Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168011.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_266, 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: 41047
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Found at i:399 original size:46 final size:47
Alignment explanation
Indices: 338--471 Score: 161
Period size: 46 Copynumber: 3.0 Consensus size: 47
328 TTAAATATAA
* *
338 TTAATAAATCTTCAAATGAAAATCTTTGAGTCAT-AAATGAGAATCT
1 TTAAGAAATCTTCAAATGAGAATCTTTGAGTCATCAAATGAGAATCT
* * * *
384 TTAAGAAATCCTCAAATGAGAATTTTTGAGTCCTCAAATGAAAATCT
1 TTAAGAAATCTTCAAATGAGAATCTTTGAGTCATCAAATGAGAATCT
* *
431 TT--G-AATCTTCAAATGAGAATCTTTAAGT-TTCAAATGAGAAT
1 TTAAGAAATCTTCAAATGAGAATCTTTGAGTCATCAAATGAGAAT
472 TTTTGAGATG
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
43 11 0.14
44 22 0.29
45 1 0.01
46 29 0.38
47 13 0.17
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (47 bp):
TTAAGAAATCTTCAAATGAGAATCTTTGAGTCATCAAATGAGAATCT
Found at i:420 original size:22 final size:22
Alignment explanation
Indices: 349--478 Score: 129
Period size: 22 Copynumber: 5.9 Consensus size: 22
339 TAATAAATCT
* *
349 TCAAATGAAAATCTTTGAGTCA
1 TCAAATGAGAATCTTTGAGTCC
*
371 T-AAATGAGAATCTTTAAGAAATCC
1 TCAAATGAGAATCTTT--G-AGTCC
*
395 TCAAATGAGAATTTTTGAGTCC
1 TCAAATGAGAATCTTTGAGTCC
* * *
417 TCAAATGAAAATCTTTGAATCT
1 TCAAATGAGAATCTTTGAGTCC
* *
439 TCAAATGAGAATCTTTAAGT-T
1 TCAAATGAGAATCTTTGAGTCC
*
460 TCAAATGAGAATTTTTGAG
1 TCAAATGAGAATCTTTGAG
479 ATGTGAAATC
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
21 31 0.34
22 40 0.44
23 2 0.02
24 4 0.04
25 13 0.14
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.35
Consensus pattern (22 bp):
TCAAATGAGAATCTTTGAGTCC
Found at i:589 original size:44 final size:44
Alignment explanation
Indices: 499--660 Score: 156
Period size: 44 Copynumber: 3.7 Consensus size: 44
489 ATGAAATTTA
* * *
499 TTGGATGTGAATCTTC-AAACT-GAATG-AGAAGCTTTGAACTT
1 TTGGATGTGAATCTCCAAAATTCGAATGAAAAAGCTTTGAACTT
*
540 TTGGATGTGAATCTCCAAAATTCGAATGAAAAAGC-TTAAACTTT
1 TTGGATGTGAATCTCCAAAATTCGAATGAAAAAGCTTTGAAC-TT
*
584 TTGGATGTGAA-CCCCAAAATTTAACTTGAATGAAGAAAGCTTTGAACTT
1 TTGGATGTGAATCTCCAAAA-TT--C--GAATGAA-AAAGCTTTGAACTT
* *
633 TT-GATATGAATCTCCAAAATTCAAATGA
1 TTGGATGTGAATCTCCAAAATTCGAATGA
661 GAATCTTTAA
Statistics
Matches: 100, Mismatches: 9, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
41 15 0.15
42 4 0.04
43 17 0.17
44 25 0.25
46 2 0.02
48 16 0.16
49 16 0.16
50 5 0.05
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (44 bp):
TTGGATGTGAATCTCCAAAATTCGAATGAAAAAGCTTTGAACTT
Found at i:2929 original size:20 final size:20
Alignment explanation
Indices: 2870--2942 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
2860 TTTTAAAACA
*
2870 ATTAATAATTAAA-AATATT
1 ATTAATAATTAAATATTATT
*
2889 TTTAATTAAATTAGTAATATTAATT
1 ATTAA-T-AATTA--AATATT-ATT
2914 A-TAATAATTAAATATTATT
1 ATTAATAATTAAATATTATT
2933 ATTAATAATT
1 ATTAATAATT
2943 TTAAATAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
19 8 0.18
20 15 0.34
21 5 0.11
22 5 0.11
23 3 0.07
24 5 0.11
25 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
ATTAATAATTAAATATTATT
Found at i:2936 original size:22 final size:22
Alignment explanation
Indices: 2872--2955 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 22
2862 TTAAAACAAT
*
2872 TAATAATTAAA-AATATTTTTAA
1 TAAT-ATTAAATAATATTATTAA
*
2894 TTAA-ATT-AGTAATATTAATT-A
1 -TAATATTAAATAATATT-ATTAA
*
2915 TAATAATTAAATATTATTATTAA
1 TAAT-ATTAAATAATATTATTAA
*
2938 TAATTTTAAATAATATTA
1 TAATATTAAATAATATTA
2956 AAATTATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
20 4 0.08
21 10 0.20
22 20 0.41
23 15 0.31
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (22 bp):
TAATATTAAATAATATTATTAA
Found at i:3069 original size:36 final size:34
Alignment explanation
Indices: 3003--3069 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 34
2993 AATAATAAAT
* *
3003 TATAAATTATTACTAATATGATTATTAATATAGA
1 TATAAATTATTAATAATATGATTATAAATATAGA
3037 TATAAATTATATATATAATATTG-TTATAAATAT
1 TATAAATTAT-TA-ATAATA-TGATTATAAATAT
3070 TATAAGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 10 0.36
35 2 0.07
36 14 0.50
37 2 0.07
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (34 bp):
TATAAATTATTAATAATATGATTATAAATATAGA
Found at i:3305 original size:15 final size:14
Alignment explanation
Indices: 3265--3306 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
3255 TAATAATATA
3265 AATATATTATAATT
1 AATATATTATAATT
3279 AATGA-ATATATAATTT
1 AAT-ATAT-TATAA-TT
3295 AATATATTATAA
1 AATATATTATAA
3307 GATTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.21
15 12 0.50
16 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
AATATATTATAATT
Found at i:3415 original size:15 final size:16
Alignment explanation
Indices: 3397--3430 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3387 ATTATAATAC
3397 AATTAAATTAA-TATT
1 AATTAAATTAATTATT
*
3412 AATTATATTAATTATT
1 AATTAAATTAATTATT
3428 AAT
1 AAT
3431 ATTTAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTAAATTAATTATT
Found at i:5272 original size:9 final size:9
Alignment explanation
Indices: 5242--5299 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
5232 TTTAATAACT
5242 ATTACTATTA
1 ATTA-TATTA
5252 A-TATATT-
1 ATTATATTA
5259 A-TATATTA
1 ATTATATTA
*
5267 ATTATATAA
1 ATTATATTA
5276 ATTA-ATTA
1 ATTATATTA
* *
5284 ATAATATTT
1 ATTATATTA
5293 ATTATAT
1 ATTATAT
5300 ACTATCTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
7 7 0.17
8 11 0.28
9 21 0.52
10 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (9 bp):
ATTATATTA
Found at i:5279 original size:13 final size:13
Alignment explanation
Indices: 5248--5300 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
5238 AACTATTACT
*
5248 ATTAATATATTATAT
1 ATTAAT-TA-TATAA
5263 ATTAATTATATAA
1 ATTAATTATATAA
5276 ATTAATTA-ATAA
1 ATTAATTATATAA
*
5288 TATTTATTATATA
1 -ATTAATTATATA
5301 CTATCTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 4 0.12
13 19 0.56
14 5 0.15
15 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTAATTATATAA
Found at i:5578 original size:15 final size:16
Alignment explanation
Indices: 5554--5598 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
5544 AAATATAATG
5554 ATTA-TATTAATTATA
1 ATTATTATTAATTATA
*
5569 A-TATTATTAAATATA
1 ATTATTATTAATTATA
*
5584 ATTATTTTTAATTAT
1 ATTATTATTAATTAT
5599 TTTTAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 12 0.48
16 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATTATTAATTATA
Found at i:5944 original size:25 final size:24
Alignment explanation
Indices: 5916--5977 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
5906 TAATTGTTAT
*
5916 TAATATAATATTAACATTATAATAA
1 TAATATAATATTAACA-TATAAGAA
* *
5941 TAATATACGA-ATTAAGATATACGAA
1 TAATATA--ATATTAACATATAAGAA
5966 TAATATAATATT
1 TAATATAATATT
5978 TATTAGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 1 0.03
24 3 0.10
25 20 0.65
26 6 0.19
27 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (24 bp):
TAATATAATATTAACATATAAGAA
Found at i:6576 original size:21 final size:20
Alignment explanation
Indices: 6544--6589 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
6534 ATTTTATTTG
6544 ATTATTATTTAAAAATAATA
1 ATTATTATTTAAAAATAATA
* *
6564 ATTATTAATTTAATAATACTA
1 ATTATT-ATTTAAAAATAATA
6585 ATTAT
1 ATTAT
6590 GATAGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTATTATTTAAAAATAATA
Found at i:7867 original size:180 final size:180
Alignment explanation
Indices: 7509--8510 Score: 746
Period size: 180 Copynumber: 5.6 Consensus size: 180
7499 ATGATCTTTA
* * ** * * * * *
7509 TTTTTTCATACAACAATTGTTTCCTTTCATACAAGCTTATTCAGATTAAAATGATATTAATTTAA
1 TTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTAT
* * * * * *
7574 TAGTATTTC-AAAAATT--AATAAGAGATTTAAAAAATAAATATG-GTAGCCGAACTAGTTCAAA
66 TAATATTTCGAAAAATTAAAACAAGAGATTTAAAAAATAAATCTGTTTA-CTGAACAAGTTCAAA
* * * *
7635 TAGTTAAGACTA-TCATAATAATTATCTATTTCAAATCATTCT-ATCCTTTTG
130 TAGTTATGACTATTTA-AATAATTATCTATTTCAAATCGTTCTGA-CATTTTG
* * *
7686 TTTAGTCATAAAACAATTATTTCAGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTAT
1 TTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTAT
* *
7751 TAACA-TTCGAAAAATTAAAACAAGAGATTTAAAAAAATAAATCTGTTTACTGAACAATTTCAAA
66 TAATATTTCGAAAAATTAAAACAAGAGATTT-AAAAAATAAATCTGTTTACTGAACAAGTTCAAA
* * ** * *
7815 TAGATATGACTATTTAAATAATTATCTATTTAAAATTATTTTGAGATTTTG
130 TAGTTATGACTATTTAAATAATTATCTATTTCAAATCGTTCTGACATTTTG
* * * * * * *
7866 TTTTGTCATAAAACAATTGTTTTAGTTAATAAAAACTTATCTAAAATAAAATAATACTACTTTAT
1 TTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTAT
* * * * * *
7931 TAATATTTC-AAAAATTATTAAGCAAGAGATTTAAAAACTAAAGCTATTT-TTCAAAGCAA-TTC
66 TAATATTTCGAAAAATTA--AAACAAGAGATTTAAAAAATAAATCTGTTTACT-GAA-CAAGTTC
* * * * * * * *
7993 TAATAGTTATAAGTATTTAAACAAATAT-TAATCTCAAGTCGTTATG--ATCTTTG
127 AAATAGTTATGACTATTTAAATAATTATCT-ATTTCAAATCGTTCTGACAT-TTTG
* ** * * *
8046 TTTTGTCATAAAACAATTATTT-TTTATCATATAAGCTGATTCAG-ATAAAAATAATACTAATTT
1 TTTTGTCATAAAACAATTGTTTCAGT-TCATACAAGCTTATTTAGAAT-AAAATAATACTAATTT
* * * * * *
8109 AATAATATTTTG-AAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGCTGATC-AGTTC
64 ATTAATATTTCGAAAAATTAA-AA-CAAGAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTC
* * * *
8172 AAATAGTTAAGATTA-TTAGAATAATTATTTATTTCAAATCGTTCTGACCTTTTG
127 AAATAGTTATGACTATTTA-AATAATTATCTATTTCAAATCGTTCTGACATTTTG
** * * *
8226 TTTAATCATAAAATAATTGTTTCAGTTCATACAAGCTTATTCA-ATAGAAAATAATACTAATTTA
1 TTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTAGA-ATAAAATAATACTAATTTA
* * * * * **
8290 TTAACT-TTT-GAAAGATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACCAAACAAGTT
65 TTAA-TATTTCGAAAAATTAA-AA-CAAGAGATTT-AAAAAATAAATCTGTTTACTGAACAAGTT
* * * * * *
8353 CAAATAGTTATGACTATTTGAACAATTATCTATCTAAAATTGTTGTGA-ATTTTTG
126 CAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCGTTCTGACA-TTTTG
* * * * * ** * * *
8408 TTTTGTCATAAAATAATTGTTTTAGTTCACAAAAGTTTATCCAAAATAAAATAATACTACTTTTC
1 TTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTA-ATTTA
*
8473 TTAATATTTTG-AAAATT-----AAGAGATTTAAAAAATAAATC
65 TTAATATTTCGAAAAATTAAAACAAGAGATTTAAAAAATAAATC
8511 AATTTAGTAA
Statistics
Matches: 653, Mismatches: 134, Indels: 78
0.75 0.15 0.09
Matches are distributed among these distances:
175 10 0.02
176 10 0.02
177 63 0.10
178 5 0.01
179 53 0.08
180 301 0.46
181 82 0.13
182 110 0.17
183 18 0.03
184 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (180 bp):
TTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTAT
TAATATTTCGAAAAATTAAAACAAGAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAAT
AGTTATGACTATTTAAATAATTATCTATTTCAAATCGTTCTGACATTTTG
Found at i:9787 original size:42 final size:40
Alignment explanation
Indices: 9741--9842 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 40
9731 ATTTGAAATT
9741 ATTAATATTCATAAGAATT-ATTAATAAATCTTATT-ATATATA
1 ATTAATATT-ATAAGAATTAATTAA-AAA--TTATTAATATATA
* *
9783 ATTAATATTAAAACAATTAATTAAAAATTATTAATATATA
1 ATTAATATTATAAGAATTAATTAAAAATTATTAATATATA
9823 A-TAATTATTAATAAGTAATT
1 ATTAA-TATT-ATAAG-AATT
9843 TAAATTATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
39 8 0.16
40 12 0.24
41 13 0.25
42 18 0.35
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (40 bp):
ATTAATATTATAAGAATTAATTAAAAATTATTAATATATA
Found at i:11303 original size:22 final size:20
Alignment explanation
Indices: 11272--11321 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
11262 TACTAATATG
11272 ATTATTAATATAGATATAAATT
1 ATTA-TAATATAGATATAAA-T
* *
11294 ATATATAATATTGTTATAAAT
1 AT-TATAATATAGATATAAAT
11315 ATTATAA
1 ATTATAA
11322 GCTTTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 5 0.20
21 3 0.12
22 15 0.60
23 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATTATAATATAGATATAAAT
Found at i:11316 original size:34 final size:34
Alignment explanation
Indices: 11252--11316 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
11242 AATAATAAAT
*
11252 TATAAATTATTACTAATATGATTATTAATATAGA
1 TATAAATTATTACTAATATGATTATAAATATAGA
11286 TATAAATTATATA-TAATATTG-TTATAAATAT
1 TATAAATTAT-TACTAATA-TGATTATAAATAT
11317 TATAAGCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 24 0.86
35 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (34 bp):
TATAAATTATTACTAATATGATTATAAATATAGA
Found at i:11552 original size:15 final size:14
Alignment explanation
Indices: 11512--11553 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
11502 TAATAATATA
11512 AATATATTATAATT
1 AATATATTATAATT
11526 AATGA-ATATATAATTT
1 AAT-ATAT-TATAA-TT
11542 AATATATTATAA
1 AATATATTATAA
11554 GATTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.21
15 12 0.50
16 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
AATATATTATAATT
Found at i:11662 original size:15 final size:16
Alignment explanation
Indices: 11644--11677 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11634 ATTATAATAC
11644 AATTAAATTAA-TATT
1 AATTAAATTAATTATT
*
11659 AATTATATTAATTATT
1 AATTAAATTAATTATT
11675 AAT
1 AAT
11678 ATTTAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTAAATTAATTATT
Found at i:11715 original size:15 final size:15
Alignment explanation
Indices: 11695--11766 Score: 62
Period size: 15 Copynumber: 5.0 Consensus size: 15
11685 ATTCAATACA
*
11695 TTTAATTTAATTAAT
1 TTTAATTAAATTAAT
11710 TTTAATTAAATTAAT
1 TTTAATTAAATTAAT
* *
11725 TCT-ATT-CATT-AT
1 TTTAATTAAATTAAT
*
11737 CTTTAATT-AATAAAT
1 -TTTAATTAAATTAAT
*
11752 ATTAATTAAATTAAT
1 TTTAATTAAATTAAT
11767 GTAACTATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
12 2 0.04
13 5 0.11
14 14 0.31
15 24 0.53
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAATTAAATTAAT
Found at i:11723 original size:19 final size:19
Alignment explanation
Indices: 11696--11766 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
11686 TTCAATACAT
*
11696 TTAATTTAATTAATTTTAA
1 TTAAATTAATTAATTTTAA
* *
11715 TTAAATTAATTCTATTCATTATC
1 TTAAATTAATT-AATT--TTA-A
* * *
11738 TTTAATTAATAAATATTAA
1 TTAAATTAATTAATTTTAA
11757 TTAAATTAAT
1 TTAAATTAAT
11767 GTAACTATAA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
19 19 0.49
20 6 0.15
22 5 0.13
23 9 0.23
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAATTAATTAATTTTAA
Found at i:12668 original size:17 final size:18
Alignment explanation
Indices: 12637--12678 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
12627 CACAAATATT
*
12637 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
12655 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
12672 AACTATT
1 AATTATT
12679 TGTTATGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:12753 original size:19 final size:19
Alignment explanation
Indices: 12686--12755 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 19
12676 ATTTGTTATG
12686 TAATATAATTATATTACATAAT
1 TAATA-AATT-TATT-CATAAT
****
12708 TATATAAATTTATAGGCAAT
1 TA-ATAAATTTATTCATAAT
12728 CTAATAAATTTATTCATAAT
1 -TAATAAATTTATTCATAAT
12748 TAATAAAT
1 TAATAAAT
12756 AATTATAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
19 8 0.21
20 16 0.42
21 5 0.13
22 6 0.16
23 3 0.08
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (19 bp):
TAATAAATTTATTCATAAT
Found at i:13012 original size:16 final size:15
Alignment explanation
Indices: 12972--13014 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
12962 ATCTATACAG
12972 TTATAATTAA-TTAA
1 TTATAATTAATTTAA
*
12986 TTA-AATAAATTTAA
1 TTATAATTAATTTAA
13000 TTATCAATTAATTTA
1 TTAT-AATTAATTTA
13015 TAATTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 5 0.21
14 10 0.42
16 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTATAATTAATTTAA
Found at i:13810 original size:192 final size:188
Alignment explanation
Indices: 13425--13790 Score: 405
Period size: 192 Copynumber: 1.9 Consensus size: 188
13415 ACAAAAGGTC
* * * *
13425 ATAACGATTTAAAATAGATAATTGTTCATATAGTCTTAACTATTTAAACTGGTTCAACAAACAAA
1 ATAACGATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTAAACGGGTTCAACAAACAAA
* * * * *
13490 TTTATTTTTAAAATCTCTTTGTTATTAATTTTCATAGTATTATTAGATTAGTATTATTTTATTTC
66 TTTATTTTTAAAATCTCTTTGTTATTAACTTTCAAAGTATTAATAAATTAGTATTATGTTATTTC
* ** * * * *
13555 GAATAAGCTTGTATGACATGAATAATTATTTTATGACAAAACAAAAAAGGTTTTTTTTTAA
131 G-A-AAGCTTGTATGAAAACAACAATTATTATACGACAAAAC-AAAAAGGTTTTTGTTTAA
* * * * * *
13616 ATAACTGATTTAAACTATATATTTGTTCAAATAATCATAACTATTTAAACGGGTTCGATAAATAA
1 ATAAC-GATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTAAACGGGTTCAACAAACAA
* *
13681 ATTTATTTTTTAAATTTCTTAT-TTATTAACTTTCGAAAG-ATTAATAAATTAGTATTATGTTAT
65 ATTTATTTTTAAAATCTCTT-TGTTATTAACTTTC-AAAGTATTAATAAATTAGTATTATGTTAT
* * *
13744 TTTG-AAGCTTGTATGATAAACAACAATTGTTATACGACCAAACAAAA
128 TTCGAAAGCTTGTATGA-AAACAACAATTATTATACGACAAAACAAAA
13791 GGTAATATTA
Statistics
Matches: 145, Mismatches: 26, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
189 16 0.11
190 18 0.12
191 5 0.03
192 102 0.70
193 4 0.03
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (188 bp):
ATAACGATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTAAACGGGTTCAACAAACAAA
TTTATTTTTAAAATCTCTTTGTTATTAACTTTCAAAGTATTAATAAATTAGTATTATGTTATTTC
GAAAGCTTGTATGAAAACAACAATTATTATACGACAAAACAAAAAGGTTTTTGTTTAA
Found at i:14715 original size:9 final size:9
Alignment explanation
Indices: 14672--14758 Score: 58
Period size: 9 Copynumber: 9.7 Consensus size: 9
14662 ATCATTTTGA
14672 TATTATATAT
1 TATTA-ATAT
*
14682 TATTAATTT
1 TATTAATAT
14691 TAATT-A-AT
1 T-ATTAATAT
14699 TA-TAATAT
1 TATTAATAT
14707 TATTAATAT
1 TATTAATAT
14716 TA-TACATATT
1 TATTA-ATA-T
*
14726 TATTTAA-AA
1 TA-TTAATAT
14735 TATTAATAT
1 TATTAATAT
* *
14744 AATTAATAA
1 TATTAATAT
14753 TATTAA
1 TATTAA
14759 AAAATATATT
Statistics
Matches: 61, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
6 1 0.02
7 2 0.03
8 12 0.20
9 31 0.51
10 12 0.20
11 1 0.02
12 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (9 bp):
TATTAATAT
Found at i:16554 original size:14 final size:14
Alignment explanation
Indices: 16528--16560 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16518 ATAATTGTTT
*
16528 ATTA-TATTTAATA
1 ATTATTATTAAATA
16541 ATTATTATTAAATA
1 ATTATTATTAAATA
16555 ATTATT
1 ATTATT
16561 TTTATTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTATTATTAAATA
Found at i:16614 original size:19 final size:19
Alignment explanation
Indices: 16582--16619 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16572 TAAACTTTAA
*
16582 ATATTAATTATTAATCTAT
1 ATATTAATTATTAAACTAT
16601 ATATTAA-TATTTAAACTAT
1 ATATTAATTA-TTAAACTAT
16620 TGCAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTAATTATTAAACTAT
Found at i:16962 original size:21 final size:21
Alignment explanation
Indices: 16937--16978 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16927 CAATTATTTT
*
16937 AATTTTAAATTA-ATAAGTAAA
1 AATTTT-AATTATATAAATAAA
16958 AATTTTAATTATATAAATAAA
1 AATTTTAATTATATAAATAAA
16979 TGAGACTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AATTTTAATTATATAAATAAA
Found at i:17345 original size:21 final size:21
Alignment explanation
Indices: 17320--17372 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
17310 CTAATATTAA
*
17320 TATTTATAATAATTTATAAAT
1 TATTTAAAATAATTTATAAAT
*
17341 TATTTAAAACT-ATTTATAAGT
1 TATTTAAAA-TAATTTATAAAT
17362 TATTTAAAATA
1 TATTTAAAATA
17373 TTATAATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTTAAAATAATTTATAAAT
Found at i:17365 original size:11 final size:11
Alignment explanation
Indices: 17320--17371 Score: 56
Period size: 10 Copynumber: 5.0 Consensus size: 11
17310 CTAATATTAA
17320 TATTTAT-AAT
1 TATTTATAAAT
*
17330 AATTTATAAAT
1 TATTTATAAAT
*
17341 TATTTA-AAAC
1 TATTTATAAAT
*
17351 TATTTATAAGT
1 TATTTATAAAT
17362 TATTTA-AAAT
1 TATTTATAAAT
17372 ATTATAATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 18 0.53
11 16 0.47
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (11 bp):
TATTTATAAAT
Found at i:17385 original size:20 final size:21
Alignment explanation
Indices: 17331--17378 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
17321 ATTTATAATA
*
17331 ATTTATAAATTATTTAAAACT
1 ATTTATAAGTTATTTAAAACT
17352 ATTTATAAGTTATTTAAAA-T
1 ATTTATAAGTTATTTAAAACT
17372 A-TTATAA
1 ATTTATAA
17379 TAGTATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 6 0.23
20 2 0.08
21 18 0.69
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTATAAGTTATTTAAAACT
Found at i:17723 original size:23 final size:25
Alignment explanation
Indices: 17664--17730 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 25
17654 TCTTAATTAT
* *
17664 TTATC-AACAAATTTAATTTTTGAA
1 TTATCAAATAAATATAATTTTTGAA
*
17688 TTATCAAATAAATATTATTTTT-AA
1 TTATCAAATAAATATAATTTTTGAA
*
17712 TT-TGAAATAAATATAATTT
1 TTATCAAATAAATATAATTT
17731 AATATTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 15 0.41
24 9 0.24
25 13 0.35
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (25 bp):
TTATCAAATAAATATAATTTTTGAA
Found at i:17737 original size:23 final size:22
Alignment explanation
Indices: 17693--17745 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
17683 TTGAATTATC
* *
17693 AAATAAATATTATTTTTAATTT
1 AAATAAATATAATTTATAATTT
17715 GAAATAAATATAATTTA-ATATTT
1 -AAATAAATATAATTTATA-ATTT
*
17738 AAAGAAAT
1 AAATAAAT
17746 TATTATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
AAATAAATATAATTTATAATTT
Found at i:18107 original size:23 final size:22
Alignment explanation
Indices: 18059--18105 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
18049 TTTATTGCTT
18059 ATAAATAATAATAAATTTAATTA
1 ATAAATAATAAT-AATTTAATTA
*
18082 ATAAATTATAAT-ATTTAA-TA
1 ATAAATAATAATAATTTAATTA
18102 ATAA
1 ATAA
18106 TATCATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 6 0.26
23 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAATAATAATAATTTAATTA
Found at i:18488 original size:27 final size:31
Alignment explanation
Indices: 18450--18515 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
18440 ATTTAACATA
18450 ATTAA-TATTTT-ATATTAT-AGAAT-AAAT
1 ATTAATTATTTTAATATTATAAGAATAAAAT
* * *
18477 ATTAATTATTTAAATATTTTAATAATAAAAT
1 ATTAATTATTTTAATATTATAAGAATAAAAT
18508 ATTAATTA
1 ATTAATTA
18516 AAATTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 5 0.16
28 5 0.16
29 6 0.19
30 4 0.12
31 12 0.38
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
ATTAATTATTTTAATATTATAAGAATAAAAT
Found at i:18793 original size:27 final size:29
Alignment explanation
Indices: 18774--18827 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
18764 TATATATTAT
18774 TTAAA-ATTA-TAATATTATATTATTTAA
1 TTAAATATTATTAATATTATATTATTTAA
* *
18801 TTAAATTTTATTAATATTATGTTATTT
1 TTAAATATTATTAATATTATATTATTT
18828 CAATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 3 0.13
29 15 0.65
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (29 bp):
TTAAATATTATTAATATTATATTATTTAA
Found at i:19584 original size:22 final size:22
Alignment explanation
Indices: 19554--19608 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
19544 TAATTTGAAT
* *
19554 TAATAAATTATTATTAATACTA-
1 TAATTAATTAATATTAATA-TAC
*
19576 TAATTAATTAATATTTATATAC
1 TAATTAATTAATATTAATATAC
19598 TAATTAATTAA
1 TAATTAATTAA
19609 CTAGTTTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATTAATTAATATTAATATAC
Found at i:19593 original size:26 final size:22
Alignment explanation
Indices: 19551--19608 Score: 55
Period size: 26 Copynumber: 2.5 Consensus size: 22
19541 AAGTAATTTG
*
19551 AATTAATAAATTATTATTAATACTAT
1 AATTAATTAATTATTA-T-ATAC--T
19577 AATTAATTAA-TATTTATATACT
1 AATTAATTAATTA-TTATATACT
19599 AATTAATTAA
1 AATTAATTAA
19609 CTAGTTTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 11 0.37
24 4 0.13
25 3 0.10
26 12 0.40
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTAATTAATTATTATATACT
Found at i:19743 original size:25 final size:26
Alignment explanation
Indices: 19701--19755 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
19691 TTATTAAATA
19701 ATAA-TTATTAAAATTTAT-ATATTT
1 ATAATTTATTAAAATTTATAATATTT
19725 ATAATTTATTATAAA-TTATAATATTT
1 ATAATTTATTA-AAATTTATAATATTT
19751 A-AATT
1 ATAATT
19756 ATAGAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
ATAATTTATTAAAATTTATAATATTT
Found at i:19841 original size:13 final size:13
Alignment explanation
Indices: 19718--19841 Score: 57
Period size: 13 Copynumber: 9.8 Consensus size: 13
19708 TTAAAATTTA
19718 TATATT-TATAAT
1 TATATTATATAAT
19730 T-TATTATA-AAT
1 TATATTATATAAT
* *
19741 TATAATATTTAAAT
1 TATATTATAT-AAT
**
19755 TATAGAATATAAT
1 TATATTATATAAT
19768 T-TATTACTATAAT
1 TATATTA-TATAAT
*
19781 TA-AATATTATAAT
1 TATATTA-TATAAT
* * *
19794 TACATTAGATAAC
1 TATATTATATAAT
*
19807 AAT-TGTCATATAA-
1 TATAT-T-ATATAAT
*
19820 T-TGTTATATAAT
1 TATATTATATAAT
19832 TATATTATAT
1 TATATTATAT
19842 TTATTTGTAA
Statistics
Matches: 83, Mismatches: 17, Indels: 23
0.67 0.14 0.19
Matches are distributed among these distances:
11 14 0.17
12 15 0.18
13 36 0.43
14 18 0.22
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (13 bp):
TATATTATATAAT
Found at i:20086 original size:20 final size:20
Alignment explanation
Indices: 20040--20087 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
20030 AGTAATAATT
* *
20040 TATATTATTTTAATTATAAT
1 TATAATATTTTAATTATAAA
*
20060 TAAAATATTTTATATT-TAAA
1 TATAATATTTTA-ATTATAAA
20080 TATAATAT
1 TATAATAT
20088 AATATACATG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATAATATTTTAATTATAAA
Found at i:21047 original size:34 final size:37
Alignment explanation
Indices: 20971--21062 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 37
20961 AATCAAATAT
*
20971 TAAT-TATATTATTAAT-ATTATTAATTTATATATAA
1 TAATATATATTATTAATAATTATTAATATATATATAA
* *
21006 TACTATATATTATTAATAATTGTT-ATATATA-ATAA
1 TAATATATATTATTAATAATTATTAATATATATATAA
*
21041 -AATATATGA-CATTAATAATTAT
1 TAATATAT-ATTATTAATAATTAT
21063 ATCAGATTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
34 17 0.35
35 8 0.17
36 18 0.38
37 5 0.10
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (37 bp):
TAATATATATTATTAATAATTATTAATATATATATAA
Found at i:21522 original size:22 final size:21
Alignment explanation
Indices: 21492--21533 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
21482 TTTGTAATTT
21492 TATTATAATATATAAT-TTAAC
1 TATTATAATAT-TAATATTAAC
21513 TATTAATAATATTAATATTAA
1 TATT-ATAATATTAATATTAA
21534 TAACTATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTATAATATTAATATTAAC
Found at i:21531 original size:15 final size:16
Alignment explanation
Indices: 21503--21541 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
21493 ATTATAATAT
21503 ATAAT-TTAACTATTA
1 ATAATATTAACTATTA
21518 ATAATATTAA-TATTA
1 ATAATATTAACTATTA
21533 ATAACTATT
1 ATAA-TATT
21542 CAAATAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATATTAACTATTA
Found at i:21616 original size:25 final size:25
Alignment explanation
Indices: 21574--21621 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
21564 TTAATTAATT
21574 ATTATTGATAATAATAATAATATCA
1 ATTATTGATAATAATAATAATATCA
* *
21599 ATTATT-ATATTAACTAATTATAT
1 ATTATTGATAATAA-TAATAATAT
21622 TTGATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (25 bp):
ATTATTGATAATAATAATAATATCA
Found at i:21825 original size:23 final size:22
Alignment explanation
Indices: 21768--21825 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
21758 TTAATATATT
*
21768 AATTTTATTTATAATATGTTAA
1 AATTTTATTTATAATATCTTAA
** *
21790 AATAAATAATTATAATATCTTAA
1 AAT-TTTATTTATAATATCTTAA
21813 ATATTTTATTTAT
1 A-ATTTTATTTAT
21826 CTTATATATT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
22 3 0.11
23 22 0.81
24 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
AATTTTATTTATAATATCTTAA
Found at i:22650 original size:6 final size:6
Alignment explanation
Indices: 22634--22733 Score: 64
Period size: 6 Copynumber: 16.2 Consensus size: 6
22624 AAATTAGTTA
*
22634 AATTAAT AATTAT AATTAT AATTA- ATTTA- AATTAAT AATTA- AATTTATT
1 AATT-AT AATTAT AATTAT AATTAT AATTAT AATT-AT AATTAT AA-TTA-T
* * **
22683 AATTAT ACAGT-T AATTAT AATTAT ATAATATT AATTAT AACGAT AATTAT
1 AATTAT A-ATTAT AATTAT AATTAT A-ATTA-T AATTAT AATTAT AATTAT
22733 A
1 A
22734 CTAAATATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
5 11 0.15
6 40 0.54
7 19 0.26
8 4 0.05
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (6 bp):
AATTAT
Found at i:23187 original size:22 final size:23
Alignment explanation
Indices: 23126--23231 Score: 71
Period size: 22 Copynumber: 4.6 Consensus size: 23
23116 ATAACTAAGA
*
23126 TATAATAATATTATATTATTATTAAT
1 TATAATAAT-TAAT-TTA-TATTAAT
23152 TATAATAATTAATTTATATTAAT
1 TATAATAATTAATTTATATTAAT
* *
23175 T-TCATTATTAATTTAT-TATAA-
1 TATAATAATTAATTTATAT-TAAT
*
23196 TATAATTA-TAAGTTTAT-TATAAT
1 TATAATAATTAA-TTTATAT-TAAT
*
23219 AATAA-AATTAATT
1 TATAATAATTAATT
23232 ATTAAATATA
Statistics
Matches: 69, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
21 5 0.07
22 34 0.49
23 15 0.22
24 3 0.04
25 3 0.04
26 9 0.13
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (23 bp):
TATAATAATTAATTTATATTAAT
Found at i:23340 original size:13 final size:12
Alignment explanation
Indices: 23322--23354 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
23312 AATTATGTTA
23322 TTATATAATAAAT
1 TTATATAAT-AAT
23335 TTATATAATAAT
1 TTATATAATAAT
23347 TTA-ATAAT
1 TTATATAAT
23355 TATAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 6 0.30
13 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTATATAATAAT
Found at i:23681 original size:180 final size:180
Alignment explanation
Indices: 23373--23817 Score: 456
Period size: 181 Copynumber: 2.5 Consensus size: 180
23363 TTGTTTGCTA
* * * * *
23373 AATCAGTTCAAATAGTTAAGACTA-TTAGAACAATTATCCATTTCAAATCGTTTTGACCTTTGTT
1 AATCAATTCAAATAGTTATGACTATTTA-AACAATTATCTATTTCAAATCATTATGACCTTTGTT
* * * *
23437 TAATCATAAAATAATTGCTTCAACTCATACATGCTTATTCAAAATAAAATAACACTAATTTATTA
65 TTATCATAAAATAATTGTTTCAACTCATAAAAGCTTATTCAAAATAAAATAACACTAATTTATTA
**
23502 ACATTCA-AAAAATTGTTAAGTAAGA-AATTAGAAA-AAAAATCTA-TTTA-CTG
130 ACATT-ATAAAAATTAATAAGTAAGAGAATTA-AAACAAAAATC-AGTTTATC-G
* * * * *
23552 AA-CAAGTTCAAATATTTTTTACTATTTAAACAATTATCTATTTAAAATCATTATGACCTTATAT
1 AATCAA-TTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACCTT-TGT
** * * * * *
23616 TTTATCATAAAATAATTGTTTCAGTTCATAAAAGTTTA-TCTGAAATAAAATAATATTACTTTAT
64 TTTATCATAAAATAATTGTTTCAACTCATAAAAGCTTATTC-AAAATAAAATAACACTAATTTAT
* * * *
23680 TAATATTATAAAAATTAATAAGTTAGAGATTTAAAACATAAATCAGTTTATCG
128 TAACATTATAAAAATTAATAAGTAAGAGAATTAAAACAAAAATCAGTTTATCG
* * **
23733 AATCAATTCAAATAGTTATGGCCATTTAAACAATTATCTATTTCAAATCATTATGAATTTTTGTT
1 AATCAATTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATG-ACCTTTGTT
* *
23798 TTGTCATAAAAGAATTGTTT
65 TTATCATAAAATAATTGTTT
23818 AAATTATTTT
Statistics
Matches: 217, Mismatches: 38, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
178 2 0.01
179 47 0.22
180 80 0.37
181 81 0.37
182 7 0.03
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.39
Consensus pattern (180 bp):
AATCAATTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACCTTTGTTT
TATCATAAAATAATTGTTTCAACTCATAAAAGCTTATTCAAAATAAAATAACACTAATTTATTAA
CATTATAAAAATTAATAAGTAAGAGAATTAAAACAAAAATCAGTTTATCG
Found at i:25128 original size:16 final size:17
Alignment explanation
Indices: 25107--25140 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25097 AATAGTCATG
25107 TCCATTT-GAACTATTA
1 TCCATTTCGAACTATTA
*
25123 TCCATTTCGAATTATTA
1 TCCATTTCGAACTATTA
25140 T
1 T
25141 GACATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (17 bp):
TCCATTTCGAACTATTA
Found at i:25750 original size:43 final size:43
Alignment explanation
Indices: 25679--25760 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
25669 TTAATATGAA
* *
25679 TTATTGATTTTAAATTTATATAACTAATAAATAATAATTATAT
1 TTATTAATTTTAAATATATATAACTAATAAATAATAATTATAT
* **
25722 TTATTAATTTTAAA-ATATTTAACATAATATTTAATAATT
1 TTATTAATTTTAAATATATATAAC-TAATAAATAATAATT
25761 TATAAATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 7 0.21
43 26 0.79
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (43 bp):
TTATTAATTTTAAATATATATAACTAATAAATAATAATTATAT
Found at i:25901 original size:16 final size:18
Alignment explanation
Indices: 25882--25951 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
25872 ATAATCTAAT
25882 TTATAA-TATAATA-TTA
1 TTATAATTATAATATTTA
*
25898 TTATATTATTATAGTATTTA
1 TTATA--ATTATAATATTTA
*
25918 -TATATTATATAATATTTA
1 TTATAAT-TATAATATTTA
25936 TTA-AATTATATATATT
1 TTATAATTATA-ATATT
25952 ATAAACTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
16 5 0.12
17 5 0.12
18 18 0.42
19 12 0.28
20 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (18 bp):
TTATAATTATAATATTTA
Found at i:25943 original size:19 final size:19
Alignment explanation
Indices: 25887--25951 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
25877 CTAATTTATA
25887 ATATAATA-TTATTATATT
1 ATATAATATTTATTATATT
*
25905 ATTATAGTATTTA-TATATT
1 A-TATAATATTTATTATATT
*
25924 ATATAATATTTATTAAATT
1 ATATAATATTTATTATATT
25943 ATAT-ATATT
1 ATATAATATT
25952 ATAAACTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 16 0.39
19 22 0.54
20 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
ATATAATATTTATTATATT
Found at i:25956 original size:16 final size:16
Alignment explanation
Indices: 25882--25962 Score: 58
Period size: 16 Copynumber: 4.8 Consensus size: 16
25872 ATAATCTAAT
*
25882 TTATAATATAATAT-TA
1 TTATAA-ATTATATATA
*
25898 TTATATTATTATAGTAT-
1 TTATA-AATTATA-TATA
*
25915 TTATATATTATATAATA
1 TTATAAATTATAT-ATA
25932 TTTATTAAATTATATATA
1 -TTA-TAAATTATATATA
*
25950 TTATAAACTATAT
1 TTATAAATTATAT
25963 TTAGTAATTG
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
15 1 0.02
16 28 0.52
17 9 0.17
18 7 0.13
19 9 0.17
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (16 bp):
TTATAAATTATATATA
Found at i:25962 original size:35 final size:37
Alignment explanation
Indices: 25887--25962 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
25877 CTAATTTATA
* * *
25887 ATATAATATTATTATATTATTATAGTATTTATATATT
1 ATATAATATTATTAAATTATTATAGTATTTATAAACT
25924 ATATAATATTTATTAAATTA-TATA-TA-TTATAAACT
1 ATATAATA-TTATTAAATTATTATAGTATTTATAAACT
25959 ATAT
1 ATAT
25963 TTAGTAATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 11 0.31
36 2 0.06
37 12 0.34
38 10 0.29
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (37 bp):
ATATAATATTATTAAATTATTATAGTATTTATAAACT
Found at i:26957 original size:24 final size:24
Alignment explanation
Indices: 26929--26974 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
26919 ATATATATAA
*
26929 TATTA-ACTATTAATTAAAAATAGT
1 TATTATACTAATAA-TAAAAATAGT
26953 TATTATACTAATAATAAAAATA
1 TATTATACTAATAATAAAAATA
26975 CTTTAATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (24 bp):
TATTATACTAATAATAAAAATAGT
Found at i:27032 original size:13 final size:13
Alignment explanation
Indices: 27011--27048 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
27001 TGTCAATAAT
27011 ATTAATTTATATA
1 ATTAATTTATATA
*
27024 ATTATTTTATA-A
1 ATTAATTTATATA
27036 ATTAATTTA-ATA
1 ATTAATTTATATA
27048 A
1 A
27049 ATTTGTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 1 0.05
12 11 0.50
13 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTAATTTATATA
Found at i:27049 original size:13 final size:13
Alignment explanation
Indices: 27005--27051 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
26995 TAATATTGTC
27005 AATAATATTAATTT
1 AATAA-ATTAATTT
27019 -ATATAATT-ATTT
1 AATA-AATTAATTT
*
27031 TATAAATTAATTT
1 AATAAATTAATTT
27044 AATAAATT
1 AATAAATT
27052 TGTTTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 8 0.28
13 20 0.69
14 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AATAAATTAATTT
Found at i:27273 original size:20 final size:23
Alignment explanation
Indices: 27240--27308 Score: 76
Period size: 21 Copynumber: 3.2 Consensus size: 23
27230 TAAAAAATTA
*
27240 TAATTATATCATAAT-TAA-A-T
1 TAATTATATAATAATATAATATT
*
27260 TAATAATATAATAATATAATATT
1 TAATTATATAATAATATAATATT
*
27283 TAATTATATTAT-A-ATAATATT
1 TAATTATATAATAATATAATATT
27304 TAATT
1 TAATT
27309 TAAATATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 13 0.31
21 16 0.38
22 2 0.05
23 11 0.26
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTATATAATAATATAATATT
Found at i:27414 original size:14 final size:14
Alignment explanation
Indices: 27378--27415 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
27368 ATTTCACTTA
27378 TTAATTATTATAAT
1 TTAATTATTATAAT
*
27392 TTAACTATTAT-AT
1 TTAATTATTATAAT
27405 TTAATTTATTA
1 TTAA-TTATTA
27416 ACTATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TTAATTATTATAAT
Found at i:28304 original size:36 final size:36
Alignment explanation
Indices: 28242--28310 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
28232 TAACTTATAA
* *
28242 TTATATTATAGTTATTATTTTATAAATTAATATACC
1 TTATATTATAATTATTATTTTATAAATAAATATACC
28278 TTAT-TTATAATTATTTATTATT-TAAATAAATAT
1 TTATATTATAATTA-TTATT-TTATAAATAAATAT
28311 TATAATCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 8 0.28
36 19 0.66
37 2 0.07
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (36 bp):
TTATATTATAATTATTATTTTATAAATAAATATACC
Found at i:28417 original size:46 final size:44
Alignment explanation
Indices: 28338--28435 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 44
28328 TAATTGATAT
* *
28338 ATTAATTTTATTATTTTATAATTATAAGTAATAAAAT-ATATAATA
1 ATTAATTTAATTATTATATAATTATAAG-AAT-AAATGATATAATA
*
28383 ATTTAATTTAATTATTATATTAATTATTAA-AATAATTGATATAATA
1 A-TTAATTTAATTATTATA-TAATTA-TAAGAATAAATGATATAATA
28429 ATTAATT
1 ATTAATT
28436 ATTCTTAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
45 10 0.22
46 27 0.59
47 6 0.13
48 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (44 bp):
ATTAATTTAATTATTATATAATTATAAGAATAAATGATATAATA
Found at i:28567 original size:26 final size:29
Alignment explanation
Indices: 28503--28573 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
28493 TTAGTTTAAC
* * *
28503 ATTAAATTAAATAATTATTAATTTATAGT
1 ATTAAATAAAATAATTAATAATTGATAGT
*
28532 ATTAATTAAAATAATTAAT-ATTGATAG-
1 ATTAAATAAAATAATTAATAATTGATAGT
28559 A-TAAATAAATATAAT
1 ATTAAATAAA-ATAAT
28574 AATTATTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.19
27 6 0.17
28 7 0.19
29 16 0.44
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (29 bp):
ATTAAATAAAATAATTAATAATTGATAGT
Found at i:28597 original size:19 final size:18
Alignment explanation
Indices: 28566--28701 Score: 68
Period size: 17 Copynumber: 7.3 Consensus size: 18
28556 TAGATAAATA
*
28566 AATATAATAATTATTATAT
1 AATA-AATAATTAATATAT
28585 AATAAATAGATTAATATAT
1 AATAAATA-ATTAATATAT
* *
28604 AAT-AATTATTTATAT-T
1 AATAAATAATTAATATAT
*
28620 ATTAAATAATATAA-AT-T
1 AATAAATAAT-TAATATAT
** * *
28637 AATTTATATTTAATATTAAA
1 AATAAATAATTAATA-T-AT
28657 AATAAAT-ATTAATA-AT
1 AATAAATAATTAATATAT
28673 AATTAAGATAATTATAATATTAT
1 AA-TAA-ATAA-T-TAATA-TAT
28696 AATAAA
1 AATAAA
28702 ATAGTTATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
16 9 0.10
17 25 0.28
18 12 0.14
19 23 0.26
20 6 0.07
21 6 0.07
22 3 0.03
23 4 0.05
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (18 bp):
AATAAATAATTAATATAT
Found at i:28630 original size:30 final size:32
Alignment explanation
Indices: 28541--28640 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 32
28531 TATTAATTAA
* * *
28541 AATAATTAATAT-TGATAGATAAATAA-ATAT
1 AATAATTATTATATAATAAATAAATAATATAT
*
28571 AATAATTATTATATAATAAATAGATTAATATAT
1 AATAATTATTATATAATAAATA-AATAATATAT
* *
28604 AATAATTATT-TAT-ATTATTAAATAATATA-
1 AATAATTATTATATAATAAATAAATAATATAT
28633 AATTAATT
1 AA-TAATT
28641 TATATTTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
29 2 0.03
30 24 0.41
31 12 0.20
32 7 0.12
33 14 0.24
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (32 bp):
AATAATTATTATATAATAAATAAATAATATAT
Found at i:28985 original size:20 final size:19
Alignment explanation
Indices: 28962--29016 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
28952 TAATATTATT
*
28962 ATAATTATTATAATATTTGG
1 ATAATTATTATAATAATT-G
28982 ATAATTTATTCAT-ATAATTG
1 ATAA-TTATT-ATAATAATTG
29002 ATAATTATTA-AATAA
1 ATAATTATTATAATAA
29017 CTAATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 9 0.29
21 10 0.32
22 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Found at i:29118 original size:17 final size:18
Alignment explanation
Indices: 29077--29121 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
29067 TAATTTAAAG
29077 TACTTAAT-TT-ATAATT
1 TACTTAATATTAATAATT
*
29093 TAATTAATATTAATAA-T
1 TACTTAATATTAATAATT
29110 TACTTAATATTA
1 TACTTAATATTA
29122 TTAACATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
18 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
TACTTAATATTAATAATT
Found at i:29137 original size:21 final size:21
Alignment explanation
Indices: 29113--29163 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
29103 TAATAATTAC
29113 TTAATATTATTAACATAATGA
1 TTAATATTATTAACATAATGA
** *
29134 TTAATATTATTAGGATAATTA
1 TTAATATTATTAACATAATGA
29155 TATAATATT
1 T-TAATATT
29164 TTATATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (21 bp):
TTAATATTATTAACATAATGA
Found at i:29188 original size:13 final size:13
Alignment explanation
Indices: 29170--29194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29160 TATTTTATAT
29170 ATTAAATATTTAA
1 ATTAAATATTTAA
29183 ATTAAATATTTA
1 ATTAAATATTTA
29195 TTATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATATTTAA
Found at i:29210 original size:21 final size:21
Alignment explanation
Indices: 29185--29238 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
29175 ATATTTAAAT
29185 TAAATATTTATTATAATATAA
1 TAAATATTTATTATAATATAA
* *
29206 TAAATA-TTATATATTATATTA
1 TAAATATTTAT-TATAATATAA
*
29227 TTAAT-TTTATTA
1 TAAATATTTATTA
29239 AACAATTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAAATATTTATTATAATATAA
Found at i:29222 original size:7 final size:7
Alignment explanation
Indices: 29153--29229 Score: 50
Period size: 7 Copynumber: 11.0 Consensus size: 7
29143 TTAGGATAAT
*
29153 TATATAA
1 TATATTA
*
29160 TATTTTA
1 TATATTA
29167 TATATTA
1 TATATTA
*
29174 AATATT-
1 TATATTA
*
29180 TAAATTA
1 TATATTA
*
29187 AATATT-
1 TATATTA
*
29193 TATTATAA
1 TA-TATTA
*
29201 TATAATA
1 TATATTA
*
29208 AATATTA
1 TATATTA
29215 TATATTA
1 TATATTA
29222 TATTATTA
1 TA-TATTA
29230 ATTTTATTAA
Statistics
Matches: 51, Mismatches: 15, Indels: 7
0.70 0.21 0.10
Matches are distributed among these distances:
6 5 0.10
7 39 0.76
8 7 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TATATTA
Found at i:29304 original size:13 final size:14
Alignment explanation
Indices: 29286--29334 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
29276 AATATTTAGA
29286 TAATTAA-TAATAT
1 TAATTAATTAATAT
29299 TAATTAATTAATAT
1 TAATTAATTAATAT
*
29313 TCTATTATATTAA-A-
1 T-AATTA-ATTAATAT
29327 TAATTAAT
1 TAATTAAT
29335 AAGAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 11 0.35
14 8 0.26
15 5 0.16
16 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTAATTAATAT
Found at i:29387 original size:32 final size:30
Alignment explanation
Indices: 29318--29378 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
29308 AATATTCTAT
29318 TATATTAAATAATTAATAAGAATTTATTTAA
1 TATATTAAATAA-TAATAAGAATTTATTTAA
* *
29349 TATATTAAATAA-ATTAAGTATTTATTTAA
1 TATATTAAATAATAATAAGAATTTATTTAA
29378 T
1 T
29379 TAAATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 16 0.57
31 12 0.43
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TATATTAAATAATAATAAGAATTTATTTAA
Found at i:29392 original size:29 final size:30
Alignment explanation
Indices: 29294--29394 Score: 76
Period size: 29 Copynumber: 3.5 Consensus size: 30
29284 GATAATTAAT
29294 AATATTAATTAATTAA-TATTCTA-TTATATTA
1 AATATTAA-TAATTAAGTATT-TATTTA-ATTA
* *
29325 AATA--ATTAA-TAAGAATTTATTTAA-T-
1 AATATTAATAATTAAGTATTTATTTAATTA
29350 -ATATTAAATAAATTAAGTATTTATTTAATTA
1 AATATT-AAT-AATTAAGTATTTATTTAATTA
29381 AATATT-ATAATTAA
1 AATATTAATAATTAA
29395 AATGTTTGGA
Statistics
Matches: 56, Mismatches: 4, Indels: 22
0.68 0.05 0.27
Matches are distributed among these distances:
24 3 0.05
26 1 0.02
27 8 0.14
28 11 0.20
29 21 0.38
30 3 0.05
31 4 0.07
32 5 0.09
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (30 bp):
AATATTAATAATTAAGTATTTATTTAATTA
Found at i:29847 original size:26 final size:26
Alignment explanation
Indices: 29783--29847 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 26
29773 ATCAAATTAT
* *
29783 TAATAATTTATATTAATTATAATAGA
1 TAATAACTTATATTAAATATAATAGA
*
29809 TAAT-ACATA-ATTAAATA-AATAGA
1 TAATAACTTATATTAAATATAATAGA
29832 TAATAACTTATCATTA
1 TAATAACTTAT-ATTA
29848 TTTTATAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
23 10 0.31
24 11 0.34
25 3 0.09
26 8 0.25
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (26 bp):
TAATAACTTATATTAAATATAATAGA
Found at i:30126 original size:22 final size:20
Alignment explanation
Indices: 30088--30143 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 20
30078 ATATTAAGGT
30088 TAATTTATAAA-TATAATTTAAA
1 TAATTT-TAAATTATAA-TT-AA
*
30110 TAATTTTAAATTTTAATTAA
1 TAATTTTAAATTATAATTAA
30130 TAATATTTATAATT
1 TAAT-TTTA-AATT
30144 GTTATTAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.20
21 10 0.33
22 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TAATTTTAAATTATAATTAA
Found at i:30494 original size:180 final size:178
Alignment explanation
Indices: 30170--30936 Score: 812
Period size: 180 Copynumber: 4.3 Consensus size: 178
30160 ATAATATCAA
* * * * * ** *
30170 TTTTGTCATAAAACAAATGTTTTTGTTCATATAAGTTTGTTTGGAATAAAATAATAT-TAATTTA
1 TTTTCTCATAAAACAATTGTTTTTGTTCATACAAGCTT-ATTCAAATAACATAAT-TCTAATTTA
* * * * *
30234 TTAATATTTCAAAAATTAATACGTAAGAGATTTAAAAAATAAATTTGTTTGCCAT-ACCAGTTCA
64 TTAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAATGAA-TT-TTTGACATAACAAGTTCA
* * * * * * *
30298 ATTAGTTATAACTATTTGACCAAATATTTATTTCAAATCATTATGATCATTTC
127 AATAATTATGACTATTTGAACAATTATTTATTTCAAATCATTATGA-CCTTTG
* * * *
30351 TTTTATCATAAAACAATTGTTTTT-TTCATATAATCTTATTCGAAATAA-AGTAATGCTAATTTA
1 TTTTCTCATAAAACAATTGTTTTTGTTCATACAAGCTTATTC-AAATAACA-TAATTCTAATTTA
** * * * * * *
30414 TTAATATTTTAAAAATTAATAAGTAATG-GATTTAGAAAATGTATCTTTTGGCTTAACTAGTGCA
64 TTAATATTCCAAAAATTAATAAGTAA-GAGATTTAAAAAATGAAT-TTTTGACATAACAAGTTCA
* *
30478 AACAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTG
127 AATAATTATGACTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTG
*
30530 TTTTCTTATAAAACAATTGTTTTTGTTCATACAAGCTTATTCAAATTAACATAATTCTAATTTAT
1 TTTTCTCATAAAACAATTGTTTTTGTTCATACAAGCTTATTCAAA-TAACATAATTCTAATTTAT
* * **
30595 TAATATTCCAAAAATTAATAAGTGAGAGATTTAAAAAATGAATTTGTTTACCGAACAAGTTCAAA
65 TAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATTT-TTGACATAACAAGTTCAAA
*
30660 TAATTATGGCTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTG
129 TAATTATGACTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTG
* * *
30710 TTTTCTTATAAAACAATTGTTTTTGTTCGTACAAGCTTATTCAGATTAACATAATTCTAATTTAT
1 TTTTCTCATAAAACAATTGTTTTTGTTCATACAAGCTTATTCA-AATAACATAATTCTAATTTAT
* * **
30775 TAATATTCCAAAAATTAATAAGTGAGAGATTTAAAAAATGAATTTGTTTACCGAACAAGTTCAAA
65 TAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATTT-TTGACATAACAAGTTCAAA
* * * * *
30840 TAATTATGGCTATTTGAACAATTATCTAGTTCAAAT-TTCTATAACCTTTTG
129 TAATTATGACTATTTGAACAATTATTTATTTCAAATCAT-TATGACC-TTTG
* * * * *
30891 TATTGTCAT-AAATAATT-TTTTCTATTCGTACAAGCTTATTTCAAAT
1 TTTTCTCATAAAACAATTGTTTT-TGTTCATACAAGCTTA-TTCAAAT
30937 TTGTTTACCG
Statistics
Matches: 513, Mismatches: 57, Indels: 33
0.85 0.09 0.05
Matches are distributed among these distances:
179 47 0.09
180 427 0.83
181 39 0.08
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (178 bp):
TTTTCTCATAAAACAATTGTTTTTGTTCATACAAGCTTATTCAAATAACATAATTCTAATTTATT
AATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATTTTTGACATAACAAGTTCAAATA
ATTATGACTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTG
Found at i:30510 original size:16 final size:17
Alignment explanation
Indices: 30478--30510 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30468 AACTAGTGCA
30478 AACAATTATGACTATTTG
1 AACAATTAT-ACTATTTG
30496 AACAATTAT-CTATTT
1 AACAATTATACTATTT
30511 CAAATCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
AACAATTATACTATTTG
Found at i:31111 original size:300 final size:299
Alignment explanation
Indices: 30635--31175 Score: 778
Period size: 300 Copynumber: 1.8 Consensus size: 299
30625 TTAAAAAATG
* *
30635 AATTTGTTTACCGAACAAGTTCAAATAATTATGGCTATTTGAACAATTATTTATTTCAAATCATT
1 AATTTGTTTACCGAACAAGTTCAAATAATTATGACTATTGGAACAATTATTTATTTCAAATCATT
* * * *
30700 ATGACCTTTGTTTTCTTATAAAACAATTGTTTTTGTTCGTACAAGCTTATTCAGATTAACATAAT
66 ATGACCTTTGTTTTCTCATAAAACAATTATTTTTGTTCATACAAGCTTATTCAGATTAAAATAAT
* * * * *
30765 TCTAATTTATTAATATTCCAAAAATTAATAAGTGAGAGATTTAAAAAATGAATTTGTTTACCGAA
131 TCTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAA
* ** *
30830 CAAGTTCAAATAATTATGGCTATTTGAACAATTATCTAGTTCAAATTTCTATAACCTTTTGTATT
196 CAAGTTCAAATAATAATAACTATCTGAACAATTATCTAGTTCAAATTTCTATAACCTTTTGTATT
30895 GTCATAAATAATTTTTTCTATTCGTACAAGCTTATTTCA
261 GTCATAAATAATTTTTTCTATTCGTACAAGCTTATTTCA
* * ** * *
30934 AATTTGTTTACCGAATAATTTTGAATAGTTATGATTATTGGAACAATTATTTATTTCAAATCATT
1 AATTTGTTTACCGAACAAGTTCAAATAATTATGACTATTGGAACAATTATTTATTTCAAATCATT
* **
30999 ATGACCTTTTGTTTTGTCATAAAACAATTATTTTTGTTCATATTAGCTTATTCAGATTAAAATAA
66 ATGACC-TTTGTTTTCTCATAAAACAATTATTTTTGTTCATACAAGCTTATTCAGATTAAAATAA
* * *
31064 TAT-TAATTTATTAATATTTCAACAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTATCA
130 T-TCTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCA
* * * *
31128 AATAAGTTCAAATAGTAATAACTATCTGAATAATTATCTATTTCAAAT
194 AACAAGTTCAAATAATAATAACTATCTGAACAATTATCTAGTTCAAAT
31176 CATTATGACC
Statistics
Matches: 209, Mismatches: 31, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
299 63 0.30
300 145 0.69
301 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.43
Consensus pattern (299 bp):
AATTTGTTTACCGAACAAGTTCAAATAATTATGACTATTGGAACAATTATTTATTTCAAATCATT
ATGACCTTTGTTTTCTCATAAAACAATTATTTTTGTTCATACAAGCTTATTCAGATTAAAATAAT
TCTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAA
CAAGTTCAAATAATAATAACTATCTGAACAATTATCTAGTTCAAATTTCTATAACCTTTTGTATT
GTCATAAATAATTTTTTCTATTCGTACAAGCTTATTTCA
Found at i:31874 original size:182 final size:180
Alignment explanation
Indices: 31498--31930 Score: 465
Period size: 182 Copynumber: 2.4 Consensus size: 180
31488 ATTCAGTAAA
*
31498 CAAATTTA-TTTTTAAATCTCTTACTTATTAATTTTTAAAATATTATTAAATTAGTATTATTTTA
1 CAAATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTA
* ** * * * * *
31562 ATCCAAATAAGCTTGTACGAACAAAACAATTGTTTTACGTTAAAAGAAAATGTCATAACGATTTG
66 TTCCAAATAAAATAGTACGAACAAAACAATTGTTTGACGATAAAAAAAAAGGTCATAACGATTTG
* ** ** * *
31627 AAATAGATAATCATTCATCGAGTCTTAACTATTTGAACTGGTTTGGCAAT
131 AAATAAATAATCATTCAAAGAGTCAAAACTATTTGAAATGGTTTGGCAAG
* * * * *
31677 TAAATTTATTTTTTAATTTTCTTAGTTATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTA
1 CAAATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTA
* * * * * *
31742 TTCTAAATAAAATAGTATGAACAGAACCAATTGTTTGATGATAAAATAAAAAGGTTATAATGATT
66 TTCCAAATAAAATAGTACGAACA-AAACAATTGTTTGACGATAAAA-AAAAAGGTCATAACGATT
* * * *
31807 TGAAATAAATAATTATTGAAATAGTCAAAACTATTTGAAATGGTTTGGTAAG
129 TGAAATAAATAATCATTCAAAGAGTCAAAACTATTTGAAATGGTTTGGCAAG
* ** * * * * *
31859 CAGATTT-TCTTTTTAAATCTCTTACAGATTTATTTTCTAAATATTAATAAAATAATATTATTTT
1 CAAATTTAT-TTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTT
*
31923 ATTTCAAA
65 ATTCCAAA
31931 CAAACTTATA
Statistics
Matches: 204, Mismatches: 46, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
179 7 0.03
180 68 0.33
181 19 0.09
182 110 0.54
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (180 bp):
CAAATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTA
TTCCAAATAAAATAGTACGAACAAAACAATTGTTTGACGATAAAAAAAAAGGTCATAACGATTTG
AAATAAATAATCATTCAAAGAGTCAAAACTATTTGAAATGGTTTGGCAAG
Found at i:33139 original size:19 final size:21
Alignment explanation
Indices: 33106--33146 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
33096 TTAAATAGTT
33106 AAATGTTATATTAA-TATTAA
1 AAATGTTATATTAATTATTAA
*
33126 AAATTTTATA-TAATTATTAA
1 AAATGTTATATTAATTATTAA
33146 A
1 A
33147 TTAAAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
AAATGTTATATTAATTATTAA
Found at i:33381 original size:11 final size:11
Alignment explanation
Indices: 33365--33491 Score: 64
Period size: 11 Copynumber: 11.5 Consensus size: 11
33355 TTGTAATTAG
33365 TATTATTATAT
1 TATTATTATAT
* *
33376 TATTATTAAAC
1 TATTATTATAT
*
33387 TACTAATTAATAT
1 TA-TTATT-ATAT
* *
33400 TGTCATTAT-T
1 TATTATTATAT
33410 TAATTTATTATAT
1 T-A-TTATTATAT
* *
33423 TAATATTTATAA
1 TATTA-TTATAT
*
33435 TATTACTA-AT
1 TATTATTATAT
*
33445 AATTA--ATAT
1 TATTATTATAT
*
33454 TATTATAATAT
1 TATTATTATAT
*
33465 AATTATTATAT
1 TATTATTATAT
* *
33476 TATTTTTATAA
1 TATTATTATAT
33487 TATTA
1 TATTA
33492 GTAATTTTGT
Statistics
Matches: 85, Mismatches: 22, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
8 1 0.01
9 6 0.07
10 7 0.08
11 42 0.49
12 24 0.28
13 5 0.06
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (11 bp):
TATTATTATAT
Found at i:33449 original size:25 final size:26
Alignment explanation
Indices: 33418--33496 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 26
33408 TTTAATTTAT
33418 TATATTAATATTTATAATATTACTAA
1 TATATTAATATTTATAATATTACTAA
* * *
33444 TA-ATTAATATTATTATAATATAATTAT
1 TATATTAATA-T-TTATAATATTACTAA
* *
33471 TATATT-ATTTTTATAATATTAGTAA
1 TATATTAATATTTATAATATTACTAA
33496 T
1 T
33497 TTTGTTATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
25 20 0.47
26 4 0.09
27 16 0.37
28 3 0.07
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (26 bp):
TATATTAATATTTATAATATTACTAA
Found at i:33467 original size:16 final size:16
Alignment explanation
Indices: 33430--33474 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
33420 TATTAATATT
33430 TATAATATTACTAATAA
1 TATAATATTA-TAATAA
*
33447 T-TAATATTATTATAA
1 TATAATATTATAATAA
33462 TATAATTATTATA
1 TATAA-TATTATA
33475 TTATTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.25
16 11 0.46
17 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TATAATATTATAATAA
Found at i:33833 original size:19 final size:18
Alignment explanation
Indices: 33809--33847 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
33799 TGTTTGAAAT
33809 ATTAATAATTAATATTTTA
1 ATTAATAATTAAT-TTTTA
*
33828 ATTAATAATTTATTTTTA
1 ATTAATAATTAATTTTTA
33846 AT
1 AT
33848 AAAATAACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTAATAATTAATTTTTA
Found at i:33854 original size:19 final size:19
Alignment explanation
Indices: 33812--33850 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
33802 TTGAAATATT
*
33812 AATAATTAATATTTTAATT
1 AATAATTAATATTTTAATA
*
33831 AATAATTTAT-TTTTAATA
1 AATAATTAATATTTTAATA
33849 AA
1 AA
33851 ATAACGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATAATTAATATTTTAATA
Found at i:34899 original size:20 final size:20
Alignment explanation
Indices: 34874--34911 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34864 CGTTATGTAT
34874 ATATACTTAAAACTTTATTA
1 ATATACTTAAAACTTTATTA
*
34894 ATATACTTAAAATTTTAT
1 ATATACTTAAAACTTTAT
34912 ATATTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATACTTAAAACTTTATTA
Found at i:35063 original size:19 final size:17
Alignment explanation
Indices: 35029--35099 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 17
35019 AGTATATTAT
35029 AATTATTATATTAAATA
1 AATTATTATATTAAATA
35046 AATTATTAGTAGTTAAATTA
1 AATTATTA-TA-TTAAA-TA
* *
35066 ATTGTATTAATTATAAAATA
1 AAT-TATT-A-TATTAAATA
35086 AATTATTAATATTA
1 AATTATT-ATATTA
35100 TTTCAAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
17 8 0.18
18 6 0.14
19 11 0.25
20 8 0.18
21 8 0.18
22 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (17 bp):
AATTATTATATTAAATA
Found at i:36466 original size:12 final size:13
Alignment explanation
Indices: 36445--36477 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
36435 AGATATATTT
36445 TTAA-TAAAAAAA
1 TTAATTAAAAAAA
36457 -TAATTAAAAAAA
1 TTAATTAAAAAAA
36469 TTAATTAAA
1 TTAATTAAA
36478 CCTTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.16
12 8 0.42
13 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TTAATTAAAAAAA
Found at i:37444 original size:4 final size:4
Alignment explanation
Indices: 37437--37462 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
37427 AAAAAAAGAG
37437 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
37463 AGAATTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:37606 original size:52 final size:54
Alignment explanation
Indices: 37477--37603 Score: 195
Period size: 52 Copynumber: 2.4 Consensus size: 54
37467 TTTTTGAATA
37477 GGCCCAAATGGTGGAAAATTTAGAAATTCCAAAAAGAGAAAATATTTCTAAATT
1 GGCCCAAATGGTGGAAAATTTAGAAATTCCAAAAAGAGAAAATATTTCTAAATT
* * *
37531 GACCTAAATGGTGGAAAATTTAGAAATT-C-AAAAGAGAAAATATTTCTAATTT
1 GGCCCAAATGGTGGAAAATTTAGAAATTCCAAAAAGAGAAAATATTTCTAAATT
*
37583 GGCCCAAATGGTAGAATAATT
1 GGCCCAAATGGTGGAA-AATT
37604 AGATATATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
52 35 0.53
53 5 0.08
54 26 0.39
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (54 bp):
GGCCCAAATGGTGGAAAATTTAGAAATTCCAAAAAGAGAAAATATTTCTAAATT
Found at i:37915 original size:9 final size:9
Alignment explanation
Indices: 37901--37925 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37891 TTCTAGTTTG
37901 TATAATTAC
1 TATAATTAC
37910 TATAATTAC
1 TATAATTAC
37919 TATAATT
1 TATAATT
37926 TTATTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (9 bp):
TATAATTAC
Found at i:38459 original size:26 final size:25
Alignment explanation
Indices: 38430--38481 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
38420 ACAATTAATA
* *
38430 ATTAAAAATATTTTTAATTAATTATT
1 ATTAAAAATAATTTTAAATAA-TATT
**
38456 ATTATTAATAATTTTAAATAATATT
1 ATTAAAAATAATTTTAAATAATATT
38481 A
1 A
38482 AAATTATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTAAAAATAATTTTAAATAATATT
Found at i:38515 original size:25 final size:25
Alignment explanation
Indices: 38469--38516 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
38459 ATTAATAATT
*
38469 TTAAATAATATTAAAATTATTTAAA
1 TTAAATAATATTAAAATAATTTAAA
* * *
38494 TTAATTAATATTCAACTAATTTA
1 TTAAATAATATTAAAATAATTTA
38517 TGAATAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAAATAATATTAAAATAATTTAAA
Found at i:38523 original size:47 final size:47
Alignment explanation
Indices: 38425--38539 Score: 119
Period size: 47 Copynumber: 2.4 Consensus size: 47
38415 TTTAAACAAT
* *
38425 TAATAATTAAAAATATTTTTAATTAATTATTATTATTAATAATTTTAAA
1 TAATAATTAAAATTA-TTTAAATTAATTA-TATTATTAATAATTTTAAA
*
38474 TAAT-ATTAAAATTATTTAAATTAATTA-A-TATTCAACTAATTTATGAA
1 TAATAATTAAAATTATTTAAATTAATTATATTATT-AA-TAATTT-TAAA
38521 TAATAAATTATAAATTATT
1 TAAT-AATTA-AAATTATT
38540 ACTAATATGA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
44 4 0.07
45 3 0.05
46 6 0.11
47 19 0.33
48 9 0.16
49 8 0.14
50 8 0.14
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (47 bp):
TAATAATTAAAATTATTTAAATTAATTATATTATTAATAATTTTAAA
Found at i:38595 original size:36 final size:34
Alignment explanation
Indices: 38528--38595 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 34
38518 GAATAATAAA
* *
38528 TTATAAATTATTACTAATATGATTATTAATATAG
1 TTATAAATTATTAATAATATGATTATAAATATAG
38562 TTATAAATTATATATATAATATTG-TTATAAATAT
1 TTATAAATTAT-TA-ATAATA-TGATTATAAATAT
38596 TATAAGCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 11 0.38
35 2 0.07
36 14 0.48
37 2 0.07
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (34 bp):
TTATAAATTATTAATAATATGATTATAAATATAG
Found at i:38945 original size:16 final size:16
Alignment explanation
Indices: 38905--38946 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
38895 TTAGCTTACT
38905 TTAATT-TAATTAATA
1 TTAATTATAATTAATA
*
38920 TACAAATTATAATTAATA
1 T--TAATTATAATTAATA
38938 TTAATTATA
1 TTAATTATA
38947 TAATTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 1 0.05
16 7 0.32
17 4 0.18
18 10 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATTATAATTAATA
Found at i:39733 original size:30 final size:31
Alignment explanation
Indices: 39681--39738 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
39671 AAAATAAAAT
* *
39681 ATTATTAATAATTGATATTTAT-ATAATTTA
1 ATTATTAATAAATGATAATTATAATAATTTA
39711 ATTATTAATTAAAT-ATAATTATAATAAT
1 ATTATTAA-TAAATGATAATTATAATAAT
39739 AACTAGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (31 bp):
ATTATTAATAAATGATAATTATAATAATTTA
Found at i:40447 original size:25 final size:25
Alignment explanation
Indices: 40419--40483 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
40409 TATGATTATC
** *
40419 AAATATT-TTATATAATTATAGTATT
1 AAATATTATTA-ATAAAAATAGTAAT
40444 AAATATTATTAATAAAAATAGTAAT
1 AAATATTATTAATAAAAATAGTAAT
40469 AATATATTACTTAAT
1 AA-ATATTA-TTAAT
40484 TAATATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 20 0.59
26 9 0.26
27 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (25 bp):
AAATATTATTAATAAAAATAGTAAT
Found at i:40713 original size:21 final size:23
Alignment explanation
Indices: 40671--40718 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
40661 TATAGTTAAT
* *
40671 TAATAATTGATTAATTTTATTA-
1 TAATAATTGATTAAATTAATTAG
*
40693 TAATATTTG-TTAAATTAATTAG
1 TAATAATTGATTAAATTAATTAG
40715 TAAT
1 TAAT
40719 GTAATTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (23 bp):
TAATAATTGATTAAATTAATTAG
Found at i:40743 original size:53 final size:52
Alignment explanation
Indices: 40625--40747 Score: 116
Period size: 50 Copynumber: 2.4 Consensus size: 52
40615 TAGAAATTTC
*
40625 TTATTTATGATTATATTATAATATATATGTTAATTATATAGTTAATTAATAAT
1 TTATTTATAATT-TATTATAATATATATGTTAATTATATAGTTAATTAATAAT
* *
40678 TGA-TTA-ATTTTATTATAATAT-T-TGTTAAATTA-ATTAG-TAATGTAATTAATT
1 TTATTTATAATTTATTATAATATATATGTT-AATTATA-TAGTTAAT-TAA-TAA-T
40729 TTATTTATAATTTA-TATAA
1 TTATTTATAATTTATTATAA
40748 CTTTAAATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
48 9 0.16
49 12 0.21
50 14 0.24
51 5 0.09
52 11 0.19
53 7 0.12
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (52 bp):
TTATTTATAATTTATTATAATATATATGTTAATTATATAGTTAATTAATAAT
Found at i:40868 original size:24 final size:22
Alignment explanation
Indices: 40819--40874 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 22
40809 TAATATATTG
40819 TTATTTATCTAAATATATTATAA
1 TTATTTAT-TAAATATATTATAA
40842 TTATTTATTATATATATAATTAT-A
1 TTATTTATTA-A-ATAT-ATTATAA
40866 TTATTTATT
1 TTATTTATT
40875 TTATTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 2 0.07
23 9 0.30
24 14 0.47
25 5 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTTATTAAATATATTATAA
Found at i:40879 original size:12 final size:12
Alignment explanation
Indices: 40834--40880 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
40824 TATCTAAATA
40834 TATTATAATTATT
1 TATTAT-ATTATT
40847 TATTATA-TATAT
1 TATTATATTAT-T
*
40859 AATTATATTATT
1 TATTATATTATT
*
40871 TATTTTATTA
1 TATTATATTA
40881 ATAATAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 3 0.10
12 17 0.59
13 9 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATATTATT
Found at i:40884 original size:24 final size:23
Alignment explanation
Indices: 40830--40890 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
40820 TATTTATCTA
40830 AATATATTATAATTATTTATTATAT
1 AATA-ATTAT-ATTATTTATTATAT
*
40855 ATATAATTATATTATTTATTTTATT
1 A-ATAATTATATTATTTATTATA-T
*
40880 AATAATAATAT
1 AATAATTATAT
40891 ATCGATACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 21 0.66
25 8 0.25
26 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
AATAATTATATTATTTATTATAT
Done.