAT
4418 TA
1 TA
4420 ATAGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (20 bp):
TATAATTGGTTACTAATTAT
Found at i:4697 original size:5 final size:6
Alignment explanation
Indices: 4680--4769 Score: 52
Period size: 6 Copynumber: 15.7 Consensus size: 6
4670 ATCATATTTA
* * *
4680 AATA-T AATATT AAT-TT AATATT GAATAAT AATATT -ATAAT AATTAGAT
1 AATATT AATATT AATATT AATATT -AATATT AATATT AATATT AA-TA-TT
*
4728 AA-ATT -ATATT AATAAT AATATT AAT-TT --TATT AATAATT AATA
1 AATATT AATATT AATATT AATATT AATATT AATATT AAT-ATT AATA
4770 CTATTGTTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 23
0.70 0.06 0.24
Matches are distributed among these distances:
3 1 0.01
4 3 0.04
5 19 0.28
6 27 0.40
7 13 0.19
8 4 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (6 bp):
AATATT
Found at i:4711 original size:18 final size:17
Alignment explanation
Indices: 4675--4769 Score: 63
Period size: 18 Copynumber: 5.5 Consensus size: 17
4665 AACAAATCAT
*
4675 ATTTAA-ATATAATATTA
1 ATTTAATAT-TAATAATA
4692 ATTTAATATTGAATAATA
1 ATTTAATATT-AATAATA
*
4710 ATATT-ATAATAATTAGATA
1 AT-TTAATATTAA-TA-ATA
*
4729 AATT-ATATTAATAATA
1 ATTTAATATTAATAATA
* *
4745 ATATTAATTTTATTAATA
1 AT-TTAATATTAATAATA
4763 A-TTAATA
1 ATTTAATA
4770 CTATTGTTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
16 9 0.14
17 13 0.21
18 35 0.56
19 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
ATTTAATATTAATAATA
Found at i:4740 original size:21 final size:21
Alignment explanation
Indices: 4716--4766 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4706 AATAATATTA
4716 TAATAATTAGATAAATTATAT
1 TAATAATTAGATAAATTATAT
* * * *
4737 TAATAATAATATTAATTTTAT
1 TAATAATTAGATAAATTATAT
4758 TAATAATTA
1 TAATAATTA
4767 ATACTATTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TAATAATTAGATAAATTATAT
Found at i:5140 original size:17 final size:16
Alignment explanation
Indices: 5120--5158 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5110 TATTTAATAT
*
5120 TTTATTTTAAATGATTA
1 TTTAATTTAAAT-ATTA
*
5137 TTTAATTTATATATTA
1 TTTAATTTAAATATTA
5153 TTTAAT
1 TTTAAT
5159 GTTATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTAATTTAAATATTA
Found at i:5154 original size:16 final size:18
Alignment explanation
Indices: 5133--5170 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
5123 ATTTTAAATG
5133 ATTATTTAAT-TTA-TAT
1 ATTATTTAATGTTATTAT
5149 ATTATTTAATGTTATTAT
1 ATTATTTAATGTTATTAT
5167 ATTA
1 ATTA
5171 ACTAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 3 0.15
18 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATTTAATGTTATTAT
Found at i:5288 original size:15 final size:16
Alignment explanation
Indices: 5231--5290 Score: 63
Period size: 15 Copynumber: 3.8 Consensus size: 16
5221 AATCATTGTT
5231 ATTAATTAATATTAGTTA
1 ATTAATTAATA-TAG-TA
*
5249 ATTTATTAAT-TAGTAA
1 ATTAATTAATATAGT-A
5265 ATTAA-TAATATA-TA
1 ATTAATTAATATAGTA
5279 ATTAATTAATAT
1 ATTAATTAATAT
5291 TTAATTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 6 0.16
15 12 0.32
16 10 0.27
18 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTAATTAATATAGTA
Found at i:5295 original size:15 final size:14
Alignment explanation
Indices: 5232--5303 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 14
5222 ATCATTGTTA
*
5232 TTAATTAATATTAG
1 TTAATTAATAATAG
*
5246 TTAATTTATTAATTAG
1 TTAA-TTAATAA-TAG
*
5262 TAAATTAATAATA-
1 TTAATTAATAATAG
*
5275 TATAATTAATTAATAT
1 T-TAATTAA-TAATAG
5291 TTAATTTAATAAT
1 TTAA-TTAATAAT
5304 TAGTGTTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
13 1 0.02
14 12 0.26
15 23 0.49
16 11 0.23
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TTAATTAATAATAG
Found at i:5530 original size:23 final size:22
Alignment explanation
Indices: 5485--5537 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
5475 AAATATTTAA
*
5485 TATAATTAATAAATTATTTATT
1 TATAATTAATAAATTATTAATT
*
5507 TGTAATTAAGTATAA-TATTAATT
1 TATAATTAA-TA-AATTATTAATT
5530 TATAATTA
1 TATAATTA
5538 TACAAATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.31
23 16 0.62
24 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
TATAATTAATAAATTATTAATT
Found at i:5664 original size:15 final size:16
Alignment explanation
Indices: 5639--5669 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
5629 GTGAATAGTC
5639 TATTGAATCAATAATT
1 TATTGAATCAATAATT
5655 TATT-AATCAATAATT
1 TATTGAATCAATAATT
5670 AAAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
TATTGAATCAATAATT
Found at i:6277 original size:24 final size:23
Alignment explanation
Indices: 6232--6277 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
6222 TTATTAATTT
*
6232 AAATAATAAATATTTATTATTAC
1 AAATAATAAATATTTATAATTAC
*
6255 AAATAATCAAATATTTGTAATTA
1 AAATAAT-AAATATTTATAATTA
6278 AATATTAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATAATAAATATTTATAATTAC
Found at i:7009 original size:23 final size:23
Alignment explanation
Indices: 6983--7053 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 23
6973 TACATATAAA
6983 ATTATTTTTATTAAGATAAATAT
1 ATTATTTTTATTAAGATAAATAT
*
7006 ATTA----TAATAAG-TATAATACT
1 ATTATTTTTATTAAGATA-AATA-T
*
7026 ATTATTTTTGTTAAGATAAATAT
1 ATTATTTTTATTAAGATAAATAT
7049 ATTAT
1 ATTAT
7054 AATTATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
18 2 0.05
19 10 0.26
20 5 0.13
23 10 0.26
24 9 0.24
25 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (23 bp):
ATTATTTTTATTAAGATAAATAT
Found at i:8834 original size:21 final size:21
Alignment explanation
Indices: 8797--8836 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8787 TGTTAATATA
*
8797 ATTTATTTTATTATACTATTT
1 ATTTATTTAATTATACTATTT
8818 ATTTA-TTAATTATTACTAT
1 ATTTATTTAATTA-TACTAT
8837 ACTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTATTTAATTATACTATTT
Found at i:9034 original size:17 final size:17
Alignment explanation
Indices: 9014--9056 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
9004 AAAAGATTTA
*
9014 TAATGTAAATTATAATC
1 TAATGTAAATAATAATC
*
9031 TAATGTATATAATAATC
1 TAATGTAAATAATAATC
9048 TAATTGTAA
1 TAA-TGTAA
9057 TAAGGTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (17 bp):
TAATGTAAATAATAATC
Found at i:10269 original size:17 final size:19
Alignment explanation
Indices: 10247--10292 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 19
10237 AGAAATTTTG
10247 TTATAAAATTATTAA-T-T
1 TTATAAAATTATTAAGTAT
10264 TTAT--AA-TATTAAGTAT
1 TTATAAAATTATTAAGTAT
10280 TTATAAAATTATT
1 TTATAAAATTATT
10293 TATAATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
14 6 0.25
15 3 0.12
16 5 0.21
17 4 0.17
18 2 0.08
19 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATAAAATTATTAAGTAT
Found at i:10304 original size:13 final size:13
Alignment explanation
Indices: 10277--10318 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
10267 TAATATTAAG
10277 TATTTATAA-AAT
1 TATTTATAATAAT
10289 TATTTATAATAAT
1 TATTTATAATAAT
*
10302 TATATT-TAATATT
1 TAT-TTATAATAAT
10315 TATT
1 TATT
10319 ATCACTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 10 0.37
13 15 0.56
14 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTTATAATAAT
Found at i:10315 original size:34 final size:33
Alignment explanation
Indices: 10247--10317 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
10237 AGAAATTTTG
* *
10247 TTATAAAATTATTAATTTTATAATATTAAGTAT
1 TTATAAAATTATTAATATAATAATATTAAGTAT
* *
10280 TTATAAAATTATTTATAATAATTATATTTAA-TAT
1 TTATAAAATTATTAAT-ATAATAATA-TTAAGTAT
10314 TTAT
1 TTAT
10318 TATCACTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 15 0.47
34 13 0.41
35 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (33 bp):
TTATAAAATTATTAATATAATAATATTAAGTAT
Found at i:10501 original size:18 final size:17
Alignment explanation
Indices: 10480--10513 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10470 CATTTATTAA
*
10480 TATAATCTAATTTAATAG
1 TATAATC-AAATTAATAG
10498 TATAATCAAATTAATA
1 TATAATCAAATTAATA
10514 ATCTGATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (17 bp):
TATAATCAAATTAATAG
Found at i:10750 original size:29 final size:26
Alignment explanation
Indices: 10685--10751 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 26
10675 ATATAAACTA
10685 ATATATAT-TAATTTATAATAAAATT
1 ATATATATATAATTTATAATAAAATT
*
10710 ATAAATAGTATATAATTTATAGCTTAATAATT
1 AT--ATA-TATATAATTTATA--ATAA-AATT
10742 ATATATATAT
1 ATATATATAT
10752 TTGATTACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
25 2 0.06
27 3 0.09
28 3 0.09
29 14 0.41
30 3 0.09
31 3 0.09
32 6 0.18
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (26 bp):
ATATATATATAATTTATAATAAAATT
Found at i:10806 original size:26 final size:26
Alignment explanation
Indices: 10760--10814 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
10750 ATTTGATTAC
* *
10760 TAAATCATATAGTCTTAAATATTATA
1 TAAATCATATAGTATTAAATAATATA
*
10786 TAAATCATA-ATTATTATAATAATATA
1 TAAATCATATAGTATTA-AATAATATA
10812 TAA
1 TAA
10815 TAAATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (26 bp):
TAAATCATATAGTATTAAATAATATA
Found at i:10819 original size:29 final size:29
Alignment explanation
Indices: 10777--10832 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
10767 TATAGTCTTA
10777 AATATTATATAAATC-ATAATTATTATAAT
1 AATATTATATAAATCAAT-ATTATTATAAT
*
10806 AATA-TATAATAAATTAATATTATTATA
1 AATATTAT-ATAAATCAATATTATTATA
10833 CTATAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 3 0.12
29 19 0.79
30 2 0.08
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
AATATTATATAAATCAATATTATTATAAT
Found at i:11335 original size:16 final size:15
Alignment explanation
Indices: 11273--11338 Score: 73
Period size: 15 Copynumber: 4.3 Consensus size: 15
11263 TATTAACAAT
11273 ATATAAATAATTA-A
1 ATATAAATAATTATA
11287 TATAGTAAAT-ATTATA
1 -ATA-TAAATAATTATA
*
11303 ATATTATATAATTATA
1 ATA-TAAATAATTATA
11319 ATATAAATAATTAATA
1 ATATAAATAATT-ATA
11335 ATAT
1 ATAT
11339 TATTAATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
15 22 0.50
16 22 0.50
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
ATATAAATAATTATA
Found at i:11345 original size:16 final size:16
Alignment explanation
Indices: 11300--11350 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
11290 AGTAAATATT
11300 ATAATATTATATAATT-
1 ATAATATTAT-TAATTA
* *
11316 ATAATATAAATAATTA
1 ATAATATTATTAATTA
11332 ATAATATTATTAATATA
1 ATAATATTATTAAT-TA
11349 AT
1 AT
11351 TGTTATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 5 0.17
16 20 0.69
17 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATATTATTAATTA
Found at i:11345 original size:25 final size:23
Alignment explanation
Indices: 11273--11349 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
11263 TATTAACAAT
*
11273 ATATAAATAATTAATATAGTA-A
1 ATATAAATAATTAATATATTATA
11295 ATATTATAAT-ATT-ATATAATTATA
1 ATA-TA-AATAATTAATAT-ATTATA
11319 ATATAAATAATTAATAATATTATTA
1 ATATAAATAATTAAT-ATATTA-TA
11344 ATATAA
1 ATATAA
11350 TTGTTATATA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
22 10 0.22
23 13 0.28
24 13 0.28
25 10 0.22
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (23 bp):
ATATAAATAATTAATATATTATA
Found at i:11465 original size:25 final size:25
Alignment explanation
Indices: 11437--11491 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
11427 ATTTGACATG
*
11437 TATATTAT-ATTATAGTTAAATATAA
1 TATATTATAATTATAATTAAA-ATAA
*
11462 TATATTTTAATTATAATTAAAATAA
1 TATATTATAATTATAATTAAAATAA
11487 TATAT
1 TATAT
11492 ATTATTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TATATTATAATTATAATTAAAATAA
Found at i:11503 original size:27 final size:28
Alignment explanation
Indices: 11437--11506 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 28
11427 ATTTGACATG
*
11437 TATATTA-TATTATAGTTAAATATAATA
1 TATATTATTATTATAATTAAATATAATA
*
11464 TAT-TT-TAATTATAATTAAA-ATAATA
1 TATATTATTATTATAATTAAATATAATA
*
11489 TATATTATTACTATAATT
1 TATATTATTATTATAATT
11507 GTTTTAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 9 0.25
26 15 0.42
27 12 0.33
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (28 bp):
TATATTATTATTATAATTAAATATAATA
Found at i:11729 original size:13 final size:13
Alignment explanation
Indices: 11713--11836 Score: 57
Period size: 13 Copynumber: 9.8 Consensus size: 13
11703 TTACAAATAA
11713 ATATAATATAATT
1 ATATAATATAATT
*
11726 ATAT-A-ACAATT
1 ATATAATATAATT
**
11737 ATATGACA-ATTGTT
1 ATAT-A-ATATAATT
* *
11751 ATCTAATGTAATT
1 ATATAATATAATT
*
11764 ATA-ATATTTAATT
1 ATATA-ATATAATT
11777 ATAGTAATA-AATT
1 ATA-TAATATAATT
**
11790 ATATTCTATAATTT
1 ATATAATATAA-TT
* *
11804 AAATATTATAATT
1 ATATAATATAATT
11817 -TATAATA-AATT
1 ATATAATATAATT
11828 ATA-AATATA
1 ATATAATATA
11837 TAATTTTTAA
Statistics
Matches: 82, Mismatches: 18, Indels: 23
0.67 0.15 0.19
Matches are distributed among these distances:
11 17 0.21
12 14 0.17
13 31 0.38
14 19 0.23
15 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (13 bp):
ATATAATATAATT
Found at i:11813 original size:14 final size:13
Alignment explanation
Indices: 11796--11842 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
11786 AATTATATTC
11796 TATAATTTAAATA
1 TATAATTTAAATA
*
11809 TTATAATTTATA-A
1 -TATAATTTAAATA
11822 TA-AATTATAAATA
1 TATAATT-TAAATA
11835 TATAATTT
1 TATAATTT
11843 TTAATAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 4 0.14
12 5 0.18
13 5 0.18
14 14 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TATAATTTAAATA
Found at i:11838 original size:25 final size:25
Alignment explanation
Indices: 11797--11853 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
11787 ATTATATTCT
11797 ATAATT-TAAATATTATAATTTATA
1 ATAATTATAAATATTATAATTTATA
*
11821 ATAAATTATAAATA-TATAATTTTTA
1 AT-AATTATAAATATTATAATTTATA
11846 ATAATTAT
1 ATAATTAT
11854 TATTTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 8 0.27
25 16 0.53
26 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATAATTATAAATATTATAATTTATA
Found at i:11846 original size:41 final size:38
Alignment explanation
Indices: 11759--11842 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 38
11749 TTATCTAATG
* *
11759 TAATTATAATATT-TAATTATAGTAATAAATTATATTCTA
1 TAATT-TAATATTATAATT-TAGTAATAAATTATAATATA
11798 TAATTTAAATATTATAATTTA-TAATAAATTATAAATATA
1 TAATTT-AATATTATAATTTAGTAATAAATTAT-AATATA
11837 TAATTT
1 TAATTT
11843 TTAATAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
38 12 0.30
39 23 0.57
40 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (38 bp):
TAATTTAATATTATAATTTAGTAATAAATTATAATATA
Found at i:12274 original size:22 final size:23
Alignment explanation
Indices: 12242--12285 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
12232 CTATATAAGT
12242 TATTTGTATT-ATATAATAAATAC
1 TATTTGTATTAAT-TAATAAATAC
12265 TATTT-TATTAATTAATAAATA
1 TATTTGTATTAATTAATAAATA
12286 AATTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TATTTGTATTAATTAATAAATAC
Found at i:12743 original size:19 final size:19
Alignment explanation
Indices: 12721--12759 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
12711 TTTAAAATAT
12721 TTAAATAACATAATATTAA
1 TTAAATAACATAATATTAA
*
12740 TTAAATAATATAATATTAA
1 TTAAATAACATAATATTAA
12759 T
1 T
12760 ATATATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAAATAACATAATATTAA
Found at i:12757 original size:15 final size:15
Alignment explanation
Indices: 12730--12772 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
12720 TTTAAATAAC
12730 ATAATATTA-ATTAA
1 ATAATATTATATTAA
*
12744 ATAATATAATATT-A
1 ATAATATTATATTAA
12758 ATATATATTATATTA
1 ATA-ATATTATATTA
12773 TATTATTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATATTATATTAA
Found at i:13651 original size:10 final size:10
Alignment explanation
Indices: 13601--13666 Score: 62
Period size: 10 Copynumber: 6.2 Consensus size: 10
13591 AATTTTAAAT
13601 TAAATTTATA
1 TAAATTTATA
13611 TAAATAGAATTATA
1 TAAAT----TTATA
* *
13625 TAAATTGATT
1 TAAATTTATA
13635 TAAATTTATA
1 TAAATTTATA
13645 TAAATTTA-A
1 TAAATTTATA
13654 TAATATTTATA
1 TAA-ATTTATA
13665 TA
1 TA
13667 TTGTTTGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
9 4 0.09
10 29 0.63
11 3 0.07
14 10 0.22
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (10 bp):
TAAATTTATA
Found at i:14149 original size:11 final size:10
Alignment explanation
Indices: 14123--14182 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
14113 AATTAATACT
14123 ATTAT-AAT-
1 ATTATAAATA
*
14131 ATTTTAAATA
1 ATTATAAATA
14141 ACTTATAAATA
1 A-TTATAAATA
*
14152 GTTATAAATA
1 ATTATAAATA
*
14162 ATTTATAAATC
1 A-TTATAAATA
14173 ATTATAAATA
1 ATTATAAATA
14183 TTAATATTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 4 0.10
9 3 0.07
10 18 0.43
11 17 0.40
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (10 bp):
ATTATAAATA
Found at i:14161 original size:21 final size:21
Alignment explanation
Indices: 14135--14182 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
14125 TATAATATTT
14135 TAAATAACTTATAAAT-AGTTA
1 TAAATAACTTATAAATCA-TTA
*
14156 TAAATAATTTATAAATCATTA
1 TAAATAACTTATAAATCATTA
14177 TAAATA
1 TAAATA
14183 TTAATATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAATAACTTATAAATCATTA
Found at i:14274 original size:19 final size:20
Alignment explanation
Indices: 14239--14279 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
14229 TATTATATAC
*
14239 TATAATTGTTTACTAA-TAT
1 TATAATTGGTTACTAATTAT
14258 TATAATTGAGTTA-TAATTAT
1 TATAATTG-GTTACTAATTAT
14278 TA
1 TA
14280 ATAGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (20 bp):
TATAATTGGTTACTAATTAT
Found at i:14559 original size:5 final size:6
Alignment explanation
Indices: 14542--14631 Score: 52
Period size: 6 Copynumber: 15.7 Consensus size: 6
14532 ATCATATTTA
* * *
14542 AATA-T AATATT AAT-TT AATATT GAATAAT AATATT -ATAAT AATTAGAT
1 AATATT AATATT AATATT AATATT -AATATT AATATT AATATT AA-TA-TT
*
14590 AA-ATT -ATATT AATAAT AATATT AAT-TT --TATT AATAATT AATA
1 AATATT AATATT AATATT AATATT AATATT AATATT AAT-ATT AATA
14632 CTATTGTTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 23
0.70 0.06 0.24
Matches are distributed among these distances:
3 1 0.01
4 3 0.04
5 19 0.28
6 27 0.40
7 13 0.19
8 4 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (6 bp):
AATATT
Found at i:14573 original size:18 final size:17
Alignment explanation
Indices: 14537--14631 Score: 63
Period size: 18 Copynumber: 5.5 Consensus size: 17
14527 ACAAAATCAT
*
14537 ATTTAA-ATATAATATTA
1 ATTTAATAT-TAATAATA
14554 ATTTAATATTGAATAATA
1 ATTTAATATT-AATAATA
*
14572 ATATT-ATAATAATTAGATA
1 AT-TTAATATTAA-TA-ATA
*
14591 AATT-ATATTAATAATA
1 ATTTAATATTAATAATA
* *
14607 ATATTAATTTTATTAATA
1 AT-TTAATATTAATAATA
14625 A-TTAATA
1 ATTTAATA
14632 CTATTGTTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
16 9 0.14
17 13 0.21
18 35 0.56
19 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
ATTTAATATTAATAATA
Found at i:14602 original size:21 final size:21
Alignment explanation
Indices: 14578--14628 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
14568 AATAATATTA
14578 TAATAATTAGATAAATTATAT
1 TAATAATTAGATAAATTATAT
* * * *
14599 TAATAATAATATTAATTTTAT
1 TAATAATTAGATAAATTATAT
14620 TAATAATTA
1 TAATAATTA
14629 ATACTATTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TAATAATTAGATAAATTATAT
Found at i:15003 original size:17 final size:16
Alignment explanation
Indices: 14983--15021 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
14973 TATTTAATAT
*
14983 TTTATTTTAAATGATTA
1 TTTAATTTAAAT-ATTA
*
15000 TTTAATTTATATATTA
1 TTTAATTTAAATATTA
15016 TTTAAT
1 TTTAAT
15022 GTTATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTAATTTAAATATTA
Found at i:15017 original size:16 final size:18
Alignment explanation
Indices: 14996--15033 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
14986 ATTTTAAATG
14996 ATTATTTAAT-TTA-TAT
1 ATTATTTAATGTTATTAT
15012 ATTATTTAATGTTATTAT
1 ATTATTTAATGTTATTAT
15030 ATTA
1 ATTA
15034 ACTAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 3 0.15
18 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATTTAATGTTATTAT
Found at i:15151 original size:15 final size:16
Alignment explanation
Indices: 15094--15153 Score: 63
Period size: 15 Copynumber: 3.8 Consensus size: 16
15084 AATCATTGTT
15094 ATTAATTAATATTAGTTA
1 ATTAATTAATA-TAG-TA
*
15112 ATTTATTAAT-TAGTAA
1 ATTAATTAATATAGT-A
15128 ATTAA-TAATATA-TA
1 ATTAATTAATATAGTA
15142 ATTAATTAATAT
1 ATTAATTAATAT
15154 TTAATTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 6 0.16
15 12 0.32
16 10 0.27
18 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTAATTAATATAGTA
Found at i:15158 original size:15 final size:14
Alignment explanation
Indices: 15095--15165 Score: 54
Period size: 15 Copynumber: 4.8 Consensus size: 14
15085 ATCATTGTTA
*
15095 TTAATTAATATTAG
1 TTAATTAATAATAG
*
15109 TTAATTTATTAATTAG
1 TTAA-TTAATAA-TAG
*
15125 TAAATTAATAATA-
1 TTAATTAATAATAG
*
15138 TATAATTAATTAATAT
1 T-TAATTAA-TAATAG
15154 TTAATTTAATAA
1 TTAA-TTAATAA
15166 ATTAGTGTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
13 1 0.02
14 12 0.26
15 22 0.48
16 11 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
TTAATTAATAATAG
Found at i:15394 original size:23 final size:22
Alignment explanation
Indices: 15349--15401 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
15339 AAATATTTAA
*
15349 TATAATTAATAAATTATTTATT
1 TATAATTAATAAATTATTAATT
*
15371 TGTAATTAAGTATAA-TATTAATT
1 TATAATTAA-TA-AATTATTAATT
15394 TATAATTA
1 TATAATTA
15402 TACAAATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.31
23 16 0.62
24 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
TATAATTAATAAATTATTAATT
Found at i:15528 original size:15 final size:16
Alignment explanation
Indices: 15503--15533 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
15493 GTGAATAGTC
15503 TATTGAATCAATAATT
1 TATTGAATCAATAATT
15519 TATT-AATCAATAATT
1 TATTGAATCAATAATT
15534 AAAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
TATTGAATCAATAATT
Found at i:16144 original size:24 final size:23
Alignment explanation
Indices: 16099--16144 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
16089 TTATTAATTT
*
16099 AAATAATAAATATTTATTATTAC
1 AAATAATAAATATTTATAATTAC
*
16122 AAATAATCAAATATTTGTAATTA
1 AAATAAT-AAATATTTATAATTA
16145 AATATTAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATAATAAATATTTATAATTAC
Found at i:16876 original size:23 final size:23
Alignment explanation
Indices: 16850--16920 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 23
16840 TACATATAAA
16850 ATTATTTTTATTAAGATAAATAT
1 ATTATTTTTATTAAGATAAATAT
*
16873 ATTA----TAATAAG-TATAATACT
1 ATTATTTTTATTAAGATA-AATA-T
*
16893 ATTATTTTTGTTAAGATAAATAT
1 ATTATTTTTATTAAGATAAATAT
16916 ATTAT
1 ATTAT
16921 AATTATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
18 2 0.05
19 10 0.26
20 5 0.13
23 10 0.26
24 9 0.24
25 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (23 bp):
ATTATTTTTATTAAGATAAATAT
Found at i:18701 original size:21 final size:21
Alignment explanation
Indices: 18664--18703 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
18654 TGTTAATATA
*
18664 ATTTATTTTATTATACTATTT
1 ATTTATTTAATTATACTATTT
18685 ATTTA-TTAATTATTACTAT
1 ATTTATTTAATTA-TACTAT
18704 ACTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTATTTAATTATACTATTT
Found at i:18901 original size:17 final size:17
Alignment explanation
Indices: 18881--18923 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18871 AAAAGATTTA
*
18881 TAATGTAAATTATAATC
1 TAATGTAAATAATAATC
*
18898 TAATGTATATAATAATC
1 TAATGTAAATAATAATC
18915 TAATTGTAA
1 TAA-TGTAA
18924 TAAGGTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (17 bp):
TAATGTAAATAATAATC
Found at i:20136 original size:31 final size:31
Alignment explanation
Indices: 20101--20164 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
20091 TAAGCTATAA
**
20101 TAATTAAGAAATTTTGT-TTATAAAAATTATT
1 TAATTAAGAAATTAAGTATTAT-AAAATTATT
* *
20132 TAATTTATAAATTAAGTATTATAAAATTATT
1 TAATTAAGAAATTAAGTATTATAAAATTATT
20163 TA
1 TA
20165 TAATAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (31 bp):
TAATTAAGAAATTAAGTATTATAAAATTATT
Found at i:20356 original size:27 final size:26
Alignment explanation
Indices: 20313--20363 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
20303 AGTAATAGTA
20313 ATTATTAGTTAAATAATATATAATAAC
1 ATTATTAGTTAAATAATAT-TAATAAC
*
20340 ATTATTA-TATAATTAATATTAATA
1 ATTATTAGT-TAAATAATATTAATA
20364 GTATAATCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTATTAGTTAAATAATATTAATAAC
Found at i:20710 original size:26 final size:26
Alignment explanation
Indices: 20664--20718 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
20654 ATTTGATTAC
* *
20664 TAAATCATATAGTCTTAAATATTATA
1 TAAATCATATAGTATTAAATAATATA
*
20690 TAAATCATA-ATTATTATAATAATATA
1 TAAATCATATAGTATTA-AATAATATA
20716 TAA
1 TAA
20719 TAAATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (26 bp):
TAAATCATATAGTATTAAATAATATA
Found at i:20723 original size:29 final size:29
Alignment explanation
Indices: 20681--20736 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
20671 TATAGTCTTA
20681 AATATTATATAAATC-ATAATTATTATAAT
1 AATATTATATAAATCAAT-ATTATTATAAT
*
20710 AATA-TATAATAAATTAATATTATTATA
1 AATATTAT-ATAAATCAATATTATTATA
20737 CTATAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 3 0.12
29 19 0.79
30 2 0.08
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
AATATTATATAAATCAATATTATTATAAT
Found at i:21238 original size:16 final size:15
Alignment explanation
Indices: 21176--21241 Score: 73
Period size: 15 Copynumber: 4.3 Consensus size: 15
21166 TATTAACAAT
21176 ATATAAATAATTA-A
1 ATATAAATAATTATA
21190 TATAGTAAAT-ATTATA
1 -ATA-TAAATAATTATA
*
21206 ATATTATATAATTATA
1 ATA-TAAATAATTATA
21222 ATATAAATAATTAATA
1 ATATAAATAATT-ATA
21238 ATAT
1 ATAT
21242 TATTAATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
15 22 0.50
16 22 0.50
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
ATATAAATAATTATA
Found at i:21248 original size:16 final size:16
Alignment explanation
Indices: 21203--21253 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
21193 AGTAAATATT
21203 ATAATATTATATAATT-
1 ATAATATTAT-TAATTA
* *
21219 ATAATATAAATAATTA
1 ATAATATTATTAATTA
21235 ATAATATTATTAATATA
1 ATAATATTATTAAT-TA
21252 AT
1 AT
21254 TGTTATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 5 0.17
16 20 0.69
17 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATATTATTAATTA
Found at i:21248 original size:25 final size:23
Alignment explanation
Indices: 21176--21252 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
21166 TATTAACAAT
*
21176 ATATAAATAATTAATATAGTA-A
1 ATATAAATAATTAATATATTATA
21198 ATATTATAAT-ATT-ATATAATTATA
1 ATA-TA-AATAATTAATAT-ATTATA
21222 ATATAAATAATTAATAATATTATTA
1 ATATAAATAATTAAT-ATATTA-TA
21247 ATATAA
1 ATATAA
21253 TTGTTATATA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
22 10 0.22
23 13 0.28
24 13 0.28
25 10 0.22
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (23 bp):
ATATAAATAATTAATATATTATA
Found at i:21400 original size:25 final size:25
Alignment explanation
Indices: 21339--21400 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
21329 ATTTGACATG
* *
21339 TATATTATATTATAGTTAATATAATA
1 TATATTA-ATTATAATTAAAATAATA
*
21365 TATTTTAATTATAATTAAAATAATA
1 TATATTAATTATAATTAAAATAATA
*
21390 TATATTCATTA
1 TATATTAATTA
21401 CTATAATTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 25 0.81
26 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
TATATTAATTATAATTAAAATAATA
Found at i:21914 original size:16 final size:17
Alignment explanation
Indices: 21889--21930 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
21879 TTAATTAAAA
21889 TTTATATTATAAACAAT
1 TTTATATTATAAACAAT
* *
21906 TTTAT-TTATTATCAAT
1 TTTATATTATAAACAAT
*
21922 TTTAAATTA
1 TTTATATTA
21931 CTTATCATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTATATTATAAACAAT
Found at i:22852 original size:19 final size:18
Alignment explanation
Indices: 22816--22859 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
22806 ATTAAACAAT
*
22816 ATATTATATATTGTATTA
1 ATATTATATATTGAATTA
22834 ACTATTATATATAT-AATTA
1 A-TATTATATAT-TGAATTA
22853 ATATTAT
1 ATATTAT
22860 TAGAAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 15 0.65
20 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
ATATTATATATTGAATTA
Found at i:23430 original size:15 final size:15
Alignment explanation
Indices: 23410--23443 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
23400 ATATATTTGT
23410 TATTATTAATATTAA
1 TATTATTAATATTAA
*
23425 TATTATTAATTTTAA
1 TATTATTAATATTAA
23440 -ATTA
1 TATTA
23444 AATTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTATTAATATTAA
Done.