Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 39 of 190
Found at i:11025596 original size:5 final size:5
Alignment explanation
Indices: 11025588--11025618 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
11025578 GAGATGGAAT
11025588 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
11025619 ATATTTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:11026221 original size:17 final size:17
Alignment explanation
Indices: 11026171--11026228 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
11026161 GGGTGAGAAG
*
11026171 TAAAAGTTTAGGGGGAAAA
1 TAAAAGTTT-GAGGG-AAA
*
11026190 TAAAAAGTTT-TGGGAAA
1 T-AAAAGTTTGAGGGAAA
11026207 TAAAAGTTTGAGGGAAA
1 TAAAAGTTTGAGGGAAA
11026224 GTAAA
1 -TAAA
11026229 TAGGGGGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 7 0.21
19 1 0.03
20 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (17 bp):
TAAAAGTTTGAGGGAAA
Found at i:11026501 original size:30 final size:30
Alignment explanation
Indices: 11026479--11026538 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
11026469 GGGAGGGGAG
11026479 GGGAGAGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGA-AGGAGTAAAAGTTTTGGGGGGAAAGT
*
11026510 GGGAAGGAGTAAAAGTTTT-GAGGGAAAGT
1 GGGAAGGAGTAAAAGTTTTGGGGGGAAAGT
11026539 TTTGAGGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 9 0.32
30 15 0.54
31 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.45, T:0.20
Consensus pattern (30 bp):
GGGAAGGAGTAAAAGTTTTGGGGGGAAAGT
Found at i:11026539 original size:13 final size:13
Alignment explanation
Indices: 11026521--11026549 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11026511 GGAAGGAGTA
11026521 AAAGTTTTGAGGG
1 AAAGTTTTGAGGG
11026534 AAAGTTTTGAGGG
1 AAAGTTTTGAGGG
11026547 AAA
1 AAA
11026550 AGTAAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (13 bp):
AAAGTTTTGAGGG
Found at i:11030091 original size:39 final size:39
Alignment explanation
Indices: 11030031--11030110 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
11030021 CATATGCATC
*
11030031 TGGTGATAAGATCGTGAGTGAAGATCTTATGGCTAAGTT
1 TGGTGATAAGATCATGAGTGAAGATCTTATGGCTAAGTT
* *
11030070 TGGTGATAAGATCATGGGTGAAGATGTTATGGCTAAGTT
1 TGGTGATAAGATCATGAGTGAAGATCTTATGGCTAAGTT
11030109 TG
1 TG
11030111 AGGCTTTGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.28, C:0.06, G:0.33, T:0.34
Consensus pattern (39 bp):
TGGTGATAAGATCATGAGTGAAGATCTTATGGCTAAGTT
Found at i:11030287 original size:180 final size:177
Alignment explanation
Indices: 11030070--11030395 Score: 483
Period size: 180 Copynumber: 1.8 Consensus size: 177
11030060 TGGCTAAGTT
* * *
11030070 TGGTGATAAGATCATGGGTGAAGATGTTATGGCTAAGTTTGAGGCTTTGACAGAGAAGGCT-TCC
1 TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGAAGG-TGTCC
* * * * *
11030134 CATATTATAGCTGATGGTGTAGCTAGGATCCTTAAAGGTAAGGCTGCAGAATCAATCTCGCGTGG
65 CATATTATAGCTAATGATGTAGCTAGGATCATTAAAGATAAGGCTGCAGAATCAATCTCGCATGG
11030199 AAGAAATGAAGTTTCCCATGTCTATAATGAAGTAGAAGAAACATATGCATC
130 -AG--ATGAAGTTTCCCATGTCTATAATGAAGTAGAAGAAACATATGCATC
* *
11030250 TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGACGGTGTGCC
1 TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGAAGGTGTCCC
* * *
11030315 ATGTTATAGCTAATGATGTAGCTAGGATTATTAAAGATAAGGCTGCAGAATTAATCTCGCATGGA
66 ATATTATAGCTAATGATGTAGCTAGGATCATTAAAGATAAGGCTGCAGAATCAATCTCGCATGGA
*
11030380 GATGAAGTTTCGCATG
131 GATGAAGTTTCCCATG
11030396 CCACATATGC
Statistics
Matches: 131, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
177 14 0.11
179 3 0.02
180 114 0.87
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (177 bp):
TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGAAGGTGTCCC
ATATTATAGCTAATGATGTAGCTAGGATCATTAAAGATAAGGCTGCAGAATCAATCTCGCATGGA
GATGAAGTTTCCCATGTCTATAATGAAGTAGAAGAAACATATGCATC
Found at i:11034292 original size:27 final size:27
Alignment explanation
Indices: 11034258--11034319 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
11034248 AAAAAATAAT
11034258 CAAAATATTATAACTTTTTTTATTAAC
1 CAAAATATTATAACTTTTTTTATTAAC
* *
11034285 CAAAATATTATAATTTTTTTTATTTAC
1 CAAAATATTATAACTTTTTTTATTAAC
11034312 CAAAATAT
1 CAAAATAT
11034320 ACCAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (27 bp):
CAAAATATTATAACTTTTTTTATTAAC
Found at i:11034419 original size:27 final size:27
Alignment explanation
Indices: 11034389--11034459 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
11034379 TCGTGCTAAG
* *
11034389 GTGATTGGCGGCACCAAATGTGCCATA
1 GTGATTGGCGGCACCAAAGGTGCCAAA
11034416 GTGATTGGCGGCACCAAAGGTGCCAAA
1 GTGATTGGCGGCACCAAAGGTGCCAAA
**
11034443 GACATTGGCGGCACCAA
1 GTGATTGGCGGCACCAA
11034460 TGTTATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.28, C:0.24, G:0.31, T:0.17
Consensus pattern (27 bp):
GTGATTGGCGGCACCAAAGGTGCCAAA
Found at i:11034512 original size:4 final size:4
Alignment explanation
Indices: 11034505--11034564 Score: 61
Period size: 4 Copynumber: 15.0 Consensus size: 4
11034495 GAAGGAGAGG
* *
11034505 GAAA GAAA GAAA GAAA GAAA GAAA GGAAG GAGAG GAAA GAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA
*
11034553 GAAG GAAA GAAA
1 GAAA GAAA GAAA
11034565 AGGAGAATGG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
3 4 0.08
4 37 0.77
5 7 0.15
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:11034543 original size:22 final size:18
Alignment explanation
Indices: 11034504--11034678 Score: 79
Period size: 16 Copynumber: 10.1 Consensus size: 18
11034494 AGAAGGAGAG
11034504 GGAAAGAAAG--AAAGAA
1 GGAAAGAAAGAAAAAGAA
* * *
11034520 AGAAAGAAAG-GAAGGAGA
1 GGAAAGAAAGAAAAAGA-A
11034538 GGAAAGAAAGAAAAAGAA
1 GGAAAGAAAGAAAAAGAA
**
11034556 GGAAAG-AA-AAGGAGAA
1 GGAAAGAAAGAAAAAGAA
*
11034572 TGGAAA-AAA-AAAGTAGAA
1 -GGAAAGAAAGAAA-AAGAA
*
11034590 -G-AAG-AAGAAGAAGAA
1 GGAAAGAAAGAAAAAGAA
* * *
11034605 -G-AGGAAAGGAGAAGAA
1 GGAAAGAAAGAAAAAGAA
*
11034621 -AAAAGAAAGAAAAAGAA
1 GGAAAGAAAGAAAAAGAA
11034638 GGAAAGAAAAGGAAAAGAGAA
1 GGAAAG-AAA-GAAAA-AGAA
* *
11034659 GAGAAAAAAAGAAGAAGAA
1 G-GAAAGAAAGAAAAAGAA
11034678 G
1 G
11034679 AGGGAAGGAA
Statistics
Matches: 124, Mismatches: 20, Indels: 27
0.73 0.12 0.16
Matches are distributed among these distances:
15 11 0.09
16 28 0.23
17 27 0.22
18 25 0.20
19 12 0.10
20 9 0.07
21 8 0.06
22 4 0.03
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.01
Consensus pattern (18 bp):
GGAAAGAAAGAAAAAGAA
Found at i:11034592 original size:3 final size:3
Alignment explanation
Indices: 11034586--11034679 Score: 60
Period size: 3 Copynumber: 33.0 Consensus size: 3
11034576 AAAAAAAAGT
* *
11034586 AGA AGA AGA AGA AGA AGA AGA GGAA AGG AGA AGA A-A A-A AGAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AG-A AGA
* * *
11034631 AAA AGA AGG A-A AGA A-A AGGA A-A AG- AGA AG- AGA A-A AAA AGA
1 AGA AGA AGA AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA
11034671 AGA AGA AGA
1 AGA AGA AGA
11034680 GGGAAGGAAG
Statistics
Matches: 72, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
2 15 0.21
3 50 0.69
4 7 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11034602 original size:46 final size:43
Alignment explanation
Indices: 11034545--11034708 Score: 130
Period size: 46 Copynumber: 3.8 Consensus size: 43
11034535 AGAGGAAAGA
*
11034545 AAGAAAAAGAAGGAAAGAAAAGGAGAATGGAAAAAAAAAGTAGAAG
1 AAGAAGAAGAAGGAAAGAAAAGGAGAA--GAAAAAAAAAG-AGAAG
*
11034591 AAGAAGAAGAA-GAAGAGGAAAGGAGAAGAAAAAAGAAAGA-AA-
1 AAGAAGAAGAAGGAA-AGAAAAGGAGAAGAAAAAA-AAAGAGAAG
* * *
11034633 AAGAAGGA-AAGAAAAGGAAAA-GAGAAGAGAAAAAAAGAAGAAG
1 AAGAAGAAGAAGGAAA-GAAAAGGAGAAGAAAAAAAAAG-AGAAG
*
11034676 AAGAGGGAAGGAAGGAAA-AAAA--A-AAGAAAAAAA
1 AAGA-AGAA-GAAGGAAAGAAAAGGAGAAGAAAAAAA
11034709 TTGTAATTTT
Statistics
Matches: 98, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
40 4 0.04
41 15 0.15
42 24 0.24
43 7 0.07
44 14 0.14
45 7 0.07
46 27 0.28
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (43 bp):
AAGAAGAAGAAGGAAAGAAAAGGAGAAGAAAAAAAAAGAGAAG
Found at i:11034663 original size:26 final size:25
Alignment explanation
Indices: 11034586--11034698 Score: 68
Period size: 26 Copynumber: 4.2 Consensus size: 25
11034576 AAAAAAAAGT
11034586 AGAAGAAGAAGAAGAAGAAGAGGAAAGGAGA
1 AGAA-AAGAA-AAG-AGAAGA-G-AAGGA-A
* *
11034617 AGAAAAAAGAAAGA-AAAAGAAGGAA
1 AGAAAAGA-AAAGAGAAGAGAAGGAA
**
11034642 AGAAAAGGAAAAGAGAAGAGAAAAAA
1 AGAAAA-GAAAAGAGAAGAGAAGGAA
* *
11034668 AGAAGAAGAAGAGGGAAG-GAAGGAA
1 AGAA-AAGAAAAGAGAAGAGAAGGAA
*
11034693 AAAAAA
1 AGAAAA
11034699 AAGAAAAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
24 2 0.03
25 20 0.30
26 27 0.40
27 3 0.04
28 3 0.04
29 1 0.01
30 6 0.09
31 5 0.07
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (25 bp):
AGAAAAGAAAAGAGAAGAGAAGGAA
Found at i:11034691 original size:41 final size:42
Alignment explanation
Indices: 11034577--11034708 Score: 128
Period size: 41 Copynumber: 3.2 Consensus size: 42
11034567 GAGAATGGAA
* * *
11034577 AAAAAAAGTAGAAGAAGAAGAAGAAGAAGAGGAAAGGAGAAGA-
1 AAAAAAAGAAGAAGAAGAAG-GGAAGAA-AGGAAAAGAGAAGAG
* * *
11034620 AAAAAGA-AAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAG
1 AAAAAAAGAAGAAGAAGAAGGGAAG-AAAGGAAAAGAGAAGAG
* * *
11034662 AAAAAAAGAAGAAGAAG-AGGGAAGGAAGGAAAA-AAAAAAG
1 AAAAAAAGAAGAAGAAGAAGGGAAGAAAGGAAAAGAGAAGAG
11034702 AAAAAAA
1 AAAAAAA
11034709 TTGTAATTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
40 12 0.16
41 24 0.32
42 24 0.32
43 14 0.19
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (42 bp):
AAAAAAAGAAGAAGAAGAAGGGAAGAAAGGAAAAGAGAAGAG
Found at i:11034706 original size:82 final size:81
Alignment explanation
Indices: 11034540--11034707 Score: 207
Period size: 82 Copynumber: 2.0 Consensus size: 81
11034530 GAAGGAGAGG
*
11034540 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAGAATGGAAAAAAAAAGTAGAAGAAGAAGAAGAAGAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAGAAAGGAAAAAAAAAG-AGAAGAAGAAGAAGAAGAA
* ** *
11034605 GAGGAAAGGAGAAGAAA
65 GAGAAAAAAAAAAGAAA
*
11034622 AAAGAAAGAAAAAGAAGGAAAGAAAAGGA-AAAGAGAAGAGAAAAAA-AGAAGAAGAAGAGGGAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAGAAAG-GAA-A-AAAAAAGAGAAGAAGAAGA-AGAA
11034685 GGAAG-GAAAAAAAAAAGAAA
62 -GAAGAGAAAAAAAAAAGAAA
11034705 AAA
1 AAA
11034708 ATTGTAATTT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
81 3 0.04
82 44 0.59
83 18 0.24
84 10 0.13
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (81 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAGGAGAAAGGAAAAAAAAAGAGAAGAAGAAGAAGAAGAAG
AGAAAAAAAAAAGAAA
Found at i:11035260 original size:16 final size:15
Alignment explanation
Indices: 11035234--11035263 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11035224 GTACTGAAAT
11035234 AATATAAAATAATAA
1 AATATAAAATAATAA
11035249 AATATGAAAATAATA
1 AATAT-AAAATAATA
11035264 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:11039291 original size:13 final size:13
Alignment explanation
Indices: 11039273--11039320 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
11039263 CTCAAATTTT
11039273 TCAAAAGCACTTC
1 TCAAAAGCACTTC
11039286 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* *
11039299 TCAAAAGCATTTT
1 TCAAAAGCACTTC
11039312 TCAAAAGCA
1 TCAAAAGCA
11039321 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:11040173 original size:22 final size:22
Alignment explanation
Indices: 11040098--11040165 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
11040088 GTGGCGCCCG
* **
11040098 GAGA-CTTAGTACGTGAAACAT
1 GAGAGCTTAGTACGTTAGCCAT
11040119 GAGAGCTTAGTACGTTAGCCAT
1 GAGAGCTTAGTACGTTAGCCAT
11040141 GAGAGCTTAGTACGTTAGCCAT
1 GAGAGCTTAGTACGTTAGCCAT
11040163 GAG
1 GAG
11040166 GGTTTAGTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
21 4 0.09
22 39 0.91
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (22 bp):
GAGAGCTTAGTACGTTAGCCAT
Found at i:11041952 original size:11 final size:11
Alignment explanation
Indices: 11041936--11041962 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11041926 TTTATAACTT
11041936 AATTTGGATAC
1 AATTTGGATAC
11041947 AATTTGGATAC
1 AATTTGGATAC
11041958 AATTT
1 AATTT
11041963 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:11045081 original size:3 final size:3
Alignment explanation
Indices: 11045063--11045128 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
11045053 AATAACATCT
* *
11045063 TAA TAC TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11045111 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
11045129 CTAAAACTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:11045438 original size:27 final size:27
Alignment explanation
Indices: 11045366--11045441 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
11045356 AACACGAGTA
* *
11045366 GTGCCGCCAATCA-GTATAGCACCATTG
1 GTGCCGCCAATCACCT-TGGCACCATTG
** * *
11045393 GTGCCGCCAATGTCTTTGGCACCTTTG
1 GTGCCGCCAATCACCTTGGCACCATTG
11045420 GTGCCGCCAATCACCTTGGCAC
1 GTGCCGCCAATCACCTTGGCAC
11045442 AACCAGGGTG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.25
Consensus pattern (27 bp):
GTGCCGCCAATCACCTTGGCACCATTG
Found at i:11045529 original size:26 final size:25
Alignment explanation
Indices: 11045500--11045558 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
11045490 TTTTTAGTAT
11045500 ATTTTGGTAAATAAAAAAATTATAAC
1 ATTTTGGTAAA-AAAAAAATTATAAC
* * *
11045526 ATTTTGATAAAAAAAAAGTTATAAT
1 ATTTTGGTAAAAAAAAAATTATAAC
11045551 ATTTTGGT
1 ATTTTGGT
11045559 TATTTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (25 bp):
ATTTTGGTAAAAAAAAAATTATAAC
Found at i:11052114 original size:12 final size:13
Alignment explanation
Indices: 11052097--11052126 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
11052087 CAATAATTTC
11052097 AAAAAACAAAA-A
1 AAAAAACAAAAGA
11052109 AAAAAACAAAAGA
1 AAAAAACAAAAGA
11052122 AAAAA
1 AAAAA
11052127 GAACGAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAGA
Found at i:11054046 original size:209 final size:209
Alignment explanation
Indices: 11053686--11054312 Score: 1011
Period size: 209 Copynumber: 3.0 Consensus size: 209
11053676 CTTTAGCCAG
* * * **
11053686 CTAATGTTTGGTAGTGACTAGATAATAAGTATAACAATCGTTCCCTTTTGATTCAAAATCTAGTT
1 CTAATGTTTGGTAGTGACTAGTTAATAAGTATAACAATCGTTCCCCTTTGATTCGAAGGCTAGTT
* * * * *
11053751 ATAAAATAACCAAACGAGGACCTAAAATTATGGGTTAGAAGCGATGGAGATGAAATAATTTAAAA
66 ATAAAGTAGCCAAACGAGGACCTAAAATTATGGGTTAGAAGCGTTGGAGATGAGATAATCTAAAA
11053816 AGTAAAATATATTGGCCATTTTAGCTTCGACCTCTAGAGGGGTGTTCTTATGGCTTTGCTTGGTA
131 AGTAAAATATATTGGCCATTTTAGCTTCGACCTCTAGAGGGGTGTTCTTATGGCTTTGCTTGGTA
*
11053881 TCATCAATTAGATT
196 TCATCAGTTAGATT
*
11053895 CTAATGTCTGGTAGTGACTAGTTAATAAGTATAACAATCGTTCCCCTTTGATTCGAAGGCTAGTT
1 CTAATGTTTGGTAGTGACTAGTTAATAAGTATAACAATCGTTCCCCTTTGATTCGAAGGCTAGTT
* *
11053960 ATAAAGTAGCCAAATGAGGACCTAGAATTATGGGTTAGAAGCGTTGGAGATGAGATAATCTAAAA
66 ATAAAGTAGCCAAACGAGGACCTAAAATTATGGGTTAGAAGCGTTGGAGATGAGATAATCTAAAA
* **
11054025 AGTAAAATATATTGGCCATTTTAGCTTCAACCTCTAGAGAAGTGTTCTTATGGCTTTGCTTGGTA
131 AGTAAAATATATTGGCCATTTTAGCTTCGACCTCTAGAGGGGTGTTCTTATGGCTTTGCTTGGTA
11054090 TCATCAGTTAGATT
196 TCATCAGTTAGATT
* * *
11054104 CTAATGTTTGATAGTGACTAATTAATAAGTATAACAATCGTTCCCCTTTGATTCGGAGGCTAGTT
1 CTAATGTTTGGTAGTGACTAGTTAATAAGTATAACAATCGTTCCCCTTTGATTCGAAGGCTAGTT
* *
11054169 ATAAAGTAGCCAAACGAGTACCTAAAATTATGGGTTAGAAACGTTGGAGATGAGATAATCTAAAA
66 ATAAAGTAGCCAAACGAGGACCTAAAATTATGGGTTAGAAGCGTTGGAGATGAGATAATCTAAAA
* * * * *
11054234 AGTAAAATTTATTGGCTATTTTAGCTTCGACCTCTAAAGGGGTGTCCTTATAGCTTTGCTTGGTA
131 AGTAAAATATATTGGCCATTTTAGCTTCGACCTCTAGAGGGGTGTTCTTATGGCTTTGCTTGGTA
11054299 TCATCAGTTAGATT
196 TCATCAGTTAGATT
11054313 GACACAATGG
Statistics
Matches: 385, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
209 385 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (209 bp):
CTAATGTTTGGTAGTGACTAGTTAATAAGTATAACAATCGTTCCCCTTTGATTCGAAGGCTAGTT
ATAAAGTAGCCAAACGAGGACCTAAAATTATGGGTTAGAAGCGTTGGAGATGAGATAATCTAAAA
AGTAAAATATATTGGCCATTTTAGCTTCGACCTCTAGAGGGGTGTTCTTATGGCTTTGCTTGGTA
TCATCAGTTAGATT
Found at i:11054720 original size:22 final size:22
Alignment explanation
Indices: 11054692--11054763 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
11054682 TTGCTACACC
11054692 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
11054714 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
** *
11054736 CTCATGTTTCACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
11054758 CTCATG
1 CTCATG
11054764 TTTGAACAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (22 bp):
CTCATGGCTAACGTACTAAGCT
Found at i:11063503 original size:24 final size:24
Alignment explanation
Indices: 11063445--11063510 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
11063435 GCTTCAAAGA
* *
11063445 GCTATTAACGAGAAGCTCGAGAGG
1 GCTAATAACGGGAAGCTCGAGAGG
11063469 GCTAATAACGGGAAGCTCGAGAGG
1 GCTAATAACGGGAAGCTCGAGAGG
*
11063493 GCTAATAACGGGACGCTC
1 GCTAATAACGGGAAGCTC
11063511 TTTCGAGCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.32, C:0.20, G:0.33, T:0.15
Consensus pattern (24 bp):
GCTAATAACGGGAAGCTCGAGAGG
Found at i:11065488 original size:36 final size:36
Alignment explanation
Indices: 11065441--11065510 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
11065431 TTTGTTTGAA
11065441 GTATTAGAGGTTATTTATAAGACTTCTTCCAGAACT
1 GTATTAGAGGTTATTTATAAGACTTCTTCCAGAACT
11065477 GTATTAGAGGTTATTTATAAGACTTCTTCCAGAA
1 GTATTAGAGGTTATTTATAAGACTTCTTCCAGAA
11065511 TTCACTAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (36 bp):
GTATTAGAGGTTATTTATAAGACTTCTTCCAGAACT
Found at i:11067212 original size:34 final size:34
Alignment explanation
Indices: 11067169--11067238 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
11067159 AAAATACATA
*
11067169 TTGGTGCCGCCAACAAAAATGGTGACACCGATTT
1 TTGGTGCCGCCAACAAAAATGGCGACACCGATTT
11067203 TTGGTGCCGCCAACAAAAATGGCGACACCGATTT
1 TTGGTGCCGCCAACAAAAATGGCGACACCGATTT
11067237 TT
1 TT
11067239 TTTTAAATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (34 bp):
TTGGTGCCGCCAACAAAAATGGCGACACCGATTT
Found at i:11069363 original size:16 final size:18
Alignment explanation
Indices: 11069337--11069375 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
11069327 ACTTCAAGTG
11069337 TCATATTAAATA-AAAAA
1 TCATATTAAATACAAAAA
*
11069354 TCAT-TTAAATACCAAAA
1 TCATATTAAATACAAAAA
11069371 TCATA
1 TCATA
11069376 ATTAGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (18 bp):
TCATATTAAATACAAAAA
Found at i:11069838 original size:12 final size:12
Alignment explanation
Indices: 11069807--11069832 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11069797 TTCAACTAAT
11069807 AAAGCAAACAAA
1 AAAGCAAACAAA
11069819 AAAGCAAACAAA
1 AAAGCAAACAAA
11069831 AA
1 AA
11069833 CTCAAATGGA
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:0.08, T:0.00
Consensus pattern (12 bp):
AAAGCAAACAAA
Found at i:11070492 original size:49 final size:50
Alignment explanation
Indices: 11070431--11070530 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
11070421 GCACCAGTGT
* *
11070431 ATTTAAAAAAAAAATT-GGTGTTGGCCATGT-AATGGTCGGCACCAAGTAC
1 ATTTAAAAAAAAAATTGGGTGCTGGCCA-GTAAATGGCCGGCACCAAGTAC
*
11070480 ATTTAATAAAAAAATTGGGTGCTGGCCAGTAAATGGCCGGCACCAAGTAC
1 ATTTAAAAAAAAAATTGGGTGCTGGCCAGTAAATGGCCGGCACCAAGTAC
11070530 A
1 A
11070531 ATTTTTGGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 17 0.37
50 29 0.63
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (50 bp):
ATTTAAAAAAAAAATTGGGTGCTGGCCAGTAAATGGCCGGCACCAAGTAC
Found at i:11070692 original size:116 final size:117
Alignment explanation
Indices: 11070487--11070718 Score: 313
Period size: 116 Copynumber: 2.0 Consensus size: 117
11070477 TACATTTAAT
* * *
11070487 AAAAAAATTGGGTGCTGGCCAGTAAATGGCCGGCACCAAGTACAATTTTTGGTTCTCAAGGCAAT
1 AAAAAAATTGGGTGCTGGCCAATAAATGGCCGGCACCAAGTACAATTTTTGGCTCCCAAGGCAAT
* * *
11070552 TTGTTTTTACTTTGAGACATTGATGATCGGCACCAGTGT-ATTTAAAAAAAG
66 TTGTTTTTACTTTGAGACACTGATGACCAGCACCAGTGTCATTTAAAAAAAG
* * * * *
11070603 AAAAAAATTGGGTGTTGGCCAATAGATGGCTGGCACCAAGTACAATTTTTGGCTCCCAATGCATT
1 AAAAAAATTGGGTGCTGGCCAATAAATGGCCGGCACCAAGTACAATTTTTGGCTCCCAAGGCAAT
* * * * *
11070668 TTTTTTTTATTTTGGGACACTGATGGCCAGTACCAGTGTCATTTAAAAAAA
66 TTGTTTTTACTTTGAGACACTGATGACCAGCACCAGTGTCATTTAAAAAAA
11070719 AATTGTCTTC
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
116 88 0.89
117 11 0.11
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (117 bp):
AAAAAAATTGGGTGCTGGCCAATAAATGGCCGGCACCAAGTACAATTTTTGGCTCCCAAGGCAAT
TTGTTTTTACTTTGAGACACTGATGACCAGCACCAGTGTCATTTAAAAAAAG
Found at i:11073832 original size:21 final size:21
Alignment explanation
Indices: 11073792--11073847 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
11073782 TTAATATGAA
* *
11073792 AAAAAAATTAAAATGGAAAGA-
1 AAAATAATT-AAATGAAAAGAG
*
11073813 AAGATAACTTAAATGAAAAGAG
1 AAAATAA-TTAAATGAAAAGAG
11073835 AAAATAATTAAAT
1 AAAATAATTAAAT
11073848 TTAAATGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.20
Consensus pattern (21 bp):
AAAATAATTAAATGAAAAGAG
Found at i:11073837 original size:27 final size:26
Alignment explanation
Indices: 11073807--11073954 Score: 68
Period size: 27 Copynumber: 5.9 Consensus size: 26
11073797 AATTAAAATG
11073807 GAAAGAAAGATAACTTAAATGAAAAGA
1 GAAAGAAA-ATAACTTAAATGAAAAGA
* * *
11073834 GAAA-ATAATTAAATTTAAATG-AAA-T
1 GAAAGA-AAAT-AACTTAAATGAAAAGA
*
11073859 G--AGAAAA-AA-TTAAATTAAAATG-
1 GAAAGAAAATAACTTAAATGAAAA-GA
*
11073881 GAAAGAAAGATAACTTAAATGAAATGA
1 GAAAGAAA-ATAACTTAAATGAAAAGA
* *
11073908 GAAA-AAAATTAAATTTAAATGGAAA-A
1 GAAAGAAAA-T-AACTTAAATGAAAAGA
* *
11073934 -AAAG-AGATAATTTAAATGAAA
1 GAAAGAAAATAACTTAAATGAAA
11073955 TGGAAATGGA
Statistics
Matches: 94, Mismatches: 12, Indels: 34
0.67 0.09 0.24
Matches are distributed among these distances:
20 6 0.06
21 5 0.05
22 1 0.01
23 15 0.16
24 7 0.07
25 8 0.09
26 13 0.14
27 39 0.41
ACGTcount: A:0.62, C:0.01, G:0.14, T:0.22
Consensus pattern (26 bp):
GAAAGAAAATAACTTAAATGAAAAGA
Found at i:11073868 original size:21 final size:21
Alignment explanation
Indices: 11073848--11073935 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 21
11073838 ATAATTAAAT
11073848 TTAAA-TGAAATGAGAAAAAA
1 TTAAATTGAAATGAGAAAAAA
*
11073868 TTAAATTAAAATGGAAAGAAAGATAA
1 TTAAATTGAAAT-G--AGAAA-A-AA
11073894 CTTAAA-TGAAATGAGAAAAAAA
1 -TTAAATTGAAATGAG-AAAAAA
*
11073916 TTAAATTTAAATG-GAAAAAA
1 TTAAATTGAAATGAGAAAAAA
11073936 AGAGATAATT
Statistics
Matches: 56, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
20 11 0.20
21 11 0.20
22 9 0.16
23 3 0.05
24 8 0.14
25 2 0.04
26 7 0.12
27 5 0.09
ACGTcount: A:0.62, C:0.01, G:0.14, T:0.23
Consensus pattern (21 bp):
TTAAATTGAAATGAGAAAAAA
Found at i:11073883 original size:74 final size:72
Alignment explanation
Indices: 11073789--11073928 Score: 244
Period size: 74 Copynumber: 1.9 Consensus size: 72
11073779 AATTTAATAT
*
11073789 GAAAAAAAAATTAAAATGGAAAGAAAGATAACTTAAATGAAAAGAGAAAATAATTAAATTTAAAT
1 GAAAAAAAAATTAAAATGGAAAGAAAGATAACTTAAATGAAAAGAGAAAAAAATTAAATTTAAAT
11073854 GAAATGA
66 GAAATGA
*
11073861 GAAAAAATTAAATTAAAATGGAAAGAAAGATAACTTAAATGAAATGAGAAAAAAATTAAATTTAA
1 GAAAAAA--AAATTAAAATGGAAAGAAAGATAACTTAAATGAAAAGAGAAAAAAATTAAATTTAA
11073926 ATG
64 ATG
11073929 GAAAAAAAGA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
72 7 0.11
74 57 0.89
ACGTcount: A:0.63, C:0.01, G:0.14, T:0.22
Consensus pattern (72 bp):
GAAAAAAAAATTAAAATGGAAAGAAAGATAACTTAAATGAAAAGAGAAAAAAATTAAATTTAAAT
GAAATGA
Found at i:11073931 original size:48 final size:50
Alignment explanation
Indices: 11073848--11073960 Score: 171
Period size: 48 Copynumber: 2.3 Consensus size: 50
11073838 ATAATTAAAT
*
11073848 TTAAATGAAATGAG-AAAAAATTAAATTAAAATGG-AAAGAA-AGATAAC
1 TTAAATGAAATGAGAAAAAAATTAAATTAAAATGGAAAAAAAGAGATAAC
* *
11073895 TTAAATGAAATGAGAAAAAAATTAAATTTAAATGGAAAAAAAGAGATAAT
1 TTAAATGAAATGAGAAAAAAATTAAATTAAAATGGAAAAAAAGAGATAAC
11073945 TTAAATGAAATG-GAAA
1 TTAAATGAAATGAGAAA
11073961 TGGAAATGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
47 14 0.23
48 19 0.32
49 9 0.15
50 18 0.30
ACGTcount: A:0.61, C:0.01, G:0.15, T:0.23
Consensus pattern (50 bp):
TTAAATGAAATGAGAAAAAAATTAAATTAAAATGGAAAAAAAGAGATAAC
Found at i:11073936 original size:21 final size:22
Alignment explanation
Indices: 11073832--11073936 Score: 79
Period size: 26 Copynumber: 4.5 Consensus size: 22
11073822 TAAATGAAAA
*
11073832 GAGAAAATAATTAAATTTAAAT
1 GAGAAAAAAATTAAATTTAAAT
*
11073854 GAAATGAGAAAAAATTAAATTAAAAT
1 G--A-GA-AAAAAATTAAATTTAAAT
* *
11073880 GGAAAGAAAGATAACTTAAA-TGAAAT
1 -G--AGAAA-A-AAATTAAATTTAAAT
11073906 GAGAAAAAAATTAAATTTAAAT
1 GAGAAAAAAATTAAATTTAAAT
11073928 G-GAAAAAAA
1 GAGAAAAAAA
11073937 GAGATAATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
21 15 0.22
22 8 0.12
23 5 0.07
24 1 0.01
25 5 0.07
26 24 0.35
27 11 0.16
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (22 bp):
GAGAAAAAAATTAAATTTAAAT
Found at i:11073971 original size:5 final size:5
Alignment explanation
Indices: 11073947--11074008 Score: 70
Period size: 5 Copynumber: 11.6 Consensus size: 5
11073937 GAGATAATTT
* *
11073947 AAATG AAATGG AAATGG AAATG AAATG AAATG GAATG GAATAG AAATAG
1 AAATG AAAT-G AAAT-G AAATG AAATG AAATG AAATG AAAT-G AAAT-G
11073996 AAATG AAATG AAA
1 AAATG AAATG AAA
11074009 AAAAAATGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
5 32 0.60
6 21 0.40
ACGTcount: A:0.58, C:0.00, G:0.24, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:11073983 original size:27 final size:27
Alignment explanation
Indices: 11073948--11074008 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
11073938 AGATAATTTA
*
11073948 AATGAAATGGAAATGGAAAT-GAAATGA
1 AATGAAATGG-AATAGAAATAGAAATGA
*
11073975 AATGGAATGGAATAGAAATAGAAATGA
1 AATGAAATGGAATAGAAATAGAAATGA
11074002 AATGAAA
1 AATGAAA
11074009 AAAAAATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.18
Consensus pattern (27 bp):
AATGAAATGGAATAGAAATAGAAATGA
Found at i:11074316 original size:14 final size:14
Alignment explanation
Indices: 11074297--11074323 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11074287 AAAAAATATG
11074297 AAATAAATTGAAAA
1 AAATAAATTGAAAA
11074311 AAATAAATTGAAA
1 AAATAAATTGAAA
11074324 TGAGAGTACT
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:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATAAATTGAAAA
Found at i:11074440 original size:19 final size:19
Alignment explanation
Indices: 11074413--11074451 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11074403 GAAATGTTAA
11074413 ATGAATATGAAATGAAATG
1 ATGAATATGAAATGAAATG
* *
11074432 ATGATTATGAAATGGAATG
1 ATGAATATGAAATGAAATG
11074451 A
1 A
11074452 AAGTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (19 bp):
ATGAATATGAAATGAAATG
Found at i:11074522 original size:20 final size:18
Alignment explanation
Indices: 11074475--11074572 Score: 90
Period size: 18 Copynumber: 5.1 Consensus size: 18
11074465 AATAAATTAT
*
11074475 AAATTTAAATGAAAACAA
1 AAATTTAAATGAAAATAA
* *
11074493 AAAGTGAAATGAAAATAA
1 AAATTTAAATGAAAATAA
11074511 AAATTATGAAATGAGAAATAA
1 AAATT-T-AAATGA-AAATAA
11074532 TTAAATTTAAATGGAAAA-AA
1 --AAATTTAAAT-GAAAATAA
11074552 ATAATTTAAATGAAAAGTAA
1 A-AATTTAAATGAAAA-TAA
11074572 A
1 A
11074573 TGTAAATGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
18 25 0.38
19 9 0.14
20 11 0.17
21 13 0.20
22 3 0.05
23 5 0.08
ACGTcount: A:0.63, C:0.01, G:0.11, T:0.24
Consensus pattern (18 bp):
AAATTTAAATGAAAATAA
Found at i:11074586 original size:5 final size:5
Alignment explanation
Indices: 11074559--11074639 Score: 92
Period size: 5 Copynumber: 15.6 Consensus size: 5
11074549 AAAATAATTT
* *
11074559 AAATG AAAAG TAAATG TAAATG AAATG AAATG AAATGG AAATAC AAATG
1 AAATG AAATG -AAATG -AAATG AAATG AAATG AAAT-G AAAT-G AAATG
*
11074608 AAATG AAAAG -AATG AAATG AAATG AAATG AAA
1 AAATG AAATG AAATG AAATG AAATG AAATG AAA
11074640 AAAAGAAAGA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
4 3 0.05
5 44 0.67
6 19 0.29
ACGTcount: A:0.62, C:0.01, G:0.19, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:11074591 original size:27 final size:25
Alignment explanation
Indices: 11074559--11074639 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 25
11074549 AAAATAATTT
*
11074559 AAATGAAAAGTAAATGTAAATGAAATG
1 AAATGAAATG-AAATG-AAATGAAATG
*
11074586 AAATGAAATGGAAATACAAATGAAATG
1 AAATGAAAT-GAAAT-GAAATGAAATG
*
11074613 AAAAG-AATGAAATGAAATGAAATG
1 AAATGAAATGAAATGAAATGAAATG
11074637 AAA
1 AAA
11074640 AAAAGAAAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
24 13 0.27
25 5 0.10
26 3 0.06
27 26 0.54
28 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.19, T:0.19
Consensus pattern (25 bp):
AAATGAAATGAAATGAAATGAAATG
Found at i:11074658 original size:24 final size:24
Alignment explanation
Indices: 11074565--11074651 Score: 88
Period size: 27 Copynumber: 3.5 Consensus size: 24
11074555 ATTTAAATGA
*
11074565 AAAGTAAATGTAAATGAAATGAAATG
1 AAAG-AAATG-AAATGAAATGAAAAG
*
11074591 AAATGGAAATACAAATGAAATGAAAAG
1 AAA--GAAAT-GAAATGAAATGAAAAG
*
11074618 AATGAAATGAAATGAAATGAAAA-
1 AAAGAAATGAAATGAAATGAAAAG
11074641 AAAGAAA-GAAA
1 AAAGAAATGAAA
11074652 GATGAAAAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
22 4 0.08
23 6 0.11
24 14 0.26
25 5 0.09
26 3 0.06
27 20 0.38
28 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.18, T:0.16
Consensus pattern (24 bp):
AAAGAAATGAAATGAAATGAAAAG
Found at i:11074865 original size:22 final size:20
Alignment explanation
Indices: 11074837--11074879 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
11074827 GGAATGATAT
11074837 TAAAATAGAGAAAAAATTTAAA
1 TAAAATA-AG-AAAAATTTAAA
*
11074859 TAAAATATGAAAAATTTAAA
1 TAAAATAAGAAAAATTTAAA
11074879 T
1 T
11074880 GACCCTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 1 0.05
22 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (20 bp):
TAAAATAAGAAAAATTTAAA
Found at i:11075037 original size:19 final size:18
Alignment explanation
Indices: 11075015--11075053 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
11075005 TATATTAGGG
11075015 AAAAAATAAATTTAAATGAA
1 AAAAAAT-AA-TTAAATGAA
11075035 AAAAAATAATTAAATGAA
1 AAAAAATAATTAAATGAA
11075053 A
1 A
11075054 TGTTAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 2 0.11
20 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAAAATAATTAAATGAA
Found at i:11075066 original size:5 final size:5
Alignment explanation
Indices: 11075046--11075142 Score: 68
Period size: 5 Copynumber: 17.2 Consensus size: 5
11075036 AAAAATAATT
* * *
11075046 AAATG AAATG TTAAATG AAATATG AATATG GAATG AAATG TAATTTG TAATG
1 AAATG AAATG --AAATG -AA-ATG AA-ATG AAATG AAATG -AA-ATG AAATG
11075098 AATATG AAATG AAATG AAATG TTAAATG AATATG AAATG AAATG A
1 AA-ATG AAATG AAATG AAATG --AAATG AA-ATG AAATG AAATG A
11075143 TGATTATGAA
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
5 39 0.51
6 22 0.29
7 15 0.20
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (5 bp):
AAATG
Found at i:11075108 original size:28 final size:28
Alignment explanation
Indices: 11075067--11075142 Score: 109
Period size: 28 Copynumber: 2.7 Consensus size: 28
11075057 TAAATGAAAT
* * *
11075067 ATGAATATGGAATGAAATGTAAT-TTGTA
1 ATGAATATGAAATGAAATGAAATGTT-AA
11075095 ATGAATATGAAATGAAATGAAATGTTAA
1 ATGAATATGAAATGAAATGAAATGTTAA
11075123 ATGAATATGAAATGAAATGA
1 ATGAATATGAAATGAAATGA
11075143 TGATTATGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 42 0.95
29 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (28 bp):
ATGAATATGAAATGAAATGAAATGTTAA
Found at i:11075160 original size:19 final size:19
Alignment explanation
Indices: 11075123--11075161 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11075113 GAAATGTTAA
*
11075123 ATGAATATGAAATGAAATG
1 ATGAATATGAAACGAAATG
* *
11075142 ATGATTATGAAACGGAATG
1 ATGAATATGAAACGAAATG
11075161 A
1 A
11075162 AAGTTTAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.23, T:0.26
Consensus pattern (19 bp):
ATGAATATGAAACGAAATG
Found at i:11075207 original size:19 final size:19
Alignment explanation
Indices: 11075165--11075274 Score: 73
Period size: 19 Copynumber: 5.6 Consensus size: 19
11075155 GGAATGAAAG
11075165 TTTAAATGAAAATAAATTATAAA
1 TTTAAATGAAAAT-AA--A-AAA
11075188 TTTAAATGAAAATAAAAAA
1 TTTAAATGAAAATAAAAAA
* **
11075207 TTGAAATGAAAAT--GGAA
1 TTTAAATGAAAATAAAAAA
* *
11075224 TTGAAATGAGAAATAATTAAA
1 TTTAAATGA-AAATAA-AAAA
* *
11075245 TTTAACTGGAAAA-AAATAA
1 TTTAAAT-GAAAATAAAAAA
11075264 TTTAAATGAAA
1 TTTAAATGAAA
11075275 TGGAAGTGTA
Statistics
Matches: 72, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
17 11 0.15
18 8 0.11
19 23 0.32
20 3 0.04
21 10 0.14
22 4 0.06
23 13 0.18
ACGTcount: A:0.59, C:0.01, G:0.11, T:0.29
Consensus pattern (19 bp):
TTTAAATGAAAATAAAAAA
Found at i:11075278 original size:24 final size:24
Alignment explanation
Indices: 11075234--11075279 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11075224 TTGAAATGAG
* *
11075234 AAATAATTAAATTTAACTGGAAAA
1 AAATAATTAAATTGAAATGGAAAA
11075258 AAATAATTTAAA-TGAAATGGAA
1 AAATAA-TTAAATTGAAATGGAA
11075280 GTGTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.28
Consensus pattern (24 bp):
AAATAATTAAATTGAAATGGAAAA
Found at i:11075292 original size:5 final size:5
Alignment explanation
Indices: 11075267--11075324 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
11075257 AAAATAATTT
* *
11075267 AAATG AAATGG AAGTG TAAATG AAATG AAATGG AAATGG AAATC AAATG
1 AAATG AAAT-G AAATG -AAATG AAATG AAAT-G AAAT-G AAATG AAATG
11075316 AAATG AAAT
1 AAATG AAAT
11075325 AATCTTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 27 0.59
6 19 0.41
ACGTcount: A:0.55, C:0.02, G:0.22, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:11075294 original size:22 final size:22
Alignment explanation
Indices: 11075267--11075324 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
11075257 AAAATAATTT
* * *
11075267 AAATGAAATGGAAGTGTAAATG
1 AAATGAAATGGAAATGGAAATC
11075289 AAATGAAATGGAAATGGAAATC
1 AAATGAAATGGAAATGGAAATC
11075311 AAATGAAAT-GAAAT
1 AAATGAAATGGAAAT
11075325 AATCTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 5 0.15
22 28 0.85
ACGTcount: A:0.55, C:0.02, G:0.22, T:0.21
Consensus pattern (22 bp):
AAATGAAATGGAAATGGAAATC
Found at i:11075308 original size:17 final size:16
Alignment explanation
Indices: 11075267--11075324 Score: 64
Period size: 17 Copynumber: 3.6 Consensus size: 16
11075257 AAAATAATTT
* *
11075267 AAATGAAATGGAAGTGT
1 AAATGAAAT-GAAATGG
11075284 AAATGAAATGAAATGG
1 AAATGAAATGAAATGG
*
11075300 AAATGGAAATCAAAT-G
1 AAAT-GAAATGAAATGG
11075316 AAATGAAAT
1 AAATGAAAT
11075325 AATCTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 5 0.14
16 14 0.38
17 18 0.49
ACGTcount: A:0.55, C:0.02, G:0.22, T:0.21
Consensus pattern (16 bp):
AAATGAAATGAAATGG
Found at i:11075702 original size:49 final size:48
Alignment explanation
Indices: 11075624--11075716 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 48
11075614 AAGTTGTACA
* * *
11075624 TGGTGCCGGCCATCTACTGGCATGCACCAAAATTTTTTTTTAATATGTT
1 TGGTGCCAGCCATCTACTGGCATGAACC-AAATTTTTTTTAAATATGTT
11075673 TGGTGCCAGCCAT-TACGTGGCCA-GAACCAAATTTTTTTTAAATA
1 TGGTGCCAGCCATCTAC-TGG-CATGAACCAAATTTTTTTTAAATA
11075717 CTGGTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
48 18 0.46
49 19 0.49
50 2 0.05
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (48 bp):
TGGTGCCAGCCATCTACTGGCATGAACCAAATTTTTTTTAAATATGTT
Found at i:11076104 original size:29 final size:30
Alignment explanation
Indices: 11076042--11076106 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
11076032 CAATAAAAGT
*
11076042 ATTTTTTTTAAAATTTACCGAAATGGGCTG
1 ATTTTTTTTAAAATTTACCGAAATGGGCTC
** * *
11076072 ATTTTTTTTATTATTTACCGGAATGGTC-C
1 ATTTTTTTTAAAATTTACCGAAATGGGCTC
11076101 ATTTTT
1 ATTTTT
11076107 CGGGAAATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.20
30 24 0.80
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.51
Consensus pattern (30 bp):
ATTTTTTTTAAAATTTACCGAAATGGGCTC
Found at i:11076412 original size:51 final size:51
Alignment explanation
Indices: 11076352--11076466 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
11076342 TCCTCTCTAA
*
11076352 TCCTCTCAATTTCCTTCCAAATTTCTCTCAAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
* *
11076403 TCCTCTCAATTTACTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
11076454 TCCCCTCAATTTC
1 TCCTCTCAATTTC
11076467 ATTTTTTAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.43
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:11076414 original size:22 final size:22
Alignment explanation
Indices: 11076389--11076470 Score: 56
Period size: 22 Copynumber: 3.4 Consensus size: 22
11076379 TCAAACCCAT
11076389 ATTTAATTTCAATTTCCTCTCA
1 ATTTAATTTCAATTTCCTCTCA
* * *
11076411 ATTTACTTCCAAAATTCTCTCAAATCCA
1 ATTTAATTTC-AATTTC-CTC---T-CA
*
11076439 TATTTAATTTCAATTTCCCCTCA
1 -ATTTAATTTCAATTTCCTCTCA
*
11076462 ATTTCATTT
1 ATTTAATTT
11076471 TTTAAAATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
22 16 0.36
23 7 0.16
24 4 0.09
27 3 0.07
28 7 0.16
29 8 0.18
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTAATTTCAATTTCCTCTCA
Found at i:11076502 original size:30 final size:32
Alignment explanation
Indices: 11076468--11076532 Score: 116
Period size: 31 Copynumber: 2.1 Consensus size: 32
11076458 CTCAATTTCA
11076468 TTTTTT-AAAATAATTTTAAA-TTTTTTATAT
1 TTTTTTAAAAATAATTTTAAATTTTTTTATAT
11076498 TTTTTTAAAAATAATTTTAAATTTTTTTATAT
1 TTTTTTAAAAATAATTTTAAATTTTTTTATAT
11076530 TTT
1 TTT
11076533 CATCAATGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 6 0.18
31 14 0.42
32 13 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (32 bp):
TTTTTTAAAAATAATTTTAAATTTTTTTATAT
Found at i:11078756 original size:25 final size:25
Alignment explanation
Indices: 11078727--11078837 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
11078717 TTTAAATTTA
11078727 TTATTTGATGTAATAAAATAGAATT
1 TTATTTGATGTAATAAAATAGAATT
**
11078752 TTATTTGATGTAATACGCATAGAAATT
1 TTATTTGATGTAATA-AAATAG-AATT
* ** * *
11078779 TT-TTCGA-GT--T-ATTTTG-ATA
1 TTATTTGATGTAATAAAATAGAATT
*
11078798 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAATT
*
11078823 TTATTTGATATAATA
1 TTATTTGATGTAATA
11078838 GGCATAGAAA
Statistics
Matches: 63, Mismatches: 15, Indels: 16
0.67 0.16 0.17
Matches are distributed among these distances:
19 4 0.06
20 4 0.06
21 4 0.06
23 2 0.03
24 3 0.05
25 32 0.51
26 8 0.13
27 6 0.10
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.46
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAATT
Found at i:11078781 original size:28 final size:27
Alignment explanation
Indices: 11078720--11078781 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 27
11078710 TGCCGTATTT
11078720 AAATTTATTATTTGATGTAATAAAATAG
1 AAATTT-TTATTTGATGTAATAAAATAG
**
11078748 -AA-TTTTATTTGATGTAATACGCATAG
1 AAATTTTTATTTGATGTAATA-AAATAG
11078774 AAATTTTT
1 AAATTTTT
11078782 TCGAGTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 15 0.52
26 6 0.21
27 4 0.14
28 4 0.14
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.45
Consensus pattern (27 bp):
AAATTTTTATTTGATGTAATAAAATAG
Found at i:11078813 original size:71 final size:71
Alignment explanation
Indices: 11078725--11078886 Score: 279
Period size: 71 Copynumber: 2.3 Consensus size: 71
11078715 TATTTAAATT
* *
11078725 TATTATTTGATGTAATAAAATAGAATTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACGCATAGAAATTTTTTCGAGTTA
11078790 TTTTGA
66 TTTTGA
* *
11078796 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTTGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACGCATAGAAATTTTTTCGAGTTA
11078861 TTTTGA
66 TTTTGA
*
11078867 TATTATTTGATATAATAAAA
1 TATTATTTGATGTAATAAAA
11078887 AACCCTAATT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 86 1.00
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (71 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACGCATAGAAATTTTTTCGAGTTA
TTTTGA
Found at i:11078844 original size:26 final size:25
Alignment explanation
Indices: 11078798--11078856 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
11078788 TATTTTGATA
* *
11078798 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATATAATAAAATAGAAAT
**
11078823 TTATTTGATATAATAGGCATAGAAAT
1 TTATTTGATATAATA-AAATAGAAAT
*
11078849 TTTTTTGA
1 TTATTTGA
11078857 GTTATTTTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (25 bp):
TTATTTGATATAATAAAATAGAAAT
Found at i:11078905 original size:18 final size:18
Alignment explanation
Indices: 11078879--11078935 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 18
11078869 TTATTTGATA
*
11078879 TAATAAAAAACCCTAATT
1 TAATTAAAAACCCTAATT
11078897 TAATTAAAAACCCTAACCTAATT
1 TAATTAAAAA--C---CCTAATT
11078920 TAATTAAAAACCCTAA
1 TAATTAAAAACCCTAA
11078936 CCCTAACTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
18 14 0.42
20 1 0.03
21 1 0.03
23 17 0.52
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (18 bp):
TAATTAAAAACCCTAATT
Found at i:11078938 original size:29 final size:28
Alignment explanation
Indices: 11078905--11079139 Score: 262
Period size: 29 Copynumber: 8.6 Consensus size: 28
11078895 TTTAATTAAA
11078905 AACCCTAACCTAATTTAATTAAAAACCC
1 AACCCTAACCTAATTTAATTAAAAACCC
*
11078933 TAACCCTAACTTAATTTAATT--AAA---
1 -AACCCTAACCTAATTTAATTAAAAACCC
11078957 AACCC--A-CTAATTTAATTAAAAA--C
1 AACCCTAACCTAATTTAATTAAAAACCC
11078980 --CC-TAACCTAATTTAATTAAAAACCC
1 AACCCTAACCTAATTTAATTAAAAACCC
*
11079005 ACTGCCCTAACCTAATTTAATTAAAAACCC
1 A--ACCCTAACCTAATTTAATTAAAAACCC
*
11079035 TAACCCTAACCTAATTTAATTAAACACCC
1 -AACCCTAACCTAATTTAATTAAAAACCC
*
11079064 TAACCATAACCTAATTTAATTAAAAACCC
1 -AACCCTAACCTAATTTAATTAAAAACCC
*
11079093 ACTGCCCTAACCTAATTTAATTAAAAACCC
1 A--ACCCTAACCTAATTTAATTAAAAACCC
11079123 TAACCCTAACCTAATTT
1 -AACCCTAACCTAATTT
11079140 TACATAATTT
Statistics
Matches: 180, Mismatches: 9, Indels: 34
0.81 0.04 0.15
Matches are distributed among these distances:
20 10 0.06
21 3 0.02
22 4 0.02
23 21 0.12
25 1 0.01
27 3 0.02
28 1 0.01
29 87 0.48
30 48 0.27
31 2 0.01
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.29
Consensus pattern (28 bp):
AACCCTAACCTAATTTAATTAAAAACCC
Found at i:11078969 original size:20 final size:20
Alignment explanation
Indices: 11078944--11079007 Score: 101
Period size: 20 Copynumber: 3.0 Consensus size: 20
11078934 AACCCTAACT
11078944 TAATTTAATTAAAAACCCAC
1 TAATTTAATTAAAAACCCAC
11078964 TAATTTAATTAAAAACCCTAACC
1 TAATTTAATTAAAAACCC--A-C
11078987 TAATTTAATTAAAAACCCAC
1 TAATTTAATTAAAAACCCAC
11079007 T
1 T
11079008 GCCCTAACCT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
20 20 0.49
21 1 0.02
22 1 0.02
23 19 0.46
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.31
Consensus pattern (20 bp):
TAATTTAATTAAAAACCCAC
Found at i:11078975 original size:72 final size:71
Alignment explanation
Indices: 11078882--11079122 Score: 250
Period size: 88 Copynumber: 3.1 Consensus size: 71
11078872 TTTGATATAA
* *
11078882 TAAAAAACCCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA-ACCCTAACTTA
1 TAAAAACCCCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCC-ACACCCTAACCTA
11078946 ATTTAAT
65 ATTTAAT
*
11078953 TAAAAACCCACTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCACTGCCCTAACCT
1 TAAAAACCC-CTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAC-ACCCTAACCT
11079018 AATTTAAT
64 AATTTAAT
*
11079026 TAAAAACCCTAACCCTAACCTAATTTAATTAAACACCCTAACCATAACCTAATTTAATTAAAAAC
1 T--AAA----AA-CC---CCTAATTTAATT-AA-A----AACCCTAACCTAATTTAATTAAAAAC
*
11079091 CCACTGCCCTAACCTAATTTAAT
50 CCAC-ACCCTAACCTAATTTAAT
11079114 TAAAAACCC
1 TAAAAACCC
11079123 TAACCCTAAC
Statistics
Matches: 147, Mismatches: 4, Indels: 31
0.81 0.02 0.17
Matches are distributed among these distances:
71 9 0.06
72 42 0.29
73 17 0.12
75 3 0.02
78 1 0.01
79 2 0.01
80 2 0.01
81 2 0.01
82 13 0.09
83 3 0.02
84 1 0.01
86 3 0.02
88 49 0.33
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (71 bp):
TAAAAACCCCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCACACCCTAACCTAA
TTTAAT
Found at i:11078991 original size:43 final size:44
Alignment explanation
Indices: 11078887--11079007 Score: 163
Period size: 49 Copynumber: 2.6 Consensus size: 44
11078877 TATAATAAAA
11078887 AACCCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAATTTAATTAAAAACCC--A-CTAATTTAATTAAAAACCCT
11078934 AACCCTAACTTAATTTAATTAAAAACCCACTAATTTAATTAAAAACCCT
1 AA-CC---C-TAATTTAATTAAAAACCCACTAATTTAATTAAAAACCCT
11078983 AA-CCTAATTTAATTAAAAACCCACT
1 AACCCTAATTTAATTAAAAACCCACT
11079008 GCCCTAACCT
Statistics
Matches: 69, Mismatches: 0, Indels: 14
0.83 0.00 0.17
Matches are distributed among these distances:
43 21 0.30
44 1 0.01
47 3 0.04
48 2 0.03
49 22 0.32
50 1 0.01
51 1 0.01
52 18 0.26
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (44 bp):
AACCCTAATTTAATTAAAAACCCACTAATTTAATTAAAAACCCT
Found at i:11079067 original size:23 final size:23
Alignment explanation
Indices: 11078890--11079068 Score: 130
Period size: 23 Copynumber: 7.1 Consensus size: 23
11078880 AATAAAAAAC
*
11078890 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAACACCCTAA
11078913 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATT--AAA--C--ACCCTAA
* *
11078942 CTTAATTTAATTAAAAACCC--A
1 CCTAATTTAATTAAACACCCTAA
*
11078963 -CTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAACACCCTAA
11078985 CCTAATTTAATTAAAAACCCACTGCCCTAA
1 CCTAATTTAATT--AAA--CA---CCCTAA
11079015 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATT--AAA--C--ACCCTAA
11079044 CCTAATTTAATTAAACACCCTAA
1 CCTAATTTAATTAAACACCCTAA
11079067 CC
1 CC
11079069 ATAACCTAAT
Statistics
Matches: 133, Mismatches: 5, Indels: 36
0.76 0.03 0.21
Matches are distributed among these distances:
20 18 0.14
21 1 0.01
22 1 0.01
23 36 0.27
25 7 0.05
27 7 0.05
29 36 0.27
30 26 0.20
32 1 0.01
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.29
Consensus pattern (23 bp):
CCTAATTTAATTAAACACCCTAA
Found at i:11079101 original size:59 final size:58
Alignment explanation
Indices: 11078977--11079139 Score: 240
Period size: 59 Copynumber: 2.8 Consensus size: 58
11078967 TTTAATTAAA
*
11078977 AACCCTAACCTAATTTAATTAAAAACCC-ACTGCCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTA--ACCCTAACCTAATTTAATTAAAAACCCT
* *
11079036 AACCCTAACCTAATTTAATTAAACACCCTAACCATAACCTAATTTAATTAAAAACCC-
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
11079093 ACTGCCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
1 A--ACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
11079140 TACATAATTT
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
57 1 0.01
58 25 0.26
59 68 0.72
60 1 0.01
ACGTcount: A:0.42, C:0.29, G:0.01, T:0.28
Consensus pattern (58 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:11079106 original size:88 final size:88
Alignment explanation
Indices: 11078977--11079139 Score: 317
Period size: 88 Copynumber: 1.9 Consensus size: 88
11078967 TTTAATTAAA
*
11078977 AACCCTAACCTAATTTAATTAAAAACCCACTGCCCTAACCTAATTTAATTAAAAACCCTAACCCT
1 AACCATAACCTAATTTAATTAAAAACCCACTGCCCTAACCTAATTTAATTAAAAACCCTAACCCT
11079042 AACCTAATTTAATTAAACACCCT
66 AACCTAATTTAATTAAACACCCT
11079065 AACCATAACCTAATTTAATTAAAAACCCACTGCCCTAACCTAATTTAATTAAAAACCCTAACCCT
1 AACCATAACCTAATTTAATTAAAAACCCACTGCCCTAACCTAATTTAATTAAAAACCCTAACCCT
11079130 AACCTAATTT
66 AACCTAATTT
11079140 TACATAATTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 74 1.00
ACGTcount: A:0.42, C:0.29, G:0.01, T:0.28
Consensus pattern (88 bp):
AACCATAACCTAATTTAATTAAAAACCCACTGCCCTAACCTAATTTAATTAAAAACCCTAACCCT
AACCTAATTTAATTAAACACCCT
Found at i:11079127 original size:23 final size:23
Alignment explanation
Indices: 11078890--11079039 Score: 162
Period size: 23 Copynumber: 6.1 Consensus size: 23
11078880 AATAAAAAAC
11078890 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
11078913 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
11078936 CCCTAACTTAATTTAATTAAAAACCC--A
1 --C---C-TAATTTAATTAAAAACCCTAA
11078963 -CTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
11078985 CCTAATTTAATTAAAAACCCACTGCCCTAA
1 CCTAATTTAATT-AAAA---A---CCCTAA
11079015 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
11079038 CC
1 CC
11079040 CTAACCTAAT
Statistics
Matches: 111, Mismatches: 0, Indels: 32
0.78 0.00 0.22
Matches are distributed among these distances:
20 18 0.16
21 1 0.01
22 1 0.01
23 42 0.38
24 4 0.04
25 1 0.01
26 1 0.01
27 2 0.02
28 1 0.01
29 22 0.20
30 18 0.16
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (23 bp):
CCTAATTTAATTAAAAACCCTAA
Found at i:11079218 original size:55 final size:55
Alignment explanation
Indices: 11079134--11079312 Score: 322
Period size: 55 Copynumber: 3.3 Consensus size: 55
11079124 AACCCTAACC
*
11079134 TAATTTTACATAATTTGATAATTTTACTAACCATAAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
* *
11079189 TAATTTTACATAATTCGATAATTTTACTAACCATTAACACAATTTTTGGAATTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
*
11079244 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
11079299 TAATTTTACATAAT
1 TAATTTTACATAAT
11079313 GTTAGATTTG
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 118 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.44
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
Found at i:11082647 original size:122 final size:123
Alignment explanation
Indices: 11082429--11082767 Score: 533
Period size: 122 Copynumber: 2.8 Consensus size: 123
11082419 CTTGCTACTG
*
11082429 TAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAAAAG
1 TAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
*
11082494 CGATTTTATACTATTTACTCAGAAACGTC-AAAAAATATATTTCTTACATGACCAACTA
66 CGATTTTATACTATTTACTCAGAAACGTCAAAAAAAT-TACTTCTTACATGACCAACTA
* *
11082552 TAGCAAAATCGCGTCCACGAGGGCACGATTTCACAA-TTCTTCTCAAATAGTATCCTGGTAGAAG
1 TAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
* * * * * *
11082616 CAATTTTATACTATTTGCTTAGAAACGTCAAAAAAATTACTTCTTACATGACCTATTG
66 CGATTTTATACTATTTACTCAGAAACGTCAAAAAAATTACTTCTTACATGACCAACTA
* *
11082674 TAGC--AATCGCGTCCAAGAGGGCGCGATTTCACAATTTTTTCTCAAATAGCATCCTGGTAGAAG
1 TAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
11082737 CGATTTTATACTATTTACTCAGAAACGTCAA
66 CGATTTTATACTATTTACTCAGAAACGTCAA
11082768 CTCGAAATAA
Statistics
Matches: 197, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
120 28 0.14
121 54 0.27
122 73 0.37
123 42 0.21
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.30
Consensus pattern (123 bp):
TAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
CGATTTTATACTATTTACTCAGAAACGTCAAAAAAATTACTTCTTACATGACCAACTA
Found at i:11087228 original size:28 final size:27
Alignment explanation
Indices: 11087167--11087254 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 27
11087157 TTGTTGTATC
* *
11087167 ATTTTGATAAATAATTTATAATTTATAAT
1 ATTTTAATAAA-AATTTAT-TTTTATAAT
*
11087196 ATTTTAA-AATTAAATTTATTTTTATATT
1 ATTTTAATAA--AAATTTATTTTTATAAT
* *
11087224 ATTTTAATAAAAATATATTTTTATTAT
1 ATTTTAATAAAAATTTATTTTTATAAT
11087251 ATTT
1 ATTT
11087255 AAATTTAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
27 18 0.36
28 16 0.32
29 15 0.30
30 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (27 bp):
ATTTTAATAAAAATTTATTTTTATAAT
Found at i:11087237 original size:32 final size:32
Alignment explanation
Indices: 11087200--11087280 Score: 94
Period size: 31 Copynumber: 2.5 Consensus size: 32
11087190 TATAATATTT
* *
11087200 TAAAATTAAATTTATTTTTATA-TT-ATTTTAA
1 TAAAAATAAATTT-TTTTTATATTTAAATTTAA
* *
11087231 TAAAAATATATTTTTATTATATTTAAATTTAA
1 TAAAAATAAATTTTTTTTATATTTAAATTTAA
11087263 TAATAAATAAATTTTTTT
1 TAA-AAATAAATTTTTTT
11087281 ATGTTTGGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 7 0.17
31 13 0.32
32 9 0.22
33 12 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TAAAAATAAATTTTTTTTATATTTAAATTTAA
Found at i:11089506 original size:85 final size:85
Alignment explanation
Indices: 11089363--11089533 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
11089353 GAAATTTGCA
*
11089363 ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTAATAGAGCAATCATCGTTTCATTTAG
1 ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTAATAGAGCAATCATCGTTTCATATAG
11089428 CTGTTTTATACATGACCATT
66 CTGTTTTATACATGACCATT
*
11089448 ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTATTAGAGCAATCATCGTTTCATATAG
1 ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTAATAGAGCAATCATCGTTTCATATAG
11089513 CTGTTTTATACATGACCATT
66 CTGTTTTATACATGACCATT
11089533 A
1 A
11089534 ATCAGATTCT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (85 bp):
ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTAATAGAGCAATCATCGTTTCATATAG
CTGTTTTATACATGACCATT
Found at i:11095898 original size:54 final size:54
Alignment explanation
Indices: 11095811--11095940 Score: 206
Period size: 54 Copynumber: 2.4 Consensus size: 54
11095801 GTTGGCCCAT
* *
11095811 ACGGGCACAGTGAGTTGCATGGACTGGCAACACGATCGTGTGACCCTAAGTTAC
1 ACGGGCACAGTGAGTTACATGGACTGACAACACGATCGTGTGACCCTAAGTTAC
* *
11095865 ATGGGCACAGTGAGTTACATGGACTGACGACACGATCGTGTGACCCTAAGTTAC
1 ACGGGCACAGTGAGTTACATGGACTGACAACACGATCGTGTGACCCTAAGTTAC
**
11095919 ACGATCACAGTGAGTTACATGG
1 ACGGGCACAGTGAGTTACATGG
11095941 TCTGGCCATA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (54 bp):
ACGGGCACAGTGAGTTACATGGACTGACAACACGATCGTGTGACCCTAAGTTAC
Found at i:11096521 original size:17 final size:17
Alignment explanation
Indices: 11096499--11096535 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
11096489 CTAATATACA
11096499 ATGTCAGTTTAGACACG
1 ATGTCAGTTTAGACACG
11096516 ATGTCAGTTTAGACACG
1 ATGTCAGTTTAGACACG
11096533 ATG
1 ATG
11096536 ACTTTGTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (17 bp):
ATGTCAGTTTAGACACG
Found at i:11097652 original size:27 final size:27
Alignment explanation
Indices: 11097614--11097665 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
11097604 AACTAATGCC
11097614 GCCTACAAGATTGGCACCACTGGTGCT
1 GCCTACAAGATTGGCACCACTGGTGCT
* *
11097641 GCCTACAAGATTGGTACCATTGGTG
1 GCCTACAAGATTGGCACCACTGGTG
11097666 TCGCCTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (27 bp):
GCCTACAAGATTGGCACCACTGGTGCT
Found at i:11097671 original size:27 final size:26
Alignment explanation
Indices: 11097613--11097686 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
11097603 GAACTAATGC
11097613 CGCCTACAAGATTGGCACCACTGGTG
1 CGCCTACAAGATTGGCACCACTGGTG
* *
11097639 CTGCCTACAAGATTGGTACCATTGGTG
1 C-GCCTACAAGATTGGCACCACTGGTG
* * *
11097666 TCGCCTATAACATTAGCACCA
1 -CGCCTACAAGATTGGCACCA
11097687 GTTTTGGTGC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.03
27 38 0.95
28 1 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (26 bp):
CGCCTACAAGATTGGCACCACTGGTG
Found at i:11105304 original size:7 final size:8
Alignment explanation
Indices: 11105288--11105314 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
11105278 AATTATTTTT
11105288 AAAATAAA
1 AAAATAAA
11105296 AAAATAAA
1 AAAATAAA
11105304 AAAATAAA
1 AAAATAAA
11105312 AAA
1 AAA
11105315 GTATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAATAAA
Found at i:11105856 original size:22 final size:23
Alignment explanation
Indices: 11105813--11105861 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
11105803 AGCCTGGGTT
* *
11105813 ATTAAAATTATATTTTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
11105836 ATTAAAACTA-ATTGTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
11105858 ATTA
1 ATTA
11105862 TATCAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTAAAACTATATTGTTATTAAA
Found at i:11105870 original size:22 final size:21
Alignment explanation
Indices: 11105810--11105867 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
11105800 CCGAGCCTGG
11105810 GTTATTAAAATTATAT---TT
1 GTTATTAAAATTATATCAATT
* *
11105828 -TTATTAAAATTAAAACTAATT
1 GTTATTAAAATTATATC-AATT
11105849 GTTATTAAAATTATATCAA
1 GTTATTAAAATTATATCAA
11105868 ATTATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 13 0.42
21 4 0.13
22 14 0.45
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (21 bp):
GTTATTAAAATTATATCAATT
Found at i:11105940 original size:19 final size:19
Alignment explanation
Indices: 11105916--11105980 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
11105906 ATCTAACATT
11105916 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
11105935 TTGTTAGTAAAGTTATTAAA
1 TTGTTAGTAAAATTATT-AA
* *
11105955 TT-ATA-TCAAATTATTAA
1 TTGTTAGTAAAATTATTAA
11105972 TTGTTAGTA
1 TTGTTAGTA
11105981 CCAGTCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 4 0.11
18 10 0.27
19 19 0.51
20 4 0.11
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.48
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:11106077 original size:12 final size:12
Alignment explanation
Indices: 11106060--11106091 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
11106050 TTATATCAGA
11106060 TTAGGGTTAAGG
1 TTAGGGTTAAGG
11106072 TTAGGGTTAAGG
1 TTAGGGTTAAGG
11106084 TTAGGGTT
1 TTAGGGTT
11106092 TTTGTTAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (12 bp):
TTAGGGTTAAGG
Found at i:11106145 original size:27 final size:27
Alignment explanation
Indices: 11106115--11106207 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 27
11106105 AGGTTTTGGT
11106115 GTTTTTAAGTTAAGGGTTAGGGTTAGG
1 GTTTTTAAGTTAAGGGTTAGGGTTAGG
11106142 GTTTTTAAGTTAAGGGTTAGGGTTATGGTTAGG
1 GTTTTTAAGTTAAGGGTTA--G----GGTTAGG
* *
11106175 GTTTTTAAGCTAAGGGTTAGGGCTAGG
1 GTTTTTAAGTTAAGGGTTAGGGTTAGG
11106202 GTTTTT
1 GTTTTT
11106208 TAGGGTTTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
27 31 0.53
29 1 0.02
31 1 0.02
33 25 0.43
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.42
Consensus pattern (27 bp):
GTTTTTAAGTTAAGGGTTAGGGTTAGG
Found at i:11106172 original size:33 final size:33
Alignment explanation
Indices: 11106127--11106520 Score: 269
Period size: 33 Copynumber: 11.6 Consensus size: 33
11106117 TTTTAAGTTA
*
11106127 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
1 AGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTT
*
11106160 AGGGTTATGGTTAGGGTTTTTAAGCTAAGGGTTAGGGCT
1 AGGGTTATGGTTAGGGTTTTTAAGTTAAGGG-T-----T
* *
11106199 AGGGTTTTTTAGGGTTTTGGTGTTTTTAAGTTAAGGGTTTTT
1 AGGG----TTATGG-TTAGG-GTTTTTAAGTTAAGGG---TT
* *
11106241 A-AGTTAAGGGTTAGGGTTAGGGTTT---TTAA--GTT
1 AGGGTT-ATGGTTAGGGTT----TTTAAGTTAAGGGTT
**
11106273 AAGGGTTAAAGTTAGGGTTTTTAAGTTAAGGGTT
1 -AGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTT
* *
11106307 AGGGTTATGGTTATGGTTTTTAAGTTAATGGTT
1 AGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTT
* * * *
11106340 AGGGTTAAGGCTAGGGTTTTT--GTTAAAGTTT
1 AGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTT
* * * *
11106371 TGGTGTTTTTAAGTTAAGGGTTTTTAAGTAAAGGGTT
1 AGG-G-TTAT-GGTT-AGGGTTTTTAAGTTAAGGGTT
*
11106408 A--G---T-GTTAGGGTTTTTTAGTTAAGGGTT
1 AGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTT
11106435 AGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTT
1 AGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTT
11106468 AGGGTTATGGTTAGGG-TTTTAAGTTAAGGGTT
1 AGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTT
* *
11106500 AGGGTTAAGGCTAGGGTTTTT
1 AGGGTTATGGTTAGGGTTTTT
11106521 GTTAGGGTTT
Statistics
Matches: 289, Mismatches: 33, Indels: 78
0.72 0.08 0.19
Matches are distributed among these distances:
27 20 0.07
28 3 0.01
29 4 0.01
30 1 0.00
31 10 0.03
32 38 0.13
33 132 0.46
34 10 0.03
35 10 0.03
36 3 0.01
37 17 0.06
38 4 0.01
39 5 0.02
40 3 0.01
41 1 0.00
42 2 0.01
43 5 0.02
44 4 0.01
45 15 0.05
47 2 0.01
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.43
Consensus pattern (33 bp):
AGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTT
Found at i:11106192 original size:60 final size:60
Alignment explanation
Indices: 11106115--11106506 Score: 286
Period size: 60 Copynumber: 6.4 Consensus size: 60
11106105 AGGTTTTGGT
11106115 GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTATGGTTAGG
1 GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTATGGTTAGG
* * * * *
11106175 GTTTTTAAGCTAAGGGTTAGGGCTAGGG-TTTT---TT-AGGGTTTTGGTGTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGG-G-TTAT-GGTT-AGG
*
11106235 GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTA-----A-AGTTAGG
1 GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTATGGTTAGG
* * *
11106289 GTTTTTAAGTTAAGGGTTAGGGTTATGGTTATGGTTTTTAAGTTAATGGTTAGGGTTAAGGCTAG
1 GTTTTTAAGTTAAGGGTTAGGGTTA--G----GGTTTTTAAGTTAAGGGTTAGGGTTATGGTTAG
11106354 G
60 G
*
11106355 GTTTTT--GTTAA-AGTT----TT-GGTGTTTTTAAGTTAAGGGTTTTTAAGTAAAGGGTTA-GT
1 GTTTTTAAGTTAAGGGTTAGGGTTAGG-GTTTTTAAGTTAAGGG----T---T--AGGGTTATG-
11106411 GTTAGG
55 GTTAGG
*
11106417 GTTTTTTAGTTAAGGGTTAGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTATGGTTAG
1 GTTTTTAAGTTAAGGGTTA--G----GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTATGGTTAG
11106482 G
60 G
11106483 G-TTTTAAGTTAAGGGTTAGGGTTA
1 GTTTTTAAGTTAAGGGTTAGGGTTA
11106507 AGGCTAGGGT
Statistics
Matches: 267, Mismatches: 17, Indels: 97
0.70 0.04 0.25
Matches are distributed among these distances:
52 1 0.00
53 15 0.06
54 28 0.10
55 8 0.03
56 8 0.03
57 2 0.01
58 3 0.01
59 14 0.05
60 75 0.28
61 5 0.02
62 18 0.07
63 4 0.01
64 14 0.05
65 24 0.09
66 25 0.09
67 1 0.00
68 1 0.00
71 1 0.00
75 18 0.07
76 2 0.01
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.44
Consensus pattern (60 bp):
GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTATGGTTAGG
Found at i:11106262 original size:27 final size:27
Alignment explanation
Indices: 11106232--11106346 Score: 149
Period size: 27 Copynumber: 4.0 Consensus size: 27
11106222 TTTTAAGTTA
11106232 AGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
**
11106259 AGGGTTTTTAAGTTAAGGGTTAAAGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
11106286 AGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
*
11106313 ATGGTTATGGTTTTTAAGTTAATGGTTAGGGTT
1 A--G----GGTTTTTAAGTTAAGGGTTAGGGTT
11106346 A
1 A
11106347 AGGCTAGGGT
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
27 51 0.66
29 1 0.01
33 25 0.32
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (27 bp):
AGGGTTTTTAAGTTAAGGGTTAGGGTT
Found at i:11106394 original size:14 final size:15
Alignment explanation
Indices: 11106375--11106407 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11106365 AAGTTTTGGT
*
11106375 GTTTTTAAGTTAAGG
1 GTTTTTAAGTAAAGG
11106390 GTTTTTAAGTAAAGG
1 GTTTTTAAGTAAAGG
11106405 GTT
1 GTT
11106408 AGTGTTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (15 bp):
GTTTTTAAGTAAAGG
Found at i:11106576 original size:5 final size:6
Alignment explanation
Indices: 11106429--11106580 Score: 69
Period size: 6 Copynumber: 24.0 Consensus size: 6
11106419 TTTTTAGTTA
* * *
11106429 AGGGTT AGGGTT ATGGTT AGGGTTTTT A-AGTT AAGGGTT AGGGTT ATGGTT
1 AGGGTT AGGGTT AGGGTT AGGG---TT AGGGTT -AGGGTT AGGGTT AGGGTT
* * * ***
11106480 AGGGTTTT A-AGTT AAGGGTT AGGGTT AAGGCT AGGGTT TTTGTT AGGGTTT
1 AGGG--TT AGGGTT -AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT AGGG-TT
* *
11106531 TGGTGTTTT A-AGTT AAGGGTT AGGGTT AGGGTT AGGGTT A-GGTT AGGGTT
1 AGG-G--TT AGGGTT -AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT
11106581 TTTGTTAGGG
Statistics
Matches: 109, Mismatches: 22, Indels: 30
0.68 0.14 0.19
Matches are distributed among these distances:
5 11 0.10
6 72 0.66
7 15 0.14
8 5 0.05
9 6 0.06
ACGTcount: A:0.19, C:0.01, G:0.39, T:0.41
Consensus pattern (6 bp):
AGGGTT
Found at i:11106584 original size:52 final size:52
Alignment explanation
Indices: 11106483--11106582 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 52
11106473 TATGGTTAGG
**
11106483 GTTTTAAGTTAAGGGTTAGGGTTAAGGCTAGGGTTTTTGTTAGGGTTTTGGT
1 GTTTTAAGTTAAGGGTTAGGGTTAAGGCTAGGGTTTAGGTTAGGGTTTTGGT
* *
11106535 GTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGG-TTAGGTTAGGGTTTT
1 GTTTTAAGTTAAGGGTTAGGGTTAAGGCTAGGGTTTAGGTTAGGGTTTT
11106583 TGTTAGGGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 13 0.30
52 31 0.70
ACGTcount: A:0.18, C:0.01, G:0.38, T:0.43
Consensus pattern (52 bp):
GTTTTAAGTTAAGGGTTAGGGTTAAGGCTAGGGTTTAGGTTAGGGTTTTGGT
Found at i:11106868 original size:21 final size:21
Alignment explanation
Indices: 11106834--11106880 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
11106824 GCGGGGGTTG
* *
11106834 TGGTTGGTCTGGTAGGG-ATTC
1 TGGTTCGTCCGGTAGGGTA-TC
11106855 TGGTTCGTCCGGTAGGGTATC
1 TGGTTCGTCCGGTAGGGTATC
11106876 TGGTT
1 TGGTT
11106881 GTCGGTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.09, C:0.13, G:0.40, T:0.38
Consensus pattern (21 bp):
TGGTTCGTCCGGTAGGGTATC
Found at i:11107148 original size:18 final size:18
Alignment explanation
Indices: 11107122--11107165 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11107112 GACTGAGAAA
* * *
11107122 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
11107140 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
11107158 AGGATACA
1 AGGATACA
11107166 CACCTGGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.27, T:0.18
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:11108970 original size:51 final size:51
Alignment explanation
Indices: 11108915--11109014 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
11108905 AAATAATTAA
11108915 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAAATGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAAATGAGAGCAAATTGAGATT
* * * * *
11108966 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAATTTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAAATGAGAGCAAATTGAGA
11109015 GGAAATTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.27, T:0.25
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAAATGAGAGCAAATTGAGATT
Found at i:11108988 original size:11 final size:11
Alignment explanation
Indices: 11108976--11109036 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
11108966 AAATATGGAT
11108976 TTGAGA-GAAA
1 TTGAGAGGAAA
11108986 TTTG-GAAGGAAA
1 -TTGAGA-GGAAA
* *
11108998 TTGAGAGCAAT
1 TTGAGAGGAAA
11109009 TTGAGAGGAAA
1 TTGAGAGGAAA
11109020 TTGAGAGGAAA
1 TTGAGAGGAAA
11109031 TTGAGA
1 TTGAGA
11109037 AAGGATTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
10 2 0.05
11 35 0.81
12 6 0.14
ACGTcount: A:0.43, C:0.02, G:0.33, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:11109001 original size:22 final size:22
Alignment explanation
Indices: 11108976--11109036 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
11108966 AAATATGGAT
11108976 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
11108998 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
11109020 TTGAGAGGAAA-TTGAGA
1 TTGAGA-GAAATTTGAGA
11109037 AAGGATTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 31 0.89
23 4 0.11
ACGTcount: A:0.43, C:0.02, G:0.33, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:11109011 original size:33 final size:33
Alignment explanation
Indices: 11108974--11109036 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
11108964 TTAAATATGG
11108974 ATTTGAGA-GAAATTTG-GAAGGAAATTGAGAGCA
1 ATTTGAGAGGAAA-TTGAG-AGGAAATTGAGAGCA
11109007 ATTTGAGAGGAAATTGAGAGGAAATTGAGA
1 ATTTGAGAGGAAATTGAGAGGAAATTGAGA
11109037 AAGGATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.24
Consensus pattern (33 bp):
ATTTGAGAGGAAATTGAGAGGAAATTGAGAGCA
Found at i:11110381 original size:16 final size:16
Alignment explanation
Indices: 11110360--11110391 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11110350 TTTCTTAGTT
11110360 TTTTTAACATTTTCAA
1 TTTTTAACATTTTCAA
11110376 TTTTTAACATTTTCAA
1 TTTTTAACATTTTCAA
11110392 ATTGACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTTAACATTTTCAA
Found at i:11113803 original size:7 final size:7
Alignment explanation
Indices: 11113791--11113815 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11113781 AAAAATTAAG
11113791 TATTTTA
1 TATTTTA
11113798 TATTTTA
1 TATTTTA
11113805 TATTTTA
1 TATTTTA
11113812 TATT
1 TATT
11113816 AAAGCAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTTA
Found at i:11115047 original size:18 final size:18
Alignment explanation
Indices: 11115024--11115060 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11115014 TTAAGTAAAC
11115024 AAAAATGTTACAAAGAAT
1 AAAAATGTTACAAAGAAT
*
11115042 AAAAATGTTGCAAAGAAT
1 AAAAATGTTACAAAGAAT
11115060 A
1 A
11115061 CTATACTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.22
Consensus pattern (18 bp):
AAAAATGTTACAAAGAAT
Found at i:11115248 original size:14 final size:14
Alignment explanation
Indices: 11115229--11115269 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
11115219 TCATAAACAT
11115229 AATAATATTTAAAG
1 AATAATATTTAAAG
11115243 AATAATATTTAAAG
1 AATAATATTTAAAG
*
11115257 AATAATATCTAAA
1 AATAATATTTAAA
11115270 AGGAATGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (14 bp):
AATAATATTTAAAG
Found at i:11115249 original size:17 final size:16
Alignment explanation
Indices: 11115222--11115263 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
11115212 TTGCGATTCA
*
11115222 TAAACATAATAATATT
1 TAAAGATAATAATATT
11115238 TAAAG--AATAATATT
1 TAAAGATAATAATATT
11115252 TAAAGAATAATA
1 TAAAG-ATAATA
11115264 TCTAAAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 14 0.64
16 4 0.18
17 4 0.18
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (16 bp):
TAAAGATAATAATATT
Found at i:11118119 original size:41 final size:41
Alignment explanation
Indices: 11118074--11118155 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
11118064 AATCTAATTG
*
11118074 GGAAAATAATTT-TCTTATCCTAATAAAATACTAAAAGATAA
1 GGAAAAT-ATTTCCCTTATCCTAATAAAATACTAAAAGATAA
* * *
11118115 GGAAAATATTTCCCTTATTCTAATAAACTGCTAAAAGATAA
1 GGAAAATATTTCCCTTATCCTAATAAAATACTAAAAGATAA
11118156 AATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 4 0.11
41 32 0.89
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.32
Consensus pattern (41 bp):
GGAAAATATTTCCCTTATCCTAATAAAATACTAAAAGATAA
Found at i:11118217 original size:19 final size:19
Alignment explanation
Indices: 11118193--11118233 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
11118183 TGATTTATTC
*
11118193 TAAGATTTATCTTCCTAAA
1 TAAGATTTATCTACCTAAA
11118212 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
11118231 TAA
1 TAA
11118234 CTTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:11133845 original size:27 final size:28
Alignment explanation
Indices: 11133798--11133859 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
11133788 CAACACTGTC
11133798 AATTTATCTTTTTTGTTTTTTGGGGATT
1 AATTTATCTTTTTTGTTTTTTGGGGATT
11133826 AATTTATCTTTTTTGTTTTTTGGGGATT
1 AATTTATCTTTTTTGTTTTTTGGGGATT
*
11133854 ATTTTA
1 AATTTA
11133860 CAACATGACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.16, C:0.03, G:0.16, T:0.65
Consensus pattern (28 bp):
AATTTATCTTTTTTGTTTTTTGGGGATT
Found at i:11142410 original size:28 final size:28
Alignment explanation
Indices: 11142379--11142473 Score: 145
Period size: 28 Copynumber: 3.4 Consensus size: 28
11142369 AAAAGTTTGG
* * ***
11142379 GTACCAATCTGGGACAAAAAATTTATAA
1 GTACCAATTTGAGACAAAAAAACCATAA
11142407 GTACCAATTTGAGACAAAAAAACCATAA
1 GTACCAATTTGAGACAAAAAAACCATAA
11142435 GTACCAATTTGAGACAAAAAAACCATAA
1 GTACCAATTTGAGACAAAAAAACCATAA
11142463 GTACCAATTTG
1 GTACCAATTTG
11142474 GGAAAAGTGG
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (28 bp):
GTACCAATTTGAGACAAAAAAACCATAA
Found at i:11143392 original size:18 final size:19
Alignment explanation
Indices: 11143369--11143405 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11143359 CGAACTTCAT
11143369 TTAATTCG-AAAAACATAA
1 TTAATTCGAAAAAACATAA
*
11143387 TTAATTTGAAAAAACATAA
1 TTAATTCGAAAAAACATAA
11143406 AATCATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (19 bp):
TTAATTCGAAAAAACATAA
Found at i:11143435 original size:7 final size:7
Alignment explanation
Indices: 11143423--11143451 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
11143413 TTTCAGGTTA
11143423 TTTTCAT
1 TTTTCAT
11143430 TTTTCAT
1 TTTTCAT
11143437 TTTTCA-
1 TTTTCAT
11143443 TTTTCAT
1 TTTTCAT
11143450 TT
1 TT
11143452 CCATTTTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCAT
Found at i:11143446 original size:13 final size:14
Alignment explanation
Indices: 11143423--11143451 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11143413 TTTCAGGTTA
11143423 TTTTCATTTTTCAT
1 TTTTCATTTTTCAT
11143437 TTTTCA-TTTTCAT
1 TTTTCATTTTTCAT
11143450 TT
1 TT
11143452 CCATTTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCATTTTTCAT
Found at i:11143518 original size:57 final size:56
Alignment explanation
Indices: 11143431--11143560 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 56
11143421 TATTTTCATT
* *
11143431 TTTCATTT-TTCATTTTCATTTCCATTTTGGAGAAAA-CA-ACATTCATTTCCAAATGG
1 TTTCATTTCTCCATTTTCATTTCCATCTTGGA-AAAAGCATA-ATT-ATTTCCAAATGG
* *
11143487 TTTCATTTCTCCATTTTCATTTTCATCTTGGAAAAAGTCATAATTATTTCCAAATGT
1 TTTCATTTCTCCATTTTCATTTCCATCTTGGAAAAAG-CATAATTATTTCCAAATGG
11143544 TTTCTATTTCTCCATTT
1 TTTC-ATTTCTCCATTT
11143561 CACCATTTCT
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
56 12 0.18
57 35 0.54
58 17 0.26
59 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.48
Consensus pattern (56 bp):
TTTCATTTCTCCATTTTCATTTCCATCTTGGAAAAAGCATAATTATTTCCAAATGG
Found at i:11151084 original size:30 final size:30
Alignment explanation
Indices: 11151048--11151115 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
11151038 GTCACCACTA
* *
11151048 ACCATTTTCCGTTATAGACGTAACGAAGCT
1 ACCATTTTACGTTAGAGACGTAACGAAGCT
* * *
11151078 ACCATTTTACGTTAGATACTTAACGGAGCT
1 ACCATTTTACGTTAGAGACGTAACGAAGCT
*
11151108 GCCATTTT
1 ACCATTTT
11151116 TCATCCCCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (30 bp):
ACCATTTTACGTTAGAGACGTAACGAAGCT
Found at i:11157084 original size:50 final size:50
Alignment explanation
Indices: 11156969--11157207 Score: 289
Period size: 50 Copynumber: 4.6 Consensus size: 50
11156959 GATAATAACA
* * * ** * *
11156969 TGCCAAAGCCATGTCCTAGACATGCTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
11157020 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
11157070 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
11157120 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
11157175 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACA
11157208 AAAAAAATCT
Statistics
Matches: 161, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
50 93 0.58
51 30 0.19
53 4 0.02
55 2 0.01
56 32 0.20
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:11157870 original size:49 final size:49
Alignment explanation
Indices: 11157815--11157979 Score: 149
Period size: 49 Copynumber: 3.4 Consensus size: 49
11157805 CCTAGTTCAT
*
11157815 GGTGGTTATACGGTCACAGGTTCAAATATAACTAAGGCT-TTCAATTTAC
1 GGTGGTTATACGGTCACAGGTTCAAATATAACTAAGGCTCTT-AATTGAC
** *
11157864 GGTGGTTATATAGT-ACCAGGTTCAAATATAACTAAGGCTCTTAGTTGAC
1 GGTGGTTATACGGTCA-CAGGTTCAAATATAACTAAGGCTCTTAATTGAC
* * * * * * *
11157913 GGTGGTTATGCGATCACGGGTTTAAGTATAACT-CGAGCTC-CAAGTTGAC
1 GGTGGTTATACGGTCACAGGTTCAAATATAACTAAG-GCTCTTAA-TTGAC
* *
11157962 AGTGGTTATACGATCACA
1 GGTGGTTATACGGTCACA
11157980 AGTTTAAGTT
Statistics
Matches: 94, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
48 3 0.03
49 88 0.94
50 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (49 bp):
GGTGGTTATACGGTCACAGGTTCAAATATAACTAAGGCTCTTAATTGAC
Found at i:11161981 original size:28 final size:28
Alignment explanation
Indices: 11161923--11162033 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 28
11161913 CACGAAATTG
* *
11161923 ATTTGCTCACAGAAGCTGTAATATTCT-A
1 ATTTGCTCACACAAGCTGTGATATT-TGA
* *
11161951 ATTTGCTCACACGAGCTGTGACATTTGA
1 ATTTGCTCACACAAGCTGTGATATTTGA
* * * * *
11161979 ATTTTCTTAGACAACCTATGATATTTGA
1 ATTTGCTCACACAAGCTGTGATATTTGA
*
11162007 ATTTGCTCACAAAAGCTGTGATATTTG
1 ATTTGCTCACACAAGCTGTGATATTTG
11162034 GGTTGCTTAC
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
27 1 0.02
28 64 0.98
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (28 bp):
ATTTGCTCACACAAGCTGTGATATTTGA
Found at i:11162628 original size:34 final size:34
Alignment explanation
Indices: 11162590--11162660 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
11162580 AGTTGATTCA
11162590 AATCCCGATTTAT-GATAATTCATTTCAATTCATC
1 AATCCCGATTTATAG-TAATTCATTTCAATTCATC
11162624 AATCCCGATTTATAGTAATTCATTTCAATTCATC
1 AATCCCGATTTATAGTAATTCATTTCAATTCATC
11162658 AAT
1 AAT
11162661 TCTAAACATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 35 0.97
35 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.41
Consensus pattern (34 bp):
AATCCCGATTTATAGTAATTCATTTCAATTCATC
Found at i:11164583 original size:18 final size:18
Alignment explanation
Indices: 11164537--11164633 Score: 83
Period size: 18 Copynumber: 5.3 Consensus size: 18
11164527 TATTTAAGCC
11164537 TAAAATTT-TTAAAATACTA
1 TAAAATTTATTAAAA-A-TA
*
11164556 TAATAAATTTATTGAAAATA
1 T-A-AAATTTATTAAAAATA
*
11164576 TAAAATTTATTTAAAAGTA
1 TAAAATTTA-TTAAAAATA
* *
11164595 TAAAATATAATAAAAATA
1 TAAAATTTATTAAAAATA
*
11164613 GAAAA-TTA-TAAAAATA
1 TAAAATTTATTAAAAATA
11164629 TAAAA
1 TAAAA
11164634 AGGTATTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
16 12 0.18
17 2 0.03
18 18 0.28
19 17 0.26
20 4 0.06
21 7 0.11
22 5 0.08
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAAATTTATTAAAAATA
Done.