Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold182
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: 1166161
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 8 of 10
Found at i:734712 original size:11 final size:13
Alignment explanation
Indices: 734694--734722 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
734684 TATTTGAATT
734694 TAAAA-ATAAATA
1 TAAAATATAAATA
734706 TAAAATATAAATA
1 TAAAATATAAATA
734719 TAAA
1 TAAA
734723 TTTGATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAATATAAATA
Found at i:735410 original size:2 final size:2
Alignment explanation
Indices: 735403--735436 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
735393 AGAAAGAAAG
735403 AT AT AT 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 AT AT AT
735437 TCAGGTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:735725 original size:27 final size:25
Alignment explanation
Indices: 735679--735732 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
735669 TTTAATTTAA
735679 ATTTTTTATATATTTAAAAAAATCAT
1 ATTTTTTATATATTTAAAAAAAT-AT
*
735705 ATTTTTATATTTATATT-AAAAAATAT
1 ATTTTT-TATATAT-TTAAAAAAATAT
735731 AT
1 AT
735733 CAAACAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 10 0.40
27 13 0.52
28 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTTTTATATATTTAAAAAAATAT
Found at i:739910 original size:9 final size:8
Alignment explanation
Indices: 739856--739912 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 8
739846 CTGTGAAATG
739856 ATTA-TAA
1 ATTATTAA
739863 A-TATTAA
1 ATTATTAA
739870 A-TA-TAA
1 ATTATTAA
739876 ATTA-TAA
1 ATTATTAA
739883 ATTATTATA
1 ATTATTA-A
739892 ATTATATAA
1 ATTAT-TAA
739901 ATTAATTAA
1 ATT-ATTAA
739910 ATT
1 ATT
739913 TAAATTTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
6 6 0.14
7 16 0.36
8 2 0.05
9 16 0.36
10 4 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
ATTATTAA
Found at i:741066 original size:13 final size:13
Alignment explanation
Indices: 741048--741074 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
741038 TGCAATCACT
741048 TTCCATAGTCATC
1 TTCCATAGTCATC
741061 TTCCATAGTCATC
1 TTCCATAGTCATC
741074 T
1 T
741075 AGAAGTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.07, T:0.41
Consensus pattern (13 bp):
TTCCATAGTCATC
Found at i:742035 original size:21 final size:22
Alignment explanation
Indices: 741994--742036 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
741984 ATTTGAATTA
741994 TTATTTAAATAATAAAAATATTT
1 TTATTTAAAT-ATAAAAATATTT
*
742017 TTATTTAAAT-TATAAATATT
1 TTATTTAAATATAAAAATATT
742037 AATATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATTTAAATATAAAAATATTT
Found at i:742044 original size:35 final size:35
Alignment explanation
Indices: 742005--742079 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 35
741995 TATTTAAATA
742005 ATAAAAATATTTTT-AT-TTAAATTATAAATATTAAT
1 ATAAAAATATTTTTAATATT--ATTATAAATATTAAT
* *
742040 ATAAAAATATTTTTAATATTATTTTAAATATTGAT
1 ATAAAAATATTTTTAATATTATTATAAATATTAAT
742075 ATAAA
1 ATAAA
742080 CTTTTAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
35 32 0.89
36 2 0.06
37 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (35 bp):
ATAAAAATATTTTTAATATTATTATAAATATTAAT
Found at i:742293 original size:5 final size:5
Alignment explanation
Indices: 742283--742355 Score: 60
Period size: 5 Copynumber: 14.2 Consensus size: 5
742273 AATAATTTTA
* * *
742283 AATAT AATAT AAATAT TATAT AATAAT AATTAA AATAT AATAT AAAAAT
1 AATAT AATAT -AATAT AATAT AAT-AT AA-TAT AATAT AATAT -AATAT
*
742332 AATAT GATAT AATAT -ATA- AATAT A
1 AATAT AATAT AATAT AATAT AATAT A
742356 TAAATATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
4 6 0.11
5 31 0.57
6 16 0.30
7 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:742297 original size:11 final size:11
Alignment explanation
Indices: 742281--742362 Score: 75
Period size: 11 Copynumber: 7.6 Consensus size: 11
742271 TTAATAATTT
742281 TAAATATAATA
1 TAAATATAATA
*
742292 TAAATATTATA
1 TAAATATAATA
742303 T-AATAATAAT-
1 TAAAT-ATAATA
742313 TAAAATATAATA
1 T-AAATATAATA
*
742325 TAAAAATAATA
1 TAAATATAATA
*
742336 T-GATATAATA
1 TAAATATAATA
742346 TATAA-AT-ATA
1 TA-AATATAATA
742356 TAAATAT
1 TAAATAT
742363 GTCAAAATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
9 2 0.03
10 19 0.33
11 32 0.55
12 5 0.09
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (11 bp):
TAAATATAATA
Found at i:742305 original size:16 final size:16
Alignment explanation
Indices: 742283--742362 Score: 83
Period size: 16 Copynumber: 5.0 Consensus size: 16
742273 AATAATTTTA
742283 AATATAATATAAATAT
1 AATATAATATAAATAT
* * *
742299 TATATAATAATAATTAA
1 AATATAAT-ATAAATAT
*
742316 AATATAATATAAAAAT
1 AATATAATATAAATAT
*
742332 AATATGATATAATATAT
1 AATATAATATAA-ATAT
742349 AA-AT-ATATAAATAT
1 AATATAATATAAATAT
742363 GTCAAAATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
14 4 0.08
15 6 0.11
16 25 0.47
17 18 0.34
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (16 bp):
AATATAATATAAATAT
Found at i:742322 original size:33 final size:33
Alignment explanation
Indices: 742272--742362 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 33
742262 TTAAAATATT
* *
742272 TAATAATTTTAAATATAATATAAATATTATATAA
1 TAATAA-TTAAAATATAATATAAATATAATATAA
* *
742306 TAATAATTAAAATATAATATAAAAATAATATGA
1 TAATAATTAAAATATAATATAAATATAATATAA
*
742339 T-ATAATATATAA-AT-ATATAAATAT
1 TAATAAT-TAAAATATAATATAAATAT
742363 GTCAAAATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
31 9 0.18
32 7 0.14
33 28 0.56
34 6 0.12
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (33 bp):
TAATAATTAAAATATAATATAAATATAATATAA
Found at i:742333 original size:28 final size:29
Alignment explanation
Indices: 742288--742361 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 29
742278 TTTTAAATAT
* *
742288 AATATAAATAT-TATATAATAATAAT-TAA
1 AATATAAATATAAAAATAAT-ATAATATAA
*
742316 AATAT-AATATAAAAATAATATGATATAA
1 AATATAAATATAAAAATAATATAATATAA
* *
742344 TATATAAATATATAAATA
1 AATATAAATATAAAAATA
742362 TGTCAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
27 9 0.24
28 18 0.47
29 11 0.29
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (29 bp):
AATATAAATATAAAAATAATATAATATAA
Found at i:742349 original size:56 final size:52
Alignment explanation
Indices: 742289--742419 Score: 126
Period size: 48 Copynumber: 2.5 Consensus size: 52
742279 TTTAAATATA
*
742289 ATATAAATATTATATAATAATAATTAAAATATAATATAAAAATAATATGATATAAT
1 ATATAAATATTATATAATAATAATCAAAAT-TAATAT-AAAATAA-ATGAT-TAAT
* * *
742345 ATATAAATA-TATA-AAT-AT-GTCAAAATTTATATAAAATAAATTATTAAT
1 ATATAAATATTATATAATAATAATCAAAATTAATATAAAATAAATGATTAAT
*
742393 ATATTAATATTTATATAAATATATAAT
1 ATATAAATA-TTATAT-AATA-ATAAT
742420 ATTTTATATA
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
48 12 0.19
49 4 0.06
50 11 0.18
51 5 0.08
52 9 0.15
53 2 0.03
54 5 0.08
55 5 0.08
56 9 0.15
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (52 bp):
ATATAAATATTATATAATAATAATCAAAATTAATATAAAATAAATGATTAAT
Found at i:742413 original size:20 final size:20
Alignment explanation
Indices: 742390--742429 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
742380 ATAAATTATT
742390 AATATATTAATA-TTTATATA
1 AATATA-TAATATTTTATATA
742410 AATATATAATATTTTATATA
1 AATATATAATATTTTATATA
742430 CAATTATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATATAATATTTTATATA
Found at i:743737 original size:16 final size:16
Alignment explanation
Indices: 743716--743755 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
743706 ATTCTAGTAA
743716 ATTATTTTAAAATAAT
1 ATTATTTTAAAATAAT
*
743732 ATTATTTT--GATAAT
1 ATTATTTTAAAATAAT
743746 -TTATTTTAAA
1 ATTATTTTAAA
743756 TTTAACAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
13 7 0.35
14 5 0.25
16 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTATTTTAAAATAAT
Found at i:743737 original size:29 final size:29
Alignment explanation
Indices: 743695--743755 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
743685 AGTCAACATG
743695 AAAACAATAATATTCTAG-TAAATTATTTT
1 AAAACAATAATATT-TAGATAAATTATTTT
* * * *
743724 AAAATAATATTATTTTGATAATTTATTTT
1 AAAACAATAATATTTAGATAAATTATTTT
743753 AAA
1 AAA
743756 TTTAACAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (29 bp):
AAAACAATAATATTTAGATAAATTATTTT
Found at i:744264 original size:36 final size:35
Alignment explanation
Indices: 744203--744301 Score: 110
Period size: 35 Copynumber: 2.7 Consensus size: 35
744193 AGTTTGAATT
* *
744203 AATTAAAAAATTAATTTTATTATTTAAAATATATTAA
1 AATT-AAAAA-TATTTTTATTATTTAAAATAAATTAA
* **
744240 AAGTTAAAAATATTTTTATAATTTATTTATAAATTAA
1 AA-TTAAAAATATTTTTATTATTTA-AAATAAATTAA
744277 AATT-AAAATATTTTTATTATTTAAA
1 AATTAAAAATATTTTTATTATTTAAA
744302 TAATAACTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
35 18 0.35
36 15 0.29
37 17 0.33
38 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (35 bp):
AATTAAAAATATTTTTATTATTTAAAATAAATTAA
Found at i:744313 original size:36 final size:36
Alignment explanation
Indices: 744208--744313 Score: 110
Period size: 36 Copynumber: 2.9 Consensus size: 36
744198 GAATTAATTA
*
744208 AAAAATTAATTTTATTATTTAA-AATATATTAAAAGTT
1 AAAAA-TATTTTTATTATTTAATAATA-ATTAAAAGTT
* * *
744245 AAAAATATTTTTATAATTTATTTATAAATTAAAA-TT
1 AAAAATATTTTTATTATTTAATAAT-AATTAAAAGTT
744281 -AAAATATTTTTATTATTTAAATAATAACTTAAA
1 AAAAATATTTTTATTATTT-AATAATAA-TTAAA
744314 TCAAATTGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
35 19 0.33
36 24 0.41
37 14 0.24
38 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (36 bp):
AAAAATATTTTTATTATTTAATAATAATTAAAAGTT
Found at i:744557 original size:11 final size:10
Alignment explanation
Indices: 744536--744618 Score: 51
Period size: 10 Copynumber: 7.7 Consensus size: 10
744526 AAAAAATTAT
*
744536 TTTATTTAAA
1 TTTAATTAAA
744546 TTTAATTAAAA
1 TTTAATT-AAA
744557 TATTAATATAAAA
1 T-TTAAT-T-AAA
*
744570 TATT-TTTAAA
1 T-TTAATTAAA
* *
744580 TAATAAATAAA
1 T-TTAATTAAA
*
744591 TTTAATTTAA
1 TTTAATTAAA
744601 TTTAATTTAAA
1 TTTAA-TTAAA
744612 TTTAATT
1 TTTAATT
744619 TAACTTAAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
10 25 0.42
11 19 0.32
12 6 0.10
13 9 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TTTAATTAAA
Found at i:744599 original size:5 final size:5
Alignment explanation
Indices: 744589--744626 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
744579 ATAATAAATA
*
744589 AATTT AATTT AATTT AATTT AAATTT AATTT AACTT AA
1 AATTT AATTT AATTT AATTT -AATTT AATTT AATTT AA
744627 ACTTTAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (5 bp):
AATTT
Found at i:744604 original size:55 final size:57
Alignment explanation
Indices: 744497--744617 Score: 149
Period size: 58 Copynumber: 2.1 Consensus size: 57
744487 AATTTGAGTT
* * * *
744497 AATTTAATTTAAATTATTATTTATATAATAAAAAATTATTTTATTTAAATTTAATTAA
1 AATTTAATATAAAATATTATTTAAATAATAAAAAA-TATTTAATTTAAATTTAATTAA
* *
744555 AATATTAATATAAAATATT-TTTAAATAATAAATAA-ATTTAATTT-AATTTAATTTA
1 AAT-TTAATATAAAATATTATTTAAATAATAAAAAATATTTAATTTAAATTTAATTAA
744610 AATTTAAT
1 AATTTAAT
744618 TTAACTTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
54 5 0.09
55 13 0.23
56 8 0.14
58 17 0.30
59 13 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (57 bp):
AATTTAATATAAAATATTATTTAAATAATAAAAAATATTTAATTTAAATTTAATTAA
Found at i:744611 original size:21 final size:21
Alignment explanation
Indices: 744587--744626 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
744577 AAATAATAAA
*
744587 TAAATTTAATTTAATTTAATT
1 TAAATTTAATTTAACTTAATT
744608 TAAATTTAATTTAACTTAA
1 TAAATTTAATTTAACTTAA
744627 ACTTTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAATTTAATTTAACTTAATT
Found at i:744615 original size:16 final size:16
Alignment explanation
Indices: 744589--744634 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
744579 ATAATAAATA
744589 AATTT-AATTTAATTT
1 AATTTAAATTTAATTT
744604 AATTTAAATTTAATTT
1 AATTTAAATTTAATTT
*
744620 AACTTAAACTTTAAT
1 AATTTAAA-TTTAAT
744635 AAAAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 5 0.18
16 17 0.61
17 6 0.21
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTAAATTTAATTT
Found at i:744619 original size:11 final size:11
Alignment explanation
Indices: 744534--744621 Score: 67
Period size: 11 Copynumber: 8.0 Consensus size: 11
744524 ATAAAAAATT
*
744534 ATTTTATTTAA
1 ATTTAATTTAA
*
744545 ATTTAATTAAA
1 ATTTAATTTAA
*
744556 ATATTAATATAAA
1 AT-TTAAT-TTAA
744569 ATATT--TTTAA
1 AT-TTAATTTAA
* *
744579 ATAATAA-ATAA
1 AT-TTAATTTAA
744590 ATTTAATTT-A
1 ATTTAATTTAA
744600 ATTTAATTTAA
1 ATTTAATTTAA
744611 ATTTAATTTAA
1 ATTTAATTTAA
744622 CTTAAACTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
10 20 0.31
11 30 0.47
12 5 0.08
13 9 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTAATTTAA
Found at i:744916 original size:22 final size:23
Alignment explanation
Indices: 744871--744916 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
744861 AATAAAATAA
744871 TTAAAATATAATATAAATATATT
1 TTAAAATATAATATAAATATATT
*
744894 TTAAAAT-TTATATAAGATA-ATT
1 TTAAAATATAATATAA-ATATATT
744916 T
1 T
744917 ATTCACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
TTAAAATATAATATAAATATATT
Found at i:747951 original size:52 final size:53
Alignment explanation
Indices: 747873--747975 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 53
747863 TAATTATATA
* * * * *
747873 ATATATTAATTTTATATTTTATATATTAAAAAA-A-ATTTATTATATAAAAAT
1 ATATATTAATATTATAATATAAATATTAAAAAATATATTAATTATATAAAAAT
*
747924 ATATATGTAATATTATAATATAAATATTAAAAAATATATTAATTATTTAAAA
1 ATATAT-TAATATTATAATATAAATATTAAAAAATATATTAATTATATAAAA
747976 TTTAAAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
51 6 0.14
52 23 0.53
53 1 0.02
54 13 0.30
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (53 bp):
ATATATTAATATTATAATATAAATATTAAAAAATATATTAATTATATAAAAAT
Found at i:751409 original size:2 final size:2
Alignment explanation
Indices: 751402--751437 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
751392 GGATTCGTCT
751402 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
751438 ATTGCATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:751564 original size:18 final size:19
Alignment explanation
Indices: 751520--751566 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
751510 TAAATATATT
* *
751520 AATATTTAACAAAAATACA
1 AATATTTTATAAAAATACA
* *
751539 ATTCTTTTATAAAAATA-A
1 AATATTTTATAAAAATACA
751557 AATATTTTAT
1 AATATTTTAT
751567 TTATCAGATT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
AATATTTTATAAAAATACA
Found at i:752910 original size:30 final size:30
Alignment explanation
Indices: 752861--752918 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
752851 AAATTATTAA
752861 TATAAATTTATTTAATATATATTGTTTATTT
1 TATAAATTTATTTAATATATATT-TTTATTT
* *
752892 TATAATTTTATTT-TTATATATTTTTAT
1 TATAAATTTATTTAATATATATTTTTAT
752919 CAATTGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 8 0.32
31 12 0.48
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (30 bp):
TATAAATTTATTTAATATATATTTTTATTT
Found at i:754811 original size:3 final size:3
Alignment explanation
Indices: 754805--754832 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
754795 CAACAACAGC
754805 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
754833 GATGTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:761048 original size:21 final size:21
Alignment explanation
Indices: 761022--761063 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
761012 GGAGTTTAGC
*
761022 CATTTAATAAGAATATTATGT
1 CATTTAATAAGAAAATTATGT
*
761043 CATTTAATGAGAAAATTATGT
1 CATTTAATAAGAAAATTATGT
761064 TTGGACTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (21 bp):
CATTTAATAAGAAAATTATGT
Found at i:761177 original size:13 final size:13
Alignment explanation
Indices: 761159--761213 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
761149 AATTAGTATA
761159 ATAATTTATCATC
1 ATAATTTATCATC
* * *
761172 ATAATTTTTTATT
1 ATAATTTATCATC
761185 A-AATTTAT-AT-
1 ATAATTTATCATC
761195 ATTAATTTATCATC
1 A-TAATTTATCATC
761209 ATAAT
1 ATAAT
761214 CCATCACATC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 1 0.03
11 2 0.06
12 13 0.38
13 17 0.50
14 1 0.03
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (13 bp):
ATAATTTATCATC
Found at i:762517 original size:38 final size:38
Alignment explanation
Indices: 762465--762537 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
762455 TAAAAACAAG
*
762465 TTTTAGAAGGTTGTA-TCACAGATTTATTGAAGGATAAA
1 TTTTAGAAGATTGTACT-ACAGATTTATTGAAGGATAAA
*
762503 TTTTAGAAGATTGTACTATAGATTTATTGAAGGAT
1 TTTTAGAAGATTGTACTACAGATTTATTGAAGGAT
762538 GAAGGGTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
38 31 0.97
39 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (38 bp):
TTTTAGAAGATTGTACTACAGATTTATTGAAGGATAAA
Found at i:765496 original size:33 final size:33
Alignment explanation
Indices: 765429--765489 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
765419 ACAAAACTTT
* *
765429 AAGAGAAATAATAACAATAAAATAAAGTCAATA
1 AAGAGAAATAATAACAATAAAAAAAAATCAATA
*
765462 AAGAGAAA-AATTACAA-AAAAAAAAATCA
1 AAGAGAAATAATAACAATAAAAAAAAATCA
765490 CGATAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 10 0.40
32 7 0.28
33 8 0.32
ACGTcount: A:0.70, C:0.07, G:0.08, T:0.15
Consensus pattern (33 bp):
AAGAGAAATAATAACAATAAAAAAAAATCAATA
Found at i:769198 original size:11 final size:11
Alignment explanation
Indices: 769176--769233 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
769166 CTACCTTAAT
769176 TATATAATATA
1 TATATAATATA
* *
769187 TATTTTATATA
1 TATATAATATA
769198 TA-AT-ATATA
1 TATATAATATA
*
769207 TATAAGTAATAGA
1 TAT-A-TAATATA
769220 TATATAATAT-
1 TATATAATATA
769230 TATA
1 TATA
769234 GGGTATATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
9 7 0.18
10 5 0.13
11 17 0.45
12 2 0.05
13 7 0.18
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
TATATAATATA
Found at i:770643 original size:20 final size:21
Alignment explanation
Indices: 770620--770659 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
770610 TTTTTTTATA
770620 ATTTAAATTA-ATTTAATTTG
1 ATTTAAATTATATTTAATTTG
770640 ATTTAAATTATTATTTAATT
1 ATTTAAATTA-TATTTAATT
770660 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTTAAATTATATTTAATTTG
Found at i:771215 original size:2 final size:2
Alignment explanation
Indices: 771210--771236 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
771200 TTTGTCCAAA
771210 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
771237 CACACACGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:771637 original size:38 final size:38
Alignment explanation
Indices: 771571--771647 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
771561 CTGCATAAAA
* *
771571 ATAATTTTTAGAAGATCGTATTACAGATTTATTGAAGG
1 ATAAATTTTAGAAGATCGTACTACAGATTTATTGAAGG
* *
771609 ATAAATTTTAGAAGATTGTACTATAGATTTATTGAAGG
1 ATAAATTTTAGAAGATCGTACTACAGATTTATTGAAGG
771647 A
1 A
771648 GAAAGGATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (38 bp):
ATAAATTTTAGAAGATCGTACTACAGATTTATTGAAGG
Found at i:773982 original size:4 final size:4
Alignment explanation
Indices: 773975--774030 Score: 103
Period size: 4 Copynumber: 13.8 Consensus size: 4
773965 GTTTATATAT
773975 ATAC ATAC TATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
774024 ATAC ATA
1 ATAC ATA
774031 TATGCAGCCA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 47 0.92
5 4 0.08
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:775913 original size:2 final size:2
Alignment explanation
Indices: 775906--775935 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
775896 GCATTGTCAC
775906 AT 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 AT
775936 TGTAGCACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:778276 original size:19 final size:20
Alignment explanation
Indices: 778254--778302 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
778244 TTAAATTTTT
778254 TATAAATATTTATATTT-AA
1 TATAAATATTTATATTTAAA
778273 TATATAATA--TATATTTAAA
1 TATA-AATATTTATATTTAAA
778292 TATAAAATATT
1 TAT-AAATATT
778303 AAAAAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
18 7 0.28
19 13 0.52
20 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAAATATTTATATTTAAA
Found at i:781604 original size:2 final size:2
Alignment explanation
Indices: 781597--781627 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
781587 TCTAATACTG
781597 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
781628 GTTATTGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:785837 original size:21 final size:22
Alignment explanation
Indices: 785795--785837 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
785785 TCTCCTATCC
* *
785795 TATCTCCTACTTAATCTTTAAA
1 TATCTCCTACTTAATATCTAAA
*
785817 TATCTCC-ACTTGATATCTAAA
1 TATCTCCTACTTAATATCTAAA
785838 CTCGAACTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (22 bp):
TATCTCCTACTTAATATCTAAA
Found at i:786515 original size:2 final size:2
Alignment explanation
Indices: 786510--786541 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
786500 AATTTTTTTC
786510 AT AT 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 AT AT
786542 TCATAGTGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:787483 original size:29 final size:29
Alignment explanation
Indices: 787450--787506 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
787440 TTTTATTTTA
* *
787450 TTTTAATT-ATTTTTATTTAATAAAAATAC
1 TTTTAATTAAATTTTAATT-ATAAAAATAC
*
787479 TTTTATTTAAATTTTAATTATAAAAATA
1 TTTTAATTAAATTTTAATTATAAAAATA
787507 TATAACTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
TTTTAATTAAATTTTAATTATAAAAATAC
Found at i:787550 original size:14 final size:14
Alignment explanation
Indices: 787531--787557 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
787521 ATTTAAAATA
787531 AAAAATTAAATTTT
1 AAAAATTAAATTTT
787545 AAAAATTAAATTT
1 AAAAATTAAATTT
787558 AAATAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAAATTAAATTTT
Found at i:787942 original size:21 final size:20
Alignment explanation
Indices: 787918--788000 Score: 65
Period size: 21 Copynumber: 4.5 Consensus size: 20
787908 ATCAATATAA
*
787918 AATTTAAATAAGAGTTT-TTTT
1 AATTTAAATAA-A-TTTAATTT
787939 AATTTAAATAAATTTAATTT
1 AATTTAAATAAATTTAATTT
*
787959 AATTT-AAT-TA-TT-ATTT
1 AATTTAAATAAATTTAATTT
787975 AA-TT-AATAAATTT-ATTT
1 AATTTAAATAAATTTAATTT
*
787992 TATTTAAAT
1 AATTTAAAT
788001 TTAATTAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
15 5 0.09
16 7 0.13
17 9 0.17
18 3 0.06
19 9 0.17
20 9 0.17
21 11 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTAAATAAATTTAATTT
Found at i:787957 original size:5 final size:5
Alignment explanation
Indices: 787936--788006 Score: 58
Period size: 5 Copynumber: 14.4 Consensus size: 5
787926 TAAGAGTTTT
* * * *
787936 TTTAA TTTAA ATAAA TTTAA TTTAA TTTAA TTATTA TTTAA -TTAA -TAAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TT-TAA TTTAA TTTAA TTTAA
*
787985 TTT-A TTTTA TTTAAA TTTAA TT
1 TTTAA TTTAA TTT-AA TTTAA TT
788007 AAAAATTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
4 11 0.21
5 34 0.64
6 8 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TTTAA
Found at i:788618 original size:2 final size:2
Alignment explanation
Indices: 788611--788643 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
788601 ATAGTATTCT
788611 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
788644 ACCATATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:792177 original size:16 final size:16
Alignment explanation
Indices: 792156--792198 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
792146 AAAATATATT
*
792156 TAAATATTAAATATAA
1 TAAATATTAAATAAAA
*
792172 TAAATATTTAATAAAA
1 TAAATATTAAATAAAA
792188 TATAA-ATTAAA
1 TA-AATATTAAA
792199 CCAAATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAATATTAAATAAAA
Found at i:792481 original size:17 final size:17
Alignment explanation
Indices: 792442--792486 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
792432 TTATATTTTT
792442 TTTAAT-TTTTTAAAAA
1 TTTAATATTTTTAAAAA
* *
792458 TAT-ATATTTTTAATAA
1 TTTAATATTTTTAAAAA
792474 TTTAATATTTTTA
1 TTTAATATTTTTA
792487 TTAAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 2 0.08
16 13 0.54
17 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTAATATTTTTAAAAA
Found at i:792645 original size:16 final size:16
Alignment explanation
Indices: 792609--792656 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
792599 TCAAAGATTT
792609 AATTTATTTTTAAATA
1 AATTTATTTTTAAATA
*
792625 AATTTTATTTTT-ATTA
1 AA-TTTATTTTTAAATA
*
792641 TATTTATTTTTTAAAT
1 AATTTA-TTTTTAAAT
792657 TTAATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 4 0.15
16 11 0.42
17 11 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTTATTTTTAAATA
Found at i:792679 original size:31 final size:30
Alignment explanation
Indices: 792605--792681 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
792595 AAAGTCAAAG
792605 ATTTAATTTATTTTTAAATAAATTTTATTTTT
1 ATTTAATTTATTTTT--ATAAATTTTATTTTT
792637 A-TTATATTTATTTTT-TAAATTTAATATTTTT
1 ATTTA-ATTTATTTTTATAAATTT--TATTTTT
*
792668 ATTTAAATTATTTT
1 ATTTAATTTATTTT
792682 AAATATTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
29 7 0.17
31 19 0.47
32 14 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
ATTTAATTTATTTTTATAAATTTTATTTTT
Found at i:798262 original size:20 final size:22
Alignment explanation
Indices: 798202--798283 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
798192 AGTGAGTGTT
* *
798202 AATTATGTTTATATTTTTTATATA
1 AATTATATTTATATATTTTA-A-A
* * *
798226 AA-TATATATA-ATTTTTTTAA
1 AATTATATTTATATATTTTAAA
798246 AATT-T-TTTATATATTTTAAA
1 AATTATATTTATATATTTTAAA
*
798266 AATTATATTTTTATATTT
1 AATTATATTTATATATTT
798284 ATATCTAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
19 3 0.06
20 16 0.34
21 3 0.06
22 17 0.36
23 6 0.13
24 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (22 bp):
AATTATATTTATATATTTTAAA
Found at i:798631 original size:13 final size:13
Alignment explanation
Indices: 798606--798647 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
798596 TTTAATTAAA
798606 AATATATAAATATT
1 AATATA-AAATATT
798620 AATATAAAATATT
1 AATATAAAATATT
* *
798633 ATTTTAAAA-ATT
1 AATATAAAATATT
798645 AAT
1 AAT
798648 TTGATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 5 0.20
13 14 0.56
14 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATATAAAATATT
Found at i:799230 original size:15 final size:15
Alignment explanation
Indices: 799212--799240 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
799202 TAAATATCGA
799212 ATATAAATATATTTT
1 ATATAAATATATTTT
799227 ATATAAATATATTT
1 ATATAAATATATTT
799241 AAATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATAAATATATTTT
Found at i:799865 original size:2 final size:2
Alignment explanation
Indices: 799858--799896 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
799848 CTCCATGAAA
* *
799858 AT AT AT AT AT AT TT AT AC AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
799897 AAAGACATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:801101 original size:23 final size:24
Alignment explanation
Indices: 801069--801113 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
801059 AGAACATCGA
801069 GTATAAATATATTTA-ATTTTTAC
1 GTATAAATATATTTATATTTTTAC
* *
801092 GTATATATATTTTTATATTTTT
1 GTATAAATATATTTATATTTTT
801114 CAAAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
GTATAAATATATTTATATTTTTAC
Found at i:807943 original size:14 final size:14
Alignment explanation
Indices: 807926--807967 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
807916 ATTTCAATAC
807926 ATATATAAATATAA
1 ATATATAAATATAA
*
807940 ATATAAAAATAT-A
1 ATATATAAATATAA
* *
807953 ATTTTTAAATATAA
1 ATATATAAATATAA
807967 A
1 A
807968 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATATAAATATAA
Found at i:808728 original size:37 final size:39
Alignment explanation
Indices: 808651--808731 Score: 112
Period size: 37 Copynumber: 2.1 Consensus size: 39
808641 TTATTGTTAA
*
808651 ATTAAATTATTATTAAGTTATATTCTAATTCAAATGTAT
1 ATTAAATTATTATTAAGTTATATTCTAATTCAAATATAT
* * *
808690 ATTAAA-TATTTTTAAGTTAT-TTTTAATTCAATTATAT
1 ATTAAATTATTATTAAGTTATATTCTAATTCAAATATAT
808727 ATTAA
1 ATTAA
808732 CTTTGAATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 19 0.50
38 13 0.34
39 6 0.16
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (39 bp):
ATTAAATTATTATTAAGTTATATTCTAATTCAAATATAT
Found at i:808840 original size:18 final size:19
Alignment explanation
Indices: 808814--808862 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
808804 TAAAATTGGT
*
808814 TAAAGAAAAATA-AAAAAA
1 TAAAAAAAAATATAAAAAA
* *
808832 TAAAAAAAAATATCAAATA
1 TAAAAAAAAATATAAAAAA
*
808851 TATAAAAAAATA
1 TAAAAAAAAATA
808863 CATTTTATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (19 bp):
TAAAAAAAAATATAAAAAA
Found at i:813453 original size:16 final size:16
Alignment explanation
Indices: 813420--813467 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
813410 TAATTTAATT
* *
813420 TAAAATAAATATTTAA
1 TAAAATATATACTTAA
* *
813436 TATAATTTATACTTAA
1 TAAAATATATACTTAA
*
813452 TAAAATATATATTTAA
1 TAAAATATATACTTAA
813468 CTTAATCAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAAATATATACTTAA
Found at i:813460 original size:21 final size:21
Alignment explanation
Indices: 813434--813486 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
813424 ATAAATATTT
813434 AATATA-ATTTATACTTAATAA
1 AATATATATTTA-ACTTAATAA
*
813455 AATATATATTTAACTTAATCA
1 AATATATATTTAACTTAATAA
813476 AATA-AT-TTTAA
1 AATATATATTTAA
813487 TATAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 5 0.17
20 2 0.07
21 18 0.60
22 5 0.17
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATATATTTAACTTAATAA
Found at i:817149 original size:16 final size:15
Alignment explanation
Indices: 817128--817219 Score: 54
Period size: 16 Copynumber: 6.1 Consensus size: 15
817118 AAAAATATTT
817128 TAAATTTTATATAATA
1 TAAA-TTTATATAATA
817144 TAAA-TTAT-TAATA
1 TAAATTTATATAATA
817157 TTAAAATTTATATAAATA
1 -T-AAATTTATAT-AATA
*
817175 TAAAATATTTTA-AATA
1 T-AAAT-TTATATAATA
817191 T-AATTATAATATAATA
1 TAAATT-T-ATATAATA
817207 -AAA--TATATAATA
1 TAAATTTATATAATA
817219 T
1 T
817220 GATATAGATA
Statistics
Matches: 63, Mismatches: 2, Indels: 25
0.70 0.02 0.28
Matches are distributed among these distances:
12 8 0.13
13 7 0.11
14 9 0.14
15 5 0.08
16 19 0.30
17 7 0.11
18 8 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATTTATATAATA
Found at i:817199 original size:58 final size:59
Alignment explanation
Indices: 817094--817204 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 59
817084 TGATATAAAA
* *
817094 AATATTAAAATACTATAAAAATATAAAAATATTTTAAATTTTATATAATATAAATTATT
1 AATATTAAAATACTATAAAAATATAAAAATATTTTAAATATAATATAATATAAATTATT
* *
817153 AATATTAAAAT-TTATATAAATAT-AAAATATTTTAAATATAATTATAATATAA
1 AATATTAAAATACTATAAAAATATAAAAATATTTTAAATATAA-TATAATATAA
817205 TAAAATATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
57 16 0.34
58 20 0.43
59 11 0.23
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (59 bp):
AATATTAAAATACTATAAAAATATAAAAATATTTTAAATATAATATAATATAAATTATT
Found at i:817233 original size:57 final size:58
Alignment explanation
Indices: 817113--817239 Score: 140
Period size: 57 Copynumber: 2.2 Consensus size: 58
817103 ATACTATAAA
* * * *
817113 AATATA-AAAATATTTTAAATTTTATATAATATAAATTATTAATATTAAAATTTATAT
1 AATATATAAAATATTTTAAATATAATATAATATAAATTATAAATATTAAAATTGATAT
*
817170 AA-ATATAAAATATTTTAAATATAATTATAATAT-AA-TA-AAATA-TATAATATGATAT
1 AATATATAAAATATTTTAAATATAA-TATAATATAAATTATAAATATTAAAAT-TGATAT
817225 AGATATATAAAATAT
1 A-ATATATAAAATAT
817240 CAAATTTAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
54 5 0.08
55 10 0.17
56 6 0.10
57 31 0.52
58 8 0.13
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (58 bp):
AATATATAAAATATTTTAAATATAATATAATATAAATTATAAATATTAAAATTGATAT
Found at i:819985 original size:22 final size:22
Alignment explanation
Indices: 819959--820009 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
819949 TTTTTAATAA
*
819959 TAATAATTCATAAAAATTAATC
1 TAATAATTCAAAAAAATTAATC
* *
819981 TAAT-ATTTAAAAAAATTTATC
1 TAATAATTCAAAAAAATTAATC
820002 TAA-AATTC
1 TAATAATTC
820010 GATCGACTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (22 bp):
TAATAATTCAAAAAAATTAATC
Found at i:826442 original size:24 final size:22
Alignment explanation
Indices: 826415--826478 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
826405 AAATATATTT
* *
826415 TTATAATTATTTTTATTTTGATTA
1 TTATAATTA-TTTAATTTT-ATAA
826439 TTATAA-TATTTAATTTTATAA
1 TTATAATTATTTAATTTTATAA
*
826460 TTATAA-TAATTAATTTTAT
1 TTATAATTATTTAATTTTAT
826479 TACCTATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 21 0.57
22 8 0.22
23 2 0.05
24 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TTATAATTATTTAATTTTATAA
Found at i:826852 original size:29 final size:30
Alignment explanation
Indices: 826746--826854 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 30
826736 AGTATAGTAT
* *
826746 TAATATTTTTTTTATAATATTAATTTATATTA
1 TAATATATTTTTTA-AATATTTATTTATA-TA
* * *
826778 TTATCGATATGTTTTAATATATTTATTTAAATA
1 TAAT--ATATTTTTTAA-ATATTTATTTATATA
*
826811 TGATA-ATATTTTTAAA-ATTTATTTATATA
1 TAATATAT-TTTTTAAATATTTATTTATATA
826840 TAATATATTTTTTAA
1 TAATATATTTTTTAA
826855 TTTTTTAATA
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
29 23 0.37
30 5 0.08
31 7 0.11
32 3 0.05
33 6 0.10
34 19 0.30
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.58
Consensus pattern (30 bp):
TAATATATTTTTTAAATATTTATTTATATA
Found at i:826960 original size:27 final size:28
Alignment explanation
Indices: 826908--826970 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
826898 ATCACACATA
826908 TTTATATTTTTATACGTAAATATT-AATT
1 TTTA-ATTTTTATACGTAAATATTAAATT
* *
826936 TTTAATTTTTATA-TTTAATATTTAAAATT
1 TTTAATTTTTATACGTAAATA-TT-AAATT
826965 TTTAAT
1 TTTAAT
826971 GATCAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 5 0.17
27 11 0.37
28 4 0.13
29 10 0.33
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTAATTTTTATACGTAAATATTAAATT
Found at i:827030 original size:24 final size:23
Alignment explanation
Indices: 826995--827048 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
826985 AGTAAAATAA
* *
826995 ATTTTAA-AAAATATCATAAATT
1 ATTTTAATCAAATATAATAAATT
* *
827017 ATTATTAATCAAATTTAATAACTT
1 ATT-TTAATCAAATATAATAAATT
827041 ATTTTAAT
1 ATTTTAAT
827049 AAACATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.12
23 9 0.35
24 14 0.54
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTTAATCAAATATAATAAATT
Found at i:827470 original size:30 final size:30
Alignment explanation
Indices: 827434--827549 Score: 128
Period size: 30 Copynumber: 3.9 Consensus size: 30
827424 TATATTAAAG
* *
827434 ATTTATTTAAATATAATTTAAAAATTAAGA
1 ATTTATTTAAATAAAATTTAAAAATTAATA
** * *
827464 GCTTATTTGATTAAAATTTAAAAATTAATA
1 ATTTATTTAAATAAAATTTAAAAATTAATA
*
827494 ATTTATTTAAATATAA--TAAAAATATAATA
1 ATTTATTTAAATAAAATTTAAAAAT-TAATA
*
827523 ATTTATTTAAATAAAATAATAAAAATT
1 ATTTATTTAAATAAAAT-TTAAAAATT
827550 TTTAAAAATT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
28 7 0.10
29 20 0.29
30 35 0.50
31 1 0.01
32 7 0.10
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (30 bp):
ATTTATTTAAATAAAATTTAAAAATTAATA
Found at i:827512 original size:18 final size:18
Alignment explanation
Indices: 827479--827542 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 18
827469 TTTGATTAAA
*
827479 ATTTAAAAATTAATAATTT
1 ATTTAAATA-TAATAATTT
827498 ATTTAAATATAAT-A---
1 ATTTAAATATAATAATTT
827512 A---AAATATAATAATTT
1 ATTTAAATATAATAATTT
*
827527 ATTTAAATAAAATAAT
1 ATTTAAATATAATAAT
827543 AAAAATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 15
0.68 0.04 0.28
Matches are distributed among these distances:
11 9 0.25
12 1 0.03
14 1 0.03
15 1 0.03
17 1 0.03
18 15 0.42
19 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAAATATAATAATTT
Found at i:827538 original size:24 final size:26
Alignment explanation
Indices: 827482--827536 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 26
827472 GATTAAAATT
827482 TAAAAATTAATAATTTATTTAAATATAA
1 TAAAAATTAATAATTTATTT--ATATAA
*
827510 TAAAAATATAATAATTTATTTAAATAA
1 TAAAAAT-TAATAATTTATTTATATAA
827537 AATAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 5 0.20
28 7 0.28
29 13 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAAATTAATAATTTATTTATATAA
Found at i:827546 original size:60 final size:59
Alignment explanation
Indices: 827434--827549 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 59
827424 TATATTAAAG
* * * *
827434 ATTTATTTAAATATAATTTAAAAATTAAGAGCTTATTTGATTAAAATTTAAAAATTAATA
1 ATTTATTTAAATATAA-TTAAAAATTAAGAACTTATTTAAATAAAATATAAAAATTAATA
* *
827494 ATTTATTTAAATATAA-TAAAAATATAATAATTTATTTAAATAAAATAATAAAAATT
1 ATTTATTTAAATATAATTAAAAAT-TAAGAACTTATTTAAATAAAAT-ATAAAAATT
827550 TTTAAAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 7 0.15
59 17 0.35
60 24 0.50
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (59 bp):
ATTTATTTAAATATAATTAAAAATTAAGAACTTATTTAAATAAAATATAAAAATTAATA
Found at i:827669 original size:22 final size:21
Alignment explanation
Indices: 827624--827665 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
827614 TAAAATAATT
*
827624 TTATTTAAAATTAATTATAAA
1 TTATATAAAATTAATTATAAA
827645 TTATATAAATATTAA-TATAAA
1 TTATATAAA-ATTAATTATAAA
827666 ATTAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTATATAAAATTAATTATAAA
Found at i:827670 original size:11 final size:11
Alignment explanation
Indices: 827629--827673 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
827619 TAATTTTATT
827629 TAAAATTAAT-
1 TAAAATTAATA
827639 TATAAATT-ATA
1 TA-AAATTAATA
827650 TAAATATTAATA
1 TAAA-ATTAATA
827662 TAAAATTAATA
1 TAAAATTAATA
827673 T
1 T
827674 TTTTAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.19
11 18 0.58
12 7 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:828404 original size:14 final size:15
Alignment explanation
Indices: 828379--828407 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
828369 TAATTTTTAA
828379 AAAAATTATATATTT
1 AAAAATTATATATTT
828394 AAAAATT-TATATTT
1 AAAAATTATATATTT
828408 TTATTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAAATTATATATTT
Found at i:829797 original size:12 final size:13
Alignment explanation
Indices: 829780--829808 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
829770 AAATGTTAAA
829780 TATATATG-TATT
1 TATATATGATATT
829792 TATATATGATATT
1 TATATATGATATT
829805 TATA
1 TATA
829809 CTCGAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (13 bp):
TATATATGATATT
Found at i:833801 original size:12 final size:12
Alignment explanation
Indices: 833784--833808 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
833774 ATTTGAGATT
833784 ATTTTTTAAATA
1 ATTTTTTAAATA
833796 ATTTTTTAAATA
1 ATTTTTTAAATA
833808 A
1 A
833809 AAAATATTTT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTTTTAAATA
Found at i:833891 original size:65 final size:66
Alignment explanation
Indices: 833815--833951 Score: 249
Period size: 65 Copynumber: 2.1 Consensus size: 66
833805 ATAAAAAATA
833815 TTTTTTTCAATGAGAGATTATATTTTTTAGTATATTTAA-TTTTTTTATAAAAATAATTTGAGAT
1 TTTTTTTCAATGAGAGATTATATTTTTTAGTATATTTAATTTTTTTTATAAAAATAATTTGAGAT
833879 T
66 T
*
833880 TTTTTTTCAATGTGAGATTATATTTTTTAGTATATTTAATTTTTTTTATAAAAATAATTTGAGAT
1 TTTTTTTCAATGAGAGATTATATTTTTTAGTATATTTAATTTTTTTTATAAAAATAATTTGAGAT
833945 T
66 T
*
833946 ATTTTT
1 TTTTTT
833952 CTAATATATT
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 38 0.55
66 31 0.45
ACGTcount: A:0.32, C:0.01, G:0.09, T:0.58
Consensus pattern (66 bp):
TTTTTTTCAATGAGAGATTATATTTTTTAGTATATTTAATTTTTTTTATAAAAATAATTTGAGAT
T
Found at i:834136 original size:20 final size:20
Alignment explanation
Indices: 834102--834146 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
834092 AATCAAACTT
834102 ATTTATTAATAAAAAATTAA
1 ATTTATTAATAAAAAATTAA
* * * *
834122 TTTTATTTATCAAAATTTAA
1 ATTTATTAATAAAAAATTAA
834142 ATTTA
1 ATTTA
834147 AATTAATACT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTATTAATAAAAAATTAA
Found at i:838608 original size:28 final size:28
Alignment explanation
Indices: 838577--838637 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
838567 ATTTATTTAC
*
838577 TTAAT-AAAATGAAAATTTAAATATTAAA
1 TTAATAAAAAT-AAAATTTAAATATCAAA
*
838605 TTAATAAAAAATAAAATTTATATATCAAA
1 TTAAT-AAAAATAAAATTTAAATATCAAA
838634 TTAA
1 TTAA
838638 AAATTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 5 0.17
29 19 0.66
30 5 0.17
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
TTAATAAAAATAAAATTTAAATATCAAA
Found at i:839799 original size:24 final size:26
Alignment explanation
Indices: 839748--839801 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
839738 AATGTTATGA
839748 ATTATGTAAAATAAATATATTTTAAT
1 ATTATGTAAAATAAATATATTTTAAT
*
839774 ATTAT-TAAAAT-ATTATA-TTTATAT
1 ATTATGTAAAATAAATATATTTTA-AT
839798 ATTA
1 ATTA
839802 ATATTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 4 0.15
24 11 0.42
25 6 0.23
26 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
ATTATGTAAAATAAATATATTTTAAT
Found at i:839807 original size:14 final size:13
Alignment explanation
Indices: 839763--839813 Score: 52
Period size: 14 Copynumber: 4.0 Consensus size: 13
839753 GTAAAATAAA
*
839763 TATATTTTAATA-
1 TATATTTAAATAT
*
839775 T-TATTAAAATAT
1 TATATTTAAATAT
*
839787 TATATTTATATAT
1 TATATTTAAATAT
839800 TAATATTTAAATAT
1 T-ATATTTAAATAT
839814 ATGTTAAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
11 8 0.26
12 2 0.06
13 10 0.32
14 11 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATATTTAAATAT
Found at i:839864 original size:26 final size:26
Alignment explanation
Indices: 839810--839864 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
839800 TAATATTTAA
**
839810 ATATATGTTAAACATGAATTATATTG
1 ATATATGTTAAACATGAATTATAAAG
839836 ATATATGTTGAAA-ATGAA-TATAGAAG
1 ATATATGTT-AAACATGAATTATA-AAG
839862 ATA
1 ATA
839865 GGCAATCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 4 0.16
26 18 0.72
27 3 0.12
ACGTcount: A:0.47, C:0.02, G:0.15, T:0.36
Consensus pattern (26 bp):
ATATATGTTAAACATGAATTATAAAG
Found at i:841383 original size:20 final size:21
Alignment explanation
Indices: 841358--841420 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
841348 TTTAATCGAT
* *
841358 TTAATTT-TTAATTTTTTTAA
1 TTAATTTATTAAATTTTATAA
841378 TTAATTTATTAAATTTTATAA
1 TTAATTTATTAAATTTTATAA
*
841399 -TAATTTGAATAAATTTT-TAA
1 TTAATTT-ATTAAATTTTATAA
841419 TT
1 TT
841421 TTTTCAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 16 0.43
21 21 0.57
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTAATTTATTAAATTTTATAA
Found at i:841394 original size:21 final size:21
Alignment explanation
Indices: 841358--841420 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 21
841348 TTTAATCGAT
*
841358 TTAATTT-TTAATTTTTTTAA
1 TTAATTTATTAAATTTTTTAA
*
841378 TTAATTTATTAAATTTTATAA
1 TTAATTTATTAAATTTTTTAA
*
841399 -TAATTTGAATAAA-TTTTTAA
1 TTAATTT-ATTAAATTTTTTAA
841419 TT
1 TT
841421 TTTTCAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTAATTTATTAAATTTTTTAA
Found at i:841432 original size:21 final size:22
Alignment explanation
Indices: 841385--841433 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
841375 TAATTAATTT
*
841385 ATTAAATTTTATAATAATTTGA
1 ATTAAATTTTATAATAATTTCA
**
841407 A-TAAATTTT-TAATTTTTTCA
1 ATTAAATTTTATAATAATTTCA
841427 ATTAAAT
1 ATTAAAT
841434 GGATTCATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 9 0.39
21 13 0.57
22 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTAAATTTTATAATAATTTCA
Found at i:842899 original size:2 final size:2
Alignment explanation
Indices: 842892--842919 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
842882 GTATGGAGTT
842892 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
842920 TATATTATAC
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:845405 original size:17 final size:14
Alignment explanation
Indices: 845364--845397 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
845354 ATAAATTATG
*
845364 TATTTTTTAA-TTT
1 TATTATTTAATTTT
845377 TATTATTTAATTTT
1 TATTATTTAATTTT
845391 TATTATT
1 TATTATT
845398 AATAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTATTTAATTTT
Found at i:845528 original size:18 final size:16
Alignment explanation
Indices: 845506--845546 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
845496 AAAATATAAA
845506 AATTAAATTATATATTT
1 AATTAAATTA-ATATTT
*
845523 ATATTAAATTAATTTTT
1 A-ATTAAATTAATATTT
845540 AATTAAA
1 AATTAAA
845547 ATTACTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTAAATTAATATTT
Found at i:846217 original size:18 final size:18
Alignment explanation
Indices: 846151--846219 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 18
846141 TAATAATTCG
*
846151 TATTATA-TATAATTTTA
1 TATTATATTATATTTTTA
* *
846168 TA-AAT-TTATATATTTA
1 TATTATATTATATTTTTA
*
846184 TATCATATGTATTATTTTTA
1 TATTATAT-TA-TATTTTTA
846204 TATTATATTATATTTT
1 TATTATATTATATTTT
846220 ATTTCATGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
16 12 0.29
17 4 0.10
18 7 0.17
19 4 0.10
20 14 0.34
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (18 bp):
TATTATATTATATTTTTA
Found at i:847517 original size:28 final size:28
Alignment explanation
Indices: 847477--847542 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
847467 TTGAAACTGC
*
847477 CTTTTTTTTTGGCCTGCTATTGTATGTA
1 CTTTTTTTCTGGCCTGCTATTGTATGTA
847505 CTTTTTTTCTGGCCTGCTATTGTATGTA
1 CTTTTTTTCTGGCCTGCTATTGTATGTA
847533 CTTTTTTTCT
1 CTTTTTTTCT
847543 TACTATGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.09, C:0.17, G:0.15, T:0.59
Consensus pattern (28 bp):
CTTTTTTTCTGGCCTGCTATTGTATGTA
Found at i:847548 original size:24 final size:25
Alignment explanation
Indices: 847493--847548 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 25
847483 TTTTGGCCTG
*
847493 CTATTGTATGTACTTTTTTTCTGGCCTG
1 CTATTGTATGTACTTTTTTTCT---CTA
847521 CTATTGTATGTACTTTTTTTCT-TA
1 CTATTGTATGTACTTTTTTTCTCTA
847545 CTAT
1 CTAT
847549 GTGTCACTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 5 0.19
28 22 0.81
ACGTcount: A:0.14, C:0.16, G:0.12, T:0.57
Consensus pattern (25 bp):
CTATTGTATGTACTTTTTTTCTCTA
Found at i:856452 original size:18 final size:18
Alignment explanation
Indices: 856411--856452 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
856401 ATATAATTTT
*
856411 TTTAAAAAATTTTAAATA
1 TTTAAAAAATTTTAAAAA
*
856429 TATAAAAAATTTTAAAAA
1 TTTAAAAAATTTTAAAAA
856447 TTTAAA
1 TTTAAA
856453 CATACTCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTAAAAAATTTTAAAAA
Found at i:858792 original size:21 final size:21
Alignment explanation
Indices: 858768--858814 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
858758 AATATGATAT
858768 ATATAAAATTATTAAAAT-AAA
1 ATATAAAATTA-TAAAATAAAA
* *
858789 ATATAATATTATATAATAAAA
1 ATATAAAATTATAAAATAAAA
858810 ATATA
1 ATATA
858815 TATTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATATAAAATTATAAAATAAAA
Found at i:858829 original size:16 final size:16
Alignment explanation
Indices: 858810--858872 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
858800 TATAATAAAA
*
858810 ATATATATTTAAATTT
1 ATATATATTAAAATTT
858826 ATATA-ATATAAAATATT
1 ATATATAT-TAAAAT-TT
858843 A-ATATATTAAAATTT
1 ATATATATTAAAATTT
*
858858 ATATAAATATAAAAT
1 ATATATAT-TAAAAT
858873 ATTTTAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 5 0.12
16 24 0.60
17 11 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATATATTAAAATTT
Found at i:858848 original size:32 final size:33
Alignment explanation
Indices: 858812--858875 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
858802 TAATAAAAAT
*
858812 ATATATTTAAATTTATAT-AATATAAAATATTA
1 ATATATTAAAATTTATATAAATATAAAATATTA
858844 ATATATTAAAATTTATATAAATATAAAATATT
1 ATATATTAAAATTTATATAAATATAAAATATT
858876 TTAAATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
ATATATTAAAATTTATATAAATATAAAATATTA
Found at i:858865 original size:42 final size:44
Alignment explanation
Indices: 858784--858865 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 44
858774 AATTATTAAA
* *
858784 ATAAAATATAATATTATATAATAAAAATATATATTTAAATTTAT
1 ATAAAATAAAATATTATATAATAAAAATATATATATAAATTTAT
* *
858828 ATAATATAAAATATTA-ATATATTAAAAT-T-TATATAAAT
1 ATAAAATAAAATATTATATA-ATAAAAATATATATATAAAT
858866 ATAAAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
42 8 0.24
43 4 0.12
44 21 0.64
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (44 bp):
ATAAAATAAAATATTATATAATAAAAATATATATATAAATTTAT
Found at i:858872 original size:33 final size:32
Alignment explanation
Indices: 858797--858875 Score: 114
Period size: 33 Copynumber: 2.6 Consensus size: 32
858787 AAATATAATA
858797 TTATATAATA-AAAATA-T-ATAT-TT-AAAT
1 TTATATAATATAAAATATTAATATATTAAAAT
858824 TTATATAATATAAAATATTAATATATTAAAAT
1 TTATATAATATAAAATATTAATATATTAAAAT
858856 TTATATAAATATAAAATATT
1 TTATAT-AATATAAAATATT
858876 TTAAATATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
27 10 0.22
28 6 0.13
29 1 0.02
30 4 0.09
31 2 0.04
32 10 0.22
33 13 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
TTATATAATATAAAATATTAATATATTAAAAT
Found at i:858893 original size:15 final size:16
Alignment explanation
Indices: 858830--858886 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
858820 AAATTTATAT
858830 AATATAAAATA--TTA
1 AATATAAAATATTTTA
858844 ATATATTAAAAT-TTATATA
1 A-ATA-TAAAATATT-T-TA
858863 AATATAAAATATTTTA
1 AATATAAAATATTTTA
858879 AATATAAA
1 AATATAAA
858887 TTTTTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
14 1 0.03
15 3 0.08
16 16 0.44
17 7 0.19
18 6 0.17
19 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATAAAATATTTTA
Found at i:859107 original size:23 final size:24
Alignment explanation
Indices: 859081--859139 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
859071 TCAAGTTAAA
859081 TATTAAA-ATATTTAAATTT-AATT
1 TATTAAATA-ATTTAAATTTAAATT
*
859104 TATTTAATAATTTAAATTTAAATT
1 TATTAAATAATTTAAATTTAAATT
*
859128 TAATTTAATAAT
1 T-ATTAAATAAT
859140 AAATATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 16 0.50
24 6 0.19
25 10 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TATTAAATAATTTAAATTTAAATT
Found at i:859116 original size:12 final size:13
Alignment explanation
Indices: 859099--859139 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
859089 TATTTAAATT
859099 TAATTT-ATTTAA
1 TAATTTAATTTAA
859111 TAATTTAAATTT-A
1 TAATTT-AATTTAA
859124 -AATTTAATTTAA
1 TAATTTAATTTAA
859136 TAAT
1 TAAT
859140 AAATATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
11 5 0.20
12 12 0.48
13 4 0.16
14 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAATTTAATTTAA
Found at i:863706 original size:24 final size:24
Alignment explanation
Indices: 863674--863722 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
863664 GCTCTAACTC
863674 TTTATTTTTCTTGAAGTACTTGTG
1 TTTATTTTTCTTGAAGTACTTGTG
863698 TTTATTTTTCTTGAAGTACTTGTG
1 TTTATTTTTCTTGAAGTACTTGTG
863722 T
1 T
863723 CCAACATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.59
Consensus pattern (24 bp):
TTTATTTTTCTTGAAGTACTTGTG
Found at i:864881 original size:51 final size:51
Alignment explanation
Indices: 864812--864912 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
864802 AATTTTTAAG
* * *
864812 AATTTAAGTCAGTTTACTTGAATTATTATTCAATCGAAATGCTCTTTTACT
1 AATTTAAGTCAGTTTACTTGAATAATTATTAAATCGAAATACTCTTTTACT
*
864863 AATTTAAGTCAGTTTACTTGAATAATTATTAAATCGGAATACTCTTTTAC
1 AATTTAAGTCAGTTTACTTGAATAATTATTAAATCGAAATACTCTTTTAC
864913 GTTGTTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.44
Consensus pattern (51 bp):
AATTTAAGTCAGTTTACTTGAATAATTATTAAATCGAAATACTCTTTTACT
Found at i:865392 original size:41 final size:42
Alignment explanation
Indices: 865331--865419 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
865321 AATACTATTT
* * *
865331 ATTTAATTAAAAAATATTTTTATATT-AATATTTATAATTAA
1 ATTTAAATAAAAAATATTTTTATATTAAATAATAATAATTAA
*
865372 ATTTAAAT-AAAAATATTTTTTATTTTAAATAATAATAATTAA
1 ATTTAAATAAAAAATA-TTTTTATATTAAATAATAATAATTAA
865414 ATTTAA
1 ATTTAA
865420 TCTAAATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 7 0.17
41 16 0.38
42 19 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (42 bp):
ATTTAAATAAAAAATATTTTTATATTAAATAATAATAATTAA
Found at i:866056 original size:6 final size:7
Alignment explanation
Indices: 866040--866137 Score: 54
Period size: 6 Copynumber: 15.0 Consensus size: 7
866030 ATTTATGTTA
866040 TATATAT
1 TATATAT
866047 TATA-AT
1 TATATAT
866053 TATAT-T
1 TATATAT
*
866059 TA-A-AA
1 TATATAT
*
866064 TATATTT
1 TATATAT
866071 TATATAT
1 TATATAT
*
866078 TTTA-AT
1 TATATAT
866084 T-TATAT
1 TATATAT
866090 TATATA-
1 TATATAT
*
866096 -AAAT-T
1 TATATAT
*
866101 TATCTCAGT
1 TATAT-A-T
866110 TATATAT
1 TATATAT
866117 T-TATAT
1 TATATAT
866123 TATATAT
1 TATATAT
866130 ATATATAT
1 -TATATAT
866138 GTATGCTATC
Statistics
Matches: 69, Mismatches: 9, Indels: 25
0.67 0.09 0.24
Matches are distributed among these distances:
5 8 0.12
6 24 0.35
7 24 0.35
8 8 0.12
9 5 0.07
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (7 bp):
TATATAT
Found at i:866093 original size:26 final size:27
Alignment explanation
Indices: 866028--866136 Score: 71
Period size: 33 Copynumber: 3.9 Consensus size: 27
866018 ATAGGAACGG
*
866028 TAATTTATGTTATATATATTATAATTA
1 TAATTTATATTATATATATTATAATTA
* * *
866055 T-ATTTA-A-AATATATTTTATATATTT
1 TAATTTATATTATATATATTATA-ATTA
* *
866080 TAATTTATATTATATAAAATTTATCTCAGTTA
1 TAATTTATATTATAT-ATA-TTA--T-AATTA
866112 TATATTTATATTATATATATATATA
1 TA-ATTTATATTATATATAT-TATA
866137 TGTATGCTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
24 11 0.18
25 4 0.07
26 10 0.16
27 2 0.03
28 4 0.07
29 2 0.03
30 4 0.07
31 1 0.02
32 9 0.15
33 14 0.23
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
TAATTTATATTATATATATTATAATTA
Found at i:868429 original size:15 final size:16
Alignment explanation
Indices: 868406--868443 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
868396 AAATTTGATT
868406 ATTTATATATA-TATA
1 ATTTATATATATTATA
*
868421 ATTTTTATATATTATA
1 ATTTATATATATTATA
868437 A-TTATAT
1 ATTTATAT
868444 TTAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTATATATATTATA
Found at i:868429 original size:17 final size:16
Alignment explanation
Indices: 868407--868439 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
868397 AATTTGATTA
868407 TTTATATATATATAATT
1 TTTATATAT-TATAATT
868424 TTTATATATTATAATT
1 TTTATATATTATAATT
868440 ATATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATATATTATAATT
Found at i:868490 original size:23 final size:23
Alignment explanation
Indices: 868425--868511 Score: 77
Period size: 23 Copynumber: 3.6 Consensus size: 23
868415 TATATAATTT
* *
868425 TTATATATTATAATTATATTTAAAA
1 TTATATTTTAT-ATTAAATTT-AAA
**
868450 TAATATATATTTAT-TTAAATTTTTA
1 T--TATAT-TTTATATTAAATTTAAA
868475 TTATATTTTATATTAAATTTAAA
1 TTATATTTTATATTAAATTTAAA
*
868498 TTATATATTATATT
1 TTATATTTTATATT
868512 TAAAATTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
22 5 0.10
23 27 0.53
25 3 0.06
26 7 0.14
27 5 0.10
28 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATATTTTATATTAAATTTAAA
Found at i:868506 original size:18 final size:16
Alignment explanation
Indices: 868483--868527 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
868473 TATTATATTT
868483 TATATTAAATTTAAATTA
1 TATATTAAATTTAAA--A
*
868501 TATATTATATTTAAAA
1 TATATTAAATTTAAAA
868517 T-TATTAAATTT
1 TATATTAAATTT
868528 TCTTCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.36
16 2 0.08
18 14 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATTAAATTTAAAA
Found at i:868518 original size:48 final size:46
Alignment explanation
Indices: 868394--868518 Score: 123
Period size: 48 Copynumber: 2.7 Consensus size: 46
868384 TGTCCTGTAG
* * * *
868394 TTAAATTT-GATTATTTA-TATATATATAATTTTTATATATTATAA
1 TTAAATTTAAATTATATATTATATTTAAAATTTTTATATATTATAA
* *
868438 TTATATTTAAAATAATATATATT-TATTT-AAATTTTTATTATATTTTATA
1 TTAAATTT-AAAT--TATATATTATATTTAAAATTTTTA-TATATTATA-A
868487 TTAAATTTAAATTATATATTATATTTAAAATT
1 TTAAATTTAAATTATATATTATATTTAAAATT
868519 ATTAAATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
44 7 0.11
46 10 0.15
47 13 0.20
48 26 0.40
49 9 0.14
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (46 bp):
TTAAATTTAAATTATATATTATATTTAAAATTTTTATATATTATAA
Found at i:868904 original size:9 final size:9
Alignment explanation
Indices: 868827--868907 Score: 58
Period size: 9 Copynumber: 8.8 Consensus size: 9
868817 TGGTTATATA
868827 ATATAAAAT
1 ATATAAAAT
*
868836 ATATTTAAAT
1 ATA-TAAAAT
*
868846 TTATATAAAT
1 ATATA-AAAT
868856 ATAT--AAT
1 ATATAAAAT
* *
868863 ATTTTAAAT
1 ATATAAAAT
*
868872 ATTATTATAAT
1 A-TA-TAAAAT
*
868883 ATAAAAAAT
1 ATATAAAAT
868892 ATATAAAAT
1 ATATAAAAT
868901 ATATAAA
1 ATATAAA
868908 TTTTTATATC
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
7 6 0.11
9 27 0.49
10 17 0.31
11 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATATAAAAT
Found at i:869682 original size:20 final size:20
Alignment explanation
Indices: 869628--869685 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
869618 TATATTTTAT
*
869628 AATTAAATT-TAAATAA-TA
1 AATTAAATTATAAAAAATTA
* *
869646 ATTTAAATTCA-ATAAAATTA
1 AATTAAATT-ATAAAAAATTA
869666 AATTAAATTATAAAAAATTA
1 AATTAAATTATAAAAAATTA
869686 TTTTAATGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 8 0.26
19 5 0.16
20 18 0.58
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTAAATTATAAAAAATTA
Found at i:870179 original size:30 final size:31
Alignment explanation
Indices: 870153--870225 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
870143 TATATTTATT
870153 TATTTT-TATTATATTATAATTTTATTTAAAA
1 TATTTTATATT-TATTATAATTTTATTTAAAA
*
870184 TATTTTATATTTA-TATAATTTTA-TTAAAT
1 TATTTTATATTTATTATAATTTTATTTAAAA
*
870213 TAATATTATATTT
1 T-ATTTTATATTT
870226 TAATTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
29 6 0.16
30 20 0.53
31 8 0.21
32 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
TATTTTATATTTATTATAATTTTATTTAAAA
Found at i:870206 original size:46 final size:45
Alignment explanation
Indices: 870142--870246 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 45
870132 GATATTTATA
* * * *
870142 TTATATTTATTTATTTTTATTATATT-ATAATTTTATTTAAAATATT
1 TTATATTTATATAATTTTATTAAATTAAT-ATTATATTT-AAATATT
* *
870188 TTATATTTATATAATTTTATTAAATTAATATTATATTTTAATTTT
1 TTATATTTATATAATTTTATTAAATTAATATTATATTTAAATATT
870233 TTATA-TTATATAAT
1 TTATATTTATATAAT
870247 AATAATAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 9 0.17
45 10 0.19
46 31 0.60
47 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (45 bp):
TTATATTTATATAATTTTATTAAATTAATATTATATTTAAATATT
Found at i:878702 original size:78 final size:78
Alignment explanation
Indices: 878612--878769 Score: 289
Period size: 78 Copynumber: 2.0 Consensus size: 78
878602 GTAAGCGTAT
* *
878612 TTCTGGTTTGTAAAACAAGCAAGTTGTCTGATGATGCTTCTCTTTGTGTTGAGTGTTGAAATATT
1 TTCTGCTTTGTAAAACAAGCAAGTTGTCTGATGATGCTTCTCTTTGTATTGAGTGTTGAAATATT
*
878677 TTATTAGTTGATA
66 TGATTAGTTGATA
878690 TTCTGCTTTGTAAAACAAGCAAGTTGTCTGATGATGCTTCTCTTTGTATTGAGTGTTGAAATATT
1 TTCTGCTTTGTAAAACAAGCAAGTTGTCTGATGATGCTTCTCTTTGTATTGAGTGTTGAAATATT
878755 TGATTAGTTGATA
66 TGATTAGTTGATA
878768 TT
1 TT
878770 AAAATCCAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.45
Consensus pattern (78 bp):
TTCTGCTTTGTAAAACAAGCAAGTTGTCTGATGATGCTTCTCTTTGTATTGAGTGTTGAAATATT
TGATTAGTTGATA
Found at i:881129 original size:23 final size:25
Alignment explanation
Indices: 881080--881148 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 25
881070 AAAATTAATA
* *
881080 TAAATAATT-TAATTTATTTATAA-
1 TAAATAATTATAATTTATATAAAAT
881103 TAAA-AATTATAATTTA-ATAAAAT
1 TAAATAATTATAATTTATATAAAAT
* *
881126 TAAATATTTATGATTTATATAAA
1 TAAATAATTATAATTTATATAAA
881149 TCTCAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 8 0.21
23 15 0.39
24 10 0.26
25 5 0.13
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (25 bp):
TAAATAATTATAATTTATATAAAAT
Done.