Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167890.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_157, 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: 63458
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Warning! 1000 characters in sequence are not A, C, G, or T
Found at i:1993 original size:21 final size:22
Alignment explanation
Indices: 1951--1993 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1941 TTATATAAAT
* **
1951 GAAAAAGAAATGCACTTCAGAA
1 GAAAAAAAAATGCAAATCAGAA
1973 GAAAAAAAAATGCAAAT-AGAA
1 GAAAAAAAAATGCAAATCAGAA
1994 AAAGTGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.63, C:0.09, G:0.16, T:0.12
Consensus pattern (22 bp):
GAAAAAAAAATGCAAATCAGAA
Found at i:8198 original size:3 final size:3
Alignment explanation
Indices: 8190--8219 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8180 ATAGAATATC
8190 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8220 TCCATTGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12221 original size:2 final size:2
Alignment explanation
Indices: 12214--12238 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12204 TCCATAAATA
12214 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
12239 AGAAATCCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16404 original size:163 final size:163
Alignment explanation
Indices: 16131--16439 Score: 537
Period size: 163 Copynumber: 1.9 Consensus size: 163
16121 TGTTAAAACC
* * *
16131 TTCAACCATTAAGGAACTAGTAGAATGAGACAGAAAAAGGTTCTGTGGCGGTAGACCAGAAAGTA
1 TTCAACCATTAAGGAACTAGTAGAATGAGACAGAAAAAGGATCTGTGGCGATAGACCAGAAACTA
*
16196 TCAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAATGAAAGGATCAAATCAGACTGGTTGCT
66 TCAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAACGAAAGGATCAAATCAGACTGGTTGCT
16261 TCTGATTATATTACTTGTCATTCTATAAACACT
131 TCTGATTATATTACTTGTCATTCTATAAACACT
* *
16294 TTCAACCATTAAGGAACTAGTAGAATGAGAGATAAAAAGGATCTGTGGCGATAGACCAGAAACTA
1 TTCAACCATTAAGGAACTAGTAGAATGAGACAGAAAAAGGATCTGTGGCGATAGACCAGAAACTA
* * *
16359 TCAATTCAAGGTGGTTGCTTGTTACAGTATAATGAGAACGAAAGGATCAAATCAGACTGGTTGCT
66 TCAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAACGAAAGGATCAAATCAGACTGGTTGCT
16424 TCTGATTATATTACTT
131 TCTGATTATATTACTT
16440 ATGTTTTATT
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
163 137 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (163 bp):
TTCAACCATTAAGGAACTAGTAGAATGAGACAGAAAAAGGATCTGTGGCGATAGACCAGAAACTA
TCAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAACGAAAGGATCAAATCAGACTGGTTGCT
TCTGATTATATTACTTGTCATTCTATAAACACT
Found at i:20551 original size:6 final size:7
Alignment explanation
Indices: 20527--20560 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
20517 GTTTATTAAG
20527 TTAAATT
1 TTAAATT
20534 TTAAATT
1 TTAAATT
20541 TTAAA-T
1 TTAAATT
20547 TTAAATT
1 TTAAATT
*
20554 TAAAATT
1 TTAAATT
20561 GATTTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
TTAAATT
Found at i:20551 original size:13 final size:13
Alignment explanation
Indices: 20527--20560 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
20517 GTTTATTAAG
20527 TTAAATTTTAAATT
1 TTAAA-TTTAAATT
20541 TTAAATTTAAATT
1 TTAAATTTAAATT
*
20554 TAAAATT
1 TTAAATT
20561 GATTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAAATTTAAATT
Found at i:20593 original size:18 final size:18
Alignment explanation
Indices: 20570--20604 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20560 TGATTTTAAA
*
20570 AAAATTATTAAAAGAAAT
1 AAAATTAATAAAAGAAAT
*
20588 AAAATTAATAAATGAAA
1 AAAATTAATAAAAGAAA
20605 GTAATCCATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
AAAATTAATAAAAGAAAT
Found at i:20886 original size:49 final size:49
Alignment explanation
Indices: 20816--20912 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
20806 ACTATCGGAA
**
20816 TACCATCCAAACCATACTACCTAAACCGACTTTTA-GATGCCCTAATCT
1 TACCATCCAAACCATACTACCTAAACCGACTTAGAGGATGCCCTAATCT
*
20864 TACCATCCAAATCCATACTACCTAAATCGACTTAGAGGATGCCCTAATC
1 TACCATCCAAA-CCATACTACCTAAACCGACTTAGAGGATGCCCTAATC
20913 CAACCTGTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 11 0.25
49 21 0.48
50 12 0.27
ACGTcount: A:0.34, C:0.32, G:0.08, T:0.26
Consensus pattern (49 bp):
TACCATCCAAACCATACTACCTAAACCGACTTAGAGGATGCCCTAATCT
Found at i:21900 original size:19 final size:18
Alignment explanation
Indices: 21876--21911 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21866 TTTTTTTTGT
21876 TTATTTCTAATTACTTTTC
1 TTATTT-TAATTACTTTTC
*
21895 TTATTTTTATTACTTTT
1 TTATTTTAATTACTTTT
21912 TTGTTAGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTTAATTACTTTTC
Found at i:22350 original size:25 final size:26
Alignment explanation
Indices: 22322--22383 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 26
22312 ATACTAATTT
22322 TTTTTCATTTTGTCATTC-CTTTTCA
1 TTTTTCATTTTGTCATTCACTTTTCA
* * * * *
22347 TTTTTGAATTTGTTATTCATTTTTTA
1 TTTTTCATTTTGTCATTCACTTTTCA
*
22373 TTTTTTATTTT
1 TTTTTCATTTT
22384 TGAGTCGTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.71
Consensus pattern (26 bp):
TTTTTCATTTTGTCATTCACTTTTCA
Found at i:23424 original size:10 final size:10
Alignment explanation
Indices: 23411--23469 Score: 59
Period size: 9 Copynumber: 6.0 Consensus size: 10
23401 ATAAACATTG
*
23411 TAATATTAAT
1 TAATAATAAT
23421 TAATAATAAT
1 TAATAATAAT
**
23431 T-ATAATCTT
1 TAATAATAAT
*
23440 TAAAAATAA-
1 TAATAATAAT
23449 TAATAATAAT
1 TAATAATAAT
23459 ATAATAATAAT
1 -TAATAATAAT
23470 AGTTTTATCC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
9 15 0.38
10 14 0.36
11 10 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATAATAAT
Found at i:23429 original size:3 final size:3
Alignment explanation
Indices: 23411--23470 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
23401 ATAAACATTG
* * ** *
23411 TAA TAT TAA TTAA TAA TAA TTA TAA TCTT TAA AAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
23458 T-A TAA TAA TAA TA
1 TAA TAA TAA TAA TA
23471 GTTTTATCCA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
2 2 0.05
3 38 0.86
4 4 0.09
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:23436 original size:22 final size:21
Alignment explanation
Indices: 23411--23470 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
23401 ATAAACATTG
*
23411 TAATATTAATTAATAATAATTA
1 TAATATTAA-TAATAATAATAA
* *
23433 TAATCTTTAAAAATAATAATAA
1 TAAT-ATTAATAATAATAATAA
23455 TAATA-TAATAATAATA
1 TAATATTAATAATAATA
23471 GTTTTATCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 10 0.31
22 18 0.56
23 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATATTAATAATAATAATAA
Found at i:23580 original size:11 final size:13
Alignment explanation
Indices: 23551--23602 Score: 58
Period size: 12 Copynumber: 4.3 Consensus size: 13
23541 TATGGTACTG
*
23551 ATTATAACT-ATT
1 ATTATAATTAATT
23563 ATTATAATTAA-T
1 ATTATAATTAATT
*
23575 -TTATAAATAATT
1 ATTATAATTAATT
23587 ATTATAATT-ATT
1 ATTATAATTAATT
23599 ATTA
1 ATTA
23603 ATATATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 9 0.26
12 17 0.50
13 8 0.24
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATAATTAATT
Found at i:23639 original size:24 final size:22
Alignment explanation
Indices: 23552--23638 Score: 77
Period size: 24 Copynumber: 3.8 Consensus size: 22
23542 ATGGTACTGA
* *
23552 TTATAACTATTATTATAATTAAT
1 TTATAAATATAATTATAATT-AT
*
23575 TTATAAATAATTATTATAATTA-
1 TTATAAAT-ATAATTATAATTAT
* *
23597 TTATTAATATATTTAATATATTAT
1 TTATAAATATAATT-ATA-ATTAT
23621 TTGATAAATATAATTATA
1 TT-ATAAATATAATTATA
23639 TAATTATATT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
21 4 0.08
22 10 0.19
23 12 0.23
24 17 0.32
25 10 0.19
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (22 bp):
TTATAAATATAATTATAATTAT
Found at i:23709 original size:17 final size:17
Alignment explanation
Indices: 23687--23722 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
23677 CTAAATGATT
23687 ATAATTAATTAA-TTATA
1 ATAATT-ATTAATTTATA
23704 ATAATTATTAATTTATA
1 ATAATTATTAATTTATA
23721 AT
1 AT
23723 TATATAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAATTATTAATTTATA
Found at i:23721 original size:14 final size:14
Alignment explanation
Indices: 23685--23725 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 14
23675 TGCTAAATGA
23685 TTATAATTAATTAAT
1 TTATAATT-ATTAAT
23700 TATAATAATTATTAAT
1 T-T-ATAATTATTAAT
23716 TTATAATTAT
1 TTATAATTAT
23726 ATAGTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.33
15 2 0.08
16 8 0.33
17 6 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATAATTATTAAT
Found at i:23722 original size:23 final size:25
Alignment explanation
Indices: 23688--23753 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 25
23678 TAAATGATTA
*
23688 TAATTAATTAATTATAATAATTA-T
1 TAATTTATTAATTATAATAATTATT
*
23712 TAATTTA-TAATTAT-ATAGTTATT
1 TAATTTATTAATTATAATAATTATT
*
23735 TTATTTATTAATATATAAT
1 TAATTTATTAAT-TATAAT
23754 TGTTCAGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 6 0.17
23 14 0.40
24 10 0.29
25 3 0.09
26 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TAATTTATTAATTATAATAATTATT
Found at i:24108 original size:21 final size:21
Alignment explanation
Indices: 24084--24130 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
24074 AACTTATTTG
24084 TTATTATTAATAATTTAATAA
1 TTATTATTAATAATTTAATAA
* * * *
24105 TTATTTTTAGTTATTTGATAA
1 TTATTATTAATAATTTAATAA
24126 TTATT
1 TTATT
24131 CTAATAGTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTATTAATAATTTAATAA
Found at i:24370 original size:20 final size:20
Alignment explanation
Indices: 24345--24424 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
24335 AATTATTAAT
* *
24345 ATTATAATTTATATTATTAC
1 ATTATAATTAATATAATTAC
* *
24365 ATTATAATAAATATAATTAT
1 ATTATAATTAATATAATTAC
*
24385 ATTATAATTAATTATAA-TAT
1 ATTATAATTAA-TATAATTAC
24405 ATT-TAATATAAATATAATTA
1 ATTATAAT-T-AATATAATTA
24425 ATATTAATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.08
20 38 0.75
21 9 0.18
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTATAATTAATATAATTAC
Found at i:24385 original size:15 final size:15
Alignment explanation
Indices: 24335--24426 Score: 77
Period size: 15 Copynumber: 6.2 Consensus size: 15
24325 TTATATATCA
*
24335 AATTATTAATATTA-T
1 AATTA-TAATATAATT
*
24350 AATT-T-ATATTATT
1 AATTATAATATAATT
24363 ACATTATAATA-AATAT
1 A-ATTATAATATAAT-T
*
24379 AATTATATTATAATT
1 AATTATAATATAATT
*
24394 AATTATAATATATTT
1 AATTATAATATAATT
24409 AA-TATAAATATAATT
1 AATTAT-AATATAATT
24424 AAT
1 AAT
24427 ATTAATATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
12 6 0.09
13 3 0.05
14 6 0.09
15 41 0.64
16 8 0.12
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTATAATATAATT
Found at i:24401 original size:30 final size:29
Alignment explanation
Indices: 24347--24426 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
24337 TTATTAATAT
*
24347 TATAATT-TATATTATTACATTATAATAAA
1 TATAATTATATATAATTA-ATTATAATAAA
*
24376 TATAATTATATTATAATTAATTATAATATA
1 TATAATTATA-TATAATTAATTATAATAAA
* *
24406 TTTAATATAAATATAATTAAT
1 TATAAT-TATATATAATTAAT
24427 ATTAATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
29 7 0.16
30 27 0.61
31 10 0.23
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
TATAATTATATATAATTAATTATAATAAA
Found at i:24414 original size:24 final size:24
Alignment explanation
Indices: 24387--24465 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 24
24377 ATAATTATAT
24387 TATAATTAATTATAATATATTTAA
1 TATAATTAATTATAATATATTTAA
*
24411 TATAAATATAATTAATATTAATATTTAAA
1 TAT-AAT-TAATT-ATAAT-ATATTT-AA
* *
24440 TATTCATTAATTA-AATA-ATATAA
1 TA-TAATTAATTATAATATATTTAA
24463 TAT
1 TAT
24466 TATATAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
22 1 0.02
23 4 0.09
24 6 0.13
25 4 0.09
26 7 0.16
27 5 0.11
28 11 0.24
29 6 0.13
30 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (24 bp):
TATAATTAATTATAATATATTTAA
Found at i:24427 original size:15 final size:15
Alignment explanation
Indices: 24371--24481 Score: 71
Period size: 15 Copynumber: 7.9 Consensus size: 15
24361 TTACATTATA
24371 ATAAATATAATT-AT
1 ATAAATATAATTAAT
24385 AT---TATAATTAAT
1 ATAAATATAATTAAT
*
24397 -TATAATATATTTAAT
1 ATA-AATATAATTAAT
24412 ATAAATATAATTAAT
1 ATAAATATAATTAAT
*
24427 ATTAATAT--TTAAAT
1 ATAAATATAATT-AAT
**
24441 ATTCAT-TAATTAA-
1 ATAAATATAATTAAT
*
24454 AT-AATATAATATTAT
1 ATAAATATAAT-TAAT
*
24469 ATAAATATTATTA
1 ATAAATATAATTA
24482 GATAATATAT
Statistics
Matches: 76, Mismatches: 8, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
11 8 0.11
12 4 0.05
13 9 0.12
14 14 0.18
15 32 0.42
16 9 0.12
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAAATATAATTAAT
Found at i:24492 original size:57 final size:57
Alignment explanation
Indices: 24389--24517 Score: 149
Period size: 57 Copynumber: 2.2 Consensus size: 57
24379 AATTATATTA
*
24389 TAATTAATTATAATATATTTAATATAAATATAATTAATATTAATATTTAAATATT-CAT
1 TAATTAA-TATAATATATTTAATATAAATATAATTAATAATAATATTTAAATATTAC-T
* *
24447 TAATTAA-ATAATATAATATT-ATATAAATATTATTAGATAAT-ATATTTTAATATTACT
1 TAATTAATATAATAT-AT-TTAATATAAATATAATTA-ATAATAATATTTAAATATTACT
24504 TAATTATATATAAT
1 TAATTA-ATATAAT
24518 CTAAATTAGA
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
56 7 0.11
57 35 0.56
58 15 0.24
59 5 0.08
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (57 bp):
TAATTAATATAATATATTTAATATAAATATAATTAATAATAATATTTAAATATTACT
Found at i:24548 original size:18 final size:18
Alignment explanation
Indices: 24483--24561 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
24473 ATATTATTAG
24483 ATAATATATTT-TAATATT
1 ATAATATATTTATAATA-T
* *
24501 ACTTAAT-TATATATAATCT
1 A--TAATATATTTATAATAT
*
24520 A-AATTAGATTTATAATAT
1 ATAA-TATATTTATAATAT
24538 ATAATATATTTAT-ATAT
1 ATAATATATTTATAATAT
24555 ATTAATA
1 A-TAATA
24562 ATTATTATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
16 2 0.04
17 6 0.12
18 24 0.50
19 8 0.17
20 8 0.17
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (18 bp):
ATAATATATTTATAATAT
Found at i:25017 original size:26 final size:25
Alignment explanation
Indices: 24980--25040 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
24970 AATTATAAGA
24980 TTATAAATTAAT-AATTATATATAAT
1 TTATAAATTAATAAATTA-ATATAAT
*
25005 TTATAAATATAATAAATTAATATTAT
1 TTATAAAT-TAATAAATTAATATAAT
*
25031 TT-TATATTAA
1 TTATAAATTAA
25041 ATTATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 3 0.09
25 12 0.38
26 12 0.38
27 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TTATAAATTAATAAATTAATATAAT
Found at i:25034 original size:27 final size:25
Alignment explanation
Indices: 24957--25040 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 25
24947 TCACATTATT
*
24957 ATTAATATATTATAATTATAAGATTATAA
1 ATTAATA-ATTAT-A-TATAA-TTTATAA
24986 ATTAATAATTATATATAATTTATAA
1 ATTAATAATTATATATAATTTATAA
* *
25011 ATATAATAAATTA-ATATTATTT-TAT
1 AT-TAAT-AATTATATATAATTTATAA
25036 ATTAA
1 ATTAA
25041 ATTATAATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
24 3 0.06
25 12 0.24
26 17 0.34
27 6 0.12
28 5 0.10
29 7 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (25 bp):
ATTAATAATTATATATAATTTATAA
Found at i:25283 original size:20 final size:20
Alignment explanation
Indices: 25258--25295 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25248 AGTATAATAT
*
25258 ATAATATTTATAATTATTTA
1 ATAATAATTATAATTATTTA
*
25278 ATAATAATTATTATTATT
1 ATAATAATTATAATTATT
25296 AGTGTAACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAATAATTATAATTATTTA
Found at i:25691 original size:20 final size:20
Alignment explanation
Indices: 25668--25721 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
25658 ATAAATAATT
25668 TTATAATTTTATAATATTAA
1 TTATAATTTTATAATATTAA
* * * *
25688 TTATAATATTAGAAGATTTA
1 TTATAATTTTATAATATTAA
*
25708 TAAT-ATTTTATAAT
1 TTATAATTTTATAAT
25722 TAATTAATAT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
TTATAATTTTATAATATTAA
Found at i:25731 original size:18 final size:18
Alignment explanation
Indices: 25671--25743 Score: 58
Period size: 18 Copynumber: 4.0 Consensus size: 18
25661 AATAATTTTA
* *
25671 TAATTTTATAATATTAATT
1 TAATATTATAAAATTAA-T
* * *
25690 ATAATATTAGAAGATTTA-
1 -TAATATTATAAAATTAAT
* *
25708 TAATATTTTATAATTAAT
1 TAATATTATAAAATTAAT
25726 TAATATTATAAAATTAAT
1 TAATATTATAAAATTAAT
25744 GATAAATTAA
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
17 12 0.29
18 16 0.39
20 13 0.32
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TAATATTATAAAATTAAT
Found at i:26454 original size:13 final size:13
Alignment explanation
Indices: 26436--26478 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
26426 ATATTTATAA
26436 ATTATACTAATAT
1 ATTATACTAATAT
26449 ATTATACT-ATAT
1 ATTATACTAATAT
26461 AATTATA-TAATAT
1 -ATTATACTAATAT
26474 ATTAT
1 ATTAT
26479 TTATTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTATACTAATAT
Found at i:26495 original size:35 final size:34
Alignment explanation
Indices: 26456--26564 Score: 98
Period size: 35 Copynumber: 3.1 Consensus size: 34
26446 TATATTATAC
26456 TATATAATTATATAATATATTATTTATTTATTAAT
1 TATATAATTATATAATATATTATTTATTTATT-AT
*
26491 TATATAA-TAT-TAATAACTATTATATATTTAAGTTAT
1 TATATAATTATATAAT-A-TATTATTTATTT-A-TTAT
* * *
26527 T-TATAATTATTATATTTATTTTAATTATTTATTAT
1 TATATAATTA-TATA-ATATATTATTTATTTATTAT
26562 TAT
1 TAT
26565 TTTAATGATT
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
33 4 0.07
34 4 0.07
35 28 0.47
36 8 0.13
37 12 0.20
38 3 0.05
39 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (34 bp):
TATATAATTATATAATATATTATTTATTTATTAT
Found at i:26499 original size:27 final size:25
Alignment explanation
Indices: 26420--26500 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 25
26410 ATAATCTAAT
* *
26420 TATATCATATTTATAAATTATACTAA
1 TATATTATATTTATTAATTATA-TAA
*
26446 TATATTATA-CTATATAATTATATAA
1 TATATTATATTTAT-TAATTATATAA
26471 TATATTATTTATTTATTAATTATATAA
1 TATATTA--TATTTATTAATTATATAA
26498 TAT
1 TAT
26501 TAATAACTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 13 0.28
26 15 0.32
27 16 0.34
28 3 0.06
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
TATATTATATTTATTAATTATATAA
Found at i:26513 original size:27 final size:26
Alignment explanation
Indices: 26430--26513 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
26420 TATATCATAT
*
26430 TTATAAATTATACTAATATATTATACTA
1 TTATTAATTATA-TAATATATTA-ACTA
**
26458 -TA-TAATTATATAATATATTATTTA
1 TTATTAATTATATAATATATTAACTA
*
26482 TTTATTAATTATATAATATTAATAACTA
1 -TTATTAATTATATAATA-TATTAACTA
26510 TTAT
1 TTAT
26514 ATATTTAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 2 0.04
25 10 0.22
26 9 0.20
27 19 0.41
28 6 0.13
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (26 bp):
TTATTAATTATATAATATATTAACTA
Found at i:26555 original size:28 final size:31
Alignment explanation
Indices: 26508--26565 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 31
26498 TATTAATAAC
26508 TATTATATATTTAAGTTATTTATAATTATTA
1 TATTATATATTTAAGTTATTTATAATTATTA
*
26539 TATT-TAT-TTTAA-TTATTTATTATTATT
1 TATTATATATTTAAGTTATTTATAATTATT
26566 TTAATGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.54
29 5 0.19
30 3 0.12
31 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (31 bp):
TATTATATATTTAAGTTATTTATAATTATTA
Found at i:26564 original size:19 final size:19
Alignment explanation
Indices: 26523--26575 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
26513 TATATTTAAG
26523 TTATTTATAATTA-TTATAT
1 TTATTT-TAATTATTTATAT
26542 TTATTTTAATTATTTAT-T
1 TTATTTTAATTATTTATAT
*
26560 ATTATTTTAATGATTT
1 -TTATTTTAATTATTT
26576 GAAATAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 7 0.23
19 24 0.77
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATTTTAATTATTTATAT
Found at i:26575 original size:28 final size:29
Alignment explanation
Indices: 26517--26575 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
26507 CTATTATATA
* *
26517 TTTAAGTTATTTATAATTATTATATTTAT
1 TTTAAGTTATTTATAATTATTATAATGAT
* *
26546 TTTAA-TTATTTATTATTATTTTAATGAT
1 TTTAAGTTATTTATAATTATTATAATGAT
26574 TT
1 TT
26576 GAAATAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTAAGTTATTTATAATTATTATAATGAT
Found at i:26831 original size:24 final size:24
Alignment explanation
Indices: 26804--26852 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
26794 TTTGAACGTG
26804 TTATAAATAATATATTA-TA-AATTA
1 TTAT-AATAATA-ATTATTACAATTA
26828 TTATAATAATAATTATTACAATTA
1 TTATAATAATAATTATTACAATTA
26852 T
1 T
26853 CTTAATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.17
23 9 0.39
24 10 0.43
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATAATAATAATTATTACAATTA
Found at i:27120 original size:13 final size:13
Alignment explanation
Indices: 27079--27163 Score: 70
Period size: 13 Copynumber: 6.5 Consensus size: 13
27069 TATAACCTTT
27079 TATTA-ATTAAT-
1 TATTATATTAATA
*
27090 TATTCAAATTAATA
1 TATT-ATATTAATA
27104 -ATTATATTAATA
1 TATTATATTAATA
27116 TATTATAATT-ATAA
1 TATTAT-ATTAAT-A
*
27130 TATAATATTAAATA
1 TATTATATT-AATA
**
27144 TATTATAAAAATA
1 TATTATATTAATA
27157 TATTATA
1 TATTATA
27164 ATTTATCATA
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
11 4 0.07
12 9 0.15
13 30 0.49
14 16 0.26
15 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (13 bp):
TATTATATTAATA
Found at i:27213 original size:14 final size:15
Alignment explanation
Indices: 27196--27287 Score: 75
Period size: 14 Copynumber: 6.1 Consensus size: 15
27186 TTTGAATAAT
27196 ATTAATTAT-ATTTA
1 ATTAATTATAATTTA
*
27210 ATTAATT-TAAGTTA
1 ATTAATTATAATTTA
27224 ATTAA-T-TAATTTA
1 ATTAATTATAATTTA
*
27237 TATTTATTATAATTATA
1 -ATTAATTATAATT-TA
*
27254 ATAATATTATAATATTA
1 ATTA-ATTATAAT-TTA
* *
27271 ATTAATAATAATATA
1 ATTAATTATAATTTA
27286 AT
1 AT
27288 CTTAAAAATA
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
13 8 0.13
14 20 0.32
15 5 0.08
16 14 0.22
17 15 0.24
18 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
ATTAATTATAATTTA
Found at i:27272 original size:17 final size:18
Alignment explanation
Indices: 27241--27277 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
27231 AATTTATATT
27241 TATTATAATTATAA-TAA
1 TATTATAATTATAATTAA
27258 TATTATAA-TATTAATTAA
1 TATTATAATTA-TAATTAA
27276 TA
1 TA
27278 ATAATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 11 0.61
18 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTATAATTATAATTAA
Found at i:27276 original size:21 final size:20
Alignment explanation
Indices: 27251--27303 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
27241 TATTATAATT
*
27251 ATAATAATATTATAATATTA
1 ATAATAATAATATAATATTA
*
27271 ATTAATAATAATATAATCTTA
1 A-TAATAATAATATAATATTA
*
27292 AAAATAATAATA
1 ATAATAATAATA
27304 ATTTATCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATAATAATATAATATTA
Found at i:27283 original size:24 final size:23
Alignment explanation
Indices: 27221--27308 Score: 69
Period size: 21 Copynumber: 3.9 Consensus size: 23
27211 TTAATTTAAG
* *
27221 TTAATTAATTAATTTATATTTATTA
1 TTAATTAA-TAA-TAATATTTAATA
27246 -TAATT-ATAATAATATTATAATA
1 TTAATTAATAATAATATT-TAATA
*
27268 TTAATTAATAATAATA--TAATC
1 TTAATTAATAATAATATTTAATA
*
27289 TTAA-AAATAATAATAATTTA
1 TTAATTAATAATAAT-ATTTA
27309 TCCAATTATT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
20 9 0.17
21 15 0.28
22 7 0.13
23 8 0.15
24 14 0.26
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAATTAATAATAATATTTAATA
Found at i:27427 original size:24 final size:24
Alignment explanation
Indices: 27393--27456 Score: 119
Period size: 24 Copynumber: 2.6 Consensus size: 24
27383 ATGAATAACT
27393 ATTATGAATAATTATTTTATAAATA
1 ATTATG-ATAATTATTTTATAAATA
27418 ATTATGATAATTATTTTATAAATA
1 ATTATGATAATTATTTTATAAATA
27442 ATTATGATAATTATT
1 ATTATGATAATTATT
27457 ATTAATTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
24 33 0.85
25 6 0.15
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (24 bp):
ATTATGATAATTATTTTATAAATA
Found at i:27462 original size:19 final size:19
Alignment explanation
Indices: 27416--27478 Score: 65
Period size: 24 Copynumber: 3.1 Consensus size: 19
27406 ATTTTATAAA
27416 TAATTATGATAATTATTTTAT
1 TAATTATGATAATTA--TTAT
27437 AAATAATTATGATAATTATTAT
1 ---TAATTATGATAATTATTAT
27459 TAATTTATG-TAATTATTAT
1 TAA-TTATGATAATTATTAT
27478 T
1 T
27479 TGATAAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 14 0.37
20 5 0.13
22 4 0.11
24 15 0.39
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TAATTATGATAATTATTAT
Found at i:27569 original size:20 final size:20
Alignment explanation
Indices: 27544--27619 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
27534 CTGATTTATA
27544 TATTAATTAATTATAATAAT
1 TATTAATTAATTATAATAAT
* * *
27564 TATTAATTTATAATTATAA-
1 TATTAATTAATTATAATAAT
*
27583 -ATTAATTTTATT-TAATAAT
1 TATTAA-TTAATTATAATAAT
*
27602 TA-TATATTAAATATAATA
1 TATTA-ATTAATTATAATA
27620 TATTTAATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
18 10 0.23
19 11 0.25
20 23 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTAATTAATTATAATAAT
Found at i:27600 original size:18 final size:18
Alignment explanation
Indices: 27548--27590 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
27538 TTTATATATT
*
27548 AATTAA-TTATAATAAT-
1 AATTAATTTATAATTATA
*
27564 TATTAATTTATAATTATA
1 AATTAATTTATAATTATA
27582 AATTAATTT
1 AATTAATTT
27591 TATTTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 5 0.23
17 9 0.41
18 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTAATTTATAATTATA
Found at i:27626 original size:15 final size:16
Alignment explanation
Indices: 27597--27640 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
27587 ATTTTATTTA
27597 ATAATTATATATTAAAT
1 ATAA-TATATATTAAAT
*
27614 ATAATATAT-TTAATT
1 ATAATATATATTAAAT
27629 ATAATATTATAT
1 ATAATA-TATAT
27641 AGTTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 8 0.33
17 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATATATATTAAAT
Found at i:27647 original size:24 final size:24
Alignment explanation
Indices: 27489--27647 Score: 81
Period size: 24 Copynumber: 6.8 Consensus size: 24
27479 TGATAAATAT
27489 TAATATTATATAATTA--T-ATTA
1 TAATATTATATAATTATTTAATTA
**
27510 TTAATATTA-ATAAAAATATTAA-TA
1 -TAATATTATATAATTAT-TTAATTA
* *
27534 CTGAT-TTATAT-ATTAATTAATTA
1 -TAATATTATATAATTATTTAATTA
*
27557 TAATAATTAT-TAATT-TATAATTA
1 TAAT-ATTATATAATTATTTAATTA
* *
27580 TAA-ATTA-AT-TTTATTTAATAA
1 TAATATTATATAATTATTTAATTA
27601 TTATATATTAAATATAATATATTTAATTA
1 -TA-ATATT--ATATAAT-TATTTAATTA
*
27630 TAATATTATATAGTTATT
1 TAATATTATATAATTATT
27648 AAAAAATTAA
Statistics
Matches: 102, Mismatches: 16, Indels: 36
0.66 0.10 0.23
Matches are distributed among these distances:
20 2 0.02
21 16 0.16
22 17 0.17
23 18 0.18
24 22 0.22
25 7 0.07
26 1 0.01
27 7 0.07
28 3 0.03
29 9 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (24 bp):
TAATATTATATAATTATTTAATTA
Found at i:27747 original size:60 final size:59
Alignment explanation
Indices: 27594--27751 Score: 148
Period size: 60 Copynumber: 2.7 Consensus size: 59
27584 TTAATTTTAT
27594 TTAATAATTAT-ATATTAA-ATATAATATATTTAATTATAATATTATATAGTTATTAAAAAA
1 TTAATAATTATAATATTAATA-ATAATATA-TT-ATTATAATATTATATAGTTATTAAAAAA
* * * * * * *
27654 TTAATAATTATGACTATTTATAATAATA-GTTATTATATTCTTATATTAGCTTATT-TAATA
1 TTAATAATTAT-AATATTAATAATAATATATTATTATAATATTATA-TAG-TTATTAAAAAA
27714 TTAATAATTATAATA-TAATAATAATTATATTATT-TAAT
1 TTAATAATTATAATATTAATAATAA-TATATTATTATAAT
27752 TAATTAATTT
Statistics
Matches: 80, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
58 8 0.10
59 20 0.25
60 35 0.44
61 5 0.06
62 11 0.14
63 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (59 bp):
TTAATAATTATAATATTAATAATAATATATTATTATAATATTATATAGTTATTAAAAAA
Found at i:27755 original size:17 final size:16
Alignment explanation
Indices: 27714--27757 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
27704 TTATTTAATA
*
27714 TTAATAATTATAATAT
1 TTAATAATTATATTAT
*
27730 AATAATAATTATATTAT
1 -TTAATAATTATATTAT
27747 TTAATTAATTA
1 TTAA-TAATTA
27758 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATAATTATATTAT
Found at i:27952 original size:18 final size:19
Alignment explanation
Indices: 27926--27976 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
27916 TTTGTTACTG
*
27926 TAAATTTATATAAATA-AT
1 TAAAATTATATAAATATAT
*
27944 TAAAATTAT-TAATTATAT
1 TAAAATTATATAAATATAT
*
27962 TAATATTA-ATAAATA
1 TAAAATTATATAAATA
27977 GTATAATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATTATATAAATATAT
Found at i:28232 original size:23 final size:25
Alignment explanation
Indices: 28206--28259 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
28196 AAAATAATAC
*
28206 TAATTTAA-TAATA-TTTTAAAAAT
1 TAATTTAATTAATAGATTTAAAAAT
28229 TAA--TAATTAATAGATTTAAAAAT
1 TAATTTAATTAATAGATTTAAAAAT
28252 TAAATTTA
1 T-AATTTA
28260 TTTACCTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.20
23 13 0.52
24 2 0.08
26 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TAATTTAATTAATAGATTTAAAAAT
Found at i:31792 original size:15 final size:15
Alignment explanation
Indices: 31773--31817 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
31763 TTTTATTCAA
*
31773 TTTTTATCTTTTTTAT
1 TTTTTAT-TTTTTTAC
*
31789 TTTTTATTTTCTTAC
1 TTTTTATTTTTTTAC
*
31804 TTTTTATATTTTTA
1 TTTTTATTTTTTTA
31818 TTGTATTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTATTTTTTTAC
Found at i:31817 original size:8 final size:7
Alignment explanation
Indices: 31781--31819 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
31771 AATTTTTATC
31781 TTTTTTA
1 TTTTTTA
31788 TTTTTTA
1 TTTTTTA
31795 TTTTCTTA
1 TTTT-TTA
*
31803 CTTTTTA
1 TTTTTTA
31810 TATTTTTA
1 T-TTTTTA
31818 TT
1 TT
31820 GTATTTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:31853 original size:51 final size:50
Alignment explanation
Indices: 31754--31853 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 50
31744 TCCTTTTCAT
* *
31754 TTTTTAAATTTTTATTCAATTTTTATCTTTTTTATTTTTTATTTTCTTAC
1 TTTTTAAATTTTTATTCAATTTTTATCTTTTTTATTGTTTATTGTCTTAC
* ** * * *
31804 TTTTTATATTTTTATTGTATTTTGTTTGTTTTTTATTGTTTCTTGTCTTA
1 TTTTTAAATTTTTATTCAATTTT-TATCTTTTTTATTGTTTATTGTCTTA
31854 TTGGTATTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
50 20 0.49
51 21 0.51
ACGTcount: A:0.16, C:0.06, G:0.05, T:0.73
Consensus pattern (50 bp):
TTTTTAAATTTTTATTCAATTTTTATCTTTTTTATTGTTTATTGTCTTAC
Found at i:32419 original size:76 final size:70
Alignment explanation
Indices: 32294--32429 Score: 173
Period size: 73 Copynumber: 1.9 Consensus size: 70
32284 TTTTTTTTTA
* *
32294 TTTTTTTCTTATTACTTTTTTTTGCTTGTATTTTCTAAACTATTTTTTCTACTTTGTCATCCCTT
1 TTTTTTTCTTATTACTTTTATTTGCTTGTATTTTATAAACTATTTTTTCTACTTTGTCATCCCTT
32359 TTCAT
66 TTCAT
* * *
32364 TTTTTATTCTTTATTTCTTATTATTTGTTTGTATTTTATAAACTAAATTTTTTTCTATTTTGTCA
1 TTTTT-TTC-TTATTACTT-TTATTTGCTTGTATTTTATAAACT--A-TTTTTTCTACTTTGTCA
32429 T
60 T
32430 TTTTTCTTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
70 5 0.09
71 3 0.05
72 8 0.15
73 21 0.38
75 1 0.02
76 17 0.31
ACGTcount: A:0.18, C:0.12, G:0.04, T:0.65
Consensus pattern (70 bp):
TTTTTTTCTTATTACTTTTATTTGCTTGTATTTTATAAACTATTTTTTCTACTTTGTCATCCCTT
TTCAT
Found at i:32444 original size:76 final size:69
Alignment explanation
Indices: 32283--32446 Score: 175
Period size: 76 Copynumber: 2.3 Consensus size: 69
32273 TTTATCTTTG
* * *
32283 ATTTTTTTTTATTTTTTTCTTATTACTTTTTTTTGCTTGTATTTTCTAAACTATTTTTTCTACTT
1 ATTTTTTTTCATTTTTTTCTTATTACTTTTATTTGCTTGTATTTTATAAACTATTTTTTCTACTT
32348 TGTC
66 TGTC
*** * *
32352 ATCCCTTTTCATTTTTTATTCTTTATTTCTTATTATTTGTTTGTATTTTATAAACTAAATTTTTT
1 ATTTTTTTTCA-TTTTT-TTC-TTATTACTT-TTATTTGCTTGTATTTTATAAACT--A-TTTTT
*
32417 TCTATTTTGTC
59 TCTACTTTGTC
32428 ATTTTTTCTTCATTTTTTT
1 ATTTTTT-TTCATTTTTTT
32447 GAAATTTTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
69 7 0.09
70 5 0.07
71 3 0.04
72 8 0.11
73 21 0.28
75 3 0.04
76 24 0.32
77 4 0.05
ACGTcount: A:0.16, C:0.12, G:0.04, T:0.68
Consensus pattern (69 bp):
ATTTTTTTTCATTTTTTTCTTATTACTTTTATTTGCTTGTATTTTATAAACTATTTTTTCTACTT
TGTC
Found at i:32467 original size:26 final size:26
Alignment explanation
Indices: 32438--32487 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
32428 ATTTTTTCTT
*
32438 CATTTTTTTGAAATTTTTTGTTTTTG
1 CATTTTTTTGAAATTTTTTCTTTTTG
**
32464 CATTTTTTTTTAATTTTTTCTTTT
1 CATTTTTTTGAAATTTTTTCTTTT
32488 GACTCGTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (26 bp):
CATTTTTTTGAAATTTTTTCTTTTTG
Found at i:32576 original size:25 final size:26
Alignment explanation
Indices: 32520--32580 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
32510 TTACTTTCTT
32520 ATTTTT-TTCTATTTTTCTATTTGAA
1 ATTTTTATTCTATTTTTCTATTTGAA
*
32545 ATTTTTATTC-ATTTTTCT-TTTTATA
1 ATTTTTATTCTATTTTTCTATTTGA-A
*
32570 TTTTTTATTCT
1 ATTTTTATTCT
32581 CTAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 4 0.13
25 24 0.77
26 3 0.10
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (26 bp):
ATTTTTATTCTATTTTTCTATTTGAA
Found at i:32598 original size:18 final size:17
Alignment explanation
Indices: 32569--32613 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
32559 TTCTTTTTAT
*
32569 ATTTTTTA-TTCTC-TA
1 ATTTTTTATTTTTCTTA
32584 ATTTTTTATTTTTCTTA
1 ATTTTTTATTTTTCTTA
*
32601 CTTTTTTATTTTT
1 ATTTTTTATTTTT
32614 GTTTTTGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 8 0.31
16 4 0.15
17 14 0.54
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTTATTTTTCTTA
Found at i:32630 original size:21 final size:21
Alignment explanation
Indices: 32587--32675 Score: 76
Period size: 22 Copynumber: 4.2 Consensus size: 21
32577 TTCTCTAATT
*
32587 TTTTATTTTTCTTACTT-TTTTA
1 TTTTA-TTTT-TTGCTTATTTTA
32609 TTTT-TGTTTTTGCTTATTTTA
1 TTTTAT-TTTTTGCTTATTTTA
***
32630 TTGTTATTTTTTTAGTATTTTA
1 TT-TTATTTTTTGCTTATTTTA
*
32652 TTTTATTTTCT-CTTATTTTA
1 TTTTATTTTTTGCTTATTTTA
32672 TTTT
1 TTTT
32676 TTCTTTTATT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
20 17 0.30
21 18 0.32
22 20 0.36
23 1 0.02
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTATTTTTTGCTTATTTTA
Found at i:32667 original size:15 final size:15
Alignment explanation
Indices: 32649--32680 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32639 TTTTAGTATT
32649 TTATTTTATTTTCTC
1 TTATTTTATTTTCTC
*
32664 TTATTTTATTTTTTC
1 TTATTTTATTTTCTC
32679 TT
1 TT
32681 TTATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTTATTTTCTC
Found at i:32671 original size:42 final size:44
Alignment explanation
Indices: 32589--32673 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
32579 CTCTAATTTT
* *
32589 TTATTTTTCTTACTTTTTTATTTTTGTTTTTGCTTATTTTATTG
1 TTATTTTTCTTACTATTTTATTTTTGTTTCTGCTTATTTTATTG
*
32633 TTATTTTT-TTAGTATTTTATTTTAT-TTTCT-CTTATTTTATT
1 TTATTTTTCTTACTATTTTATTTT-TGTTTCTGCTTATTTTATT
32674 TTTTCTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 11 0.30
43 17 0.46
44 9 0.24
ACGTcount: A:0.14, C:0.06, G:0.05, T:0.75
Consensus pattern (44 bp):
TTATTTTTCTTACTATTTTATTTTTGTTTCTGCTTATTTTATTG
Found at i:32677 original size:27 final size:26
Alignment explanation
Indices: 32622--32687 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
32612 TTGTTTTTGC
32622 TTATTTTATTGTTATTTTTTTAGTATT
1 TTATTTTATT-TTATTTTTTTAGTATT
* *
32649 TTATTTTATTTTCTCTTATTTTA-TTTT
1 TTATTTTATTTTAT-TT-TTTTAGTATT
*
32676 TTCTTTTATTTT
1 TTATTTTATTTT
32688 TTATTCATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.09
27 26 0.76
28 5 0.15
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (26 bp):
TTATTTTATTTTATTTTTTTAGTATT
Found at i:32687 original size:5 final size:5
Alignment explanation
Indices: 32622--32675 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
32612 TTGTTTTTGC
* *
32622 TTATT TTATT GTTATT TT-TT TAGTATT TTATT TTATT TTCTC TTATT
1 TTATT TTATT -TTATT TTATT T--TATT TTATT TTATT TTATT TTATT
32669 TTATT TT
1 TTATT TT
32676 TTCTTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 3 0.07
5 29 0.71
6 6 0.15
7 3 0.07
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:32790 original size:20 final size:20
Alignment explanation
Indices: 32723--32792 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
32713 TAAACTTCAA
*
32723 AATTTTTTATTTTTATTTTGT
1 AATTTTTTA-TTTTATTTTAT
*
32744 GAATCTTTTTATTTTATTTTCT
1 -AAT-TTTTTATTTTATTTTAT
* *
32766 TATTTTTTGTTTTATTTTAT
1 AATTTTTTATTTTATTTTAT
32786 AATTTTT
1 AATTTTT
32793 CAATAACTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 21 0.50
21 2 0.05
22 13 0.31
23 6 0.14
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.74
Consensus pattern (20 bp):
AATTTTTTATTTTATTTTAT
Found at i:32875 original size:19 final size:19
Alignment explanation
Indices: 32853--32900 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
32843 TATGCTTTCA
*
32853 TTTTTTATTTTGTTTCAAT
1 TTTTTTATTTTGTTTAAAT
* *
32872 TTTTTCATTTTTTTTAAAT
1 TTTTTTATTTTGTTTAAAT
32891 TTTTTATATT
1 TTTTT-TATT
32901 CTTTTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 21 0.88
20 3 0.12
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTTATTTTGTTTAAAT
Found at i:32893 original size:18 final size:19
Alignment explanation
Indices: 32852--32894 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
32842 ATATGCTTTC
*
32852 ATTTTTTATTTTGTTTCAA
1 ATTTTTCATTTTGTTTCAA
* *
32871 TTTTTTCATTTT-TTTTAA
1 ATTTTTCATTTTGTTTCAA
32889 ATTTTT
1 ATTTTT
32895 TATATTCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (19 bp):
ATTTTTCATTTTGTTTCAA
Found at i:33231 original size:16 final size:17
Alignment explanation
Indices: 33207--33245 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
33197 TTTTTGTCTT
33207 TTTTGTTTTTA-TTCATA
1 TTTT-TTTTTATTTCATA
*
33224 TTTTTTTTTATTTCTTA
1 TTTTTTTTTATTTCATA
33241 TTTTT
1 TTTTT
33246 ATATTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTTTTTATTTCATA
Found at i:33272 original size:20 final size:20
Alignment explanation
Indices: 33214--33272 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
33204 CTTTTTTGTT
*
33214 TTTATTCATATTT-TTTTTTA
1 TTTATT-ATTTTTATTTTTTA
* *
33234 TTTCTTATTTTTATATTTTA
1 TTTATTATTTTTATTTTTTA
*
33254 TTGTATT-TTTTTGTTTTTT
1 TT-TATTATTTTTATTTTTT
33273 TATATTGTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTATTATTTTTATTTTTTA
Found at i:33495 original size:15 final size:15
Alignment explanation
Indices: 33461--33506 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
33451 TTTCATTAAA
*
33461 CTTTATTTCTTTTTA
1 CTTTATTTCTTTTTT
*
33476 ATTTATTTCTTTTTT
1 CTTTATTTCTTTTTT
* *
33491 CTTTACTTATTTTTT
1 CTTTATTTCTTTTTT
33506 C
1 C
33507 ATGTGCTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (15 bp):
CTTTATTTCTTTTTT
Found at i:33899 original size:22 final size:21
Alignment explanation
Indices: 33871--33918 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
33861 TACAAACTAA
* *
33871 TTTTTTTTT-TTCTTTATTTG
1 TTTTTTTTTATTTTTTTTTTG
33891 TTTTTTTTTCATTTTTTTTTTG
1 TTTTTTTTT-ATTTTTTTTTTG
33913 TTTTTT
1 TTTTTT
33919 GCATTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.04, C:0.04, G:0.04, T:0.88
Consensus pattern (21 bp):
TTTTTTTTTATTTTTTTTTTG
Found at i:33908 original size:30 final size:28
Alignment explanation
Indices: 33872--33940 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
33862 ACAAACTAAT
**
33872 TTTTTTTTTTCTTTATTTGTTTTTTTTTCA
1 TTTTTTTTTTCTTT-TTTGCATTTTTTT-A
*
33902 TTTTTTTTTTGTTTTTTGCATTTTTTTA
1 TTTTTTTTTTCTTTTTTGCATTTTTTTA
33930 TTTTTTCTTTT
1 TTTTTT-TTTT
33941 GACTCGTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 7 0.20
29 15 0.43
30 13 0.37
ACGTcount: A:0.06, C:0.06, G:0.04, T:0.84
Consensus pattern (28 bp):
TTTTTTTTTTCTTTTTTGCATTTTTTTA
Found at i:33916 original size:19 final size:18
Alignment explanation
Indices: 33871--33935 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 18
33861 TACAAACTAA
33871 TTTTTTTTTTTC-TTTATT
1 TTTTTTTTTTTCATTT-TT
*
33889 TGTTTTTTTTTCATTTTT
1 TTTTTTTTTTTCATTTTT
33907 TTTTTGTTTTTTGCATTTTT
1 TTTTT-TTTTTT-CATTTTT
33927 TTATTTTTT
1 TT-TTTTTT
33936 CTTTTGACTC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 17 0.41
19 9 0.22
20 12 0.29
21 3 0.07
ACGTcount: A:0.06, C:0.05, G:0.05, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTTTCATTTTT
Found at i:33940 original size:22 final size:21
Alignment explanation
Indices: 33870--33941 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 21
33860 TTACAAACTA
* *
33870 ATTTTTTTTTTTC-TTTATTT
1 ATTTTTTTTTTGCATTTTTTT
*
33890 -GTTTTTTTTT-CATTTTTTT
1 ATTTTTTTTTTGCATTTTTTT
*
33909 -TTTGTTTTTTGCATTTTTTT
1 ATTTTTTTTTTGCATTTTTTT
33929 ATTTTTTCTTTTG
1 ATTTTTT-TTTTG
33942 ACTCGTTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.02
19 23 0.53
20 9 0.21
21 5 0.12
22 5 0.12
ACGTcount: A:0.07, C:0.06, G:0.06, T:0.82
Consensus pattern (21 bp):
ATTTTTTTTTTGCATTTTTTT
Found at i:34485 original size:139 final size:142
Alignment explanation
Indices: 34276--34532 Score: 371
Period size: 139 Copynumber: 1.8 Consensus size: 142
34266 ATAATTTGAA
* **
34276 TTATTTTATTTACTATTTTGGATTGTATAATATTTATCTTTTTAATTTAATACAATTTGTTAAAG
1 TTATTTTATTTACTATTTTGAATCATATAATATTTATCTTTTTAATTTAATACAATTTGTTAAAG
34341 ATAATAATTATCTTTG-TAATTTCTTTTGGAAATTTATTGCCCTTATATATAATTTGAATTATTT
66 ATAATAATTATCTTTGTTAATTTCTTTTGGAAATTTATTGCCCTTATA-ATAATTTGAATTATTT
34405 ATTTATTACGTTG
130 ATTTATTACGTTG
* **
34418 TTATTTTATTTATTA-TTTGAATCATATAATATTTATC-TTTT-ATTT-ATACAATTTTGTTAGT
1 TTATTTTATTTACTATTTTGAATCATATAATATTTATCTTTTTAATTTAATACAA-TTTGTTAAA
* * * *
34479 GATAATAATTATCTTTGTTATTTTCTTTTGGAATTTTATTGGCTTTATAATAAT
65 GATAATAATTATCTTTGTTAATTTCTTTTGGAAATTTATTGCCCTTATAATAAT
34533 AACACTAGTT
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
138 6 0.06
139 33 0.32
140 31 0.30
141 19 0.18
142 14 0.14
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.56
Consensus pattern (142 bp):
TTATTTTATTTACTATTTTGAATCATATAATATTTATCTTTTTAATTTAATACAATTTGTTAAAG
ATAATAATTATCTTTGTTAATTTCTTTTGGAAATTTATTGCCCTTATAATAATTTGAATTATTTA
TTTATTACGTTG
Found at i:34759 original size:24 final size:23
Alignment explanation
Indices: 34731--34782 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
34721 TATTTACTTT
34731 CTTTTT-CTTTTCCTTTTTTTTA
1 CTTTTTGCTTTTCCTTTTTTTTA
* **
34753 GCTTTTTGGTTTTTTTTTTTTTTA
1 -CTTTTTGCTTTTCCTTTTTTTTA
34777 CTTTTT
1 CTTTTT
34783 AATGCATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.04, C:0.12, G:0.06, T:0.79
Consensus pattern (23 bp):
CTTTTTGCTTTTCCTTTTTTTTA
Found at i:34851 original size:18 final size:20
Alignment explanation
Indices: 34830--34869 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
34820 TTATTTAGTA
34830 TATTTTC-TT-TTTTTTTTT
1 TATTTTCATTCTTTTTTTTT
34848 TATTTTCATTCCTTTTTTTTT
1 TATTTTCATT-CTTTTTTTTT
34869 T
1 T
34870 CTACAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
21 10 0.53
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.82
Consensus pattern (20 bp):
TATTTTCATTCTTTTTTTTT
Found at i:38270 original size:18 final size:19
Alignment explanation
Indices: 38225--38275 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
38215 CAAATTATAC
*
38225 TATTTAT-TAATATTAATA
1 TATTTATATAATTTTAATA
*
38243 TAATTA-ATAATTTTAAT-
1 TATTTATATAATTTTAATA
*
38260 TATTTATATAAATTTA
1 TATTTATATAATTTTA
38276 CAGTAACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTTATATAATTTTAATA
Found at i:38464 original size:21 final size:20
Alignment explanation
Indices: 38435--38496 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 20
38425 ATTCTAATAA
*
38435 AATAAAATTAATTAATTAAAT
1 AATATAATT-ATTAATTAAAT
*
38456 AATATAATTATTTATT--AT
1 AATATAATTATTAATTAAAT
*
38474 ATTATAATTATTATATTAAAT
1 AATATAATTATTA-ATTAAAT
38495 AA
1 AA
38497 GCTAATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 13 0.39
19 3 0.09
20 6 0.18
21 11 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATAATTATTAATTAAAT
Found at i:38623 original size:25 final size:24
Alignment explanation
Indices: 38589--38649 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
38579 TATATTGTAT
*
38589 TTAATATATAATTATTAAATAAATA
1 TTAATTTATAATTA-TAAATAAATA
*
38614 TTAATTTATAATTATAAATTAATA
1 TTAATTTATAATTATAAATAAATA
*
38638 AT-A-TTATAATTA
1 TTAATTTATAATTA
38650 ATTATTGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.27
23 1 0.03
24 10 0.30
25 13 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAATTTATAATTATAAATAAATA
Found at i:38898 original size:22 final size:21
Alignment explanation
Indices: 38869--38924 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
38859 AATAATTGGA
*
38869 TAAAATTATTATTATTATTTT
1 TAAAATTATAATTATTATTTT
*
38890 TAAAGATTATAATTATTATTAAT
1 TAAA-ATTATAATTATTATT-TT
*
38913 TAATATTATAAT
1 TAAAATTATAAT
38925 ATTTATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.13
22 22 0.73
23 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TAAAATTATAATTATTATTTT
Found at i:38971 original size:14 final size:14
Alignment explanation
Indices: 38938--38990 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
38928 TATTATACTT
38938 TATAA-TAATATAAA
1 TATAATTAAT-TAAA
*
38952 T-TAATTAATTAAC
1 TATAATTAATTAAA
38965 T-TAAATTAATTAAA
1 TAT-AATTAATTAAA
38979 TATAATTAATTA
1 TATAATTAATTA
38991 TTATTCAGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 8 0.24
14 25 0.74
15 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
TATAATTAATTAAA
Found at i:39042 original size:11 final size:12
Alignment explanation
Indices: 39026--39090 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
39016 ATAAATTATA
39026 ATTAATAT-TTT
1 ATTAATATATTT
39037 ATTAATATATTT
1 ATTAATATATTT
* *
39049 AATATTATA-TT
1 ATTAATATATTT
*
39060 A-TAATTATAATAT
1 ATTAA-TAT-ATTT
*
39073 ATTAATATAATT
1 ATTAATATATTT
39085 ATTAAT
1 ATTAAT
39091 TTGAATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
10 2 0.05
11 14 0.33
12 19 0.44
13 5 0.12
14 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTAATATATTT
Found at i:39044 original size:39 final size:37
Alignment explanation
Indices: 39001--39086 Score: 95
Period size: 36 Copynumber: 2.3 Consensus size: 37
38991 TTATTCAGAC
* *
39001 AATATTAATTATATGA-TAAATTATAATTAATATTTTATT
1 AATA-TAATTATAT-ATTAAATTATAATT-ATAATATATT
* *
39040 AATATATTTA-ATATTATATTATAATTATAATATATT
1 AATATAATTATATATTAAATTATAATTATAATATATT
39076 AATATAATTAT
1 AATATAATTAT
39087 TAATTTGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
36 18 0.45
37 13 0.32
38 5 0.12
39 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (37 bp):
AATATAATTATATATTAAATTATAATTATAATATATT
Found at i:39072 original size:19 final size:18
Alignment explanation
Indices: 39020--39072 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
39010 TATATGATAA
*
39020 ATTATAA-TTAATATTTT
1 ATTATAATTTAATATTAT
39037 ATTAATATATTTAATATTAT
1 ATT-ATA-ATTTAATATTAT
39057 ATTATAATTATAATAT
1 ATTATAATT-TAATAT
39073 ATTAATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 3 0.10
18 6 0.19
19 10 0.32
20 12 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTATAATTTAATATTAT
Found at i:39081 original size:13 final size:13
Alignment explanation
Indices: 39039--39108 Score: 58
Period size: 13 Copynumber: 5.4 Consensus size: 13
39029 AATATTTTAT
39039 TAATATATTTAATA
1 TAATATA-TTAATA
*
39053 TTATAT-TATAATTA
1 TAATATAT-TAA-TA
39067 TAATATATTAATA
1 TAATATATTAATA
*
39080 TAAT-TATTAATT
1 TAATATATTAATA
39092 TGAATA-ATTAAT-
1 T-AATATATTAATA
39104 TAATA
1 TAATA
39109 AAAGGTTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
11 4 0.08
12 10 0.21
13 18 0.38
14 15 0.31
15 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (13 bp):
TAATATATTAATA
Found at i:39081 original size:19 final size:19
Alignment explanation
Indices: 39022--39086 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
39012 TATGATAAAT
* *
39022 TATAATTAATATTTTATTAA
1 TATAATT-ATAATATATTAA
*
39042 TAT-ATT-TAATAT-TATAT
1 TATAATTATAATATAT-TAA
39059 TATAATTATAATATATTAA
1 TATAATTATAATATATTAA
39078 TATAATTAT
1 TATAATTAT
39087 TAATTTGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
16 1 0.03
17 9 0.24
18 3 0.08
19 20 0.54
20 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATAATTATAATATATTAA
Found at i:39492 original size:15 final size:15
Alignment explanation
Indices: 39457--39507 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 15
39447 AAATTAATAT
39457 AATATAACTATATATTA
1 AATATAA-TATA-ATTA
39474 AATTATAATATAATT-
1 AA-TATAATATAATTA
*
39489 AAT-TAATATAATTG
1 AATATAATATAATTA
39503 AATAT
1 AATAT
39508 TAAGCTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 10 0.32
14 4 0.13
15 3 0.10
16 3 0.10
17 6 0.19
18 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (15 bp):
AATATAATATAATTA
Found at i:39497 original size:26 final size:25
Alignment explanation
Indices: 39439--39497 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
39429 ATTTACTATT
39439 TTAATATTAAATTAATATAATATAA
1 TTAATATTAAATTAATATAATATAA
*
39464 CTATATATTAAATTATAATATAAT-TAA
1 TTA-ATATTAAA-T-TAATATAATATAA
39491 TTAATAT
1 TTAATAT
39498 AATTGAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 2 0.07
26 12 0.41
27 6 0.21
28 9 0.31
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAATATTAAATTAATATAATATAA
Found at i:39642 original size:19 final size:18
Alignment explanation
Indices: 39615--39667 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
39605 TATTTATTTC
*
39615 AAATCATTAAAATAATAAT
1 AAATAATTAAAATAA-AAT
39634 AAATAATTAAAAT-AAAT
1 AAATAATTAAAATAAAAT
39651 ATAATAATTATAAATAA
1 A-AATAATTA-AAATAA
39668 CTTAAATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 4 0.13
18 9 0.30
19 16 0.53
20 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAATTAAAATAAAAT
Found at i:39646 original size:9 final size:9
Alignment explanation
Indices: 39615--39673 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
39605 TATTTATTTC
*
39615 AAATCATTA
1 AAATAATTA
*
39624 AAATAATAA
1 AAATAATTA
39633 TAAATAATTA
1 -AAATAATTA
*
39643 AAATAAATA
1 AAATAATTA
*
39652 TAATAATTA
1 AAATAATTA
39661 TAAATAACTTA
1 -AAATAA-TTA
39672 AA
1 AA
39674 TATATAATGG
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
9 22 0.55
10 15 0.38
11 3 0.08
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AAATAATTA
Found at i:39724 original size:25 final size:25
Alignment explanation
Indices: 39700--39753 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
39690 ATATTATATA
39700 ATAAATAAATA-AATAATATATTAT
1 ATAAATAAATAGAATAATATATTAT
* * *
39724 ATAATTATATAGTATAATATATTAGT
1 ATAAATAAATAGAATAATATATTA-T
39750 ATAA
1 ATAA
39754 TTTATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.36
25 11 0.44
26 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
ATAAATAAATAGAATAATATATTAT
Found at i:39731 original size:35 final size:34
Alignment explanation
Indices: 39629--39734 Score: 103
Period size: 35 Copynumber: 3.1 Consensus size: 34
39619 CATTAAAATA
*
39629 ATAATAAATAATTAAAATAA-ATA-TAATAATTAT
1 ATAATAAATAAAT-AAATAATATATTAATAATTAT
* * *
39662 A-AATAACTTAAATATATAATGGTTATTAAT-ATTAT
1 ATAATAA-ATAAATAAATAAT--ATATTAATAATTAT
39697 ATAATAAATAAATAAATAATATATTATATAATTAT
1 ATAATAAATAAATAAATAATATATTA-ATAATTAT
39732 ATA
1 ATA
39735 GTATAATATA
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
32 10 0.17
33 10 0.17
34 2 0.03
35 27 0.47
36 9 0.16
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.40
Consensus pattern (34 bp):
ATAATAAATAAATAAATAATATATTAATAATTAT
Found at i:39739 original size:13 final size:13
Alignment explanation
Indices: 39723--39759 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
39713 TAATATATTA
39723 TATAATTATATAG
1 TATAATTATATAG
39736 TATAA-TATATTAG
1 TATAATTATA-TAG
39749 TATAATT-TATA
1 TATAATTATATA
39760 AATATGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.27
13 15 0.68
14 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (13 bp):
TATAATTATATAG
Found at i:39744 original size:20 final size:20
Alignment explanation
Indices: 39695--39745 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
39685 TATTAATATT
*
39695 ATATAATAAATAAATAAATA
1 ATATAATATATAAATAAATA
* * *
39715 ATATATTATATAATTATATA
1 ATATAATATATAAATAAATA
*
39735 GTATAATATAT
1 ATATAATATAT
39746 TAGTATAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATATAATATATAAATAAATA
Found at i:39759 original size:25 final size:25
Alignment explanation
Indices: 39712--39759 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
39702 AAATAAATAA
39712 ATAATATATTATATAATTATATAGT
1 ATAATATATTATATAATTATATAGT
39737 ATAATATATTAGTATAATT-TATA
1 ATAATATATTA-TATAATTATATA
39760 AATATGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (25 bp):
ATAATATATTATATAATTATATAGT
Found at i:39863 original size:23 final size:25
Alignment explanation
Indices: 39837--39907 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 25
39827 GTATTTTAAC
*
39837 TATATTAATAT-TAATT-ATAGTAT
1 TATATTAATATATAATTAATAATAT
39860 TATATTTAAATTATATAATTAATAATAT
1 TATA-TT-AA-TATATAATTAATAATAT
*
39888 TAT-TTAATATATTATTAATA
1 TATATTAATATATAATTAATA
39908 TAGAAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
23 4 0.10
24 14 0.34
25 4 0.10
26 5 0.12
27 5 0.12
28 9 0.22
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (25 bp):
TATATTAATATATAATTAATAATAT
Found at i:39899 original size:12 final size:11
Alignment explanation
Indices: 39871--39909 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
39861 ATATTTAAAT
*
39871 TATATAATTAA
1 TATATTATTAA
39882 TAATATTATTTAA
1 T-ATATTA-TTAA
39895 TATATTATTAA
1 TATATTATTAA
39906 TATA
1 TATA
39910 GAAATAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 9 0.36
12 11 0.44
13 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATATTATTAA
Found at i:40521 original size:20 final size:20
Alignment explanation
Indices: 40469--40535 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
40459 ATATTAATTA
*
40469 ATTATAAAA-TATTATAAAT
1 ATTATAAAATTATAATAAAT
* * * *
40488 CTTCTAATATTATAATTAAT
1 ATTATAAAATTATAATAAAT
*
40508 ATTATAAAATTATAA-AATT
1 ATTATAAAATTATAATAAAT
40527 ATTTATAAA
1 A-TTATAAA
40536 TTTAAAGTAA
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
19 9 0.25
20 27 0.75
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTATAAAATTATAATAAAT
Found at i:40923 original size:23 final size:24
Alignment explanation
Indices: 40893--40937 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
40883 TTAGTTACAC
40893 TAATTAT-AATAATTAT-TATTAAA
1 TAATTATAAAT-ATTATATATTAAA
40916 TAATTATAAATATTATATATTA
1 TAATTATAAATATTATATATTA
40938 TACTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TAATTATAAATATTATATATTAAA
Found at i:40989 original size:89 final size:86
Alignment explanation
Indices: 40832--41007 Score: 198
Period size: 89 Copynumber: 2.0 Consensus size: 86
40822 TTGTATATTA
*
40832 ATAAATATAATATATTAGATTATATATTATAATTAAATAATATAATTTCAATTAGTTACACTAAT
1 ATAAATATAATATATTAGATTATATATTAGAATTAAATAATATAATTTCAATTAGTTA-ACTAAT
*
40897 TATAATAATTATTATTAAATAATT
65 TAT-ATAA-TATTAATAAATAATT
* * *
40921 ATAAATATTATATATTATACTTATAT-TTAGAATATAAATTAATA-AATTATATAATTAGTT-A-
1 ATAAATATAATATATTAGA-TTATATATTAGAAT-TAAA-TAATATAATT-T-CAATTAGTTAAC
*
40982 TAATTATATAATATTAATAATTAATT
61 TAATTATATAATATTAATAAATAATT
41008 TATTGTTCAT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
87 13 0.17
88 4 0.05
89 30 0.39
90 15 0.20
91 6 0.08
92 8 0.11
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (86 bp):
ATAAATATAATATATTAGATTATATATTAGAATTAAATAATATAATTTCAATTAGTTAACTAATT
ATATAATATTAATAAATAATT
Found at i:41182 original size:27 final size:26
Alignment explanation
Indices: 41152--41208 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
41142 TATAATTTAA
41152 TATAAAATAATAT-TAATTTATTATATT
1 TATAAAATAATATATAA-TTATTA-ATT
* *
41179 TAT-AAATTATCTATAATTATTAATT
1 TATAAAATAATATATAATTATTAATT
41204 TATAA
1 TATAA
41209 TCTTATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 6 0.23
26 14 0.54
27 6 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
TATAAAATAATATATAATTATTAATT
Found at i:41717 original size:14 final size:15
Alignment explanation
Indices: 41687--41815 Score: 57
Period size: 14 Copynumber: 9.1 Consensus size: 15
41677 ATTAAGTAAT
*
41687 ATAATATATTATCTA
1 ATAATATATTATATA
41702 ATAATAT-TTATATA
1 ATAATATATTATATA
*
41716 AT-ATAATATTATTTA
1 ATAAT-ATATTATATA
41731 ATTAATGAATATT-TA-A
1 A-TAAT--ATATTATATA
* *
41747 ATACTA-A-CAT-TA
1 ATAATATATTATATA
* *
41759 ATTATAT-TTATATT
1 ATAATATATTATATA
41773 A-AATATATTATA-A
1 ATAATATATTATATA
* *
41786 TTAAT-TATAATATA
1 ATAATATATTATATA
*
41800 ATTATAT-TTATATA
1 ATAATATATTATATA
41814 AT
1 AT
41816 GTAATAATAT
Statistics
Matches: 84, Mismatches: 16, Indels: 29
0.65 0.12 0.22
Matches are distributed among these distances:
12 7 0.08
13 15 0.18
14 32 0.38
15 18 0.21
16 3 0.04
17 3 0.04
18 6 0.07
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (15 bp):
ATAATATATTATATA
Found at i:41779 original size:15 final size:15
Alignment explanation
Indices: 41755--41845 Score: 68
Period size: 15 Copynumber: 6.2 Consensus size: 15
41745 AAATACTAAC
41755 ATTAATTATATT-TA
1 ATTAATTATATTATA
*
41769 TATTAAATATATTATA
1 -ATTAATTATATTATA
*
41785 ATTAATTATAATATA
1 ATTAATTATATTATA
41800 ATTATATT-TA-TATA
1 ATTA-ATTATATTATA
*
41814 ATGTAATAATA-TA-A
1 AT-TAATTATATTATA
*
41828 ATT-ATAATATTAATA
1 ATTAATTATATT-ATA
41843 ATT
1 ATT
41846 TGATATATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
12 6 0.09
13 2 0.03
14 12 0.18
15 40 0.62
16 5 0.08
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
ATTAATTATATTATA
Found at i:42387 original size:12 final size:12
Alignment explanation
Indices: 42370--42394 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42360 TAAAATAGTA
42370 ATAATATATATT
1 ATAATATATATT
42382 ATAATATATATT
1 ATAATATATATT
42394 A
1 A
42395 AATGTTGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAATATATATT
Found at i:43204 original size:50 final size:49
Alignment explanation
Indices: 43127--43224 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 49
43117 CAACAGGTTG
**
43127 GATTAGGGCATCCTCTAAGTCGATTTAGGTAGTATGGATTTGGATGGTAA
1 GATTAGGGCATCCTAAAAGTCGATTTAGGTAGTAT-GATTTGGATGGTAA
*
43177 GATTAGGGCATCCTAAAAGTCGGTTTAGGTAGTATGATTTGGATGGTA
1 GATTAGGGCATCCTAAAAGTCGATTTAGGTAGTATGATTTGGATGGTA
43225 TTCTGATAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 13 0.29
50 32 0.71
ACGTcount: A:0.27, C:0.09, G:0.31, T:0.34
Consensus pattern (49 bp):
GATTAGGGCATCCTAAAAGTCGATTTAGGTAGTATGATTTGGATGGTAA
Found at i:43497 original size:13 final size:13
Alignment explanation
Indices: 43481--43514 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
43471 TTTTAAAATC
43481 AATTTTAAATTTA
1 AATTTTAAATTTA
*
43494 AATTTAAAATTTA
1 AATTTTAAATTTA
*
43507 AAATTTAA
1 AATTTTAA
43515 CTTAATAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTTAAATTTA
Found at i:43503 original size:7 final size:7
Alignment explanation
Indices: 43481--43514 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
43471 TTTTAAAATC
*
43481 AATTTTA
1 AATTTAA
43488 AATTT-A
1 AATTTAA
43494 AATTTAA
1 AATTTAA
43501 AATTTAA
1 AATTTAA
43508 AATTTAA
1 AATTTAA
43515 CTTAATAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
AATTTAA
Found at i:44163 original size:12 final size:11
Alignment explanation
Indices: 44148--44198 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
44138 TTTGATTTTA
44148 TAATAAAATAAT
1 TAATAAAA-AAT
44160 TAATAAAAATAT
1 TAATAAAAA-AT
*
44172 TTATAAGTAAAAT
1 TAATAA--AAAAT
44185 TAATAAAAAAT
1 TAATAAAAAAT
44196 TAA
1 TAA
44199 AATTACATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 7 0.21
14 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
TAATAAAAAAT
Found at i:47871 original size:163 final size:159
Alignment explanation
Indices: 47590--47894 Score: 477
Period size: 163 Copynumber: 1.9 Consensus size: 159
47580 AATAAAACAT
47590 AAGTAATATAATCAGAACCAGTCTGATTTGATCCTTTAGTTCTCATTATACTGTAACAAGCAACC
1 AAGTAATATAATCAGAACCAGTCTGATTTGATCCTTTAGTTCTCATTATACTGTAACAAGCAACC
* * * *
47655 ACCTTGAATTGATAGTTTCTGGTCTATCGCCACAGATCCTTTTTATCTCTCATTCTACTAGTTCC
66 ACCTTGAATTGATACTTTCTGGTCTACCGCCACAGAACCTTTTCATCTCTCATTCTACTAGTTCC
47720 TTAATGGTTGAAAGTGTTTATAGAATGAC
131 TTAATGGTTGAAAGTGTTTATAGAATGAC
* * *
47749 AAGTAATATAATCAGAAGCAACCAGTCTGATTTGATCCTTTCA-TTCTCATTATCCTGTAAGAAT
1 AAGTAATATAATC---AG-AACCAGTCTGATTTGATCCTTT-AGTTCTCATTATACTGTAACAAG
* *
47813 CAACCACCTTGAATTGATACTTTCTGGTCTACCGCCACAGAACCTTTTCCTGTCTCATTCTACTA
61 CAACCACCTTGAATTGATACTTTCTGGTCTACCGCCACAGAACCTTTTCATCTCTCATTCTACTA
47878 GTTCCTTAATGGTTGAA
126 GTTCCTTAATGGTTGAA
47895 GGTTTTAACA
Statistics
Matches: 132, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
159 13 0.10
162 2 0.02
163 116 0.88
164 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (159 bp):
AAGTAATATAATCAGAACCAGTCTGATTTGATCCTTTAGTTCTCATTATACTGTAACAAGCAACC
ACCTTGAATTGATACTTTCTGGTCTACCGCCACAGAACCTTTTCATCTCTCATTCTACTAGTTCC
TTAATGGTTGAAAGTGTTTATAGAATGAC
Found at i:50010 original size:22 final size:22
Alignment explanation
Indices: 49982--50025 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
49972 CTAAATCTTC
*
49982 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
50004 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
50026 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:53742 original size:23 final size:25
Alignment explanation
Indices: 53684--53745 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
53674 TTGAAAGGGT
* *
53684 TCAGCAATGAAGGCCTAAACAGGAT
1 TCAGCAATGAAGGCCTAAACAGAAG
*
53709 TCGGCAATGAAGGCCTAAA-A-AAG
1 TCAGCAATGAAGGCCTAAACAGAAG
53732 TCAGCAATGAAGGC
1 TCAGCAATGAAGGC
53746 TGAAAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 14 0.42
24 1 0.03
25 18 0.55
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (25 bp):
TCAGCAATGAAGGCCTAAACAGAAG
Found at i:53920 original size:22 final size:22
Alignment explanation
Indices: 53892--53935 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
53882 CTAAATCTTC
*
53892 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
53914 CTTAATTCTAGATATACAAATA
1 CTTAATTCTAGAGATACAAATA
53936 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:53956 original size:8 final size:8
Alignment explanation
Indices: 53945--53969 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
53935 ATAAATATAC
53945 AGATTACA
1 AGATTACA
53953 AGATTACA
1 AGATTACA
53961 AGATTACA
1 AGATTACA
53969 A
1 A
53970 CCAGCTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (8 bp):
AGATTACA
Found at i:61459 original size:104 final size:100
Alignment explanation
Indices: 61320--61523 Score: 304
Period size: 104 Copynumber: 2.0 Consensus size: 100
61310 TGTGTTTGGT
* * *
61320 CAACTAGAACTGATATTAATTGTCAGCTGGTGGTTTGCGAGGAAGCCCCTTCTCTTG-TTTTCTC
1 CAACCAGAACTAATATTAATTGTCAGCTAGTGGTTTGCGAGGAAG-CCCTTCTCTTGTTTTTC-C
61384 TCTCTTTTTTCACTTGCTGCCTGTGGATATGTTCTTGAAG
64 TCT-TTTTTTCACTTGCTGCCTG-GGATATG-TCTTGAAG
*
61424 CAACCAGAACTAATATTTAATTGT-AGCTAGTGGTTTGTGAGGAAGCCCTTCTCTTGTTTTTCCT
1 CAACCAGAACTAATA-TTAATTGTCAGCTAGTGGTTTGCGAGGAAGCCCTTCTCTTGTTTTTCCT
61488 CTTTTTTTCACTTGCTGCCTGGGATATGTCTTGAAG
65 CTTTTTTTCACTTGCTGCCTGGGATATGTCTTGAAG
61524 TAAAAACTAT
Statistics
Matches: 94, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
100 8 0.09
101 7 0.07
102 19 0.20
103 15 0.16
104 37 0.39
105 8 0.09
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.41
Consensus pattern (100 bp):
CAACCAGAACTAATATTAATTGTCAGCTAGTGGTTTGCGAGGAAGCCCTTCTCTTGTTTTTCCTC
TTTTTTTCACTTGCTGCCTGGGATATGTCTTGAAG
Found at i:63228 original size:2 final size:2
Alignment explanation
Indices: 63221--63248 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
63211 TAGGGTTGAA
63221 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63249 TCTTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.