Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold169
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: 2015121
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 45543 characters in sequence are not A, C, G, or T
File 5 of 14
Found at i:773624 original size:25 final size:23
Alignment explanation
Indices: 773436--773628 Score: 83
Period size: 22 Copynumber: 8.4 Consensus size: 23
773426 TTTGTTAGGT
773436 GTGTTAGGTGATGTATTTGGTGA
1 GTGTTAGGTGATGTATTTGGTGA
*
773459 GAATGTTAGGTG-TG--TTAGGTGA
1 G--TGTTAGGTGATGTATTTGGTGA
* * *
773481 TGTGTTTGGTGA-GAATGATAGGT--
1 -GTGTTAGGTGATGTAT--TTGGTGA
*
773504 GTGTTAGGTGA-GAATGTTAGGT--
1 GTGTTAGGTGATGTAT-TT-GGTGA
773526 GTGTTAGGTGATGTATTTGGTGA
1 GTGTTAGGTGATGTATTTGGTGA
*
773549 GAATGTTAGGTG-TG--TTAGGTGA
1 G--TGTTAGGTGATGTATTTGGTGA
* *
773571 TGTGTTTGGTGA-GAATGTTAGGT--
1 -GTGTTAGGTGATGTAT-TT-GGTGA
773594 GTGTTAGGTGATGTATTTGGTGA
1 GTGTTAGGTGATGTATTTGGTGA
773617 GAATGTTAGGTG
1 G--TGTTAGGTG
773629 TGTTAACATG
Statistics
Matches: 134, Mismatches: 11, Indels: 48
0.69 0.06 0.25
Matches are distributed among these distances:
21 25 0.19
22 56 0.42
23 13 0.10
24 5 0.04
25 35 0.26
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (23 bp):
GTGTTAGGTGATGTATTTGGTGA
Found at i:774201 original size:15 final size:16
Alignment explanation
Indices: 774178--774214 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
774168 ACATTAAATT
774178 ATTTT-ATTTTTA-AA
1 ATTTTAATTTTTATAA
*
774192 ATTTTAATTTTTATTA
1 ATTTTAATTTTTATAA
774208 ATTTTAA
1 ATTTTAA
774215 AAAATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 5 0.25
15 7 0.35
16 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTAATTTTTATAA
Found at i:774722 original size:34 final size:34
Alignment explanation
Indices: 774675--774768 Score: 125
Period size: 34 Copynumber: 2.7 Consensus size: 34
774665 AAGTGTGTTA
* *
774675 GGTGAAGAATGTTAGGTATATTAGGTGATGTATTT
1 GGTG-AGAATGTTAGGTGTGTTAGGTGATGTATTT
* * *
774710 GGTGAGAGTGTTAAGTGTGTTAAGTGATGTATTT
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
*
774744 TGTGAGAATGTTAGGTGTGTTAGGT
1 GGTGAGAATGTTAGGTGTGTTAGGT
774769 ATTTTATATT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 46 0.92
35 4 0.08
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.40
Consensus pattern (34 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
Found at i:779522 original size:34 final size:34
Alignment explanation
Indices: 779475--779568 Score: 152
Period size: 34 Copynumber: 2.7 Consensus size: 34
779465 AAGTGTGTTA
*
779475 GGTGAAGAATGTTAGGTGTATTAGGTGATGTATTT
1 GGTG-AGAATGTTAGGTGTGTTAGGTGATGTATTT
*
779510 GGTGAGAGTGTTAGGTGTGTTAGGTGATGTATTT
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
*
779544 TGTGAGAATGTTAGGTGTGTTAGGT
1 GGTGAGAATGTTAGGTGTGTTAGGT
779569 ATTTTATATT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
34 51 0.93
35 4 0.07
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.40
Consensus pattern (34 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
Found at i:782109 original size:8 final size:8
Alignment explanation
Indices: 782096--782176 Score: 108
Period size: 8 Copynumber: 10.1 Consensus size: 8
782086 ATTTTTTGGG
782096 TATATATA
1 TATATATA
782104 TATATATA
1 TATATATA
782112 TATATATA
1 TATATATA
*
782120 TGTATATA
1 TATATATA
*
782128 TGTATATA
1 TATATATA
*
782136 TATATGTA
1 TATATATA
*
782144 TATATGTA
1 TATATATA
782152 TATATATA
1 TATATATA
*
782160 TATGTATA
1 TATATATA
*
782168 TATGTATA
1 TATATATA
782176 T
1 T
782177 CCCCCTAATC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 68 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (8 bp):
TATATATA
Found at i:782113 original size:14 final size:14
Alignment explanation
Indices: 782096--782176 Score: 117
Period size: 14 Copynumber: 5.8 Consensus size: 14
782086 ATTTTTTGGG
*
782096 TATATATATATATA
1 TATATATATATGTA
782110 TATATATATATGTA
1 TATATATATATGTA
* *
782124 TATATGTATATATA
1 TATATATATATGTA
*
782138 TATGTATATATGTA
1 TATATATATATGTA
782152 TATATATATATGTA
1 TATATATATATGTA
*
782166 TATATGTATAT
1 TATATATATAT
782177 CCCCCTAATC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 59 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (14 bp):
TATATATATATGTA
Found at i:782119 original size:20 final size:20
Alignment explanation
Indices: 782096--782176 Score: 108
Period size: 20 Copynumber: 4.0 Consensus size: 20
782086 ATTTTTTGGG
782096 TATATATATATATATATATA
1 TATATATATATATATATATA
* *
782116 TATATGTATATATGTATATA
1 TATATATATATATATATATA
* *
782136 TATATGTATATATGTATATA
1 TATATATATATATATATATA
* *
782156 TATATATGTATATATGTATA
1 TATATATATATATATATATA
782176 T
1 T
782177 CCCCCTAATC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (20 bp):
TATATATATATATATATATA
Found at i:782125 original size:22 final size:22
Alignment explanation
Indices: 782100--782176 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
782090 TTTGGGTATA
782100 TATATATATATATATATATATG
1 TATATATATATATATATATATG
*
782122 --TATATATGTATATATATATG
1 TATATATATATATATATATATG
*
782142 TATATATGTATATATATATATG
1 TATATATATATATATATATATG
*
782164 TATATATGTATAT
1 TATATATATATAT
782177 CCCCCTAATC
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
20 19 0.38
22 31 0.62
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.51
Consensus pattern (22 bp):
TATATATATATATATATATATG
Found at i:782694 original size:2 final size:2
Alignment explanation
Indices: 782687--782713 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
782677 AAAGACAAAC
782687 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
782714 TAGGACTTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:782866 original size:16 final size:16
Alignment explanation
Indices: 782844--782931 Score: 65
Period size: 16 Copynumber: 5.4 Consensus size: 16
782834 TTATGTTCAG
782844 ATTTATTTTAAATTTA
1 ATTTATTTTAAATTTA
*
782860 GTTTATTTTAAATTTGA
1 ATTTATTTTAAATTT-A
*
782877 ATATT-TTTTAAA-TTG
1 AT-TTATTTTAAATTTA
* *
782892 GTTT-TTTTTAATTTA
1 ATTTATTTTAAATTTA
* *
782907 AATAATTTTAAATTTTA
1 ATTTATTTTAAA-TTTA
782924 ATTATATT
1 ATT-TATT
782932 AGACTCAAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
14 8 0.15
15 4 0.07
16 22 0.41
17 15 0.28
18 5 0.09
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (16 bp):
ATTTATTTTAAATTTA
Found at i:782915 original size:32 final size:33
Alignment explanation
Indices: 782849--782921 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 33
782839 TTCAGATTTA
*
782849 TTTTAAATTTAGTTTATTTTAAATTTGAATATT
1 TTTTAAATTTAGTTTATTTTAAATTTAAATATT
* * *
782882 TTTTAAA-TTGGTTT-TTTTTAATTTAAATA-A
1 TTTTAAATTTAGTTTATTTTAAATTTAAATATT
782912 TTTTAAATTT
1 TTTTAAATTT
782922 TAATTATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 7 0.20
31 15 0.43
32 6 0.17
33 7 0.20
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (33 bp):
TTTTAAATTTAGTTTATTTTAAATTTAAATATT
Found at i:786022 original size:27 final size:28
Alignment explanation
Indices: 785992--786055 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
785982 TGTATTGTAA
*
785992 AATTAAATTAGTTT-TATATATTTATAT
1 AATTTAATTAGTTTATATATATTTATAT
* * *
786019 AATTTTA-TATTTTATATATATTTATTT
1 AATTTAATTAGTTTATATATATTTATAT
786046 AATTTAATTA
1 AATTTAATTA
786056 TTATATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 5 0.17
27 23 0.77
28 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
AATTTAATTAGTTTATATATATTTATAT
Found at i:786026 original size:18 final size:18
Alignment explanation
Indices: 786003--786041 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
785993 ATTAAATTAG
786003 TTTTATATATTTATATA-A
1 TTTTATAT-TTTATATATA
786021 TTTTATATTTTATATATA
1 TTTTATATTTTATATATA
786039 TTT
1 TTT
786042 ATTTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATATTTTATATATA
Found at i:786050 original size:9 final size:9
Alignment explanation
Indices: 786004--786051 Score: 55
Period size: 8 Copynumber: 5.4 Consensus size: 9
785994 TTAAATTAGT
786004 TTTATAT-A
1 TTTATATAA
786012 TTTATATAA
1 TTTATATAA
*
786021 TTT-TATAT
1 TTTATATAA
786029 TTTATATATA
1 TTTATATA-A
*
786039 TTTATTTAA
1 TTTATATAA
786048 TTTA
1 TTTA
786052 ATTATTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 14 0.41
9 13 0.38
10 7 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTATATAA
Found at i:786287 original size:19 final size:19
Alignment explanation
Indices: 786272--786310 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
786262 TTAATTTATT
786272 AAAA-TATTAATAATTTTA
1 AAAATTATTAATAATTTTA
786290 AAAATTATTAAATTAATTTTA
1 AAAATTATT-AA-TAATTTTA
786311 TATTAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 2 0.11
21 8 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATTATTAATAATTTTA
Found at i:786305 original size:32 final size:32
Alignment explanation
Indices: 786243--786305 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
786233 AAATATAATT
* * *
786243 ATATTACTAAATTTAATAATTAATTTATTAAA
1 ATATTAATAAATTTAAAAATTAATTAATTAAA
*
786275 ATATTAATAATTTTAAAAATT-ATTAAATTAA
1 ATATTAATAAATTTAAAAATTAATT-AATTAA
786306 TTTTATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 3 0.12
32 23 0.88
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (32 bp):
ATATTAATAAATTTAAAAATTAATTAATTAAA
Found at i:787588 original size:17 final size:17
Alignment explanation
Indices: 787566--787610 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
787556 TAGTTTGAGG
787566 TTATTTAATAATTAAAT-
1 TTATTTAATAA-TAAATA
787583 TTATTTAATGAATAAATA
1 TTATTTAAT-AATAAATA
787601 TT-TTTAATAA
1 TTATTTAATAA
787611 GAAAAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 2 0.08
17 20 0.77
18 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TTATTTAATAATAAATA
Found at i:788870 original size:2 final size:2
Alignment explanation
Indices: 788863--788892 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
788853 AAAAGATCAG
788863 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
788893 GTATGTATAA
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:789176 original size:28 final size:29
Alignment explanation
Indices: 789096--789181 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 29
789086 TTGAAAATTT
* * *
789096 ATTTTATTTTTTATAATAATATTAAAATATT
1 ATTTTA-TTATTA-AATAATAATAAAATATA
* *
789127 ATTTTATAATTAAAT-TTAAATAAAATA-A
1 ATTTTATTATTAAATAAT-AATAAAATATA
789155 ATTTTATTATTAAATAATAATATAAAT
1 ATTTTATTATTAAATAATAATA-AAAT
789182 TGAATTAACT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
28 19 0.42
29 16 0.36
30 4 0.09
31 6 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
ATTTTATTATTAAATAATAATAAAATATA
Found at i:791205 original size:20 final size:19
Alignment explanation
Indices: 791165--791236 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 19
791155 CGATCTACAT
791165 AACATTTTTAATTTATTTA
1 AACATTTTTAATTTATTTA
791184 AACATTTTTAATTTATTCTAAA
1 AACATTTTTAATTTATT-T--A
* *
791206 TAATATTTTTAA-ATAGTTTA
1 -AACATTTTTAATTTA-TTTA
791226 AACATTTTTAA
1 AACATTTTTAA
791237 CATTTCTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
19 27 0.60
20 2 0.04
22 4 0.09
23 12 0.27
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (19 bp):
AACATTTTTAATTTATTTA
Found at i:791235 original size:10 final size:10
Alignment explanation
Indices: 791222--791267 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
791212 TTTTAAATAG
791222 TTTAAACATT
1 TTTAAACATT
791232 TTT-AACATT
1 TTTAAACATT
791241 TCTATAAAC-TT
1 T-T-TAAACATT
791252 ATTTAAACATT
1 -TTTAAACATT
791263 TTTAA
1 TTTAA
791268 TTTATTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 7 0.23
10 14 0.45
11 6 0.19
12 4 0.13
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (10 bp):
TTTAAACATT
Found at i:792119 original size:2 final size:2
Alignment explanation
Indices: 792107--792144 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
792097 ACATGAACCT
*
792107 TA TA AA 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 TA
792145 AAACATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:792340 original size:18 final size:19
Alignment explanation
Indices: 792300--792340 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 19
792290 ACTGCCATTA
792300 ATTAT-TTATATAATTTTT
1 ATTATATTATATAATTTTT
792318 A--ATATTA-ATAATTTTT
1 ATTATATTATATAATTTTT
792334 ATTATAT
1 ATTATAT
792341 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTATATTATATAATTTTT
Found at i:792868 original size:31 final size:31
Alignment explanation
Indices: 792830--792921 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 31
792820 AGCACTCTAA
792830 ATTTTATAATTTTATTTAAATAAATTTTTAT
1 ATTTTATAATTTTATTTAAATAAATTTTTAT
792861 ATTTTATAA---TATTTAAATAAGA-TTTTAT
1 ATTTTATAATTTTATTTAAATAA-ATTTTTAT
* * *
792889 -TTTT-TGATTTGTACTTGAAATAAGTTTTTAT
1 ATTTTATAATTT-TA-TTTAAATAAATTTTTAT
792920 AT
1 AT
792922 ATTAAATAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
26 2 0.04
27 4 0.08
28 17 0.34
29 1 0.02
30 2 0.04
31 23 0.46
32 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (31 bp):
ATTTTATAATTTTATTTAAATAAATTTTTAT
Found at i:792977 original size:30 final size:30
Alignment explanation
Indices: 792942--793030 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
792932 ATATTGATTT
* * *
792942 AAGTTAAGAGTTTATTTAAGTACAAATTAA
1 AAGTTAAAAATTTATTTAAGTAAAAATTAA
* *
792972 AAGTTAATAATTTATTTATGTAAAAAATTAA
1 AAGTTAAAAATTTATTTAAGT-AAAAATTAA
* *
793003 AA-TTAAAAATTTATTTGAGTATAAATTA
1 AAGTTAAAAATTTATTTAAGTAAAAATTA
793031 TATGAATTCT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 7 0.14
30 33 0.66
31 10 0.20
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.40
Consensus pattern (30 bp):
AAGTTAAAAATTTATTTAAGTAAAAATTAA
Found at i:797153 original size:15 final size:16
Alignment explanation
Indices: 797135--797172 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
797125 TGAAAATAAA
*
797135 TAAAAAGATT-TAACT
1 TAAAAAGATTAAAACT
*
797150 TAAAAAAATTAAAACT
1 TAAAAAGATTAAAACT
797166 TAAAAAG
1 TAAAAAG
797173 TACAAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (16 bp):
TAAAAAGATTAAAACT
Found at i:798579 original size:2 final size:2
Alignment explanation
Indices: 798572--798605 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
798562 CTCTTTTCTT
* *
798572 TA TA TA TA TA AA TA CA 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
798606 ATCTTAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:801177 original size:34 final size:34
Alignment explanation
Indices: 801139--801204 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
801129 ATAAAATAAA
801139 ATAAAAATTATTACATTAAATGAAATAAATATCT
1 ATAAAAATTATTACATTAAATGAAATAAATATCT
*
801173 ATAAAAATTATTATATTAAATGAAATAAATAT
1 ATAAAAATTATTACATTAAATGAAATAAATAT
801205 TAAAACTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (34 bp):
ATAAAAATTATTACATTAAATGAAATAAATATCT
Found at i:801206 original size:16 final size:16
Alignment explanation
Indices: 801153--801208 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
801143 AAATTATTAC
801153 ATTAAATGAAATAAAT
1 ATTAAATGAAATAAAT
*
801169 ATCTATAA--AAATTATTAT
1 AT-TA-AATGAAA-TA-AAT
801187 ATTAAATGAAATAAAT
1 ATTAAATGAAATAAAT
801203 ATTAAA
1 ATTAAA
801209 ACTAAGAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 15 0.47
17 8 0.25
18 9 0.28
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (16 bp):
ATTAAATGAAATAAAT
Found at i:803661 original size:16 final size:14
Alignment explanation
Indices: 803627--803674 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
803617 AAATAAATTA
**
803627 TAAATATTAAAATT
1 TAAATATTAATTTT
*
803641 TAAATTTTAAATTTAT
1 TAAATATT-AATTT-T
803657 TAAATATTAATTTT
1 TAAATATTAATTTT
803671 TAAA
1 TAAA
803675 AATAGTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 12 0.43
15 8 0.29
16 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATATTAATTTT
Found at i:803666 original size:23 final size:23
Alignment explanation
Indices: 803631--803674 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
803621 AAATTATAAA
803631 TATTAAAATTTAAATTTTAAATT
1 TATTAAAATTTAAATTTTAAATT
*
803654 TATT-AAATATTAATTTTTAAA
1 TATTAAAAT-TTAAATTTTAAA
803675 AATAGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTAAAATTTAAATTTTAAATT
Found at i:807218 original size:13 final size:13
Alignment explanation
Indices: 807200--807224 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
807190 AAGACTACTA
807200 TTCATTAATTTTT
1 TTCATTAATTTTT
807213 TTCATTAATTTT
1 TTCATTAATTTT
807225 CAACACATTT
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TTCATTAATTTTT
Found at i:807352 original size:65 final size:65
Alignment explanation
Indices: 807248--807377 Score: 233
Period size: 65 Copynumber: 2.0 Consensus size: 65
807238 AAGGGGATTC
807248 ATAATTACATGTATAAATTTTATTTATAAATTATAAAAATTATACTTCTAAATGAGAATTAAAAT
1 ATAATTACATGTATAAATTTTATTTATAAATTATAAAAATTATACTTCTAAATGAGAATTAAAAT
** *
807313 ATAATTACATGTATAGGTTTTATTTATAAATTATAAAAATTATACTTTTAAATGAGAATTAAAAT
1 ATAATTACATGTATAAATTTTATTTATAAATTATAAAAATTATACTTCTAAATGAGAATTAAAAT
807378 TATTTTAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (65 bp):
ATAATTACATGTATAAATTTTATTTATAAATTATAAAAATTATACTTCTAAATGAGAATTAAAAT
Found at i:810141 original size:21 final size:22
Alignment explanation
Indices: 810110--810170 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
810100 ATTTAAAATC
810110 ATATAATATAATATATTATTTCT
1 ATAT-ATATAATATATTATTTCT
*
810133 AT-TATATAATATAATTATTTTT
1 ATATATATAATAT-ATTATTTCT
* *
810155 ATATAAATAATTTATT
1 ATATATATAATATATT
810171 TTTTAAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 9 0.27
22 14 0.42
23 10 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATATATAATATATTATTTCT
Found at i:810156 original size:19 final size:19
Alignment explanation
Indices: 810115--810173 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 19
810105 AAATCATATA
810115 ATATAATAT-ATTATTTCTATT
1 ATATAATATAATTA-TT-T-TT
810136 ATATAATATAATTATTTTT
1 ATATAATATAATTATTTTT
810155 ATATAA-ATAATTTATTTTT
1 ATATAATATAA-TTATTTTT
810174 TAAAACTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.11
19 16 0.44
20 1 0.03
21 11 0.31
22 4 0.11
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATAATATAATTATTTTT
Found at i:811076 original size:16 final size:17
Alignment explanation
Indices: 811038--811077 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
811028 TTATATAATA
811038 AAAAATTATTTTTATTT
1 AAAAATTATTTTTATTT
811055 AAAAATTATTTTTA-TT
1 AAAAATTATTTTTATTT
811071 AAAAATT
1 AAAAATT
811078 TAATCATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAAAATTATTTTTATTT
Found at i:813118 original size:15 final size:15
Alignment explanation
Indices: 813069--813140 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
813059 AAAATTAATA
*
813069 ATTTA-TATATTTAT
1 ATTTATTATAATTAT
813083 ATTGTATTAT-ATTATT
1 ATT-TATTATAATTA-T
*
813099 TTTTATTATAATTAT
1 ATTTATTATAATTAT
**
813114 ATTTAAAATAATTAT
1 ATTTATTATAATTAT
*
813129 ATATTTTTATAA
1 AT-TTATTATAA
813141 ATTTTAATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
14 3 0.07
15 26 0.58
16 16 0.36
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (15 bp):
ATTTATTATAATTAT
Found at i:813168 original size:18 final size:18
Alignment explanation
Indices: 813063--813169 Score: 62
Period size: 18 Copynumber: 6.0 Consensus size: 18
813053 TAATTTAAAA
813063 TTAATA-ATTTATATATT
1 TTAATATATTTATATATT
* * *
813080 TATATTGTATTATATTATTTT
1 T-TAATATATT-TA-TATATT
* *
813101 TTATTATA-AT-TATA-T
1 TTAATATATTTATATATT
* *
813116 TTAAAATAATTATATATT
1 TTAATATATTTATATATT
* *
813134 TTTATAAATTT-TAATATT
1 TTAATATATTTAT-ATATT
813152 TTAATATATTTATATATT
1 TTAATATATTTATATATT
813170 GATATAATAT
Statistics
Matches: 66, Mismatches: 15, Indels: 17
0.67 0.15 0.17
Matches are distributed among these distances:
15 7 0.11
16 4 0.06
17 6 0.09
18 31 0.47
19 4 0.06
20 8 0.12
21 6 0.09
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (18 bp):
TTAATATATTTATATATT
Found at i:813221 original size:17 final size:17
Alignment explanation
Indices: 813166--813222 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
813156 TATATTTATA
*
813166 TATTGATATAATATTATT
1 TATT-ATATAATATTTTT
*
813184 T-TTATATTAAT-TTTTA
1 TATTATA-TAATATTTTT
*
813200 AATTATATAATATTTTT
1 TATTATATAATATTTTT
813217 TATTAT
1 TATTAT
813223 TTTTTAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
16 10 0.32
17 20 0.65
18 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TATTATATAATATTTTT
Found at i:813240 original size:12 final size:11
Alignment explanation
Indices: 813148--813241 Score: 58
Period size: 10 Copynumber: 8.7 Consensus size: 11
813138 TAAATTTTAA
813148 TATTTTAATA-
1 TATTTTAATAT
813158 TA-TTTATATAT
1 TATTTTA-ATAT
*
813169 TGA-TATAATAT
1 T-ATTTTAATAT
*
813180 TATTTTTATAT
1 TATTTTAATAT
813191 TAATTTTTAA-AT
1 T-A-TTTTAATAT
*
813203 TA-TATAATAT
1 TATTTTAATAT
*
813213 T-TTTTATTAT
1 TATTTTAATAT
813223 T-TTTTAATAT
1 TATTTTAATAT
813233 TATGTTTAA
1 TAT-TTTAA
813242 ATCATATTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
9 8 0.12
10 25 0.38
11 15 0.23
12 13 0.20
13 5 0.08
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTAATAT
Found at i:821636 original size:2 final size:2
Alignment explanation
Indices: 821629--821744 Score: 144
Period size: 2 Copynumber: 58.5 Consensus size: 2
821619 TTTCTACCTC
821629 TA TA TA 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 TA TA TA
* * * *
821671 TA TA TA TA TA TA T- TA TA TA TA TA TA CA CA CA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
821712 CA CA TA CA TG CA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
821745 GATCGGGTGT
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
1 1 0.01
2 100 0.99
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (2 bp):
TA
Found at i:825276 original size:21 final size:21
Alignment explanation
Indices: 825241--825288 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
825231 AAAATTGGTT
825241 TTTTTTATTGTTTTAATCT-TAA
1 TTTTTTATTGTTTT-AT-TATAA
825263 TTTTTTATTG-TTTATTATAA
1 TTTTTTATTGTTTTATTATAA
825283 TTTTTT
1 TTTTTT
825289 TATTAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.04
20 11 0.44
21 3 0.12
22 10 0.40
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTTTTATTGTTTTATTATAA
Found at i:825289 original size:21 final size:23
Alignment explanation
Indices: 825240--825292 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 23
825230 AAAAATTGGT
825240 TTTTTTTATTGTTTTAATCTTAA
1 TTTTTTTATTGTTTTAATCTTAA
825263 -TTTTTTATTG-TTT-AT-TATAA
1 TTTTTTTATTGTTTTAATCT-TAA
825283 TTTTTTTATT
1 TTTTTTTATT
825293 AAAGAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 5 0.18
21 12 0.43
22 10 0.36
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (23 bp):
TTTTTTTATTGTTTTAATCTTAA
Found at i:825369 original size:4 final size:4
Alignment explanation
Indices: 825351--825407 Score: 82
Period size: 4 Copynumber: 14.8 Consensus size: 4
825341 CATATGCATA
* *
825351 TATG TACG TACG TATG TATG TATG TA-- TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
825397 TATG TATG TAT
1 TATG TATG TAT
825408 ACAGCTTTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
4 47 0.96
ACGTcount: A:0.26, C:0.04, G:0.23, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:825378 original size:26 final size:26
Alignment explanation
Indices: 825349--825403 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
825339 TACATATGCA
825349 TATATGTACGTACGTATGTATGTATG
1 TATATGTACGTACGTATGTATGTATG
* *
825375 TATATGTATGTATGTATGTATGTATG
1 TATATGTACGTACGTATGTATGTATG
825401 TAT
1 TAT
825404 GTATACAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (26 bp):
TATATGTACGTACGTATGTATGTATG
Found at i:826896 original size:17 final size:17
Alignment explanation
Indices: 826838--826900 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
826828 AAATAATTAT
*
826838 ATATAAATAATA-AATAA
1 ATATAAATATTATAA-AA
* * *
826855 ATTTAAATTTTAATATAA
1 ATATAAATATT-ATAAAA
*
826873 ATTTAAATATTATAAAA
1 ATATAAATATTATAAAA
826890 ATATAAATATT
1 ATATAAATATT
826901 TTATTTACGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 23 0.62
18 13 0.35
19 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAAATATTATAAAA
Found at i:833026 original size:101 final size:101
Alignment explanation
Indices: 832851--833047 Score: 349
Period size: 101 Copynumber: 2.0 Consensus size: 101
832841 AGGATTATAA
*
832851 CTCCATATCTATATTCGAAAATACGTCGGACACTAGTACTTCAAGAAAAATAAAGGGTTAGAGCA
1 CTCCATATCTATATCCGAAAATACGTCGGACACTAGTACTTCAAGAAAAATAAAGGGTTAGAGCA
832916 ACATAGTTCATGCATGTTAATTTATTTGAAATAACC
66 ACATAGTTCATGCATGTTAATTTATTTGAAATAACC
* * *
832952 CTCCATCTCTATATCCGAAAATATGTTGGACACTAGTACTTCAAGAAAAATAAAGGGTTAGAGCA
1 CTCCATATCTATATCCGAAAATACGTCGGACACTAGTACTTCAAGAAAAATAAAGGGTTAGAGCA
*
833017 ATATAGTTCATGCATGTTAATTTATTTGAAA
66 ACATAGTTCATGCATGTTAATTTATTTGAAA
833048 ATATATATGC
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 91 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (101 bp):
CTCCATATCTATATCCGAAAATACGTCGGACACTAGTACTTCAAGAAAAATAAAGGGTTAGAGCA
ACATAGTTCATGCATGTTAATTTATTTGAAATAACC
Found at i:836227 original size:23 final size:25
Alignment explanation
Indices: 836180--836228 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
836170 TAGTATCAAT
* *
836180 TTGTGTGTGTGTTTTTTTGCATTGG
1 TTGTGAGTGTGTTTATTTGCATTGG
836205 TTGTGAGT-TGTTTATTTGC-TTGG
1 TTGTGAGTGTGTTTATTTGCATTGG
836228 T
1 T
836229 AGTGTCATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 10 0.45
25 7 0.32
ACGTcount: A:0.06, C:0.04, G:0.31, T:0.59
Consensus pattern (25 bp):
TTGTGAGTGTGTTTATTTGCATTGG
Found at i:838305 original size:48 final size:48
Alignment explanation
Indices: 838230--838325 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
838220 AACAGAGCAC
* *
838230 TCTATATTTTCGCTACCCGTAATTCAGATAGTTATACTCCTATCACAT
1 TCTATATTTTCGCTACCCGTAAGTCAGATAGTCATACTCCTATCACAT
*
838278 TCTATATTTTCGCTTCCCGTAAGTCAGATAGTCATACTCCTATCACAT
1 TCTATATTTTCGCTACCCGTAAGTCAGATAGTCATACTCCTATCACAT
838326 GACAATCTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.39
Consensus pattern (48 bp):
TCTATATTTTCGCTACCCGTAAGTCAGATAGTCATACTCCTATCACAT
Found at i:840402 original size:93 final size:93
Alignment explanation
Indices: 840238--840428 Score: 355
Period size: 93 Copynumber: 2.1 Consensus size: 93
840228 CAAGATAAAT
* *
840238 GAAGAGTCAGAGCAACATAATACATTAGACAAACATACAAGCAATAGAAAAAATTGGAAAAGAGA
1 GAAGAGTCAAAGCAACATAATAAATTAGACAAACATACAAGCAATAGAAAAAATTGGAAAAGAGA
840303 AATTCTATTAAAATTAATAAGAGCAATA
66 AATTCTATTAAAATTAATAAGAGCAATA
840331 GAAGAGTCAAAGCAACATAATAAATTAGACAAACATACAAGCAATAGAAAAAATTGGAAAAGAGA
1 GAAGAGTCAAAGCAACATAATAAATTAGACAAACATACAAGCAATAGAAAAAATTGGAAAAGAGA
*
840396 AGTTCTATTAAAATTAATAAGAGCAATA
66 AATTCTATTAAAATTAATAAGAGCAATA
840424 GAAGA
1 GAAGA
840429 ACAGAAAGTT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 95 1.00
ACGTcount: A:0.55, C:0.10, G:0.16, T:0.19
Consensus pattern (93 bp):
GAAGAGTCAAAGCAACATAATAAATTAGACAAACATACAAGCAATAGAAAAAATTGGAAAAGAGA
AATTCTATTAAAATTAATAAGAGCAATA
Found at i:840502 original size:23 final size:21
Alignment explanation
Indices: 840464--840509 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
840454 AAATTTAGAG
*
840464 AAAAAAAAATGAAGAAAGGAA
1 AAAAAAAAATGAAGAAAAGAA
*
840485 AAAAAAAAATAAGTAGAAAAGAA
1 AAAAAAAAAT--GAAGAAAAGAA
840508 AA
1 AA
840510 GGATTTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
23 11 0.52
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (21 bp):
AAAAAAAAATGAAGAAAAGAA
Found at i:842627 original size:22 final size:22
Alignment explanation
Indices: 842601--842647 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
842591 TCTTTATTTG
842601 ATATTGATTAAATTATAA-TTAA
1 ATATTGATTAAATTA-AATTTAA
**
842623 ATATTTTTTAAATTAAATTTAA
1 ATATTGATTAAATTAAATTTAA
842645 ATA
1 ATA
842648 ATTTATAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATATTGATTAAATTAAATTTAA
Found at i:842995 original size:22 final size:22
Alignment explanation
Indices: 842942--842997 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
842932 AGTTTATTAG
*
842942 TTTAATTAA-GTT-TTTTTATT
1 TTTAATTAATATTATTTTTATT
842962 TTTAA-TATATATTATTTTTATT
1 TTTAATTA-ATATTATTTTTATT
842984 TTTAATTAATATTA
1 TTTAATTAATATTA
842998 AAAAATCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 2 0.06
22 19 0.61
23 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTAATTAATATTATTTTTATT
Found at i:843205 original size:20 final size:20
Alignment explanation
Indices: 843180--843220 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
843170 GAATTCGAGT
843180 TTCTTACTATTTAAATAAGC
1 TTCTTACTATTTAAATAAGC
843200 TTCTTACTATTTAAATAAGC
1 TTCTTACTATTTAAATAAGC
843220 T
1 T
843221 GAGCTCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (20 bp):
TTCTTACTATTTAAATAAGC
Found at i:843739 original size:27 final size:31
Alignment explanation
Indices: 843683--843750 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 31
843673 AATTAGATTA
843683 ATTTAA-TAAATCATCTTAAATTATATTATTT
1 ATTTAATTAAATCATCTTAAA-TATATTATTT
843714 ATTTAATTAAAT-AT-TTAAA-ATA-TATTT
1 ATTTAATTAAATCATCTTAAATATATTATTT
843741 ATTTATATTA
1 ATTTA-ATTA
843751 TATTATAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
27 10 0.29
28 7 0.20
30 5 0.14
31 8 0.23
32 5 0.14
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTTAATTAAATCATCTTAAATATATTATTT
Found at i:843743 original size:31 final size:30
Alignment explanation
Indices: 843683--843763 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 30
843673 AATTAGATTA
*
843683 ATTTAA-TAAATCATCTTAAATTATATTATTT
1 ATTTAATTAAAT-AT-TTAAAATATATTATTT
843714 ATTTAATTAAATATTTAAAATATATTTATTT
1 ATTTAATTAAATATTTAAAATATA-TTATTT
843745 ATATTATATTATAAT-TTTA
1 AT-TTA-ATTA-AATATTTA
843764 TTAAAAATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
30 9 0.20
31 16 0.36
32 8 0.18
33 8 0.18
34 3 0.07
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (30 bp):
ATTTAATTAAATATTTAAAATATATTATTT
Found at i:847205 original size:35 final size:35
Alignment explanation
Indices: 847159--847229 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
847149 TTTTACATGA
847159 GTTAGTCAGCTTTAATTTAATGCTTGAATCCAAAG
1 GTTAGTCAGCTTTAATTTAATGCTTGAATCCAAAG
847194 GTTAGTCAGCTTTAATTTAATGCTTGAATCCAAAG
1 GTTAGTCAGCTTTAATTTAATGCTTGAATCCAAAG
847229 G
1 G
847230 CCTTTCGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (35 bp):
GTTAGTCAGCTTTAATTTAATGCTTGAATCCAAAG
Found at i:850779 original size:17 final size:17
Alignment explanation
Indices: 850730--850780 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
850720 ATAAAAAATT
*
850730 TATATTTAAATTTTATC
1 TATATTTAAATTTAATC
**
850747 TA-ATTTAAATAAAATC
1 TATATTTAAATTTAATC
*
850763 TATATTTATATTTAATC
1 TATATTTAAATTTAATC
850780 T
1 T
850781 GAAAATTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTTAAATTTAATC
Found at i:851132 original size:28 final size:26
Alignment explanation
Indices: 851068--851135 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 26
851058 TAATTAAATA
*
851068 TAAATATAAATATATATTTAATTTTTT
1 TAAAT-TAAATTTATATTTAATTTTTT
851095 TAATATTTAAATTTA-ATATTAATTTTTTAT
1 TAA-A-TTAAATTTATAT-TTAA-TTTTT-T
851125 TAAATTAAATT
1 TAAATTAAATT
851136 ATTTACTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 5 0.14
28 19 0.54
29 7 0.20
30 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TAAATTAAATTTATATTTAATTTTTT
Found at i:851160 original size:32 final size:31
Alignment explanation
Indices: 851111--851171 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
851101 TTAAATTTAA
* *
851111 TATTAATTTTTTATTAAATTAAATTATTTACT
1 TATTAATTTGTTATTAAATAAAATT-TTTACT
851143 TATTAATTTAGTT-TTAAATAAAATTTTTA
1 TATTAATTT-GTTATTAAATAAAATTTTTA
851172 TAAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 4 0.15
32 20 0.77
33 2 0.08
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (31 bp):
TATTAATTTGTTATTAAATAAAATTTTTACT
Found at i:851856 original size:10 final size:10
Alignment explanation
Indices: 851843--851872 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
851833 CTAAGCTTAG
*
851843 TTGTGTTGTT
1 TTGTTTTGTT
851853 TTGTTTTGTT
1 TTGTTTTGTT
851863 TTGTTTTGTT
1 TTGTTTTGTT
851873 GTTTCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (10 bp):
TTGTTTTGTT
Found at i:851866 original size:15 final size:15
Alignment explanation
Indices: 851843--851872 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
851833 CTAAGCTTAG
851843 TTGTGTTGTTTTGTT
1 TTGTGTTGTTTTGTT
*
851858 TTGTTTTGTTTTGTT
1 TTGTGTTGTTTTGTT
851873 GTTTCCATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (15 bp):
TTGTGTTGTTTTGTT
Found at i:854989 original size:3 final size:3
Alignment explanation
Indices: 854981--855029 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
854971 GACAATGGTT
*
854981 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
855029 T
1 T
855030 CTTTTTCATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:855620 original size:1 final size:1
Alignment explanation
Indices: 855616--855641 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
855606 GTTGTTTGGT
855616 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
855642 TTCTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:861556 original size:2 final size:2
Alignment explanation
Indices: 861549--861612 Score: 103
Period size: 2 Copynumber: 32.0 Consensus size: 2
861539 CATATAAGTG
*
861549 TA TA TA TA TG TA TA TGA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
861591 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
861613 ACATGAGTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 56 0.97
3 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:862542 original size:22 final size:23
Alignment explanation
Indices: 862517--862562 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
862507 TATTTTATTT
862517 AAAT-TTAATTATAAAAT-ATAAA
1 AAATATTAA-TATAAAATAATAAA
862539 AAATATTAATATAAAATAATAAA
1 AAATATTAATATAAAATAATAAA
862562 A
1 A
862563 TTTTTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATATTAATATAAAATAATAAA
Found at i:862879 original size:13 final size:13
Alignment explanation
Indices: 862856--862890 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
862846 ACCCTTTATC
*
862856 AATTATTTATTTT
1 AATTTTTTATTTT
*
862869 ATTTTTTTATTTT
1 AATTTTTTATTTT
862882 AATTTTTTA
1 AATTTTTTA
862891 AATATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
AATTTTTTATTTT
Found at i:863757 original size:30 final size:29
Alignment explanation
Indices: 863658--863764 Score: 101
Period size: 30 Copynumber: 3.5 Consensus size: 29
863648 ATAATAGTTT
*
863658 AAAAAAATAAATATATTTTTAACTAAACTTTA
1 AAAAAAATAAATAT-TTTTT-A-TAAATTTTA
*
863690 AATAGATAAATAAATA-TTTTT-TAAATATTA
1 AA-A-A-AAATAAATATTTTTTATAAATTTTA
*
863720 CAAAAAAATATATATTTTTTATAAAATTTTA
1 -AAAAAAATAAATATTTTTTAT-AAATTTTA
863751 AAAAAAATAAATAT
1 AAAAAAATAAATAT
863765 ATTTCACCTT
Statistics
Matches: 63, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
28 8 0.13
29 6 0.10
30 22 0.35
31 9 0.14
32 2 0.03
33 6 0.10
34 1 0.02
35 9 0.14
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (29 bp):
AAAAAAATAAATATTTTTTATAAATTTTA
Found at i:871740 original size:17 final size:16
Alignment explanation
Indices: 871718--871794 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 16
871708 AATAATTTAC
871718 ATATTTATATTATATTT
1 ATATTTATATTATA-TT
*
871735 ATATTTTTATTATA-T
1 ATATTTATATTATATT
*
871750 ATATTTTTATTATATAAGT
1 ATATTTATATTATAT---T
*
871769 TTATTTATGA-TATATT
1 ATATTTAT-ATTATATT
871785 ATATTTATAT
1 ATATTTATAT
871795 AAATTTTAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
15 16 0.32
16 8 0.16
17 13 0.26
19 12 0.24
20 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
ATATTTATATTATATT
Found at i:871754 original size:15 final size:15
Alignment explanation
Indices: 871718--871765 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
871708 AATAATTTAC
*
871718 ATATTTATATTATATTT
1 ATATTTTTATTATA--T
871735 ATATTTTTATTATAT
1 ATATTTTTATTATAT
871750 ATATTTTTATTATAT
1 ATATTTTTATTATAT
871765 A
1 A
871766 AGTTTATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 17 0.57
17 13 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATATTTTTATTATAT
Found at i:872087 original size:17 final size:14
Alignment explanation
Indices: 872050--872080 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
872040 AAATTAAATT
872050 AAATTTAAATAATA
1 AAATTTAAATAATA
872064 AAATTTAAATAATA
1 AAATTTAAATAATA
872078 AAA
1 AAA
872081 AATTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATTTAAATAATA
Found at i:872205 original size:17 final size:18
Alignment explanation
Indices: 872183--872221 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
872173 ATATATTTTC
872183 ATAA-TTAAATTTAAAT-A
1 ATAATTTAAA-TTAAATCA
872200 ATAATTTAAATTAAATCA
1 ATAATTTAAATTAAATCA
872218 ATAA
1 ATAA
872222 AAATTACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATTTAAATTAAATCA
Found at i:873633 original size:12 final size:12
Alignment explanation
Indices: 873616--873641 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
873606 TCAACCGTAT
873616 AAAAATAAACAC
1 AAAAATAAACAC
873628 AAAAATAAACAC
1 AAAAATAAACAC
873640 AA
1 AA
873642 TACAAACGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.15, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAAATAAACAC
Found at i:874027 original size:2 final size:2
Alignment explanation
Indices: 874020--874123 Score: 147
Period size: 2 Copynumber: 52.0 Consensus size: 2
874010 GGAATGGAGC
874020 AT AT AT AT 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 AT AT AT AT
** ** *
874062 AT AT AT AT AT AT AT AT AT AT AT CC AT -T GG AGC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
874104 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
874124 TTTAACAATA
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.01
2 90 0.98
3 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:875875 original size:47 final size:47
Alignment explanation
Indices: 875806--875902 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
875796 CTATGACTGG
* *
875806 TAACAAATACTCATTATCATATTAATTCTATAATTAATGAATTTTTC
1 TAACAAATACTCATCATCATATTAATTCTATAATTAATGAATTGTTC
875853 TAACAAATACTCATCATCATATTAATTCTATAATTAATGAATTGTTC
1 TAACAAATACTCATCATCATATTAATTCTATAATTAATGAATTGTTC
875900 TAA
1 TAA
875903 AAACGTTAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.42
Consensus pattern (47 bp):
TAACAAATACTCATCATCATATTAATTCTATAATTAATGAATTGTTC
Found at i:877430 original size:26 final size:25
Alignment explanation
Indices: 877392--877448 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
877382 TTTATTTATA
877392 AATAAAATTTAAAAATAATCAAATAT
1 AATAAAATTTAAAAAT-ATCAAATAT
*
877418 AATATAAA-TTAAATATATCAAAT-T
1 AATA-AAATTTAAAAATATCAAATAT
877442 AGATAAA
1 A-ATAAA
877449 TAATTCGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 4 0.14
25 10 0.36
26 11 0.39
27 3 0.11
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (25 bp):
AATAAAATTTAAAAATATCAAATAT
Found at i:877656 original size:25 final size:27
Alignment explanation
Indices: 877609--877666 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
877599 TACTTAATTA
* **
877609 ATATATTTATAATATATTTAAT-ATAT
1 ATATTTTTATAATATATAAAATAATAT
*
877635 -TATTTTTATTATATATAAAATAATAT
1 ATATTTTTATAATATATAAAATAATAT
877661 ATATTT
1 ATATTT
877667 CATTAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 17 0.65
26 4 0.15
27 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
ATATTTTTATAATATATAAAATAATAT
Found at i:878098 original size:3 final size:3
Alignment explanation
Indices: 878086--878140 Score: 94
Period size: 3 Copynumber: 18.3 Consensus size: 3
878076 CACTTATTTG
878086 ATA A-A ATA ATA ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
878131 ATA ATA ATA A
1 ATA ATA ATA A
878141 AGCATATGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:879680 original size:27 final size:28
Alignment explanation
Indices: 879650--879712 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
879640 TTAATCATAT
*
879650 ATAAAAAA-AGTTTAATTTTATAAATTG
1 ATAAAAAATAGTTTAATATTATAAATTG
** *
879677 ATAATAAAATTTTTTAATATTGTAAATTG
1 ATAA-AAAATAGTTTAATATTATAAATTG
*
879706 ATTAAAA
1 ATAAAAA
879713 TATTATTGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 4 0.14
28 7 0.24
29 18 0.62
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (28 bp):
ATAAAAAATAGTTTAATATTATAAATTG
Found at i:881371 original size:19 final size:19
Alignment explanation
Indices: 881349--881418 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 19
881339 TACCAATTAA
*
881349 TAAATAAATTTTTATCAAT
1 TAAATAAATTTATATCAAT
*
881368 TAAATAAATTTAAATCAATT
1 TAAATAAATTTATATCAA-T
* *
881388 ACTAAATAAATATATATTAAT
1 --TAAATAAATTTATATCAAT
881409 TAAATAAATT
1 TAAATAAATT
881419 GAGAAACACA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 25 0.60
20 1 0.02
21 1 0.02
22 15 0.36
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAATAAATTTATATCAAT
Found at i:885667 original size:224 final size:224
Alignment explanation
Indices: 885265--885712 Score: 869
Period size: 224 Copynumber: 2.0 Consensus size: 224
885255 CTTAACATCA
885265 ATCTGGTACCAAGAACTAATTGAAAGCTGTACCAATTGTTATAAAGGAATTGCTACCAAAAGCAA
1 ATCTGGTACCAAGAACTAATTGAAAGCTGTACCAATTGTTATAAAGGAATTGCTACCAAAAGCAA
885330 ACAAAGTAAGGTATCCTTCTTACAATTGAAAGGCAAAAAGTGTATTCAGATACAATAATCAAACT
66 ACAAAGTAAGGTATCCTTCTTACAATTGAAAGGCAAAAAGTGTATTCAGATACAATAATCAAACT
*
885395 ATTTTAGAAATAAAAATTGAAAAATGTAATTTCTTTAGATAACAAAGGAAGTTATCATACTTTCA
131 ATTTTAGAAATAAAAATTGAAAAATGTAATTTCTTTAGATAACAAAGGAAGTAATCATACTTTCA
885460 TATAAAACAAACATGTTAAAATTGGTATT
196 TATAAAACAAACATGTTAAAATTGGTATT
885489 ATCTGGTACCAAGAACTAATTGAAAGCTGTACCAATTGTTATAAAGGAATTGCTACCAAAAGCAA
1 ATCTGGTACCAAGAACTAATTGAAAGCTGTACCAATTGTTATAAAGGAATTGCTACCAAAAGCAA
885554 ACAAAGTAAGGTATCCTTCTTACAATTGAAAGGCAAAAAGTGTATTCAGATACAATAATCAAACT
66 ACAAAGTAAGGTATCCTTCTTACAATTGAAAGGCAAAAAGTGTATTCAGATACAATAATCAAACT
* *
885619 ATTTTAGAAATAAAAATTGAAAAATGTAATTTCTTTCGATACCAAAGGAAGTAATCATACTTTCA
131 ATTTTAGAAATAAAAATTGAAAAATGTAATTTCTTTAGATAACAAAGGAAGTAATCATACTTTCA
885684 TATAAAACAAACATGTTAAAATTGGTATT
196 TATAAAACAAACATGTTAAAATTGGTATT
885713 CTATTTTTAA
Statistics
Matches: 221, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
224 221 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (224 bp):
ATCTGGTACCAAGAACTAATTGAAAGCTGTACCAATTGTTATAAAGGAATTGCTACCAAAAGCAA
ACAAAGTAAGGTATCCTTCTTACAATTGAAAGGCAAAAAGTGTATTCAGATACAATAATCAAACT
ATTTTAGAAATAAAAATTGAAAAATGTAATTTCTTTAGATAACAAAGGAAGTAATCATACTTTCA
TATAAAACAAACATGTTAAAATTGGTATT
Found at i:886415 original size:16 final size:16
Alignment explanation
Indices: 886390--886435 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
886380 ATCTGAGTCG
*
886390 AATTTGAAATAATTTA
1 AATTTAAAATAATTTA
886406 AATTTAAAATAATTTA
1 AATTTAAAATAATTTA
* *
886422 AACTCAAAATAATT
1 AATTTAAAATAATT
886436 CGAATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (16 bp):
AATTTAAAATAATTTA
Found at i:887301 original size:16 final size:17
Alignment explanation
Indices: 887269--887329 Score: 56
Period size: 16 Copynumber: 3.7 Consensus size: 17
887259 TGACCAGAAT
**
887269 TCGAAATGAC-CCAAAC
1 TCGAAATGACTCTGAAC
887285 TCGAAATGACT-TGAAC
1 TCGAAATGACTCTGAAC
* *
887301 TTGAAATGA-TCTGAAT
1 TCGAAATGACTCTGAAC
887317 TCGAAAATGACTC
1 TCG-AAATGACTC
887330 GAAAATTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
15 1 0.03
16 27 0.75
17 6 0.17
18 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (17 bp):
TCGAAATGACTCTGAAC
Found at i:888563 original size:34 final size:33
Alignment explanation
Indices: 888515--888604 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
888505 CTCAACCGAC
* *
888515 CCTTTTCCCT-CACCAAACCCTAAAATAACCTA
1 CCTTTCCCCTCCACCAAACCCTAAAATAACCAA
**
888547 CCTCTTCCCCTCCACCAAACCCTAAAATAGTCAA
1 CCT-TTCCCCTCCACCAAACCCTAAAATAACCAA
* *
888581 CCTTTTCCCTCAACCAAACCCTAA
1 CCTTTCCCCTCCACCAAACCCTAA
888605 TTAGTTCCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
32 3 0.06
33 25 0.50
34 22 0.44
ACGTcount: A:0.32, C:0.43, G:0.01, T:0.23
Consensus pattern (33 bp):
CCTTTCCCCTCCACCAAACCCTAAAATAACCAA
Found at i:889087 original size:2 final size:2
Alignment explanation
Indices: 889080--889104 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
889070 AGGTACTTGC
889080 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
889105 TGAACCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:890241 original size:2 final size:2
Alignment explanation
Indices: 890236--890283 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
890226 TCTATATAAA
* *
890236 AT AT AT AT AT AT AT AT AT AT AT A- AA AC AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
890276 AT GT AT AT
1 AT AT AT AT
890284 TTACTTAGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:890412 original size:22 final size:22
Alignment explanation
Indices: 890376--890440 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 22
890366 AAAATTTATT
890376 TTAT-TATTTATTATATTATTAAAA
1 TTATATATTT-TTATATTA--AAAA
890400 -TA-ATATTTTTATATTAAAAA
1 TTATATATTTTTATATTAAAAA
890420 TTATATATTTTTATAATTAAA
1 TTATATATTTTTAT-ATTAAA
890441 TTTAGATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
20 4 0.11
21 2 0.05
22 18 0.49
23 13 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATATATTTTTATATTAAAAA
Found at i:891159 original size:2 final size:2
Alignment explanation
Indices: 891152--891177 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
891142 ACCTTTTCTG
891152 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
891178 GGGTTGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:891551 original size:2 final size:2
Alignment explanation
Indices: 891544--891582 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
891534 TTGCTAGGTG
891544 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
891583 GACTGTGAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:892843 original size:25 final size:24
Alignment explanation
Indices: 892810--892872 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
892800 TTAATTTATT
892810 TTAAA-TAAAAATAACATA-ATATA
1 TTAAATTAAAAATAACATATATA-A
** *
892833 TTAATATTAAAGTTAATATATATAA
1 TTAA-ATTAAAAATAACATATATAA
892858 TTAAATTAAAAATAA
1 TTAAATTAAAAATAA
892873 ATTAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 4 0.12
24 10 0.31
25 15 0.47
26 3 0.09
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
TTAAATTAAAAATAACATATATAA
Found at i:893017 original size:18 final size:18
Alignment explanation
Indices: 892994--893028 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
892984 GACTCGAATC
892994 TTAAAAAAAATTTAAGAA
1 TTAAAAAAAATTTAAGAA
893012 TTAAAAAAAATTTAAGA
1 TTAAAAAAAATTTAAGA
893029 TATTCATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
TTAAAAAAAATTTAAGAA
Found at i:893219 original size:31 final size:28
Alignment explanation
Indices: 893176--893240 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
893166 CTTTTCATTT
*
893176 AAAAT-TAATTTATAAATAATATTTAAAAA
1 AAAATATATTTTAT-AATAA-ATTTAAAAA
* *
893205 ATAAATATATTTTATATTAAATTTTAAAA
1 A-AAATATATTTTATAATAAATTTAAAAA
893234 AAAATAT
1 AAAATAT
893241 TATCCAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 6 0.19
29 10 0.32
30 8 0.26
31 7 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAATATATTTTATAATAAATTTAAAAA
Found at i:895865 original size:29 final size:29
Alignment explanation
Indices: 895809--895865 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
895799 TCAAAGTTAT
* * *
895809 AATTTTTTATTAATTTTAAAAAGTAAATA
1 AATTTTTTAATAATATTAAAAAGGAAATA
895838 AATTTTTTAATAA-ATTAAAAGAGGAAAT
1 AATTTTTTAATAATATTAAAA-AGGAAAT
895866 TATATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (29 bp):
AATTTTTTAATAATATTAAAAAGGAAATA
Found at i:896422 original size:29 final size:27
Alignment explanation
Indices: 896384--896437 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
896374 TATATATTTA
896384 TGTCACATTTACATTAATTTTTCATTTCT
1 TGTCACATTTA-ATT-ATTTTTCATTTCT
* *
896413 TGTCATATTTAATTATTTTTTATTT
1 TGTCACATTTAATTATTTTTCATTT
896438 TATTTTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 3 0.13
29 10 0.43
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.61
Consensus pattern (27 bp):
TGTCACATTTAATTATTTTTCATTTCT
Found at i:896454 original size:14 final size:15
Alignment explanation
Indices: 896435--896471 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
896425 TTATTTTTTA
896435 TTTTATTTTAC-TTC
1 TTTTATTTTACTTTC
*
896449 TTTTATTTTACTTTG
1 TTTTATTTTACTTTC
896464 TTTTATTT
1 TTTTATTT
896472 ATTTATCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTATTTTACTTTC
Found at i:898118 original size:106 final size:106
Alignment explanation
Indices: 897976--898191 Score: 396
Period size: 106 Copynumber: 2.0 Consensus size: 106
897966 ATAAATTTTA
* * *
897976 AAATAAAATCATCTATTTCATTCAATATGTATCTCATAGAAAGAAATTCATAGTTATCAATATAT
1 AAATAAAATCATCTATTTCATTCAATATATACCTCATAGAAAGAAAGTCATAGTTATCAATATAT
*
898041 ATAATTTAAAATAAAATCATCTATTTTTTAATTTTTAATTT
66 ATAATTTAAAATAAAATCATCTATTTTTAAATTTTTAATTT
898082 AAATAAAATCATCTATTTCATTCAATATATACCTCATAGAAAGAAAGTCATAGTTATCAATATAT
1 AAATAAAATCATCTATTTCATTCAATATATACCTCATAGAAAGAAAGTCATAGTTATCAATATAT
898147 ATAATTTAAAATAAAATCATCTATTTTTAAATTTTTAATTT
66 ATAATTTAAAATAAAATCATCTATTTTTAAATTTTTAATTT
898188 AAAT
1 AAAT
898192 CTTCTTATAT
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.42
Consensus pattern (106 bp):
AAATAAAATCATCTATTTCATTCAATATATACCTCATAGAAAGAAAGTCATAGTTATCAATATAT
ATAATTTAAAATAAAATCATCTATTTTTAAATTTTTAATTT
Found at i:898969 original size:3 final size:3
Alignment explanation
Indices: 898961--899000 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
898951 AATGACATTG
898961 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
899001 TGGTGGAGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:901508 original size:5 final size:5
Alignment explanation
Indices: 901498--901524 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
901488 TAATTAAAGT
901498 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
901525 AATGCAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:901664 original size:26 final size:27
Alignment explanation
Indices: 901635--901689 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
901625 TATAAGTAAA
901635 AAGAAATTAAAAATAA-TTATTTGCTC
1 AAGAAATTAAAAATAATTTATTTGCTC
*
901661 AAGAAATTAAAAATAATTTATTTTCTC
1 AAGAAATTAAAAATAATTTATTTGCTC
901688 AA
1 AA
901690 TCAAAGTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.36
Consensus pattern (27 bp):
AAGAAATTAAAAATAATTTATTTGCTC
Found at i:902486 original size:43 final size:43
Alignment explanation
Indices: 902378--902516 Score: 161
Period size: 43 Copynumber: 3.2 Consensus size: 43
902368 AATAAATAAT
** * *
902378 AAAATTTAGTGGCATTTTAAATATATAAACGCCACTAAATTTC
1 AAAATTTAGTGGCATTTTAAATGGAGAAACGCCGCTAAATTTC
* * *
902421 AAAATTTAGTGGCGTTTTAAATGGAGAAACGTCGCTAAATTTT
1 AAAATTTAGTGGCATTTTAAATGGAGAAACGCCGCTAAATTTC
* * * * *
902464 AAATTTTAGTGGCATTTTAAATGGGGAAACACCGTTAACTTTC
1 AAAATTTAGTGGCATTTTAAATGGAGAAACGCCGCTAAATTTC
*
902507 AAATTTTAGT
1 AAAATTTAGT
902517 AGCGTTTATC
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (43 bp):
AAAATTTAGTGGCATTTTAAATGGAGAAACGCCGCTAAATTTC
Found at i:902676 original size:23 final size:23
Alignment explanation
Indices: 902640--902692 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
902630 CGTGGTAAGC
*
902640 ATTAATTGATTCAAATT-AATTTA
1 ATTAATTGAATC-AATTAAATTTA
* *
902663 ATTAATTTAATCAATTAAATTTG
1 ATTAATTGAATCAATTAAATTTA
902686 ATTAATT
1 ATTAATT
902693 CAATTTGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
ATTAATTGAATCAATTAAATTTA
Found at i:902699 original size:14 final size:13
Alignment explanation
Indices: 902660--902702 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
902650 TCAAATTAAT
*
902660 TTAATTAATTTAA
1 TTAATTAATTTGA
*
902673 TCAATTAAATTTGA
1 TTAATT-AATTTGA
902687 TTAATTCAATTTGA
1 TTAATT-AATTTGA
902701 TT
1 TT
902703 TATTTAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (13 bp):
TTAATTAATTTGA
Found at i:905019 original size:19 final size:19
Alignment explanation
Indices: 904995--905031 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
904985 ATAATTTTTT
904995 TAAAAAATAAAAAATATAG
1 TAAAAAATAAAAAATATAG
905014 TAAAAAATAAAAAATATA
1 TAAAAAATAAAAAATATA
905032 ATAACATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (19 bp):
TAAAAAATAAAAAATATAG
Found at i:906565 original size:14 final size:14
Alignment explanation
Indices: 906528--906575 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
906518 TTGATTTGAA
906528 TTGATTTAATT-AAT
1 TTGA-TTAATTAAAT
* *
906542 TTAATCAATTAAAT
1 TTGATTAATTAAAT
906556 TTGATTAATTAAAT
1 TTGATTAATTAAAT
906570 TTGATT
1 TTGATT
906576 TATTTAGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 5 0.17
14 24 0.83
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (14 bp):
TTGATTAATTAAAT
Found at i:907243 original size:10 final size:10
Alignment explanation
Indices: 907228--907257 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
907218 ATGAATCTTT
907228 AATTTTATCA
1 AATTTTATCA
907238 AATTTTATCA
1 AATTTTATCA
*
907248 AATTATATCA
1 AATTTTATCA
907258 TTGAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTTTATCA
Found at i:913372 original size:15 final size:17
Alignment explanation
Indices: 913344--913375 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
913334 TATTTATATT
913344 TAAATATATATTAAATA
1 TAAATATATATTAAATA
913361 TAAATAT-T-TTAAATA
1 TAAATATATATTAAATA
913376 AATAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATATATATTAAATA
Found at i:913385 original size:26 final size:27
Alignment explanation
Indices: 913342--913424 Score: 78
Period size: 26 Copynumber: 3.0 Consensus size: 27
913332 TTTATTTATA
* **
913342 TTTAAATATATATTAAATATAAAT-AT
1 TTTAAATAAATAAAAAATATAAATAAT
913368 TTTAAATAAATAAAAAATATAAATAAT
1 TTTAAATAAATAAAAAATATAAATAAT
** * *
913395 AATAATATAAATTAAAAAAAATAAAAAAT
1 TTTAA-ATAAA-TAAAAAATATAAATAAT
913424 T
1 T
913425 ATTATTGAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 21 0.46
27 5 0.11
28 5 0.11
29 15 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
TTTAAATAAATAAAAAATATAAATAAT
Found at i:915049 original size:5 final size:5
Alignment explanation
Indices: 915039--915073 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
915029 TATAAAATAT
915039 TTATA TTATA TTATA TTATA TTAT- TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
915074 ATTAATTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:915056 original size:26 final size:26
Alignment explanation
Indices: 914985--915073 Score: 96
Period size: 26 Copynumber: 3.5 Consensus size: 26
914975 TGGGTATTTT
*
914985 TTTATATTATAATTTTATT-TAAAATA
1 TTTATATTAT-ATTATATTATAAAATA
*
915011 TTTTATATT-TATATAAATTATAAAATA
1 -TTTATATTATAT-TATATTATAAAATA
*
915038 TTTATATTATATTATATTAT--ATTA
1 TTTATATTATATTATATTATAAAATA
915062 TTTATATTATAT
1 TTTATATTATAT
915074 ATTAATTAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
24 15 0.27
25 2 0.04
26 20 0.36
27 18 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTATATTATATTATATTATAAAATA
Found at i:915062 original size:31 final size:30
Alignment explanation
Indices: 914979--915062 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 30
914969 ATATAATGGG
* *
914979 TATTTTTTTATATTATAATTTTATT-TAAAA
1 TATTTTATTATATTAT-ATTATATTATAAAA
*
915009 TATTTTA-TAT-TTATA-TAAATTATAAAA
1 TATTTTATTATATTATATTATATTATAAAA
915036 TATTTATATTATATTATATTATATTAT
1 TATTT-TATTATATTATATTATATTAT
915063 TTATATTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
26 4 0.09
27 11 0.24
28 6 0.13
29 6 0.13
30 11 0.24
31 7 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TATTTTATTATATTATATTATATTATAAAA
Found at i:915393 original size:12 final size:13
Alignment explanation
Indices: 915366--915398 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
915356 AAAATTTTAA
915366 ATTTAAAAAATAT
1 ATTTAAAAAATAT
915379 ATTTAAAAAAT-T
1 ATTTAAAAAATAT
915391 ATTTAAAA
1 ATTTAAAA
915399 TATAGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATTTAAAAAATAT
Found at i:915616 original size:31 final size:31
Alignment explanation
Indices: 915549--915617 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
915539 ATTATTCATA
*
915549 TTTAAAAATTTAATAAAAAAATAATAAAATT
1 TTTAAAAATTAAATAAAAAAATAATAAAATT
* * * **
915580 ATTAAAGATTAAATACAAAAATAATAACTTT
1 TTTAAAAATTAAATAAAAAAATAATAAAATT
915611 TTTAAAA
1 TTTAAAA
915618 TGAAATTAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (31 bp):
TTTAAAAATTAAATAAAAAAATAATAAAATT
Found at i:918072 original size:14 final size:14
Alignment explanation
Indices: 918053--918083 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
918043 TAGAACCTGA
918053 CATCAGCTTTATTG
1 CATCAGCTTTATTG
*
918067 CATCAGCTTTGTTG
1 CATCAGCTTTATTG
918081 CAT
1 CAT
918084 TTTAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (14 bp):
CATCAGCTTTATTG
Found at i:918221 original size:22 final size:23
Alignment explanation
Indices: 918192--918237 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
918182 CTTTTAATTT
*
918192 TTTTTAAATATTTATATTTAATG
1 TTTTAAAATATTTATATTTAATG
918215 TTTTAAAAATATTTATATTTAAT
1 TTTT-AAAATATTTATATTTAAT
918238 ATATATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTAAAATATTTATATTTAATG
Found at i:918284 original size:21 final size:22
Alignment explanation
Indices: 918243--918286 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
918233 TTAATATATA
*
918243 TTTAAATTTATAAATATAATTT
1 TTTAAATATATAAATATAATTT
918265 TTTAAATATATAAA-ATAATTT
1 TTTAAATATATAAATATAATTT
918286 T
1 T
918287 AAAAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAAATATATAAATATAATTT
Found at i:923834 original size:25 final size:25
Alignment explanation
Indices: 923783--923831 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
923773 TCATATTAAT
923783 ATTTATATTAAATTTAAATAAAATTA
1 ATTTATATTAAA-TTAAATAAAATTA
923809 ATTT-TATTAAA-TAAATAATAATT
1 ATTTATATTAAATTAAATAA-AATT
923832 TAAATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.32
24 4 0.18
25 7 0.32
26 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTTATATTAAATTAAATAAAATTA
Found at i:923847 original size:16 final size:16
Alignment explanation
Indices: 923792--923847 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
923782 TATTTATATT
*
923792 AAATTTAAATAAAATT
1 AAATTTAAATAAAATA
*
923808 AATTTTATTAA-ATAAATA
1 AAATTTA--AATA-AAATA
923826 ATAATTTAAATAAAATA
1 A-AATTTAAATAAAATA
923843 AAATT
1 AAATT
923848 ATATTAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
16 10 0.31
17 9 0.28
18 8 0.25
19 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATTTAAATAAAATA
Found at i:923854 original size:20 final size:18
Alignment explanation
Indices: 923796--923861 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
923786 TATATTAAAT
*
923796 TTAAATAAAATTAATTTTA
1 TTAAATAAAA-TAATTATA
*
923815 TTAAAT-AAATAATAAT-
1 TTAAATAAAATAATTATA
923831 TTAAATAAAATAAAATTATA
1 TTAAATAAAAT--AATTATA
*
923851 TTAATTAAAAT
1 TTAAATAAAAT
923862 TATAAAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.15
17 9 0.23
18 3 0.08
19 11 0.28
20 10 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAAATAAAATAATTATA
Found at i:924000 original size:21 final size:21
Alignment explanation
Indices: 923976--924018 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
923966 GATCGGTTTG
*
923976 ATTTATTTAAATTGAAAATTA
1 ATTTAATTAAATTGAAAATTA
* *
923997 ATTTAATTAAATTTAATATTA
1 ATTTAATTAAATTGAAAATTA
924018 A
1 A
924019 AATGAATAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTAATTAAATTGAAAATTA
Found at i:924124 original size:14 final size:14
Alignment explanation
Indices: 924105--924132 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
924095 TTTTTTTATT
924105 TTAAATATATTTTA
1 TTAAATATATTTTA
924119 TTAAATATATTTTA
1 TTAAATATATTTTA
924133 AATATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAATATATTTTA
Done.