Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 34 of 131
Found at i:11033996 original size:29 final size:31
Alignment explanation
Indices: 11033959--11034021 Score: 103
Period size: 29 Copynumber: 2.1 Consensus size: 31
11033949 CTCAAATCCA
11033959 TTTTTTAAAATAATTAT-AA-TTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTATAT
*
11033988 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTATAT
11034019 TTT
1 TTT
11034022 CATCAATGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 16 0.52
30 2 0.06
31 13 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTTTTAAAATAATTATAAATTTTTTTATAT
Found at i:11034133 original size:14 final size:15
Alignment explanation
Indices: 11034114--11034143 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11034104 TTTGTAATTA
11034114 TTATTTAAG-ATTTT
1 TTATTTAAGTATTTT
11034128 TTATTTAAGTATTTT
1 TTATTTAAGTATTTT
11034143 T
1 T
11034144 AGATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TTATTTAAGTATTTT
Found at i:11039482 original size:19 final size:19
Alignment explanation
Indices: 11039450--11039507 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
11039440 TTTATTAGAC
* *
11039450 AAAATAGATTAAAAAAACA
1 AAAATTGATAAAAAAAACA
*
11039469 AAAATTGATAAAAAAACTCA
1 AAAATTGATAAAAAAA-ACA
11039489 AAAA-TGA-AAAAAAGAACA
1 AAAATTGATAAAAAA-AACA
11039507 A
1 A
11039508 TGGTTAATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 9 0.27
19 18 0.55
20 6 0.18
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (19 bp):
AAAATTGATAAAAAAAACA
Found at i:11042261 original size:16 final size:18
Alignment explanation
Indices: 11042240--11042272 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
11042230 CGGCTTTTCA
11042240 TTAATTA-TAT-ATAATT
1 TTAATTAGTATGATAATT
11042256 TTAATTAGTATGATAAT
1 TTAATTAGTATGATAAT
11042273 AAATTTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (18 bp):
TTAATTAGTATGATAATT
Found at i:11051685 original size:19 final size:19
Alignment explanation
Indices: 11051657--11051695 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11051647 ATAAATTGAA
11051657 AATAAGCCCAAAAGAAGAT
1 AATAAGCCCAAAAGAAGAT
*
11051676 AATAATCCCAAAAGAAGAT
1 AATAAGCCCAAAAGAAGAT
11051695 A
1 A
11051696 TTTTGGGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.15, G:0.13, T:0.13
Consensus pattern (19 bp):
AATAAGCCCAAAAGAAGAT
Found at i:11057448 original size:5 final size:6
Alignment explanation
Indices: 11057422--11057446 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11057412 ATTCTTAACC
11057422 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
11057447 TAGGAGCGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:11057540 original size:111 final size:111
Alignment explanation
Indices: 11057344--11057553 Score: 289
Period size: 111 Copynumber: 1.9 Consensus size: 111
11057334 AATTAAGAGT
* * * *
11057344 GTGTTAGGTTGAGTAACTGGGTGGGGTGCTTAGGTTGTCATCCCACTTCGTGTCAAAATGGCCAA
1 GTGTTAGGCTGAGTAACGGGGTGGGGTGCTTAGGTTGTCATCCCACTTCGCGTCAAAAGGGCCAA
* *
11057409 AACATTCTTAACCAATAAAAA-TAA-AAATAAAAATAAAATAGGAGC
66 AACATTCTTAACAAAAAAAAACTAAGAAA-AAAAATAAAATAGGAGC
* *
11057454 GTGTTAGGCTGAGTAATCGGGGTGGGGTGCTTGGGTTGTCATCTCACTTCGCGTCAAAAGGGCCA
1 GTGTTAGGCTGAGTAA-CGGGGTGGGGTGCTTAGGTTGTCATCCCACTTCGCGTCAAAAGGGCCA
* * *
11057519 ATATATTCTTAAGAAAAAAAAACTAAGAAAAAAAA
65 AAACATTCTTAACAAAAAAAAACTAAGAAAAAAAA
11057554 GAGAAAAAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
110 15 0.17
111 60 0.70
112 8 0.09
113 3 0.03
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (111 bp):
GTGTTAGGCTGAGTAACGGGGTGGGGTGCTTAGGTTGTCATCCCACTTCGCGTCAAAAGGGCCAA
AACATTCTTAACAAAAAAAAACTAAGAAAAAAAATAAAATAGGAGC
Found at i:11064510 original size:29 final size:29
Alignment explanation
Indices: 11064467--11064532 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
11064457 TACAAAACTC
* * *
11064467 AACCCATCTCGTCAAAATTATTTCTTCAG
1 AACCCATCCCCTCAAAACTATTTCTTCAG
* *
11064496 AACCCATCCCCTCAAAACTATTTTTTTAG
1 AACCCATCCCCTCAAAACTATTTCTTCAG
*
11064525 AATCCATC
1 AACCCATC
11064533 TTGTACAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (29 bp):
AACCCATCCCCTCAAAACTATTTCTTCAG
Found at i:11064626 original size:6 final size:6
Alignment explanation
Indices: 11064610--11064648 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
11064600 AAAAAATAAA
*
11064610 AACCCT AAACCCT AACCCT AACTCT AACCCT AACCCT AA
1 AACCCT -AACCCT AACCCT AACCCT AACCCT AACCCT AA
11064649 ATTAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (6 bp):
AACCCT
Found at i:11065055 original size:15 final size:15
Alignment explanation
Indices: 11065035--11065109 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
11065025 AATTCAAAAC
11065035 ATAATTAAAGTAATT
1 ATAATTAAAGTAATT
11065050 ATAATTAAAGTAATT
1 ATAATTAAAGTAATT
* * *
11065065 ACACACTATTAA--AACT
1 ATA-A-T-TAAAGTAATT
11065081 -T-ATTAAAGTAATT
1 ATAATTAAAGTAATT
11065094 ATAATTAAAGTAATT
1 ATAATTAAAGTAATT
11065109 A
1 A
11065110 CACACTATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
11 3 0.06
12 1 0.02
13 4 0.09
14 1 0.02
15 30 0.64
16 4 0.09
17 1 0.02
18 3 0.06
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.37
Consensus pattern (15 bp):
ATAATTAAAGTAATT
Found at i:11065087 original size:44 final size:44
Alignment explanation
Indices: 11065038--11065125 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
11065028 TCAAAACATA
11065038 ATTAAAGTAATTATAATTAAAGTAATTACACACTATTAAAACTT
1 ATTAAAGTAATTATAATTAAAGTAATTACACACTATTAAAACTT
11065082 ATTAAAGTAATTATAATTAAAGTAATTACACACTATTAAAACTT
1 ATTAAAGTAATTATAATTAAAGTAATTACACACTATTAAAACTT
11065126 GTAATATCGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (44 bp):
ATTAAAGTAATTATAATTAAAGTAATTACACACTATTAAAACTT
Found at i:11065294 original size:17 final size:17
Alignment explanation
Indices: 11065272--11065322 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
11065262 ATAATATAAA
11065272 AAAAATAAAAAATTACC
1 AAAAATAAAAAATTACC
**
11065289 AAAAAT----AATTAAA
1 AAAAATAAAAAATTACC
11065302 AAAAATAAAAAATTACC
1 AAAAATAAAAAATTACC
11065319 AAAA
1 AAAA
11065323 TGTTATACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 11 0.42
17 15 0.58
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAATAAAAAATTACC
Found at i:11065302 original size:30 final size:31
Alignment explanation
Indices: 11065257--11065322 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 31
11065247 GGGTTTTTTA
11065257 CAAAAATAATATAAAAAAAATAAAAAATTAC
1 CAAAAATAATATAAAAAAAATAAAAAATTAC
11065288 CAAAAATAAT-TAAAAAAAATAAAAAATTAC
1 CAAAAATAATATAAAAAAAATAAAAAATTAC
11065318 CAAAA
1 CAAAA
11065323 TGTTATACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 25 0.71
31 10 0.29
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (31 bp):
CAAAAATAATATAAAAAAAATAAAAAATTAC
Found at i:11065393 original size:77 final size:77
Alignment explanation
Indices: 11065300--11065467 Score: 311
Period size: 77 Copynumber: 2.2 Consensus size: 77
11065290 AAAATAATTA
11065300 AAAAAAATAAAAAATTACCAAAATGTTATACATTTTTTTTATTTACCAATATATATATAATTTTT
1 AAAAAAATAAAAAATTACCAAAATGTTATACATTTTTTTTATTTACCAATATATATATAATTTTT
11065365 TTACCAAAATAT
66 TTACCAAAATAT
11065377 AAAAAAATAAAAAATTACCAAAATGTTATACATTTTTTTTATTTACCAATATATATATAATTTTT
1 AAAAAAATAAAAAATTACCAAAATGTTATACATTTTTTTTATTTACCAATATATATATAATTTTT
11065442 TTACCAAAATAT
66 TTACCAAAATAT
*
11065454 ATCAAAAA-AAAAAA
1 A-AAAAAATAAAAAA
11065468 CTAAAAAACT
Statistics
Matches: 89, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
77 84 0.94
78 5 0.06
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (77 bp):
AAAAAAATAAAAAATTACCAAAATGTTATACATTTTTTTTATTTACCAATATATATATAATTTTT
TTACCAAAATAT
Found at i:11065584 original size:10 final size:10
Alignment explanation
Indices: 11065543--11065626 Score: 56
Period size: 10 Copynumber: 8.9 Consensus size: 10
11065533 ACTAAATAAT
11065543 AAAGGAAAG-
1 AAAGGAAAGA
*
11065552 GAAGGAAAG-
1 AAAGGAAAGA
11065561 AAA-GAAA-A
1 AAAGGAAAGA
11065569 AGAAGGAAAGA
1 A-AAGGAAAGA
*
11065580 AAAGGAAAGG
1 AAAGGAAAGA
**
11065590 GGAGGAAAG-
1 AAAGGAAAGA
11065599 AAA-GAAA-A
1 AAAGGAAAGA
*
11065607 ATAATGAAAGA
1 A-AAGGAAAGA
11065618 AAAGGAAAG
1 AAAGGAAAG
11065627 GAGAAGAAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
8 10 0.17
9 15 0.25
10 30 0.51
11 4 0.07
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.02
Consensus pattern (10 bp):
AAAGGAAAGA
Found at i:11065601 original size:38 final size:38
Alignment explanation
Indices: 11065543--11065647 Score: 142
Period size: 38 Copynumber: 2.8 Consensus size: 38
11065533 ACTAAATAAT
*
11065543 AAAGGAAA-GGAAGGAAAGAAAGAAAAAGAAGGAAAGA
1 AAAGGAAAGGGGAGGAAAGAAAGAAAAAGAAGGAAAGA
* *
11065580 AAAGGAAAGGGGAGGAAAGAAAGAAAAATAATGAAAGA
1 AAAGGAAAGGGGAGGAAAGAAAGAAAAAGAAGGAAAGA
* * *
11065618 AAAGGAAAGGAGAAG-AAGAAAAAAAAAGAA
1 AAAGGAAAGGGGAGGAAAGAAAGAAAAAGAA
11065648 AGAAGAAGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
37 21 0.35
38 39 0.65
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (38 bp):
AAAGGAAAGGGGAGGAAAGAAAGAAAAAGAAGGAAAGA
Found at i:11065638 original size:23 final size:23
Alignment explanation
Indices: 11065595--11065659 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
11065585 AAAGGGGAGG
* * *
11065595 AAAGAAAGAAAAATAATGAAAGAA
1 AAAGAAAGAAGAAGAA-GAAAAAA
* *
11065619 AAGGAAAGGAGAAGAAGAAAAAA
1 AAAGAAAGAAGAAGAAGAAAAAA
11065642 AAAGAAAGAAGAAGAAGA
1 AAAGAAAGAAGAAGAAGA
11065660 GGGAAAGAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 22 0.65
24 12 0.35
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (23 bp):
AAAGAAAGAAGAAGAAGAAAAAA
Found at i:11066403 original size:19 final size:19
Alignment explanation
Indices: 11066370--11066421 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
11066360 AAAATATATA
**
11066370 TAATATTTTGGTATTTTT-
1 TAATATTTTATTATTTTTG
11066388 TAAATATTTTATTATTTTTG
1 T-AATATTTTATTATTTTTG
*
11066408 TAATGTTTTATTAT
1 TAATATTTTATTAT
11066422 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 1 0.03
19 27 0.93
20 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:11066488 original size:28 final size:28
Alignment explanation
Indices: 11066457--11066512 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
11066447 AAATAAAAAA
11066457 TTACCAAAATAT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTTTAT
11066485 TTACCAAAATATATATAATTTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTTAT
11066513 NNNNNNNNNN
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.54
Consensus pattern (28 bp):
TTACCAAAATATATATAATTTTTTTTAT
Found at i:11072033 original size:27 final size:27
Alignment explanation
Indices: 11071995--11072075 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
11071985 AATTCAAGGG
*
11071995 TGGTGCCGCCAACCTGGTTCCCTCCAC
1 TGGTGCCGCCAACCTGCTTCCCTCCAC
* ***
11072022 TGGTGCTGCCAACCTGCTTCCC-CTGTT
1 TGGTGCCGCCAACCTGCTTCCCTC-CAC
11072049 TGGTGCCGCCAACCTGCTTCCCTCCAC
1 TGGTGCCGCCAACCTGCTTCCCTCCAC
11072076 CCAGAGAGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
26 1 0.02
27 41 0.95
28 1 0.02
ACGTcount: A:0.10, C:0.43, G:0.21, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAACCTGCTTCCCTCCAC
Found at i:11072136 original size:14 final size:14
Alignment explanation
Indices: 11072100--11072136 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
11072090 AATCAGTTCA
11072100 GGTTTTTTTT-TCT
1 GGTTTTTTTTGTCT
*
11072113 -GTTTTTTTTGTTT
1 GGTTTTTTTTGTCT
11072126 GGTTTTTTTTG
1 GGTTTTTTTTG
11072137 ATATATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 9 0.43
13 2 0.10
14 10 0.48
ACGTcount: A:0.00, C:0.03, G:0.19, T:0.78
Consensus pattern (14 bp):
GGTTTTTTTTGTCT
Found at i:11072167 original size:27 final size:29
Alignment explanation
Indices: 11072137--11072205 Score: 108
Period size: 27 Copynumber: 2.5 Consensus size: 29
11072127 GTTTTTTTTG
11072137 ATATATTTTGGTAAATAA-AAAAAT-TAT
1 ATATATTTTGGTAAATAATAAAAATGTAT
11072164 ATATATTTTGGTAAATAATAAAAATGTAT
1 ATATATTTTGGTAAATAATAAAAATGTAT
*
11072193 A-ACATTTTGGTAA
1 ATATATTTTGGTAA
11072206 TTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 18 0.46
28 17 0.44
29 4 0.10
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (29 bp):
ATATATTTTGGTAAATAATAAAAATGTAT
Found at i:11072199 original size:28 final size:27
Alignment explanation
Indices: 11072141--11072205 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 27
11072131 TTTTTGATAT
*
11072141 ATTTTGGTAAATAAAAAAATTATATAT
1 ATTTTGGTAAATAAAAAAATTATATAC
11072168 ATTTTGGTAAATAATAAAAATGTATA-AC
1 ATTTTGGTAAATAA-AAAAAT-TATATAC
11072196 ATTTTGGTAA
1 ATTTTGGTAA
11072206 TTTTTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 14 0.40
28 17 0.49
29 4 0.11
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.40
Consensus pattern (27 bp):
ATTTTGGTAAATAAAAAAATTATATAC
Found at i:11073004 original size:77 final size:78
Alignment explanation
Indices: 11072907--11073063 Score: 307
Period size: 77 Copynumber: 2.0 Consensus size: 78
11072897 TATCATTAAT
11072907 AAAATAATCATAATTAATTTTTATTTTATATATATCATACTTATTTGAAAGGAAAAGTAGAAGTA
1 AAAATAATCATAATTAATTTTTATTTTATATATATCATACTTATTTGAAAGGAAAAGTAGAAGTA
11072972 GAATTACATGCAG
66 GAATTACATGCAG
11072985 AAAATAATCA-AATTAATTTTTATTTTATATATATCATACTTATTTGAAAGGAAAAGTAGAAGTA
1 AAAATAATCATAATTAATTTTTATTTTATATATATCATACTTATTTGAAAGGAAAAGTAGAAGTA
11073049 GAATTACATGCAG
66 GAATTACATGCAG
11073062 AA
1 AA
11073064 TTAAATTGTT
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 69 0.87
78 10 0.13
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.36
Consensus pattern (78 bp):
AAAATAATCATAATTAATTTTTATTTTATATATATCATACTTATTTGAAAGGAAAAGTAGAAGTA
GAATTACATGCAG
Found at i:11074968 original size:39 final size:40
Alignment explanation
Indices: 11074882--11074969 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
11074872 AATTCTTTAC
* *
11074882 TTCAGTAATTTCACAATTCAATGCATTATGCATAACAATA
1 TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
*
11074922 TTCAGTATTTTCACAATTCACT-CAGTAAT-CA-AGACAATA
1 TTCAGTATTTTCACAATTCAATGCA-TAATGCATA-ACAATA
11074961 TTCAGTATT
1 TTCAGTATT
11074970 CCATAATTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 19 0.44
40 23 0.53
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (40 bp):
TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
Found at i:11075704 original size:11 final size:11
Alignment explanation
Indices: 11075690--11075715 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11075680 CTTTTTCTTC
11075690 TTTCTCCCCTG
1 TTTCTCCCCTG
11075701 TTTCTCCCCTG
1 TTTCTCCCCTG
11075712 TTTC
1 TTTC
11075716 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:11079625 original size:60 final size:60
Alignment explanation
Indices: 11079561--11079680 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
11079551 GAACTTGGGA
11079561 TGGTGGTGGAAATACTTGGGAGGAATCTTAGGG-AGAGGAGGTAGCTTAGGAAGGGGAGGG
1 TGGTGGTGGAAATACTTGGGAGGAATCTT-GGGAAGAGGAGGTAGCTTAGGAAGGGGAGGG
*
11079621 TGGTGGTGGAAATACTTGGGAGGAATCTTGGGAAGAGGGGGTAGCTTAGGAAGGGGAGGG
1 TGGTGGTGGAAATACTTGGGAGGAATCTTGGGAAGAGGAGGTAGCTTAGGAAGGGGAGGG
11079681 CATGGCTTCT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 3 0.05
60 55 0.95
ACGTcount: A:0.26, C:0.05, G:0.49, T:0.20
Consensus pattern (60 bp):
TGGTGGTGGAAATACTTGGGAGGAATCTTGGGAAGAGGAGGTAGCTTAGGAAGGGGAGGG
Found at i:11079719 original size:18 final size:18
Alignment explanation
Indices: 11079688--11079723 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
11079678 GGGCATGGCT
11079688 TCTTAGGGAATGGAGGGA
1 TCTTAGGGAATGGAGGGA
11079706 TCTT-GGGAAGTGGAGGGA
1 TCTTAGGGAA-TGGAGGGA
11079724 GTGGCTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.25, C:0.06, G:0.47, T:0.22
Consensus pattern (18 bp):
TCTTAGGGAATGGAGGGA
Found at i:11079918 original size:57 final size:56
Alignment explanation
Indices: 11079793--11080271 Score: 281
Period size: 57 Copynumber: 8.4 Consensus size: 56
11079783 AGTGGCTTCG
* * * * *
11079793 TATACACTGGAACCGGGGGAGGTAGTGGTTTGTTGTATACAGGAACTGGAGGGGGCT
1 TATAGACTGGAACCGGGGGAGG-ACTGGTTTCTTGTATACCGGAACTGGAGGAGGCT
* * * *
11079850 TGTAGATTGGAACCGGAGGAGGGACTCGTTTCTTGTATACCGGAACTGGAGGAGGCT
1 TATAGACTGGAACCGGGGGA-GGACTGGTTTCTTGTATACCGGAACTGGAGGAGGCT
* * * * **
11079907 TATGGACTGGAACTGGCGGAGGA-T-G----TGGT-T-CCGGAACTGGAGGAGATT
1 TATAGACTGGAACCGGGGGAGGACTGGTTTCTTGTATACCGGAACTGGAGGAGGCT
* *
11079955 TATAGACTGGAACTGGGGGAGGACATGGTTTCTTGTATACTGGAACTGGAGGTGGATGTGGTTTC
1 TATAGACTGGAACCGGGGGAGGAC-TGGTTTCTTGTATACCGGAACTGGA---GGA---GG---C
11080020 T
56 T
* * * **
11080021 TATAGACTGGAACTGGCGGAGGA-T-G----TGGT-T-CCGGAACTGGAGGAGATT
1 TATAGACTGGAACCGGGGGAGGACTGGTTTCTTGTATACCGGAACTGGAGGAGGCT
* *
11080069 TATAGACTGGAACTGGGGGAGGACATGGTTTCTTGTATACTGGAACTGGAGGTGGATGTGGTTTC
1 TATAGACTGGAACCGGGGGAGGAC-TGGTTTCTTGTATACCGGAACTGGA---GGA---GG---C
11080134 T
56 T
* * * * **
11080135 TATAGACTGGAACTGGAGGAGGA-TGCGGTTTCTTGTATACTGGAACCGGAGGAGATT
1 TATAGACTGGAACCGGGGGAGGACT--GGTTTCTTGTATACCGGAACTGGAGGAGGCT
* * * * *
11080192 TATAGACTGGAACTGGTGGAGGACATGGTTTCTTGTATACTGGAACTGGTGGAGGTT
1 TATAGACTGGAACCGGGGGAGGAC-TGGTTTCTTGTATACCGGAACTGGAGGAGGCT
* *
11080249 TATAGACTGGAACAGGTGGAGGA
1 TATAGACTGGAACCGGGGGAGGA
11080272 TGTGGTTTTT
Statistics
Matches: 339, Mismatches: 42, Indels: 82
0.73 0.09 0.18
Matches are distributed among these distances:
48 60 0.18
49 1 0.00
50 5 0.01
51 3 0.01
54 4 0.01
55 7 0.02
56 5 0.01
57 163 0.48
58 3 0.01
59 4 0.01
60 7 0.02
63 6 0.02
64 2 0.01
66 69 0.20
ACGTcount: A:0.24, C:0.12, G:0.38, T:0.27
Consensus pattern (56 bp):
TATAGACTGGAACCGGGGGAGGACTGGTTTCTTGTATACCGGAACTGGAGGAGGCT
Found at i:11079963 original size:48 final size:48
Alignment explanation
Indices: 11079889--11080091 Score: 172
Period size: 48 Copynumber: 3.9 Consensus size: 48
11079879 TTCTTGTATA
** *
11079889 CCGGAACTGGAGGAGGCTTATGGACTGGAACTGGCGGAGGATGTGGTT
1 CCGGAACTGGAGGAGATTTATAGACTGGAACTGGCGGAGGATGTGGTT
* *
11079937 CCGGAACTGGAGGAGATTTATAGACTGGAACTGGGGGAGGACATGGTTTCTTGTAT
1 CCGGAACTGGAGGAGATTTATAGACTGGAACTGGCGGAGG--AT-G----TGGT-T
* *
11079993 ACTGGAACTGGAGGTGGATGTGGTTTCTTATAGACTGGAACTGGCGGAGGATGTGGTT
1 -CCGGAACTGGA---GGA----G-AT-TTATAGACTGGAACTGGCGGAGGATGTGGTT
*
11080051 CCGGAACTGGAGGAGATTTATAGACTGGAACTGGGGGAGGA
1 CCGGAACTGGAGGAGATTTATAGACTGGAACTGGCGGAGGA
11080092 CATGGTTTCT
Statistics
Matches: 125, Mismatches: 12, Indels: 36
0.72 0.07 0.21
Matches are distributed among these distances:
48 59 0.47
49 1 0.01
50 3 0.02
51 1 0.01
54 3 0.02
55 3 0.02
56 1 0.01
57 20 0.16
58 1 0.01
59 3 0.02
60 3 0.02
63 1 0.01
64 3 0.02
65 1 0.01
66 22 0.18
ACGTcount: A:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (48 bp):
CCGGAACTGGAGGAGATTTATAGACTGGAACTGGCGGAGGATGTGGTT
Found at i:11080045 original size:33 final size:33
Alignment explanation
Indices: 11079954--11080050 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 33
11079944 TGGAGGAGAT
* **
11079954 TTATAGACTGGAACTGGGGGAGGACATGGTTTC
1 TTATAGACTGGAACTGGAGGAGGATGTGGTTTC
* * *
11079987 TTGTATACTGGAACTGGAGGTGGATGTGGTTTC
1 TTATAGACTGGAACTGGAGGAGGATGTGGTTTC
*
11080020 TTATAGACTGGAACTGGCGGAGGATGTGGTT
1 TTATAGACTGGAACTGGAGGAGGATGTGGTT
11080051 CCGGAACTGG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.22, C:0.10, G:0.37, T:0.31
Consensus pattern (33 bp):
TTATAGACTGGAACTGGAGGAGGATGTGGTTTC
Found at i:11080048 original size:114 final size:114
Alignment explanation
Indices: 11079905--11080240 Score: 546
Period size: 114 Copynumber: 2.9 Consensus size: 114
11079895 CTGGAGGAGG
*
11079905 CTTATGGACTGGAACTGGCGGAGGATGTGGTTCCGGAACTGGAGGAGATTTATAGACTGGAACTG
1 CTTATAGACTGGAACTGGCGGAGGATGTGGTTCCGGAACTGGAGGAGATTTATAGACTGGAACTG
11079970 GGGGAGGACATGGTTTCTTGTATACTGGAACTGGAGGTGGATGTGGTTT
66 GGGGAGGACATGGTTTCTTGTATACTGGAACTGGAGGTGGATGTGGTTT
11080019 CTTATAGACTGGAACTGGCGGAGGATGTGGTTCCGGAACTGGAGGAGATTTATAGACTGGAACTG
1 CTTATAGACTGGAACTGGCGGAGGATGTGGTTCCGGAACTGGAGGAGATTTATAGACTGGAACTG
11080084 GGGGAGGACATGGTTTCTTGTATACTGGAACTGGAGGTGGATGTGGTTT
66 GGGGAGGACATGGTTTCTTGTATACTGGAACTGGAGGTGGATGTGGTTT
* * *
11080133 CTTATAGACTGGAACTGGAGGAGGATGCGGTTTCTTGTATACTGGAACCGGAGGAGATTTATAGA
1 CTTATAGACTGGAACTGGCGGAGGATGTGG-TTC-------C-GGAACTGGAGGAGATTTATAGA
*
11080198 CTGGAACTGGTGGAGGACATGGTTTCTTGTATACTGGAACTGG
57 CTGGAACTGGGGGAGGACATGGTTTCTTGTATACTGGAACTGG
11080241 TGGAGGTTTA
Statistics
Matches: 208, Mismatches: 5, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
114 141 0.68
115 3 0.01
122 1 0.00
123 63 0.30
ACGTcount: A:0.23, C:0.12, G:0.37, T:0.28
Consensus pattern (114 bp):
CTTATAGACTGGAACTGGCGGAGGATGTGGTTCCGGAACTGGAGGAGATTTATAGACTGGAACTG
GGGGAGGACATGGTTTCTTGTATACTGGAACTGGAGGTGGATGTGGTTT
Found at i:11080116 original size:33 final size:33
Alignment explanation
Indices: 11080074--11080246 Score: 157
Period size: 33 Copynumber: 5.5 Consensus size: 33
11080064 AGATTTATAG
*
11080074 ACTGGAACTGGGGGAGGACATGGTTTCTTGTAT
1 ACTGGAACTGGAGGAGGACATGGTTTCTTGTAT
* ** * *
11080107 ACTGGAACTGGAGGTGGATGTGGTTTCTTATAG
1 ACTGGAACTGGAGGAGGACATGGTTTCTTGTAT
***
11080140 ACTGGAACTGGAGGAGGATGCGGTTTCTTGTAT
1 ACTGGAACTGGAGGAGGACATGGTTTCTTGTAT
* * *
11080173 ACTGGAACCGGAGGA-G--A-----T-TTATAG
1 ACTGGAACTGGAGGAGGACATGGTTTCTTGTAT
*
11080197 ACTGGAACTGGTGGAGGACATGGTTTCTTGTAT
1 ACTGGAACTGGAGGAGGACATGGTTTCTTGTAT
*
11080230 ACTGGAACTGGTGGAGG
1 ACTGGAACTGGAGGAGG
11080247 TTTATAGACT
Statistics
Matches: 113, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
24 17 0.15
25 2 0.02
27 1 0.01
32 2 0.02
33 91 0.81
ACGTcount: A:0.23, C:0.12, G:0.36, T:0.29
Consensus pattern (33 bp):
ACTGGAACTGGAGGAGGACATGGTTTCTTGTAT
Found at i:11080257 original size:24 final size:24
Alignment explanation
Indices: 11080230--11080390 Score: 112
Period size: 24 Copynumber: 6.6 Consensus size: 24
11080220 TTTCTTGTAT
11080230 ACTGGAACTGGTGGAGGTTTATAG
1 ACTGGAACTGGTGGAGGTTTATAG
* * * *
11080254 ACTGGAACAGGTGGAGG-ATGTGG
1 ACTGGAACTGGTGGAGGTTTATAG
** ** *
11080277 TTTTTCAACTGGTGGAGGTTTGTAG
1 -ACTGGAACTGGTGGAGGTTTATAG
* * *
11080302 ATTGGAACAGGTGGAGGAAGTGGTT-T-T
1 ACTGGAACTGGTGGA-G--GT--TTATAG
*
11080329 ACTGGAACTGGAGGAGGTTTATAG
1 ACTGGAACTGGTGGAGGTTTATAG
11080353 ACTGGAACTGGTGGAGGTTTATAG
1 ACTGGAACTGGTGGAGGTTTATAG
* *
11080377 ATTGGAACAGGTGG
1 ACTGGAACTGGTGG
11080391 GTTTACGGGA
Statistics
Matches: 105, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
22 2 0.02
23 4 0.04
24 76 0.72
25 5 0.05
26 1 0.01
27 14 0.13
28 1 0.01
29 2 0.02
ACGTcount: A:0.25, C:0.07, G:0.39, T:0.29
Consensus pattern (24 bp):
ACTGGAACTGGTGGAGGTTTATAG
Found at i:11080278 original size:57 final size:52
Alignment explanation
Indices: 11079891--11080369 Score: 282
Period size: 57 Copynumber: 8.7 Consensus size: 52
11079881 CTTGTATACC
* * * *
11079891 GGAACTGGAGGAGGCTTATGGACTGGAACTGGCGGAGGATGTGG---TT-CC
1 GGAACTGGAGGAGGTTTATAGACTGGAACTGGTGGAGGATGTGGTTTTTACT
* * **
11079939 GGAACTGGAGGAGATTTATAGACTGGAACTGGGGGAGGACATGGTTTCTTGTATACT
1 GGAACTGGAGGAGGTTTATAGACTGGAACTGGTGGAGGATGTGG--T-TT-T-TACT
* *
11079996 GGAACTGGAGGTGGATGTGGTTTCTTATAGACTGGAACTGGCGGAGGATGTGG---TT-CC
1 GGAACTGGA---GGA---GG--T-TTATAGACTGGAACTGGTGGAGGATGTGGTTTTTACT
* * **
11080053 GGAACTGGAGGAGATTTATAGACTGGAACTGGGGGAGGACATGGTTTCTTGTATACT
1 GGAACTGGAGGAGGTTTATAGACTGGAACTGGTGGAGGATGTGG--T-TT-T-TACT
* *
11080110 GGAACTGGAGGTGGATGTGGTTTCTTATAGACTGGAACTGGAGGAGGATGCGGTTTCTTGTATAC
1 GGAACTGGA---GGA---GG--T-TTATAGACTGGAACTGGTGGAGGATGTGG--T-TT-T-TAC
11080175 T
52 T
* * **
11080176 GGAACCGGAGGAGATTTATAGACTGGAACTGGTGGAGGACATGGTTTCTTGTATACT
1 GGAACTGGAGGAGGTTTATAGACTGGAACTGGTGGAGGATGTGG--T-TT-T-TACT
* *
11080233 GGAACTGGTGGAGGTTTATAGACTGGAACAGGTGGAGGATGTGGTTTTT-C-
1 GGAACTGGAGGAGGTTTATAGACTGGAACTGGTGGAGGATGTGGTTTTTACT
* * * * *
11080283 --AACTGGTGGAGGTTTGTAGATTGGAACAGGTGGAGGAAGTGG-TTTTACT
1 GGAACTGGAGGAGGTTTATAGACTGGAACTGGTGGAGGATGTGGTTTTTACT
11080332 GGAACTGGAGGAGGTTTATAGACTGGAACTGGTGGAGG
1 GGAACTGGAGGAGGTTTATAGACTGGAACTGGTGGAGG
11080370 TTTATAGATT
Statistics
Matches: 350, Mismatches: 41, Indels: 77
0.75 0.09 0.16
Matches are distributed among these distances:
47 4 0.01
48 104 0.30
49 1 0.00
51 34 0.10
52 1 0.00
53 1 0.00
54 5 0.01
55 3 0.01
56 2 0.01
57 106 0.30
58 2 0.01
59 1 0.00
60 7 0.02
63 5 0.01
65 2 0.01
66 72 0.21
ACGTcount: A:0.24, C:0.10, G:0.38, T:0.28
Consensus pattern (52 bp):
GGAACTGGAGGAGGTTTATAGACTGGAACTGGTGGAGGATGTGGTTTTTACT
Found at i:11080291 original size:48 final size:50
Alignment explanation
Indices: 11080235--11080369 Score: 193
Period size: 48 Copynumber: 2.7 Consensus size: 50
11080225 TGTATACTGG
*
11080235 AACTGGTGGAGGTTTATAGACTGGAACAGGTGGAGGATGTGGTTTT-T-C
1 AACTGGTGGAGGTTTATAGACTGGAACAGGTGGAGGAAGTGGTTTTATGC
* * *
11080283 AACTGGTGGAGGTTTGTAGATTGGAACAGGTGGAGGAAGTGGTTTTACTGG
1 AACTGGTGGAGGTTTATAGACTGGAACAGGTGGAGGAAGTGGTTTTA-TGC
* *
11080334 AACTGGAGGAGGTTTATAGACTGGAACTGGTGGAGG
1 AACTGGTGGAGGTTTATAGACTGGAACAGGTGGAGG
11080370 TTTATAGATT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
48 43 0.57
50 1 0.01
51 32 0.42
ACGTcount: A:0.24, C:0.07, G:0.40, T:0.28
Consensus pattern (50 bp):
AACTGGTGGAGGTTTATAGACTGGAACAGGTGGAGGAAGTGGTTTTATGC
Found at i:11082999 original size:30 final size:29
Alignment explanation
Indices: 11082958--11083045 Score: 85
Period size: 28 Copynumber: 3.0 Consensus size: 29
11082948 CATGTTATTA
11082958 TTTAATTAATTTTTAAAAATTTTAAAATAAT
1 TTTAA-TAATTTTT-AAAATTTTAAAATAAT
* *
11082989 TTTAATAATTTTT-CATTTTTAAAAATATAT
1 TTTAATAATTTTTAAAATTTT-AAAATA-AT
*
11083019 TTT--GAATTTTTAAAATTTTAAAA-AAT
1 TTTAATAATTTTTAAAATTTTAAAATAAT
11083045 T
1 T
11083046 AATTAAATAC
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 3 0.06
27 1 0.02
28 16 0.33
29 11 0.22
30 13 0.27
31 5 0.10
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
TTTAATAATTTTTAAAATTTTAAAATAAT
Found at i:11083020 original size:21 final size:20
Alignment explanation
Indices: 11082992--11083033 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
11082982 AAATAATTTT
**
11082992 AATAATTTTTCATTTTTAAA
1 AATAATTTTGAATTTTTAAA
11083012 AATATATTTTGAATTTTTAAA
1 AATA-ATTTTGAATTTTTAAA
11083033 A
1 A
11083034 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AATAATTTTGAATTTTTAAA
Found at i:11083037 original size:29 final size:27
Alignment explanation
Indices: 11082963--11083042 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 27
11082953 TATTATTTAA
11082963 TTAATTTTTAAAAATTTT-AAAATAATT
1 TTAATTTTT-AAAATTTTAAAAATAATT
** *
11082990 TTAATAATTTTTCATTTTTAAAAATATATT
1 TTAAT--TTTTAAAATTTTAAAAATA-ATT
11083020 TTGAATTTTTAAAATTTTAAAAA
1 TT-AATTTTTAAAATTTTAAAAA
11083043 ATTAATTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
27 5 0.12
28 5 0.12
29 24 0.57
30 5 0.12
31 3 0.07
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (27 bp):
TTAATTTTTAAAATTTTAAAAATAATT
Found at i:11090959 original size:41 final size:42
Alignment explanation
Indices: 11090901--11091117 Score: 257
Period size: 41 Copynumber: 5.3 Consensus size: 42
11090891 ATACCGGAGA
* * *
11090901 TATTGTGTCAGGCCTTGAGCCTAGTAGGCTTCGTGCT-GGTC
1 TATTGTATCAGGCCTTGAGCCTAGCAGGCTTCGTGCTCGGTG
* *
11090942 TATTGTATCAGGACTTGAGCCTAGCAGGCTTTGTG-TCGGTG
1 TATTGTATCAGGCCTTGAGCCTAGCAGGCTTCGTGCTCGGTG
* *
11090983 TATTATATCAGGCCTTGAGCCTAGCAGGCTTCATGC-CGGTG
1 TATTGTATCAGGCCTTGAGCCTAGCAGGCTTCGTGCTCGGTG
* * *
11091024 TATTGTATCAGG-CTGTGAGCCTAGTAGGCTTCGT-ATCAGTG
1 TATTGTATCAGGCCT-TGAGCCTAGCAGGCTTCGTGCTCGGTG
* * *
11091065 TATTGTATCAGGCCTTGAGCCTAGCAGGCTTTGTAC-CAGTG
1 TATTGTATCAGGCCTTGAGCCTAGCAGGCTTCGTGCTCGGTG
*
11091106 TATTGTGTCAGG
1 TATTGTATCAGG
11091118 TAATTTGTAT
Statistics
Matches: 152, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
40 3 0.02
41 147 0.97
42 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (42 bp):
TATTGTATCAGGCCTTGAGCCTAGCAGGCTTCGTGCTCGGTG
Found at i:11091107 original size:82 final size:82
Alignment explanation
Indices: 11090901--11091117 Score: 292
Period size: 82 Copynumber: 2.6 Consensus size: 82
11090891 ATACCGGAGA
* * * *
11090901 TATTGTGTCAGGCCTTGAGCCTAGTAGGCTTCGTGCTGGTCTATTGTATCAGGACTTGAGCCTAG
1 TATTGTATCAGGCCTTGAGCCTAGCAGGCTTCGTGCCGGTGTATTGTATCAGGACTTGAGCCTAG
* * *
11090966 CAGGCTTTGTGTCGGTG
66 CAGGCTTCGTATCAGTG
* *
11090983 TATTATATCAGGCCTTGAGCCTAGCAGGCTTCATGCCGGTGTATTGTATCAGG-CTGTGAGCCTA
1 TATTGTATCAGGCCTTGAGCCTAGCAGGCTTCGTGCCGGTGTATTGTATCAGGACT-TGAGCCTA
*
11091047 GTAGGCTTCGTATCAGTG
65 GCAGGCTTCGTATCAGTG
* * * *
11091065 TATTGTATCAGGCCTTGAGCCTAGCAGGCTTTGTACCAGTGTATTGTGTCAGG
1 TATTGTATCAGGCCTTGAGCCTAGCAGGCTTCGTGCCGGTGTATTGTATCAGG
11091118 TAATTTGTAT
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
81 2 0.02
82 116 0.98
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (82 bp):
TATTGTATCAGGCCTTGAGCCTAGCAGGCTTCGTGCCGGTGTATTGTATCAGGACTTGAGCCTAG
CAGGCTTCGTATCAGTG
Found at i:11091410 original size:2 final size:2
Alignment explanation
Indices: 11091403--11091430 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11091393 TGTGTAATGG
11091403 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
11091431 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11091612 original size:23 final size:22
Alignment explanation
Indices: 11091581--11091631 Score: 93
Period size: 23 Copynumber: 2.3 Consensus size: 22
11091571 ATGGTGAAAG
11091581 TATGTTTGGTTGTTTAATTTAA
1 TATGTTTGGTTGTTTAATTTAA
11091603 TAATGTTTGGTTGTTTAATTTAA
1 T-ATGTTTGGTTGTTTAATTTAA
11091626 TATGTT
1 TATGTT
11091632 CGGTAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 6 0.21
23 22 0.79
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.59
Consensus pattern (22 bp):
TATGTTTGGTTGTTTAATTTAA
Found at i:11091641 original size:23 final size:23
Alignment explanation
Indices: 11091582--11091643 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
11091572 TGGTGAAAGT
* *
11091582 ATGTTTGGTTGTTTAATTTAATA
1 ATGTTCGGTAGTTTAATTTAATA
* *
11091605 ATGTTTGGTTGTTTAATTTAAT-
1 ATGTTCGGTAGTTTAATTTAATA
11091627 ATGTTCGGTAAGTTTAA
1 ATGTTCGGT-AGTTTAA
11091644 GTTTCCTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.22
23 28 0.78
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (23 bp):
ATGTTCGGTAGTTTAATTTAATA
Found at i:11094165 original size:89 final size:87
Alignment explanation
Indices: 11094038--11094209 Score: 254
Period size: 89 Copynumber: 2.0 Consensus size: 87
11094028 CTTGAAGATG
* * *
11094038 TATCATATTTGAAAAAAGGACATAGTTTTAAATTTCCTCAATGATCTACCATTTTTATTTATTGT
1 TATCATATTTGAAAAAAGAACATAGTTTTAAATTTCCTCAATGATCTACCATTTCTATTCATTGT
*
11094103 TTTTTCAATATCAATCAAAGTGA
66 CTTTTCAATATC-ATCAAAGTGA
* * * *
11094126 TATCATATTTGGAAAAAGAATATATTTTTTTAATTTCCTCAATGATCTACCATTTCTATTCATTG
1 TATCATATTTGAAAAAAGAACATA-GTTTTAAATTTCCTCAATGATCTACCATTTCTATTCATTG
11094191 TCTTTTCAATATCATCAAA
65 TCTTTTCAATATCATCAAA
11094210 TAATAATTCC
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
88 27 0.36
89 48 0.64
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (87 bp):
TATCATATTTGAAAAAAGAACATAGTTTTAAATTTCCTCAATGATCTACCATTTCTATTCATTGT
CTTTTCAATATCATCAAAGTGA
Found at i:11094720 original size:88 final size:88
Alignment explanation
Indices: 11094578--11094750 Score: 217
Period size: 88 Copynumber: 2.0 Consensus size: 88
11094568 GGAATGATCG
*
11094578 CTTTGATTGATATTGAAAACACAACGAATAAAAATAATAATTCATTGAGAAAATTTAAAAATATG
1 CTTTGATTGATATTGAAAACACAACGAATAAAAATAATAATTCATGGAGAAAATTTAAAAATATG
* *
11094643 TT-TTTTTTTCAAATATGATATCA
66 TTCCTTTTCT-AAATATGATATCA
* * * ** *
11094666 CTTTGATTGATATTGAAAAGACAATGAATAGAAATGGTAGA-TCATGGA-AGAAATTTAATAATA
1 CTTTGATTGATATTGAAAACACAACGAATAAAAATAATA-ATTCATGGAGA-AAATTTAAAAATA
11094729 TGTTCCTTTTCTAAATATGATA
64 TGTTCCTTTTCTAAATATGATA
11094751 CGTCTTCAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
87 1 0.01
88 66 0.90
89 6 0.08
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (88 bp):
CTTTGATTGATATTGAAAACACAACGAATAAAAATAATAATTCATGGAGAAAATTTAAAAATATG
TTCCTTTTCTAAATATGATATCA
Found at i:11095345 original size:2 final size:2
Alignment explanation
Indices: 11095338--11095366 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11095328 NNNNCCCTTA
11095338 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11095367 GAAAAGTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11095525 original size:17 final size:18
Alignment explanation
Indices: 11095512--11095553 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11095502 CTAAAATTTG
11095512 TTTTATAATAAAATAATA
1 TTTTATAATAAAATAATA
*
11095530 TTTTATAATAACA-AATA
1 TTTTATAATAAAATAATA
*
11095547 TCTTATA
1 TTTTATA
11095554 TAGTTTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TTTTATAATAAAATAATA
Found at i:11095680 original size:23 final size:24
Alignment explanation
Indices: 11095645--11095689 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11095635 CGGATGGGAT
11095645 AAATACTCATA-TTTATATTATTA
1 AAATACTCATATTTTATATTATTA
* *
11095668 AAATATTCGTATTTTATATTAT
1 AAATACTCATATTTTATATTAT
11095690 GAAACATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATACTCATATTTTATATTATTA
Found at i:11104689 original size:24 final size:23
Alignment explanation
Indices: 11104637--11104686 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
11104627 AATAAAAAAT
* *
11104637 TATAAAAATTATATATTTTTTTA
1 TATAAAAATTATATATTTATATA
*
11104660 TCATAAAAATTATAT-TTTAAATA
1 T-ATAAAAATTATATATTTATATA
11104683 TATA
1 TATA
11104687 TAACTTAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 3 0.13
23 7 0.30
24 13 0.57
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TATAAAAATTATATATTTATATA
Found at i:11106495 original size:28 final size:29
Alignment explanation
Indices: 11106459--11106513 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
11106449 AACTTCTCCC
*
11106459 CTAGTTTTTATGGCTAAACTA-AAACCAT
1 CTAGCTTTTATGGCTAAACTAGAAACCAT
* *
11106487 CTAGCTTTTGTGGCTCAACTAGAAACC
1 CTAGCTTTTATGGCTAAACTAGAAACC
11106514 TTTTACAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (29 bp):
CTAGCTTTTATGGCTAAACTAGAAACCAT
Found at i:11106711 original size:9 final size:9
Alignment explanation
Indices: 11106697--11106727 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
11106687 TATATACAAG
11106697 AGAAAATAA
1 AGAAAATAA
11106706 AGAAAATAA
1 AGAAAATAA
11106715 AGAAAATAA
1 AGAAAATAA
11106724 AGAA
1 AGAA
11106728 TTGAAGGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (9 bp):
AGAAAATAA
Found at i:11106950 original size:19 final size:18
Alignment explanation
Indices: 11106899--11106951 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
11106889 ACTCACAAGA
11106899 TGTATGGGTAGAAGTGGACC
1 TGTAT-GGTA-AAGTGGACC
* *
11106919 TGTATAGTAAAAGTGGACT
1 TGTATGGT-AAAGTGGACC
11106938 TGTATCGGTAAAGT
1 TGTAT-GGTAAAGT
11106952 CCCCTTGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (18 bp):
TGTATGGTAAAGTGGACC
Found at i:11110050 original size:61 final size:61
Alignment explanation
Indices: 11109977--11110095 Score: 238
Period size: 61 Copynumber: 2.0 Consensus size: 61
11109967 GACAGCGGCA
11109977 GATAGTGCATTGCAGTCGATATTTGTGTATAGAGAAGGCTTGGAAGATCGACGAAGCAACT
1 GATAGTGCATTGCAGTCGATATTTGTGTATAGAGAAGGCTTGGAAGATCGACGAAGCAACT
11110038 GATAGTGCATTGCAGTCGATATTTGTGTATAGAGAAGGCTTGGAAGATCGACGAAGCA
1 GATAGTGCATTGCAGTCGATATTTGTGTATAGAGAAGGCTTGGAAGATCGACGAAGCA
11110096 CCCTATCAGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (61 bp):
GATAGTGCATTGCAGTCGATATTTGTGTATAGAGAAGGCTTGGAAGATCGACGAAGCAACT
Found at i:11110188 original size:18 final size:18
Alignment explanation
Indices: 11110153--11110198 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
11110143 CACAAACATC
*
11110153 TTCAAGATA-A-GCTCAA
1 TTCAAGATATATGATCAA
11110169 TTCAAGATATATGATCAA
1 TTCAAGATATATGATCAA
*
11110187 TTAAAGATATAT
1 TTCAAGATATAT
11110199 TTAGTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 9 0.35
17 1 0.04
18 16 0.62
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
TTCAAGATATATGATCAA
Found at i:11115067 original size:21 final size:21
Alignment explanation
Indices: 11115041--11115082 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11115031 TTTTAAATGA
*
11115041 TTGCTTTAGTTTCGCAAGAGG
1 TTGCTTTAGTTTCACAAGAGG
11115062 TTGCTTTAGTTTCACAAGAGG
1 TTGCTTTAGTTTCACAAGAGG
11115083 AGCTTTTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.38
Consensus pattern (21 bp):
TTGCTTTAGTTTCACAAGAGG
Found at i:11115194 original size:2 final size:2
Alignment explanation
Indices: 11115187--11115217 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11115177 GCTAAAGCTT
11115187 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
11115218 GAAACATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11115447 original size:21 final size:21
Alignment explanation
Indices: 11115423--11115463 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
11115413 TTTCTATTTA
11115423 GAGGGAAATTTCATACCTTTG
1 GAGGGAAATTTCATACCTTTG
11115444 GAGGGAAATTTCATACCTTT
1 GAGGGAAATTTCATACCTTT
11115464 CCCCAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (21 bp):
GAGGGAAATTTCATACCTTTG
Found at i:11117009 original size:147 final size:148
Alignment explanation
Indices: 11116731--11117025 Score: 583
Period size: 147 Copynumber: 2.0 Consensus size: 148
11116721 ACCAAGTGGA
11116731 ACATCCATGTCCTGCATCATAGCATCCTGCATTTAGCACATGATAAGAATAATCCTTCTCCACCA
1 ACATCCATGTCCTGCATCATAGCATCCTGCATTTAGCACATGATAAGAATAATCCTTCTCCACCA
11116796 AAGTTAAGACAAGAAACTTGAGTTTAATGTTTAAGGAGAATATAATACATTCAATTTGCAAAAAG
66 AAGTTAAGACAAGAAACTTGAGTTTAATGTTTAAGGAGAATATAATACATTCAATTTGCAAAAAG
11116861 AAGCAAATGAAGAAAAAG
131 AAGCAAATGAAGAAAAAG
11116879 ACATCCATGT-CTGCATCATAGCATCCTGCATTTAGCACATGATAAGAATAATCCTTCTCCACCA
1 ACATCCATGTCCTGCATCATAGCATCCTGCATTTAGCACATGATAAGAATAATCCTTCTCCACCA
11116943 AAGTTAAGACAAGAAACTTGAGTTTAATGTTTAAGGAGAATATAATACATTCAATTTGCAAAAAG
66 AAGTTAAGACAAGAAACTTGAGTTTAATGTTTAAGGAGAATATAATACATTCAATTTGCAAAAAG
11117008 AAGCAAATGAAGAAAAAG
131 AAGCAAATGAAGAAAAAG
11117026 CGAGCATTTC
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
147 137 0.93
148 10 0.07
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (148 bp):
ACATCCATGTCCTGCATCATAGCATCCTGCATTTAGCACATGATAAGAATAATCCTTCTCCACCA
AAGTTAAGACAAGAAACTTGAGTTTAATGTTTAAGGAGAATATAATACATTCAATTTGCAAAAAG
AAGCAAATGAAGAAAAAG
Found at i:11117679 original size:15 final size:15
Alignment explanation
Indices: 11117661--11117690 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11117651 ACTTAACTAT
11117661 TTACTGCTTAGAGGG
1 TTACTGCTTAGAGGG
11117676 TTACTGCTTAGAGGG
1 TTACTGCTTAGAGGG
11117691 CCAAATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.33, T:0.33
Consensus pattern (15 bp):
TTACTGCTTAGAGGG
Found at i:11118522 original size:79 final size:79
Alignment explanation
Indices: 11118391--11118549 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
11118381 CAAAGTTGAG
11118391 ATACCTTCATTAGTGATGCACTAGCAGGTTAATTAGAGCCTAAATGGGTAAGGTAACTGTAATTC
1 ATACCTTCATTAGTGATGCACTAGCAGGTTAATTAGAGCCTAAATGGGTAAGGTAACTGTAATTC
11118456 CTACTCTAGACACT
66 CTACTCTAGACACT
11118470 ATACCTTCATTAGTGATGCACTAGCAGGTTAATTAGAGCCTAAATGGGTAAGGTAACTGTAATTC
1 ATACCTTCATTAGTGATGCACTAGCAGGTTAATTAGAGCCTAAATGGGTAAGGTAACTGTAATTC
11118535 CTACTCTAGACACT
66 CTACTCTAGACACT
11118549 A
1 A
11118550 GCCACTTTCT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (79 bp):
ATACCTTCATTAGTGATGCACTAGCAGGTTAATTAGAGCCTAAATGGGTAAGGTAACTGTAATTC
CTACTCTAGACACT
Found at i:11140467 original size:31 final size:31
Alignment explanation
Indices: 11140429--11140489 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
11140419 TTTTTTTTAA
11140429 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAA-ATTTTTAAAATAC
*
11140460 TTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAAATTTTTAAAATA
11140490 AAAATGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTTTAAAAATTTTTAAAATAC
Found at i:11151625 original size:18 final size:17
Alignment explanation
Indices: 11151594--11151643 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
11151584 TTCCCTAAAC
11151594 TTTTATTAAATAATAAT
1 TTTTATTAAATAATAAT
* *
11151611 ATTTTAATAACTAATAAT
1 -TTTTATTAAATAATAAT
*
11151629 TTTTATTAATTAATA
1 TTTTATTAAATAATA
11151644 TTATAATACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTATTAAATAATAAT
Found at i:11152885 original size:27 final size:27
Alignment explanation
Indices: 11152837--11152888 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
11152827 TTATTGTTAG
*
11152837 CCCCAATTCCCAAAGGGACGTGGGCAA
1 CCCCAATTCCCAAACGGACGTGGGCAA
* * *
11152864 CCCCAATTCTCAGACGGTCGTGGGC
1 CCCCAATTCCCAAACGGACGTGGGC
11152889 TACTTTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.23, C:0.35, G:0.27, T:0.15
Consensus pattern (27 bp):
CCCCAATTCCCAAACGGACGTGGGCAA
Found at i:11158813 original size:27 final size:27
Alignment explanation
Indices: 11158782--11158834 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
11158772 TACCTAAATT
*
11158782 CTCATGTTTAATGTCTTAGCAGACTAC
1 CTCATGTTTAATGTCTCAGCAGACTAC
* *
11158809 CTCATGTTTACTGTCTCAGCGGACTA
1 CTCATGTTTAATGTCTCAGCAGACTA
11158835 TACTGATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
CTCATGTTTAATGTCTCAGCAGACTAC
Found at i:11159686 original size:94 final size:90
Alignment explanation
Indices: 11159537--11159708 Score: 238
Period size: 94 Copynumber: 1.9 Consensus size: 90
11159527 TCGGTCGATT
* ***
11159537 TAACCAAATTTATATTTTTTATTTTTTGGTTAAAACAAGTATAACACATATAAAAAAATTAGTTG
1 TAACCAAATTTATATTTTTTATTTTTTGGTTAAAACAAGTATAAAACATATAAAAAAATTAACCG
11159602 AATTAACCAAATTAATCGAATGAAA
66 AATTAACCAAATTAATCGAATGAAA
* *
11159627 TAACCAAAATTTATATTTTTTTTTGTTTTTTGGTTAAAACAAGTATAAAA-AGATAAAAAAAATT
1 TAACC-AAATTTATA---TTTTTTATTTTTTGGTTAAAACAAGTATAAAACATAT-AAAAAAATT
11159691 AACCGAATTAACCAAATT
61 AACCGAATTAACCAAATT
11159709 TAATATATGT
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
90 5 0.07
91 9 0.13
93 3 0.04
94 54 0.76
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.37
Consensus pattern (90 bp):
TAACCAAATTTATATTTTTTATTTTTTGGTTAAAACAAGTATAAAACATATAAAAAAATTAACCG
AATTAACCAAATTAATCGAATGAAA
Found at i:11166678 original size:26 final size:26
Alignment explanation
Indices: 11166592--11166684 Score: 98
Period size: 26 Copynumber: 3.6 Consensus size: 26
11166582 TAAAACAACG
*
11166592 ACTCGAAGCCTGCTAAATATACACCA
1 ACTCGAAGCCAGCTAAATATACACCA
* * * *
11166618 GCACGAAACCTA-CTAAAAATACACCA
1 ACTCGAAGCC-AGCTAAATATACACCA
* *
11166644 GCTCAAAGCCAGCTAAATATACACCA
1 ACTCGAAGCCAGCTAAATATACACCA
*
11166670 ACTCGAAGCCTGCTA
1 ACTCGAAGCCAGCTA
11166685 TGCCCTAATG
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
25 1 0.02
26 52 0.98
ACGTcount: A:0.41, C:0.31, G:0.12, T:0.16
Consensus pattern (26 bp):
ACTCGAAGCCAGCTAAATATACACCA
Found at i:11172804 original size:43 final size:43
Alignment explanation
Indices: 11172752--11172872 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 43
11172742 TTTCTGATAA
11172752 GTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGA-CTT
1 GTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATC-T
* * * * *
11172795 GTGTTTTCGTGTAAGACC-CTGTCCGAGATAG-CGGCATCGATCT
1 GTGATTTCGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATCT
* * *
11172838 GTGATTACATGTAAGATCACGTCTGGGACGTTGGC
1 GTGATTTCGTGTAAGACCACGTCTGGGACGTTGGC
11172873 GTTGTACGAA
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
42 2 0.03
43 55 0.92
44 3 0.05
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (43 bp):
GTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATCT
Found at i:11173566 original size:19 final size:20
Alignment explanation
Indices: 11173528--11173567 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
11173518 TTTTGAGTGA
11173528 ATTATGGTTTAGGCATATTTTG
1 ATTATGGTTTA-G-ATATTTTG
11173550 ATTATGGTTTA-ATATTTT
1 ATTATGGTTTAGATATTTT
11173568 ATGGATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
22 11 0.61
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.55
Consensus pattern (20 bp):
ATTATGGTTTAGATATTTTG
Found at i:11174481 original size:2 final size:2
Alignment explanation
Indices: 11174468--11174499 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
11174458 ATAGAAGGTT
11174468 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
11174500 TTACATGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11184987 original size:101 final size:102
Alignment explanation
Indices: 11184872--11185056 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
11184862 AAAGTGATGG
* * *
11184872 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGATACTACGTGTACCAGATAGTGAT-GATCACATGTGTAGT
*
11184935 ACTATCTGTAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATCTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* *
11184973 TCACGTGTGTAGTACTATGTGCAGGATACTACGTGTATCGGATAGTGATGATCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGATACTACGTGTACCAGATAGTGATGATCACATGTGTAGTA
*
11185038 CTATGTGCAGGCTACTATG
66 CTATCTGCAGGCTACTATG
11185057 TGAACCGATA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 39 0.52
102 32 0.43
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGATACTACGTGTACCAGATAGTGATGATCACATGTGTAGTA
CTATCTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:11185003 original size:51 final size:49
Alignment explanation
Indices: 11184872--11185063 Score: 197
Period size: 51 Copynumber: 3.8 Consensus size: 49
11184862 AAAGTGATGG
* * * *
11184872 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-G-TTGA
* * * * *
11184922 TCGCATGTGTAGTACTATCTGTAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TT-GA
* * *
11184973 TCACGTGTGTAGTACTATGTGCAGGATACTACGTGTATCGGATAGTGATGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT--TGA
* *
11185024 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
11185064 ATATCATTAA
Statistics
Matches: 115, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 38 0.33
51 76 0.66
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTGA
Found at i:11185058 original size:26 final size:26
Alignment explanation
Indices: 11184978--11185058 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
11184968 TTCGATCACG
11184978 TGTGTAGTACTATGTGCAGGATACTA
1 TGTGTAGTACTATGTGCAGGATACTA
* * *
11185004 CGTGTA-T-CGGATAGTG-ATGATCAC-A
1 TGTGTAGTAC-TAT-GTGCAGGAT-ACTA
*
11185029 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGATACTA
11185055 TGTG
1 TGTG
11185059 AACCGATATC
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
24 1 0.02
25 18 0.44
26 21 0.51
27 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGATACTA
Found at i:11185305 original size:16 final size:16
Alignment explanation
Indices: 11185284--11185315 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11185274 TGATTGAAAG
*
11185284 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
11185300 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
11185316 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:11193153 original size:40 final size:40
Alignment explanation
Indices: 11193074--11193184 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 40
11193064 GGATCTGGAG
* * * *
11193074 TGCAAACAGAGGCACTGTAGTGCAAATAGAGGCACGATTA
1 TGCAATCAGAGGCACTGGAGTGCAAACAGAGGCAAGATTA
* * * *
11193114 TGCAATTAGAGGTACTGGAGTACAAACAGAGTCAAGATTA
1 TGCAATCAGAGGCACTGGAGTGCAAACAGAGGCAAGATTA
11193154 TGCAATCAGAGGCAC-GAGAGTGCAAACAGAG
1 TGCAATCAGAGGCACTG-GAGTGCAAACAGAG
11193185 ACACCAAAGT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.02
40 58 0.98
ACGTcount: A:0.39, C:0.16, G:0.28, T:0.17
Consensus pattern (40 bp):
TGCAATCAGAGGCACTGGAGTGCAAACAGAGGCAAGATTA
Found at i:11193227 original size:21 final size:20
Alignment explanation
Indices: 11193072--11193241 Score: 82
Period size: 20 Copynumber: 8.4 Consensus size: 20
11193062 GGGGATCTGG
* *
11193072 AGTGCAAACAGAGGCACTGT
1 AGTGCAAACAGAGGCACCGA
*
11193092 AGTGCAAATAGAGGCA-CGA
1 AGTGCAAACAGAGGCACCGA
** * * *
11193111 TTA-TGCAATTAGAGGTACTGG
1 --AGTGCAAACAGAGGCACCGA
* * *
11193132 AGTACAAACAGAGTCA-AGA
1 AGTGCAAACAGAGGCACCGA
*
11193151 TTA-TGCAATCAGAGGCA-CGA
1 --AGTGCAAACAGAGGCACCGA
* *
11193171 GAGTGCAAACAGAGACACCAA
1 -AGTGCAAACAGAGGCACCGA
* **
11193192 AGTG-AGAATAGAGGCATTGA
1 AGTGCA-AACAGAGGCACCGA
11193212 AGGTGCAAACAGAGGCACCGA
1 A-GTGCAAACAGAGGCACCGA
11193233 AGTGCAAAC
1 AGTGCAAAC
11193242 CCATACAAGT
Statistics
Matches: 109, Mismatches: 30, Indels: 22
0.68 0.19 0.14
Matches are distributed among these distances:
19 5 0.05
20 83 0.76
21 20 0.18
22 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.15
Consensus pattern (20 bp):
AGTGCAAACAGAGGCACCGA
Found at i:11195227 original size:23 final size:23
Alignment explanation
Indices: 11195196--11195241 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
11195186 GGAGGTGGGC
11195196 TTCGCGCACCCTATAACTATACA
1 TTCGCGCACCCTATAACTATACA
* *
11195219 TTCGGGCACCCTATTACTATACA
1 TTCGCGCACCCTATAACTATACA
11195242 GCAGTTACGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (23 bp):
TTCGCGCACCCTATAACTATACA
Found at i:11196476 original size:23 final size:23
Alignment explanation
Indices: 11196445--11196490 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
11196435 GGAGGTGGGC
11196445 TTCGCGCACCCTATAACTATACA
1 TTCGCGCACCCTATAACTATACA
* *
11196468 TTCGGGCACCCTATTACTATACA
1 TTCGCGCACCCTATAACTATACA
11196491 GCAGTTACGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (23 bp):
TTCGCGCACCCTATAACTATACA
Found at i:11197160 original size:29 final size:29
Alignment explanation
Indices: 11197128--11197187 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
11197118 GAGGAAACCC
11197128 TAAAAGGTGTGGAGATCCAG-AGGCAACAA
1 TAAAAGGTGTGGAGAT-CAGAAGGCAACAA
* *
11197157 TAAAGGGTGTGGAGATCTGAAGGCAACAA
1 TAAAAGGTGTGGAGATCAGAAGGCAACAA
11197186 TA
1 TA
11197188 GAGGTAGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.40, C:0.12, G:0.32, T:0.17
Consensus pattern (29 bp):
TAAAAGGTGTGGAGATCAGAAGGCAACAA
Found at i:11197197 original size:29 final size:28
Alignment explanation
Indices: 11197130--11197197 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
11197120 GGAAACCCTA
11197130 AAAGGTGTGGAGATCCAGAGGCAACAAT
1 AAAGGTGTGGAGATCCAGAGGCAACAAT
*
11197158 AAAGGGTGTGGAGAT-CTGAAGGCAACAAT
1 AAA-GGTGTGGAGATCCAG-AGGCAACAAT
*
11197187 AGAGGTAGTGG
1 AAAGGT-GTGG
11197198 CTGAGTAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 8 0.23
29 27 0.77
ACGTcount: A:0.37, C:0.10, G:0.37, T:0.16
Consensus pattern (28 bp):
AAAGGTGTGGAGATCCAGAGGCAACAAT
Found at i:11203794 original size:51 final size:50
Alignment explanation
Indices: 11203674--11203805 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 50
11203664 AAAGTGATGG
* * * * *
11203674 TCACGTGTGTACTACTATGTGTAGGCTACTACGTGTACCGGAATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGA
* * *
11203724 TCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATGGTAATGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGAT-A-GA
11203775 TCACATGTGTAGTACTATGTGCAGGCTACTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTA
11203806 TGTGAACCGA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
49 4 0.06
50 36 0.51
51 31 0.44
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGA
Found at i:11203809 original size:26 final size:26
Alignment explanation
Indices: 11203728--11203809 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
11203718 GATAGGTCGC
11203728 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* * * * *
11203754 ACGTGTA-T-CAGATG-GTAATGATCAC-
1 ATGTGTAGTAC-TATGTG-CAGGCT-ACT
11203779 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
11203805 ATGTG
1 ATGTG
11203810 AACCGAACGT
Statistics
Matches: 39, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
24 2 0.05
25 15 0.38
26 20 0.51
27 2 0.05
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:11213808 original size:26 final size:28
Alignment explanation
Indices: 11213771--11213833 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
11213761 ATACCACCGA
11213771 AATGACTTCAATA-AG-AAGCATCATGAC
1 AATG-CTTCAATATAGAAAGCATCATGAC
*
11213798 AATGCTTCAATATTGAAAGCATCATGAC
1 AATGCTTCAATATAGAAAGCATCATGAC
11213826 AATGCTTC
1 AATGCTTC
11213834 TTCTCCTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 8 0.24
27 5 0.15
28 20 0.61
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (28 bp):
AATGCTTCAATATAGAAAGCATCATGAC
Found at i:11229128 original size:30 final size:31
Alignment explanation
Indices: 11229094--11229163 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
11229084 TTGCCCAAGA
* * *
11229094 GTAAATATTTAAAATTTGAGGGGTTAA-AGT
1 GTAAATATTTAAAATTTGAAGGATCAATAGT
*
11229124 GTAAATA-TGAAAATTTGAAGGATCAATAGT
1 GTAAATATTTAAAATTTGAAGGATCAATAGT
11229154 GTAAATATTT
1 GTAAATATTT
11229164 TAAGGGTGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 15 0.45
30 17 0.52
31 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.20, T:0.36
Consensus pattern (31 bp):
GTAAATATTTAAAATTTGAAGGATCAATAGT
Found at i:11230142 original size:10 final size:11
Alignment explanation
Indices: 11230111--11230141 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11230101 TAGGCTTAAA
*
11230111 TGAATGAAAAT
1 TGAATAAAAAT
11230122 TGAATAAAAAT
1 TGAATAAAAAT
11230133 TGAATAAAA
1 TGAATAAAA
11230142 TAATGAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (11 bp):
TGAATAAAAAT
Found at i:11240309 original size:41 final size:41
Alignment explanation
Indices: 11240264--11240403 Score: 185
Period size: 41 Copynumber: 3.4 Consensus size: 41
11240254 TCCTGAATCT
*
11240264 ATGAAAAGGTTGAAAAGGATGATATCTGAAAAAGATATCAA
1 ATGAAAAGGTTGAAAAGGACGATATCTGAAAAAGATATCAA
* *
11240305 ATGAAAAGGTTGAAAAGGACGATATCCGAAAAGGATATCAA
1 ATGAAAAGGTTGAAAAGGACGATATCTGAAAAAGATATCAA
* * * *
11240346 ATAAAAAGGTTGGAAATGACGATATTTGAAGAAA-ATATC-A
1 ATGAAAAGGTTGAAAAGGACGATATCTGAA-AAAGATATCAA
*
11240386 ATGAAAAGGTCGAAAAGG
1 ATGAAAAGGTTGAAAAGG
11240404 TTAGTAATGA
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 15 0.18
41 68 0.80
42 2 0.02
ACGTcount: A:0.50, C:0.06, G:0.24, T:0.20
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAGGACGATATCTGAAAAAGATATCAA
Found at i:11264607 original size:53 final size:53
Alignment explanation
Indices: 11264544--11264650 Score: 180
Period size: 53 Copynumber: 2.0 Consensus size: 53
11264534 TAAGTGGTCT
* *
11264544 GCTACTTGATTTTCTACTA-CCTTTCGATCCTGAATTTTTAGATCAAACTCTTG
1 GCTACTTGATTTTCTAC-ACCCTTTCGATCCTAAATTTCTAGATCAAACTCTTG
11264597 GCTACTTGATTTTCTACACCCTTTCGATCCTAAATTTCTAGATCAAACTCTTG
1 GCTACTTGATTTTCTACACCCTTTCGATCCTAAATTTCTAGATCAAACTCTTG
11264650 G
1 G
11264651 AGTAGAAGTA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
52 1 0.02
53 50 0.98
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.41
Consensus pattern (53 bp):
GCTACTTGATTTTCTACACCCTTTCGATCCTAAATTTCTAGATCAAACTCTTG
Found at i:11270356 original size:5 final size:5
Alignment explanation
Indices: 11270348--11270372 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11270338 TTTAACTGAG
11270348 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
11270373 GTTGCAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:11286232 original size:45 final size:45
Alignment explanation
Indices: 11286182--11286335 Score: 202
Period size: 45 Copynumber: 3.4 Consensus size: 45
11286172 GGCTATACCC
* *
11286182 ATAAAAATGAGTAAGACCATGGTTGAAAGATGCTTTGGCGTCATG
1 ATAAAAATGAGTAAGACCATGGTTGAAAGATGCTATGGAGTCATG
* * * *
11286227 ATAAAAATGAGTAAGATCATAGCTAAAAGATGAC-ATGGAGTCATG
1 ATAAAAATGAGTAAGACCATGGTTGAAAGATG-CTATGGAGTCATG
* *
11286272 ATAAAAATATGATTAAGACCATGGTTGAAAGATGCTATGGTGTCATG
1 AT-AAAA-ATGAGTAAGACCATGGTTGAAAGATGCTATGGAGTCATG
11286319 ATAAAAATGAGTAAGAC
1 ATAAAAATGAGTAAGAC
11286336 TATAGCTGAA
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
45 49 0.53
46 10 0.11
47 33 0.36
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (45 bp):
ATAAAAATGAGTAAGACCATGGTTGAAAGATGCTATGGAGTCATG
Found at i:11290931 original size:23 final size:23
Alignment explanation
Indices: 11290905--11290952 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
11290895 GTGGTAATTA
11290905 TATACATGTGTAATAAATATATG
1 TATACATGTGTAATAAATATATG
* * *
11290928 TATACATTTGTAGTTAATATATG
1 TATACATGTGTAATAAATATATG
11290951 TA
1 TA
11290953 CATACTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (23 bp):
TATACATGTGTAATAAATATATG
Found at i:11291848 original size:43 final size:45
Alignment explanation
Indices: 11291800--11291886 Score: 124
Period size: 48 Copynumber: 1.9 Consensus size: 45
11291790 TACCGCTAAG
11291800 GATTATGACCTTTAG-CG-GCGCTTCTACCACAAACGCTGCGAAA
1 GATTATGACCTTTAGTCGAGCGCTTCTACCACAAACGCTGCGAAA
*
11291843 GATTATGACCTTTAGCTTCGCAGCGCTTCTACCACAAATGCTGC
1 GATTATGACCTTTAG--TCG-AGCGCTTCTACCACAAACGCTGC
11291887 TAAAAACATG
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
43 15 0.39
46 2 0.05
48 21 0.55
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (45 bp):
GATTATGACCTTTAGTCGAGCGCTTCTACCACAAACGCTGCGAAA
Found at i:11295297 original size:9 final size:9
Alignment explanation
Indices: 11295283--11295313 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11295273 GTTAAACGAA
11295283 TCGAGTTAT
1 TCGAGTTAT
*
11295292 TCGAGTTAA
1 TCGAGTTAT
11295301 TCGAGTTAT
1 TCGAGTTAT
11295310 TCGA
1 TCGA
11295314 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11295383 original size:9 final size:9
Alignment explanation
Indices: 11295366--11295420 Score: 101
Period size: 9 Copynumber: 6.1 Consensus size: 9
11295356 TGAGTTTTCG
11295366 AATTCGAAT
1 AATTCGAAT
*
11295375 AACTCGAAT
1 AATTCGAAT
11295384 AATTCGAAT
1 AATTCGAAT
11295393 AATTCGAAT
1 AATTCGAAT
11295402 AATTCGAAT
1 AATTCGAAT
11295411 AATTCGAAT
1 AATTCGAAT
11295420 A
1 A
11295421 TCAAACTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11296091 original size:5 final size:5
Alignment explanation
Indices: 11296081--11296111 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
11296071 GAACAAATAA
11296081 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
11296112 ATTCCATCTC
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:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:11297161 original size:23 final size:23
Alignment explanation
Indices: 11297134--11297179 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
11297124 AGCTCTGCCG
11297134 ATCAGGAACTTTATGCGTCGTAT
1 ATCAGGAACTTTATGCGTCGTAT
* *
11297157 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGAACTTTATGCGTCGTAT
11297180 TTTAGACACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (23 bp):
ATCAGGAACTTTATGCGTCGTAT
Found at i:11297210 original size:21 final size:21
Alignment explanation
Indices: 11297186--11297243 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
11297176 GTATTTTAGA
11297186 CACCTCGTGTGTCGTATCAGG
1 CACCTCGTGTGTCGTATCAGG
* *
11297207 CACCTCGTGTGTCATTTCAGG
1 CACCTCGTGTGTCGTATCAGG
**
11297228 CA-CTTATGTGTCGTAT
1 CACCTCGTGTGTCGTAT
11297244 ACTGATCAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
20 10 0.32
21 21 0.68
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (21 bp):
CACCTCGTGTGTCGTATCAGG
Found at i:11297678 original size:21 final size:24
Alignment explanation
Indices: 11297628--11297674 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
11297618 AATGAAATTG
11297628 AGATAGTGAAATATTGCTTATTAAT
1 AGATAGTGAAATATTGCTTATT-AT
11297653 AGATAGTGAAATATTGCTTATT
1 AGATAGTGAAATATTGCTTATT
11297675 GATATTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.40
Consensus pattern (24 bp):
AGATAGTGAAATATTGCTTATTAT
Found at i:11298611 original size:45 final size:45
Alignment explanation
Indices: 11298559--11298702 Score: 198
Period size: 45 Copynumber: 3.2 Consensus size: 45
11298549 GCTATACGCC
11298559 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATAA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATAA
* *
11298604 TGAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATGATA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCAT-A-A
* * * * *
11298651 AAAAAATGAGTAAGACCATAACTGAAAGATGTTATGGTGTCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATAA
*
11298696 TCAAAAT
1 TAAAAAT
11298703 TCCATAGTAG
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 47 0.55
46 1 0.01
47 38 0.44
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.24
Consensus pattern (45 bp):
TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATAA
Found at i:11298630 original size:22 final size:22
Alignment explanation
Indices: 11298561--11298630 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
11298551 TATACGCCTA
11298561 AAAATGAGTAAGACCATAGCTG
1 AAAATGAGTAAGACCATAGCTG
* * * *
11298583 AAAGATG-CTATGGCGTCATA-ATG
1 AAA-ATGAGTAAGAC--CATAGCTG
11298606 AAAATGAGTAAGACCATAGCTG
1 AAAATGAGTAAGACCATAGCTG
11298628 AAA
1 AAA
11298631 GATGCTATGG
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
21 4 0.11
22 15 0.43
23 12 0.34
24 4 0.11
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (22 bp):
AAAATGAGTAAGACCATAGCTG
Found at i:11298676 original size:47 final size:47
Alignment explanation
Indices: 11298560--11298701 Score: 207
Period size: 47 Copynumber: 3.1 Consensus size: 47
11298550 CTATACGCCT
*
11298560 AAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCAT-A-AT
1 AAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATGATAA
* *
11298605 GAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATGATAA
1 AAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATGATAA
* * * *
11298652 AAAAATGAGTAAGACCATAACTGAAAGATGTTATGGTGTCATGATCA
1 AAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATGATAA
11298699 AAA
1 AAA
11298702 TTCCATAGTA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 40 0.47
46 1 0.01
47 45 0.52
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.23
Consensus pattern (47 bp):
AAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATGATAA
Found at i:11306807 original size:37 final size:37
Alignment explanation
Indices: 11306754--11306908 Score: 161
Period size: 37 Copynumber: 4.2 Consensus size: 37
11306744 CTAGAAGTAT
* *
11306754 GCTCTATCGAGGCAAATCTTACTGTTATACTGAATGAA
1 GCTCAATCGA-GCAAATCTTACTGTTATACTGAGTGAA
*
11306792 GCTCAATCGAGCAAATCATA-TCGTTATACTGAGTGAA
1 GCTCAATCGAGCAAATCTTACT-GTTATACTGAGTGAA
* * * * *
11306829 GTTTAATTGAGCAAATCTTACTGTTATACTGACTGAT
1 GCTCAATCGAGCAAATCTTACTGTTATACTGAGTGAA
* * * *
11306866 GTTTAATTGATCAAAT-TCTACTGTTATACTGAGTGAA
1 GCTCAATCGAGCAAATCT-TACTGTTATACTGAGTGAA
11306903 GCTCAA
1 GCTCAA
11306909 ATGAGTAGAA
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
36 2 0.02
37 88 0.88
38 10 0.10
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (37 bp):
GCTCAATCGAGCAAATCTTACTGTTATACTGAGTGAA
Found at i:11306848 original size:74 final size:74
Alignment explanation
Indices: 11306765--11306903 Score: 192
Period size: 74 Copynumber: 1.9 Consensus size: 74
11306755 CTCTATCGAG
11306765 GCAAATCTTACTGTTATACTGAATGAAGCTCAATCGAGCAAA-TCATA-TCGTTATACTGAGTGA
1 GCAAATCTTACTGTTATACTGAATGAAGCTCAATCGAGCAAATTC-TACT-GTTATACTGAGTGA
11306828 AGTTTAATTGA
64 AGTTTAATTGA
* * * * * *
11306839 GCAAATCTTACTGTTATACTGACTGATGTTTAATTGATCAAATTCTACTGTTATACTGAGTGAAG
1 GCAAATCTTACTGTTATACTGAATGAAGCTCAATCGAGCAAATTCTACTGTTATACTGAGTGAAG
11306904 CTCAAATGAG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
74 54 0.95
75 3 0.05
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (74 bp):
GCAAATCTTACTGTTATACTGAATGAAGCTCAATCGAGCAAATTCTACTGTTATACTGAGTGAAG
TTTAATTGA
Found at i:11312472 original size:18 final size:17
Alignment explanation
Indices: 11312439--11312477 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
11312429 TTTTATAAAT
11312439 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
11312457 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
11312474 TGTG
1 TGTG
11312478 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:11312608 original size:8 final size:8
Alignment explanation
Indices: 11312595--11312623 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
11312585 CACTAGAGAC
11312595 CAGTGTTA
1 CAGTGTTA
11312603 CAGTGTTA
1 CAGTGTTA
11312611 CAGTGTTA
1 CAGTGTTA
11312619 CAGTG
1 CAGTG
11312624 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:11312737 original size:23 final size:23
Alignment explanation
Indices: 11312710--11312831 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
11312700 AGTGTTATTG
11312710 ATCAGTGGTAGCTTCGGCTACA-
1 ATCAGTGGTAGCTTCGGCTACAT
* *
11312732 ATTCAGTGGTAGCTACGGCTCCAT
1 A-TCAGTGGTAGCTTCGGCTACAT
*
11312756 ATCAGTGGTAGCTTCGGCTCCAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
11312779 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
11312802 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
11312825 ATCAGTG
1 ATCAGTG
11312832 TGGCACTTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.01
23 86 0.98
24 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:11312763 original size:46 final size:46
Alignment explanation
Indices: 11312710--11312831 Score: 192
Period size: 46 Copynumber: 2.7 Consensus size: 46
11312700 AGTGTTATTG
*
11312710 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTCCAT
1 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
* * *
11312756 ATCAGTGGTAGCTTCGGCTCCATTTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
11312802 ATCAGTGGTAGCTTCGGCTAC-ATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACAAT-TCAGTG
11312832 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 68 0.99
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
Found at i:11317797 original size:24 final size:25
Alignment explanation
Indices: 11317770--11317833 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
11317760 GTGCATGTAT
*
11317770 GCTCATACGAGCTGTG-AACGGTAA
1 GCTCATACGAGCTGAGTAACGGTAA
*
11317794 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAGTAACGGTAA
*
11317819 GCTCATAAGAGCTGA
1 GCTCATACGAGCTGA
11317834 AATCGGTAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 15 0.42
25 21 0.58
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAGTAACGGTAA
Found at i:11317822 original size:25 final size:24
Alignment explanation
Indices: 11317770--11317842 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
11317760 GTGCATGTAT
* *
11317770 GCTCATACGAGCTGTGAACGGTAA
1 GCTCATACGAGCTGAGATCGGTAA
11317794 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAG-ATCGGTAA
* *
11317819 GCTCATAAGAGCTGAAATCGGTAA
1 GCTCATACGAGCTGAGATCGGTAA
11317843 CCCTAATGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 23 0.52
25 21 0.48
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (24 bp):
GCTCATACGAGCTGAGATCGGTAA
Found at i:11330206 original size:22 final size:22
Alignment explanation
Indices: 11330166--11330207 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11330156 CCATAATCAT
11330166 AACACTTTAAACACATTTAAGC
1 AACACTTTAAACACATTTAAGC
*
11330188 AACACATTTACACAC-TTTAA
1 AACAC-TTTAAACACATTTAA
11330208 TTTGATACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (22 bp):
AACACTTTAAACACATTTAAGC
Found at i:11330580 original size:3 final size:3
Alignment explanation
Indices: 11330572--11330604 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
11330562 TGATTACCAA
*
11330572 TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
11330605 ATCATCATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:11332522 original size:23 final size:24
Alignment explanation
Indices: 11332492--11332548 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
11332482 GATACGTCAC
11332492 AAAA-GCTTTACCA-AATACACCA
1 AAAAGGCTTTACCATAATACACCA
*
11332514 AAAAGGCTTTA-CATAATACACGA
1 AAAAGGCTTTACCATAATACACCA
* *
11332537 CACAGGCTTTAC
1 AAAAGGCTTTAC
11332549 AGAAAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 6 0.21
23 23 0.79
ACGTcount: A:0.44, C:0.25, G:0.11, T:0.21
Consensus pattern (24 bp):
AAAAGGCTTTACCATAATACACCA
Found at i:11337475 original size:21 final size:22
Alignment explanation
Indices: 11337451--11337498 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
11337441 CAATTGAATC
11337451 TATTTTTTTATTTTTAAATA-T
1 TATTTTTTTATTTTTAAATATT
*
11337472 TATTTTTTTATTTTTAATTATT
1 TATTTTTTTATTTTTAAATATT
11337494 TATTT
1 TATTT
11337499 AATTAAACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (22 bp):
TATTTTTTTATTTTTAAATATT
Found at i:11339690 original size:20 final size:21
Alignment explanation
Indices: 11339665--11339709 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
11339655 GTTCAACCAA
11339665 TTTTGGGTT-TCGATCTCAAT
1 TTTTGGGTTCTCGATCTCAAT
*
11339685 TTTT-GGTTCTCGATTTCAAT
1 TTTTGGGTTCTCGATCTCAAT
11339705 TTTTG
1 TTTTG
11339710 ATCTCAAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.13, C:0.13, G:0.18, T:0.56
Consensus pattern (21 bp):
TTTTGGGTTCTCGATCTCAAT
Found at i:11341726 original size:45 final size:45
Alignment explanation
Indices: 11341671--11341880 Score: 262
Period size: 45 Copynumber: 4.7 Consensus size: 45
11341661 TACCAGAAAC
* *
11341671 AGTAAGACCATAGCTAAAAGACGTTATGGCATCATGATTCTATCA
1 AGTAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTATCA
*
11341716 AGTAAGACCATACCTGAAAGACATTATGGCATCATGATTCTATCA
1 AGTAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTATCA
* * **
11341761 AGTAAGACCATAGCTGAAAGACATTATGGCATAATGATTTTATTG
1 AGTAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTATCA
* * * * * *
11341806 AGTAAGACCATAGTTGAAAGACATTATGGCATAACGAATCAAATGA
1 AGTAAGACCATAGCTGAAAGACATTATGGCATCATGATTC-TATCA
* *
11341852 A--AAGACCATAGTTGAAAGACACTATGGCA
1 AGTAAGACCATAGCTGAAAGACATTATGGCA
11341881 ACACGACGGA
Statistics
Matches: 148, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
44 27 0.18
45 118 0.80
46 3 0.02
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTATCA
Found at i:11341902 original size:90 final size:90
Alignment explanation
Indices: 11341808--11342009 Score: 216
Period size: 90 Copynumber: 2.2 Consensus size: 90
11341798 TTTTATTGAG
* *
11341808 TAAGACCATAGTTGAAAGACATTATGGCATA-ACGA-ATCAAATGAA-AAGACCATAGTTGAAAG
1 TAAGACCATAGTTGAAAGACACTATGGCA-ACACGATA-AAAATGAATAAGACCATAGTTGAAAG
* * *
11341870 -ACACTATGGCAACACGACGGAAAATGAA
64 TA-ACTATGCCAACAAGAC-GAAAATAAA
* * *
11341898 TAAGACCATAATTGAAAGACACTGTGGCAACACGATGAAAAATGAATAAGACCATGGTTGAAAGT
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGAT-AAAAATGAATAAGACCATAGTTGAAAGT
* * *
11341963 AACTATGCCATCAAGTCGAGAATAAA
65 AACTATGCCAACAAGACGAAAATAAA
11341989 TAAGACCAT-GTTCGAAAGACA
1 TAAGACCATAGTT-GAAAGACA
11342010 ATAACTCCCT
Statistics
Matches: 94, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
89 1 0.01
90 32 0.34
91 31 0.33
92 29 0.31
93 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.19
Consensus pattern (90 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACACGATAAAAATGAATAAGACCATAGTTGAAAGTA
ACTATGCCAACAAGACGAAAATAAA
Found at i:11341916 original size:46 final size:45
Alignment explanation
Indices: 11341808--11341969 Score: 197
Period size: 46 Copynumber: 3.6 Consensus size: 45
11341798 TTTTATTGAG
* *
11341808 TAAGACCATAGTTGAAAGACATTATGGCATA-ACGA-ATCAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCA-ACACGAGA-AAAATGAA
*
11341853 -AAGACCATAGTTGAAAGACACTATGGCAACACGACGGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGA-GAAAAATGAA
* *
11341898 TAAGACCATAATTGAAAGACACTGTGGCAACACGATGAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGA-GAAAAATGAA
*
11341944 TAAGACCATGGTTGAAAGTA-ACTATG
1 TAAGACCATAGTTGAAAG-ACACTATG
11341970 CCATCAAGTC
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
43 1 0.01
44 31 0.30
45 7 0.07
46 62 0.61
47 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACACGAGAAAAATGAA
Found at i:11343404 original size:26 final size:26
Alignment explanation
Indices: 11343373--11343442 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
11343363 CATTCTGACC
11343373 CACAACTCGTATGAGCAAGCCCATTT
1 CACAACTCGTATGAGCAAGCCCATTT
*
11343399 CACAACTCGTATGAGCAGGCCCATTT
1 CACAACTCGTATGAGCAAGCCCATTT
* *
11343425 CACAGCTCGTGTGAGCAA
1 CACAACTCGTATGAGCAA
11343443 TGTAAAGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (26 bp):
CACAACTCGTATGAGCAAGCCCATTT
Found at i:11352915 original size:21 final size:21
Alignment explanation
Indices: 11352891--11352935 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11352881 AGGACTAAAT
*
11352891 TGTAAAAATATAAAAGTGTTA
1 TGTAAAAATATAAAAGTGATA
* *
11352912 TGTAAAAGTGTAAAAGTGATA
1 TGTAAAAATATAAAAGTGATA
11352933 TGT
1 TGT
11352936 TTGCATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (21 bp):
TGTAAAAATATAAAAGTGATA
Found at i:11353064 original size:22 final size:22
Alignment explanation
Indices: 11353039--11353087 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
11353029 CGCTTTAGCA
*
11353039 CTTACCGTT-TCGCACTTCGGTG
1 CTTACCGTTCT-GCACTTCCGTG
*
11353061 CTTATCGTTCTGCACTTCCGTG
1 CTTACCGTTCTGCACTTCCGTG
11353083 CTTAC
1 CTTAC
11353088 TGTTGTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.10, C:0.33, G:0.18, T:0.39
Consensus pattern (22 bp):
CTTACCGTTCTGCACTTCCGTG
Found at i:11353553 original size:16 final size:16
Alignment explanation
Indices: 11353532--11353567 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11353522 GGGAATTATG
11353532 GAATTTAATAGATTTT
1 GAATTTAATAGATTTT
11353548 GAATTTAATAGATTTT
1 GAATTTAATAGATTTT
11353564 GAAT
1 GAAT
11353568 ATCAAGGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (16 bp):
GAATTTAATAGATTTT
Done.