Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 221 of 226
Found at i:66126032 original size:29 final size:29
Alignment explanation
Indices: 66125954--66126032 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
66125944 ATTTTTTTTT
66125954 AATATAAACTG-AAAAA-AAAAGAAAAAA
1 AATATAAACTGAAAAAAGAAAAGAAAAAA
* *
66125981 AA-AGGAAA-AGAAAAAAGAAAAAGAAAAAA
1 AATA-TAAACTGAAAAAAG-AAAAGAAAAAA
66126010 AATATAAACTGAAAAAAGAAAAG
1 AATATAAACTGAAAAAAGAAAAG
66126033 CCCCAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
26 2 0.05
27 10 0.24
29 21 0.50
30 9 0.21
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.08
Consensus pattern (29 bp):
AATATAAACTGAAAAAAGAAAAGAAAAAA
Found at i:66129960 original size:21 final size:21
Alignment explanation
Indices: 66129936--66129980 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
66129926 TTTGGACACC
66129936 TATTTATCTAGATCCATTCTA
1 TATTTATCTAGATCCATTCTA
66129957 TATTTATCTAGATCCATTCTA
1 TATTTATCTAGATCCATTCTA
66129978 TAT
1 TAT
66129981 GTATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (21 bp):
TATTTATCTAGATCCATTCTA
Found at i:66130182 original size:15 final size:15
Alignment explanation
Indices: 66130147--66130198 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
66130137 TTAAGAATTT
*
66130147 TATTAAATTAT-ATA
1 TATTTAATTATAATA
66130161 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
66130175 TATTTAATAATAAT-
1 TATTTAATTATAATA
66130189 TATATTAATT
1 TAT-TTAATT
66130199 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:66130274 original size:38 final size:38
Alignment explanation
Indices: 66130113--66130396 Score: 120
Period size: 38 Copynumber: 7.3 Consensus size: 38
66130103 TTATTTATCC
* * *
66130113 AAATTCATATAAGAATATTAAT-TATTAAGAATTTTATT
1 AAATT-ATATAATAATATTGATATATTAATAATTTTATT
* *
66130151 AAATTATATATTTTAAT-TATAATATATTTAATAATAATTATATT
1 AAATTATATA--ATAATAT-TGATATA-TTAATAAT--TT-TATT
* * * * * * *
66130195 AATTTATAT-TTTATAGTATCATATATT-ATGATTTGAGT
1 AAATTATATAATAATA-T-TGATATATTAATAATTTTATT
*
66130233 AAATTCATATAAAAATATTGAT-TATTAATAATTTTATT
1 AAATT-ATATAATAATATTGATATATTAATAATTTTATT
** *
66130271 AAATTATAT-ATTTTAATT-ATATATTTAATAATAATTATGT
1 AAATTATATAATAAT-ATTGATATA-TTAATAAT-TTTAT-T
* * * * * * *
66130311 TAATT-TATATTTATAGTATCATATATT-ATGATTTGAGT
1 AAATTATATAATAATA-T-TGATATATTAATAATTTTATT
*
66130349 AAATTCATATAAGAATATTGAT-TATTAATAATTTTATT
1 AAATT-ATATAATAATATTGATATATTAATAATTTTATT
66130387 AAATTATATA
1 AAATTATATA
66130397 TTTTAATTAT
Statistics
Matches: 185, Mismatches: 36, Indels: 51
0.68 0.13 0.19
Matches are distributed among these distances:
36 4 0.02
37 27 0.15
38 57 0.31
39 25 0.14
40 25 0.14
41 18 0.10
42 7 0.04
43 10 0.05
44 12 0.06
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (38 bp):
AAATTATATAATAATATTGATATATTAATAATTTTATT
Found at i:66130280 original size:37 final size:37
Alignment explanation
Indices: 66130232--66130396 Score: 102
Period size: 37 Copynumber: 4.3 Consensus size: 37
66130222 ATGATTTGAG
66130232 TAAATTCATATAAAAATATTGATTATTAATAATTTTAT
1 TAAATT-ATATAAAAATATTGATTATTAATAATTTTAT
* * * * *
66130270 TAAATTATATATTTTAATTATAT-ATTTAATAATAATTATGT
1 TAAATTATATA---AAAATAT-TGA-TTATTAATAATTTTAT
* * * * * * * *
66130311 TAATTTATATTTATAGTA-TCATATATT-ATGATTTGAG
1 TAAATTATA-TAAAAATATTGAT-TATTAATAATTTTAT
*
66130348 TAAATTCATATAAGAATATTGATTATTAATAATTTTAT
1 TAAATT-ATATAAAAATATTGATTATTAATAATTTTAT
66130386 TAAATTATATA
1 TAAATTATATA
66130397 TTTTAATTAT
Statistics
Matches: 92, Mismatches: 24, Indels: 23
0.66 0.17 0.17
Matches are distributed among these distances:
37 31 0.34
38 29 0.32
39 3 0.03
40 6 0.07
41 22 0.24
42 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (37 bp):
TAAATTATATAAAAATATTGATTATTAATAATTTTAT
Found at i:66130297 original size:12 final size:12
Alignment explanation
Indices: 66130267--66130323 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
66130257 TTAATAATTT
*
66130267 TATTAAATTATA
1 TATTTAATTATA
66130279 TATTTTAATTATA
1 TA-TTTAATTATA
*
66130292 TATTTAATAATAA
1 TATTTAATTAT-A
66130305 TTATGTTAATT-TA
1 -TAT-TTAATTATA
66130318 TATTTA
1 TATTTA
66130324 TAGTATCATA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 3 0.08
12 13 0.34
13 13 0.34
14 4 0.11
15 5 0.13
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TATTTAATTATA
Found at i:66130371 original size:116 final size:120
Alignment explanation
Indices: 66130113--66130430 Score: 572
Period size: 116 Copynumber: 2.7 Consensus size: 120
66130103 TTATTTATCC
* *
66130113 AAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATAT
1 AAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATAT
*
66130178 TTAATAATAATTATATTAATTTATATTTTATAGTATCATATATTATGATTTGAGT
66 TTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGT
*
66130233 AAATTCATATAAAAATATTGATTATTAATAATTTTATTAAATTATATATTTTAA-T-T-ATATAT
1 AAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATAT
66130295 TTAATAATAATTATGTTAATTTATA-TTTATAGTATCATATATTATGATTTGAGT
66 TTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGT
66130349 AAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATAT
1 AAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATAT
66130414 TTAATAATAATTATGTT
66 TTAATAATAATTATGTT
66130431 TAAATATGAT
Statistics
Matches: 190, Mismatches: 5, Indels: 7
0.94 0.02 0.03
Matches are distributed among these distances:
116 82 0.43
117 31 0.16
118 2 0.01
119 24 0.13
120 51 0.27
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATAT
TTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGT
Found at i:66130413 original size:16 final size:16
Alignment explanation
Indices: 66130374--66130433 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
66130364 TATTGATTAT
*
66130374 TAATA-ATTTTATTAAA
1 TAATATATTTTAAT-AA
* *
66130390 TTATATATTTTAATTA
1 TAATATATTTTAATAA
66130406 TAATATA-TTTAATAA
1 TAATATATTTTAATAA
66130421 TAAT-TATGTTTAA
1 TAATATAT-TTTAA
66130434 ATATGATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 16 0.44
17 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATATTTTAATAA
Found at i:66130418 original size:15 final size:15
Alignment explanation
Indices: 66130383--66130424 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
66130373 TTAATAATTT
*
66130383 TATTAAATTAT-ATA
1 TATTTAATTATAATA
66130397 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
66130411 TATTTAATAATAAT
1 TATTTAATTATAAT
66130425 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:66130655 original size:16 final size:16
Alignment explanation
Indices: 66130634--66130669 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
66130624 TTCAACCTAC
*
66130634 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
66130650 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
66130666 TACA
1 TACA
66130670 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:66131708 original size:32 final size:31
Alignment explanation
Indices: 66131671--66131736 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
66131661 AATCAATTCA
66131671 AAATTTTACATACATAACAAATA-TAATTATAT
1 AAATTTTACAT-CATAA-AAATATTAATTATAT
* * *
66131703 AAATTTTAGATTATTAAAATATTAATTATAT
1 AAATTTTACATCATAAAAATATTAATTATAT
66131734 AAA
1 AAA
66131737 AAATTATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 5 0.17
31 15 0.50
32 10 0.33
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (31 bp):
AAATTTTACATCATAAAAATATTAATTATAT
Found at i:66131722 original size:16 final size:16
Alignment explanation
Indices: 66131689--66131742 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
66131679 CATACATAAC
66131689 AAATA-TAATTATAT-
1 AAATATTAATTATATA
*
66131703 AAATTTTAGATTAT-TA
1 AAATATTA-ATTATATA
66131719 AAATATTAATTATATA
1 AAATATTAATTATATA
*
66131735 AAAAATTA
1 AAATATTA
66131743 TGAAAAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.12
15 8 0.24
16 21 0.64
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
AAATATTAATTATATA
Found at i:66146505 original size:29 final size:28
Alignment explanation
Indices: 66146473--66146536 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
66146463 TCAATAAAAA
* *
66146473 TATAAGAAAAATAATATTATTAATATTTT
1 TATAAGAAAAATAAAATT-TAAATATTTT
*
66146502 TATATATGAAATATAAAATTTAAATATTTT
1 TATA-A-GAAAAATAAAATTTAAATATTTT
66146532 T-TAAG
1 TATAAG
66146537 CAATTAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 1 0.03
28 1 0.03
29 6 0.20
30 11 0.37
31 11 0.37
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (28 bp):
TATAAGAAAAATAAAATTTAAATATTTT
Found at i:66147285 original size:5 final size:5
Alignment explanation
Indices: 66147275--66147315 Score: 64
Period size: 5 Copynumber: 7.8 Consensus size: 5
66147265 GACAGCACTT
66147275 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTGC TTTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT-C -TTTTC TTTT
66147316 ACCTAATTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 28 0.82
6 2 0.06
7 4 0.12
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:66150017 original size:25 final size:25
Alignment explanation
Indices: 66149983--66150031 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
66149973 GGATTTTCAC
66149983 AATTCAAGTGCTAAAAATATTATGG
1 AATTCAAGTGCTAAAAATATTATGG
*
66150008 AATTCAAGTGCTACAAATATTATG
1 AATTCAAGTGCTAAAAATATTATG
66150032 AAGGTCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (25 bp):
AATTCAAGTGCTAAAAATATTATGG
Found at i:66150627 original size:22 final size:22
Alignment explanation
Indices: 66150602--66150643 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
66150592 CTGTACAGTG
* * *
66150602 TACATGCATGCATATATATACA
1 TACATACATACATACATATACA
66150624 TACATACATACATACATATA
1 TACATACATACATACATATA
66150644 TGCAGCAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (22 bp):
TACATACATACATACATATACA
Found at i:66152028 original size:50 final size:52
Alignment explanation
Indices: 66151947--66152045 Score: 139
Period size: 50 Copynumber: 1.9 Consensus size: 52
66151937 ACCTTAAATG
* * *
66151947 ACCCAACTGAGATACTCAAAATGATCTTGAATGGACCTAAACCCGAAATGAT
1 ACCCAACTGACATACTCAAAACGATCTTGAATGAACCTAAACCCGAAATGAT
* *
66151999 ACCCAACTGACATA-TCCAAACGATC-TGAATTAACCTAAACCCGAAAT
1 ACCCAACTGACATACTCAAAACGATCTTGAATGAACCTAAACCCGAAAT
66152046 AAAATTATCT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 20 0.48
51 9 0.21
52 13 0.31
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.20
Consensus pattern (52 bp):
ACCCAACTGACATACTCAAAACGATCTTGAATGAACCTAAACCCGAAATGAT
Found at i:66157817 original size:16 final size:18
Alignment explanation
Indices: 66157796--66157832 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
66157786 TATTTAAGAG
66157796 TTCATT-AAATTTA-TTC
1 TTCATTGAAATTTAGTTC
*
66157812 TTCATTGAACTTTAGTTC
1 TTCATTGAAATTTAGTTC
66157830 TTC
1 TTC
66157833 TCATTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 6 0.33
18 6 0.33
ACGTcount: A:0.24, C:0.16, G:0.05, T:0.54
Consensus pattern (18 bp):
TTCATTGAAATTTAGTTC
Found at i:66158607 original size:21 final size:23
Alignment explanation
Indices: 66158581--66158627 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
66158571 ACATTTAGAA
*
66158581 TTTAATCACTTT-ATT-TTTTAT
1 TTTAATCAATTTAATTATTTTAT
*
66158602 TTTAATGAATTTAATTATTTTAT
1 TTTAATCAATTTAATTATTTTAT
66158625 TTT
1 TTT
66158628 TTAGATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 3 0.14
23 9 0.41
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTAATCAATTTAATTATTTTAT
Found at i:66162181 original size:16 final size:18
Alignment explanation
Indices: 66162162--66162194 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
66162152 ATTTAAGTAT
66162162 AATAA-TATTTT-ATTTG
1 AATAATTATTTTGATTTG
66162178 AATAATTATTTTGATTT
1 AATAATTATTTTGATTT
66162195 TTAAATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
AATAATTATTTTGATTTG
Found at i:66165910 original size:28 final size:28
Alignment explanation
Indices: 66165855--66165910 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
66165845 AAAAATAAGG
* * *
66165855 GTATTTTAGTATTTTTAAATTGAGTAGA
1 GTATTTTAATATTTTTAAACTGAATAGA
*
66165883 GTATTTTAATATTTTTTAACTGAATAGA
1 GTATTTTAATATTTTTAAACTGAATAGA
66165911 TTTCTAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (28 bp):
GTATTTTAATATTTTTAAACTGAATAGA
Found at i:66175333 original size:6 final size:6
Alignment explanation
Indices: 66175288--66175315 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
66175278 CAACGTTCAC
66175288 AGGCCG AGGCCG AGGCCG AGGCCG AGGC
1 AGGCCG AGGCCG AGGCCG AGGCCG AGGC
66175316 AGGGGTGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.32, G:0.50, T:0.00
Consensus pattern (6 bp):
AGGCCG
Found at i:66176074 original size:13 final size:12
Alignment explanation
Indices: 66176050--66176083 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
66176040 ATTATATTAA
66176050 ATTATT-TAAAT
1 ATTATTATAAAT
66176061 ATTATTTATAAAT
1 ATTA-TTATAAAT
66176074 ATTATTATAA
1 ATTATTATAA
66176084 TAATTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 8 0.38
13 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTATTATAAAT
Found at i:66176085 original size:24 final size:24
Alignment explanation
Indices: 66176050--66176101 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
66176040 ATTATATTAA
66176050 ATTATTTAAATATTATTT-A-TAAAT
1 ATTATTTAAATA--ATTTAATTAAAT
66176074 ATTA-TTATAATAATTTAATTAAAT
1 ATTATTTA-AATAATTTAATTAAAT
66176098 ATTA
1 ATTA
66176102 AGTACTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 4 0.16
23 4 0.16
24 17 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTATTTAAATAATTTAATTAAAT
Found at i:66179155 original size:234 final size:229
Alignment explanation
Indices: 66178686--66179191 Score: 789
Period size: 234 Copynumber: 2.2 Consensus size: 229
66178676 TCGTGTTCGG
* * *
66178686 TGAAATTAGATGAATTTGAGGCAGTATAATCTCTTGTTTTAATCGAATCTTGTGTTTGCATGATC
1 TGAAATTAGATGACTTTGAGGCAATTTAATCTCTTGTTTTAATCGAATCTTGTGTTTGCATGATC
* *
66178751 ATATAGTCGAGTTTTGTTTGTCAAAGTTTTCCCCCCTTATTTGATAAATTTGATGTTCTATTATT
66 ATATAATCGAGTTTTGTTTGTCAAAGTTTTCCCCCCTTATTTGATAAAATTGATGTTCTATTATT
*
66178816 GGAAAAAAATGATTAGGAAAATGAAAGATGAATAATTGTAGAAAATTCTTTAATTCCGTTGTTTC
131 GGAAAAAAATGATTAGGAAAATGAAAGATGAATAATTGTAGAAAATTCTTTAATTACGTTGTTTC
*
66178881 ATGCTGATCACTGCTTTAAATTAGTAGTGCTAGA
196 ATGCTAATCACTGCTTTAAATTAGTAGTGCTAGA
* * *
66178915 TGAAATTAGATGACTTTGAGGCAATTTAATCTCTTGTTTTGATCTAATGTTGTGTTTGCATGATC
1 TGAAATTAGATGACTTTGAGGCAATTTAATCTCTTGTTTTAATCGAATCTTGTGTTTGCATGATC
* * **
66178980 GTATAATCGAGTTTTGTTTGTCAATGTTCTTTTTCCCCTTATTTGATAAAATTG-TGGTTCTATT
66 ATATAATCGAGTTTTGTTTGTCAAAG-T-TTTCCCCCCTTATTTGATAAAATTGAT-GTTCTATT
*
66179044 ATTGGAAAAAAAATTGATTAGGAAAATGAAAAGATTAATAATTGTAGAAAATTCTTTAATTACGT
128 ATTGG-AAAAAAA-TGATTAGGAAAATG-AAAGATGAATAATTGTAGAAAATTCTTTAATTACGT
*
66179109 TGTTTCATGCTAATCACTGCTTTAAATTAGTAGTGCTAGC
190 TGTTTCATGCTAATCACTGCTTTAAATTAGTAGTGCTAGA
* *
66179149 TGAAATTAGATAACTTTGAGGCAATTTAATCTCTTATTTTAAT
1 TGAAATTAGATGACTTTGAGGCAATTTAATCTCTTGTTTTAAT
66179192 TGAACCCAAG
Statistics
Matches: 252, Mismatches: 19, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
229 82 0.33
230 2 0.01
231 35 0.14
232 7 0.03
233 14 0.06
234 112 0.44
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (229 bp):
TGAAATTAGATGACTTTGAGGCAATTTAATCTCTTGTTTTAATCGAATCTTGTGTTTGCATGATC
ATATAATCGAGTTTTGTTTGTCAAAGTTTTCCCCCCTTATTTGATAAAATTGATGTTCTATTATT
GGAAAAAAATGATTAGGAAAATGAAAGATGAATAATTGTAGAAAATTCTTTAATTACGTTGTTTC
ATGCTAATCACTGCTTTAAATTAGTAGTGCTAGA
Found at i:66179364 original size:209 final size:211
Alignment explanation
Indices: 66178989--66179404 Score: 455
Period size: 209 Copynumber: 2.0 Consensus size: 211
66178979 CGTATAATCG
* * **
66178989 AGTTTTGTTTGTCAATGTTCTTTTTCCCCTTATTTGATAAAATTGTGGTTCTATTATTGGAAAAA
1 AGTTTTGTTTGTCAATGTTATTTTTCCCCTTATTTAATAAAATTGTGGTTAAATTATTGGAAAAA
* * * *
66179054 AAATTGATTAGGAAAATGAAAAGATTAATAATTGTAGAAAATTCTTTAATTACGTTGTTTCATGC
66 AAATTGATCAGGAAAAAGAAAAGATGAATAATTGTAGAAAATTCTTTAATTACGTTGTTCCATGC
* * *
66179119 TAATCACTGCTTTAAATTAGTAGTGCTAGCTGAAATT-AGATAACTTTGAGGCAATTTAATCTCT
131 TAATCACTGCTTTAAACTAGTAGTGCTAGATGAAATTAAG-TAACTTTGAGGCAATTTAATCTAT
*
66179183 TATTTTAATTGAACCCA
195 TATTTTAACTGAACCCA
** ** **
66179200 AGTTTTGTTTGTCAA-GTTATTTTTTTCCTTATTTAATAATTTTGCT-GTTAAATTATT-GATGA
1 AGTTTTGTTTGTCAATGTTATTTTTCCCCTTATTTAATAAAATTG-TGGTTAAATTATTGGAAAA
* * * * * * * *
66179262 AAAATTTATCAGTAAAAAGAGAAGATGAATAATTGTTGAAATTTTTTTAGTTATGTTGTTCCATG
65 AAAATTGATCAGGAAAAAGAAAAGATGAATAATTGTAGAAAATTCTTTAATTACGTTGTTCCATG
* * * ** * **
66179327 -TGGATCACTGCTTTAAACTCGTAGTGTTTTATGAAATTAAGTGACTTTGAGGTGATTTAATCTA
130 CT-AATCACTGCTTTAAACTAGTAGTGCTAGATGAAATTAAGTAACTTTGAGGCAATTTAATCTA
*
66179391 TTGTTTTAACTGAA
194 TTATTTTAACTGAA
66179405 TCTTGTGTTT
Statistics
Matches: 167, Mismatches: 35, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
208 1 0.01
209 116 0.69
210 34 0.20
211 16 0.10
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.44
Consensus pattern (211 bp):
AGTTTTGTTTGTCAATGTTATTTTTCCCCTTATTTAATAAAATTGTGGTTAAATTATTGGAAAAA
AAATTGATCAGGAAAAAGAAAAGATGAATAATTGTAGAAAATTCTTTAATTACGTTGTTCCATGC
TAATCACTGCTTTAAACTAGTAGTGCTAGATGAAATTAAGTAACTTTGAGGCAATTTAATCTATT
ATTTTAACTGAACCCA
Found at i:66179609 original size:233 final size:231
Alignment explanation
Indices: 66179198--66179736 Score: 644
Period size: 233 Copynumber: 2.3 Consensus size: 231
66179188 TAATTGAACC
** * *
66179198 CAAGTTTTGTTTGTCAAGTTATTTTTTTCCTTATTTAATAATTTTGCTGTTAAATTATTGATGAA
1 CAAGTTTTGTTTGTCAAGTT-TTTTTTTTTTTTTTTAATAATTTTGATGTTAAATTATTGATG-A
* * * *
66179263 AAATTT-ATCAGTAAAAAGAGAAGATGAATAATTGTTGAAATTTTTTTAGTTATGTTGTTCCATG
64 AAATTTGATCAGGAAAAAGAAAAGATGAATAATTGTTGAAATTTCTTTAGTTATATTGTTCCATG
** * * *
66179327 TGGATCACTGCTTTAAACTCGTAGTGTTTTATGAAATTAAGTGACTTTGAGGTGATTTA-ATCTA
129 TGGATCACTGCTTTAAACTCGTAGTGTTAGATGAAATTAAGTAACTTTGAGG-CAATTACATCTA
*
66179391 TTGTTTTAA-CTGAATCTTGTGTTTGCATGATCAAATAAT
193 TTGTTTTAATCT-AATCTTCTGTTTGCATGATCAAATAAT
* *
66179430 CAAGTTTTGTTTGTAAAGTTTTTTTTTTTTTTTGCTTGATAATTTTGATGTTAAATTATTGATGA
1 CAAGTTTTGTTTGTCAAGTTTTTTTTTTTTTTT--TTAATAATTTTGATGTTAAATTATTGATGA
* * * *
66179495 AAATTTGATCAGGGAAAAGAAAAGATTAATAGTTGTTGAGAA-TTCTTT-GTTATATTGTTTCAT
64 AAATTTGATCAGGAAAAAGAAAAGATGAATAATTGTTGA-AATTTCTTTAGTTATATTGTTCCAT
*
66179558 GTTGG-TCACTGCTTTAAACTTGGTAGTGTTAGATGAAATT-AGATAACTTTGAGGCAATTACAT
128 G-TGGATCACTGCTTTAAAC-TCGTAGTGTTAGATGAAATTAAG-TAACTTTGAGGCAATTACAT
* *
66179621 CTCTTGTTTTAATCTAATCTTCTGTTTGCATGATCATATAAT
190 CTATTGTTTTAATCTAATCTTCTGTTTGCATGATCAAATAAT
* * * *
66179663 CAAGTTCTTGTCTGCCAAGTTAATTTTTTTTCTTATTTT-ATAATTTTGTTGTTAAATTATTGAT
1 CAAGTT-TTGTTTGTCAAGTT--TTTTTTTT-TTTTTTTAATAATTTTGATGTTAAATTATTGAT
*
66179727 GAAAAATTGA
62 GAAAATTTGA
66179737 GCAAGAGTGA
Statistics
Matches: 265, Mismatches: 29, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
231 10 0.04
232 60 0.23
233 133 0.50
234 48 0.18
235 2 0.01
236 8 0.03
237 4 0.02
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.46
Consensus pattern (231 bp):
CAAGTTTTGTTTGTCAAGTTTTTTTTTTTTTTTTTAATAATTTTGATGTTAAATTATTGATGAAA
ATTTGATCAGGAAAAAGAAAAGATGAATAATTGTTGAAATTTCTTTAGTTATATTGTTCCATGTG
GATCACTGCTTTAAACTCGTAGTGTTAGATGAAATTAAGTAACTTTGAGGCAATTACATCTATTG
TTTTAATCTAATCTTCTGTTTGCATGATCAAATAAT
Found at i:66190008 original size:35 final size:35
Alignment explanation
Indices: 66189935--66190010 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
66189925 ATCAGATTTC
* *
66189935 TATAGCGGTAGGATCAGAGTGAACAGAAGAAGACAA
1 TATA-CGGTAGGATCACAGTGAACAAAAGAAGACAA
* * *
66189971 TATACGGTAGGATCACAGTGCACAAAATAAGAGAA
1 TATACGGTAGGATCACAGTGAACAAAAGAAGACAA
66190006 TATAC
1 TATAC
66190011 TAACTTTACC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
35 31 0.89
36 4 0.11
ACGTcount: A:0.45, C:0.13, G:0.25, T:0.17
Consensus pattern (35 bp):
TATACGGTAGGATCACAGTGAACAAAAGAAGACAA
Found at i:66197249 original size:41 final size:41
Alignment explanation
Indices: 66197191--66197272 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
66197181 AATTATTATC
* *
66197191 CTTTACTTTTATTAAAGTTTGTATGAGTCATTGTACTAGGA
1 CTTTACTTTTATCAAAGTTTGTATAAGTCATTGTACTAGGA
*
66197232 CTTTACTTTTATCAAAGTTTGTATAATTCATTGTACTAGGA
1 CTTTACTTTTATCAAAGTTTGTATAAGTCATTGTACTAGGA
66197273 TTTTTATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (41 bp):
CTTTACTTTTATCAAAGTTTGTATAAGTCATTGTACTAGGA
Found at i:66199649 original size:14 final size:15
Alignment explanation
Indices: 66199630--66199666 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
66199620 TTATTTTTGG
66199630 TAAAAAATAATTT-T
1 TAAAAAATAATTTAT
66199644 TAAAAAATAATTTAAT
1 TAAAAAATAATTT-AT
66199660 TAAAAAA
1 TAAAAAA
66199667 AGCCCCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.62
16 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAAAATAATTTAT
Found at i:66201662 original size:16 final size:16
Alignment explanation
Indices: 66201641--66201675 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
66201631 TCACTTAGGA
66201641 GTTAATCAGATTTGGG
1 GTTAATCAGATTTGGG
66201657 GTTAATCAGATTTGGG
1 GTTAATCAGATTTGGG
66201673 GTT
1 GTT
66201676 TTTAGTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.06, G:0.31, T:0.40
Consensus pattern (16 bp):
GTTAATCAGATTTGGG
Found at i:66202714 original size:218 final size:217
Alignment explanation
Indices: 66202200--66203218 Score: 863
Period size: 218 Copynumber: 4.7 Consensus size: 217
66202190 TGGGTGCTTA
* * * *
66202200 TATATATCATTGTTTTGAGTGATGTAATT-TGTAAAGAATCTATGCTTTTTAGAGGCTTATGATG
1 TATATAGCTTTGTTTTGAGTGATGTAATTAT-TAATGAATCTACGC-TTTTAGAGGCTTATGATG
66202264 ATTAAGAATTGCCTACATTGTCAGACCTTCAGTCTGATGACAACA-AAAAC-TACAAATCTGAGG
64 ATTAAGAATTGCCTACATTGTCAGACCTTCAGTCTGATGA-AA-ATAAAACTTACAAATCTGAGG
* *** * * * **
66202327 CCCAAAGTCAATGGTCATAACTTAAAAACTTATTTTTTGCTGGTGGACCAACCAATTTCATTTTC
127 CCTAAAGTTGCTGGTCATAACTT-AAAACTTA-TTTGTGATGGTGAAAGAACCAATTTCATTTTC
* * *
66202392 T--C--CTTATATCATGCATGTACTCTG
190 TCCCTACTTAAAACATGCATGTAGTCTG
* * * ** *
66202416 TGTATTGCTTTGTTTTGAGTGATGTAATTAGTGAA-GAGCCTATGCTTTTAGAGGCTTATGATGA
1 TATATAGCTTTGTTTTGAGTGATGTAATTA-TTAATGAATCTACGCTTTTAGAGGCTTATGATGA
* * *
66202480 TTAAGAATTGCCTACATTGTCGGACCTTTAGTCTGATGAAAATAGAAA-TTGCAAATCTGAGGCC
65 TTAAGAATTGCCTACATTGTCAGACCTTCAGTCTGATGAAAATA-AAACTTACAAATCTGAGGCC
* *
66202544 TAAAGTTGCCGGTCATAACATAAAACTTATTTGTGATGGTGAAAGAACCAATTTCATTTTCTCCC
129 TAAAGTTGCTGGTCATAACTTAAAACTTATTTGTGATGGTGAAAGAACCAATTTCATTTTCTCCC
*
66202609 TACATTAAAGCATGCATGTAGTCTG
194 TAC-TTAAAACATGCATGTAGTCTG
*
66202634 TATATAGCTTTGTTTTGAGTGATGTAATTATTAATTAATCTACGCTTTTAGAGGCTTATGATGAT
1 TATATAGCTTTGTTTTGAGTGATGTAATTATTAATGAATCTACGCTTTTAGAGGCTTATGATGAT
***
66202699 TAAGAATTGCCTACATTGTCAGACCTTCAGTCTGATGAGGTTAAAACTTACAAATCTGAGGCCTA
66 TAAGAATTGCCTACATTGTCAGACCTTCAGTCTGATGAAAATAAAACTTACAAATCTGAGGCCTA
* * **** * * * * * * *
66202764 AAGTTTCTGGTC--AAGTTATTTGTGATGGTGGTGGTCATGCTTGTTGGGCATGGACCAA--CCG
131 AAGTTGCTGGTCATAACTTAAAACTTAT--T--T-GTGATG---G-T--GAAAGAACCAATTTCA
* **
66202825 TTTTCTCCCTATGTTAAAACATGTGTGTAGTCTG
185 TTTTCTCCCTA-CTTAAAACATGCATGTAGTCTG
* * * * * *
66202859 TATTTGGCTTTGTTTTGAGTGATGTAACTATTAATGAATCTACAGATTTAAGAGGCTCATGATGA
1 TATATAGCTTTGTTTTGAGTGATGTAATTATTAATGAATCTAC-GCTTTTAGAGGCTTATGATGA
* *
66202924 TTAAGAATTGCCTACATTGTCAGACCTTCAGTCTGATGAAATTAAAAGTTACAAATCTGAGGCCT
65 TTAAGAATTGCCTACATTGTCAGACCTTCAGTCTGATGAAAATAAAACTTACAAATCTGAGGCCT
** * **
66202989 AAAGTTGCTGGTTGTAACTTAAAAC----TCG-GA-----CCAG--CCAATTTCATTTTCT-CCT
130 AAAGTTGCTGGTCATAACTTAAAACTTATTTGTGATGGTGAAAGAACCAATTTCATTTTCTCCCT
*
66203041 AATGGTAAAACATGC-TGTA---TG
195 ACT--TAAAACATGCATGTAGTCTG
** * *
66203062 ----TAGCTTTGTTTCCAGTGA--TAATTCTTAATGAATCTACTCTTTTAGAGGCTTATGATGAT
1 TATATAGCTTTGTTTTGAGTGATGTAATTATTAATGAATCTACGCTTTTAGAGGCTTATGATGAT
* * ***
66203121 TAAGAATTGCCTACATTGTCAGATCTGT--GCTCTGATGACAATAAAAGAAACAAAATCTGAGGC
66 TAAGAATTGCCTACATTGTCAGACCT-TCAG-TCTGATGAAAATAAAACTTAC-AAATCTGAGGC
* *
66203184 CTATAGTTGCTGGTCATAACTTAAAAACATATTTG
128 CTAAAGTTGCTGGTCATAACTT-AAAACTTATTTG
66203219 CAACGGACAT
Statistics
Matches: 665, Mismatches: 99, Indels: 92
0.78 0.12 0.11
Matches are distributed among these distances:
195 1 0.00
196 60 0.09
197 48 0.07
198 5 0.01
199 15 0.02
202 2 0.00
203 2 0.00
205 5 0.01
206 8 0.01
207 18 0.03
213 29 0.04
214 11 0.02
215 89 0.13
216 40 0.06
217 9 0.01
218 140 0.21
219 1 0.00
220 1 0.00
221 5 0.01
222 1 0.00
224 1 0.00
225 70 0.11
226 91 0.14
227 8 0.01
228 5 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (217 bp):
TATATAGCTTTGTTTTGAGTGATGTAATTATTAATGAATCTACGCTTTTAGAGGCTTATGATGAT
TAAGAATTGCCTACATTGTCAGACCTTCAGTCTGATGAAAATAAAACTTACAAATCTGAGGCCTA
AAGTTGCTGGTCATAACTTAAAACTTATTTGTGATGGTGAAAGAACCAATTTCATTTTCTCCCTA
CTTAAAACATGCATGTAGTCTG
Found at i:66218787 original size:57 final size:57
Alignment explanation
Indices: 66218726--66218846 Score: 156
Period size: 57 Copynumber: 2.1 Consensus size: 57
66218716 AGTTGGGCCA
* *
66218726 AAAAAAATTTAGGCCCAAATGTG-GTAACAATTGCCAAGTGCAAGTG-CTAACTTGGAC
1 AAAAAAATTCAGGCCCAAATGTGCG-AACAATTGCCAAGTGCAA-TGACTAACTTAGAC
* * * *
66218783 AAAAAAGTTCAGGCCCCAATTTGCGAACAATTGCCAAGTTCAATGACTAACTTAGAC
1 AAAAAAATTCAGGCCCAAATGTGCGAACAATTGCCAAGTGCAATGACTAACTTAGAC
66218840 AAAAAAA
1 AAAAAAA
66218847 AAATTTCAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 2 0.04
57 52 0.95
58 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.21
Consensus pattern (57 bp):
AAAAAAATTCAGGCCCAAATGTGCGAACAATTGCCAAGTGCAATGACTAACTTAGAC
Found at i:66221951 original size:59 final size:59
Alignment explanation
Indices: 66221859--66221977 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
66221849 ATAATTGTTC
66221859 ATTAAAAACGAAAATATGAAATGCAATAACAATATTGACATTATCAATTACATGAAAAA
1 ATTAAAAACGAAAATATGAAATGCAATAACAATATTGACATTATCAATTACATGAAAAA
66221918 ATTAAAAACGAAAATATGAAATGCAATAACAATATTGACATTATCAATTACATGAAAAA
1 ATTAAAAACGAAAATATGAAATGCAATAACAATATTGACATTATCAATTACATGAAAAA
66221977 A
1 A
66221978 ATAGAATCAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.25
Consensus pattern (59 bp):
ATTAAAAACGAAAATATGAAATGCAATAACAATATTGACATTATCAATTACATGAAAAA
Found at i:66228918 original size:13 final size:13
Alignment explanation
Indices: 66228900--66228927 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
66228890 GTGCCATCGA
66228900 TTAACACACTAAT
1 TTAACACACTAAT
66228913 TTAACACACTAAT
1 TTAACACACTAAT
66228926 TT
1 TT
66228928 TTTTTAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (13 bp):
TTAACACACTAAT
Found at i:66229371 original size:2 final size:2
Alignment explanation
Indices: 66229364--66229389 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66229354 ATGCATTGTG
66229364 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
66229390 AAACTATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:66234359 original size:21 final size:21
Alignment explanation
Indices: 66234327--66234367 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
66234317 AATATCAGTT
66234327 TTTAATATTTATAT-TTTTTAA
1 TTTAATATTTAT-TCTTTTTAA
66234348 TTTAAT-TCTTATTCTTTTTA
1 TTTAATAT-TTATTCTTTTTA
66234368 GTTAACTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTAATATTTATTCTTTTTAA
Found at i:66235353 original size:29 final size:30
Alignment explanation
Indices: 66235297--66235365 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
66235287 TTGGTCTTAT
* * * *
66235297 TTGATTTTTTTTAATAGTATAGGGACTAAA
1 TTGATTATATTTAATAGTAAAGGAACTAAA
* *
66235327 TTGA-TATATTTAATAGTAAATGAACTAAT
1 TTGATTATATTTAATAGTAAAGGAACTAAA
66235356 TTGATTATAT
1 TTGATTATAT
66235366 CTCTATAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 23 0.72
30 9 0.28
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (30 bp):
TTGATTATATTTAATAGTAAAGGAACTAAA
Found at i:66235739 original size:8 final size:8
Alignment explanation
Indices: 66235719--66235778 Score: 63
Period size: 8 Copynumber: 7.8 Consensus size: 8
66235709 AAATAAATAT
66235719 ATTTTTTA
1 ATTTTTTA
66235727 A--TTTTA
1 ATTTTTTA
66235733 ATTTTTTA
1 ATTTTTTA
66235741 ATTTTTTA
1 ATTTTTTA
**
66235749 ATTTTAAA
1 ATTTTTTA
*
66235757 ATATTTTTT
1 AT-TTTTTA
66235766 ATTTTTT-
1 ATTTTTTA
66235773 ATTTTT
1 ATTTTT
66235779 AAAACAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
6 6 0.14
7 6 0.14
8 27 0.61
9 5 0.11
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTTTTTA
Found at i:66235771 original size:26 final size:26
Alignment explanation
Indices: 66235732--66235792 Score: 88
Period size: 25 Copynumber: 2.3 Consensus size: 26
66235722 TTTTAATTTT
66235732 AATTTTTTAATTTTTTAATTTTAAAA-
1 AATTTTTT-ATTTTTTAATTTTAAAAC
* *
66235758 TATTTTTTATTTTTTATTTTTAAAAC
1 AATTTTTTATTTTTTAATTTTAAAAC
66235784 AATTTTTTA
1 AATTTTTTA
66235793 ATGTTTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
AATTTTTTATTTTTTAATTTTAAAAC
Found at i:66235779 original size:6 final size:7
Alignment explanation
Indices: 66235718--66235778 Score: 50
Period size: 7 Copynumber: 8.0 Consensus size: 7
66235708 AAAATAAATA
66235718 TATTTTT
1 TATTTTT
*
66235725 TAATTTT
1 TATTTTT
*
66235732 AATTTTT
1 TATTTTT
66235739 TAATTTTT
1 T-ATTTTT
*
66235747 TAATTTTAAAA
1 T-ATTTT---T
66235758 TATTTTT
1 TATTTTT
66235765 TATTTTT
1 TATTTTT
66235772 TATTTTT
1 TATTTTT
66235779 AAAACAATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
7 25 0.57
8 13 0.30
10 5 0.11
11 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TATTTTT
Found at i:66235799 original size:26 final size:25
Alignment explanation
Indices: 66235732--66235801 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 25
66235722 TTTTAATTTT
*
66235732 AATTTTTTAATTTTTTAATTTTAAAA
1 AATTTTTTAA-TTTTTATTTTTAAAA
* *
66235758 TATTTTTTATTTTTTATTTTTAAAA
1 AATTTTTTAATTTTTATTTTTAAAA
*
66235783 CAATTTTTTAATGTTTATT
1 -AATTTTTTAATTTTTATT
66235802 AAAAAATGGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 14 0.38
26 23 0.62
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (25 bp):
AATTTTTTAATTTTTATTTTTAAAA
Found at i:66235821 original size:10 final size:10
Alignment explanation
Indices: 66235808--66235839 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
66235798 TATTAAAAAA
66235808 TGGGCCGGGC
1 TGGGCCGGGC
66235818 TGGGCCGGGC
1 TGGGCCGGGC
66235828 TGGGCTCGGGC
1 TGGGC-CGGGC
66235839 T
1 T
66235840 TATGATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.00, C:0.28, G:0.56, T:0.16
Consensus pattern (10 bp):
TGGGCCGGGC
Found at i:66236727 original size:19 final size:19
Alignment explanation
Indices: 66236703--66236745 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
66236693 TGTGAAGTTT
66236703 ATTGATGAATATTTATATA
1 ATTGATGAATATTTATATA
* *
66236722 ATTGATTAATATTTTTATA
1 ATTGATGAATATTTATATA
*
66236741 TTTGA
1 ATTGA
66236746 AATTTATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (19 bp):
ATTGATGAATATTTATATA
Found at i:66242385 original size:24 final size:24
Alignment explanation
Indices: 66242336--66242386 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
66242326 AAGGTGATTA
*
66242336 TTATTTTTTTTCTTCTCTGTTGTT
1 TTATTTTTTTTCTTCTCTATTGTT
66242360 TTATTTTATTTTCATT-TCTATT-TT
1 TTATTTT-TTTTC-TTCTCTATTGTT
66242384 TTA
1 TTA
66242387 AATATCATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 12 0.50
25 10 0.42
26 2 0.08
ACGTcount: A:0.12, C:0.10, G:0.04, T:0.75
Consensus pattern (24 bp):
TTATTTTTTTTCTTCTCTATTGTT
Found at i:66246113 original size:3 final size:3
Alignment explanation
Indices: 66246105--66246129 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
66246095 AACAATTTAC
66246105 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
66246130 GTAACGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:66247076 original size:21 final size:21
Alignment explanation
Indices: 66247034--66247076 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
66247024 TCCCTTATAG
*
66247034 TCAATTCAATTTTCATTTTTT
1 TCAATTCAATTTTCATTCTTT
*
66247055 TCAATTTAATTTTC-TATCTTT
1 TCAATTCAATTTTCAT-TCTTT
66247076 T
1 T
66247077 GGAAGAGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (21 bp):
TCAATTCAATTTTCATTCTTT
Found at i:66254747 original size:21 final size:21
Alignment explanation
Indices: 66254705--66254747 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
66254695 TCCCTTATAG
*
66254705 TCAATTCAATTTTCATTTTTT
1 TCAATTCAATTTTCATTCTTT
*
66254726 TCAATTTAATTTTC-TATCTTT
1 TCAATTCAATTTTCAT-TCTTT
66254747 T
1 T
66254748 GGAAGAGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (21 bp):
TCAATTCAATTTTCATTCTTT
Found at i:66270104 original size:21 final size:21
Alignment explanation
Indices: 66270062--66270104 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
66270052 TCCCTTATAG
*
66270062 TCAATTCAATTTTCATTTTTT
1 TCAATTCAATTTTCATTCTTT
*
66270083 TCAATTTAATTTTC-TATCTTT
1 TCAATTCAATTTTCAT-TCTTT
66270104 T
1 T
66270105 GGAAGAGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (21 bp):
TCAATTCAATTTTCATTCTTT
Found at i:66277767 original size:21 final size:21
Alignment explanation
Indices: 66277725--66277767 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
66277715 TCCCTTATAG
*
66277725 TCAATTCAATTTTCATTTTTT
1 TCAATTCAATTTTCATTCTTT
*
66277746 TCAATTTAATTTTC-TATCTTT
1 TCAATTCAATTTTCAT-TCTTT
66277767 T
1 T
66277768 GGAAGAGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (21 bp):
TCAATTCAATTTTCATTCTTT
Found at i:66285291 original size:48 final size:50
Alignment explanation
Indices: 66285199--66285296 Score: 128
Period size: 54 Copynumber: 1.9 Consensus size: 50
66285189 ATGACAACTG
* *
66285199 TACTTTGCCAAGTTTCTAAGTTTGGTATTTGTTCTTACTTTCATGACTTTTATT
1 TACTTTGCCAAGTTACTAAGTTTGGTATTTG----TACTCTCATGACTTTTATT
66285253 TACTTTGCCAAGTTACTAAGTTTGGTATTTG-A-TCTCATGACTTT
1 TACTTTGCCAAGTTACTAAGTTTGGTATTTGTACTCTCATGACTTT
66285297 ACCATTTGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
48 11 0.26
49 1 0.02
54 30 0.71
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.50
Consensus pattern (50 bp):
TACTTTGCCAAGTTACTAAGTTTGGTATTTGTACTCTCATGACTTTTATT
Found at i:66289334 original size:13 final size:15
Alignment explanation
Indices: 66289304--66289335 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
66289294 ATATTTCATG
66289304 CATTTCATCAATAAT
1 CATTTCATCAATAAT
66289319 CATTTCAT-AA-AAT
1 CATTTCATCAATAAT
66289332 CATT
1 CATT
66289336 ATTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (15 bp):
CATTTCATCAATAAT
Found at i:66289901 original size:39 final size:39
Alignment explanation
Indices: 66289853--66290035 Score: 222
Period size: 39 Copynumber: 4.4 Consensus size: 39
66289843 AACGGTAGCA
* *
66289853 GTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTG
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC-G
*
66289893 TAATAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCG
1 -----GTAACAGTAACAG------TATTCGACACACAAAGTGCCGAATCG
66289943 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
*
66289982 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
66290021 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
66290036 ACAGTAGTCG
Statistics
Matches: 129, Mismatches: 3, Indels: 18
0.86 0.02 0.12
Matches are distributed among these distances:
39 78 0.60
45 26 0.20
50 1 0.01
51 24 0.19
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (39 bp):
GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
Found at i:66289908 original size:51 final size:51
Alignment explanation
Indices: 66289836--66289957 Score: 190
Period size: 51 Copynumber: 2.4 Consensus size: 51
66289826 AGTAAATAGT
* * *
66289836 AATCAGTAACGGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCGGTAACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
* * *
66289887 AATCTGTAATAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTG
1 AATCGGTAACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
66289938 AATCGGTAACAGTAACAGTA
1 AATCGGTAACAGTAACAGTA
66289958 TTCGACACAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (51 bp):
AATCGGTAACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
Found at i:66293436 original size:23 final size:23
Alignment explanation
Indices: 66293365--66293436 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
66293355 CACCAGCACC
66293365 ACCTGTTTTTGCAGGTGAAAACT
1 ACCTGTTTTTGCAGGTGAAAACT
** ** *
66293388 ACCACATTTGGGCA-GT-AAAGATT
1 ACC-TGTTTTTGCAGGTGAAA-ACT
66293411 ACCTGTTTTTGCAGGTGAAAACT
1 ACCTGTTTTTGCAGGTGAAAACT
66293434 ACC
1 ACC
66293437 ACTGTGGTTG
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
22 9 0.26
23 17 0.49
24 9 0.26
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (23 bp):
ACCTGTTTTTGCAGGTGAAAACT
Found at i:66296851 original size:3 final size:3
Alignment explanation
Indices: 66296843--66296888 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
66296833 AACAATTTAC
66296843 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
66296889 GTAACGCATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:66304178 original size:25 final size:25
Alignment explanation
Indices: 66304149--66304204 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
66304139 AGTCCTTCCA
* *
66304149 TTTTCTCC-TCTTCTTCTTTTCTTCT
1 TTTTCTCCAT-TTCTTCTCTTATTCT
66304174 TTTTCTCCATTTCTTCTCTTATTCT
1 TTTTCTCCATTTCTTCTCTTATTCT
*
66304199 TCTTCT
1 TTTTCT
66304205 TTTTTTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTCTCCATTTCTTCTCTTATTCT
Found at i:66306348 original size:18 final size:20
Alignment explanation
Indices: 66306310--66306349 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
66306300 GTGTTTATAT
*
66306310 TTTTATTAATATAATTTTAA
1 TTTTATTAATATAAATTTAA
66306330 TTTT-TTAAT-TAAATTTAA
1 TTTTATTAATATAAATTTAA
66306348 TT
1 TT
66306350 CTCTTTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 5 0.26
20 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTATTAATATAAATTTAA
Found at i:66307551 original size:27 final size:27
Alignment explanation
Indices: 66307521--66307573 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
66307511 CTCAAATTTG
66307521 CAATTTATTATTCACATGCCAACCAAC
1 CAATTTATTATTCACATGCCAACCAAC
*
66307548 CAATTTATTATTCACGTGCCAACCAA
1 CAATTTATTATTCACATGCCAACCAA
66307574 TTTGTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (27 bp):
CAATTTATTATTCACATGCCAACCAAC
Found at i:66308699 original size:27 final size:27
Alignment explanation
Indices: 66308669--66308761 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 27
66308659 AATTTGCAAT
66308669 TTATTATTCACAAGCCAAACAACCAAA
1 TTATTATTCACAAGCCAAACAACCAAA
66308696 TTATTATTC-CAA--C---CAACCAAA
1 TTATTATTCACAAGCCAAACAACCAAA
* * * *
66308717 TTATTATGCACATGCCAAACAGCCAAT
1 TTATTATTCACAAGCCAAACAACCAAA
*
66308744 TTATTATTCACATGCCAA
1 TTATTATTCACAAGCCAA
66308762 CCAATTTGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
21 16 0.29
22 2 0.04
24 2 0.04
26 3 0.05
27 32 0.58
ACGTcount: A:0.41, C:0.26, G:0.05, T:0.28
Consensus pattern (27 bp):
TTATTATTCACAAGCCAAACAACCAAA
Found at i:66308712 original size:21 final size:21
Alignment explanation
Indices: 66308683--66308723 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
66308673 TATTCACAAG
66308683 CCAAACAACCAAATTATTATT
1 CCAAACAACCAAATTATTATT
*
66308704 CCAACCAACCAAATTATTAT
1 CCAAACAACCAAATTATTAT
66308724 GCACATGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (21 bp):
CCAAACAACCAAATTATTATT
Found at i:66313301 original size:132 final size:132
Alignment explanation
Indices: 66313126--66313450 Score: 526
Period size: 132 Copynumber: 2.5 Consensus size: 132
66313116 GCGAGTTTTG
* * * * **
66313126 TGGTTTAAATTTGCTTC-CCTACTACCTTAGGAAGATAAAATTCACTGTCTTCGATCTGCTCCAC
1 TGGTTTAAATCTGCTTCTCC-ACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCAC
* *
66313190 TACTGCTTAGGGTGACAGAATCCGCAATCTTCAACCTACTCCATTATTGCTTAGGGAGATAAGAC
65 TACTGCTTAGGGTGACAGAATCCGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGAC
66313255 TAA
130 TAA
66313258 TGGTTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACT
1 TGGTTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACT
* * *
66313323 ACTGCTTAGGGTGACAGAATCTGCGATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACT
66 ACTGCTTAGGGTGACAGAATCCGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGACT
66313388 AA
131 AA
*
66313390 TGGTTTAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTC
1 TGGTTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTC
66313451 TACTGCAACT
Statistics
Matches: 180, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 178 0.99
133 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (132 bp):
TGGTTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACT
ACTGCTTAGGGTGACAGAATCCGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGACT
AA
Found at i:66313669 original size:50 final size:50
Alignment explanation
Indices: 66313554--66314790 Score: 741
Period size: 50 Copynumber: 24.8 Consensus size: 50
66313544 TTCGTCGAGG
** * * *
66313554 AAGTAAGATTCGCCGTTGCGGCCTCAATCTTTT-AATTACAATGTC-GAAA
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCTG-GA
* * * *** * *
66313603 AAGCAAGATTCACCGTTGTGGCTTCAATCTTTTCCGCTGCACTGCCTGGA
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCTGGA
* * * * *
66313653 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTACAATGTCAGGG
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCTGGA
* * * *
66313703 AAGTGAGATTTGCCGTCGTAGCTTCAATCTTTTGAATTGCAATG--T-G-
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCTGGA
* * * *** *
66313749 AAGTGAGATTCGCCGTCGTAGCTTCAATCTATTCTGCTGCACTG-CTTGGA
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTC-TGGA
* * * *
66313799 AAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGG
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCTGGA
* * ** *
66313849 AAGCAAGATTCGCCGTTGT-GACTTCAATCTGTTCCGTTGC-ATCGACTGAGA
1 AAGTAAGATTCGCCGTTGTAG-CTTCAATCTTTTCAATTGCAAT-GTCTG-GA
* * * *
66313900 AA-TAAGATTCGCTGTTGT-GACTTCAATCTTTTAAATTACAATGTC-GAGG
1 AAGTAAGATTCGCCGTTGTAG-CTTCAATCTTTTCAATTGCAATGTCTG-GA
* ** * *** * *
66313949 AAGCAAGATTCGTTGTTGT-GACTTCAATCTGTTCCGCTGC-ATCGCCTGGG
1 AAGTAAGATTCGCCGTTGTAG-CTTCAATCTTTTCAATTGCAAT-GTCTGGA
*** * * * * *
66313999 AAGTAAGATTCATTGTTGTGGCTTCAATCTTTTAAATTTCAATGTCGGGG
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCTGGA
* * * * * * * *
66314049 AAGTGAGACTCGCCATCGTAGCTTCAATCTATTCCACTGCACTG-CTTGGA
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTC-TGGA
* * *
66314099 AAGTAAGATTCGCCATTGTAGCTTCAATC-TTTCTAATTGCAATGTCGGGG
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTC-AATTGCAATGTCTGGA
* * ** * * *
66314149 AAGCAAGATTCGCCATTGT-GACTTCAATCTACTCCACTGCAACG-CTAGGA
1 AAGTAAGATTCGCCGTTGTAG-CTTCAATCTTTTCAATTGCAATGTCT-GGA
* ** * * * *
66314199 AAGTAAGATCCGTTGTTGTAGCTTCAATCTTTTTAATTGTAATGTCAGGG
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCTGGA
* * * * * *
66314249 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTAGGA
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCT-GGA
* * * *
66314299 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTT-AATTGCAATGTCAGGG
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTT-TTCAATTGCAATGTCTGGA
* * * *
66314349 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTT-AATTGCAATGTCAGGG
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTT-TTCAATTGCAATGTCTGGA
* * * * * ** *
66314399 AAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCCACAGCAACG-CTAGGA
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCT-GGA
* * * * * * *
66314449 AAGTAAGATCCGCTGTTATAGCTTCAATCTTTTAAATTACAATGTCAGGG
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCTGGA
* ** * * * * *
66314499 AATTAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTACAACG-CTAGGA
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCT-GGA
** * *
66314549 AAGTAAGA-TCTGCTATTGTAGCTTCAATCTTCTT-AATTGCAATGTCAGGG
1 AAGTAAGATTC-GCCGTTGTAGCTTCAATCTT-TTCAATTGCAATGTCTGGA
* * * * * * *
66314599 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGTAACG-CTAGGA
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCT-GGA
** * *
66314649 AAGTAAGA-TCTGCTATTGTAGCTTCAATCTTCTT-AATTGCAATGTCAGGG
1 AAGTAAGATTC-GCCGTTGTAGCTTCAATCTT-TTCAATTGCAATGTCTGGA
* * * * * * *
66314699 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTATGA
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCT-GGA
* * *
66314749 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAA
1 AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAA
66314791 ACTATGGTTT
Statistics
Matches: 930, Mismatches: 215, Indels: 85
0.76 0.17 0.07
Matches are distributed among these distances:
46 37 0.04
47 1 0.00
48 1 0.00
49 60 0.06
50 803 0.86
51 28 0.03
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (50 bp):
AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCTGGA
Found at i:66317269 original size:15 final size:16
Alignment explanation
Indices: 66317249--66317290 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
66317239 TGACCTCTCC
66317249 TTTTTC-TTTTTCTTT
1 TTTTTCTTTTTTCTTT
66317264 TTTTTCTTTTTTC-TT
1 TTTTTCTTTTTTCTTT
*
66317279 TTTCTCTTTTTT
1 TTTTTCTTTTTT
66317291 TCTATTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:66317273 original size:8 final size:8
Alignment explanation
Indices: 66317249--66317341 Score: 68
Period size: 8 Copynumber: 11.6 Consensus size: 8
66317239 TGACCTCTCC
66317249 TTTTTCTT
1 TTTTTCTT
*
66317257 TTTCT-TT
1 TTTTTCTT
66317264 TTTTTC-T
1 TTTTTCTT
66317271 TTTTTCTT
1 TTTTTCTT
*
66317279 TTTCTCTT
1 TTTTTCTT
66317287 TTTTTCTAT
1 TTTTTCT-T
**
66317296 TTTGACTT
1 TTTTTCTT
66317304 TGATTTT-TT
1 T--TTTTCTT
66317313 TTTATT-TT
1 TTT-TTCTT
*
66317321 TTTTTATT
1 TTTTTCTT
*
66317329 TTTTTATT
1 TTTTTCTT
66317337 TTTTT
1 TTTTT
66317342 TTGAGTCTGA
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
7 17 0.24
8 42 0.60
9 9 0.13
10 2 0.03
ACGTcount: A:0.06, C:0.09, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:66317276 original size:22 final size:23
Alignment explanation
Indices: 66317249--66317298 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
66317239 TGACCTCTCC
66317249 TTTTTCTTTTTCT-TTTTTTTCT
1 TTTTTCTTTTTCTCTTTTTTTCT
66317271 TTTTTCTTTTTCTCTTTTTTTCT
1 TTTTTCTTTTTCTCTTTTTTTCT
*
66317294 ATTTT
1 TTTTT
66317299 GACTTTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTCTTTTTCTCTTTTTTTCT
Found at i:66317298 original size:7 final size:6
Alignment explanation
Indices: 66317248--66317288 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
66317238 TTGACCTCTC
*
66317248 CTTTTT CTTTTT CTTTTT -TTTCT -TTTTT CTTTTT CTCTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT-TTTT
66317289 TTTCTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
5 8 0.26
6 19 0.61
7 4 0.13
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:66317332 original size:18 final size:18
Alignment explanation
Indices: 66317309--66317343 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
66317299 GACTTTGATT
66317309 TTTTTTTATTTTTTTTTA
1 TTTTTTTATTTTTTTTTA
66317327 TTTTTTTATTTTTTTTT
1 TTTTTTTATTTTTTTTT
66317344 GAGTCTGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (18 bp):
TTTTTTTATTTTTTTTTA
Found at i:66318093 original size:17 final size:18
Alignment explanation
Indices: 66318061--66318097 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
66318051 TCTGCACAGT
66318061 ATGATTATGAATGAAAGA
1 ATGATTATGAATGAAAGA
*
66318079 ATGATT-TGGATGAAAGA
1 ATGATTATGAATGAAAGA
66318096 AT
1 AT
66318098 AAAAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (18 bp):
ATGATTATGAATGAAAGA
Found at i:66322373 original size:14 final size:14
Alignment explanation
Indices: 66322354--66322392 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
66322344 CTGTCGGCTT
*
66322354 TAGCGCTACCGCCG
1 TAGCGCCACCGCCG
66322368 TAGCGCCACCGCCG
1 TAGCGCCACCGCCG
66322382 TAGCGCCACCG
1 TAGCGCCACCG
66322393 TAGACGGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.15, C:0.46, G:0.28, T:0.10
Consensus pattern (14 bp):
TAGCGCCACCGCCG
Found at i:66322657 original size:25 final size:20
Alignment explanation
Indices: 66322609--66322646 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
66322599 AAAAAGTTAT
66322609 AGAAAATAAACAAAAAAGGA
1 AGAAAATAAACAAAAAAGGA
66322629 AGAAAATAAACAAAAAAG
1 AGAAAATAAACAAAAAAG
66322647 AAACGCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.76, C:0.05, G:0.13, T:0.05
Consensus pattern (20 bp):
AGAAAATAAACAAAAAAGGA
Found at i:66325898 original size:51 final size:51
Alignment explanation
Indices: 66325822--66325957 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 51
66325812 GATGAACACG
* * *
66325822 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAA-ATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAGAAGAT-ATGGTCACA
* * * * * *
66325873 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGGTTACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAGAAGATATGGTCACA
*
66325924 TGTGTAGTACTTTGTGAAGGCTACTACGTGTACC
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACC
66325958 AGACTGATAG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 71 0.99
52 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAGAAGATATGGTCACA
Found at i:66326038 original size:48 final size:48
Alignment explanation
Indices: 66325977--66326148 Score: 229
Period size: 48 Copynumber: 3.6 Consensus size: 48
66325967 GGTCGCATAT
*
66325977 GTGGCACGGACTGTGTGCAGGCCACCGATATTCTGTTATGATACAAGA
1 GTGGCACGGACTGTGTGCAGGCCACCGATAATCTGTTATGATACAAGA
* *
66326025 GTGGCACGGACTGTGTGCAGGCCACCGATAACCTGTTATGATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCGATAATCTGTTATGATACAAGA
* * * * *
66326073 GTGGCACGGACTATGTGCAGGCCACCGAGAATCTATTATTACACAA-A
1 GTGGCACGGACTGTGTGCAGGCCACCGATAATCTGTTATGATACAAGA
* * *
66326120 GGTGGTACGCATTGTGTGCAGGCCACCGA
1 -GTGGCACGGACTGTGTGCAGGCCACCGA
66326149 AAAATCTATT
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
48 109 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (48 bp):
GTGGCACGGACTGTGTGCAGGCCACCGATAATCTGTTATGATACAAGA
Found at i:66330703 original size:14 final size:14
Alignment explanation
Indices: 66330684--66330711 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66330674 AAGTCCAAGA
66330684 CAGAATCAGATAAG
1 CAGAATCAGATAAG
66330698 CAGAATCAGATAAG
1 CAGAATCAGATAAG
66330712 TAGACTCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (14 bp):
CAGAATCAGATAAG
Found at i:66345184 original size:11 final size:11
Alignment explanation
Indices: 66345170--66345195 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
66345160 TTTCTTGTTG
66345170 TTTTCTCCCTA
1 TTTTCTCCCTA
66345181 TTTTCTCCCTA
1 TTTTCTCCCTA
66345192 TTTT
1 TTTT
66345196 ACTATTATGT
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:0.08, C:0.31, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTCTCCCTA
Found at i:66345293 original size:30 final size:30
Alignment explanation
Indices: 66345258--66345317 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
66345248 TATTTTATTA
66345258 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
*
66345288 TTAATTTTGTTATTATTTTAGAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
66345318 CTTGTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:66357072 original size:21 final size:22
Alignment explanation
Indices: 66357043--66357089 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
66357033 CAGAAGGAGT
*
66357043 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
66357065 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
66357086 GAGT
1 GAGT
66357090 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:66358066 original size:7 final size:7
Alignment explanation
Indices: 66358028--66358064 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
66358018 CAAGCTACAA
66358028 TTTCTCT
1 TTTCTCT
66358035 TTTCTCT
1 TTTCTCT
66358042 TTTCTCT
1 TTTCTCT
66358049 TTTCT-T
1 TTTCTCT
*
66358055 TTTTTCT
1 TTTCTCT
66358062 TTT
1 TTT
66358065 TTGTTGTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTCTCT
Found at i:66360654 original size:21 final size:21
Alignment explanation
Indices: 66360614--66360654 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
66360604 CCTTATAGTC
*
66360614 AATTTAATTTTCATTTTTTTT
1 AATTTAATTTTCATTCTTTTT
66360635 AATTTAATTTTC-TATCTTTT
1 AATTTAATTTTCAT-TCTTTT
66360655 GGAAGAGTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.68
Consensus pattern (21 bp):
AATTTAATTTTCATTCTTTTT
Found at i:66372469 original size:21 final size:21
Alignment explanation
Indices: 66372443--66372483 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66372433 AGACGAGCAA
* *
66372443 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
66372464 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
66372484 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:66377967 original size:9 final size:9
Alignment explanation
Indices: 66377953--66377982 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
66377943 ATAAGTATTG
66377953 AAATTTTCA
1 AAATTTTCA
66377962 AAATTTTCA
1 AAATTTTCA
66377971 AAATTTTCA
1 AAATTTTCA
66377980 AAA
1 AAA
66377983 CTTGCCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (9 bp):
AAATTTTCA
Found at i:66379190 original size:17 final size:18
Alignment explanation
Indices: 66379164--66379197 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
66379154 GAAAAATAAG
*
66379164 AGAAATGGA-GAAGAAGA
1 AGAAAAGGAGGAAGAAGA
66379181 AGAAAAGGAGGAAGAAG
1 AGAAAAGGAGGAAGAAG
66379198 GGAAAATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (18 bp):
AGAAAAGGAGGAAGAAGA
Found at i:66379284 original size:103 final size:101
Alignment explanation
Indices: 66379107--66379290 Score: 323
Period size: 103 Copynumber: 1.8 Consensus size: 101
66379097 TTGGACAAGT
66379107 AGTCAAAGGGTCAAAAAGAAAAAAAGATGATTAGTTAAGGGTAAAAAGAAAAATAAGAGAAATGG
1 AGTCAAAGGGTCAAAAAGAAAAAAAGATGATTAGTTAAGGGTAAAAAGAAAAATAAGAGAAATGG
*
66379172 AGAAGAAGAAGAAAAGGAGGAAGAAGGGAAAATGGA
66 AAAAGAAGAAGAAAAGGAGGAAGAAGGGAAAATGGA
* *
66379208 AGTCAAAGGGTCAAAAAGAAAAGAAAAGATGATTGGTTAAGGGTAAAAAGGAAAATAAGAGAAAT
1 AGTCAAAGGGTCAAAAAG-AAA-AAAAGATGATTAGTTAAGGGTAAAAAGAAAAATAAGAGAAAT
66379273 GGAAAAGAAGAAGAAAAG
64 GGAAAAGAAGAAGAAAAG
66379291 AAGAACAGGG
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
101 18 0.23
102 3 0.04
103 57 0.73
ACGTcount: A:0.58, C:0.02, G:0.29, T:0.11
Consensus pattern (101 bp):
AGTCAAAGGGTCAAAAAGAAAAAAAGATGATTAGTTAAGGGTAAAAAGAAAAATAAGAGAAATGG
AAAAGAAGAAGAAAAGGAGGAAGAAGGGAAAATGGA
Found at i:66379445 original size:25 final size:25
Alignment explanation
Indices: 66379416--66379471 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
66379406 AGTCCTTCCA
* *
66379416 TTTTCTCC-TCTTCTTCTTTTCTTCT
1 TTTTCTCCAT-TTCTTCTCTTATTCT
66379441 TTTTCTCCATTTCTTCTCTTATTCT
1 TTTTCTCCATTTCTTCTCTTATTCT
*
66379466 TCTTCT
1 TTTTCT
66379472 TTTTTTTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTCTCCATTTCTTCTCTTATTCT
Found at i:66381318 original size:21 final size:21
Alignment explanation
Indices: 66381292--66381335 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
66381282 ATTCGCTAAT
**
66381292 TCGCCACTGCTGAGTTGGACG
1 TCGCCACTGCTGAGAGGGACG
66381313 TCGCCACTGCTGAGAGGGACG
1 TCGCCACTGCTGAGAGGGACG
66381334 TC
1 TC
66381336 CGTGCACCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (21 bp):
TCGCCACTGCTGAGAGGGACG
Found at i:66384710 original size:27 final size:26
Alignment explanation
Indices: 66384640--66384713 Score: 86
Period size: 21 Copynumber: 3.0 Consensus size: 26
66384630 CTCAAATTTG
*
66384640 CAATTTATTATTCACATGCCAAACAAC
1 CAATTTATTATTCAC-TGCCAACCAAC
66384667 CAATTTATTA-T---T-CCAACCAAC
1 CAATTTATTATTCACTGCCAACCAAC
66384688 CAATTTATTATTCACGTGCCAACCAA
1 CAATTTATTATTCAC-TGCCAACCAA
66384714 TTTGTTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
21 18 0.45
22 2 0.05
26 2 0.05
27 18 0.45
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (26 bp):
CAATTTATTATTCACTGCCAACCAAC
Found at i:66385474 original size:63 final size:63
Alignment explanation
Indices: 66385375--66385502 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
66385365 CTAAATGACT
66385375 TAAAACTTACCTAAAACATGCTAAGTAAGTTCAAACATATCATTTCAATTCCATAGAAATTCA
1 TAAAACTTACCTAAAACATGCTAAGTAAGTTCAAACATATCATTTCAATTCCATAGAAATTCA
*
66385438 TAAAACTTACCTAAAACATGCTAAGTAAGTTCAAACATATCATTTCAATTCCATAGCAATTCA
1 TAAAACTTACCTAAAACATGCTAAGTAAGTTCAAACATATCATTTCAATTCCATAGAAATTCA
66385501 TA
1 TA
66385503 TTACCATTTC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (63 bp):
TAAAACTTACCTAAAACATGCTAAGTAAGTTCAAACATATCATTTCAATTCCATAGAAATTCA
Found at i:66393933 original size:24 final size:24
Alignment explanation
Indices: 66393870--66393921 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
66393860 TTTCTAGAAG
* * *
66393870 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
66393894 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
66393918 ATTT
1 ATTT
66393922 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:66398350 original size:24 final size:24
Alignment explanation
Indices: 66398317--66398366 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
66398307 TTCTAGAAAT
* *
66398317 TTTAGTATTTATGAGTATAATATA
1 TTTAGCATTTATGAGCATAATATA
*
66398341 TTTAGCATTTATTAGCATAATATA
1 TTTAGCATTTATGAGCATAATATA
66398365 TT
1 TT
66398367 CGACTTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
TTTAGCATTTATGAGCATAATATA
Found at i:66400268 original size:14 final size:14
Alignment explanation
Indices: 66400249--66400280 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
66400239 AAGACTAGTG
*
66400249 TTACGGAAAATGGC
1 TTACGGAAAATGAC
66400263 TTACGGAAAATGAC
1 TTACGGAAAATGAC
66400277 TTAC
1 TTAC
66400281 TTTTCTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (14 bp):
TTACGGAAAATGAC
Found at i:66400884 original size:31 final size:29
Alignment explanation
Indices: 66400828--66400914 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 29
66400818 ATAATATGTG
66400828 AATAATATTAT-TTAA-AATTACTATTAAAAT
1 AATAA-ATTATATTAATAATT--TATTAAAAT
*
66400858 AA-AATTTAAATATTAAATAATTTATTAAAAAT
1 AATAAATT--ATATT-AATAATTTATT-AAAAT
66400890 AATAAATTATATTAATAATTTATTA
1 AATAAATTATATTAATAATTTATTA
66400915 TATGACTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
28 2 0.04
29 3 0.06
30 15 0.31
31 11 0.23
32 9 0.19
33 8 0.17
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (29 bp):
AATAAATTATATTAATAATTTATTAAAAT
Found at i:66404120 original size:26 final size:26
Alignment explanation
Indices: 66404091--66404145 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
66404081 ACTAAAGTAA
* *
66404091 AAACATATTTATATTAGGATTTACAG
1 AAACATATTTATATCAAGATTTACAG
66404117 AAACATATTTATATCAAGATTTACAG
1 AAACATATTTATATCAAGATTTACAG
66404143 AAA
1 AAA
66404146 TAGAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (26 bp):
AAACATATTTATATCAAGATTTACAG
Found at i:66407531 original size:21 final size:21
Alignment explanation
Indices: 66407505--66407547 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
66407495 CTCAAATTTG
66407505 CCAACCAACCAATATATCATT
1 CCAACCAACCAATATATCATT
* *
66407526 CCAACCAACCAATTTATTATT
1 CCAACCAACCAATATATCATT
66407547 C
1 C
66407548 ACATTCCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.28
Consensus pattern (21 bp):
CCAACCAACCAATATATCATT
Found at i:66408387 original size:23 final size:25
Alignment explanation
Indices: 66408337--66408392 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
66408327 CTCAAATTTG
66408337 CAATTTATTATTCACATGCCAAACAAC
1 CAATTTATTATTCACATGCC--ACAAC
*
66408364 CAATTTATTATTCACGTG-C-CAAC
1 CAATTTATTATTCACATGCCACAAC
66408387 CAATTT
1 CAATTT
66408393 GTTTTATCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 10 0.36
26 1 0.04
27 17 0.61
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (25 bp):
CAATTTATTATTCACATGCCACAAC
Found at i:66409156 original size:63 final size:63
Alignment explanation
Indices: 66409052--66409179 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
66409042 CTAAATGACT
*
66409052 TAAAACTTACCTAAAACATGCTAAGTAAGTTCAAACGTATCATTTCAATTCCATAGAAATTCA
1 TAAAACTTACCTAAAACATGCTAAGTAAGTTCAAACATATCATTTCAATTCCATAGAAATTCA
*
66409115 TAAAACTTACCTAAAACATGCTAAGTAAGTTCAAACATATCATTTCAATTCCATAGCAATTCA
1 TAAAACTTACCTAAAACATGCTAAGTAAGTTCAAACATATCATTTCAATTCCATAGAAATTCA
66409178 TA
1 TA
66409180 TTACCATTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (63 bp):
TAAAACTTACCTAAAACATGCTAAGTAAGTTCAAACATATCATTTCAATTCCATAGAAATTCA
Found at i:66410278 original size:49 final size:49
Alignment explanation
Indices: 66410225--66410331 Score: 133
Period size: 49 Copynumber: 2.2 Consensus size: 49
66410215 CATGAAGATG
* * * *
66410225 ATTTTTAAACACCATGTTAATTGTTTATGGGCCATCATGTTTGACGATA
1 ATTTTTAAACACCATGTTAATTGTATATAGGACATCATGTTTGACAATA
* * * * *
66410274 ATTTTTAAATACCTTGTTAATTGTATATAGTACATCATGTTTGGCAATG
1 ATTTTTAAACACCATGTTAATTGTATATAGGACATCATGTTTGACAATA
66410323 ATTTTTAAA
1 ATTTTTAAA
66410332 GACTTTTAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (49 bp):
ATTTTTAAACACCATGTTAATTGTATATAGGACATCATGTTTGACAATA
Found at i:66412262 original size:27 final size:26
Alignment explanation
Indices: 66412232--66412302 Score: 89
Period size: 21 Copynumber: 2.9 Consensus size: 26
66412222 CTCAAATTTG
66412232 CAATTTATTATTCACAAGCCAAACAAC
1 CAATTTATTATTCACAAGCC-AACAAC
66412259 CAATTTATTATTC-CAA--C--CAAC
1 CAATTTATTATTCACAAGCCAACAAC
*
66412280 CAATTTATTATTCACATGCCAAC
1 CAATTTATTATTCACAAGCCAAC
66412303 CAATTTGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
21 17 0.45
22 2 0.05
24 2 0.05
26 4 0.11
27 13 0.34
ACGTcount: A:0.39, C:0.27, G:0.03, T:0.31
Consensus pattern (26 bp):
CAATTTATTATTCACAAGCCAACAAC
Found at i:66412279 original size:21 final size:21
Alignment explanation
Indices: 66412250--66412308 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 21
66412240 TATTCACAAG
*
66412250 CCAAACAACCAATTTATTATT
1 CCAACCAACCAATTTATTATT
66412271 CCAACCAACCAATTTATTATT
1 CCAACCAACCAATTTATTATT
*
66412292 CACATGCCAACCAATTT
1 C-CA-ACCAACCAATTT
66412309 GTTTTATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 21 0.62
22 2 0.06
23 11 0.32
ACGTcount: A:0.39, C:0.29, G:0.02, T:0.31
Consensus pattern (21 bp):
CCAACCAACCAATTTATTATT
Found at i:66414787 original size:3 final size:3
Alignment explanation
Indices: 66414741--66414772 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
66414731 TAAGAGAAAT
66414741 GAA GAA GAA GAA GAA GAA GAA GAA -AA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
66414773 CAGGGAAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:66415028 original size:17 final size:18
Alignment explanation
Indices: 66415006--66415053 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
66414996 AGTCCTTCCA
*
66415006 TTTTCTCCTTTTCTTCT-
1 TTTTCTCCTTTTATTCTC
*
66415023 TTTTCTCCATTTATTCTC
1 TTTTCTCCTTTTATTCTC
*
66415041 TTATTCTTCTTTT
1 TT-TTCTCCTTTT
66415054 TTTTTTGTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 15 0.60
18 2 0.08
19 8 0.32
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTCTCCTTTTATTCTC
Found at i:66417076 original size:24 final size:24
Alignment explanation
Indices: 66417049--66417100 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
66417039 TTAGTAAGTC
*
66417049 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
66417073 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
66417097 AAAT
1 AAAT
66417101 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:66419043 original size:24 final size:24
Alignment explanation
Indices: 66419016--66419067 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
66419006 TTAGTAAGTC
*
66419016 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
66419040 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
66419064 AAAT
1 AAAT
66419068 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:66422170 original size:25 final size:25
Alignment explanation
Indices: 66422141--66422196 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
66422131 AGTCCTTCCA
* *
66422141 TTTTCTCC-TCTTCTTCTTTTCTTCT
1 TTTTCTCCAT-TTCTTCTCTTATTCT
66422166 TTTTCTCCATTTCTTCTCTTATTCT
1 TTTTCTCCATTTCTTCTCTTATTCT
*
66422191 TCTTCT
1 TTTTCT
66422197 TTTTTTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTCTCCATTTCTTCTCTTATTCT
Found at i:66424340 original size:18 final size:20
Alignment explanation
Indices: 66424302--66424341 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
66424292 GTGTTTATAT
*
66424302 TTTTATTAATATAATTTTAA
1 TTTTATTAATATAAATTTAA
66424322 TTTT-TTAAT-TAAATTTAA
1 TTTTATTAATATAAATTTAA
66424340 TT
1 TT
66424342 CTCTTTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 5 0.26
20 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTATTAATATAAATTTAA
Found at i:66425543 original size:27 final size:27
Alignment explanation
Indices: 66425513--66425565 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
66425503 CTCAAATTTG
66425513 CAATTTATTATTCACATGCCAACCAAC
1 CAATTTATTATTCACATGCCAACCAAC
*
66425540 CAATTTATTATTCACGTGCCAACCAA
1 CAATTTATTATTCACATGCCAACCAA
66425566 TTTGTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (27 bp):
CAATTTATTATTCACATGCCAACCAAC
Found at i:66426433 original size:27 final size:26
Alignment explanation
Indices: 66426403--66426473 Score: 89
Period size: 21 Copynumber: 2.9 Consensus size: 26
66426393 CTCAAATTCA
66426403 CAATTTATTATTCACAAGCCAAACAAC
1 CAATTTATTATTCACAAGCC-AACAAC
66426430 CAATTTATTATTC-CAA--C--CAAC
1 CAATTTATTATTCACAAGCCAACAAC
*
66426451 CAATTTATTATTCACATGCCAAC
1 CAATTTATTATTCACAAGCCAAC
66426474 CAATTTGCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
21 17 0.45
22 2 0.05
24 2 0.05
26 4 0.11
27 13 0.34
ACGTcount: A:0.39, C:0.27, G:0.03, T:0.31
Consensus pattern (26 bp):
CAATTTATTATTCACAAGCCAACAAC
Found at i:66426450 original size:21 final size:21
Alignment explanation
Indices: 66426421--66426479 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 21
66426411 TATTCACAAG
*
66426421 CCAAACAACCAATTTATTATT
1 CCAACCAACCAATTTATTATT
66426442 CCAACCAACCAATTTATTATT
1 CCAACCAACCAATTTATTATT
*
66426463 CACATGCCAACCAATTT
1 C-CA-ACCAACCAATTT
66426480 GCTTTATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 21 0.62
22 2 0.06
23 11 0.32
ACGTcount: A:0.39, C:0.29, G:0.02, T:0.31
Consensus pattern (21 bp):
CCAACCAACCAATTTATTATT
Found at i:66428083 original size:58 final size:57
Alignment explanation
Indices: 66428006--66428139 Score: 171
Period size: 58 Copynumber: 2.3 Consensus size: 57
66427996 AACGAACTTT
* * **
66428006 CTCACACAAGTTGATTTTATAT-TAGAATTGTTCACACAAGTTGACTTTGTAATAATTG
1 CTCACACAAGCTGACTTTATATATAGAATTGTTCACACAACCTGACTTTGTAA-AA-TG
* * *
66428064 CTCACACAAGCTAACTTTATATAATGGAATTGTTCACACATCCTGACTTTGTAAAATG
1 CTCACACAAGCTGACTTTATAT-ATAGAATTGTTCACACAACCTGACTTTGTAAAATG
66428122 CTCACACAAGCTGACTTT
1 CTCACACAAGCTGACTTT
66428140 GTAATACTTC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
58 38 0.58
59 2 0.03
60 26 0.39
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (57 bp):
CTCACACAAGCTGACTTTATATATAGAATTGTTCACACAACCTGACTTTGTAAAATG
Found at i:66428135 original size:26 final size:28
Alignment explanation
Indices: 66428006--66428143 Score: 109
Period size: 30 Copynumber: 4.8 Consensus size: 28
66427996 AACGAACTTT
* * *
66428006 CTCACACAAGTTGATTTTATATTAGAATTG
1 CTCACACAAGCTGACTTTGTA--AGAATTG
* * *
66428036 TTCACACAAGTTGACTTTGTAATAATTG
1 CTCACACAAGCTGACTTTGTAAGAATTG
* *
66428064 CTCACACAAGCTAACTTTATATAATGGAATTG
1 CTCACACAAGCTGAC-TT-TGTAA--GAATTG
* **
66428096 TTCACACATCCTGACTTTGTAA-AA-TG
1 CTCACACAAGCTGACTTTGTAAGAATTG
66428122 CTCACACAAGCTGACTTTGTAA
1 CTCACACAAGCTGACTTTGTAA
66428144 TACTTCCATA
Statistics
Matches: 87, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
26 21 0.24
27 2 0.02
28 18 0.21
29 2 0.02
30 26 0.30
31 2 0.02
32 16 0.18
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (28 bp):
CTCACACAAGCTGACTTTGTAAGAATTG
Found at i:66430282 original size:11 final size:10
Alignment explanation
Indices: 66430260--66430308 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
66430250 GGCCCACTCG
66430260 TTTT-AATTT
1 TTTTAAATTT
66430269 TTTTAAATTT
1 TTTTAAATTT
66430279 TTTTAAATTT
1 TTTTAAATTT
*
66430289 TTTTAATATAAT
1 TTTTAA-AT-TT
66430301 TTTTAAAT
1 TTTTAAAT
66430309 ATATATGATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 4 0.11
10 21 0.58
11 4 0.11
12 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:66432769 original size:21 final size:21
Alignment explanation
Indices: 66432743--66432795 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
66432733 CGACACATAA
66432743 GTGCCTGAAATGACACACGAG
1 GTGCCTGAAATGACACACGAG
66432764 GTGCCT-AATATGACACACGAG
1 GTGCCTGAA-ATGACACACGAG
66432785 GTGCCTGAAAT
1 GTGCCTGAAAT
66432796 ACGCAAAGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (21 bp):
GTGCCTGAAATGACACACGAG
Found at i:66432912 original size:17 final size:18
Alignment explanation
Indices: 66432880--66432913 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66432870 TAATAGGGTA
66432880 TTTCAATTCTCAATTCAC
1 TTTCAATTCTCAATTCAC
*
66432898 TTTCATTTC-CAATTCA
1 TTTCAATTCTCAATTCA
66432914 ATATCACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTCAATTCTCAATTCAC
Found at i:66432925 original size:24 final size:22
Alignment explanation
Indices: 66432889--66432935 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
66432879 ATTTCAATTC
* *
66432889 TCAATTCACTTTCATTTCCAAT
1 TCAATTCACTTTCAATTACAAT
66432911 TCAATATCACTTTTCAATTACAAT
1 TCAAT-TCAC-TTTCAATTACAAT
66432935 T
1 T
66432936 TCTCATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 4 0.19
24 12 0.57
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (22 bp):
TCAATTCACTTTCAATTACAAT
Found at i:66433001 original size:16 final size:17
Alignment explanation
Indices: 66432975--66433008 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
66432965 GTACATACAC
66432975 ATTCATCATTCAATTCA
1 ATTCATCATTCAATTCA
*
66432992 ATTC-TCATTCATTTCA
1 ATTCATCATTCAATTCA
66433008 A
1 A
66433009 AATCAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTCATCATTCAATTCA
Found at i:66433697 original size:17 final size:18
Alignment explanation
Indices: 66433669--66433702 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
66433659 AATTTCTATT
66433669 CAATTTATATCCTAATTC
1 CAATTTATATCCTAATTC
66433687 CAATTTA-ATCCTAATT
1 CAATTTATATCCTAATT
66433703 AACTCATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTATATCCTAATTC
Found at i:66434148 original size:14 final size:15
Alignment explanation
Indices: 66434124--66434152 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
66434114 GAATGGCTTC
66434124 TGCTATTCTTTCTTT
1 TGCTATTCTTTCTTT
66434139 TGCT-TTCTTTCTTT
1 TGCTATTCTTTCTTT
66434153 ATTTCATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.03, C:0.21, G:0.07, T:0.69
Consensus pattern (15 bp):
TGCTATTCTTTCTTT
Found at i:66434203 original size:9 final size:9
Alignment explanation
Indices: 66434189--66434213 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
66434179 ATATATTAGT
66434189 TAATAATGA
1 TAATAATGA
66434198 TAATAATGA
1 TAATAATGA
66434207 TAATAAT
1 TAATAAT
66434214 AATTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (9 bp):
TAATAATGA
Found at i:66438034 original size:3 final size:3
Alignment explanation
Indices: 66438026--66438051 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
66438016 AACAATTTAC
66438026 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
66438052 CCGTAACGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:66439108 original size:21 final size:21
Alignment explanation
Indices: 66439084--66439123 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66439074 TCACATGCCA
*
66439084 ACCAACCAATATATTATTCCT
1 ACCAACCAATATATCATTCCT
*
66439105 ACCAACCAATTTATCATTC
1 ACCAACCAATATATCATTC
66439124 ACATTCCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.30, G:0.00, T:0.33
Consensus pattern (21 bp):
ACCAACCAATATATCATTCCT
Found at i:66440488 original size:32 final size:31
Alignment explanation
Indices: 66440425--66440490 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
66440415 CTTACTAATT
* *
66440425 ATAATAAATATCTTTTACTTAGTAATAATAA
1 ATAATAAATATATTTTACTAAGTAATAATAA
*
66440456 ATAATAAATATATATTTACTAATTAA-ATATAA
1 ATAATAAATATAT-TTTACTAAGTAATA-ATAA
66440488 ATA
1 ATA
66440491 TTACAAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (31 bp):
ATAATAAATATATTTTACTAAGTAATAATAA
Done.